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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,919,937:1 |
+C |
81.8% |
coding (714/2634 nt) |
yebT → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,919,937 | 1 | . | C | 81.8%
| 56.9
/ 6.6
| 22 | coding (714/2634 nt) | yebT | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (2/2); new base C (10/8); total (12/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGGTAGCCGTTTCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑G‑AAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCACCAGAA > W3110S.gb/1919874‑1919994
|
aGGTAGCCGTTTCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACt > 1:309635/1‑70 (MQ=255)
gCCGTTTCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGaaa < 1:540927/70‑1 (MQ=255)
ccGTTTCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTG‑‑GCGAAGGT‑GCAAACTGGAAAGCCt < 1:2122112/71‑1 (MQ=255)
tttCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTg < 1:36523/62‑1 (MQ=255)
tttCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTg < 1:1985731/62‑1 (MQ=255)
tttCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTg < 1:1876713/62‑1 (MQ=255)
tCTGGAACGTTTCCGGAGTTGATGCCAACGTCAGTATCAGTGGCGCGAAtgt‑g > 1:2476420/1‑53 (MQ=255)
gTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑G‑AAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGc < 1:133464/71‑1 (MQ=255)
gATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGa > 1:2473841/1‑71 (MQ=255)
gATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGa > 1:1492136/1‑71 (MQ=255)
gATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGa > 1:2653395/1‑71 (MQ=255)
gATGCCAACGTCAGTATCAGTGGCGCCAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACgg > 1:1133569/1‑66 (MQ=255)
ccAACGTCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACt < 1:1430911/53‑1 (MQ=39)
tCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGa > 1:1349735/1‑71 (MQ=255)
tCAGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGa > 1:435048/1‑71 (MQ=255)
aGTATCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGa > 1:1756198/1‑59 (MQ=39)
aTCAGTGGCGCGAAGGTGG‑AAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCAc > 1:289086/1‑71 (MQ=255)
tCAGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCAc > 1:1778074/1‑70 (MQ=255)
tCAGTGGCGCGAAGGT‑G‑AAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCAc > 1:175292/1‑69 (MQ=255)
aGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCAc > 1:816511/1‑68 (MQ=255)
aGTGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCACCag < 1:1625003/71‑1 (MQ=255)
tGGCGCGAAGGT‑GCAAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCACCagaa < 1:322501/71‑1 (MQ=255)
aGGT‑G‑AAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGAtt < 1:81859/54‑1 (MQ=255)
|
AGGTAGCCGTTTCTGGAACGTTTCCGGCGTTGATGCCAACGTCAGTATCAGTGGCGCGAAGGT‑G‑AAACTGGAAAGCCTGGCGGCACTGGTTAACGGTGCGATTGCCTTCGATTCACCAGAA > W3110S.gb/1919874‑1919994
|
| 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
