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
A12 F1 I1 R1 760 58.2 3022526 90.8% 2744453 102.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,220,789 G→A R401C (CGT→TGT)  bglX ← beta‑D‑glucoside glucohydrolase, periplasmic

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,220,7890GA100.0% 215.1 / NA 68R401C (CGT→TGT) bglXbeta‑D‑glucoside glucohydrolase, periplasmic
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (35/33);  total (35/33)

GTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACGGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAACC  >  NC_000913/2220659‑2220920
                                                                                                                                  |                                                                                                                                   
gTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCa                                                                                                                             >  2:96840/1‑139 (MQ=255)
gTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCa                                                                                                                             >  2:104925/1‑139 (MQ=255)
         gTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCa                                                                                                                    >  2:109535/1‑139 (MQ=255)
             cGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCt                                                                                                                >  2:1122648/1‑139 (MQ=255)
                   gATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcg                                                                                                          <  1:96840/139‑1 (MQ=255)
                    aTCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcgc                                                                                                         >  1:467651/1‑139 (MQ=255)
                    aTCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcgc                                                                                                         >  2:357101/1‑139 (MQ=255)
                    aTCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcgc                                                                                                         >  1:1234927/1‑139 (MQ=255)
                    aTCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcgc                                                                                                         >  1:687741/1‑139 (MQ=255)
                    aTCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTc                                                                                                             >  2:1093157/1‑135 (MQ=255)
                    aTCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTc                                                                                                             <  1:1093157/135‑1 (MQ=255)
                                ggCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcgc                                                                                                         <  2:193692/127‑1 (MQ=255)
                                ggCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcgc                                                                                                         >  1:193692/1‑127 (MQ=255)
                                   tGCGGAGCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCACCCACCGCCAAGGTGGCCGAGTTTTTCATCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAACTTTCACGAGCCACTTCAcgcggc                                                                                          <  2:1008994/139‑3 (MQ=255)
                                         ccAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTa                                                                                    <  2:683176/139‑1 (MQ=255)
                                           aGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCaa                                                                                                                         <  1:842487/100‑1 (MQ=255)
                                           aGCTGCCCATCACGTCACATTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCaa                                                                                                                         >  2:842487/1‑100 (MQ=255)
                                            gCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACgg                                                                                 >  1:59819/1‑139 (MQ=255)
                                               gCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGc                                                                              <  1:1206048/139‑1 (MQ=255)
                                                  cATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAgg                                                                           >  1:888991/1‑139 (MQ=255)
                                                          cacgtTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTc                                                                   >  1:649927/1‑139 (MQ=255)
                                                              tttACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCa                                                               <  1:1122648/139‑1 (MQ=255)
                                                              tttACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCa                                                               <  1:104925/139‑1 (MQ=255)
                                                                     tCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTAt                                                        >  2:95788/1‑139 (MQ=255)
                                                                       cGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATcc                                                      >  2:366948/1‑139 (MQ=255)
                                                                       cGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATcc                                                      >  1:1364479/1‑139 (MQ=255)
                                                                       cGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATcc                                                      >  2:338788/1‑139 (MQ=255)
                                                                         ccAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCAc                                                    >  2:627618/1‑139 (MQ=255)
                                                                         ccAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCAc                                                    <  1:109535/139‑1 (MQ=255)
                                                                         ccAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCAc                                                    <  1:1299636/139‑1 (MQ=255)
                                                                          cAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCAcc                                                   <  1:627618/139‑1 (MQ=255)
                                                                              ggCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGt                                               <  2:1364479/139‑1 (MQ=255)
                                                                                         cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCAcc                                                   >  2:297292/1‑124 (MQ=255)
                                                                                         cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCAcc                                                   <  1:297292/124‑1 (MQ=255)
                                                                                         cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTc                                    >  1:676544/1‑139 (MQ=255)
                                                                                         cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTc                                    >  2:1267420/1‑139 (MQ=255)
                                                                                             aTGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCAt                                                              >  2:1382551/1‑109 (MQ=255)
                                                                                             aTGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCAt                                                              <  1:1382551/109‑1 (MQ=255)
                                                                                              tggtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgc                                                                                                           <  1:1314364/63‑1 (MQ=255)
                                                                                              tggtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgc                                                                                                           >  2:1314364/1‑63 (MQ=255)
                                                                                              tggtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCa                                                                                                <  1:737756/74‑1 (MQ=255)
                                                                                              tggtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCa                                                                                                >  2:737756/1‑74 (MQ=255)
                                                                                               ggtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAggcg                                                                         >  1:1087095/1‑96 (MQ=255)
                                                                                               ggtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAggcg                                                                         <  2:1087095/96‑1 (MQ=255)
                                                                                                  ggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGc                                                                                                                           <  2:374048/43‑1 (MQ=255)
                                                                                                  ggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGc                                                                                                                           >  1:374048/1‑43 (MQ=255)
                                                                                                  ggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAgg                                                                           >  1:1420876/1‑91 (MQ=255)
                                                                                                  ggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAgg                                                                           <  2:1420876/91‑1 (MQ=255)
                                                                                                  ggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCaaa                           <  1:366948/139‑1 (MQ=255)
                                                                                                   gCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcg                                                                                              <  1:1091068/71‑1 (MQ=255)
                                                                                                   gCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcg                                                                                              >  2:1091068/1‑71 (MQ=255)
                                                                                                   gCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAAt                          <  2:59819/139‑1 (MQ=255)
                                                                                                       aTTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcg                                                                                                          >  1:120496/1‑55 (MQ=255)
                                                                                                       aTTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcgcg                                                                                                          <  2:120496/55‑1 (MQ=255)
                                                                                                          ttttCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTa                   >  1:784823/1‑139 (MQ=255)
                                                                                                           tttCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTAt                  <  2:1234927/139‑1 (MQ=255)
                                                                                                            ttCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATg                 <  2:784823/139‑1 (MQ=255)
                                                                                                                  ggTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcg                                                                                                            <  2:208908/42‑1 (MQ=255)
                                                                                                                  ggTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcg                                                                                                            >  1:208908/1‑42 (MQ=255)
                                                                                                                   gTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAggcg                                                                         >  2:1459383/1‑76 (MQ=255)
                                                                                                                   gTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAggcg                                                                         <  1:1459383/76‑1 (MQ=255)
                                                                                                                      aCGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTaaa       <  1:95788/139‑1 (MQ=255)
                                                                                                                       cGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAaac      <  1:1267420/139‑1 (MQ=255)
                                                                                                                           tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCgg                                                                 <  2:1301381/76‑1 (MQ=255)
                                                                                                                           tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCgg                                                                 >  1:1301381/1‑76 (MQ=255)
                                                                                                                           tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAAcc  <  2:888991/139‑1 (MQ=255)
                                                                                                                           tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCACCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCgg                                                                 >  1:965685/1‑76 (MQ=255)
                                                                                                                           tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCACCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCgg                                                                 <  2:965685/76‑1 (MQ=255)
                                                                                                                                  |                                                                                                                                   
GTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACGGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAACC  >  NC_000913/2220659‑2220920

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A