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 |
|
A0 F0 I1 R1
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,295,879 |
T→A |
Q603L (CAG→CTG) |
h16_B2042 ← |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,295,879 | 0 | T | A | 100.0%
| 20.7
/ NA
| 7 | Q603L (CAG→CTG) | h16_B2042 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (3/4); total (3/4) |
GTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCTGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCGG > AM260480/2295781‑2295946
|
gTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGt < 1:497909/134‑1 (MQ=255)
cgcgTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATctg < 1:66377/97‑1 (MQ=255)
cgcgTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATctg > 2:66377/1‑97 (MQ=255)
cGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACctgctgctg < 1:1059685/95‑1 (MQ=255)
cGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACctgctgctg > 2:1059685/1‑95 (MQ=255)
cGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCgg < 1:758057/128‑1 (MQ=255)
cGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCgg > 2:758057/1‑128 (MQ=255)
gCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCgctgcagc < 1:241832/44‑1 (MQ=255)
gCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCgctgcagc > 2:241832/1‑44 (MQ=255)
|
GTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCTGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCGG > AM260480/2295781‑2295946
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTTGCTGGTCGCGGGCCTGGTCCTGCCACTGGCGTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCTGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCGGGTCGGCCGGTCCGCCCGGCTGGCCCGGCTGGCCAACAAAGCCGCGGGCTTCGTCGGGCCGGCTGCTCTGGCC > AM260480/2295748‑2296018
|
tttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGC < GWNJ‑0478:712:GW2002102894th:2:1115:6400:84993/74‑1 (MQ=60)
cggagatgtgtataagagacagGGCGTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAAC < GWNJ‑0478:712:GW2002102894th:2:1104:3528:21874/127‑1 (MQ=60)
GGTCCTGCCACTGGCGTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCctgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:1209:18349:87125/1‑131 (MQ=60)
gctcggagatgtgtataagagacaGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCC < GWNJ‑0478:712:GW2002102894th:2:2212:19025:92712/126‑1 (MQ=60)
CGTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCC < GWNJ‑0478:712:GW2002102894th:2:1212:17852:24481/150‑1 (MQ=60)
GTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCGGGccagccgggcggac < GWNJ‑0478:712:GW2002102894th:2:2113:1553:3635/148‑15 (MQ=60)
GCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCAGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGACCGGCTGGCCAACAAAGCCGCGGGCTTCGTCGGGCCGGCTGCTCTGGCC < GWNJ‑0478:712:GW2002102894th:2:2212:10543:30354/150‑1 (MQ=60)
GTTCCCGCTGCAGCTCCATCTTCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCGGGTCGGCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgct > GWNJ‑0478:712:GW2002102894th:2:2202:12595:15732/1‑86 (MQ=60)
|
GTTGCTGGTCGCGGGCCTGGTCCTGCCACTGGCGTTGCTGGGCGTCGCGTTGCCGGGCCTCCTGCTGTTGCCGCTGCAGATCAGGCGCCTGCCGCTGCTGCTCGCGCAGCGCGCGCTGCTGTTCCCGCTGCTGCTCCATCTGCTGGCGCTGCAAAACCTGCTGCTGTTCGCGCTGCATGCCCTGCGCCCGCCGTTGCGGGTCGGCCGGTCCGCCCGGCTGGCCCGGCTGGCCAACAAAGCCGCGGGCTTCGTCGGGCCGGCTGCTCTGGCC > AM260480/2295748‑2296018
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
