New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1207790 =	27 (0.300)	21 (0.260)	19/244	NT	49.5%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	19 (0.240)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related

GTATTTCCATCCCCCCCAGAGGCAGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1207952‑1207790 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCG  >  NC_000913/1209619‑1209766                                                                                                                                                                                                                                                                                                                         GTATTTCAATCCCCCCCAGAGGCATATGCTTTTGCTGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCC                                                                                                                                                                    <  1:1117469/149‑1    TTTCCATCCCCCCCAGAGGCCGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCTTTGCTGCATTGAGTTTTGCTCCTTC                                                                                                                                                                 <  1:889806/149‑1      TCCATCCCCCCCAGAGGCAGATGCTTTTGCGGCAATCCACCCCAACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCTGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTC                                                                                                                                                               <  2:951651/149‑1                                        TTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAACCCAACGTTTATGAAAATGAAGAAATAACA                                                                                                                             >  1:407114/1‑149                                            ACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCA                                                                                                                         >  1:179806/1‑149                                                 CACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGG                                                                                                                    >  1:1071155/1‑149                                                  ACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGC                                                                                                                   >  1:824131/1‑149                                                                      TCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCACAAACCAACGTTTATGAAAAGGAAGAGATAAAAAGCAAATGGCATCATTCCTGCTTTTACCAG                                                                                               >  2:914802/1‑149                                                                           ACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGA                                                                                          <  1:1442271/149‑1                                                                              ACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTT                                                                                       <  2:989092/149‑1                                                                                                AGCTATGAAACAGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAAAATGCTTAGTGGCTAT                                                                     >  2:157143/1‑149                                                                                                  CTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGT                                                                   >  2:836686/1‑149                                                                                                   TATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTA                                                                  >  2:1201636/1‑149                                                                                                       AAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTTTGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACTTGCTTATTGGCTATGGACGCG                                                              >  2:155372/1‑149                                                                                                                  TCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAAT                                                   >  1:1343948/1‑149                                                                                                                        TGTAGCCGTTGCTTCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAG                                             <  1:384366/149‑1                                                                                                                             CCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAATTGACCAGCACAC                                        >  2:357375/1‑149                                                                                                                             CCGGTGCTGAATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACAC                                        <  2:1443961/149‑1                                                                                                                                    TGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTCCGCGTATCAACAAATGACCAGAACACAGATCTA                                 >  2:1503752/1‑149                                                                                                                                        TTGAGTTTTGCTCCTTCTCCCAACCCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCAATCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAAC                             <  2:1368833/149‑1                                                                                                                                        TTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGATAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTTTTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAAC                             >  2:198916/1‑149                                                                                                                                        TTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAAC                             <  1:1201636/149‑1                                                                                                                                        TTGAGTTTTGCTCCTTCTAACAAACCAAGGTTTATGAAAATTAAGAAATAACAAGCAAATTGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATAAACAAATGACCAGAACACAGATCTACAAC                             <  1:758261/149‑1                                                                                                                                              TTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATG                       <  2:1071155/149‑1                                                                                                                                               TTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACTAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGC                      >  1:174754/1‑149                                                                                                                                                    CCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTGATTGGCTATGTACGCGTAACAACAAATGACCAGAACACAGATCTACGACGTAATGCTCTGA                 >  1:1386968/1‑149                                                                                                                                                     CTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCTGATCACAGATCTACAACGTAATGCGATGAg                >  2:1238815/1‑148                                                                                                                                                         TCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGT            >  1:712816/1‑149                                                                                                                                                          CCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTG           <  1:836686/149‑1                                                                                                                                                          CCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTG           >  1:1283881/1‑149                                                                                                                                                           CCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTCCGCGTATCAACAAATGACCAGAACACAGATCTACAACGGAATGCGCTGAACTGTGC          >  2:73080/1‑149                                                                                                                                                           CCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGC          >  2:1524897/1‑149                                                                                                                                                             AAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAG        <  2:880219/149‑1                                                                                                                                                                CCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCCTTCCTGCTTTTACCAGGGGGATTTAACATGCTTAGTGGCTATGTAGGCGTATCAACAAATGCCCAGAACACAGCTCTACAACGTAAGGCGCTGAACTGTGCAGGAT     >  2:34631/1‑149                                                                                                                                                                CCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGAT     <  2:295600/149‑1                                                                                                                                                                 CAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATG    >  2:837902/1‑149                                                                                                                                                                   ACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCG  >  1:668218/1‑149                                                                                                                                                                                                                                                                                                                         GTATTTCCATCCCCCCCAGAGGCAGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1207952‑1207790 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCG  >  NC_000913/1209619‑1209766

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.