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 |
|
A3 F1 I1 R1
|
502 |
34.8 |
1912488 |
98.2% |
1878063 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,345,527 |
T→C |
Y271H (TAT→CAT) |
rpoN → |
RNA polymerase, sigma 54 (sigma N) factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,345,527 | 0 | T | C | 97.9%
| 163.4
/ NA
| 48 | Y271H (TAT→CAT) | rpoN | RNA polymerase, sigma 54 (sigma N) factor |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (30/17); minor base G (0/1); total (30/18) |
| Fisher's exact test for biased strand distribution p-value = 3.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCATTCCGCG > NC_000913/3345449‑3345603
|
gtgCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCAt > 2:625050/1‑81 (MQ=255)
tgCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATg > 1:625051/1‑81 (MQ=255)
tgCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATg < 1:624996/81‑1 (MQ=255)
gCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGt > 2:625046/1‑81 (MQ=255)
gAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCAt > 1:625049/1‑81 (MQ=255)
aaaGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCa < 1:624997/79‑1 (MQ=255)
aaaGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCAtt > 2:625083/1‑81 (MQ=255)
aagaagCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTc > 2:625054/1‑81 (MQ=255)
gaagCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCa < 2:624998/81‑1 (MQ=255)
agCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTc > 1:625053/1‑77 (MQ=255)
gCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGAt > 1:625059/1‑81 (MQ=255)
gTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGAtgtg > 1:625043/1‑81 (MQ=255)
gTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGAtgtg > 1:625077/1‑81 (MQ=255)
aaTCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCt < 1:625000/80‑1 (MQ=255)
aaTCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTg > 2:625063/1‑81 (MQ=255)
aaTCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTg < 1:624999/81‑1 (MQ=255)
aTCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTgg > 2:625048/1‑81 (MQ=255)
tGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGc > 1:625057/1‑81 (MQ=255)
aTCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGt < 2:625001/77‑1 (MQ=255)
aTCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCg > 2:625052/1‑80 (MQ=255)
aTCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCg > 2:625078/1‑80 (MQ=255)
gCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGGGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATaa < 1:625002/81‑1 (MQ=255)
gCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATaa > 1:625079/1‑81 (MQ=255)
tCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACg > 2:625084/1‑81 (MQ=255)
cGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACgg > 2:625067/1‑81 (MQ=255)
gATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGt > 1:625047/1‑81 (MQ=255)
gATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGt > 2:625003/1‑81 (MQ=255)
gATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGt > 2:625062/1‑81 (MQ=255)
aTCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGt > 2:625065/1‑80 (MQ=255)
ccGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCAc > 2:625056/1‑81 (MQ=255)
ccccGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGAc < 2:625004/81‑1 (MQ=255)
cGGGCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGt < 1:625005/81‑1 (MQ=255)
gggCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTa < 2:625006/81‑1 (MQ=255)
ggCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACgg > 1:625068/1‑78 (MQ=255)
gCAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGa < 2:625007/81‑1 (MQ=255)
cAGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGaa < 1:625008/81‑1 (MQ=255)
aGTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAAc < 1:625009/81‑1 (MQ=255)
gTCGATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACt > 2:625060/1‑81 (MQ=255)
gATCCAGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCa < 1:625010/80‑1 (MQ=255)
aGACTGGCGAACCTGAGGATGTAATTCCAGATGTGCTGGTGCGTAAGCATAAAGGTCACTGGACGGTAGAACTCAACAGTg < 2:625012/81‑1 (MQ=255)
aGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGt > 1:625069/1‑80 (MQ=255)
aGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGt > 2:625073/1‑80 (MQ=255)
aGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTg < 1:625011/81‑1 (MQ=255)
aGACTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTg < 2:625013/81‑1 (MQ=255)
aCTGGCGAACCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGAc < 2:625014/81‑1 (MQ=255)
aCCTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCATTcc > 1:625075/1‑81 (MQ=255)
cTGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCATTCcgc > 2:625070/1‑81 (MQ=255)
tGAGCATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCATTCcgcg > 1:625061/1‑81 (MQ=255)
|
GTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGGCGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCATTCCGCG > NC_000913/3345449‑3345603
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
