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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,128,907 |
C→A |
A278A (GCC→GCA) |
yhfZ → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,128,907 | 0 | C | A | 81.0%
| 72.0
/ 22.3
| 43 | A278A (GCC→GCA) | yhfZ | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (4/4); new base A (34/0); total (39/4) |
| Fisher's exact test for biased strand distribution p-value = 6.25e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.04e-01 |
GTCGATGATTACCCAATGCAACAACTGCTGCGTGCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGA > W3110S.gb/4128872‑4128966
|
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCGGTTg > 1:2599417/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCCGTTGTAGATAAACACGCCCTGCTCg > 1:1595410/1‑61 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCCGTTGTAGATAAACACGCCCTGCTCg > 1:1825548/1‑61 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCCGTTGTAGATAAACACGCCCTGCTCg > 1:19452/1‑61 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGtt > 1:852638/1‑39 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGtt > 1:422353/1‑39 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:907587/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2632541/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2797766/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2816103/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2907532/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:294687/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:3070388/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:379550/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:386987/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:405209/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:895540/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:557216/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:571328/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:619440/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:717526/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:803131/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1518478/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1091086/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1208951/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1222780/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1224813/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1231187/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1233148/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1489479/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2666539/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1843178/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1864423/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:195026/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:1967281/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:912529/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2192570/1‑40 (MQ=255)
gTCGATGATTACCCAATGCAACAACTGCTGCGTGCAGTTg > 1:2597952/1‑40 (MQ=255)
gcGTGCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAAc > 1:592786/1‑62 (MQ=255)
gCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGa < 1:2668650/62‑1 (MQ=255)
gCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGa < 1:535165/62‑1 (MQ=255)
gCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGa < 1:1078995/62‑1 (MQ=255)
gCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGa < 1:2169240/62‑1 (MQ=255)
ccGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGa < 1:928155/61‑1 (MQ=255)
|
GTCGATGATTACCCAATGCAACAACTGCTGCGTGCCGTTGTAGATAAACACGCCCTGCTCGCCCATCAACAACGGGTAGTGAGTGGGGAACAGGA > W3110S.gb/4128872‑4128966
|
| 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
