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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,345,374 |
C→T |
24.3% |
G1156S (GGT→AGT) |
yfaL ← |
adhesin |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,345,374 | 0 | C | T | 24.3%
| 69.0
/ 19.1
| 37 | G1156S (GGT→AGT) | yfaL | adhesin |
| Reads supporting (aligned to +/- strand): ref base C (15/13); new base T (6/3); total (21/16) |
| Fisher's exact test for biased strand distribution p-value = 7.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGTTGGTATGACATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCCTGCTGCACGCCCTGATAAATCA > W3110S.gb/2345305‑2345442
|
aTGTTGGTATGACATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCAccc > 1:2378279/1‑71 (MQ=255)
aTGTTGGTATGACATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCAcc < 1:1092769/70‑1 (MQ=255)
ttGGTATGACATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGc > 1:626795/1‑71 (MQ=255)
tGACATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACTCTGCGATtgt < 1:1752630/71‑1 (MQ=255)
aCATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCAcc > 1:2576155/1‑59 (MQ=255)
aCATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCAcc > 1:1094963/1‑59 (MQ=255)
aCATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGa > 1:2478508/1‑71 (MQ=255)
aCATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGa < 1:1305433/71‑1 (MQ=255)
aCATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGa > 1:2319025/1‑71 (MQ=255)
cATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGac < 1:668911/71‑1 (MQ=255)
aTGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGa > 1:2552381/1‑69 (MQ=255)
aaCAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACTCTGCGATTGTGACAcgc > 1:1208650/1‑71 (MQ=255)
cAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACTCTGCGATTGTGCCAcgcg > 1:2181742/1‑70 (MQ=255)
aGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACTCTGCGATTGTGACAcgcgcg < 1:1019541/71‑1 (MQ=255)
cGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTa > 1:1908708/1‑65 (MQ=255)
cGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAgcggc < 1:2772578/70‑1 (MQ=255)
tgtAAACCCAGCCGCGTCTGAATATCATCACTCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTaa < 1:662788/70‑1 (MQ=255)
tgtAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTa < 1:837380/69‑1 (MQ=255)
aaCCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatca > 1:2165466/1‑71 (MQ=255)
aaCCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatca > 1:1871424/1‑71 (MQ=255)
aaCCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatca < 1:2477416/71‑1 (MQ=255)
aCCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatc < 1:1293929/69‑1 (MQ=255)
ccAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATcc > 1:1887032/1‑71 (MQ=255)
ccAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATcc > 1:1886221/1‑71 (MQ=255)
ccAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATcc > 1:2391376/1‑71 (MQ=255)
gCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatc < 1:2544076/64‑1 (MQ=255)
cgTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAat < 1:748557/59‑1 (MQ=255)
cgTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAat < 1:802224/59‑1 (MQ=255)
tCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCCTGCTGCACg > 1:2591025/1‑71 (MQ=255)
cTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCctgc > 1:1137078/1‑64 (MQ=255)
aaTATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatca > 1:1044313/1‑55 (MQ=255)
tcatcaCTCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCCTGCTGCACGccc > 1:1157036/1‑66 (MQ=255)
tcatcaCCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatc < 1:1870173/50‑1 (MQ=255)
tcatcaCCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatc < 1:1826269/50‑1 (MQ=255)
tcatcaCCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCctgctg < 1:2522099/59‑1 (MQ=255)
atcaCTCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatcatc > 1:2556034/1‑51 (MQ=255)
atcaCTCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatcatc > 1:743069/1‑51 (MQ=255)
atcaCTCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatcatc > 1:965554/1‑51 (MQ=255)
atcaCCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatcat > 1:2647684/1‑50 (MQ=255)
tcaCCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAatca < 1:2694252/48‑1 (MQ=255)
aCCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCCTGCTGCACGCCCTGATAAATCa > 1:1051115/1‑71 (MQ=255)
|
ATGTTGGTATGACATGAACAGCGGTACGCCATTCGCTGTGTAAACCCAGCCGCGTCTGAATATCATCACCCTGCGATTGTGACACGCGCGCACGGTTAGCGGCGGTAAAATCATCCTGCTGCACGCCCTGATAAATCA > W3110S.gb/2345305‑2345442
|
| 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
