New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_vch_pgi = 143224823 (1.250)3 (0.170) 3/280 2.4 12.7% coding (3200/3363 nt) stfR Rac prophage; putative tail fiber protein
?NC_000913_3_vch_pgi = 1432262 19 (1.070)coding (3214/3363 nt) stfR Rac prophage; putative tail fiber protein
Rejected: Frequency below/above cutoff threshold.

GGAGCACACACACACTCACTAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGTCAAAAACATCGCATTTAACTATAT  >  NC_000913_3_vch_pgi/1432103‑1432395
                                                                                                                                                 |                                                                                                                                                   
ggAGCACACACACACTCACTAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACACACTGTCCGGCActgc                                                                                                                                                  >  2:127061/1‑149 (MQ=255)
     acacacacacTCACTAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCaa                                                                                                                                             <  1:13221/149‑1 (MQ=255)
     acacacacacTCACTAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCaa                                                                                                                                             <  2:208766/149‑1 (MQ=255)
     acacacacacTCACTAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCaa                                                                                                                                             <  1:317336/149‑1 (MQ=255)
             actcactAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGgt                                                                                                                                     >  1:14274‑M2/1‑147 (MQ=255)
               tcactAGCCAACGTGAACACGGCTAGTGCCAACTCCGGTGCTGGTAGTGCATCAGCAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACctgcgcttgcagcagtgc                                                                                                                                   <  1:278386‑M1/149‑19 (MQ=255)
                                            tAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAg                                                                                                                                       <  1:147482/116‑1 (MQ=255)
                                            tAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAg                                                                                                                                       >  2:147482/1‑116 (MQ=255)
                                                tCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATAc                                                                                                  >  1:64790/1‑149 (MQ=255)
                                                    gTGCTGGTCGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCGTCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCCCATACTGTCGGTATTGGTGCTCATACGCAc                                                                                              >  2:251959/1‑149 (MQ=255)
                                                         ggTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGt                                                                                         >  2:115619/1‑149 (MQ=255)
                                                           tAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCCCTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTg                                                                                       <  2:25490/149‑1 (MQ=255)
                                                                 aTCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTg                                                                                 >  1:91141/1‑149 (MQ=255)
                                                                    aacaaGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGtt                                                                              >  2:164524/1‑149 (MQ=255)
                                                                     acaaGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTc                                                                             >  1:123824/1‑149 (MQ=255)
                                                                         gATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACAt                                                                         <  1:108255/149‑1 (MQ=255)
                                                                          aTTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATg                                                                        <  1:165333/149‑1 (MQ=255)
                                                                                 gttgtGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCAATCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACATGCGCATACGGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGacacac                                                                 <  2:242088/149‑1 (MQ=255)
                                                                                            tCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACctgcgcttgcagcagtgcc                                                                                                                                  >  1:182738‑M1/1‑54 (MQ=255)
                                                                                            tCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACctgcgcttgcagcagtgcc                                                                                                                                  <  2:182738‑M1/73‑20 (MQ=255)
                                                                                                     tGCAACATCATCTGCTGGCGCACATCCCCAGGCACTGGCCGGCACTGCTGCAATCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGctgctg                                             <  1:124366/149‑1 (MQ=18)
                                                                                                                        gcACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGt                          <  1:164524/149‑1 (MQ=255)
                                                                                                                          acaAACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCAGACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACCCCATCACCCTTAACGCTGCTGGTAACGCGGAAAACACCGTCa                        <  2:297989/149‑1 (MQ=255)
                                                                                                                                ccACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGGCAAAAACa                  >  1:101392/1‑149 (MQ=255)
                                                                                                                                ccACTCACTGTCCGGCACTGCTGCAAGCGCAGGGGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGTCAAAACCa                  >  2:20453/1‑149 (MQ=255)
                                                                                                                                 cactcactGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGTCAAAAACAt                 >  2:321818/1‑149 (MQ=255)
                                                                                                                                        tGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGTCAAAAACATCGCAttt          >  2:230082/1‑149 (MQ=255)
                                                                                                                                             ggCACTGCTGCAAGCGCAGgtgccggacagtgagtgggtatgtgcgccagcagatgatgttgcatagttttga                                                                                 >  1:182738‑M2/1‑19 (MQ=255)
                                                                                                                                             ggCACTGCTGCAAGCGCAGgtgccggacagtgagtgggtatgtgcgccagcagatgatgttgcatagttttga                                                                                 <  2:182738‑M2/73‑55 (MQ=255)
                                                                                                                                              gCACTGCTGCAAGCGCAGgtgccggacagtgagtgggtatgtgcgccagcagatgatgttgcatagttttgattatgcacaacagacaatcttgctgatgcactaccagcaccggagttggcactagccgtgttcacgttggctagtga    <  1:278386‑M2/149‑132 (MQ=255)
                                                                                                                                                aCctgcgcttgcagcagtgccggacagtgagtgggtatgtgcgccagcagatgatgttgcatagttttgattatgcacaacagacaatcttgttgatgcactaccagcaccggagttagcactagccgtgttcacgttggctagtgagt  >  1:14274‑M1/1‑2 (MQ=255)
                                                                                                                                                 |                                                                                                                                                   
GGAGCACACACACACTCACTAGCCAACGTGAACACGGCTAGTGCTAACTCCGGTGCTGGTAGTGCATCAACAAGATTGTCTGTTGTGCATAATCAAAACTATGCAACATCATCTGCTGGCGCACATACCCACTCACTGTCCGGCACTGCTGCAAGCGCAGGTGCACACGCGCATACTGTCGGTATTGGTGCTCATACGCACTCCGTTGCGATTGGTTCACATGGACACACCATCACCGTTAACGCTGCTGGTAACGCGGAAAACACCGTCAAAAACATCGCATTTAACTATAT  >  NC_000913_3_vch_pgi/1432103‑1432395

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.