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 1,765,891 A→G 59.0% I323I (ATT→ATC)  clpB ← protein disaggregation chaperone

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,765,8910AG59.0% 29.2 / 49.9 73I323I (ATT→ATC) clpBprotein disaggregation chaperone
Reads supporting (aligned to +/- strand):  ref base A (12/18);  new base G (25/18);  total (37/36)
Fisher's exact test for biased strand distribution p-value = 1.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.82e-01

GTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAG  >  minE/1765823‑1765953
                                                                    |                                                              
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:491138/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:1175761/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:1668743/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:2204944/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:3168469/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:2799053/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:632514/1‑69 (MQ=255)
gTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCa                                                                >  1:628586/1‑69 (MQ=255)
       cAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACt                                                         >  1:2108815/1‑69 (MQ=255)
       cAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACt                                                         >  1:1442056/1‑69 (MQ=255)
         aCAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCTCAGCATCTTTTTCAATGTACTg                                                        <  1:3359366/68‑1 (MQ=255)
         aCAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTg                                                        <  1:321078/68‑1 (MQ=255)
          cAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATg                                                             >  1:1996182/1‑62 (MQ=255)
          cAGAAGGCTCGGCAACAAACACTTTCT‑‑AAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:455214/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGGGa                                                    <  1:888892/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:3022860/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:2114683/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:2120743/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:720406/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:1425775/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:2747232/69‑1 (MQ=255)
            gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:999893/69‑1 (MQ=255)
             aaGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATTTACTGGCGa                                                    <  1:2659171/68‑1 (MQ=255)
               ggCTCGGCAAAAAAAACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGa                                                    <  1:1883589/66‑1 (MQ=255)
                      caacaaACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTg                                                        <  1:3002075/55‑1 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2828834/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2476557/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:1032234/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2466129/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2922885/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:388981/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:576576/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:685293/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:862296/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:912662/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:92387/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:993639/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2425863/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:1863590/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:1243475/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2212380/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:1594288/1‑69 (MQ=255)
                                tttCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGc                                >  1:2120056/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:2528369/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:1613703/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:2408291/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:2695928/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:1400259/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:1580662/1‑69 (MQ=255)
                                     ggAAACGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           >  1:1505018/1‑69 (MQ=255)
                                       aaaCTACGTTCCAGCGCAGCATCTTTTTCAATTTACTGGCGata                                                  <  1:705861/44‑1 (MQ=38)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:1017056/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:1460298/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:606769/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:1248055/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:553581/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:1710891/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:244328/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:454009/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:1727812/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:2582888/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:3264168/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:2607896/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:2396708/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:2922546/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:2122057/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:307156/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:302607/66‑1 (MQ=255)
                                        aaCGACGTTCCAGCGCAGCATCTTTTTCGATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTa                           <  1:1999802/66‑1 (MQ=255)
                                                 ccAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAAtt               <  1:2488877/69‑1 (MQ=255)
                                                 ccAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAAtt               <  1:1126299/69‑1 (MQ=255)
                                                 ccAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAAtt               <  1:3385402/69‑1 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCGAg  >  1:705220/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:192786/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:3187280/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:2171259/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:1680097/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:1263835/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:3191829/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:3312689/1‑69 (MQ=255)
                                                              tttttCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAg  >  1:1759748/1‑69 (MQ=255)
                                                                    |                                                              
GTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAG  >  minE/1765823‑1765953

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