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 |
|
A11 F1 I2 R1
|
59 |
52.6 |
2411032 |
94.1% |
2268781 |
113.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,685,542 |
(C)6→7 |
coding (1047/1404 nt) |
fumC ← |
fumarate hydratase (fumarase C),aerobic Class II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,685,536 | 1 | . | C | 96.3%
| 91.3
/ ‑3.2
| 27 | coding (1053/1404 nt) | fumC | fumarate hydratase (fumarase C),aerobic Class II |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (13/13); total (13/14) |
| 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 |
TCGCTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGATTGAGAT > NC_000913/1685398‑1685664
|
tCGCTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAgcg < 2:1143374/139‑1 (MQ=255)
cTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑ccc > 1:690952/1‑139 (MQ=255)
cACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑ccccc > 2:1116858/1‑139 (MQ=255)
gATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑ccccccca < 2:359250/139‑3 (MQ=255)
cGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGtt < 2:690952/139‑1 (MQ=255)
gTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGa < 1:248855/139‑1 (MQ=255)
ccACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCAcgt < 1:1116858/139‑1 (MQ=255)
gcgcAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTc > 2:656157/1‑139 (MQ=255)
gcgcAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTc > 1:585568/1‑139 (MQ=255)
gcgcAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑cccc < 2:409825/115‑1 (MQ=255)
gcgcAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑cccc > 1:409825/1‑115 (MQ=255)
gtgtTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAgcg‑c > 2:963042/1‑107 (MQ=255)
gtgtTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAgcg‑c < 1:963042/107‑1 (MQ=255)
gtgtTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCAt < 1:656157/139‑1 (MQ=255)
gtgtTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCAt < 2:714984/139‑1 (MQ=255)
aaaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcagc < 1:895486/139‑1 (MQ=255)
aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACTGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcagc > 2:754364/1‑139 (MQ=255)
aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTccc < 1:687468/125‑1 (MQ=255)
aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTccc > 2:687468/1‑125 (MQ=255)
aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑ccccc > 2:290975/1‑100 (MQ=255)
aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑ccccc < 1:290975/100‑1 (MQ=255)
ttCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCagag > 1:661382/1‑139 (MQ=255)
cAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTcaca < 2:1022554/139‑1 (MQ=255)
cAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTcaca < 2:805367/139‑1 (MQ=255)
tgGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGc < 2:730803/97‑1 (MQ=255)
tgGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGc > 1:730803/1‑97 (MQ=255)
ttGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCagag > 1:1037066/1‑86 (MQ=255)
ttGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCagag < 2:1037066/86‑1 (MQ=255)
cGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcag > 1:296441/1‑76 (MQ=255)
cGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcag < 2:296441/76‑1 (MQ=255)
aaGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCAt > 1:1117478/1‑63 (MQ=255)
aaGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCAt < 2:1117478/63‑1 (MQ=255)
gttcagttcaAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCAtt > 2:391837/1‑139 (MQ=255)
ttcagttcaAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCAttt > 1:23577/1‑139 (MQ=255)
ttcaAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCgg > 1:830214/1‑139 (MQ=255)
caAAGTTACCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCCTCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGa > 2:1056856/1‑139 (MQ=255)
aCCGGAAGCGCCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGATTGAGAt < 2:830214/139‑1 (MQ=255)
|
TCGCTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGATTGAGAT > NC_000913/1685398‑1685664
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
