New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? BX571857 980997 =NA (NA)5 (0.320) 5/118 NT NA noncoding (1/27 nt) Repeat flanking prophage phiSa4(476) Repeat flanking prophage phiSa4(476)
?BX571857 = 1025750 NA (NA)intergenic (+519/‑57) SAS0954/SAS0955 amidase/putative protease

AAGAATGTGAATCAAAAGATGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCAAGGTAAAAAAGGGCATAAA  >  BX571857/980902‑981092
                                                                                               |                                                                                               
acacgagtggaaaatatttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccAt                                                                                                >  2:382346‑M1/96‑97 (MQ=255)
acacgagtggaaaatatttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccAt                                                                                                >  1:306783‑M1/96‑97 (MQ=255)
aagaaTGTGAATCAAAAGATGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAAt                                                                                                >  1:105753/1‑97 (MQ=255)
 cacgagtggaaaatatttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccAtt                                                                                               >  2:147504‑M1/95‑97 (MQ=255)
  acgagtggaaaatatttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTa                                                                                              >  1:360743‑M1/94‑97 (MQ=255)
            aatatttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAAtg                                                                                    <  2:348908‑M1/14‑1 (MQ=255)
             atatttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAAtgt                                                                                   >  2:200042‑M1/83‑97 (MQ=255)
             aaaaGATGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAAtgt                                                                                   <  1:304183/97‑1 (MQ=255)
               aaGATGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATGGATTTTAAAGCAAATTAGGTGTTAATgtgt                                                                                 <  2:134639/97‑1 (MQ=255)
                tttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTc                                                                                <  2:74834‑M1/18‑1 (MQ=255)
                tttaaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTc                                                                                >  2:250193‑M1/80‑97 (MQ=255)
                  taaagttaaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTCAt                                                                              >  2:320617‑M1/78‑97 (MQ=255)
                  aTGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCAt                                                                              >  2:245758/1‑97 (MQ=255)
                   tGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATa                                                                             >  1:145139/1‑97 (MQ=255)
                   tGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATa                                                                             <  2:328491/97‑1 (MQ=255)
                   tGCGATATAGTATTAAGAAAATGTGCCTTTTATATTGAGCATTTTTTCAATAGAAATTTTATAGTTTTTAAAGCAAATTAGGTGTTAATGTGTCATa                                                                             <  2:269280/97‑1 (MQ=255)
                        tataGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGAt                                                                        <  2:309641/97‑1 (MQ=255)
                         aaagtgataaaaactttgatattacagcgtttttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTCATAATGATa                                                                       >  2:141938‑M1/71‑97 (MQ=255)
                               ttAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATa                                                                 <  2:211450/97‑1 (MQ=255)
                               ttAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATa                                                                 <  2:211546/97‑1 (MQ=255)
                                              ttttATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAg                                                  <  2:26297/97‑1 (MQ=255)
                                                  atatTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGtt                                              <  1:75807/97‑1 (MQ=255)
                                                   tatTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGttt                                             >  1:235724/1‑97 (MQ=255)
                                                     tttAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTc                                           >  1:189464/1‑97 (MQ=255)
                                                         ttaaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAgg                                       >  2:225707‑M1/39‑97 (MQ=255)
                                                          taaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGgt                                      <  1:223502‑M1/60‑1 (MQ=255)
                                                          cATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGgt                                      <  1:41801/97‑1 (MQ=255)
                                                           aaacgttcgtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGgtg                                     >  1:334231‑M1/37‑97 (MQ=255)
                                                                   gtgtacgtttgagaatggccgttttaccATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAAt                             <  1:228862‑M1/69‑1 (MQ=255)
                                                                   aaTAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAAt                             >  1:335328/1‑97 (MQ=255)
                                                                            tatataGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCaa                    <  1:177157/97‑1 (MQ=255)
                                                                                aatggccgttttaccATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCAAGGTa                >  2:34951‑M1/16‑97 (MQ=255)
                                                                                    ttttAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCAAGGTaaaaa            >  1:13479/1‑97 (MQ=255)
                                                                                      ttAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCAAGGTAAAAAAg          >  2:322728/1‑97 (MQ=255)
                                                                                              cATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCAAGGTAAAAAAGGGCATaaa  <  2:266598‑M1/96‑1 (MQ=255)
                                                                                               |                                                                                               
AAGAATGTGAATCAAAAGATGCGATATAGTATTAAGAAAATGTGCCTTTTATATTTAGCATTTTTTCAATAGAAATTATATAGATTTTAAAGCAAATTAGGTGTTAATGTGTCATAATGATACAGATAACGCCTTAATTACAGTGTTTTCAAGGTGTTCAGAATGTGTTGCAAGGTAAAAAAGGGCATAAA  >  BX571857/980902‑981092

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