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
A7 F1 I1 R1 776 60.0 3074904 90.1% 2770488 104.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,525,930 C→T *309* (TAG→TAA)  yfeR ← transcriptional regulator of yefH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,525,9300CT100.0% 227.0 / NA 71*309* (TAG→TAA) yfeRtranscriptional regulator of yefH
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/38);  total (33/38)

ACATTACTACGGGGATTCAGTATCGATATGCGGATGACAAACTGGGCGAAGATTTTTACCAGGATGCGATAATCTACTCCATCAAATTTAACTTCTGATTGATTACTGCCGGGGCTCCCGGCAGTATGAATTCACTCTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGCATCAACTGGCGTT  >  NC_000913/2525794‑2526063
                                                                                                                                        |                                                                                                                                     
caacatcacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTta                                                                                                                                     >  2:352454‑M2/133‑139 (MQ=255)
   catcacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTatat                                                                                                                                  >  1:1464248‑M2/130‑139 (MQ=255)
    atcacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATc                                                                                                                                 <  1:851560‑M2/11‑1 (MQ=255)
      cacacattactacgggggttcagtatcgatatgcggatgacaaactgggagaagatttttaccaggatgcgatactctactccatcaaatttaccttctgactgattactgctcgggctcccggcaCACTTTATatcag                                                                                                                               >  2:686480‑M2/127‑137 (MQ=255)
        tacattactacggggattcagtatcgatatggggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaacataacttttgattgattactgccggggctctcggcaCACTTTATATCTGAt                                                                                                                             >  2:169361‑M2/125‑139 (MQ=255)
          cattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgatcgattactgccggggctcccggcaCACTTTATATCTGATAc                                                                                                                           <  1:935224‑M2/17‑1 (MQ=255)
             tactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAAc                                                                                                                        >  2:847853‑M2/120‑139 (MQ=255)
                  cggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATc                                                                                                                   >  1:1324558‑M2/115‑139 (MQ=255)
                  cggggattcagtatcgatatgcggatgacaaaccgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATc                                                                                                                   <  2:1467738‑M2/25‑1 (MQ=255)
                   ggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATc                                                                                                                                 >  2:1186941‑M2/114‑124 (MQ=255)
                   ggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATc                                                                                                                                 <  1:1186941‑M2/11‑1 (MQ=255)
                     ggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATcccc                                                                                                                >  1:1199061‑M2/112‑139 (MQ=255)
                     ggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATcccc                                                                                                                >  2:1436768‑M2/112‑139 (MQ=255)
                          cagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTccc                                                                                                           <  1:352454‑M2/33‑1 (MQ=255)
                               tcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCa                                                                                                      <  1:847853‑M2/38‑1 (MQ=255)
                                 gatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGc                                                                                                    >  2:1159411‑M2/100‑139 (MQ=255)
                                     tgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCAtt                                                                                                >  2:1258223‑M2/96‑139 (MQ=255)
                                      gcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTa                                                                                               >  1:584405‑M2/95‑139 (MQ=255)
                                      gcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTa                                                                                               <  1:1321763‑M2/45‑1 (MQ=255)
                                       cggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCa                                                                                                      >  1:1115906‑M2/94‑131 (MQ=255)
                                       cggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCa                                                                                                      <  2:1115906‑M2/38‑1 (MQ=255)
                                       cggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAg                                                                                              >  1:1046564‑M2/94‑139 (MQ=255)
                                           tgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          <  2:255435‑M2/50‑1 (MQ=255)
                                           tgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          >  1:672859‑M2/90‑139 (MQ=255)
                                           tgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          <  1:706488‑M2/50‑1 (MQ=255)
                                           tgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          <  1:1436768‑M2/50‑1 (MQ=255)
                                           tgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          <  2:672859‑M2/50‑1 (MQ=255)
                                            gacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCAt                                                                                         >  1:467770‑M2/89‑139 (MQ=255)
                                               aaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGc                                                                                      >  2:464507‑M2/86‑139 (MQ=255)
                                                 actgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGccc                                                                                    <  1:230779‑M2/56‑1 (MQ=255)
                                                 actgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggagctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGccc                                                                                    <  2:433198‑M2/56‑1 (MQ=255)
                                                    gggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCAt                                                                                         >  1:487049‑M2/81‑131 (MQ=255)
                                                    gggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCAt                                                                                         <  2:487049‑M2/51‑1 (MQ=255)
                                                      gcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGtc                                                                               <  2:1324558‑M2/61‑1 (MQ=255)
                                                       cgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGcc                                                                                                        >  1:685577‑M2/78‑113 (MQ=255)
                                                       cgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGcc                                                                                                        <  2:685577‑M2/36‑1 (MQ=255)
                                                       cgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGtct                                                                              >  1:1258653‑M2/78‑139 (MQ=255)
                                                           gatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaTACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTa                                                                          <  2:1046564‑M2/66‑1 (MQ=255)
                                                           gatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTa                                                                          <  2:1464248‑M2/66‑1 (MQ=255)
                                                                                  ctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATc                                                                                                                   <  1:1298835‑M2/25‑1 (MQ=255)
                                                                                  ctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATc                                                                                                                   >  2:1298835‑M2/51‑75 (MQ=255)
                                                                                    actccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAgcggc                                                 <  2:339293‑M2/91‑1 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTgg                                                                                 >  1:124499‑M2/48‑106 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTgg                                                                                 <  2:124499‑M2/59‑1 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTcc                                                                  >  2:999453‑M2/48‑121 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTcc                                                                  <  1:999453‑M2/74‑1 (MQ=255)
                                                                                      tccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGcggcgg                                               <  2:1258653‑M2/93‑1 (MQ=255)
                                                                                       ccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGt                                              <  1:1159411‑M2/94‑1 (MQ=255)
                                                                                        catcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          <  2:1256845‑M2/50‑1 (MQ=255)
                                                                                        catcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          >  1:1256845‑M2/45‑94 (MQ=255)
                                                                                          tcaaatttaacttctgattgattactgccggggctcccgggaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGa                                           >  1:85984‑M2/43‑139 (MQ=255)
                                                                                          tcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTccc                                                                                                           >  2:1297765‑M2/43‑75 (MQ=255)
                                                                                          tcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTccc                                                                                                           <  1:1297765‑M2/33‑1 (MQ=255)
                                                                                          tcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGa                                           >  2:1219113‑M2/43‑139 (MQ=255)
                                                                                                  aacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAAc                                   <  2:584405‑M2/105‑1 (MQ=255)
                                                                                                        tgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          >  2:1325095‑M2/29‑78 (MQ=255)
                                                                                                        tgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                                          <  1:1325095‑M2/50‑1 (MQ=255)
                                                                                                        tgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGttct                             <  1:169361‑M2/111‑1 (MQ=255)
                                                                                                            tgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCt                         >  1:1031116‑M2/25‑139 (MQ=255)
                                                                                                               ttactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTgcg                      <  2:1201791‑M2/118‑1 (MQ=255)
                                                                                                                 actgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCa                    <  2:467770‑M2/120‑1 (MQ=255)
                                                                                                                  ctgccggggctcccgggaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCAc                   <  2:85984‑M2/121‑1 (MQ=255)
                                                                                                                  ctgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCAc                   <  2:1199061‑M2/121‑1 (MQ=255)
                                                                                                                    gccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCa                 >  1:1197829‑M2/17‑139 (MQ=255)
                                                                                                                     ccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTc                                                                                                             <  1:904821‑M2/31‑1 (MQ=255)
                                                                                                                     ccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTc                                                                                                             >  2:904821‑M2/16‑46 (MQ=255)
                                                                                                                      cggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGc               <  1:646884‑M2/125‑1 (MQ=255)
                                                                                                                          gctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTgcg                      >  1:881780‑M2/11‑128 (MQ=255)
                                                                                                                          gctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTgcg                      <  2:881780‑M2/118‑1 (MQ=255)
                                                                                                                                  caCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGccc                                                                                    <  1:1150934‑M2/56‑1 (MQ=255)
                                                                                                                                  caCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGccc                                                                                    >  2:1150934‑M2/3‑58 (MQ=255)
                                                                                                                                   aCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGCATCAACTGGCGtt  >  1:662718‑M2/2‑139 (MQ=255)
                                                                                                                                        |                                                                                                                                     
ACATTACTACGGGGATTCAGTATCGATATGCGGATGACAAACTGGGCGAAGATTTTTACCAGGATGCGATAATCTACTCCATCAAATTTAACTTCTGATTGATTACTGCCGGGGCTCCCGGCAGTATGAATTCACTCTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGCATCAACTGGCGTT  >  NC_000913/2525794‑2526063

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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