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
A4 F50 I2 R1 104 44.1 1376607 98.9% 1361464 150.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,143,684 (G)6→7 coding (419/3318 nt) yegE → putative diguanylate cyclase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,143,6781.G97.4% 131.4 / ‑3.4 38coding (413/3318 nt)yegEputative diguanylate cyclase
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base G (16/21);  total (16/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01

CGCTGAACATGACCTGGACGACCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TT‑GGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATCTGCTGCGCCAT  >  NC_000913/2143528‑2143820
                                                                                                                                                        |                                                                                                                                              
cGCTGAACATGACCTGGACGACCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑tt                                                                                                                                                 <  2:80451/151‑1 (MQ=255)
       cATGACCTGGACGACCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TT‑ggggggg                                                                                                                                         >  1:408598/1‑150 (MQ=255)
         tGACCTGGACGACCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TT‑gggggggtg                                                                                                                                       >  2:213532/1‑148 (MQ=255)
                gacgacCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGt                                                                                                                                 >  2:247417/1‑151 (MQ=255)
                 acgacCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGtt                                                                                                                                <  2:596681/151‑1 (MQ=255)
                   gacCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGt                                                                                                                              >  2:60874/1‑151 (MQ=255)
                             atTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACg                                                                                                                    <  2:333333/151‑1 (MQ=255)
                                      gCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGAc                                                                                                           <  2:662836/151‑1 (MQ=255)
                                         gTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGAt                                                                                                        <  2:522224/151‑1 (MQ=255)
                                               ggggCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCtctc                                                                                                  >  2:142585/1‑151 (MQ=255)
                                                           ctACGTAAATTGCAGCCGTGGTATACCCCCTTGCAAAATCTGGCAGACTCGCTGCGTCTGGCGTTTGGCATGGCCAATGTTCCGCCTCTGCTG‑GGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCAtt                                                                                          <  1:359043/147‑1 (MQ=255)
                                                              cGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGa                                                                                     <  1:49261/149‑1 (MQ=255)
                                                               gTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGatat                                                                                  >  2:152686/1‑151 (MQ=255)
                                                                     tgctgcCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTAc                                                                            >  1:110969/1‑151 (MQ=255)
                                                                         gcCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGt                                                                         <  2:275215/150‑1 (MQ=255)
                                                                             tGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGa                                                                     >  2:401048/1‑150 (MQ=255)
                                                                              ggTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAAt                                                                   <  2:299137/151‑1 (MQ=255)
                                                                              ggTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAAt                                                                   <  1:213643/151‑1 (MQ=255)
                                                                               gTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATc                                                                  >  1:57418/1‑151 (MQ=255)
                                                                               gTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATc                                                                  <  2:671498/151‑1 (MQ=255)
                                                                                  taACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCAt                                                               >  1:84761/1‑151 (MQ=255)
                                                                                   agccccGTGCAAAATCTGGCTGACTGGCTGCGTCTGGCTCTCGGCAGCGCCATTGTTCCGCCTCTC‑TTGGGGGGGTGTTCTGTTTGTCCTGCTGACGCCCGGAGACGATCCTCTCGCGGCATTTTCGATAAGGGCACTGTCCGAATCCa                                                                <  1:19285/147‑1 (MQ=255)
                                                                                      cccTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGgc                                                           <  2:622087/151‑1 (MQ=255)
                                                                                         ttGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGct                                                        >  2:415943/1‑151 (MQ=255)
                                                                                             aaaaTCTGGCTGACTGGCTGCGTCTGGCACTCGGCTGCGCCATTGGTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTg                                                     <  1:467769/150‑1 (MQ=255)
                                                                                              aaaTCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGc                                                   <  2:683228/151‑1 (MQ=255)
                                                                                              aaaTCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGc                                                   <  2:201764/151‑1 (MQ=255)
                                                                                              aaaTCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGc                                                   >  1:615993/1‑151 (MQ=255)
                                                                                                    ggCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGt                                             <  2:20821/151‑1 (MQ=255)
                                                                                                        gACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGc                                           <  1:665338/149‑1 (MQ=255)
                                                                                                            ggCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTg                                      <  1:362492/150‑1 (MQ=255)
                                                                                                                         aCTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTaa                        <  2:431121/151‑1 (MQ=255)
                                                                                                                         aCTCGGCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTa                         >  1:318997/1‑150 (MQ=255)
                                                                                                                             ggCAGCGCCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAAc                      <  1:358238/149‑1 (MQ=255)
                                                                                                                                  cgcCATTGTTCCGCCTCTG‑TTGGGGGGGTGTTCTGCTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACCGGTGCCGCTGGGATTGTTATTTAAACCACACt                >  1:297841/1‑150 (MQ=255)
                                                                                                                                    ccATTGTTCCGCATCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGAGCTCTGGCCCTGGTGCCGCTGGGATTGTTCTTTAAACCACATTa               >  1:623970/1‑149 (MQ=255)
                                                                                                                                      aTTGTTCCGCCTCTG‑TTGGGGGGGCGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATctg           >  2:146275/1‑151 (MQ=255)
                                                                                                                                          ttCCGCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATCtgctgc       >  2:605291/1‑151 (MQ=255)
                                                                                                                                              gCCTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATCTGCTGCGCCa   <  2:538976/151‑1 (MQ=255)
                                                                                                                                               ccTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATCTGCTGCGCCa   <  2:212186/150‑1 (MQ=255)
                                                                                                                                               ccTCTG‑TTGGGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATCTGCTGCGCCAt  >  2:331290/1‑151 (MQ=255)
                                                                                                                                                        |                                                                                                                                              
CGCTGAACATGACCTGGACGACCATCAATATTGTTGAAGCCGTGGTCGGGGCAGTGCTGCTACGTAAATTGCTGCCGTGGTATAACCCCTTGCAAAATCTGGCTGACTGGCTGCGTCTGGCACTCGGCAGCGCCATTGTTCCGCCTCTG‑TT‑GGGGGGTGTTCTGGTTGTCCTGCTGACGCCCGGAGACGATCCTCTCAGGGCATTTTTGATATGGGTACTGTCAGAATCCATCGGCGCTCTGGCACTGGTGCCGCTGGGATTGTTATTTAAACCACACTATCTGCTGCGCCAT  >  NC_000913/2143528‑2143820

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A