New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2313534 =	4 (0.070)	57 (0.970)	42/274	0.3	93.6%	coding (49/2673 nt)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
	?	NC_000913	= 2515611	NA (NA)					intergenic (+170/+30)	insL1/yfeA	IS186 transposase/putative diguanylate cyclase

TACAGGTGGCCATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCACAC  >  NC_000913/2515480‑2515753                                                                                                                                    |                                                                                                                                               tACAGGTGGCCATTCGTGGGACAGTATCCCGGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTcc                                                                                                                                     <  2:733814/143‑1 (MQ=21)   aaGGTTGCTATTCGCGGGTCTGTATCCCTGACAGCCTACAAAACGCAATGGAAGAACGCGAGGCATCGTCTTAACGTGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTcccc                                                                                                                                   <  1:86301/142‑1 (MQ=11)    aGGTGGCCATTGGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCg                                                                                                                                  <  2:337605/143‑1 (MQ=25)    aGGTGGCCATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCAAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCGTGAGATGGCTCAACCCTTAAGTTAAAGCGTATGGGATAGTTGCCCg                                                                                                                                  >  1:825689/1‑143 (MQ=11)          ccATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGttttt                                                                                                                            >  1:393631/1‑143 (MQ=39)           cATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGGAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGtttttt                                                                                                                           <  2:696158/143‑1 (MQ=255)               cGTGGGACAGTATCGCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACg                                                                                                                       <  1:125924/143‑1 (MQ=255)                 tGGGACAGTATCCCTGACAGCCTACACACCGCAATTGAACCACGCCATCCATCGTCTTAACGACACAACAAAACGACGCATACTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGGTTTTTTACGcc                                                                                                                     >  2:565053/1‑143 (MQ=14)                 tGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTCCAGATGGTTCAACCCTTAAGTTAGCGCTCCTGGGACAATTCCCCGATCTTTTTACGcc                                                                                                                     >  1:85809/1‑143 (MQ=14)                  gggACAGTATCCACGACAGCCTAAAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCt                                                                                                                    <  1:237989/143‑1 (MQ=255)                         tATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCATATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATc                                                                                                             <  1:736616/143‑1 (MQ=255)                         tATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTCTTTTACGCCCGTTAATc                                                                                                             >  1:356989/1‑143 (MQ=255)                         tATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGAGAATTCCCCGGTTTTTTTATGCCTGTTAATc                                                                                                             >  1:540457/1‑143 (MQ=255)                           tCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAg                                                                                                           <  2:692898/143‑1 (MQ=255)                                  taGCCTTCCAGACGCAATTGGAGAGCGCGAGGCATCGGCTTAACGAGGCACCGAGGCGTCGCATTCTTCATATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATgg                                                                                                    <  1:535988/142‑1 (MQ=18)                                   aGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTCAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGc                                                                                                   >  1:378407/1‑143 (MQ=255)                                        aCAGAACGCAATGGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAATCCTTAAGTTAGCGCTGATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCgg                                                                                              <  1:640801/143‑1 (MQ=255)                                          aaaaCGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTGATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGc                                                                                            >  2:574223/1‑143 (MQ=255)                                             aCGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGAc                                                                                         <  2:949598/143‑1 (MQ=255)                                               gCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTACTGGCTGCGGGCGACCa                                                                                       >  2:117854/1‑143 (MQ=255)                                                     gaagaaCGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCaaa                                                                                 <  2:737390/143‑1 (MQ=255)                                                        gagcgcgAGGCATGGTCGTAAGGGGGCACGGGGGCGGCGCCTTCTTCAGATGGTTCAAGCCTTAAGTTAGCGCTTATGGGATAAGTCCCCGGTTTGTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATAc                                                                              <  1:135077/140‑1 (MQ=21)                                                        gaaCGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAAGACTTAGGTTAGCGCTTATGGGCTCATTCCCCGGCTCTTTCACGCCTGTTAAGCAGCTAATGGCGCCGGCGGACCAGTCCAGTAc                                                                              >  1:51284/1‑143 (MQ=14)                                                        gaaCGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATCATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCTACCAATCtactac                                                                              >  1:86368/1‑143 (MQ=255)                                                            gcgAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATCCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTCATGGCTGCGGGCGACCACTCACATAACCtt                                                                          >  2:901090/1‑143 (MQ=21)                                                             cgAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTGTTACGCCTGTGAATCAGATAATGGGTACGGGTGACCCTTCAAATACCCTTg                                                                         >  1:670091/1‑143 (MQ=18)                                                              gAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATGCTTCAGATGGTTCAACCCTTAAGTTCGCGAGTATGGGATACGTCCCCGGTCATTTTACACCTGTTAATCGGCTGATGGCTGCGGGCGAGCAAGCAAAGACTCTTGc                                                                        >  2:649566/1‑143 (MQ=18)                                                                    tCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGGTTTTGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAGATACCCTTGCAGatct                                                                  >  2:57034/1‑141 (MQ=255)                                                                    tCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTATATTACTCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGatat                                                                  <  2:725594/143‑1 (MQ=255)                                                                     cGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATAtt                                                                 >  2:670670/1‑143 (MQ=255)                                                                         ttAACGAAGAACGGTGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCAc                                                             <  2:141254/143‑1 (MQ=255)                                                                              gAGGCACCTAGGCGTCACATTATTCAGATAGTTCAACCGTTAAGTTAGCGCTTATGGGATACTTCCCCGGTTTTTTTATGTCTGTTACTAACCTAATTTCTGCGGGCGCCCAATCCAATACACTTGCAGGCATTGCAccccca                                                        >  1:602747/1‑141 (MQ=16)                                                                                     ggtggCGCCGCATTCTTCAGATGGTTCAGCCCTTAAGTGAGCGGTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTGATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATg                                                 <  1:759612/140‑1 (MQ=255)                                                                                     cGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATg                                                 <  2:457420/143‑1 (MQ=255)                                                                                      gcgtcGTCCCACTCGTCAGATGTTTCAACCCTTAAGTTAGCGCTTATTGCATACTTCCCCGGTCTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGc                                                <  1:551688/139‑1 (MQ=255)                                                                                          cGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTTCGCCTGTTTATCAGCTAATGGCTGCGGGTGACTTATTCATTACCCTTTCAGATTTTGCACCTCggccttttttttta                                            >  1:356710/1‑130 (MQ=21)                                                                                            tCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAgc                                          >  2:825136/1‑143 (MQ=255)                                                                                                  tctccAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCctgc                                    <  1:454875/143‑1 (MQ=255)                                                                                                       aGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCctgctgctg                               >  2:633105/1‑143 (MQ=255)                                                                                                       aGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCctgctgctg                               >  1:687106/1‑143 (MQ=255)                                                                                                       aGATGGTTCAACCCTTAAGATAGCGCTTATGAGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGATAAAGGATGCGGACGACTAATCAAATACCCTTACAGATATTGAACACCTACGTAAGGCAATAGCGAatgctgctg                               >  1:22701/1‑143 (MQ=255)                                                                                                        gATGGCTCACCCCTTAAGTTAGCGCCTATGGGATAATTCCCCGGTTTTTTTACGCCCGTTAATCAGCTAAGTGCTGCGGGCGCCCAATCAACTACCCTTGCAGATATCGCACCCCCAGCTTATGCAATAGCGCCTGCTGCTGt                              <  2:902760/143‑1 (MQ=255)                                                                                                              tCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCACATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGtc                        >  1:792947/1‑143 (MQ=255)                                                                                                              tCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGtc                        >  1:324080/1‑143 (MQ=255)                                                                                                                aaCCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCTGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGtctc                      <  2:687106/143‑1 (MQ=255)                                                                                                                 gcccTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTGATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCg                     <  1:266214/142‑1 (MQ=255)                                                                                                                   ccctAAGTTAGCGCTTATGGGATAATTCCTCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGAc                   <  2:308339/140‑1 (MQ=255)                                                                                                                   ccTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTACTCAGCTAATGGCTACAGGTGACTGATCAGATACCCTAGCAGATATTGCACCCCGAGCTTCTGCCATAGCGCCTGCTGCTGTTGCCTCTCGaa                   >  1:424290/1‑142 (MQ=255)                                                                                                                      tAAGTGAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACaaa                <  1:323626/143‑1 (MQ=255)                                                                                                                                 ttATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCCGATATTGCACCCCGAGCTTATGCAATCGCGCCGGCTGCTGTTGCGTCTCGGCGAACTACGCGACca     >  2:283400/1‑143 (MQ=255)                                                                                                                                    tGGGATAATTCCCCGGTTTTTTTACGCCTGTGAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCacac  <  1:713540/143‑1 (MQ=255)                                                                                                                                    |                                                                                                                                               TACAGGTGGCCATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCACAC  >  NC_000913/2515480‑2515753

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.