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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,748,215 |
G→A |
20.4% |
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 | 20.4%
| 95.0
/ 18.0
| 44 | S256S (AGC→AGT) | tnaB | tryptophan transporter of low affinity |
| Reads supporting (aligned to +/- strand): ref base G (12/23); new base A (5/4); total (17/27) |
| Fisher's exact test for biased strand distribution p-value = 2.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-01 |
CTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCCAGCAGCG > W3110S.gb/3748146‑3748282
|
cTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGc > 1:3046756/1‑71 (MQ=255)
cTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGc > 1:4086143/1‑71 (MQ=255)
tttGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCt < 1:1376623/69‑1 (MQ=255)
tttGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCt < 1:547506/69‑1 (MQ=255)
tttGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCt < 1:2343686/69‑1 (MQ=255)
tGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTcgc < 1:827818/71‑1 (MQ=255)
aTTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGaa < 1:1576345/63‑1 (MQ=255)
tttCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGa < 1:3371207/61‑1 (MQ=255)
cACCAGCTAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTtctc < 1:2884630/53‑1 (MQ=255)
aGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCa < 1:584877/71‑1 (MQ=255)
gCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCgg < 1:4119567/52‑1 (MQ=255)
gCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGc < 1:1533704/69‑1 (MQ=255)
cGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTcg < 1:2131018/48‑1 (MQ=255)
gAATCAACGTTGCCGCCTGACGAGATAATCGCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCa > 1:351535/1‑68 (MQ=255)
aaTCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATag < 1:450649/71‑1 (MQ=255)
aTCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCAATaga < 1:2114748/71‑1 (MQ=255)
aaCGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGa < 1:4548276/46‑1 (MQ=255)
aaCGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAata > 1:222797/1‑49 (MQ=255)
aaCGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAata > 1:2845099/1‑49 (MQ=255)
aaCGTTGCCGCCTGAGGAGATAATCGCCTTAAAACTTTCTCGCGGAata > 1:1745955/1‑49 (MQ=255)
cGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCag < 1:1492785/71‑1 (MQ=255)
ttGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGa < 1:520309/42‑1 (MQ=255)
cTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATa > 1:2294745/1‑70 (MQ=255)
aggagATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCAt < 1:2767902/43‑1 (MQ=255)
agaTAATCGCCTTAAAGCTTTCTCGCTGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCAcc < 1:2940758/71‑1 (MQ=255)
gaTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATgg > 1:1132150/1‑41 (MQ=255)
gaTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCa < 1:3449172/45‑1 (MQ=255)
gaTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCa < 1:4411161/45‑1 (MQ=255)
aTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATagag < 1:452357/50‑1 (MQ=255)
aTAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAg > 1:1001785/1‑71 (MQ=255)
aaTCGCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAgcg > 1:4341141/1‑71 (MQ=255)
aaTCGCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTG‑AATAGAGCCagaa > 1:3134656/1‑53 (MQ=255)
tCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATaa < 1:617909/59‑1 (MQ=255)
gCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCcag > 1:2170220/1‑71 (MQ=255)
gCCTTAAAACTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCagaag < 1:975287/51‑1 (MQ=255)
cTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATc < 1:1870333/58‑1 (MQ=255)
ttAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAAt < 1:1541723/37‑1 (MQ=255)
ttAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATaga < 1:1913121/40‑1 (MQ=255)
tAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATa > 1:342982/1‑37 (MQ=255)
tAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAgaga > 1:1527174/1‑50 (MQ=255)
aaaGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATaa > 1:2864468/1‑52 (MQ=255)
aaaGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCCagcagc > 1:3867001/1‑70 (MQ=255)
aaaGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCCagcagc > 1:2973687/1‑70 (MQ=255)
aaGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCCAGCAGCg < 1:3816304/70‑1 (MQ=255)
|
CTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCTTAAAGCTTTCTCGCGGAATATTCCCCATGGTGCAATAGAGCCAGAAGAGATAAATCACCAGCGCCAGCAGCG > W3110S.gb/3748146‑3748282
|
| 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
