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
A5 F1 I2 R1 772 77.0 3769570 91.6% 3452926 105.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,700,201 (T)5→6 coding (847/1593 nt) malX → maltose and glucose‑specific PTS enzyme IIB component and IIC component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,700,1961.T100.0% 161.5 / NA 50G281V (GGT→GTT) malXmaltose and glucose‑specific PTS enzyme IIB component and IIC component
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (25/25);  total (25/25)

ATCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑TTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTCTGCTG  >  NC_000913/1700073‑1700329
                                                                                                                            |                                                                                                                                     
aTCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcg                                                                                                                         <  2:822254/139‑1 (MQ=255)
         tggtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGtt                                                                                                                >  1:398487/1‑139 (MQ=255)
         tggtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGtt                                                                                                                >  2:860794/1‑139 (MQ=255)
         tggtggCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGtt                                                                                                                >  2:1376999/1‑139 (MQ=255)
               cATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCttt                                                                                                          >  1:940537/1‑139 (MQ=255)
               cATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCttt                                                                                                          >  1:140380/1‑139 (MQ=255)
                  tAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGc                                                                                                       <  2:398487/139‑1 (MQ=255)
                   aaTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcgc                                                                                                                        <  2:464657/121‑1 (MQ=255)
                   aaTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAgcgc                                                                                                                        >  1:464657/1‑121 (MQ=255)
                   aaTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCa                                                                                                      <  1:1376999/139‑1 (MQ=255)
                    aTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCaa                                                                                                     <  2:1565650/139‑1 (MQ=255)
                    aTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCaa                                                                                                     <  2:269889/139‑1 (MQ=255)
                    aTTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCaa                                                                                                     <  2:347189/139‑1 (MQ=255)
                             aCCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATg                                                                                            >  1:1069989/1‑139 (MQ=255)
                                  cGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGt                                                                                                                 >  2:1418869/1‑113 (MQ=255)
                                  cGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGt                                                                                                                 <  1:1418869/113‑1 (MQ=255)
                                      ggcggcACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGcc                                                                                                                       >  1:1623515/1‑103 (MQ=255)
                                      ggcggcACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGcc                                                                                                                       <  2:1623515/103‑1 (MQ=255)
                                      ggcggcACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGttt                                                                                   >  1:1718713/1‑139 (MQ=255)
                                        cggcACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTtct                                                                                 >  2:812805/1‑139 (MQ=255)
                                          gcACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcg                                                                               <  2:1069989/139‑1 (MQ=255)
                                               cAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          <  2:1565446/139‑1 (MQ=255)
                                               cAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          <  1:812805/139‑1 (MQ=255)
                                               cAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          <  1:1401448/139‑1 (MQ=255)
                                                     gTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCg                                                                                                        <  2:95951/103‑1 (MQ=255)
                                                     gTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCg                                                                                                        >  1:95951/1‑103 (MQ=255)
                                                          ctgTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTctc                                                                                                       <  1:1126487/97‑3 (MQ=255)
                                                          cGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGc                                                                                                       >  2:1126487/1‑99 (MQ=255)
                                                          cGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGc                                                               >  2:1652613/1‑139 (MQ=255)
                                                           ggTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCa                                                              <  2:1068356/139‑1 (MQ=255)
                                                                aaCCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGtt                                                         >  1:110516/1‑139 (MQ=255)
                                                                aaCCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGtt                                                         <  2:223245/139‑1 (MQ=255)
                                                                  ccGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       <  1:1390095/139‑1 (MQ=255)
                                                                           gcgcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATc                                              >  2:716107/1‑139 (MQ=255)
                                                                            cgcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGcc                                                                     >  1:385345/1‑115 (MQ=255)
                                                                            cgcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGcc                                                                     <  2:385345/115‑1 (MQ=255)
                                                                             gcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            <  1:559145/107‑1 (MQ=255)
                                                                             gcACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTcggcg                                                                            >  2:559145/1‑107 (MQ=255)
                                                                                             aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCg                                                                                                        <  1:1082796/63‑1 (MQ=255)
                                                                                             aGGCGCAATTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCg                                                                                                        >  2:1082796/1‑63 (MQ=255)
                                                                                                    aTTGAGTTGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCa                     >  2:815038/1‑139 (MQ=255)
                                                                                                          ttGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       <  1:1395822/99‑1 (MQ=255)
                                                                                                          ttGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAg                                                       >  2:1395822/1‑99 (MQ=255)
                                                                                                          ttGCCCGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAAt               >  1:18929/1‑139 (MQ=255)
                                                                                                               cGACCACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAg          >  1:1655351/1‑139 (MQ=255)
                                                                                                                  ccACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          <  1:1538120/72‑1 (MQ=255)
                                                                                                                  ccACTCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGt                                                                          >  2:1538120/1‑72 (MQ=255)
                                                                                                                      tCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgct   <  2:1718713/139‑1 (MQ=255)
                                                                                                                      tCACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgct   <  1:635847/139‑1 (MQ=255)
                                                                                                                       cACGGTTTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTctgctg  >  1:1435814/1‑139 (MQ=255)
                                                                                                                            |                                                                                                                                     
ATCACATTCTGGTGGCATTAATTCGCTTTACCGACGCAGGCGGCACGCAGGAAGTCTGCGGTCAAACCGTCAGCGGCGCACTGACCATCTTCCAGGCGCAATTGAGTTGCCCGACCACTCACGG‑TTTTTCTGAAAGCGCCACGCGTTTCCTTTCGCAAGGTAAAATGCCTGCGTTTCTCGGCGGTCTGCCAGGTGCAGCGTTAGCTATGTATCACTGCGCGCGCCCGGAAAATCGCCATAAAATTAAAGGTCTGCTG  >  NC_000913/1700073‑1700329

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A