New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_bme_pgi	= 20563	NA (NA)	47 (0.850)	38/286	0.5	94.0%	intergenic (‑55/+252)	insA/rpsT	IS1 repressor TnpA/30S ribosomal subunit protein S20
	?	NC_000913_3_bme_pgi	= 61489	3 (0.050)					coding (1776/2907 nt)	rapA	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase

GCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_bme_pgi/20422‑20563 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTTGAGCACACCTGCCCGACCGGACGCACT  <  NC_000913_3_bme_pgi/61489‑61342                                                                                                                                                                                                                                                                                                    gcgactATGTCCGGCGGTGCTTGTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATT                                                                                                                                               <  2:181458/143‑1 GCGCTGATGTCCGGCGGTGCTTTCGCCGTGACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATT                                                                                                                                               <  1:688445/149‑1  CGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGAACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTG                                                                                                                                              <  2:921171/149‑1        TGTCCGGCGGTGCTTGTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTC                                                                                                                                        <  1:119646/149‑1         GTCTGGCGGTTCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCT                                                                                                                                       <  1:803093/149‑1         GTCCGGTGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCT                                                                                                                                       <  2:926323/149‑1           CCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGG                                                                                                                                     <  2:635076/149‑1                 GTGGTTGTGCCGCTACGCAACACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTA                                                                                                                               <  2:873532/149‑1                   ctTTTTGCCGCTAAGCGCCACCCCGTTAGTAGATGAACAGGAGTGACAGTTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTACTGGTCGTCTGGATCGTATC                                                                                                                             <  1:653442/147‑1                         GCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGACGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAG                                                                                                                       <  1:955674/149‑1                          CCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGc                                                                                                                      >  1:312827/1‑148                            GTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCG                                                                                                                    >  1:595455/1‑149                                 GCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTTGCAGCATCACCGCGTATTGTTCGTCTGGATCGTATCGGCCAGGCGCccta                                                                                                               >  2:466536/1‑145                                   ACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATA                                                                                                             >  1:173128/1‑149                                     CACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATT                                                                                                           >  1:753437/1‑149                                     CACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTA                                                                                                                               <  2:66781/129‑1                                     CACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTA                                                                                                                               >  1:66781/1‑129                                          CGTCAGTAGCCGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGAT                                                                                                      <  2:845068/149‑1                                           GTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATC                                                                                                     >  1:1001742/1‑149                                                      AACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGCTCCATGTCCCTTA                                                                                          >  2:226699/1‑149                                                        CAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCGTCATACACTAAATCAGTCAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATC                                                                                        <  1:926932/149‑1                                                           GAGTGACAGTTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGG                                                                                     <  1:151586/149‑1                                                                    CTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAACCCG                                                                            >  2:817742/1‑149                                                                    CTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCAATGGCCTTATCTGGGGAAAGCCG                                                                            >  1:322485/1‑149                                                                           AAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGCGAAAACCGCTCAGTC                                                                     >  1:1000145/1‑149                                                                                         GGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCT                                                       <  1:658813/149‑1                                                                                                CTCAACAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCA                                                >  2:874467/1‑149                                                                                                CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGTGGCGCTGGTATCA                                                >  1:750163/1‑149                                                                                                CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCACGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCAGTGCTGGTTCGCTGGTATCg                                                >  2:530332/1‑148                                                                                                  CAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATACAGATAAATGTGCCCTATCTGGAGACAACCGCTCAGGCGTTGCTGTTGCGCTGTTAGCACc                                              >  2:701482/1‑148                                                                                                     AAACCCCCTCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAG                                           <  1:347973/149‑1                                                                                                     AAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAG                                           <  1:409835/149‑1                                                                                                           CATCATACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGCTATTCAGATCCATGTGCCTTATATGGAGAAATCGGCTCAGTCGATGCTCGTCAGGTGGTATCAGGAACGTCagt                                     >  2:957599/1‑146                                                                                                            ATCATACTCTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGA                                    <  1:718837/149‑1                                                                                                                TACACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGCTGCA                                >  2:269498/1‑149                                                                                                                   ACTAAATCAGTCAGTTGGCAGCATCCCCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTT                             <  1:131074/149‑1                                                                                                                   ACTAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTT                             >  2:707257/1‑149                                                                                                                    cggAATCAGTAAGTTGGCAGCCGCACCGCGTATTGGTCGTTTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTTG                            <  1:631241/146‑1                                                                                                                     TAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGA                                                                                                       <  1:646213/73‑1                                                                                                                     TAAATCAGTAAGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGA                                                                                                       >  2:646213/1‑73                                                                                                                               AGTTGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCGGTCAGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTTGAGCACACCTGC                 <  1:197088/149‑1                                                                                                                                  TGGCAGCATCACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTTGAGCACACCTGCCCG              <  1:216560/149‑1                                                                                                                                           CACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGC                                                                           <  1:70907/79‑1                                                                                                                                           CACCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGC                                                                           >  2:70907/1‑79                                                                                                                                             CCGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGATATCACGCAGGTCTGGATGCATTTGAGGACACCTGCCCGAACAGAAGCAC   >  2:950042/1‑149                                                                                                                                              CGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTTGAGCACACCTGCCCGACCGGACGCACT  >  1:820908/1‑149                                                                                                                                              CGCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATAACGAAGGTCTGGAAGCATTTGAACACACCTGCCCGACCAGACGCACT  >  1:291497/1‑149                                                                                                                                                                                                                                                                                                    GCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_bme_pgi/20422‑20563 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCGTATTGGTCGTCTGGATCGTATCGGCCAGGCGCACGATATTCAGATCCATGTGCCTTATCTGGAGAAAACCGCTCAGTCGGTGCTGGTGCGCTGGTATCACGAAGGTCTGGATGCATTTGAGCACACCTGCCCGACCGGACGCACT  <  NC_000913_3_bme_pgi/61489‑61342

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.