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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,011,234 |
A→G |
22.7% |
H221R (CAC→CGC) |
rstB → |
sensory histidine kinase in two‑component regulatory system with RstA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,011,234 | 0 | A | G | 22.7%
| 80.7
/ 24.1
| 44 | H221R (CAC→CGC) | rstB | sensory histidine kinase in two‑component regulatory system with RstA |
| Reads supporting (aligned to +/- strand): ref base A (15/19); new base G (4/6); total (19/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.14e-01 |
TTTAACCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAGCGCCG > minE/1011164‑1011299
|
tttAACCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCa > 1:708556/1‑71 (MQ=255)
tAACCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCAc > 1:2005648/1‑70 (MQ=255)
aaCCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACg < 1:1802833/70‑1 (MQ=255)
aCCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGa < 1:1082935/70‑1 (MQ=255)
aCCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGa < 1:1271160/70‑1 (MQ=255)
cAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACg < 1:1961428/67‑1 (MQ=255)
aTGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGaa > 1:725849/1‑66 (MQ=255)
tGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCg > 1:876498/1‑70 (MQ=255)
cAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAACTGCGAACACCGt < 1:1457062/71‑1 (MQ=255)
aaTATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAACTGCGAACACCGtt < 1:1303553/71‑1 (MQ=255)
tatCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAg > 1:1937978/1‑71 (MQ=255)
atCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAacac > 1:644303/1‑64 (MQ=255)
atCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGt > 1:1813327/1‑71 (MQ=255)
tCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTg > 1:987227/1‑71 (MQ=255)
aaCGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTgc > 1:840480/1‑70 (MQ=255)
aCGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGaa > 1:1211401/1‑50 (MQ=255)
cGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAACTGCGAACACCGTTAGTGCGcc < 1:1809332/71‑1 (MQ=255)
cGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAACTGCGAACACCGTTAGTGCGcc > 1:1233321/1‑71 (MQ=255)
ccTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAACTGCGAACACCGTTAGTGCGCCTg > 1:800856/1‑71 (MQ=255)
ccTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGaa > 1:820489/1‑54 (MQ=255)
aTTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAACTGCGAACACCGTTAGTGCGCCTGCGTTa < 1:629910/71‑1 (MQ=255)
ttGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCGCGAAc < 1:417709/42‑1 (MQ=255)
gCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGaa > 1:543158/1‑46 (MQ=255)
ccAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGa < 1:466590/71‑1 (MQ=255)
aaaaaaCAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGga < 1:1097928/71‑1 (MQ=255)
aaaaaaCAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCAACTg > 1:691295/1‑69 (MQ=255)
aaaaCAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTg > 1:2087960/1‑67 (MQ=255)
gCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCg < 1:334270/71‑1 (MQ=255)
cTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATc < 1:2023752/55‑1 (MQ=255)
cTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGa < 1:1164204/71‑1 (MQ=255)
cTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGa < 1:115293/71‑1 (MQ=255)
cTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGa < 1:173471/71‑1 (MQ=255)
cTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGa < 1:212699/71‑1 (MQ=255)
ttATTGACGGTATCGCTCGCGAACTGCGAACACCGTTAGTGCGCCTGCGTTa < 1:632549/52‑1 (MQ=255)
tATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGAt > 1:1341751/1‑70 (MQ=255)
aTTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATa < 1:977546/70‑1 (MQ=255)
ttGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAAc < 1:773458/71‑1 (MQ=255)
aCGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCt < 1:1566613/70‑1 (MQ=255)
tATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGtt < 1:304736/41‑1 (MQ=255)
tATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAgcg < 1:1107504/71‑1 (MQ=255)
aTCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAgcgc > 1:341780/1‑71 (MQ=255)
aTCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAgcgc > 1:339178/1‑71 (MQ=255)
aTCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAgcgc > 1:1292024/1‑71 (MQ=255)
tCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCg < 1:898762/43‑1 (MQ=255)
gCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAGcgccg < 1:1027985/70‑1 (MQ=255)
|
TTTAACCAGATGGCGGACAATATCAACGCCTTAATTGCCAGCAAAAAACAGCTTATTGACGGTATCGCTCACGAACTGCGAACACCGTTAGTGCGCCTGCGTTATCGACTGGAGATGAGCGATAACCTGAGCGCCG > minE/1011164‑1011299
|
| 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
