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 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,932,853 C→T 60.0% intergenic (‑224/+72) yqeF ← / ← lysS predicted acyltransferase/lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,932,8530CT60.0% 39.6 / 73.3 70intergenic (‑224/+72)yqeF/lysSpredicted acyltransferase/lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base C (14/14);  new base T (20/22);  total (34/36)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01

GAGGGGTAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACATTTGCCGGGGTTGTGAGCATAACG  >  minE/1932790‑1932918
                                                               |                                                                 
gagGGGTAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTaa                                                            <  1:221239/71‑1 (MQ=255)
gagGGGTAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTaa                                                            >  1:4701591/1‑71 (MQ=255)
      tAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTa                                                      <  1:4837427/71‑1 (MQ=255)
      tAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTg                                                        >  1:1923516/1‑69 (MQ=255)
      tAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTg                                                        >  1:4682006/1‑69 (MQ=255)
       aGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTg                                                        >  1:4368467/1‑68 (MQ=255)
       aGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTg                                                        >  1:4371862/1‑68 (MQ=255)
       aGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTg                                                        >  1:2311470/1‑68 (MQ=255)
        gATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAg                                                     <  1:2695125/70‑1 (MQ=255)
        gATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAg                                                     <  1:4656043/70‑1 (MQ=255)
         aTAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgat                                                   <  1:181018/71‑1 (MQ=255)
          tAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgatg                                                  <  1:4101001/71‑1 (MQ=255)
          tAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgat                                                   >  1:3714690/1‑70 (MQ=255)
           aGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTg                                                                 >  1:2002974/1‑55 (MQ=255)
           aGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgatga                                                 >  1:487400/1‑71 (MQ=255)
             ggCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTa                                                      <  1:629404/64‑1 (MQ=255)
               cGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACg                                             <  1:4651542/71‑1 (MQ=255)
               cGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACg                                             >  1:4561232/1‑71 (MQ=255)
                 ttAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGttt                                                              <  1:3411406/52‑1 (MQ=255)
                 ttAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAg                                                     <  1:940890/61‑1 (MQ=255)
                  tAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTc                                          >  1:3600853/1‑71 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTaa                                                            >  1:1264192/1‑52 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgat                                                   >  1:2578802/1‑61 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgat                                                   >  1:2678938/1‑61 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgat                                                   >  1:3026521/1‑61 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAga                                                    >  1:4856136/1‑60 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGtt                                           >  1:2895793/1‑69 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAAtt                                                          <  1:2885029/54‑1 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAAtt                                                          <  1:1672346/54‑1 (MQ=255)
                   aaTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTc                                          >  1:3634085/1‑70 (MQ=255)
                    aTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGtt                                           >  1:294883/1‑68 (MQ=255)
                    aTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGTTc                                          >  1:3628883/1‑69 (MQ=255)
                    aTCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAAtt                                                          <  1:5610027/53‑1 (MQ=255)
                     tctcCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGt                                                       <  1:3250619/55‑1 (MQ=255)
                     tctcCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGt                                                       <  1:2978502/55‑1 (MQ=255)
                     tctcCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTa                                        >  1:3277205/1‑70 (MQ=255)
                       tcCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGTTcag                                        <  1:4389732/68‑3 (MQ=255)
                       tcCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGTTcag                                        <  1:2317652/68‑3 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGt                                                       <  1:3858124/51‑1 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGt                                                       <  1:377638/51‑1 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGt                                                       <  1:3583314/51‑1 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGt                                                       <  1:1690216/51‑1 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTaaa                                      <  1:3771282/68‑1 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTaaa                                      <  1:4736955/68‑1 (MQ=255)
                         ccATACTTAACCTGGTTTATGGTAAATTGCCCTCCAATCTGTTTAATTTGTAGATGATACGTTCTaaa                                      <  1:2274108/68‑1 (MQ=255)
                            tACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAAtt                                                          <  1:5129495/45‑1 (MQ=255)
                            tACTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAAtt                                                          <  1:800859/45‑1 (MQ=255)
                            tACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAgatga                                                 <  1:2764203/54‑1 (MQ=255)
                             aCTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAAccc                               >  1:4569122/1‑71 (MQ=255)
                             aCTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAAccc                               >  1:4866541/1‑71 (MQ=255)
                             aCTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAAccc                               >  1:4197173/1‑71 (MQ=255)
                              cTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTaa                                                            >  1:2450078/1‑41 (MQ=255)
                              cTTAACCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTaa                                                            >  1:4532652/1‑41 (MQ=255)
                              cTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAAcccc                              <  1:4197776/71‑1 (MQ=255)
                               ttAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTaaaaa                                    <  1:3167257/64‑1 (MQ=255)
                                 aaCCTGGTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTa                                                      >  1:4883318/1‑44 (MQ=255)
                                 aaCCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTaaaaaaa                                  >  1:1678775/1‑64 (MQ=255)
                                     tGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTaaa                                      <  1:4828700/56‑1 (MQ=255)
                                      ggTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAg                                                     <  1:4182026/40‑1 (MQ=255)
                                       gTTTATGGTAAATTGCCCTCCATTTTGTTTAATTTGTAgatga                                                 >  1:4870177/1‑43 (MQ=255)
                                        tttATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACAt                         <  1:4661807/66‑1 (MQ=255)
                                               tAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGTTc                                          <  1:4646672/42‑1 (MQ=255)
                                               tAAATTGCCCTCCATTTTGTTTAATTTGTAGATGATACGTTc                                          <  1:3926226/42‑1 (MQ=255)
                                                aaaTTGCCCTCCATTTTGTTTAATTTGTAGATGATAc                                              >  1:4694876/1‑37 (MQ=255)
                                                aaaTTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACAt                         >  1:4393984/1‑58 (MQ=255)
                                                 aaTTGCCCTCCATTTTGTTTAATTTGTAGATGATACGt                                            >  1:4620442/1‑38 (MQ=255)
                                                         tCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAAcccc                              <  1:1218204/44‑1 (MQ=255)
                                                           cATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACATTTGCCGGGGTTGTGAGCATAAc   >  1:4920337/1‑69 (MQ=255)
                                                           cATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACATTTGCCGGGGTTGTGAGCATAAc   <  1:697669/69‑1 (MQ=255)
                                                           cATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACATTTGCCGGGGTTGTGAGCATAACg  >  1:3663011/1‑70 (MQ=255)
                                                               |                                                                 
GAGGGGTAGATAGGGCGTTAATCTCCCATACTTAACCTGGTTTATGGTAAATTGCCCTCCATTCTGTTTAATTTGTAGATGATACGTTCTAAAAAAACCCCGACATTTGCCGGGGTTGTGAGCATAACG  >  minE/1932790‑1932918

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