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 |
|
A8 F28 I1 R1
|
95 |
36.3 |
1231394 |
98.7% |
1215385 |
138.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,167,510 |
C→T |
intergenic (+121/‑89) |
ndh → / → ycfJ |
NADH:quinone oxidoreductase II/PF05433 family protein YcfJ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,167,510 | 0 | C | T | 97.2%
| 117.9
/ ‑4.5
| 36 | intergenic (+121/‑89) | ndh/ycfJ | NADH:quinone oxidoreductase II/PF05433 family protein YcfJ |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (19/16); total (20/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TGCATTAATCGACGTACACTGGCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGCCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGGTGTCGCA > NC_000913/1167382‑1167640
|
tGCATTAATCGACGTACACTGGCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCgcgc < 1:490239/140‑1 (MQ=255)
aTTAATCGACGTACACTGGCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCttt > 2:459829/1‑140 (MQ=255)
tCGACGTACACTGGCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCAtc < 1:459829/140‑1 (MQ=255)
aCGTACACTGGCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCAtcttc < 1:70193/140‑1 (MQ=255)
gCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAg > 2:111373/1‑140 (MQ=255)
cATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGGATTTCCAGCCATTCCCGCGCTTTACATCTTCTGTCTGATAGCTGCTTTtct > 2:508915/1‑140 (MQ=255)
aTAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTtctc < 2:405914/140‑1 (MQ=255)
aTAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTtctc < 2:589302/140‑1 (MQ=255)
cGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCtt < 1:500095/138‑1 (MQ=255)
cGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCtt > 2:500095/1‑138 (MQ=255)
ccTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCt > 2:275638/1‑140 (MQ=255)
tCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTg > 1:11279/1‑140 (MQ=255)
tGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCa < 1:586834/140‑1 (MQ=255)
tGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCa > 2:399023/1‑140 (MQ=255)
aGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATa > 1:304577/1‑140 (MQ=255)
aGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCa < 1:606014/140‑1 (MQ=255)
gcgcGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCaa > 1:192865/1‑140 (MQ=255)
gcgATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGc < 2:445318/136‑1 (MQ=255)
gcgATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGc > 1:445318/1‑136 (MQ=255)
aTCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAaagaag > 2:158031/1‑140 (MQ=255)
tCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAagg > 2:327320/1‑140 (MQ=255)
ggCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAaggag < 2:304577/140‑1 (MQ=255)
tATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGaa < 2:11279/140‑1 (MQ=255)
ccTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATg > 2:172183/1‑140 (MQ=255)
ccTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATg > 1:94039/1‑140 (MQ=255)
tcctccGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTgg < 2:266623/134‑1 (MQ=255)
tcctccGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTgg > 1:266623/1‑134 (MQ=255)
cctccGAATCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTAt > 1:266079/1‑140 (MQ=255)
aTCCTTAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGAtt < 2:94039/140‑1 (MQ=255)
ttAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGgtg > 1:437527/1‑140 (MQ=255)
tAAGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGgtgt < 1:158031/140‑1 (MQ=255)
tAAGTATTTCCAGTCATTCCCGCACTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCAGTGAATAAATCAATGTTGGCGGGTATCGGGATTGgtgt > 1:232070/1‑140 (MQ=255)
aGTATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGGTGTCg < 1:172183/140‑1 (MQ=255)
tATTTCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGGTGTCGCa > 2:243352/1‑140 (MQ=255)
tttCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGgtgt > 2:423249/1‑134 (MQ=255)
tttCCAGTCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGgtgt < 1:423249/134‑1 (MQ=255)
|
TGCATTAATCGACGTACACTGGCGGATGTGGCATAAACGCCTCATCCGCCCTTGAGGAACAGCGCGATCGGCAGCCGCGTTGTATCAGGCATCCTTTCAGACTCCTCCGAATCCTTAAGTATTTCCAGCCATTCCCGCGCTTTTCATCTTCTGTCTGATAGCTGCTTTTCTCCTTCGCTTGCATGATTGGCATAACTGCAAAGAAGGAGGTGTTCCCGTGAATAAATCAATGTTGGCGGGTATCGGGATTGGTGTCGCA > NC_000913/1167382‑1167640
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
