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 F21 I0 R1
|
148 |
22.8 |
1772010 |
97.0% |
1718849 |
61.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
429,850 |
T→C |
70.6% |
Y8H (TAT→CAT) |
yajD → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 429,850 | 0 | T | C | 70.6%
| 22.1
/ 8.0
| 17 | Y8H (TAT→CAT) | yajD | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (3/2); new base C (4/8); total (7/10) |
| Fisher's exact test for biased strand distribution p-value = 5.93e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCG > W3110S.gb/429784‑429914
|
ttGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATgc > 1:898274/1‑71 (MQ=255)
gAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATGATCCCAAAAAACCATGCGCgg > 1:1690446/1‑71 (MQ=255)
gAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCgg < 1:927161/71‑1 (MQ=255)
gcgcGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGa > 1:535553/1‑70 (MQ=255)
cgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGc < 1:433222/71‑1 (MQ=255)
aCCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGc < 1:999876/70‑1 (MQ=255)
tACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATcg > 1:1606122/1‑71 (MQ=255)
tttCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGa > 1:692226/1‑70 (MQ=255)
cAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCAt > 1:1615357/1‑71 (MQ=255)
ggCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGt > 1:272879/1‑71 (MQ=255)
gCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGt < 1:992966/70‑1 (MQ=255)
atcatcCCAAAAAACCATGCGCGGTTAGAAAGCGGc < 1:1556111/36‑1 (MQ=255)
atcatcCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTa < 1:574392/62‑1 (MQ=255)
tcatcCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGaaa < 1:1031671/45‑1 (MQ=255)
atcCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCt < 1:858661/70‑1 (MQ=255)
ccAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATcc < 1:1115306/59‑1 (MQ=255)
aaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATAAAAAATCTATCCGTGGGTCTGCGGTCg < 1:46054/71‑1 (MQ=255)
|
TTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCG > W3110S.gb/429784‑429914
|
| 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
