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 I0 R2 201 99.6 7939938 96.9% 7693799 60.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 4,563,589 T→A 100% K207M (AAG→ATG)  iadA ← isoaspartyl dipeptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb4,563,5890TA100.0% 334.3 / NA 109K207M (AAG→ATG) iadAisoaspartyl dipeptidase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (41/68);  total (41/68)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

Only 100 of 117 total aligned reads displayed.

GGTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCTTTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAACGCGGG  >  W3110S.gb/4563522‑4563655
                                                                   |                                                                  
ggTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 <  1:4631006/71‑1 (MQ=255)
ggTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 <  1:2724717/71‑1 (MQ=255)
ggTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 <  1:2451438/71‑1 (MQ=255)
ggTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 <  1:1932837/71‑1 (MQ=255)
ggTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 <  1:7537678/71‑1 (MQ=255)
ggTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCatt                                                                  >  1:3783734/1‑70 (MQ=255)
 gTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 >  1:1128646/1‑70 (MQ=255)
  tCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTa                                                               <  1:2893996/71‑1 (MQ=255)
  tCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTa                                                               <  1:3838530/71‑1 (MQ=255)
   cGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc                                                              >  1:4208595/1‑71 (MQ=255)
    ggCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc                                                              >  1:1029412/1‑70 (MQ=255)
    ggCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACt                                                             <  1:7443092/71‑1 (MQ=255)
    ggCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACt                                                             <  1:6222723/71‑1 (MQ=255)
        gcagcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCg                                                         >  1:7656790/1‑71 (MQ=255)
         cagcTTGCTGATCGGCACATAGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGc                                                        >  1:6944934/1‑71 (MQ=255)
           gcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc                                                       <  1:484661/70‑1 (MQ=255)
            cTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa                                                     >  1:5385266/1‑71 (MQ=255)
             ttGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa                                                     >  1:4601769/1‑70 (MQ=255)
             ttGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa                                                     >  1:5175124/1‑70 (MQ=255)
              tGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg                                                   >  1:7392076/1‑71 (MQ=255)
              tGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg                                                   >  1:5278378/1‑71 (MQ=255)
              tGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg                                                   >  1:388110/1‑71 (MQ=255)
                   aTCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTgg                                                <  1:4793634/69‑1 (MQ=255)
                   aTCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTgg                                                <  1:1213130/69‑1 (MQ=255)
                    tCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGaa                                              >  1:1461306/1‑70 (MQ=255)
                    tCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac                                             <  1:2848437/71‑1 (MQ=255)
                     cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca                                            >  1:7000662/1‑71 (MQ=255)
                     cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTCTCGCCCATGTGGAac                                             >  1:3113510/1‑70 (MQ=255)
                      ggCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAacac                                           <  1:4292411/71‑1 (MQ=255)
                       gCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCattt                                                                 <  1:6824241/48‑1 (MQ=255)
                       gCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACg                                          <  1:1513169/71‑1 (MQ=255)
                        cacaTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACgg                                         <  1:4069256/71‑1 (MQ=255)
                        cacaTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACgg                                         <  1:2372565/71‑1 (MQ=255)
                        cacaTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACgg                                         <  1:7074730/71‑1 (MQ=255)
                         acaTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGt                                        >  1:3261435/1‑71 (MQ=255)
                           aTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGt                                        <  1:589517/69‑1 (MQ=255)
                           aTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGt                                        <  1:4788300/69‑1 (MQ=255)
                             cGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACg                                    >  1:3798311/1‑71 (MQ=255)
                             cGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACg                                    >  1:4951573/1‑71 (MQ=255)
                               cAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGcc                                  <  1:1668385/71‑1 (MQ=255)
                                aGTTTTCCAGCATGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTg                                       <  1:4192020/65‑1 (MQ=255)
                                 gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAt                                                    <  1:4055573/51‑1 (MQ=255)
                                 gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAt                                                    <  1:7037253/51‑1 (MQ=255)
                                 gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAt                                                    <  1:5815717/51‑1 (MQ=255)
                                 gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAt                                                    <  1:4378216/51‑1 (MQ=255)
                                 gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAg                                >  1:2663190/1‑71 (MQ=255)
                                  ttttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACt                                                             <  1:6815041/41‑1 (MQ=255)
                                  ttttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTg                                                            >  1:264260/1‑42 (MQ=255)
                                  ttttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTgg                                                <  1:2459751/54‑1 (MQ=255)
                                  ttttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAgg                               >  1:2837948/1‑71 (MQ=255)
                                  ttttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAgg                               >  1:264263/1‑71 (MQ=255)
                                   tttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTa                                                               >  1:7003825/1‑38 (MQ=255)
                                   tttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtgt                                                  >  1:4762347/1‑51 (MQ=255)
                                   tttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtgt                                                  >  1:3411904/1‑51 (MQ=255)
                                   tttCCAGCAGGTCATAAATAGGCTGTAACGCCAATTTACTGTCGCCCAtgt                                                  >  1:136046/1‑51 (MQ=255)
                                   tttCCAGCAGGACATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtgt                                                  >  1:725951/1‑51 (MQ=255)
                                    ttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATTTGGAACACGGTGACGCCa                                 <  1:7570750/67‑1 (MQ=255)
                                    ttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGcc                                  <  1:5766156/66‑1 (MQ=255)
                                     tCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCa                                 <  1:1724985/66‑1 (MQ=255)
                                      ccAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTgg                                                >  1:3926104/1‑50 (MQ=255)
                                      ccAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGttt                            <  1:1639277/70‑1 (MQ=255)
                                         gcagGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccg                        >  1:7696194/1‑71 (MQ=255)
                                           agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgcc                      <  1:7843546/71‑1 (MQ=255)
                                           agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgcc                      <  1:7852403/71‑1 (MQ=255)
                                           agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgcc                      <  1:2988742/71‑1 (MQ=255)
                                           agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgcc                      <  1:3964919/71‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa                                                     <  1:6986234/38‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa                                                     <  1:5596549/38‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAg                                <  1:4478961/59‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAg                                <  1:2382021/59‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAg                                <  1:1787765/59‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTa                           <  1:1369977/64‑1 (MQ=255)
                                             gTCATAAATAGGCTGTAACGCCATTTTACTGTCGACCATGTGGAACACGGTGACGCCAg                                <  1:5972355/59‑1 (MQ=255)
                                              tCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg                   <  1:3643489/71‑1 (MQ=255)
                                              gcATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg                   <  1:234948/70‑1 (MQ=255)
                                               cATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGa                                      >  1:184270/1‑51 (MQ=255)
                                                aTAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGc                  >  1:4732119/1‑70 (MQ=255)
                                                aTAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGc                  <  1:4371901/70‑1 (MQ=255)
                                                 tAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGcc                                  <  1:1435575/53‑1 (MQ=255)
                                                 tAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCa                 <  1:1945130/70‑1 (MQ=255)
                                                   aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCaaa               <  1:3166561/70‑1 (MQ=255)
                                                    aTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCaaa               <  1:7405460/69‑1 (MQ=255)
                                                     tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca                                            <  1:2624392/39‑1 (MQ=255)
                                                     tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca                                            <  1:1151056/39‑1 (MQ=255)
                                                     tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca                                            <  1:6497197/39‑1 (MQ=255)
                                                     tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca                                            <  1:6252629/39‑1 (MQ=255)
                                                     tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca                                            <  1:5109249/39‑1 (MQ=255)
                                                       ggCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACg                                          >  1:5031529/1‑39 (MQ=255)
                                                         cTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGCTTACCGCCGAGCAAACCGc           <  1:3457401/68‑1 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCa                 <  1:1469457/59‑1 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCaa        <  1:4108350/68‑1 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAcgc     >  1:2934701/1‑71 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAcgc     <  1:6777860/71‑1 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAcgc     <  1:7234640/71‑1 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAcg      <  1:3687977/70‑1 (MQ=255)
                                                            tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAc       <  1:2503544/69‑1 (MQ=255)
                                                              aCGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGt                              >  1:4624864/1‑44 (MQ=255)
                                                              aCGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAACGCgg   <  1:4357413/71‑1 (MQ=255)
                                                               cGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAAcc             <  1:1501513/60‑1 (MQ=255)
                                                                gCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAACGCggg  >  1:2327739/1‑70 (MQ=255)
                                                                   |                                                                  
GGTCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCTTTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAACGCGGG  >  W3110S.gb/4563522‑4563655

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A