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 1,044,247 G→A 28.6% L223L (CTG→TTG)  tyrS ← tyrosyl‑tRNA synthetase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,044,2470GA28.6% 75.5 / 30.0 73L223L (CTG→TTG) tyrStyrosyl‑tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base G (29/23);  new base A (13/8);  total (42/31)
Fisher's exact test for biased strand distribution p-value = 7.94e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAGACTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATGT  >  minE/1044180‑1044303
                                                                   |                                                        
cAGACTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAg                                                          >  1:3276979/1‑68 (MQ=255)
cAGACTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAg                                                          >  1:2783650/1‑68 (MQ=255)
cAGACTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAg                                                          >  1:333070/1‑68 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGcc                                                       >  1:1164300/1‑68 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      >  1:1917008/1‑69 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      <  1:3294101/69‑1 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      <  1:3262057/69‑1 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      >  1:3085865/1‑69 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      >  1:2984207/1‑69 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      >  1:2653960/1‑69 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      >  1:2835608/1‑69 (MQ=255)
   aCTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCa                                                      >  1:1739542/1‑69 (MQ=255)
                       aCCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:730048/68‑1 (MQ=255)
                       aCCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:973356/68‑1 (MQ=255)
                          aaaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAgac                                <  1:1116828/68‑1 (MQ=255)
                          aaaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAgac                                <  1:2126025/68‑1 (MQ=255)
                          aaaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAgac                                <  1:2786543/68‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:999141/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:2002049/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:2900228/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:3144858/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:3373617/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:880842/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:1683868/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:1663444/64‑1 (MQ=255)
                           aaTTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCa                                   <  1:1617225/64‑1 (MQ=255)
                                         tGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGAt                >  1:1789834/1‑69 (MQ=255)
                                         tGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGAt                >  1:2056365/1‑69 (MQ=255)
                                         tGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGAt                >  1:402764/1‑69 (MQ=255)
                                         tGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGAt                >  1:3434628/1‑69 (MQ=255)
                                         tGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGAt                >  1:2359560/1‑69 (MQ=255)
                                         tGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGAt                >  1:2370463/1‑69 (MQ=255)
                                                   aTCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTg      >  1:269552/1‑69 (MQ=255)
                                                   aTCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTg      >  1:1844738/1‑69 (MQ=255)
                                                   aTCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTg      >  1:1471726/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAgacgac                             >  1:2405243/1‑44 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAgacgac                             >  1:1600566/1‑44 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAgacgac                             <  1:539503/44‑1 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:29050/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:1054359/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:938371/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:873409/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:647090/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2716480/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2049137/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2246397/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2345916/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2431858/1‑69 (MQ=255)
                                                     cAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2518974/1‑69 (MQ=255)
                                                     cAGCGGAACGGGCAGGCCAAACACCTGATTCTGATGCa                                   <  1:189380/38‑1 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:266348/1‑67 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGAt    >  1:2144355/1‑67 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:1207602/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:656353/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:652600/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:636261/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:1839962/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:403587/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:363160/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:1245122/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:3286339/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATg   >  1:1534639/1‑68 (MQ=255)
                                                       gCGGAACGGTCAAGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATA‑CAGAAGTGATg   >  1:1326706/1‑67 (MQ=255)
                                                        cGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATGt  <  1:2623243/68‑1 (MQ=255)
                                                        cGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATGt  <  1:965875/68‑1 (MQ=255)
                                                        cGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATGt  <  1:3205225/68‑1 (MQ=255)
                                                        cGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATGt  <  1:2985564/68‑1 (MQ=255)
                                                        cGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACAGGTCAGGTCGATACCAGAAGTGATGt  <  1:1924815/68‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:672750/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:844377/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:1300780/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:1077814/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:1311014/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:2595620/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:194930/36‑1 (MQ=255)
                                                                tCAAGCCAAACACCTGATTCTGATGCAGACGACggg                          <  1:1010015/36‑1 (MQ=255)
                                                                   |                                                        
CAGACTGCGCCGCCTTCAGTTTTACCAAATTTGGTGCCATCTGCTTTAGTGATCAGCGGAACGGTCAGGCCAAACACCTGATTCTGATGCAGACGACGGGTCAGGTCGATACCAGAAGTGATGT  >  minE/1044180‑1044303

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