Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	2,313,540	Δ2 bp :: IS186 (+) +6 bp	coding (53‑58/2673 nt)	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2313540 =	0 (0.000)	53 (0.930)	42/274	0.3	100%	coding (53/2673 nt)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
	?	NC_000913	= 2515617	NA (NA)					noncoding (1345/1345 nt)	IS186	repeat region
*	?	NC_000913	= 2313545	0 (0.000)	48 (0.830)	43/278	0.3	100%	coding (58/2673 nt)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
	?	NC_000913	2514275 =	NA (NA)					noncoding (3/1345 nt)	IS186	repeat region

GTAAGAGTCTGGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTAcc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2313410‑2313545 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCC  >  NC_000913/2514275‑2514414                                                                                                                                                                                                                                                                                       GTAAGAGTCTGGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAG                                                                                                                                       >  1:205363/1‑143          TGGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGACTG‑CGTCAGAAAGAGACAACGGCCACGACCCGCATTTCACTCCTACCGGGTAGCATTACCACGAGCGCgaccgc                                                                                                                              >  2:825642/1‑137          TGGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTT                                                                                                                              >  1:691982/1‑143          TGGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAACCGCTAACTT                                                                                                                              >  1:957663/1‑143           ggcATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTGTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTA                                                                                                                             <  2:422905/140‑1           GGAATTTCAGCCGGTGCCCTGTAGACAGCCCTAGCCCTACGCGAAGTTTTAACCGGTCATAAACACGAATG‑CGTCAGAAAGAGGCAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTA                                                                                                                             <  2:258676/143‑1           GGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTA                                                                                                                             >  1:945055/1‑143                 TCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTT                                                                                                                       >  2:496373/1‑143                  CACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCCGGGAGCATTACCATCAGCGCTAACTTAAGGGTTG                                                                                                                      >  2:585741/1‑143                    CACTGTACCCTTTATACGGCCCTATCACTGCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTG                                                                                                                    <  2:233941/143‑1                    CACCGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTG                                                                                                                    <  1:355740/143‑1                         TACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAACATTACCATAAGCGCTAACTTAAGGGTTGTGGTAgt                                                                                                               >  2:58897/1‑141                              TTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGCGAGCATTACCATAAGCGCTAACTTAAGGGTGGTGGTATTACGCC                                                                                                          >  2:396130/1‑143                                  TACTGCCCTATCACTTCGCGAAGCTTTAACAGGCCATACACACGACTG‑CTTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTCACTTAAGGGTTGTGGTATTACGCCTGAT                                                                                                      <  2:734344/143‑1                                     TGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGAGCCGGTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCGGATATG                                                                                                   >  1:787543/1‑143                                                   GCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGGCGA                                                                                     >  1:236446/1‑143                                                    CGAAGGTTTAACGGGTCACGTACCCGATTG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGAT                                                                                    <  2:907964/143‑1                                                     GAAGGTTTAACAGGTCATAAACACGAATG‑CGACAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAAAATAAGGGTTGTGGTATTACGACTGATATGATATAACGTGCCGAag                                                                                   >  2:144018/1‑141                                                        GTTTTAACAGGTCCTACACAC‑AATGTCGTCAGAAAGAGACAACGGCCACGCCCCGCTTTTCACTCCTACCGCCGAGCATTCTCATATGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAAT                                                                                <  2:699801/143‑1                                                         TTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATT                                                                               >  1:683283/1‑143                                                             AACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGACGATGAATTGCTC                                                                           >  1:255681/1‑143                                                                AGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCA                                                                        <  1:623817/143‑1                                                                 cgtgATAAGCACGAATG‑CGTCAGAAAGAGAGAACGGCCACGACCCGCTTGTGACTCCTACCGGGGATCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCAC                                                                       <  2:701075/139‑1                                                                  GTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACG                                                                      >  2:419248/1‑143                                                                   TCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATGAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGCGGAATTACTCTCACGA                                                                     >  2:120211/1‑143                                                                      TAAACAGGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAA                                                                  <  1:620641/143‑1                                                                      TAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGCCCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAA                                                                  <  1:35664/143‑1                                                                      TAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGCTACGATTTAACGTGCCGGTGAATTACTCTCCCGATAA                                                                  >  1:51934/1‑143                                                                           ACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGT                                                             >  2:1040553/1‑143                                                                                      CAGAAAGAGACAACGGCCACGACCCGCTTGTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCT                                                   <  2:709326/143‑1                                                                                       AGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGCTTTAACGTGCCGATGAGTGACTCTCACGATAAGTGGTCAGCAATTGTG                                                  >  2:712266/1‑143                                                                                         AAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGC                                                >  2:140773/1‑143                                                                                         AAAGACACAACGGCCACTACCCGCTCTGCACTGCTCCCGGGGAGCATTACCATACGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGC                                                <  2:370419/143‑1                                                                                             AGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCAT                                            >  1:369780/1‑143                                                                                               ACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCAGTACCATAAGCGCTAACTGAAGGGTTGGGGTATGACGCCTGATAGGATTTAACGGGCCGGTGGATGACTCCCACGATAACAGGTCAGCAATTCTGGGCCAact                                          >  2:290156/1‑140                                                                                                CAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATT                                         <  1:461781/143‑1                                                                                                 AACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTACCTTAAGGGTTGTGGTATTACGCCTGATATGATTTCACGTGCCGATGAATTACTCTCACGATAATCCATCAGCAATTCTGACCCATATTG                                        >  2:943427/1‑143                                                                                                  ACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGG                                       <  1:126476/143‑1                                                                                                       CACGACCCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATGGCTGGGGTGTAATTCTGGCCCACAGTGGTAgtc                                  >  1:441660/1‑140                                                                                                            CCCGCTGTTCACTCCTACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAA                             <  1:951547/143‑1                                                                                                             CCGCTTTTCACTCCTACCGGGGAGCATTACCATAAGAGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTAAACGTGCCGATGAATTACTCTCACGATAACGGGTCAGCAATGCTGGCCCATATCGGTGAGCCCGAAG                            >  2:870418/1‑143                                                                                                                        TCCTACCGGGGAGCATTACCATAAGCGCTAACTAAAGGGTTGTGGCATCACGCCTGATAAGATGTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACT                 >  1:1038828/1‑143                                                                                                                           TACCGGGAAGCATTACCATGAGCTATAATTTAAGGTGGGGGGTATTACGCCTCATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCG              <  1:537653/143‑1                                                                                                                            ACCGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGG             >  1:809330/1‑143                                                                                                                              CGGGGAGCATTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCA           <  1:496373/143‑1                                                                                                                                       TTACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCC  <  2:369780/143‑1                                                                                                                                         ACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTA                                                                              <  1:947100/65‑1                                                                                                                                         ACCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTA                                                                              >  2:947100/1‑65                                                                                                                                                                                                                                                                                       GTAAGAGTCTGGAATTTCACACTGTACCCTTTATACTGCCCTATCACTTCGCGAAGTTTTAACAGGTCATAAACACGAATG‑CGTCAGAAAGAGACAACGGCCACGACCCGCTTTTCACTCCTACCGGGGAGCATTAcc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2313410‑2313545 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCC  >  NC_000913/2514275‑2514414

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: ‑
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.