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 F3 I0 R1 328 90.1 2317887 85.2% 1974839 62.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 498,441 C→T 38.7% G24S (GGT→AGT)  galE ← UDP‑galactose‑4‑epimerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE498,4410CT38.7% 146.8 / 212.7 197G24S (GGT→AGT) galEUDP‑galactose‑4‑epimerase
Reads supporting (aligned to +/- strand):  ref base C (44/76);  new base T (38/38);  total (82/115)
Fisher's exact test for biased strand distribution p-value = 7.53e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.54e-01

Only 100 of 197 total aligned reads displayed.

ACAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAC  >  minE/498383‑498504
                                                          |                                                               
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:454393/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:2028014/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:2015150/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:2201245/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:1722295/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:327547/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:1626288/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:430833/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:1500040/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:1367916/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:696959/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCa                                                         <  1:819626/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:3565/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1002153/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:2134014/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1944285/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:219011/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1758288/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1053733/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:897749/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1702966/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:298418/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1225637/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1168850/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:767670/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:46481/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:502886/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:518730/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1385006/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:56862/67‑1 (MQ=255)
aCAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGACGACATCATGACCGTTTTGCa                                                         <  1:2104644/67‑1 (MQ=255)
 cAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:1735878/66‑1 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:645046/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:37762/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:953021/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:576915/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:575351/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:2144575/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:2149919/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:291342/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:733067/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:100955/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:427005/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1604211/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:169245/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1213522/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:165466/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1361967/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1427546/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1045736/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1485114/1‑67 (MQ=255)
            cTGCGCTTACTGTTACAGAGGTTATCAAGAATGAAGACATCATGACTGTTTTGCAGTAATTGcacac                                             >  1:1478734/1‑67 (MQ=255)
               cgcTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:376249/52‑1 (MQ=255)
                            agagGTAATCAAGAATGATGACATCATGACCGTTTTGCa                                                         <  1:2148460/39‑1 (MQ=255)
                             gagGTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACTGGTATGACTTCCAAt                             <  1:293411/66‑1 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTaa                         >  1:836729/1‑67 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTaa                         >  1:2238417/1‑67 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTaa                         >  1:2269010/1‑67 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTaa                         >  1:404399/1‑67 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTaa                         >  1:277046/1‑67 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTaa                         >  1:960351/1‑67 (MQ=255)
                                gTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTa                          >  1:508979/1‑66 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCGCACAGGTATGACTTCCAATGTAACCGCt                    <  1:773428/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:1218204/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:684718/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:1187563/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:614060/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:1346352/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:776841/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:1142613/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:1835103/57‑1 (MQ=255)
                                               gaCATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCt                    <  1:2052072/57‑1 (MQ=255)
                                                  atcatGACGGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:2167470/67‑1 (MQ=255)
                                                  atcatGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:914090/67‑1 (MQ=255)
                                                  atcatGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:199177/67‑1 (MQ=255)
                                                  atcatGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:1787734/67‑1 (MQ=255)
                                                  atcatGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:1773187/67‑1 (MQ=255)
                                                  atcatGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:2295311/67‑1 (MQ=255)
                                                  atcatGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAAcc       <  1:157005/67‑1 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCg             >  1:1705766/1‑56 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGaa   >  1:284809/1‑66 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:721699/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:970601/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:1977827/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:955128/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:1090504/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:2213260/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:248072/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:1687824/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:33353/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:1308089/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:617117/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:361410/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:611062/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:1317366/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:1613319/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:159321/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:534571/1‑67 (MQ=255)
                                                       gACCGTTTTGCAGTAACTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAc  >  1:175792/1‑67 (MQ=255)
                                                       gACCGTATTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCg             >  1:596795/1‑56 (MQ=255)
                                                          |                                                               
ACAGGCAGTACGCTGCGCTTACTGTTACAGAGGTTATCAAGAATGATGACATCATGACCGTTTTGCAGTAATTGCACACAGGTATGACTTCCAATGTAACCGCTACCACCGGTAACCAGAAC  >  minE/498383‑498504

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A