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 1,161,118 T→A 32.6% F9L (TTT→TTA)  ydjX → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,161,1180TA32.6% 96.3 / 66.3 92F9L (TTT→TTA) ydjXpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (45/17);  new base A (17/13);  total (62/30)
Fisher's exact test for biased strand distribution p-value = 1.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.03e-01

TCTCTATTATCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGATCTGCTCACCG  >  minE/1161057‑1161185
                                                             |                                                                   
tctcTATTATCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGt                                                               >  1:2449263/1‑68 (MQ=255)
 ctctATTATCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCt                                                             >  1:1915911/1‑69 (MQ=255)
  tctATTATCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCtt                                                            >  1:1242523/1‑69 (MQ=255)
        atCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTAttttt                                                      >  1:2412459/1‑69 (MQ=255)
        atCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTAttttt                                                      >  1:1986306/1‑69 (MQ=255)
                  atatAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTAtt                                                         <  1:273107/56‑1 (MQ=255)
                     taGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCAttt                                         >  1:2708399/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:48701/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:472436/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:335586/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:3320924/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:3018377/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:2887410/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:1060787/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:274634/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:2715113/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:25546/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       <  1:664197/69‑1 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       <  1:966113/69‑1 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:124095/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:1089781/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:168634/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGAGCTGGTCATTTAc                                       >  1:184672/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGAGCTGGTCATTTAc                                       >  1:540831/1‑69 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:1463154/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:3175344/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:1501682/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:328901/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2905108/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:1129738/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:1599755/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:104645/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2270116/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:1066908/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2237452/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2233332/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2201202/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2100214/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:762997/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:932982/1‑44 (MQ=255)
                       ggAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTAGCCTg                                                                >  1:2205805/1‑44 (MQ=255)
                       ggAAACTCAACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTAc                                       >  1:2758774/1‑69 (MQ=255)
                          aaCTCCACGATGAACGCTTAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    >  1:3127862/1‑69 (MQ=255)
                          aaCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    >  1:168753/1‑69 (MQ=255)
                          aaCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    <  1:2751974/69‑1 (MQ=255)
                          aaCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    <  1:2895504/69‑1 (MQ=255)
                          aaCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    <  1:950502/69‑1 (MQ=255)
                          aaCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    >  1:2046432/1‑69 (MQ=255)
                          aaCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    <  1:573028/69‑1 (MQ=255)
                           aCTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCt                                    <  1:1349143/68‑1 (MQ=255)
                             tCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATc                                 <  1:1169184/69‑1 (MQ=255)
                             tCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATc                                 <  1:2842301/69‑1 (MQ=255)
                               cACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCtt                                                            >  1:676876/1‑40 (MQ=255)
                               cACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCtt                                                            >  1:1812206/1‑40 (MQ=255)
                               cACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCtt                                                            >  1:401452/1‑40 (MQ=255)
                                aCGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCAc                              >  1:583334/1‑69 (MQ=255)
                                aCGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCAc                              >  1:2818271/1‑69 (MQ=255)
                                aCGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCAc                              >  1:1395017/1‑69 (MQ=255)
                                aCGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCAc                              >  1:2523707/1‑69 (MQ=255)
                                aCGATGAACGCTGAGCGTAAATTTCTTTTTGCATGTCTTATTTTTGCGCTGGTCATTTACGCTATCCAc                              >  1:1973828/1‑69 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:357999/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:180679/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:1922887/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:106226/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:2253034/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:452116/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:2401025/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:1132674/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:2810670/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:2647202/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:1251212/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:3034462/69‑1 (MQ=255)
                                           tGAGCGTAAATTTCTTTTAGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGttt                   <  1:3258220/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:2174929/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:1909243/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:814096/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:1258230/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:741791/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:717501/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:2003694/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:2911451/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:2079243/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:2155346/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:29927/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:2285638/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:3028527/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:348049/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:3387892/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             >  1:3368573/1‑69 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:2431867/69‑1 (MQ=255)
                                                 tAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTACGGTTTATTCGa             >  1:826348/1‑69 (MQ=255)
                                                   aaTTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGa             <  1:1698493/67‑1 (MQ=255)
                                                             tGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGATCTGCTCACCg  <  1:2442370/68‑1 (MQ=255)
                                                             |                                                                   
TCTCTATTATCAAGTTTGATATAGGAAACTCCACGATGAACGCTGAGCGTAAATTTCTTTTTGCCTGTCTTATTTTTGCGCTGGTCATTTACGCTATCCACGCTTTCGGTTTATTCGATCTGCTCACCG  >  minE/1161057‑1161185

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A