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
A6 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,569,859 T→C 18.8% A43A (GCT→GCC)  yibI → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,569,8590TC18.8% 182.7 / 35.9 85A43A (GCT→GCC) yibIpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (43/26);  new base C (9/7);  total (52/33)
Fisher's exact test for biased strand distribution p-value = 7.77e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.87e-01

ATCATCGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGG  >  minE/2569794‑2569925
                                                                 |                                                                  
atcatcGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTc                                                                <  1:1982544/70‑1 (MQ=255)
 tcatcGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCa                                                               >  1:1920899/1‑70 (MQ=255)
 tcatcGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCa                                                               >  1:75986/1‑70 (MQ=255)
 tcatcGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCa                                                               >  1:57758/1‑70 (MQ=255)
      gcgATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                         >  1:3639745/1‑71 (MQ=255)
       cgATACATGACATCCCTTATCTGATTGCCAAAAAGCGCACCCATCCCCATGCCGACGCTATTCATAcggag                                                        >  1:916638/1‑69 (MQ=255)
       cgATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcggcg                                                        <  1:1953051/71‑1 (MQ=255)
         aTACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTAtt                                                                 <  1:3783623/60‑1 (MQ=255)
            cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATa                                                             >  1:990938/1‑61 (MQ=255)
            cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATa                                                             >  1:1921031/1‑61 (MQ=255)
            cATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCt                                                    <  1:124014/70‑1 (MQ=255)
               gACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGt                                                >  1:1269066/1‑71 (MQ=255)
               gACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGt                                                >  1:2138577/1‑71 (MQ=255)
                 cttCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTa                                                                   >  1:2725533/3‑50 (MQ=255)
                 cATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGt                                                >  1:3620947/1‑69 (MQ=255)
                 cATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGa                                              <  1:1503116/71‑1 (MQ=255)
                 cATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGa                                              <  1:3176992/71‑1 (MQ=255)
                  aTCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCa                                                               <  1:663654/53‑1 (MQ=255)
                  aTCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAg                                             >  1:2305542/1‑71 (MQ=255)
                   tCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGc                                            <  1:149024/71‑1 (MQ=255)
                    cccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGcc                                           >  1:842159/1‑71 (MQ=255)
                    cccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGcc                                           >  1:843393/1‑71 (MQ=255)
                    cccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGcc                                           >  1:3491670/1‑71 (MQ=255)
                     ccTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCt                                          <  1:1558395/71‑1 (MQ=255)
                        taccTGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                       >  1:111463/4‑71 (MQ=255)
                        tATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCAt                                                              >  1:2435288/1‑48 (MQ=255)
                         aTCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTAtt                                                                 >  1:2335399/1‑44 (MQ=255)
                         aTCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATa                                                             >  1:2613278/1‑48 (MQ=255)
                            tGATTGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTAcg                                   >  1:3510562/1‑70 (MQ=255)
                              aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTa                                     <  1:971577/67‑1 (MQ=255)
                              aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActgt                                 >  1:2019885/1‑69 (MQ=255)
                              aTTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                 >  1:3013801/1‑71 (MQ=255)
                               tttccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                >  1:3710796/4‑71 (MQ=255)
                               ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCa                                                               <  1:2789281/40‑1 (MQ=255)
                               ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                          >  1:428812/1‑45 (MQ=255)
                               ttGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                          >  1:24152/1‑45 (MQ=255)
                                tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCa                                                               >  1:3616810/1‑39 (MQ=255)
                                tGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                <  1:524203/70‑1 (MQ=255)
                                tGCCAAAAAACGTAATCATCCTCATGCCGACGCCATTCa                                                               >  1:3333080/1‑39 (MQ=16)
                                  ccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                               <  1:3466348/69‑1 (MQ=255)
                                  ccAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCAt                             >  1:3241722/1‑71 (MQ=255)
                                    aaaaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                       >  1:2014367/1‑59 (MQ=255)
                                    aaaaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                       >  1:3375704/1‑59 (MQ=255)
                                    aaaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                           >  1:564705/1‑71 (MQ=255)
                                     aaaaGCGCAACCATCCCCATGCCGACGCTATTCATAcggc                                                         <  1:1183526/40‑1 (MQ=255)
                                     aaaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGt                           >  1:937618/1‑70 (MQ=255)
                                      aaaaCGTAATCATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCtttt                                       >  1:2508762/1‑57 (MQ=255)
                                      aaaGCGCAACCATCCCCATGCCGACGCTATTCATAcgg                                                          >  1:2275429/1‑38 (MQ=255)
                                      aaaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTa                         >  1:3159904/1‑71 (MQ=255)
                                       aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTa                         >  1:2022477/1‑70 (MQ=255)
                                       aaGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                        <  1:890090/71‑1 (MQ=255)
                                        aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                       <  1:985524/71‑1 (MQ=255)
                                        aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                       <  1:1049032/71‑1 (MQ=255)
                                        aGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATc                       >  1:3358137/1‑71 (MQ=255)
                                         gcgcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGc                                            >  1:2446425/1‑49 (MQ=255)
                                           gcAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTg                     <  1:2839573/70‑1 (MQ=255)
                                            cAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGc                   <  1:1188419/71‑1 (MQ=255)
                                              atcATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGcc                  <  1:425152/68‑1 (MQ=255)
                                              aCCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCg                 >  1:188367/1‑71 (MQ=255)
                                               ccATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                >  1:415982/1‑71 (MQ=255)
                                                cATCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGtt               >  1:948653/1‑71 (MQ=255)
                                                 aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGttt              >  1:2523582/1‑71 (MQ=255)
                                                 aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGtt               <  1:1663610/70‑1 (MQ=255)
                                                 aTCCTCATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATATGGCCGtt               <  1:2218898/70‑1 (MQ=255)
                                                  tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc             <  1:2416691/71‑1 (MQ=255)
                                                  tCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTc             <  1:1351690/71‑1 (MQ=255)
                                                     ccATGCCGACGCTATTAATACGGCGGGCTGGGTGAGCCTGCTTACTCTGCATGtt                          <  1:2461933/55‑1 (MQ=255)
                                                      cATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg         <  1:1107913/71‑1 (MQ=255)
                                                      cATGCCGACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCt                      >  1:1243315/1‑58 (MQ=255)
                                                       aTGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTAt                        >  1:1085642/1‑55 (MQ=255)
                                                       aTGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCtgtg         >  1:3549510/1‑70 (MQ=255)
                                                        tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTActct                                 >  1:3891268/1‑45 (MQ=255)
                                                        tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGt                >  1:1016108/1‑62 (MQ=255)
                                                        tGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTgg        <  1:3709517/70‑1 (MQ=255)
                                                           cGACGCTATTCATACGGCGGGCTGGGTGAGCCTGt                                        >  1:377072/1‑35 (MQ=255)
                                                            gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTtgt          <  1:2100924/64‑1 (MQ=255)
                                                            gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg   <  1:611473/71‑1 (MQ=255)
                                                            gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg   <  1:2600880/71‑1 (MQ=255)
                                                            gACGCCATTCATGTTGCTGGTTGGGTGAGTCTTTTTACGTTACATGTTATCTGGCCGTTTTTGTGGATTTg   <  1:3418814/71‑1 (MQ=255)
                                                             aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                >  1:3411234/1‑41 (MQ=255)
                                                             aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTg                                >  1:2800461/1‑41 (MQ=255)
                                                             aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                               <  1:2571869/42‑1 (MQ=255)
                                                             aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGc                               <  1:1838883/42‑1 (MQ=255)
                                                             aCGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTgg  >  1:1384040/1‑71 (MQ=255)
                                                               gCTATTCATACGGCGGGCTGGGTGAGCCTGTTTTCTCTGCATGTTATCt                      >  1:172294/1‑49 (MQ=255)
                                                                 tATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt      >  1:3461707/1‑63 (MQ=255)
                                                                 tATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGAt      >  1:3457178/1‑63 (MQ=255)
                                                                 |                                                                  
ATCATCGCGATACATGACATCCCTTATCTGATTGCCAAAAAGCGCAACCATCCCCATGCCGACGCTATTCATACGGCGGGCTGGGTGAGCCTGTTTACTCTGCATGTTATCTGGCCGTTTCTGTGGATCTGG  >  minE/2569794‑2569925

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