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 |
241,319 |
C→T |
78.4% |
S968S (TCG→TCA) |
sbcC ← |
exonuclease, dsDNA, ATP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 241,319 | 0 | C | T | 78.4%
| 58.7
/ 10.6
| 46 | S968S (TCG→TCA) | sbcC | exonuclease, dsDNA, ATP‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (6/4); new base T (7/29); total (13/33) |
| Fisher's exact test for biased strand distribution p-value = 1.97e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
CAGCGTGCCAAAACCTTCATCAAGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCG > minE/241256‑241387
|
cAGTGTGCCAAAACCTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAag < 1:3170734/69‑1 (MQ=255)
cAGTGTGCCAAAACCTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAag < 1:2674692/69‑1 (MQ=255)
cAGTGTGCCAAAACCTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAag < 1:2184802/69‑1 (MQ=255)
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 < 1:1130134/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:128314/65‑1 (MQ=255)
ccTTCATCAAGGAACAGCGAGTCAATACGCGTTTTATGGCTGACCAGATCTGAAagcgccagtgc < 1:1254014/65‑1 (MQ=255)
tcaAGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCACATCCGAAAGcgccagcgccagcgccag < 1:1010051/68‑1 (MQ=255)
aaGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAagcgcc > 1:2178865/1‑52 (MQ=255)
aaGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAagcgcc > 1:2329744/1‑52 (MQ=255)
aaGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAagcgc > 1:260596/1‑51 (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 < 1:700222/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2057757/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:3252170/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:1422102/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:3077584/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2202276/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:1499451/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2254444/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2701259/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:243388/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:1483184/68‑1 (MQ=39)
aTGGCTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2164540/68‑1 (MQ=39)
cTGACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTCGCCGCCGGaaa < 1:2455489/64‑1 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:343557/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:1805095/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:603413/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:865774/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:1459480/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:2891849/1‑55 (MQ=38)
gACCAGATCTGAAAGCGCCAGTGCCAGCGCCAGACTGACGAGGAAACTTTcgccg > 1:1814076/1‑55 (MQ=38)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGTGTACGGGTATcgcg < 1:3141985/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:2288762/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:631475/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:1242502/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATcgcg < 1:2875911/69‑1 (MQ=255)
cGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTACGCCGCCGGAAAGGGTACGGGTATcgcg < 1:1182503/69‑1 (MQ=255)
|
CAGCGTGCCAAAACCTTCATCAAGGAACAGCGAGTCAATACGTGTTTTATGGCTGACCAGATCCGAAAGCGCCAGCGCCAGCGCCAGACTAACGAGGAAACTTTCGCCGCCGGAAAGGGTACGGGTATCGCG > minE/241256‑241387
|
| 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
