Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A6 F1 I2 R1 758 59.3 2864096 93.9% 2689386 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,850,810 (C)5→4 intergenic (+117/‑50) sppA → / → ansA protease IV (signal peptide peptidase)/cytoplasmic L‑asparaginase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,850,8060C.100.0% 126.3 / NA 31intergenic (+113/‑54)sppA/ansAprotease IV (signal peptide peptidase)/cytoplasmic L‑asparaginase 1
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (14/17);  total (14/17)

TGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCTCCCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGACCATCGGGATGCAGCGTTCCGAGCAGGG  >  NC_000913/1850676‑1850927
                                                                                                                                  |                                                                                                                         
tGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCt                                                                                                                  <  2:472848/139‑1 (MQ=255)
tGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATAAGGTGCGCT‑CCCCTGCCt                                                                                                                  <  1:941128/139‑1 (MQ=255)
 gcgcCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTACGCT‑CCCCTGCCTc                                                                                                                 <  2:867031/139‑1 (MQ=255)
               tAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACtttt                                                                                                   <  1:1137723/139‑1 (MQ=255)
                aaGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTg                                                                                                  <  2:1131167/139‑1 (MQ=255)
                           tGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATTAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGata                                                                                       <  2:85177/139‑1 (MQ=255)
                             aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACtttt                                                                                                   >  2:1209185/1‑125 (MQ=255)
                             aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACtttt                                                                                                   <  1:1209185/125‑1 (MQ=255)
                             aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtc                                                                                     >  1:906824/1‑139 (MQ=255)
                                ggCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt                                                                                  <  1:1256480/139‑1 (MQ=255)
                                           cgtcgGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTCATCCGCATAGTATCAGGTGCGCTcccctgc                                                                                                                     >  2:466079/1‑91 (MQ=255)
                                           cgtcgGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTCATCCGCATAGTATCAGGTGCGCTcccctgc                                                                                                                     <  1:466079/94‑4 (MQ=255)
                                                 ccACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCa                                                                 >  1:579087/1‑139 (MQ=255)
                                                   acaTTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGtata                                                                                                          >  1:299760/1‑96 (MQ=255)
                                                   acaTTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGtata                                                                                                          <  2:299760/96‑1 (MQ=255)
                                                    caTTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCaaaa                                                              >  1:150540/1‑139 (MQ=255)
                                                     attattTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAg                                                             >  2:824817/1‑139 (MQ=255)
                                                                   cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTg                                                                                                  >  1:1347361/1‑88 (MQ=255)
                                                                   cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTg                                                                                                  <  2:1347361/88‑1 (MQ=255)
                                                                      cgaATCCTCTTCCCGCTGTTTCGCCCCATATTGCCGTATCCGCATAGTATCAGGTGCTCT‑CCCCTCCCTCACGTATATACTTTTGCTCTTTCGAAATCATTCATATCAGTATCATGCAAAAGAAATCAATTTACGTTGc                                            >  2:673650/1‑139 (MQ=255)
                                                                          tCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCTccc                                                                                                                         <  1:610572/59‑1 (MQ=255)
                                                                          tCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCTccc                                                                                                                         >  2:610572/1‑59 (MQ=255)
                                                                                   cGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCaaa                                                               <  1:1147280/107‑1 (MQ=255)
                                                                                   cGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCaaa                                                               >  2:1147280/1‑107 (MQ=255)
                                                                                     cTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGAc                             >  2:234759/1‑139 (MQ=255)
                                                                                                cATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGACCATCGGGATGc                  <  2:906824/139‑1 (MQ=255)
                                                                                                 atatTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGACCATCGGGATGCa                 <  2:579087/139‑1 (MQ=255)
                                                                                                          tATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt                                                                                  >  2:38739/1‑65 (MQ=255)
                                                                                                          tATCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt                                                                                  <  1:38739/65‑1 (MQ=255)
                                                                                                           aTCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt                                                                                  <  1:945159/64‑1 (MQ=255)
                                                                                                           aTCCGCATAGTATCAGGTGCGCT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt                                                                                  >  2:945159/1‑64 (MQ=255)
                                                                                                                             gcgcT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGa                                                                                         <  2:1139760/39‑1 (MQ=255)
                                                                                                                             gcgcT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGa                                                                                         >  1:1139760/1‑39 (MQ=255)
                                                                                                                             gcgcT‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGACCATCGGGATGCAGCGTTCCGAGCAggg  >  2:871450/1‑126 (MQ=255)
                                                                                                                             gcgcT‑CCCCTGCCTCACGTATATACTGTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGACCATCGGGATGCAGCGTTCCGAGCAggg  <  1:871450/126‑1 (MQ=255)
                                                                                                                                  |                                                                                                                         
TGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCTCCCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGACCATCGGGATGCAGCGTTCCGAGCAGGG  >  NC_000913/1850676‑1850927

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A