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 2,146,514 C→T 40.4% A65T (GCA→ACA)  yhbX ← predicted hydrolase, inner membrane

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,146,5140CT40.4% 58.6 / 83.3 121A65T (GCA→ACA) yhbXpredicted hydrolase, inner membrane
Reads supporting (aligned to +/- strand):  ref base C (52/20);  new base T (16/33);  total (68/53)
Fisher's exact test for biased strand distribution p-value = 3.12e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 121 total aligned reads displayed.

CACCATGAATAGAGGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATGGTCAGAACGAAG  >  minE/2146459‑2146578
                                                       |                                                                
cacCATGAATAGAGGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAg                                                      >  1:2529056/1‑68 (MQ=255)
cacCATGAATAGAGGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAg                                                      >  1:3082904/1‑68 (MQ=255)
cacCATGAATAGAGGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAg                                                      >  1:398105/1‑68 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:1020527/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2219881/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2183130/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2378003/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2399007/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2417223/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2658026/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2018708/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2694404/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2717908/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:1871591/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:3206036/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:3345042/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:3371384/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:1069359/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:43598/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:16093/69‑1 (MQ=255)
   cATGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:552824/69‑1 (MQ=255)
    aTGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:413566/68‑1 (MQ=255)
    aTGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:1769411/68‑1 (MQ=255)
    aTGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:661837/68‑1 (MQ=255)
    aTGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:536369/68‑1 (MQ=255)
    aTGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:2085267/68‑1 (MQ=255)
     tGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:358464/67‑1 (MQ=255)
     tGAATAGAGGCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:1069636/67‑1 (MQ=255)
      gAATAGAGCCTAATACTCATGTCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGa                                                  <  1:3133533/66‑1 (MQ=255)
           gagGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGcaaca                                                           <  1:2368692/52‑1 (MQ=255)
           gagGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGcaaca                                                           <  1:2237879/52‑1 (MQ=255)
           gagGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCgg                                             <  1:464358/66‑1 (MQ=255)
             ggCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAgg                                         <  1:2608015/68‑1 (MQ=255)
                tAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgat                                      >  1:1629490/1‑68 (MQ=255)
                     cTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGAtata                                >  1:528797/1‑69 (MQ=255)
                     cTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGAtata                                >  1:615943/1‑69 (MQ=255)
                     cTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGAtata                                >  1:92048/1‑69 (MQ=255)
                     cTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGAtata                                >  1:2232152/1‑69 (MQ=255)
                     cTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGAtata                                >  1:1721018/1‑69 (MQ=255)
                     cTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGAtata                                >  1:1047779/1‑69 (MQ=255)
                       cATGTCTGCCGGAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:1488628/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCa                                                       >  1:384563/1‑44 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:587788/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:1654684/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:567892/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    <  1:277855/63‑1 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:115812/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:2984872/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:1216846/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:3074697/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:3087350/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:489982/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:479347/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:1745339/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:1616550/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:2601088/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:615980/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:2357721/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:635711/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:2464845/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:2361720/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatga                                    >  1:2111033/1‑63 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGgatg                                     >  1:2834796/1‑62 (MQ=255)
                       cATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGAGAAGCGGAAGGgatga                                    <  1:207476/63‑1 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:1119252/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:2321606/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:1696632/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:4595/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:92034/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:2135814/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:3088485/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:1909065/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:2104784/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:2867859/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:609289/1‑68 (MQ=255)
                           tCTGCCGCTGTCAGTAACACAAATGGTGTGGCAACAAGCAGGCGAAGCGCAAGGGATGATATACGttt                           >  1:1749971/1‑68 (MQ=255)
                           tCTGCCGCTGTCACTAACACAAATGGTGTGGCAACAAGCAgg                                                     >  1:3139018/1‑42 (MQ=37)
                           tCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:798238/1‑68 (MQ=255)
                           tCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:2256936/1‑68 (MQ=255)
                           tCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGttt                           >  1:3254476/1‑68 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACACCCAGGATg              >  1:2658700/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:342767/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:2221965/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:2479467/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:2527338/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:2037106/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:1967253/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:3058348/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:3175816/1‑67 (MQ=255)
                                         tAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATg              >  1:1643301/1‑67 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCTAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:214154/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:2969852/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:1332237/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:2008957/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:480151/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:3389921/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:805482/61‑1 (MQ=255)
                                           acacAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:1009386/61‑1 (MQ=255)
                                             acaAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAg                  <  1:2538568/59‑1 (MQ=255)
                                                   ggTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATGGTCAGAACgaag  <  1:1862325/69‑1 (MQ=255)
                                                       |                                                                
CACCATGAATAGAGGCTAATACTCATGTCTGCCGCAGTCAGTAACACAAATGGTGCGGCAACAAGCAGGCGAAGCGGAAGGGATGATATACGTTTTACAACCAGGATGGTCAGAACGAAG  >  minE/2146459‑2146578

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