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 |
|
A9 F1 I2 R1
|
760 |
52.7 |
2744488 |
90.2% |
2475528 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,082,896 |
T→A |
R218R (CGT→CGA) |
efeO → |
inactive ferrous ion transporter EfeUOB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,082,896 | 0 | T | A | 97.4%
| 118.6
/ ‑5.0
| 38 | R218R (CGT→CGA) | efeO | inactive ferrous ion transporter EfeUOB |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base A (17/20); total (18/20) |
| Fisher's exact test for biased strand distribution p-value = 4.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
GACGCGCCAGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGTCTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAACTGGCTTTCCCACCTTCAAAAGTGGT > NC_000913/1082767‑1083024
|
gACGCGCCAGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGaaaaa > 1:720453/1‑139 (MQ=255)
aCGCGCCAGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAg > 1:675304/1‑139 (MQ=255)
gcgcCAGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCa < 2:1171150/139‑1 (MQ=255)
cgcCAGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGCATGGCAGCATTGACGCCCGTGCAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCAACTGGAAAAAGCAt > 2:838145/1‑139 (MQ=255)
aGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGtt < 2:675304/139‑1 (MQ=255)
aTGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGa < 2:1124765/139‑1 (MQ=255)
tGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGac < 2:720453/139‑1 (MQ=255)
aaCCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCaa < 1:1062279/139‑1 (MQ=255)
tGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGggatg < 2:1205527/139‑1 (MQ=255)
gTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCGCCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGt > 2:726972/1‑137 (MQ=255)
gTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGt < 1:726972/137‑1 (MQ=255)
cGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGag < 1:194826/139‑1 (MQ=255)
gATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGagc < 1:635919/139‑1 (MQ=255)
tCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGagcag < 1:1138460/139‑1 (MQ=255)
tGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAacac > 2:970237/1‑106 (MQ=255)
tGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAacac < 1:970237/106‑1 (MQ=255)
gATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATc > 1:1244729/1‑121 (MQ=255)
gATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATc < 2:1244729/121‑1 (MQ=255)
agcaTTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCAACCGACTGGAAAAAGAATGGTTTGCCAACAACACCACCAAAGGGAGGGATCGGAAGGCTGAGCGGCTTAATACCg > 1:1164059/1‑139 (MQ=255)
gcaTTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGacaa < 1:353495/94‑1 (MQ=255)
gcaTTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGacaa > 2:353495/1‑94 (MQ=255)
aGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGaaa > 2:798969/1‑48 (MQ=255)
aGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGaaa < 1:798969/48‑1 (MQ=255)
gCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCa > 2:565246/1‑87 (MQ=255)
gCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCa < 1:565246/87‑1 (MQ=255)
cAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGc > 1:933876/1‑50 (MQ=255)
cAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGc < 2:933876/50‑1 (MQ=255)
aaaGCCGCCGACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAAc > 1:583070/1‑139 (MQ=255)
gccgACCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAACTGGCtt > 2:799676/1‑139 (MQ=255)
aCCCAAAATTCACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAACTGGCTTTccc < 1:492615/139‑1 (MQ=255)
cACTGGTTTCCACCGTCTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCa > 1:912453/1‑63 (MQ=255)
cACTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACTCCACCAAAGGGATGGATCa < 2:912453/63‑1 (MQ=255)
aCTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAACTGGCTTTCCCACCTTCAAAAg > 2:1283360/1‑139 (MQ=255)
cTGGTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCt < 2:913325/76‑1 (MQ=255)
cTGGTTTCCACCGACAGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCt > 1:913325/1‑76 (MQ=255)
gTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGgga < 2:573641/51‑1 (MQ=255)
gTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGgga > 1:573641/1‑51 (MQ=255)
gTTTCCACCGACTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAACTGGCTTTCCCACCTTCAAAAGTGGt > 2:1240854/1‑139 (MQ=255)
|
GACGCGCCAGCACTATGAGCGTATTGAACCGATTGCTGAACTGTTCTCCGATCTGGATGGCAGCATTGACGCCCGTGAAGATGATTACGAGCAAAAAGCCGCCGACCCAAAATTCACTGGTTTCCACCGTCTGGAAAAAGCATTGTTTGGCGACAACACCACCAAAGGGATGGATCAGTACGCTGAGCAGCTTTATACCGATGTGGTCGATTTGCAAAAACGCATCAGTGAACTGGCTTTCCCACCTTCAAAAGTGGT > NC_000913/1082767‑1083024
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
