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 |
|
A4 F1 I2 R1
|
67 |
32.5 |
1435938 |
95.9% |
1377064 |
112.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,657,874 |
A→G |
R354R (CGT→CGC) |
hscA ← |
DnaK‑like molecular chaperone specific for IscU |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,657,874 | 0 | A | G | 93.5%
| 100.0
/ ‑1.6
| 31 | R354R (CGT→CGC) | hscA | DnaK‑like molecular chaperone specific for IscU |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base G (13/16); total (14/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.61e-01 |
CGTTTCGAGGCCCAGCGACAGTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGACGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGCGACGACA > NC_000913/2657736‑2657993
|
cGTTTCGAGGCCCAGCGACAGTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGga < 1:19031/139‑1 (MQ=255)
gTTTCGAGGCCCAGCGACAGTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGgac > 2:260951/1‑139 (MQ=255)
aGCGACAGTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGaaaaa > 2:133336/1‑137 (MQ=255)
aGCGACAGTGGGATCAAATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGaaaaa < 1:133336/137‑1 (MQ=255)
cGACAGTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCg > 2:206409/1‑139 (MQ=255)
gTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTAc < 1:206409/139‑1 (MQ=255)
caTCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCa > 1:10880/1‑137 (MQ=255)
caTCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCa < 2:10880/137‑1 (MQ=255)
aaGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCa > 2:658107/1‑133 (MQ=255)
aaGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCa < 1:658107/133‑1 (MQ=255)
aGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCa > 1:450487/1‑139 (MQ=255)
aCAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCgg > 1:34323/1‑139 (MQ=255)
gCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCAc < 1:258259/139‑1 (MQ=255)
cATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCAcg > 2:658206/1‑139 (MQ=255)
cTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAg < 1:220059/139‑1 (MQ=255)
ggCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGc < 2:49415/139‑1 (MQ=255)
tGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCccac < 2:41981/139‑1 (MQ=255)
gTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCccacc < 2:501726/139‑1 (MQ=255)
caccaGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATcacc < 1:228836/139‑1 (MQ=255)
caGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACt > 1:37968/1‑139 (MQ=255)
gAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTc > 1:495523/1‑139 (MQ=255)
tatCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAg < 2:564687/139‑1 (MQ=255)
cTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGACGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTtca < 1:260951/139‑1 (MQ=255)
gcgcCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTa < 2:495523/139‑1 (MQ=255)
gTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTtcatca > 2:470049/1‑106 (MQ=255)
gTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTtcatca < 1:470049/106‑1 (MQ=255)
gTCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGcgacga > 1:177563/1‑139 (MQ=255)
gTCGATGGAAGTCAGCGGTGGACGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGcgacga > 2:364475/1‑139 (MQ=255)
tCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTa > 2:457869/1‑69 (MQ=255)
tCGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTa < 1:457869/69‑1 (MQ=255)
cGATGGAAGTCAGCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGCGACGACa < 2:34323/139‑1 (MQ=255)
gCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGcgacg < 2:73161/124‑1 (MQ=255)
gCGGTGGGCGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGcgacg > 1:73161/1‑124 (MQ=255)
|
CGTTTCGAGGCCCAGCGACAGTGGGATCACATCAAGCAACAGCATTTCGCTGTCTGGCTTGTTACCCACCAGAATATCCGCCTGAATCGCCGCGCCAATAGCGACGACTTTATCCGGGTCGATGGAAGTCAGCGGTGGACGACCGAAAAATTCGCCTACCCGTTCACGCACCAGCGGCACGCGAGTAGAACCGCCCACCATCACCACTTCCAGCACTTCATCAGCTTCTACACCCGCGTCTTTCAGCGCGCGACGACA > NC_000913/2657736‑2657993
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
