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 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
429,850 |
T→C |
12.8% |
Y8H (TAT→CAT) |
yajD → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 429,850 | 0 | T | C | 12.8%
| 116.6
/ 10.6
| 47 | Y8H (TAT→CAT) | yajD | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (20/21); new base C (3/3); total (23/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.37e-01 |
ATCTTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGT > W3110S.gb/429781‑429918
|
aTCTTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTa < 1:825594/71‑1 (MQ=255)
ttGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAGAAAACCATgc > 1:3606780/1‑71 (MQ=255)
ttGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATgc > 1:3591787/1‑71 (MQ=255)
aCTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTa < 1:2226495/71‑1 (MQ=255)
tGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACt > 1:3154111/1‑58 (MQ=255)
gcgcGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGa > 1:971546/1‑70 (MQ=255)
cgcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGaaa < 1:3673827/71‑1 (MQ=255)
cgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGc < 1:1222542/71‑1 (MQ=255)
tACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTAt > 1:2012115/1‑48 (MQ=255)
tttCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTCTgc < 1:3755596/46‑1 (MQ=255)
tttCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaa < 1:3464396/71‑1 (MQ=255)
tttCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGa < 1:3406462/70‑1 (MQ=255)
ttCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaa > 1:2183843/1‑70 (MQ=255)
tCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATgcga > 1:4232701/1‑45 (MQ=255)
tCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaaa > 1:1816327/1‑70 (MQ=255)
cATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa < 1:672156/53‑1 (MQ=255)
cAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGaa > 1:1969374/1‑49 (MQ=255)
cAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCAt > 1:2698364/1‑71 (MQ=255)
ggTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTa < 1:77216/71‑1 (MQ=255)
aCTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:733302/70‑1 (MQ=255)
cTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAg < 1:1363402/40‑1 (MQ=255)
ttttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAg < 1:174498/39‑1 (MQ=255)
tttCATGGCTATCATCCCAAAAAACCATGCGCGGTTa > 1:2197346/1‑37 (MQ=255)
tttCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATc > 1:2459062/1‑70 (MQ=255)
ttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTa > 1:12301/1‑71 (MQ=255)
ggCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa > 1:2190100/1‑61 (MQ=255)
gCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAAt > 1:354154/1‑62 (MQ=255)
gCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGt < 1:697617/70‑1 (MQ=255)
cTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTgg < 1:2700958/71‑1 (MQ=255)
tATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:3815336/58‑1 (MQ=255)
tcatcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGt < 1:3835020/66‑1 (MQ=255)
tcatcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGt > 1:54412/1‑70 (MQ=255)
tcatcCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAg < 1:2290532/48‑1 (MQ=255)
catcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaaaa > 1:3637423/1‑45 (MQ=255)
atcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaa > 1:2815250/1‑52 (MQ=255)
atcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAAt > 1:334933/1‑56 (MQ=255)
ccAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCgg > 1:1270309/1‑71 (MQ=255)
aaaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATc < 1:2230464/52‑1 (MQ=255)
aaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAg < 1:3421931/40‑1 (MQ=255)
aaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCg < 1:3969514/71‑1 (MQ=255)
aaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGc > 1:3414034/1‑71 (MQ=255)
aaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa > 1:1527694/1‑46 (MQ=255)
aaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTg < 1:1010578/71‑1 (MQ=255)
aCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGt < 1:3588822/71‑1 (MQ=255)
aCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGt < 1:1276157/71‑1 (MQ=255)
aCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGt < 1:216365/71‑1 (MQ=255)
aCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGt > 1:1787017/1‑71 (MQ=255)
cTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCt > 1:2937988/1‑59 (MQ=255)
|
ATCTTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGT > W3110S.gb/429781‑429918
|
| 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
