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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
241,331 |
C→T |
62.5% |
A964A (GCG→GCA) |
sbcC ← |
exonuclease, dsDNA, ATP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 241,331 | 0 | C | T | 62.5%
| 13.1
/ 17.2
| 32 | A964A (GCG→GCA) | sbcC | exonuclease, dsDNA, ATP‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (3/9); new base T (7/13); total (10/22) |
| Fisher's exact test for biased strand distribution p-value = 7.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTTCATCAAGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCATCTG > minE/241269‑241398
|
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATTGCTGACCAGATCTGAAagcgccagtgc < 1:344115/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGTTCTGAAagcgccagtgc < 1:367465/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:2670966/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:959968/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:914926/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:575114/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:541697/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:3119/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:2873036/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:2867860/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:1254014/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:1130134/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:128314/65‑1 (MQ=255)
tcaAGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCACATCCGAAAGcgccagcgccagcgccag < 1:1010051/68‑1 (MQ=255)
aaGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACt < 1:579790/69‑1 (MQ=255)
aaGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACt < 1:1523701/69‑1 (MQ=255)
gAACAGCGAGTCAATACGTGTTTTATGGCTGCCCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTa > 1:2581714/1‑67 (MQ=255)
aCAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACt < 1:606175/64‑1 (MQ=255)
cGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTcgccg > 1:113528/1‑69 (MQ=255)
cGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTcgccg > 1:2837329/1‑69 (MQ=255)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2254444/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:1483184/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:3252170/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:1499451/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:3077584/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:1422102/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2701259/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2057757/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2164540/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:243388/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:700222/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2202276/68‑1 (MQ=39)
cTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2455489/64‑1 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:865774/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:1814076/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:1805095/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:1459480/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:2891849/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:603413/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:343557/1‑55 (MQ=38)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGTGTACGGGTATcgcg < 1:3141985/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:631475/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:2875911/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:1242502/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:2288762/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTACGCCGCCGGAAAGGGTACGGGTATcgcg < 1:1182503/69‑1 (MQ=255)
cgccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGc < 1:1167534/69‑1 (MQ=255)
cgccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGc < 1:639583/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:417642/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:421646/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:339306/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:3092188/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:2320207/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:1831790/69‑1 (MQ=255)
gccagcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCa < 1:1523155/69‑1 (MQ=255)
gcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCATctg < 1:2654947/69‑1 (MQ=255)
gcgccagcgccagACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCATctg < 1:1033587/69‑1 (MQ=255)
|
CCTTCATCAAGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCGTACCGCATCTG > minE/241269‑241398
|
| 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
