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 F1 I0 R2
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,343,092 |
C→T |
24.3% |
H273H (CAC→CAT) |
glnL → |
sensory kinase in two‑component regulatory system with GlnG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,343,092 | 0 | C | T | 24.3%
| 62.7
/ 18.7
| 37 | H273H (CAC→CAT) | glnL | sensory kinase in two‑component regulatory system with GlnG |
| Reads supporting (aligned to +/- strand): ref base C (6/22); new base T (4/5); total (10/27) |
| Fisher's exact test for biased strand distribution p-value = 2.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.33e-01 |
GGGGCCGGAAGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTCCGCCTCATT > minE/2343032‑2343159
|
ggggCCGGAAGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAgcgc > 1:410392/1‑70 (MQ=255)
ggggCCGGAAGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAgcgc > 1:2692645/1‑70 (MQ=255)
gCCGGAAGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTAcc < 1:4773836/71‑1 (MQ=255)
gCCGGAAGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTAcc < 1:2132218/71‑1 (MQ=255)
aGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTgg < 1:132895/71‑1 (MQ=255)
aGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTgg < 1:1577981/71‑1 (MQ=255)
aaaTCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGcgcg < 1:3771425/70‑1 (MQ=255)
aaaTCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGcgcg > 1:3719056/1‑70 (MQ=255)
aaTCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGa < 1:1269240/71‑1 (MQ=255)
aaTCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGa < 1:4232620/71‑1 (MQ=255)
aaTCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGa < 1:2868212/71‑1 (MQ=255)
aTCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGAt > 1:966918/1‑71 (MQ=255)
aTTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCTGATTGa < 1:736815/71‑1 (MQ=255)
aTTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGa < 1:2858142/71‑1 (MQ=255)
aTTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGa < 1:3297150/71‑1 (MQ=255)
aTTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGa > 1:3760066/1‑71 (MQ=255)
accGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGAt < 1:2119028/70‑1 (MQ=255)
cgTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAAcgggccg > 1:696390/1‑71 (MQ=255)
tttCAACTGACCTTACATGGCGAGCGCTACCGGCTgg < 1:1231109/37‑1 (MQ=255)
tttCAACTGACCTTACATGGCGAGCGCTACCGGCTgg < 1:2869286/37‑1 (MQ=255)
tttCAACTGACCTTACATGGCGAGCGCTACCGGCTgg < 1:4384648/37‑1 (MQ=255)
tttCAACTGACCTTACATGGCGAGCGCTACCGGCTgg < 1:3480770/37‑1 (MQ=255)
tttCAACTGACCTTACATGGCGAGCGCTACCGGCTgg < 1:4061425/37‑1 (MQ=255)
ttCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGaa < 1:2709391/56‑1 (MQ=255)
ttCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGaa < 1:4448649/56‑1 (MQ=255)
tCAACTGACCTTACATGGCGAGCGCTACCGGCTggcg > 1:771764/1‑37 (MQ=255)
tCAACTGACCTTACATGGCGAGCGCTACCGGCTggcg > 1:5076116/1‑37 (MQ=255)
tCAACTGACCTTACATGGCGAGCGCTACCGGCTggcg > 1:2444355/1‑37 (MQ=255)
tCAACTGACCTTACATGGCGAGCGCTACCGGCTggcg > 1:3635679/1‑37 (MQ=255)
aCTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTc < 1:1850161/71‑1 (MQ=255)
cTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTcc < 1:2385234/71‑1 (MQ=255)
cTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTcc < 1:4020489/71‑1 (MQ=255)
aCCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTCCGc < 1:1383981/70‑1 (MQ=255)
aCCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTCCGc < 1:523933/70‑1 (MQ=255)
aCCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTCCGc < 1:2519822/70‑1 (MQ=255)
ttACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGa < 1:3310841/38‑1 (MQ=255)
ttACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGa < 1:913331/38‑1 (MQ=255)
acacGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAg > 1:3072936/1‑44 (MQ=255)
acacGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCa > 1:3211142/1‑59 (MQ=255)
acacGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCa > 1:628117/1‑59 (MQ=255)
acacGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCa > 1:854362/1‑59 (MQ=255)
acacGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCa > 1:2613749/1‑59 (MQ=255)
acacGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTCCGCCTCAtt > 1:3720226/1‑71 (MQ=255)
|
GGGGCCGGAAGGCGGTGAAATCATTCTGCGTACCCGCACCGCGTTTCAACTGACCTTACACGGCGAGCGCTACCGGCTGGCGGCGCGGATTGATGTGGAAGATAACGGGCCGGGCATTCCGCCTCATT > minE/2343032‑2343159
|
| 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
