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 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,081,530 |
T→C |
L30L (TTG→CTG) |
h16_A0990 → |
outer membrane protein and related peptidoglycan‑associated (lipo)proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,081,530 | 0 | T | C | 100.0%
| 57.0
/ NA
| 16 | L30L (TTG→CTG) | h16_A0990 | outer membrane protein and related peptidoglycan‑associated (lipo)proteins |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/7); total (9/7) |
GCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTAC > AM260479/1081433‑1081655
|
ccccTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAg > 1:350900/2‑133 (MQ=255)
ccGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc < 2:62713/134‑1 (MQ=255)
cTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCa < 1:80206/117‑1 (MQ=255)
cTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCa > 2:80206/1‑117 (MQ=255)
cTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc > 1:686146/1‑127 (MQ=255)
gACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTgcag > 1:531142/1‑132 (MQ=255)
ccTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGt > 1:841081/1‑134 (MQ=255)
ccGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCAt < 1:661379/134‑1 (MQ=255)
gACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCCACgg > 1:454733/1‑134 (MQ=255)
cGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCg < 1:877934/134‑1 (MQ=255)
tGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTa < 1:755095/106‑1 (MQ=255)
tGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTa > 2:755095/1‑106 (MQ=255)
cGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAgg < 2:190682/134‑1 (MQ=255)
aaGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTggg < 2:350900/134‑1 (MQ=255)
cTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTAc > 1:282354/1‑132 (MQ=255)
cTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTAc > 2:709753/1‑132 (MQ=255)
|
GCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTAC > AM260479/1081433‑1081655
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ 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
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACC > AM260479/1081383‑1081656
|
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCT > GWNJ‑0478:712:GW2002102894th:2:1104:4019:36871/1‑150 (MQ=60)
CGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGG > GWNJ‑0478:712:GW2002102894th:2:1206:5023:30166/1‑149 (MQ=60)
cagcCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGAT < GWNJ‑0478:712:GW2002102894th:2:1107:11166:52344/146‑1 (MQ=60)
C‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:2110:2397:77645/1‑143 (MQ=60)
GTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGC > GWNJ‑0478:712:GW2002102894th:2:2101:16351:57742/1‑148 (MQ=60)
GATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTT > GWNJ‑0478:712:GW2002102894th:2:2205:7859:37786/1‑150 (MQ=60)
GACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCCACGGC > GWNJ‑0478:712:GW2002102894th:2:1212:2628:31720/1‑150 (MQ=60)
GCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCC < GWNJ‑0478:712:GW2002102894th:2:2111:1629:33591/150‑1 (MQ=60)
gtataagagacagggccttGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGC < GWNJ‑0478:712:GW2002102894th:2:2114:4037:67099/130‑1 (MQ=60)
GCTACGATACCCGCGTGCCGCTGGCCCAG‑CCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaagaa > GWNJ‑0478:712:GW2002102894th:2:2215:17769:85774/1‑64 (MQ=60)
ACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACA < GWNJ‑0478:712:GW2002102894th:2:2206:5717:68879/150‑1 (MQ=60)
GTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACC > GWNJ‑0478:712:GW2002102894th:2:1203:2760:76271/1‑148 (MQ=60)
|
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACC > AM260479/1081383‑1081656
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
