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 |
3,302,920 |
+C |
coding (1199/1251 nt) |
dfp → |
phosphopantothenoylcysteine synthetase/decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,302,918 | 1 | . | C | 100.0%
| 54.2
/ NA
| 15 | R399R (CGG→CGC) | dfp | phosphopantothenoylcysteine synthetase/decarboxylase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (6/9); total (6/9) |
GGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGAT > AM260479/3302795‑3303039
|
ggACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggc > 2:682737/1‑134 (MQ=255)
gacgacAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggcg < 2:1022421/134‑1 (MQ=255)
gacgacAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggcg < 2:93339/134‑1 (MQ=255)
acgacAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggcgg < 1:217954/134‑1 (MQ=255)
acgacAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggcgg < 1:955120/134‑1 (MQ=255)
gACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATgcgc < 2:506968/133‑1 (MQ=255)
ccgccgGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTg < 1:443906/134‑1 (MQ=255)
cATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTa > 2:133309/1‑134 (MQ=255)
ccAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGAttt > 1:799443/1‑109 (MQ=255)
ccAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGAttt < 2:799443/109‑1 (MQ=255)
gCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACt > 2:247644/1‑134 (MQ=255)
cGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAAcc < 1:1016784/86‑1 (MQ=255)
cGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAAcc > 2:1016784/1‑86 (MQ=255)
cccGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTc < 1:247644/134‑1 (MQ=255)
gggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGAt > 2:356495/1‑134 (MQ=255)
|
GGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGAT > AM260479/3302795‑3303039
|
| 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
GACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGC > AM260479/3302796‑3303060
|
GACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTAT < GWNJ‑0478:712:GW2002102894th:2:1115:3912:70573/150‑1 (MQ=60)
GACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTAT < GWNJ‑0478:712:GW2002102894th:2:2212:5243:35253/150‑1 (MQ=60)
atcatctgttttttattttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcatgggctcggagatgtgtataagagacaggcCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTC < GWNJ‑0478:712:GW2002102894th:2:1111:14477:50567/48‑1 (MQ=60)
tttgatttttttttctttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaggcCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTC < GWNJ‑0478:712:GW2002102894th:2:2204:18919:82157/48‑1 (MQ=60)
GCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTG < GWNJ‑0478:712:GW2002102894th:2:1213:4561:71469/150‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGAT < GWNJ‑0478:712:GW2002102894th:2:2215:5337:67565/116‑1 (MQ=60)
caagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaggcCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACC < GWNJ‑0478:712:GW2002102894th:2:1104:9908:75627/82‑1 (MQ=60)
GCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCActgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2203:9083:51027/1‑139 (MQ=60)
GCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAAT < GWNJ‑0478:712:GW2002102894th:2:1116:7676:35196/150‑1 (MQ=60)
agacaggcCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGC < GWNJ‑0478:712:GW2002102894th:2:1211:2453:100437/142‑1 (MQ=60)
|
GACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGC > AM260479/3302796‑3303060
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
