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
A2 F8 I0 R2 296 77.6 4260404 88.1% 3753415 61.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,763,556 T→C 54.6% noncoding (288/1542 nt) rrsG ← 16S ribosomal RNA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,763,5560TC54.6% 6.3 / 181.6 130noncoding (288/1542 nt)rrsG16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base T (38/21);  new base C (27/44);  total (65/65)
Fisher's exact test for biased strand distribution p-value = 4.63e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01

Only 100 of 132 total aligned reads displayed.

GGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGC  >  minE/1763502‑1763624
                                                      |                                                                    
ggggTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:3269543/68‑1 (MQ=255)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTg                                                      >  1:2172738/1‑71 (MQ=32)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:2090074/70‑1 (MQ=14)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:3022367/70‑1 (MQ=14)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:2380171/70‑1 (MQ=14)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:4181892/70‑1 (MQ=14)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:680872/71‑1 (MQ=17)
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:3109346/71‑1 (MQ=17)
 gAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:1217116/69‑1 (MQ=14)
 gAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:3638091/70‑1 (MQ=18)
   gTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTg                                                   <  1:3607851/71‑1 (MQ=34)
   gTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      >  1:939446/1‑68 (MQ=18)
    tCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGt                                                    >  1:3376416/1‑69 (MQ=35)
    tCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:2324540/67‑1 (MQ=18)
    tCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:550524/67‑1 (MQ=18)
    tCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:1993119/67‑1 (MQ=18)
    tCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:67617/67‑1 (MQ=18)
     cTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAg                                                 >  1:3418563/1‑71 (MQ=21)
        gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGcc                                               <  1:1269312/70‑1 (MQ=35)
        gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGc                                                <  1:4144454/69‑1 (MQ=35)
        gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGcc                                               <  1:278284/70‑1 (MQ=25)
        gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCg                                              >  1:2066754/1‑71 (MQ=21)
         aCCGTGTCTCAGTTCCAGTGTGGCTGGTCGTCCTCTCAGACCAGCTACTGATCGTCGCCTTGGTGAGcctt                                             <  1:3199499/71‑3 (MQ=11)
         aCCGTGTCTCAGTTCCAGTGTGGCTGGTCGTCCTCTCAGACCAGCTACTGATCGTCGCCTTGGTGAGcctt                                             <  1:2593029/71‑3 (MQ=11)
         aCCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt                                             <  1:1071591/71‑1 (MQ=34)
         aCCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGt                                             <  1:2605071/71‑1 (MQ=21)
           cGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTa                                           >  1:399069/1‑71 (MQ=34)
           cGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTa                                           >  1:45804/1‑71 (MQ=34)
           cGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTa                                           >  1:2924263/1‑71 (MQ=21)
           cGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTa                                           >  1:637121/1‑71 (MQ=21)
            gtgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGt                                             <  1:2156929/68‑1 (MQ=25)
            gtgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGt                                             <  1:1454766/68‑1 (MQ=25)
             tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTAcc                                         >  1:3925767/1‑71 (MQ=21)
             tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTAcc                                         <  1:1586704/71‑1 (MQ=21)
               tctcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTa                                           >  1:2424224/1‑67 (MQ=25)
               tctcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTAccc                                        >  1:3225626/1‑70 (MQ=25)
               tctcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTAccc                                        <  1:1165687/70‑1 (MQ=25)
                 tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCtt                                                       >  1:17242/1‑53 (MQ=31)
                 tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt                                            <  1:2503042/64‑1 (MQ=35)
                 tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCccac                                     >  1:4072597/1‑71 (MQ=34)
                      tCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaac                                 >  1:3471067/1‑70 (MQ=40)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCTTCGCCTTGGTGAGCCGTTACCCCACcaac                                 >  1:2758817/1‑69 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaac                                 >  1:2509079/1‑69 (MQ=40)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaaca                                <  1:1821411/70‑1 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaaca                                <  1:924430/70‑1 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaaca                                <  1:1212935/70‑1 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaac                                 >  1:3083338/1‑69 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaac                                 >  1:3188020/1‑69 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaac                                 >  1:4219000/1‑69 (MQ=255)
                       ccAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCATTGGTGAGCCGTTACCCCACcaac                                 >  1:23503/1‑69 (MQ=255)
                        cAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCGACcaaca                                <  1:3621043/69‑1 (MQ=255)
                         aGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGc                             <  1:2019901/71‑1 (MQ=255)
                         aGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGc                             <  1:1422830/71‑1 (MQ=255)
                           tgtgGCTGGGCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTg                                                      <  1:377450/44‑1 (MQ=11)
                             tgGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAAt                         >  1:2376185/1‑71 (MQ=255)
                             tgGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAAt                         >  1:3662495/1‑71 (MQ=255)
                             tgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAAt                         >  1:316471/1‑71 (MQ=255)
                               gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:4124953/39‑1 (MQ=255)
                               gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt                                                       <  1:2436856/39‑1 (MQ=255)
                                 tGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     >  1:5736/1‑71 (MQ=255)
                                 tGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     >  1:840868/1‑71 (MQ=255)
                                 tGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     >  1:4203168/1‑71 (MQ=255)
                                 tGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccac                                     >  1:3912559/1‑55 (MQ=255)
                                  ggTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCAt                    >  1:279282/1‑71 (MQ=255)
                                    tCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     <  1:3496834/68‑1 (MQ=255)
                                    tCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     <  1:1917489/68‑1 (MQ=255)
                                    tCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     <  1:3965165/68‑1 (MQ=255)
                                     cATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc                                         >  1:1503544/1‑47 (MQ=38)
                                     cATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAc                                          >  1:2652424/1‑46 (MQ=38)
                                        ccTCTCAGAACAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTggg               >  1:155247/1‑70 (MQ=255)
                                         ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca             <  1:2970518/71‑1 (MQ=255)
                                           ctcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt                                            >  1:379738/1‑38 (MQ=40)
                                           ctcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt                                             >  1:3086081/1‑37 (MQ=40)
                                           ctcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt                                             >  1:3242946/1‑37 (MQ=40)
                                           ctcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt                                             >  1:2293301/1‑37 (MQ=40)
                                           ctcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt                                             >  1:3337452/1‑37 (MQ=40)
                                           ctcAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATc                        >  1:3719812/1‑58 (MQ=255)
                                            tcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa                     <  1:1292877/60‑1 (MQ=255)
                                            tcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACAt          >  1:691473/1‑71 (MQ=255)
                                            tcAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGcaca           >  1:1273920/1‑70 (MQ=255)
                                            tcAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACAt          >  1:2920980/1‑71 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGc                             <  1:967524/51‑1 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc                   >  1:2358786/1‑61 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc                   >  1:3702801/1‑61 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc                   >  1:2756159/1‑61 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATc         >  1:2247154/1‑71 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATc         >  1:4062888/1‑71 (MQ=255)
                                             cAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATc         >  1:1767615/1‑71 (MQ=255)
                                             cAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATc         >  1:2714666/1‑71 (MQ=255)
                                               gACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCg       <  1:758670/71‑1 (MQ=255)
                                                  cAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATg    >  1:3354407/1‑71 (MQ=255)
                                                  cAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATg    >  1:755451/1‑71 (MQ=255)
                                                   aGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATgg   <  1:469874/71‑1 (MQ=255)
                                                   aGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATgg   <  1:1559196/71‑1 (MQ=255)
                                                   aGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATgg   <  1:3845196/71‑1 (MQ=255)
                                                   aGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATgg   <  1:3708055/71‑1 (MQ=255)
                                                   aGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATgg   <  1:2824620/71‑1 (MQ=255)
                                                     cTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGc  >  1:1956294/1‑70 (MQ=255)
                                                     cTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAACCTAATCCCATCTGGGCACATCCGATGGc  >  1:658512/1‑70 (MQ=255)
                                                      tAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGc  >  1:396522/1‑69 (MQ=255)
                                                      |                                                                    
GGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGC  >  minE/1763502‑1763624

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A