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 |
|
A61 F1 I1 R1
|
19 |
50.7 |
3232285 |
96.8% |
3128851 |
74.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,465,147 |
T→A |
D41V (GAT→GTT) |
ompR ← |
osmolarity response regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,465,147 | 0 | T | A | 96.8%
| 245.8
/ ‑3.8
| 62 | D41V (GAT→GTT) | ompR | osmolarity response regulator |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base A (31/29); total (32/30) |
| 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 |
AAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGATCCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCCAGCAGCG > REL606/3465078‑3465216
|
aaGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATc < 2:1521750/75‑1 (MQ=255)
ccATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGt < 1:798867/75‑1 (MQ=255)
aTCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTc < 2:623493/75‑1 (MQ=255)
tCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCt > 1:1148648/1‑75 (MQ=255)
tCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCt < 1:768622/75‑1 (MQ=255)
tCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCt > 1:1397297/1‑75 (MQ=255)
ttCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGc > 2:1078926/1‑75 (MQ=255)
aCCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCAtt < 1:8771/75‑1 (MQ=255)
ccAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTa > 2:1369246/1‑75 (MQ=255)
ccAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTa > 2:264637/1‑75 (MQ=255)
cAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAg < 1:891834/75‑1 (MQ=255)
aGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGATCCATCTGTTCTGCATTAGc > 2:1538166/1‑75 (MQ=255)
aGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGc > 1:520684/1‑75 (MQ=255)
aGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGc > 2:703547/1‑75 (MQ=255)
tAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGAc < 1:819755/75‑1 (MQ=255)
aCATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGc > 1:512467/1‑75 (MQ=255)
aTTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCtt > 2:333652/1‑75 (MQ=255)
aTTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCtt > 2:333663/1‑75 (MQ=255)
ttAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTc < 2:1148648/75‑1 (MQ=255)
ttAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTc > 1:498381/1‑75 (MQ=255)
aaaTCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGa < 1:134213/75‑1 (MQ=255)
aaaTCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGa < 2:876765/75‑1 (MQ=255)
aaTCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGaa > 1:971047/1‑75 (MQ=255)
aaTCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGaa < 1:670148/75‑1 (MQ=255)
aaTCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGaa < 1:1086256/75‑1 (MQ=255)
aTCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAAc > 1:1096123/1‑75 (MQ=255)
tCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAAcc < 1:1185947/75‑1 (MQ=255)
ccACTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCt < 2:1461423/75‑1 (MQ=255)
aGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTgg < 2:1379714/75‑1 (MQ=255)
gTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGa > 1:1500382/1‑75 (MQ=255)
tcccAGAAGATGGAAAGATTCACGAGTCAGCAGGCGATCCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGaa < 2:614412/73‑1 (MQ=255)
tACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGaa < 1:1371517/75‑1 (MQ=255)
ccATAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGc > 2:485601/1‑75 (MQ=255)
aTAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCt > 1:794727/1‑75 (MQ=255)
aTAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCt > 2:597891/1‑75 (MQ=255)
tAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCtt < 2:819016/75‑1 (MQ=255)
tAAGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCtt > 1:645430/1‑75 (MQ=255)
aGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGt < 1:840668/75‑1 (MQ=255)
aGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGt < 2:222817/75‑1 (MQ=255)
aGATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGt > 2:1510542/1‑75 (MQ=255)
gATGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGtt < 1:600698/75‑1 (MQ=255)
tGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCg < 1:1403882/75‑1 (MQ=255)
tGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCg > 1:571069/1‑75 (MQ=255)
tGGAAAGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCg > 2:1599918/1‑75 (MQ=255)
aGATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTgag > 1:1297155/1‑75 (MQ=255)
gATTCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTgaga > 1:992437/1‑75 (MQ=255)
ttCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATa < 2:964481/75‑1 (MQ=255)
ttCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATa > 1:788385/1‑75 (MQ=255)
ttCACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATa < 2:1186051/75‑1 (MQ=255)
tgcACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATa < 1:166679/73‑1 (MQ=255)
cACGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAAc > 1:39804/1‑75 (MQ=255)
cGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGt > 1:1587630/1‑75 (MQ=255)
cGAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGt > 2:1311927/1‑75 (MQ=255)
gAGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGtt > 1:536027/1‑75 (MQ=255)
aGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTc > 2:1501705/1‑75 (MQ=255)
aGTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTc < 1:964751/75‑1 (MQ=255)
gTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTcc > 1:171397/1‑75 (MQ=255)
gTCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTcc < 2:1110584/75‑1 (MQ=255)
tCAGCAGGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCca < 2:498487/75‑1 (MQ=255)
gcagGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCcagca > 1:43462/1‑75 (MQ=255)
cagGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCcagcag < 1:1458672/75‑1 (MQ=255)
cagGCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCcagcag < 1:787070/75‑1 (MQ=255)
ggCGAACCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCCAGCAgcg < 2:1285978/75‑1 (MQ=255)
|
AAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGATCCATCTGTTCTGCATTAGCGACGCTTCGAACCTGGAAGCCTTGTTCGGTGAGATAACGTTCCAGCAGCG > REL606/3465078‑3465216
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
