New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	1207790 =	9 (0.190)	32 (0.770)	30/248	0.5	74.4%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913_3_hsa_tpiA	1209619 =	14 (0.340)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related

TGTATTTCCATCCCCCCCAGAGGCAGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_hsa_tpiA/1207953‑1207790 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccttctcccaaaccaaCGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGC  >  NC_000913_3_hsa_tpiA/1209619‑1209765                                                                                                                                                                                                                                                                                                                          TGTATTTCCATCCCCCCCAGAGGCAGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTC                                                                                                                                                                     <  2:246412/149‑1             CCCCCCAGAGGCAGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTTCGTCCTAATGTAGCCGCTGCTGCATTAAGTTTTGCTCCTTCCCCCAAAC                                                                                                                                                         >  2:270602/1‑149                     agaccGATGATTTTGCGGCTATCCACCCCCACTGGATGAGTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACAAACGCTT                                                                                                                                                 >  2:695677/6‑149                                       CATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAA                                                                                                                              <  2:772295/149‑1                                          TCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAA                                                                                                                           <  1:274587/149‑1                                                 CCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATG                                                                                                                    >  2:442024/1‑149                                                   ACTGAATGATTACTGATTTCTCATTACCGCCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCACACCAACGTTTATG‑AAATGATAGTAATCACACGCAAATGGC                                                                                                                  >  2:199068/1‑149                                                                  ATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTC                                                                                                           <  2:88143/141‑1                                                                  ATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTC                                                                                                           >  1:88143/1‑141                                                                        CAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGG                                                                                             >  2:352317/1‑149                                                                               ACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTT                                                                                      >  2:95579/1‑149                                                                                  cATCATAACCTGTATAGCTATGCAACCGGGGCGTCCTAAGGTAGCCGTTGCTTCATTGAGTTTTGCTCCTGCTCCCAACCCAACGTTTATGAAAATGA‑AGAAAAACTAAACTAATGTCATCATTCCTGCTTTTACCAGGGGGATTTAAC                                                                                   <  1:199068/148‑1                                                                                    TCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACAT                                                                                 <  1:442024/149‑1                                                                                    TCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGG                                                                                            >  1:792545/1‑138                                                                                    TCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGG                                                                                            <  2:792545/138‑1                                                                                                TAGCTATGAAACCGGTGCGTCCTACCGATCCCGATGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGTCTt                                                                     >  2:594649/1‑148                                                                                                   CTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGT                                                                                                                                                   >  1:749860/1‑69                                                                                                   CTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGT                                                                                                                                                   <  2:749860/69‑1                                                                                                    TATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGG                                                                        >  1:759602/1‑142                                                                                                    TATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGG                                                                        <  2:759602/142‑1                                                                                                       GAAACCGGTGCGTCCTAATGTAGCCTTTGCTCCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGTAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGC                                                              <  2:399267/149‑1                                                                                                         AACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAG                                                                                              >  1:550364/1‑115                                                                                                         AACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAG                                                                                              <  2:550364/115‑1                                                                                                              GTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAA                                                       >  1:260025/1‑149                                                                                                              GTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAA                                                       >  1:429236/1‑149                                                                                                                  cTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAA                                                   <  2:821753/148‑1                                                                                                                               CGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGACTATGTACGCGTATCAACAAATGACCGGAACACA                                      >  2:410540/1‑149                                                                                                                                  TGCTGAATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGAT                                   <  2:522389/149‑1                                                                                                                                   GCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATC                                  >  2:13744/1‑149                                                                                                                                    CTGCATTGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCT                                 >  2:264018/1‑149                                                                                                                                        ATTGAGTTTTGCTCCTTCTCCCAAACAAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAA                             <  2:429236/149‑1                                                                                                                                          TGAGTTTTGCTCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG                           >  1:126423/1‑149                                                                                                                                                    TCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATTGCATCATTCCTGCTTTTACCAGGGGGATTTAACATTCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTG                 <  1:695677/149‑1                                                                                                                                                    TCCTTCTCCCAAACCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTG                 >  1:751923/1‑149                                                                                                                                                             CAACCCAACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTCTTACCAGGGGGATTTAACACGCTTATTGGCTATGTACGCGAATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCA        <  1:280129/149‑1                                                                                                                                                                   AACGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGC  >  1:659592/1‑149                                                                                                                                                                                                                                                                                                                          TGTATTTCCATCCCCCCCAGAGGCAGATGCTTTTGCGGCATTCCACCCCCACTGAATGATTACTGATTGCTCAATACCACCAATCATAACCGGTATAGCTATGAAACCGGTGCGTCCTAATGTAGCCGTTGCTGCATTGAGTTTTGCTCCTTCTCCCAAACCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_hsa_tpiA/1207953‑1207790 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccttctcccaaaccaaCGTTTATGAAAATGA‑AGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGC  >  NC_000913_3_hsa_tpiA/1209619‑1209765

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