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 1,602,820 G→A 74.9% L262L (CTG→TTG)  yfeX ← conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,602,8200GA74.9% 125.8 / 39.4 107L262L (CTG→TTG) yfeXconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (6/21);  new base A (26/54);  total (32/75)
Fisher's exact test for biased strand distribution p-value = 3.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01

Only 100 of 107 total aligned reads displayed.

TTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCC  >  minE/1602761‑1602880
                                                           |                                                            
tttGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTc                                                     <  1:1357030/69‑1 (MQ=255)
      gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                                                <  1:966471/68‑1 (MQ=255)
      gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                                                <  1:226555/68‑1 (MQ=255)
      gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                                                <  1:230430/68‑1 (MQ=255)
      gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                                                <  1:2482186/68‑1 (MQ=255)
      gAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGt                                                <  1:828152/68‑1 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2032713/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:1955363/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:1910913/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2510967/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2569580/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2578006/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:892354/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:1735267/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:1723972/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2425071/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:101072/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2801629/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:29193/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:3063209/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:3078991/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:204034/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:2062358/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:213274/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:3361729/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:385481/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:426801/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:827601/1‑58 (MQ=255)
       aaaCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgc                                                          >  1:1220394/1‑57 (MQ=255)
       aaaCGCAACATCGAATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATtgct                                                         >  1:88135/1‑58 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2414833/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2284459/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:902739/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2278168/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2493180/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2608561/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2736988/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2752778/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2824343/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2869888/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2930880/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:3157962/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:3176032/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:3322346/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:395100/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:682037/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:2027128/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1055073/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1345765/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1457546/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1522247/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1661548/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1817083/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1824859/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1927036/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:196576/69‑1 (MQ=255)
         aCGCAACATCGCATCACGCTTACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:1973704/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATg                                            <  1:715068/49‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1234649/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:3396381/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:113429/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1108743/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:3194941/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1084920/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1421560/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:366244/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1495421/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:2134714/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1970583/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1245218/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1576382/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:2828405/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:454425/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:163158/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:2422950/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:460341/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:2735963/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:745051/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1963749/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1846861/69‑1 (MQ=255)
                             tACCATCAGTATCGCCAAACATACTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:2326799/69‑1 (MQ=255)
                              aCCATCAGTATCGCCAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:243243/68‑1 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              >  1:3399945/1‑69 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              >  1:359727/1‑69 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              <  1:1245888/69‑1 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              >  1:1535742/1‑69 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              <  1:2912681/69‑1 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              >  1:1596761/1‑69 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              <  1:1694912/69‑1 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              >  1:2638284/1‑69 (MQ=255)
                                       aTCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAg              >  1:740779/1‑69 (MQ=255)
                                           ccAAACATGCTCAGCAATTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGgcgc                        <  1:1021222/55‑1 (MQ=255)
                                             aaaCATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTg        <  1:1220994/69‑1 (MQ=255)
                                             aaaCATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTg        <  1:761231/69‑1 (MQ=255)
                                             aaaCATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTg        <  1:1151162/69‑1 (MQ=255)
                                             aaaCATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTg        <  1:3004812/69‑1 (MQ=255)
                                             aaaCATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTg        <  1:1760706/69‑1 (MQ=255)
                                              aaCATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTg        <  1:1332004/68‑1 (MQ=255)
                                                   gCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGcc  <  1:3269805/69‑1 (MQ=255)
                                                    cTCAGCAGTTGCTGTTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGcc  <  1:1390462/68‑1 (MQ=255)
                                                           |                                                            
TTTGGTGAAACGCAACATCGCATCACGCTTACCATCGGTATCGCCAAACATGCTCAGCAGTTGCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCC  >  minE/1602761‑1602880

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A