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
A8 F1 I2 R1 97 53.3 2484976 94.5% 2348302 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 573,440 C→T R24C (CGC→TGC)  rusA → DLP12 prophage, endonuclease RUS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913573,4400CT100.0% 131.2 / NA 38R24C (CGC→TGC) rusADLP12 prophage, endonuclease RUS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (21/17);  total (21/17)

AATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGCGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGATCGCC  >  NC_000913/573307‑573569
                                                                                                                                     |                                                                                                                                 
aaTGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                              <  1:1086673/139‑1 (MQ=255)
  tGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacgca                                                                                                                            >  1:150425/1‑139 (MQ=255)
            aaGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCa                                                                                                                  <  1:438663/139‑1 (MQ=255)
            aaGGTATGGCAAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCa                                                                                                                  <  1:926467/139‑1 (MQ=255)
              ggTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCaga                                                                                                                <  2:607740/139‑1 (MQ=255)
                   ggCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGACATAATCGCGGGTGCACGCACGTCAGCGCAGAGGggc                                                                                                           >  1:201789/1‑139 (MQ=255)
                        gaACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTTAGCGCAGAGGggcaggca                                                                                                      >  2:1161701/1‑139 (MQ=255)
                                     cTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCa                                                                                                                  <  2:383032/114‑1 (MQ=255)
                                     cTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCa                                                                                                                  >  1:383032/1‑114 (MQ=255)
                                         cTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCCCATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGc                                                                                     <  2:150425/139‑1 (MQ=255)
                                           gAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGACATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGccc                                                                                   <  2:201789/139‑1 (MQ=255)
                                                        attaAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTaaaaa                                                                      >  1:570807/1‑139 (MQ=255)
                                                            aGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                  <  2:570807/139‑1 (MQ=255)
                                                                 tGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCAt                                                                                                     <  2:709713/99‑1 (MQ=255)
                                                                 tGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCAt                                                                                                     >  1:709713/1‑99 (MQ=255)
                                                                  gAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTg                                                            >  1:448588/1‑139 (MQ=255)
                                                                         tACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                    >  1:1000208/1‑124 (MQ=255)
                                                                         tACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                    <  2:1000208/124‑1 (MQ=255)
                                                                           cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTTAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                   <  1:1161701/139‑1 (MQ=255)
                                                                           cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                   <  1:973833/139‑1 (MQ=255)
                                                                                tCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGc                                              >  1:298998/1‑139 (MQ=255)
                                                                                 cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                    >  2:573678/1‑116 (MQ=255)
                                                                                 cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                    <  1:573678/116‑1 (MQ=255)
                                                                                 cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCt                                             >  1:851847/1‑139 (MQ=255)
                                                                                 cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCt                                             >  1:1037377/1‑139 (MQ=255)
                                                                                 cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCACCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCt                                             >  2:699180/1‑139 (MQ=255)
                                                                                        cccTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                  <  1:648589/111‑1 (MQ=255)
                                                                                        cccTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                  >  2:648589/1‑111 (MQ=255)
                                                                                        cccTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGata                                                        <  2:742357/121‑1 (MQ=255)
                                                                                        cccTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGata                                                        >  1:742357/1‑121 (MQ=255)
                                                                                           tGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGa                                   >  2:567728/1‑139 (MQ=255)
                                                                                             gCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgca                                                                                                                                >  2:1005680/1‑44 (MQ=255)
                                                                                             gCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgca                                                                                                                                <  1:1005680/44‑1 (MQ=255)
                                                                                             gCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGaaa                                 >  2:405364/1‑139 (MQ=255)
                                                                                                tCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                            <  2:1159876/61‑1 (MQ=255)
                                                                                                tCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                            >  1:1159876/1‑61 (MQ=255)
                                                                                                  cGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCg                            >  2:179049/1‑139 (MQ=255)
                                                                                                                tATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCcaca              <  1:179049/139‑1 (MQ=255)
                                                                                                                 aTTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                    >  2:361057/1‑84 (MQ=255)
                                                                                                                 aTTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                    <  1:361057/84‑1 (MQ=255)
                                                                                                                        ccATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATGACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGTAAATCCGCATTGAGTGCCACATGCCGGAt      >  1:837772/1‑139 (MQ=255)
                                                                                                                            aaTCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcgcc  >  2:415027/1‑139 (MQ=255)
                                                                                                                                     |                                                                                                                                 
AATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGCGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGATCGCC  >  NC_000913/573307‑573569

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A