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 |
|
A6 F1 I1 R1
|
20 |
51.0 |
3438118 |
91.8% |
3156192 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,378 |
T→C |
H61R (CAC→CGC) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,378 | 0 | T | C | 97.7%
| 160.8
/ NA
| 43 | H61R (CAC→CGC) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (21/21); minor base A (1/0); total (22/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAA > REL606/4202308‑4202450
|
gATTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTc > 1:1310028/1‑76 (MQ=255)
gATTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTc < 2:1295213/76‑1 (MQ=255)
tGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTg < 2:226154/76‑1 (MQ=255)
tGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTg > 1:1622955/1‑76 (MQ=255)
aTGTCCCANTTCGCCGACCTGACGCACTAAACCGCGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTg < 2:281597/76‑1 (MQ=255)
tGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTgg > 2:1551260/1‑76 (MQ=255)
tCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGt < 2:639841/76‑1 (MQ=255)
cccAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTa < 2:49202/76‑1 (MQ=255)
cAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAAc > 1:1357880/1‑76 (MQ=255)
cAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAANTGGGTAAc < 1:1639505/76‑1 (MQ=255)
aGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAAcc > 2:215187/1‑76 (MQ=255)
ttCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCg > 1:493361/1‑76 (MQ=255)
tCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCgg > 2:1491511/1‑76 (MQ=255)
cTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTgc > 1:1596549/1‑76 (MQ=255)
cTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTgc < 2:1246093/76‑1 (MQ=255)
cTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTgc > 2:1272033/1‑76 (MQ=255)
tGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTgcg < 2:236300/76‑1 (MQ=255)
aCGAAACCCTGCTGTTGCCTTNTGNTTAGCAGACGGCGGGTCGTGGNATTGGTTNANCCGGCTTGTTGCGCCAGtt > 2:242988/1‑76 (MQ=255)
aCGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGtt > 2:760806/1‑76 (MQ=255)
cGAACCCCTGCGGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTc < 2:1609145/76‑1 (MQ=255)
aaaCCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCg > 2:581847/1‑76 (MQ=255)
aaaCCCTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCg > 2:823290/1‑76 (MQ=255)
aaaCCCTGCTGTTGCATTGTGGGTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCAGGCTTGTTGCGCCAGTTCCg < 2:143662/76‑1 (MQ=255)
ccTGCTGTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAg < 2:1527695/76‑1 (MQ=255)
gctgTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGc < 1:482276/76‑1 (MQ=255)
ctgTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGcc > 2:514990/1‑76 (MQ=255)
ctgTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGcc > 2:819510/1‑76 (MQ=255)
ctgTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGcc > 2:881088/1‑76 (MQ=255)
tgTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCca < 1:1348388/76‑1 (MQ=255)
tgTTGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCca < 1:1318122/76‑1 (MQ=255)
ttGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCcaca < 2:871218/76‑1 (MQ=255)
ttGCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCcaca < 2:352137/76‑1 (MQ=255)
gCATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACt < 1:1033212/76‑1 (MQ=255)
cATTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTg > 1:653375/1‑76 (MQ=255)
aTTGTGGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGc > 1:1147081/1‑76 (MQ=255)
gtgGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCAt < 2:1536617/76‑1 (MQ=255)
tgGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCAtt > 2:184019/1‑76 (MQ=255)
tgGTTAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCAtt < 2:877827/76‑1 (MQ=255)
tttgCAAGCGGAGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGa > 1:1572320/4‑76 (MQ=255)
ttAGCAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGa > 2:656392/1‑76 (MQ=255)
cAGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg < 2:361021/76‑1 (MQ=255)
aGGCGGCGGGTCGTGGAATTGGTTCACCCGGCTTGTTGCGCCAGTTCCGTGAGAGCGATACTGCCATTGGATTCgg > 1:85314/1‑76 (MQ=255)
aGGCGGCGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCgg < 1:227944/76‑1 (MQ=255)
cggcggGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCaa > 1:769599/1‑76 (MQ=255)
|
GATTGCCCAATGTCCCAGTTCGCCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAA > REL606/4202308‑4202450
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
