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 |
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%
| 131.8
/ NA
| 34 | R399R (CGG→CGC) | dfp | phosphopantothenoylcysteine synthetase/decarboxylase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (16/18); total (16/18) |
CTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGC > AM260479/3302793‑3303041
|
cTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATg > 2:914588/1‑134 (MQ=255)
ggACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggc > 1:852188/1‑134 (MQ=255)
gacgacAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggcg < 1:285469/134‑1 (MQ=255)
gTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTa > 1:96251/1‑134 (MQ=255)
gTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATg > 2:501168/1‑134 (MQ=255)
cgccgcCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGc < 1:380252/134‑1 (MQ=255)
gACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTccccc < 2:96251/134‑1 (MQ=255)
gACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTccccc < 1:671778/134‑1 (MQ=255)
aCAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCa < 2:215318/134‑1 (MQ=255)
cTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATg < 1:914588/134‑1 (MQ=255)
cTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATg < 1:501168/134‑1 (MQ=255)
gcgcgcCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGAcc > 2:845498/1‑134 (MQ=255)
gcCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGAt > 2:1140056/1‑108 (MQ=255)
gcCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGAt < 1:1140056/108‑1 (MQ=255)
gcCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGc > 2:711771/1‑134 (MQ=255)
ccAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGgcgc < 2:1092546/62‑1 (MQ=255)
ccAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGgcgc > 1:1092546/1‑62 (MQ=255)
cGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGa < 1:711771/134‑1 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAAcc < 1:548736/107‑1 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAAcc > 2:548736/1‑107 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAAc < 2:735566/106‑1 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAAc > 1:735566/1‑106 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCaa > 2:581017/1‑110 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCaa < 1:581017/110‑1 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTc > 2:975626/1‑130 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTc < 1:975626/130‑1 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATg > 1:631415/1‑134 (MQ=255)
gcgcACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATgc < 1:845498/134‑1 (MQ=255)
cacaCGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc < 2:382623/51‑1 (MQ=39)
cacaCGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc < 2:574234/51‑1 (MQ=39)
cacaCGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc > 1:574234/1‑51 (MQ=39)
cacaCGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc < 2:1060639/51‑1 (MQ=39)
cacaCGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc > 1:382623/1‑51 (MQ=39)
cacaCGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc > 1:1060639/1‑51 (MQ=39)
|
CTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGC > AM260479/3302793‑3303041
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ 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
CCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGG > AM260479/3302780‑3303059
|
CCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCG > GWNJ‑0478:712:GW2002102894th:2:2116:8488:19990/1‑150 (MQ=60)
GGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTA < GWNJ‑0478:712:GW2002102894th:2:1201:10434:9580/150‑1 (MQ=60)
GACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTAT > GWNJ‑0478:712:GW2002102894th:2:1106:13595:2361/1‑150 (MQ=60)
ACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGT < GWNJ‑0478:712:GW2002102894th:2:1207:9781:100586/150‑1 (MQ=60)
ggttgtgggtggattctgctttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaggcCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGT < GWNJ‑0478:712:GW2002102894th:2:2211:3194:18296/51‑1 (MQ=60)
ataagagacagAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCC < GWNJ‑0478:712:GW2002102894th:2:2215:4284:76269/138‑1 (MQ=60)
CGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACC < GWNJ‑0478:712:GW2002102894th:2:2107:14840:92720/150‑1 (MQ=60)
GCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtct > GWNJ‑0478:712:GW2002102894th:2:2213:5792:59504/1‑93 (MQ=60)
ACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAAC < GWNJ‑0478:712:GW2002102894th:2:1212:14130:54681/150‑1 (MQ=60)
ACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAAC < GWNJ‑0478:712:GW2002102894th:2:2202:20460:82517/150‑1 (MQ=60)
cgagtgtctcgtgggctcggagatgtgtataagagacaggcCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATC < GWNJ‑0478:712:GW2002102894th:2:1105:19199:99571/109‑1 (MQ=60)
gtataagagacaGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCA < GWNJ‑0478:712:GW2002102894th:2:1214:2487:78571/138‑1 (MQ=60)
aagagacaGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGG < GWNJ‑0478:712:GW2002102894th:2:2101:3693:42400/141‑1 (MQ=60)
GCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:2111:10531:48069/1‑136 (MQ=60)
GCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGC > GWNJ‑0478:712:GW2002102894th:2:2105:11136:57514/1‑150 (MQ=60)
GCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:1216:15118:98806/1‑81 (MQ=60)
GCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:2212:7948:2680/1‑81 (MQ=60)
GCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:1206:9563:15006/1‑81 (MQ=60)
GCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAAT < GWNJ‑0478:712:GW2002102894th:2:2206:10911:37494/150‑1 (MQ=60)
CCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGA < GWNJ‑0478:712:GW2002102894th:2:2109:6466:22165/150‑1 (MQ=60)
GGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATG < GWNJ‑0478:712:GW2002102894th:2:2114:5695:89019/150‑1 (MQ=60)
GCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaataaaaacatattgcccatgaacactct > GWNJ‑0478:712:GW2002102894th:2:2214:9979:67420/1‑40 (MQ=60)
GCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGG > GWNJ‑0478:712:GW2002102894th:2:2114:18784:12486/1‑150 (MQ=60)
|
CCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGG > AM260479/3302780‑3303059
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
