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 |
|
A81 F1 I1 R1
|
13 |
64.8 |
4113440 |
96.3% |
3961242 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,382 |
T→G |
T60P (ACC→CCC) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,382 | 0 | T | G | 96.6%
| 238.8
/ ‑0.8
| 59 | T60P (ACC→CCC) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base T (2/0); new base G (26/31); total (28/31) |
| Fisher's exact test for biased strand distribution p-value = 2.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.80e-01 |
ATTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCA > REL606/4202309‑4202454
|
aTTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCg > 2:1744415/1‑76 (MQ=255)
gCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTgg > 2:367954/1‑76 (MQ=255)
cccAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCggggg > 1:155344/1‑75 (MQ=255)
cAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAAt < 2:1103375/76‑1 (MQ=255)
cAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAAt < 1:244771/76‑1 (MQ=255)
aaTGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAAtt < 1:1209205/76‑1 (MQ=255)
aaTGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAAtt < 1:676213/76‑1 (MQ=255)
gTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTggg > 1:1105980/1‑76 (MQ=255)
tCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGt < 2:1018908/76‑1 (MQ=255)
tCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGt > 2:1822361/1‑76 (MQ=255)
cccAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTa < 1:1506126/76‑1 (MQ=255)
cccAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTa < 1:1347358/76‑1 (MQ=255)
cccAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTa < 2:742177/76‑1 (MQ=255)
cccAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTa < 2:454548/76‑1 (MQ=255)
ccAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGGCGTGGAATTGGGTaa < 2:1638986/76‑1 (MQ=255)
ttCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCg < 2:1820091/76‑1 (MQ=255)
ttCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCg < 1:1259472/76‑1 (MQ=255)
tCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCgg < 2:1296772/76‑1 (MQ=255)
tCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCgg > 1:1441038/1‑76 (MQ=255)
cGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGc < 1:1717468/76‑1 (MQ=255)
ccGACGTGACGCACTAAGCCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCtt < 2:1370157/76‑1 (MQ=255)
tGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTgcg < 1:1847065/76‑1 (MQ=255)
gCACGAAGCCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAg < 1:1503937/76‑1 (MQ=255)
gCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAg < 1:1715767/76‑1 (MQ=255)
cACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGt > 2:1977783/1‑76 (MQ=255)
aCGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGtt < 1:1068066/76‑1 (MQ=255)
gAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTcc > 1:784237/1‑76 (MQ=255)
aaaCCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCg > 1:446579/1‑76 (MQ=255)
cccTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGa > 1:981535/1‑76 (MQ=255)
ccTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAg < 2:63555/76‑1 (MQ=255)
ctgTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGcc > 2:1789920/1‑76 (MQ=255)
ctgTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGcc > 2:745060/1‑76 (MQ=255)
tgTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCca > 1:478626/1‑76 (MQ=255)
tgTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGCGCca > 2:1713918/1‑76 (MQ=255)
gTTGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCcac > 1:1795165/1‑76 (MQ=255)
ttGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCcaca > 2:95191/1‑76 (MQ=255)
tGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCacac > 2:68502/1‑76 (MQ=255)
tGCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCacac > 1:1364428/1‑76 (MQ=255)
gCATTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACt < 2:1650495/76‑1 (MQ=255)
aTTGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGc > 1:663251/1‑76 (MQ=255)
ttGTGGTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGcc > 2:523845/1‑76 (MQ=255)
gtgGTTCGCAGGCGGTGGGGCGTGTAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCAt < 2:435361/76‑1 (MQ=255)
gaggTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCAt > 1:1447046/3‑76 (MQ=255)
gTTAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTgg > 2:131825/1‑76 (MQ=255)
tAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGAt > 2:860156/1‑76 (MQ=255)
tAGCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGAt > 1:1906141/1‑76 (MQ=255)
gCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTc < 2:370194/76‑1 (MQ=255)
gCAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTc < 1:1443752/76‑1 (MQ=255)
cAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg > 1:1679036/1‑76 (MQ=255)
cAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg < 1:1912956/76‑1 (MQ=255)
cAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg < 1:177158/76‑1 (MQ=255)
cAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg < 1:1768098/76‑1 (MQ=255)
cAGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg < 2:927619/76‑1 (MQ=255)
aGGCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCgg > 2:1664740/1‑76 (MQ=255)
ggCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGc < 1:1154813/76‑1 (MQ=255)
ggCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGc > 2:388328/1‑76 (MQ=255)
ggCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGc < 1:913745/76‑1 (MQ=255)
ggCGGTGGGGCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGc < 2:868540/76‑1 (MQ=255)
gCGGTGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCa > 2:104352/1‑76 (MQ=255)
ggggCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCa > 2:129549/1‑76 (MQ=255)
ggggCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCa < 2:1441038/76‑1 (MQ=255)
|
ATTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCA > REL606/4202309‑4202454
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
