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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,748,215 |
G→A |
31.7% |
S256S (AGC→AGT) |
tnaB ← |
tryptophan transporter of low affinity |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,748,215 | 0 | G | A | 31.7%
| 52.8
/ 33.1
| 41 | S256S (AGC→AGT) | tnaB | tryptophan transporter of low affinity |
| Reads supporting (aligned to +/- strand): ref base G (10/18); new base A (8/5); total (18/23) |
| Fisher's exact test for biased strand distribution p-value = 1.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCC > W3110S.gb/3748146‑3748275
|
cTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGc > 1:2352442/1‑71 (MQ=255)
tttGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCtt < 1:101062/70‑1 (MQ=255)
tttGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACt < 1:25252/69‑1 (MQ=255)
tGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTtct > 1:3105960/1‑71 (MQ=255)
tGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTtct > 1:3656872/1‑71 (MQ=255)
ccGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCgg < 1:3697316/71‑1 (MQ=255)
ccGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCgg < 1:1018569/71‑1 (MQ=255)
ccGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCgg < 1:1193202/71‑1 (MQ=255)
gAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGaa < 1:953192/71‑1 (MQ=255)
aGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGaa < 1:3846054/70‑1 (MQ=255)
ggAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAata < 1:3069670/71‑1 (MQ=255)
gAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGc < 1:33845/56‑1 (MQ=255)
gAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAata > 1:2934759/1‑70 (MQ=255)
aaCGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAATAtt < 1:3588269/71‑1 (MQ=255)
aTTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTccc > 1:2556103/1‑70 (MQ=255)
aTTTCACCAGCGAATCAACGTTGCCGCCT‑‑GGAGATAATCGCCTTAAAGCtt < 1:91114/51‑1 (MQ=37)
tttCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGaa < 1:2709265/62‑1 (MQ=255)
cAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGc < 1:249777/71‑1 (MQ=255)
aGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGaa < 1:966057/55‑1 (MQ=255)
aGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGc > 1:3962973/1‑70 (MQ=255)
cGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAata > 1:1228353/1‑55 (MQ=255)
cGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAata > 1:628938/1‑55 (MQ=255)
cGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAata > 1:2374875/1‑55 (MQ=255)
gAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCaa > 1:1902328/1‑69 (MQ=255)
gAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCaa > 1:1359720/1‑69 (MQ=255)
tCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGaa < 1:3302424/49‑1 (MQ=255)
tCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGTAATATTCCCCATGGTGCAATagag > 1:2872248/1‑71 (MQ=255)
cGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCag < 1:2161752/71‑1 (MQ=255)
cGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCag < 1:1715273/71‑1 (MQ=255)
gagaTAATCGCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCAc < 1:1869114/71‑1 (MQ=255)
agaTAATCGCCTTAATGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCAc < 1:1823345/70‑1 (MQ=255)
aTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAAt > 1:307251/1‑46 (MQ=255)
aTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCagaaga < 1:3041461/58‑1 (MQ=255)
aaTCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAgaga > 1:479435/1‑58 (MQ=255)
aTCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATa > 1:1181762/1‑59 (MQ=255)
tggCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGcc < 1:3323177/69‑1 (MQ=255)
gCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCAATa > 1:642452/1‑41 (MQ=255)
gCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCAATa > 1:2550455/1‑41 (MQ=255)
ccTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCa < 1:1301168/37‑1 (MQ=255)
ccTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCa < 1:2614374/37‑1 (MQ=255)
aaaaCTTTCTCGCGGAATATTCCCCATGGTGCAAt > 1:3237445/1‑35 (MQ=255)
aaaaCTTTCTCGCGGAATATTCCCCATGGTGCAAt > 1:1935817/1‑35 (MQ=255)
aaGATTTCTCGCGGAATATTCCCCATGGTGCAATa > 1:2252837/1‑35 (MQ=255)
|
CTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCC > W3110S.gb/3748146‑3748275
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
