Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	3,815,859	Δ82 bp		[rph]–[rph]	[rph], [rph]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3815859	3815940	82	63 [0]	[0] 62	[rph]–[rph]	[rph],[rph]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3815858	0 (0.000)	58 (0.860)	51/262	0.2	100%	pseudogene (24/48 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
	?	NC_000913	3815941 =	0 (0.000)					pseudogene (609/669 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH

CAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATCCCT  >  NC_000913/3815800‑3816082                                                                                                                                              |                                                                                                                                              cacctgcttgctaagcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCg                                                                                                                                              >  1:994401‑M2/142‑143 (MQ=255)              agcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTc                                                                                                                                 >  1:1082598‑M2/129‑143 (MQ=255)              agcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTc                                                                                                                                 >  1:875806‑M2/129‑143 (MQ=255)              agcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCCTTCCCTGCACTTc                                                                                                                                 >  1:482686‑M2/129‑143 (MQ=255)               gcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCa                                                                                                                                <  2:525685‑M2/16‑1 (MQ=255)                cgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCaa                                                                                                                               >  1:79960‑M2/127‑143 (MQ=255)                 gcaatttcaataagcgggcgctgatatggtttcaggccttcgctccgcatcttacttttctacaggcaacaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAat                                                                                                                              <  1:687519‑M2/18‑1 (MQ=255)                 gcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagccaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAat                                                                                                                              >  1:753162‑M2/126‑143 (MQ=255)                         aataaactggcgctgatatggtttcatgccttcgctcctgatcttacttttctaaagacaaaaaaaaggcgactgatcagtcgccttaaaaatcagtttgcaagcggagcgttctggTGTCCCGTGCACTTCAATGaggcggc                                                                                                                      >  1:354585‑M2/118‑141 (MQ=255)                            aaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctaaagacaaaaaaaaggcgactcatccgccgccttaaaaatcagtttgccagcgccgccttctccCGTCCACTGCACTTCAATAATGACCCCGt                                                                                                                   >  2:461202‑M2/115‑143 (MQ=255)                             aactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttacaaatcagtttgccagcgccgccatctgcCGTACCCTGCACTTCAATGATGCGCCCGTc                                                                                                                  >  1:480227‑M2/114‑143 (MQ=255)                              actggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCGGCACTTCAACGATCCGCCCGtcg                                                                                                                 >  2:773131‑M2/113‑142 (MQ=255)                                     ctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGtca                                                                                                          >  2:280926‑M2/106‑143 (MQ=255)                                     ctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGtca                                                                                                          >  1:323130‑M2/106‑143 (MQ=255)                                     cggatctggtttcatgccttcgctcctcctcttacttttctaccgacaaacaaggggcggctcctcagtagccttaaaaatcagtttgccagcgccgccttctgcTGTGCCCTGCACTTCAATGATGCGCCCGTCTTCGGtca                                                                                                          <  2:646557‑M2/38‑1 (MQ=255)                                       gatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatgagtttgccagcgccgccttctgcCGTCCCCTGCACTTCATTGATGCTCCAGTCTTCGatcatc                                                                                                        >  1:1027930‑M2/104‑143 (MQ=255)                                          atggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCCCt                                                                                                     >  1:389207‑M2/101‑143 (MQ=255)                                          atggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACt                                                                                                     <  2:864908‑M2/43‑1 (MQ=255)                                           tggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTa                                                                                                    <  1:218583‑M2/44‑1 (MQ=255)                                            ggtttcatgccttccctcctcatctaacaagacgacaggcaaaaaaaaggcgactcatcagtcgccttaaaaatcagtctgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTAc                                                                                                   <  1:564355‑M2/45‑1 (MQ=255)                                                 catgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCCGCACTTCAATGCTGCGCCCGTCTTCGGTCATCAATACGTtcc                                                                                              >  2:1140518‑M2/94‑142 (MQ=255)                                                        tcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccatcgcctcctgctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGt                                                                                       <  1:278384‑M2/57‑1 (MQ=255)                                                          gctcctcatcttacgtttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGtct                                                                                     <  1:118584‑M2/59‑1 (MQ=255)                                                           ctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCACGTATTCGGTCATCACTACGGTCATGTCGgtctt                                                                                    >  1:584369‑M2/84‑142 (MQ=255)                                                              ctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaacaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGCCATCACTCCGTTCATGTCCGTCTCCGc                                                                                 >  2:1305507‑M2/81‑143 (MQ=255)                                                              ctcatcttactgttcttcagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGc                                                                                 <  1:678558‑M2/63‑1 (MQ=255)                                                               tcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCggtctctaca                                                                                >  1:1205633‑M2/80‑140 (MQ=255)                                                                caccttactttgctacagacaacaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCgg                                                                               <  2:680978‑M2/65‑1 (MQ=255)                                                                    gtgcgtgtctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCaga                                                                           <  2:50224‑M2/69‑1 (MQ=255)                                                                        ttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCg                                                                                >  2:126253‑M2/71‑134 (MQ=255)                                                                        ttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCg                                                                                <  1:126253‑M2/64‑1 (MQ=255)                                                                        ttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGTCAGGGTCt                                                                       >  2:1318243‑M2/71‑143 (MQ=255)                                                                        ttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCt                                                                       >  1:748642‑M2/71‑143 (MQ=255)                                                                           tttacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTAATAACAAAATTGATGTCGGTCTCTGCGGCAGAGTCTTCa                                                                    <  2:161096‑M2/76‑1 (MQ=255)                                                                             tacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGAGACCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGCGTCTTCAAc                                                                  >  1:1307162‑M2/66‑143 (MQ=255)                                                                                    atttttaaggcgactgatgagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTCCACTTCAATGATTCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGCGTCTTCCACGTATTcc                                                           >  1:1314046‑M2/59‑143 (MQ=255)                                                                                    aaaaaaaaggcgacgcatcagtcgccttaaaaatcagcttgccagcgccgccttctgcCGTCCCCTGCACTTCACTGATGCGCCCGTCTTCGGTCATCCCTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTcc                                                           <  1:1077063‑M2/85‑1 (MQ=255)                                                                                     aaaaaaaggcgactcatcagtcgccttaaaaatcagtttgcaagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCGGCAGCAGAGGCGTCACCGGAttcga                                                          >  2:209646‑M2/58‑141 (MQ=255)                                                                                         aaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCACTGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATc                                                      >  2:255587‑M2/54‑143 (MQ=255)                                                                                         aaaggcgactcatcagtcgcctgaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATc                                                      <  2:79960‑M2/90‑1 (MQ=255)                                                                                            ggcgactgatgagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGACATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATgccagaactga                                                   >  2:702338‑M2/51‑138 (MQ=255)                                                                                            ggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCa                                                   <  2:323130‑M2/93‑1 (MQ=255)                                                                                             gcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctggCGTCCCCTGCACTTCAATCATCCGCCCGTATTCGGTCATCACTACGTTCATGTCAGTCTCTGCGCCAAGATCTTCAACGCATTGCGGAGCGCaa                                                  >  2:641759‑M2/50‑143 (MQ=255)                                                                                                     tcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGCCTTCAACGTATTCCAGATCGCACACCGCCTc                                          >  1:915712‑M2/42‑143 (MQ=255)                                                                                                       agtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGc                                        <  1:30889‑M2/104‑1 (MQ=255)                                                                                                        gtcgccttaaaaatcagttggccagcgccgctttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGcc                                       <  2:482686‑M2/105‑1 (MQ=255)                                                                                                             cttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAACCCGCTTCGCCGTTca                                  >  1:122376‑M2/34‑143 (MQ=255)                                                                                                              ttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTcac                                 >  2:360443‑M2/33‑143 (MQ=255)                                                                                                                    atcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTTATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTcc                           <  1:663947‑M2/117‑1 (MQ=255)                                                                                                                     tcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCg                          >  1:835899‑M2/26‑143 (MQ=255)                                                                                                                         tttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAAtgccggcgg                      >  1:172545‑M2/22‑139 (MQ=255)                                                                                                                         tttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAg                      >  2:1146652‑M2/22‑143 (MQ=255)                                                                                                                          ttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTGGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCACACCGCTTCGCCGGGCACAAGGcagacaga                     >  2:376203‑M2/21‑143 (MQ=255)                                                                                                                              cagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACt                 >  2:273688‑M2/17‑143 (MQ=255)                                                                                                                               agcgccgccttctggCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGAGCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTg                <  2:1231403‑M2/128‑1 (MQ=255)                                                                                                                                gcgccgccttctgcCCTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCGGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAGCCGCTTCGCCGTTCACAAGTCCGACAGAAACTGc               <  2:1167413‑M2/129‑1 (MQ=255)                                                                                                                                 cgccgcctcctgcCGTCCCCTGCACTTCAGTGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAACCCGCTTCGCCGTTCACAATTCCGACAGAAACTGCg              <  1:412031‑M2/130‑1 (MQ=255)                                                                                                                                  gccgccttccgcCGTCCCCGGCACCGCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGAGCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCgg             <  1:232201‑M2/131‑1 (MQ=255)                                                                                                                                      ccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTAc         <  1:280926‑M2/135‑1 (MQ=255)                                                                                                                                      ccttctgcCGTCCCCTGCACTTCAAGGAAGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTAc         <  1:258155‑M2/135‑1 (MQ=255)                                                                                                                                      ccttctgcCGTCCCCCGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTAc         <  1:95909‑M2/135‑1 (MQ=255)                                                                                                                                             cCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATCCCt  >  2:810377‑M2/2‑143 (MQ=255)                                                                                                                                              |                                                                                                                                              CAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATCCCT  >  NC_000913/3815800‑3816082

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑