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 |
|
A1 F1 I2 R1
|
65 |
21.2 |
1002576 |
96.5% |
967485 |
111.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,442,061 |
A→G |
V39A (GTA→GCA) |
msrA ← |
methionine sulfoxide reductase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,442,061 | 0 | A | G | 96.2%
| 85.7
/ ‑6.5
| 26 | V39A (GTA→GCA) | msrA | methionine sulfoxide reductase A |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (12/13); minor base T (0/1); total (12/14) |
| 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 |
CGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTATCAAATAAACTCA > NC_000913/4441926‑4442175
|
cGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCAt < 2:81856/139‑1 (MQ=255)
aaGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGt < 1:392496/139‑1 (MQ=255)
aTTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGATCAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAg < 1:358550/139‑1 (MQ=255)
ttGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTg < 2:72465/139‑1 (MQ=255)
tGCTGTAAACGCCGGGTAACTGCCAGAACAGACCCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCAt > 2:66804/1‑139 (MQ=255)
cTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCg < 1:275666/139‑1 (MQ=255)
tAAACGCCGGGTAACTGCCAGAACAGACTCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCgggg > 1:363305/1‑139 (MQ=255)
gCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGt > 2:42863/1‑101 (MQ=255)
gCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGt < 1:42863/101‑1 (MQ=255)
cGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTg < 2:457241/90‑1 (MQ=255)
cGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTg > 1:457241/1‑90 (MQ=255)
aCTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTTCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCcagg < 2:363305/139‑1 (MQ=255)
tGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGAcc < 2:120472/96‑1 (MQ=255)
tGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGAcc > 1:120472/1‑96 (MQ=255)
cccAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAg > 2:130614/1‑139 (MQ=255)
aaaCAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATg < 2:399288/74‑1 (MQ=255)
aaaCAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATg > 1:399288/1‑74 (MQ=255)
acCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTa > 2:332904/1‑139 (MQ=255)
acCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTa > 2:168711/1‑139 (MQ=255)
cccATCGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTAt < 1:168711/139‑1 (MQ=255)
cGCAAAAATGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGCGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTATCAAAt > 2:195026/1‑139 (MQ=255)
aTGGCAATCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTATCAAATAAACTCa < 1:426669/139‑1 (MQ=255)
aaTCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCcagg < 2:271425/87‑1 (MQ=255)
aaTCTCCATTCCGTCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCcagg > 1:271425/1‑87 (MQ=255)
tCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTATCAAATAAACTCa < 1:303365/121‑1 (MQ=255)
tCAGGTGCATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTATTTATCAAATAAACTCa > 2:303365/1‑121 (MQ=255)
|
CGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCGGGGGAAACCAGATGCTTTTTATCAAATAAACTCA > NC_000913/4441926‑4442175
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
