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 |
|
A5 F1 I1 R1
|
81 |
47.9 |
2225048 |
94.8% |
2109345 |
113.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,194,362 |
(G)6→7 |
coding (1499/1662 nt) |
yqiK → |
PHB family membrane protein, function unknown |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,194,356 | 1 | . | G | 93.8%
| 106.0
/ 0.5
| 32 | coding (1493/1662 nt) | yqiK | PHB family membrane protein, function unknown |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base G (15/15); total (16/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.49e-01 |
CCTTGTTGCAGGCGCTGCCTGCGGTAATAGAGAAATCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGT‑GGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAGGCGGCTCACTGGCGGCATTGACTTCACCC > NC_000913/3194224‑3194486
|
ccTTGTTGCAGGCGCTGCCTGCGGTAATAGAGAAATCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGT‑gggggg > 2:765555/1‑139 (MQ=255)
cTTGTTGCAGGCGCTGCCTGCGGTAATAGAGAAATCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGT‑ggggggg < 1:765555/139‑2 (MQ=255)
cgcTGCCTGCGGTAATAGAGAAATCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTgg < 2:647145/139‑1 (MQ=255)
aaTCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCg < 1:830023/139‑1 (MQ=255)
tCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCTTTATCAGCCGct < 2:10011/139‑1 (MQ=255)
ttGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCgg > 2:17584/1‑115 (MQ=255)
ttGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCgg < 1:17584/115‑1 (MQ=255)
tGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGctctctc > 2:534951/1‑139 (MQ=255)
aTGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGc > 2:901897/1‑139 (MQ=255)
cAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAgg < 1:959782/139‑1 (MQ=255)
aTCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGAtt < 2:548706/139‑1 (MQ=255)
aTCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGAtt < 1:800341/139‑1 (MQ=255)
attCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTgg > 1:1040869/1‑77 (MQ=255)
attCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTgg < 2:1040869/77‑1 (MQ=255)
attCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGct > 1:83158/1‑100 (MQ=255)
attCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGct < 2:83158/100‑1 (MQ=255)
gTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCAc < 1:261878/116‑1 (MQ=255)
gTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCAc > 2:261878/1‑116 (MQ=255)
tGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAAt > 2:5964/1‑139 (MQ=255)
gAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGt > 1:721370/1‑139 (MQ=255)
tGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCg > 1:452889/1‑75 (MQ=255)
tGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCg < 2:452889/75‑1 (MQ=255)
tGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAgg > 2:991690/1‑139 (MQ=255)
tGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAgg > 1:899177/1‑139 (MQ=255)
tGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAgg < 1:163913/139‑1 (MQ=255)
tGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCCCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAgg > 1:681001/1‑139 (MQ=255)
ggcggcGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCAc > 2:599542/1‑98 (MQ=255)
ggcggcGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCAc < 1:599542/98‑1 (MQ=255)
ggcggcGCTGCGGGTGATGCAAACACGGGTAATGT‑GGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCAc > 2:676464/1‑97 (MQ=255)
ggcggcGCTGCGGGTGATGCAAACACGGGTAATGT‑GGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCAc < 1:676464/97‑1 (MQ=255)
gcgcTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAAc > 2:480397/1‑55 (MQ=255)
gcgcTGCGGGTGATGCAAACACGGGTAATGTGGGGGGGCGGAAACCTGGCGGAAc < 1:480397/55‑1 (MQ=255)
acGGGTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAGGCGGCTCACTGGCGGCATTGACTTCa < 2:138214/139‑1 (MQ=255)
ggTAATGTGGGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAGGCGGCTCACTGGCGGCATTGACTTCAccc > 2:1064747/1‑139 (MQ=255)
|
CCTTGTTGCAGGCGCTGCCTGCGGTAATAGAGAAATCCGTTGAGCCGATGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGT‑GGGGGGCGGAAACCTGGCGGAACAAGCATTATCAGCCGCTCTCTCTTACCGCACACAGGCACCGCTGATTGACTCCTTGCTCAATGAAATTGGCGTTTCAGGCGGCTCACTGGCGGCATTGACTTCACCC > NC_000913/3194224‑3194486
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
