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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,616,505 |
C→G |
A45G (GCC→GGC) |
h16_A2404 → |
predicted esterase of the alpha‑beta hydrolase superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,616,505 | 0 | C | G | 95.0%
| 69.1
/ ‑3.0
| 20 | coding (134/921 nt) | h16_A2404 | predicted esterase of the alpha‑beta hydrolase superfamily |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base G (7/12); minor base . (0/1); total (7/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.19e-01 |
CGTCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGCCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCGGCGCGGTCGTGGCGGCGCTTTACGCCAGCG > AM260479/2616381‑2616630
|
cgTCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGgcggcgc > 2:561970/1‑134 (MQ=255)
tCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGgcggcgcgg < 1:611430/134‑1 (MQ=255)
ccTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgc < 1:79907/133‑1 (MQ=255)
ccTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgc < 2:24945/133‑1 (MQ=255)
cTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgcgg < 1:561970/134‑1 (MQ=255)
ggTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCt < 2:548133/133‑1 (MQ=255)
cgcgGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCata > 2:795803/1‑134 (MQ=255)
gctgGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCCCCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgc > 1:593260/1‑109 (MQ=255)
gctgGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgc < 2:593260/109‑1 (MQ=255)
ctCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGa < 1:795803/132‑1 (MQ=255)
ctCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGG‑CGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAgc < 2:5979/134‑1 (MQ=255)
tCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAgc > 1:307433/1‑134 (MQ=255)
gTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAgc < 2:307433/132‑1 (MQ=255)
ccGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgcg > 1:398097/1‑88 (MQ=255)
ccGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGgcgcggcgcgcg < 2:398097/88‑1 (MQ=255)
ccGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGc < 1:836543/133‑1 (MQ=255)
ccGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGc < 1:8072/133‑1 (MQ=255)
aGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAgc > 2:680877/1‑73 (MQ=255)
aGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAgc < 1:680877/73‑1 (MQ=255)
ggCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCGGCGCGGTCGTGGCGGCGCTTTACGCCAGCg > 1:953858/1‑134 (MQ=255)
|
CGTCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGCCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCGGCGCGGTCGTGGCGGCGCTTTACGCCAGCG > AM260479/2616381‑2616630
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
GTCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGCCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCGGCGCGGTCGTGGCGGCGCTTTACGCCAGCGG > AM260479/2616382‑2616631
|
GTCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGgacgcgggccgaacg < GWNJ‑0478:712:GW2002102894th:2:2102:12779:36365/150‑16 (MQ=60)
TCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATC < GWNJ‑0478:712:GW2002102894th:2:1107:5827:7127/149‑1 (MQ=60)
CCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGG < GWNJ‑0478:712:GW2002102894th:2:1216:4254:40147/150‑1 (MQ=60)
ttttctgagagtggtttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCG < GWNJ‑0478:712:GW2002102894th:2:1113:4247:23039/58‑1 (MQ=60)
CTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCCCCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2103:6778:20482/1‑139 (MQ=60)
CTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCG > GWNJ‑0478:712:GW2002102894th:2:1203:20059:49645/1‑150 (MQ=60)
GGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1208:17008:8112/1‑118 (MQ=60)
GCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCA < GWNJ‑0478:712:GW2002102894th:2:2112:13609:54056/148‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGC < GWNJ‑0478:712:GW2002102894th:2:2106:16950:48335/104‑1 (MQ=60)
CCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGG < GWNJ‑0478:712:GW2002102894th:2:1101:16306:53693/149‑1 (MQ=60)
CCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGG < GWNJ‑0478:712:GW2002102894th:2:2114:19673:45764/149‑1 (MQ=60)
GGCCCGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCagcttgttcagctggaagccattcagtc < GWNJ‑0478:712:GW2002102894th:2:2107:15463:64751/150‑29 (MQ=60)
CGTCAAGATCGGCCTGGCGCTGGGCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCGGCGCGGTCGTGGCGGCGCTTTACGCCAGCGG > GWNJ‑0478:712:GW2002102894th:2:2209:14527:17971/1‑150 (MQ=60)
|
GTCATTTCCTCGGTATCTCCGCGGCCGCCCTGCTGGCGGGCTGCTCGTTCGGCCCGCGTCCCGCGCCGCCGCTCGCCACCACCCCGCCCGCGCCGCGGCCCGTCAAGATCGGCCTGGCGCTGGCCGGCGGCGCGGCGCGCGGCTTTGCCCATATCGGCGTGATCAAGGCGCTCGAAGCGCAAGGCATCCATGCCGACCTGGTCACCGGCACCAGCGCCGGCGCGGTCGTGGCGGCGCTTTACGCCAGCGG > AM260479/2616382‑2616631
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
