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 |
1,882,402 |
G→A |
30.7% |
G244G (GGC→GGT) |
relA ← |
(p)ppGpp synthetase I/GTP pyrophosphokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,882,402 | 0 | G | A | 30.7%
| 92.5
/ 41.9
| 94 | G244G (GGC→GGT) | relA | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| Reads supporting (aligned to +/- strand): ref base G (20/45); new base A (23/6); total (43/51) |
| Fisher's exact test for biased strand distribution p-value = 1.52e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAG > minE/1882341‑1882467
|
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:2200608/68‑1 (MQ=255)
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:1078158/68‑1 (MQ=255)
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:2900846/68‑1 (MQ=255)
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:196666/68‑1 (MQ=255)
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:809253/68‑1 (MQ=255)
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:1710023/68‑1 (MQ=255)
tCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCa < 1:643976/68‑1 (MQ=255)
tCTGAATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGAACATACACTTCCGCTTTAACGCCTTCa < 1:2664282/68‑1 (MQ=255)
cTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAg < 1:2521838/68‑1 (MQ=255)
cTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAg < 1:3031318/68‑1 (MQ=255)
cTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAg < 1:688625/68‑1 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTc < 1:1082936/68‑1 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTc < 1:2172306/68‑1 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTc < 1:199599/68‑1 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTc < 1:3267771/68‑1 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCa > 1:1578815/1‑69 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCa > 1:2714847/1‑69 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCa > 1:2781318/1‑69 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCa > 1:247757/1‑69 (MQ=255)
ttttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCa > 1:1583189/1‑69 (MQ=255)
ttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCAt > 1:1484043/1‑68 (MQ=255)
ttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCAt > 1:2563348/1‑68 (MQ=255)
ttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCAt > 1:2415964/1‑68 (MQ=255)
ttACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCAt > 1:2252410/1‑68 (MQ=255)
ccAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAgc > 1:3351888/1‑69 (MQ=255)
ccAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAgc > 1:3315393/1‑69 (MQ=255)
ccAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAgc > 1:1276040/1‑69 (MQ=255)
aTGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAg < 1:1875347/52‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCa < 1:2499759/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCa < 1:2594890/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCa < 1:1429997/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCa < 1:863065/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCa < 1:531738/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:2312177/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:262711/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:875258/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:3024413/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1278626/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1882531/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1878815/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1285844/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1798290/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:175995/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1744129/69‑1 (MQ=255)
tGCTGTAGATGTGTTTCGGACGACCATACACTTACGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:2426769/69‑1 (MQ=255)
gCTGTAGATGTGTTTCGGTCGACCATACACTTCAGCTTTAACACCTACAGCTTTCATCTCAGCGCGCa < 1:1157505/68‑1 (MQ=255)
gCTGTAGATGTGTTTCGGACGACCATAGACTTCCGCTTTAACGCCTTCa < 1:2582384/49‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:622342/59‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:965747/59‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:3369300/59‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:969798/59‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:2515459/59‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:2339363/59‑1 (MQ=255)
gtgtTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCa < 1:1625744/59‑1 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:1486866/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:3334062/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:163754/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:2025154/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:3396844/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:3423460/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:1224723/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:2155422/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAcaa > 1:942004/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAca > 1:1220239/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGAca > 1:3308541/1‑67 (MQ=255)
gtTTCGGTCGACCATACACTTCAGCTTTAACACCTTCAGCTTTCAACTCAGCGCGCAGATGGCCGAcaa > 1:1750404/1‑67 (MQ=255)
acgacCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCa < 1:1371645/58‑1 (MQ=255)
cacTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAgtg > 1:1543971/1‑69 (MQ=255)
cacTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAgtg > 1:923619/1‑69 (MQ=255)
tCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTcg > 1:1205101/1‑69 (MQ=255)
tCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTcg > 1:3196501/1‑69 (MQ=255)
tCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTcg > 1:2560801/1‑69 (MQ=255)
tCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTcg > 1:2114627/1‑69 (MQ=255)
tCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTcg > 1:3053387/1‑69 (MQ=255)
tttAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCgg > 1:1245528/1‑67 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:3274440/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:2473459/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:1307668/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:798432/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:2774766/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:2800208/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:473241/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:300113/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:1810400/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCga > 1:3186839/1‑69 (MQ=255)
tAACACCTTCAGCTTTCATCTCAGCGCGCAGATGGCCGACAAACTCTTCGATATAGTGTTCGCGGTCg > 1:3069598/1‑68 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgat < 1:2170942/68‑2 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:1600824/68‑1 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:2061310/68‑1 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:2047790/68‑1 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:817783/68‑1 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:2116478/68‑1 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:945470/68‑1 (MQ=255)
aCGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag < 1:1668544/68‑1 (MQ=255)
|
TCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAG > minE/1882341‑1882467
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
