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 2,426,748 G→T 53.7% V202V (GTC→GTA)  rffD ← UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,426,7480GT53.7% ‑1.0 / 94.0 80V202V (GTC→GTA) rffDUDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase
Reads supporting (aligned to +/- strand):  ref base G (23/14);  new base T (23/20);  total (46/34)
Fisher's exact test for biased strand distribution p-value = 5.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAAGCGATATTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAACCGGCGTCA  >  minE/2426680‑2426815
                                                                    |                                                                   
aaaGCGATATTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACGCATTTCCGCCGTCCGCGAGTTAGTg                                                                     <  1:486532/69‑1 (MQ=255)
aaaGCGATATTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTg                                                                     <  1:2939573/69‑1 (MQ=255)
aaaGCGATATTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTg                                                                     <  1:1194890/69‑1 (MQ=255)
       tatTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCTAGTTAGTGACGacac                                                              <  1:2247128/69‑1 (MQ=255)
       tatTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGacac                                                              <  1:1089064/69‑1 (MQ=255)
       tatTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGacac                                                              <  1:3220461/69‑1 (MQ=255)
       tatTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGacac                                                              <  1:1449380/69‑1 (MQ=255)
        atTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGacaca                                                             >  1:3175733/1‑69 (MQ=255)
        atTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGacaca                                                             >  1:1331753/1‑69 (MQ=255)
              aTCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCAcc                                                       <  1:1018041/69‑1 (MQ=255)
                 gcgGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCAcc                                                       >  1:423131/1‑66 (MQ=255)
                 gcgGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCt                                                      >  1:3129849/1‑67 (MQ=255)
                 gcgGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCt                                                      >  1:2567484/1‑67 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:134930/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:2422215/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:2206865/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:3174300/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:2065018/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:965287/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1917525/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:2727738/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1849944/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:842324/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:2514059/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:161028/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1602778/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1520799/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:724267/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1375217/69‑1 (MQ=255)
                 gcgAAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:599854/69‑1 (MQ=255)
                  cgaaaGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1616904/65‑1 (MQ=255)
                  cgaaaGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTTACGACACACTCACCTTc                                                    <  1:1336414/65‑1 (MQ=255)
                      aGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGAgg                                                >  1:3028332/1‑68 (MQ=255)
                                      cTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTc                               <  1:484296/69‑1 (MQ=255)
                                      cTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTc                               <  1:626522/69‑1 (MQ=255)
                                      cTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTc                               <  1:2284286/69‑1 (MQ=255)
                                      cTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGACGAAAATTTTGTACAGTTc                               <  1:1405791/69‑1 (MQ=255)
                                       ttACACATTTCCGCCGTCCGCGAGTTAGTTACGAGACACTCACCTTc                                                    <  1:2939328/47‑1 (MQ=255)
                                                         cgcgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            <  1:2369394/69‑1 (MQ=255)
                                                         cgcgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            <  1:172818/69‑1 (MQ=255)
                                                         cgcgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            <  1:3192520/69‑1 (MQ=255)
                                                         cgcgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            <  1:939963/69‑1 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:3036938/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:3054042/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:3094785/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:3107999/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:3153833/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:990370/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:3404658/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:483570/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:2873512/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:265363/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1034526/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1062167/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1110499/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1160303/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1378194/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1574166/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1617646/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1868304/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:2163195/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:2205099/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:2458715/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:2244338/1‑66 (MQ=255)
                                                           cgAGTTAGTTACGACACACTCACCTTCGAGGAAAACTTTGTACAGTTCGCTGGCGCGGGCCGAACa             >  1:1775029/1‑66 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:2220905/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:3204896/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:1974909/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:3225725/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:2460991/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:3385655/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:954798/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            <  1:941785/67‑1 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:3087490/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:860212/1‑67 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:2794998/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:3152852/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:2258602/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:828821/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:705226/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:136367/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:54535/1‑69 (MQ=255)
                                                           cgAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAAc          >  1:3287187/1‑69 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGTGGGCCGAACaa            >  1:1468462/1‑58 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:1343999/1‑58 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:126554/1‑58 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:79969/1‑58 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACaa            >  1:2228241/1‑58 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAACCGGCGTCa  <  1:85962/68‑1 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAACCGGCGTCa  <  1:2145502/68‑1 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAACCGGCGTCa  <  1:3215212/68‑1 (MQ=255)
                                                                    gacgacACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAACCGACGTCa  <  1:1622536/68‑1 (MQ=255)
                                                                    |                                                                   
AAAGCGATATTCACATCGCGGAAGCTGTTTTCGGTGAGCTTACACATTTCCGCCGTCCGCGAGTTAGTGACGACACACTCACCTTCGAGGAAAATTTTGTACAGTTCGCTGGCGCGGGCCGAACAAACCGGCGTCA  >  minE/2426680‑2426815

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