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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,056,947 |
+G |
intergenic (+211/‑15) |
h16_A0964 → / → h16_A0965 |
conserved hypothetical protein/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,056,945 | 1 | . | G | 100.0%
| 78.3
/ NA
| 21 | intergenic (+209/‑17) | h16_A0964/h16_A0965 | conserved hypothetical protein/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (7/14); total (7/14) |
TTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTG > AM260479/1056823‑1057057
|
ttGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGccgcccg < 2:155948/133‑1 (MQ=255)
gCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGccgcccgc > 1:173544/1‑132 (MQ=255)
cAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTgcg < 1:590602/134‑1 (MQ=255)
cAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTgcg < 1:418300/134‑1 (MQ=255)
gccgGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCAc > 1:1113561/1‑132 (MQ=255)
gccgGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGa < 1:641592/134‑1 (MQ=255)
gCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGt < 2:425191/134‑1 (MQ=255)
ggaggGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTgcg > 1:351986/1‑88 (MQ=255)
ggaggGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTgcg < 2:351986/88‑1 (MQ=255)
gggcgggcAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGaaa < 1:1060279/134‑1 (MQ=255)
gggcAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATcag < 2:1113561/134‑1 (MQ=255)
gCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGcc < 1:130077/133‑1 (MQ=255)
aCTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGaaa > 1:766543/1‑109 (MQ=255)
aCTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGaaa < 2:766543/109‑1 (MQ=255)
cTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATcag < 1:575588/112‑1 (MQ=255)
cTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATcag > 2:575588/1‑112 (MQ=255)
aGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTg < 2:173544/134‑1 (MQ=255)
ccGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTc < 2:1149723/85‑1 (MQ=255)
ccGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTc > 1:1149723/1‑85 (MQ=255)
gcgAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAgg < 1:296922/105‑1 (MQ=255)
gcgAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAgg > 2:296922/1‑105 (MQ=255)
|
TTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTG > AM260479/1056823‑1057057
|
| 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
GCATTAGCTTCTGTTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTGCCGC > AM260479/1056810‑1057061
|
GCATTAGCTTCTGTTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCC > GWNJ‑0478:712:GW2002102894th:2:1110:3493:18995/1‑148 (MQ=60)
ATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGgcctgtctcttatacacatctccgagcccac > GWNJ‑0478:712:GW2002102894th:2:1216:6447:80881/1‑119 (MQ=60)
GCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACG > GWNJ‑0478:712:GW2002102894th:2:2214:17895:65266/1‑148 (MQ=60)
GCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGC < GWNJ‑0478:712:GW2002102894th:2:1208:17627:81276/150‑1 (MQ=60)
GCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGC < GWNJ‑0478:712:GW2002102894th:2:2101:8747:49703/150‑1 (MQ=60)
CGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGT < GWNJ‑0478:712:GW2002102894th:2:2105:18905:70594/150‑1 (MQ=60)
nnnnnnnnngnnnACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAAC < GWNJ‑0478:712:GW2002102894th:2:1111:17223:101299/136‑1 (MQ=60)
GGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1204:20640:2386/1‑118 (MQ=60)
AGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCC < GWNJ‑0478:712:GW2002102894th:2:2210:18637:100490/150‑1 (MQ=60)
agagacAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGT < GWNJ‑0478:712:GW2002102894th:2:1216:8831:62150/144‑1 (MQ=60)
GCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2110:6644:79535/1‑139 (MQ=60)
gtgtataagagacagCTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGC < GWNJ‑0478:712:GW2002102894th:2:1201:2569:65457/135‑1 (MQ=60)
GGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGG < GWNJ‑0478:712:GW2002102894th:2:1108:12966:83403/149‑1 (MQ=60)
GGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCctgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:2216:7392:35793/1‑115 (MQ=60)
|
GCATTAGCTTCTGTTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTGCCGC > AM260479/1056810‑1057061
|
| 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: ‑ |
