New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	= 1207805	14 (0.310)	29 (0.720)	22/258	1.1	69.5%	noncoding (11586/15193 nt)	cryptic prophage e14	cryptic prophage e14
	?	NC_000913_3_vch_tpiA	= 1209602	13 (0.320)					noncoding (13383/15193 nt)	cryptic prophage e14	cryptic prophage e14

CGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCG  >  NC_000913_3_vch_tpiA/1209456‑1209747                                                                                                                                                   |                                                                                                                                                  cGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGcc                                                                                                                                                 >  2:650753‑M2/1‑147 (MQ=255)            cAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTCAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaac                                                                                                                                      <  1:613520‑M2/149‑14 (MQ=255)             aaTTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACGGGTAATGCATAGccttctcccaaccc                                                                                                                                     <  1:281456‑M2/149‑15 (MQ=255)                  atttGTCGGATAAGCCGTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGTGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGt                                                                                                                                <  2:384044/149‑1 (MQ=255)                          gATAAGCCTTTGCCAGTTCCGGGTATTATTCAGCAGAAGCACCGTCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgaga                                                                                                                        >  1:145105‑M2/1‑122 (MQ=255)                               gCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaagg                                                                                                                                 <  1:158828‑M2/135‑19 (MQ=255)                               gCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaagg                                                                                                                                 >  2:158828‑M2/1‑117 (MQ=255)                                 cTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCGCCATTGCATTTCAGCCAGCCTGTTGGCGGGGTGGCTGAAGGCTACGGAACCGGGGCACCAACAGGTAATGCAGAGCCTTCTCCCAAAGCAACGTTTAGGAAAATgaaga                                                                                                                 >  2:619295/1‑149 (MQ=255)                                      ccAGTTCCGGGTATTCTTCCGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcaca                                                                                                            <  2:662801‑M2/149‑40 (MQ=255)                                          ttCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGCGccttctcccaaaccaaggtcttcgagagccgtttgcacagtgc                                                                                                        <  2:358997‑M2/149‑44 (MQ=255)                                          ttCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAg                                                                                                        <  2:42444/149‑1 (MQ=255)                                              gggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                                    <  2:615665‑M2/149‑48 (MQ=255)                                              gggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                                    <  2:171330‑M2/149‑48 (MQ=255)                                                    tcttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGcat                                                                                              >  1:447192/1‑149 (MQ=255)                                                      ttcAGCAGAAAAAGCGGCACCATTGCCTTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGTCCACGGAACGGGGACACCAACAGGTAATGCAGCGccttctccaaaaccaaggttttcgagagccgtttggacagtgcgatccgatttga                                                                                            <  1:128709‑M2/149‑56 (MQ=255)                                                      ttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatcggatttga                                                                                            <  1:41381‑M2/149‑56 (MQ=255)                                                      ttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTGCTCCCAAACCAACGTTTATGAAAAAGAAGAAATAACAAGCAAAAGGcataa                                                                                            >  1:401286/1‑147 (MQ=255)                                                      ttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCCGTTGGCGGCGTGGCTGAAGACCACGGAACCGGGCCACCAACAGGTAATGCAGAGccttctcccaaaccaagcctttcgagagccgtttgcacagtgcccaccgaattgc                                                                                            <  2:98531‑M2/149‑56 (MQ=255)                                                            agAAACAGCTGCACCATTGCATTTCAGCCATGCTGTTGGCTGAGTGGCTGAAGGCCACGGAACTGGGACTCCTACTGTTAATGCAGAGcctgctcccataccaatgttttcgagagccgtttgcacagtgccatccgatttgatatcgc                                                                                      >  1:156062‑M2/1‑88 (MQ=255)                                                            agAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgc                                                                                      <  1:27110‑M2/149‑62 (MQ=255)                                                              aaaaaGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgcca                                                                                    <  2:472353‑M2/149‑64 (MQ=255)                                                              aaaaaGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCt                                                                                    <  2:469297/149‑1 (MQ=255)                                                                       cACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccgaacggattc                                                                           <  2:484287‑M2/149‑73 (MQ=255)                                                                            ttGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcg                                                                      >  1:171330‑M2/1‑72 (MQ=255)                                                                                 tttCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggctta                                                                 <  2:263747‑M2/149‑83 (MQ=255)                                                                                 tttCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAAc                                                                 <  2:263229/149‑1 (MQ=255)                                                                                     aaccagccTGCTGGCCGAATGGCTAAACGCCACGGAACCTGGACACCAACATGTAATGCAGAGCCTTCTCCCAAACCAACCATTATCAAAATGAAGAAATAACAACCAAATGGCATCATTCCTCCTTTTACCAGGGGGATTTAACATGc                                                             <  2:413597/147‑1 (MQ=255)                                                                                       cgagcctgTTGGCGGAGTGGCGGAAGGCCACGGACCCGGGACACCACCAGGTAATGCAGAGccttatcgcaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagca                                                           >  2:1180‑M2/3‑61 (MQ=255)                                                                                        cagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcag                                                          <  1:165848‑M2/149‑90 (MQ=255)                                                                                        cagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTa                                                          >  2:280017/1‑149 (MQ=255)                                                                                                         ggCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaa                                         >  1:445090‑M2/1‑43 (MQ=255)                                                                                                         ggCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaa                                         >  2:601117‑M2/1‑43 (MQ=255)                                                                                                           cTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTTCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATc                                       <  1:248616/149‑1 (MQ=255)                                                                                                              aaGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATcaac                                    <  2:178355/149‑1 (MQ=255)                                                                                                                   cACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtc                               <  2:224616‑M2/149‑117 (MQ=255)                                                                                                                   cACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtc                               <  1:555587‑M2/149‑117 (MQ=255)                                                                                                                             ggACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccct                     >  2:725922‑M2/1‑23 (MQ=255)                                                                                                                                cacCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttc                  >  2:397422‑M2/1‑20 (MQ=255)                                                                                                                                 acCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGAt                 <  1:280017/149‑1 (MQ=255)                                                                                                                                   cAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctcc               <  1:744618‑M2/149‑133 (MQ=255)                                                                                                                                   cAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctcc               <  1:159057‑M2/149‑133 (MQ=255)                                                                                                                                     aCAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccag             <  2:92716‑M2/149‑135 (MQ=255)                                                                                                                                              gCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccaggctggcacc    >  2:744618‑M2/1‑6 (MQ=255)                                                                                                                                              gCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATg    >  1:625411/1‑149 (MQ=255)                                                                                                                                                agagccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattctttcggcttaacagctgcgcgcgaagtgaggtaagtaactagtcgtgcagccccttctccaggctggcacccg  <  2:74439‑M2/149‑146 (MQ=255)                                                                                                                                                   |                                                                                                                                                  CGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCG  >  NC_000913_3_vch_tpiA/1209456‑1209747

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