New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	1207790 =	13 (0.440)	19 (0.730)	18/254	0.5	71.0%	noncoding (11571/15193 nt)	cryptic prophage e14	cryptic prophage e14
	?	NC_000913_3_vch_tpiA	1209619 =	4 (0.150)					noncoding (13400/15193 nt)	cryptic prophage e14	cryptic prophage e14

GTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATG  >  NC_000913_3_vch_tpiA/1209477‑1209764                                                                                                                                               |                                                                                                                                                  gTCGTATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGAAGAGCCTTCTCCCAAACCAACGCTTAt                                                                                                                                             >  2:90363/1‑149 (MQ=255)    gatgcttttgcggcaatccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGaa                                                                                                                                          <  2:93468‑M2/10‑1 (MQ=255)         ttttgcggcactccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcctcctaatgtagccgttgctgcagtgagttttgctccttctcccaaaccaaCGTTTATGAAAATga                                                                                                                                     <  2:159812‑M2/15‑1 (MQ=255)          tttgcgggattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATgaa                                                                                                                                    <  2:498890‑M2/16‑1 (MQ=255)           ttgcggcattccacccccacggaatgattactgatggctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATgaag                                                                                                                                   <  1:51184‑M2/17‑1 (MQ=255)                gcattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGaaa                                                                                                                                         >  2:484119‑M2/128‑138 (MQ=255)                gcattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGaaa                                                                                                                                         <  1:484119‑M2/11‑1 (MQ=255)                     ccacccccactgaatgattactgatcgctcaataccaccaatcataaccggtatagctatgatgccgctgcgtcctaatgtagccgctgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAg                                                                                                                         <  1:505594‑M2/27‑1 (MQ=255)                             actgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGc                                                                                                                 >  1:213079‑M2/115‑149 (MQ=255)                                                 tcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAg                                                                                             >  2:103289‑M2/95‑149 (MQ=255)                                                     gagcaccaatcagaaccggtatggctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAggggg                                                                                         <  2:450700‑M2/59‑1 (MQ=255)                                                      aTTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGa                                                                                        <  1:310131/149‑1 (MQ=255)                                                          ccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATGTa                                                                                    >  1:320252‑M2/86‑149 (MQ=255)                                                                          tagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTa                                                                    <  2:320252‑M2/80‑1 (MQ=255)                                                                             gCGGAGGGGCAGAAGGCCACGGAACCGGGACACCAAAAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGt                                                                 <  2:139435/149‑1 (MQ=255)                                                                                   aaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGt                                                           >  2:380508‑M2/61‑149 (MQ=255)                                                                                         tgcgtcgtaatgtagccgttgcttcgttgagttttgctccttctcccaaaccaaCGTTTATGAATATGAAGAAATAACAAGCCAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATcaac                                                     <  1:464423‑M2/95‑1 (MQ=255)                                                                                         tgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATcaac                                                     <  1:103289‑M2/95‑1 (MQ=255)                                                                                                    gtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGa                                          >  1:468782‑M2/44‑149 (MQ=255)                                                                                                       gccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAaca                                       >  1:383477‑M2/41‑149 (MQ=255)                                                                                                                  attgagtgttgctccttctcccaatccaaCGTTTATGAAACTGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCCGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACaa                            <  1:416033‑M2/120‑1 (MQ=255)                                                                                                                   ttgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAAc                           >  1:242716‑M2/29‑149 (MQ=255)                                                                                                                    gTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACACCg                          >  1:364382/1‑149 (MQ=255)                                                                                                                                cttctcccaaaccaaCGTTTATGAAAATGAAGAAATAGCAAGCAAATGGCATCATTCCTGCTTTTACCAGTGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGaa              <  1:474526‑M2/134‑1 (MQ=255)                                                                                                                                cttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGaa              <  2:22914‑M2/134‑1 (MQ=255)                                                                                                                                            caaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGACTGTGTACGCTTTTCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATg  >  1:504347‑M2/4‑149 (MQ=255)                                                                                                                                               |                                                                                                                                                  GTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATG  >  NC_000913_3_vch_tpiA/1209477‑1209764

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.