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 |
1,813,620 |
A→G |
36.9% |
F519F (TTT→TTC) |
alaS ← |
alanyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,813,620 | 0 | A | G | 36.9%
| 23.1
/ 26.0
| 46 | F519F (TTT→TTC) | alaS | alanyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base A (8/21); new base G (15/2); total (23/23) |
| Fisher's exact test for biased strand distribution p-value = 1.48e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCAACCTGACCGCCGG > minE/1813555‑1813672
|
gaACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCaa > 1:3361672/1‑67 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAgg > 1:633718/1‑67 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAgg > 1:1135011/1‑67 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:1216172/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:916702/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:730688/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:1713663/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:1742205/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:1768646/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:2900569/69‑1 (MQ=255)
cccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:2707834/69‑1 (MQ=255)
ccGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:444823/68‑1 (MQ=255)
cGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGgag < 1:1970796/67‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:2820880/69‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:3182514/69‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:2250267/69‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:2025791/69‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:1258274/69‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:183344/69‑1 (MQ=255)
aaTCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:1824423/69‑1 (MQ=255)
aaTCGCATGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCttt < 1:848604/69‑1 (MQ=255)
cGTATTTCTGCGTATCTTGCACCGCAAAGGAGAAGTTAGCTCGTTTCAGTTCGCCTTTATCGCCAACCt < 1:635252/69‑1 (MQ=255)
cGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCAACCt < 1:2393649/69‑1 (MQ=255)
gTATTTCTGCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTg < 1:2484706/69‑1 (MQ=255)
gTATTTCTGCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTg < 1:3435713/69‑1 (MQ=255)
gTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCAACCt < 1:1870591/68‑1 (MQ=255)
tttCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCACCCTGAcc > 1:13416/1‑69 (MQ=255)
tttCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCAACCTGAcc > 1:3107227/1‑69 (MQ=255)
tttCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCAACCTGAcc > 1:3313758/1‑69 (MQ=255)
tCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTc > 1:684099/1‑46 (MQ=255)
tCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGc > 1:975394/1‑48 (MQ=255)
tCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGc > 1:1802254/1‑48 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTc > 1:621710/1‑38 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAg > 1:884970/1‑40 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGAccgccg > 1:3334548/1‑68 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:3420148/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:3434467/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:1630804/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:3214685/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:2829757/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:271304/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:1317083/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:1895460/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:884503/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:2487088/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:2465006/1‑69 (MQ=255)
gCGTATCTTCCACCGCGAAGGAGAAG‑TAGCGCCTTTCAGTTCGCCTTTATCACCAACCTGACCGCCgg > 1:685938/1‑68 (MQ=255)
|
GAACCCGCAGCAAGTTTACCGATGTGACCAATCGCCTGGCCGTATTTCTGCGTATCTTCCACCGCAAAGGAGAAGTTAGCGCCTTTCAGTTCGCCTTTATCGCCAACCTGACCGCCGG > minE/1813555‑1813672
|
| 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
