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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
832,349 |
T→C |
7.2% |
T269T (ACT→ACC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 832,349 | 0 | T | C | 7.2%
| 193.0
/ 4.7
| 69 | T269T (ACT→ACC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (29/35); new base C (3/2); total (32/37) |
| Fisher's exact test for biased strand distribution p-value = 6.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCAAACTGTGC > minE/832281‑832418
|
tCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTg > 1:900394/1‑70 (MQ=255)
aGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGt > 1:459677/1‑71 (MQ=255)
catcatCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGt < 1:866089/70‑1 (MQ=255)
atcatcGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTa < 1:1878824/71‑1 (MQ=255)
atcatcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTa < 1:2476045/71‑1 (MQ=255)
atcatcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTa < 1:3473666/71‑1 (MQ=255)
atcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACa < 1:3042733/70‑1 (MQ=255)
cGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAg > 1:1611567/1‑71 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg > 1:2569466/1‑71 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg < 1:3844702/71‑1 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg < 1:84732/71‑1 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg < 1:531809/71‑1 (MQ=255)
ccTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAggg < 1:2463365/71‑1 (MQ=255)
tGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTACAAAGGCAc > 1:3325524/1‑71 (MQ=255)
tGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTACAAAGGCAc > 1:3366837/1‑71 (MQ=255)
tGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGAc > 1:467969/1‑71 (MQ=255)
gggggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTA‑AAAGGGAcc > 1:3904245/1‑70 (MQ=255)
ggggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCa < 1:134540/71‑1 (MQ=255)
gggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCaa < 1:353513/71‑1 (MQ=255)
gggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCa > 1:317598/1‑70 (MQ=255)
gTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTACAAAgg < 1:3732973/63‑1 (MQ=255)
gTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCaaaa < 1:759853/71‑1 (MQ=255)
aaaCGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGa < 1:1595823/45‑1 (MQ=255)
aaaCGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTg > 1:838937/1‑71 (MQ=255)
aaaCGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTg > 1:3450809/1‑71 (MQ=255)
tGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGCACCAAAACTGTTGcc < 1:1592419/71‑1 (MQ=255)
ccGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCg > 1:2477889/1‑70 (MQ=255)
cAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTca > 1:1664343/1‑70 (MQ=255)
cgcgTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCa < 1:3465792/71‑1 (MQ=255)
cgcgTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCa < 1:108177/71‑1 (MQ=255)
gcgTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCacac > 1:3088918/1‑68 (MQ=255)
cgTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGa < 1:479214/71‑1 (MQ=255)
gTACGCCGGACGCCCACTTCTTTACCGAACTACGCTACAAAGGCACAAAAAcc > 1:1529866/1‑52 (MQ=255)
gTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAggg < 1:3381511/44‑1 (MQ=255)
gTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGa > 1:591485/1‑45 (MQ=255)
gTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGa > 1:1628907/1‑45 (MQ=255)
gTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGAcc < 1:2224803/47‑1 (MQ=255)
tACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACaa < 1:420838/39‑1 (MQ=255)
tACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACt < 1:217214/71‑1 (MQ=255)
aCCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACaa > 1:2124047/1‑38 (MQ=255)
aCCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGa > 1:894911/1‑68 (MQ=255)
ccccGGATGCTCACTTCTTTACTGAAGTGCGTTACa < 1:3627714/36‑1 (MQ=255)
cccGGATGCTCACTTCTTTACTGAAGTGCGTTACaa < 1:3251747/36‑1 (MQ=255)
cGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGt > 1:1109946/1‑49 (MQ=255)
cGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCt < 1:223840/71‑1 (MQ=255)
ggATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGAcc < 1:3524582/40‑1 (MQ=255)
aTGCTCACTTCTTTACTTAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGaa < 1:2710426/71‑1 (MQ=255)
aTGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGa < 1:1685507/70‑1 (MQ=255)
cTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAAt < 1:2569078/70‑1 (MQ=255)
tCACTTCTTTACTGAAGTGCGTTACAAAGGGACCaa < 1:1687722/36‑1 (MQ=255)
tCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGc > 1:1877977/1‑63 (MQ=255)
tCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGc > 1:2013815/1‑63 (MQ=255)
tCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATc > 1:2709380/1‑70 (MQ=255)
cACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGaa > 1:1332984/1‑66 (MQ=255)
cACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGaa > 1:2469899/1‑66 (MQ=255)
aCTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAAt < 1:1206059/67‑1 (MQ=255)
aCTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGc > 1:975520/1‑70 (MQ=255)
aCTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGc > 1:945253/1‑70 (MQ=255)
aCTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGc > 1:1840944/1‑70 (MQ=255)
aCTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGc > 1:280352/1‑70 (MQ=255)
cttcttTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCa < 1:3150950/71‑1 (MQ=255)
cttTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCaaa > 1:3131431/1‑70 (MQ=255)
cttTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCAAAc > 1:493160/1‑71 (MQ=255)
tttACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCacac < 1:2584679/46‑1 (MQ=255)
tttACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCacac < 1:2742556/46‑1 (MQ=255)
tttACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCaa < 1:2380354/68‑1 (MQ=255)
aCTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCacac > 1:1450416/1‑43 (MQ=255)
aCTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCAAACtgt < 1:357423/70‑1 (MQ=255)
cTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCAAACTGTGc < 1:2708205/71‑1 (MQ=255)
tGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTcac > 1:851099/1‑39 (MQ=255)
|
TCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCCGTCACACCAGACTACGCTGAAATCGCCAAACTGTGC > minE/832281‑832418
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
