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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
412,492 |
C→T |
30.2% |
intergenic (‑137/+152) |
leuS ← / ← lnt |
leucyl‑tRNA synthetase/apolipoprotein N‑acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 412,492 | 0 | C | T | 30.2%
| 71.4
/ 37.7
| 53 | intergenic (‑137/+152) | leuS/lnt | leucyl‑tRNA synthetase/apolipoprotein N‑acyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (23/14); new base T (7/9); total (30/23) |
| Fisher's exact test for biased strand distribution p-value = 2.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTA > minE/412422‑412556
|
atagcatagcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTAc > 1:2810055/1‑71 (MQ=255)
agcatagcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACt > 1:1021918/1‑70 (MQ=255)
agcatagcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACt > 1:3552510/1‑70 (MQ=255)
gcatagcCCAACCGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCa < 1:1183311/71‑1 (MQ=255)
catagcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCAt < 1:1284544/71‑1 (MQ=255)
atagcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATa < 1:809509/71‑1 (MQ=255)
agcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACa > 1:13772/1‑71 (MQ=255)
gcCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACAt > 1:1101917/1‑71 (MQ=255)
aaCGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAAtt < 1:1954904/71‑1 (MQ=255)
aaCGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAAtt > 1:1377019/1‑71 (MQ=255)
cGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTa > 1:3537079/1‑71 (MQ=255)
tCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACa < 1:3430932/71‑1 (MQ=255)
ccGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTa > 1:3499734/1‑68 (MQ=255)
ccGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTa > 1:2881400/1‑68 (MQ=255)
gcgTCAAAACAGCCTTTCTCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAATTTACagag < 1:2541320/71‑1 (MQ=255)
cgTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGt > 1:3150975/1‑71 (MQ=255)
gTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGtt < 1:2919932/71‑1 (MQ=255)
aaaaCAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAATTTACAGAGTTtg < 1:3689069/70‑1 (MQ=255)
aaaCAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAATTTa < 1:3162454/60‑1 (MQ=255)
aaaCAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTtgt < 1:3280688/70‑1 (MQ=255)
aaCAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAATTTACAGAGTTTGTgg > 1:1161618/1‑71 (MQ=255)
aCAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTgg < 1:3267662/70‑1 (MQ=255)
cAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAATTTACAGAGTTTGTGGGc > 1:1918398/1‑71 (MQ=255)
cAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGc > 1:2408743/1‑71 (MQ=255)
gCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACa < 1:280929/47‑1 (MQ=255)
tttCGCTCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTa < 1:1660098/52‑1 (MQ=255)
ttCGCGCACTCGACGTTGAAATGATGCCCGGATTATTCATACATTAATTTACAGAGTTTGTGGGCGt < 1:1546245/67‑1 (MQ=255)
ttCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTAt > 1:3513378/1‑69 (MQ=255)
ttCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTAt > 1:1468552/1‑69 (MQ=255)
tCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTa < 1:1640367/70‑1 (MQ=255)
gcACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTagcaa < 1:1851322/70‑1 (MQ=255)
tCGACGTTGAAATGATGCCCGGATTATTCATACATTAAtt > 1:3183275/1‑40 (MQ=255)
gACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTagcaaagcaa < 1:1226502/69‑1 (MQ=255)
gACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAg > 1:1595881/1‑70 (MQ=255)
aCGTTGAAATGATGCCCGGATTATTCATACATTAATTTACAGAGTTtg < 1:3684642/48‑1 (MQ=255)
ttGAAATGATGCCCGGATTATTCATACATTAATTTACATAGTTTGTGGGCGTAt < 1:1686327/54‑1 (MQ=255)
ttGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAAc > 1:3819199/1‑70 (MQ=255)
tGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACa > 1:72579/1‑70 (MQ=255)
aaTGATGCCCGGATTATTCATACATTAATTTACAGAGTTTGTGGGCGTATTa > 1:3185541/1‑52 (MQ=255)
aaTGATGCCCGGATTATTCATACATTAATTTACAGAGTTTGTGGGCGTATTa > 1:1721581/1‑52 (MQ=255)
aaTGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAg < 1:2705431/70‑1 (MQ=255)
aaTGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAg > 1:3872541/1‑70 (MQ=255)
tgatgCCCGGATTACTCATACATTAATTTACAGAGTTtg < 1:2849826/39‑1 (MQ=255)
tgatgCCCGGATTACTCATACATTAATTTACAGAGTTtg < 1:2172983/39‑1 (MQ=255)
gatgCCCGGATTATTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACg > 1:1516782/1‑71 (MQ=255)
gatgCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACg > 1:1546484/1‑71 (MQ=255)
gatgCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACg > 1:3797784/1‑71 (MQ=255)
gatgCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACg > 1:3177949/1‑71 (MQ=255)
atgCCCGGATTACTCATACATTAATTTACAGAGTTtgtg > 1:1472111/1‑39 (MQ=255)
atgCCCGGATTACTCATACATTAATTTACAGAGTTtgtg > 1:746308/1‑39 (MQ=255)
atgCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACATAGAACg < 1:4791/70‑1 (MQ=255)
ggcttACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCtatta > 1:1433436/4‑71 (MQ=255)
ggATTATTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGCACGTCtatta > 1:3195956/1‑71 (MQ=255)
ggATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCtatta > 1:395824/1‑71 (MQ=255)
|
ATAGCATAGCCCAAACGTCCGCGTCAAAACAGCCTTTCGCGCACTCGACGTTGAAATGATGCCCGGATTACTCATACATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTA > minE/412422‑412556
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
