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 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,602,797 G→A 82.6% T269T (ACC→ACT)  yfeX ← conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,602,7970GA82.6% 153.1 / 19.7 97T269T (ACC→ACT) yfeXconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (8/9);  new base A (27/53);  total (35/62)
Fisher's exact test for biased strand distribution p-value = 4.05e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGC  >  minE/1602735‑1602858
                                                              |                                                             
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:1855169/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:960202/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:834764/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:200639/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:295314/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:151106/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATc                                                          >  1:2121038/1‑68 (MQ=255)
gCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCCTACCATCGGTATc                                                          >  1:393795/1‑68 (MQ=255)
     ataataGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCaaa                                                    <  1:2859124/69‑1 (MQ=255)
     ataataGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCaaa                                                    <  1:2942360/69‑1 (MQ=255)
     ataataGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCaaa                                                    <  1:1044382/69‑1 (MQ=255)
                          tttGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTc                               <  1:1357030/69‑1 (MQ=255)
                                gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                          <  1:2482186/68‑1 (MQ=255)
                                gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                          <  1:230430/68‑1 (MQ=255)
                                gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                          <  1:226555/68‑1 (MQ=255)
                                gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                          <  1:966471/68‑1 (MQ=255)
                                gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                          <  1:828152/68‑1 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTcag                                           >  1:2198819/1‑50 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2062358/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2578006/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2572955/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2569580/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2510967/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2801629/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2425071/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:29193/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:3063209/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:3078991/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:213274/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:204034/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:2032713/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:3361729/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:101072/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:1723972/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:426481/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:426801/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:1735267/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:892354/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:1955363/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:385481/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:827601/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:1910913/1‑58 (MQ=255)
                                 aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgc                                    >  1:1220394/1‑57 (MQ=255)
                                 aaaCGCAACATCGAATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                   >  1:88135/1‑58 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:682037/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:3157962/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2930880/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2869888/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2824343/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:3176032/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:902739/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2752778/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2736988/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1055073/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2608561/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:3322346/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:395100/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2284459/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:196576/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1973704/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1522247/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2027128/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1927036/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1457546/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2278168/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1661548/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2493180/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1345765/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1788858/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1817083/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:1824859/69‑1 (MQ=255)
                                   aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:2414833/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                      <  1:715068/49‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:745051/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1846861/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:3396381/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1576382/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:460341/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:454425/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1108743/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1963749/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1084920/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1970583/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:113429/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:366244/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:163158/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:3194941/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1495421/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:2134714/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1234649/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1421560/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:1245218/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:2828405/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:2422950/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:2735963/69‑1 (MQ=255)
                                                       tACCATCAGTATCGCCAAACATACTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:2326799/69‑1 (MQ=255)
                                                        aCCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc  <  1:243243/68‑1 (MQ=255)
                                                              |                                                             
GCGAAATAATAGCCGCCGGTTACCGGTTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGC  >  minE/1602735‑1602858

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