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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
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%
| 80.0
/ NA
| 22 | R399R (CGG→CGC) | dfp | phosphopantothenoylcysteine synthetase/decarboxylase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (10/12); total (10/12) |
CTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGC > AM260479/3302793‑3303045
|
cTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATg > 1:203121/1‑134 (MQ=255)
cTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATg > 2:839099/1‑134 (MQ=255)
ggACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATggc > 1:760080/1‑134 (MQ=255)
cGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCgg > 2:325686/1‑133 (MQ=255)
cTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCa < 1:613379/134‑1 (MQ=255)
aCGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCgg < 1:218765/134‑1 (MQ=255)
ccgGCATGACGCGGCTGCCGCGCGCCGACAAGCGGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGAGGGCGGGCGTGCGTCCGGTATCATGCGCGGCTGCCa < 2:703794/134‑1 (MQ=255)
ggCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCAcc > 2:49307/1‑134 (MQ=255)
cgGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGtt < 2:203121/134‑1 (MQ=255)
cgcgcgCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGa > 1:154684/1‑134 (MQ=255)
gcCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATgcgc > 1:830933/1‑103 (MQ=255)
gcCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATgcgc < 2:830933/103‑1 (MQ=255)
cGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTcccc < 1:325686/134‑1 (MQ=255)
gACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTccccc < 2:227128/134‑1 (MQ=255)
cTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATg < 2:760080/134‑1 (MQ=255)
ccAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGtt > 2:399277/1‑99 (MQ=255)
ccAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGtt < 1:399277/99‑1 (MQ=255)
tCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGcgcgcg > 2:210090/1‑48 (MQ=38)
tCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGcgcgcg < 1:210090/48‑1 (MQ=38)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGa < 1:48868/132‑1 (MQ=255)
ggCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGa > 2:48868/1‑132 (MQ=255)
acacGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATgcgcgc < 1:839099/134‑1 (MQ=255)
|
CTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGC > AM260479/3302793‑3303045
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TATCGGCCACCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGCCTGCCC > AM260479/3302771‑3303066
|
gtagctccgtctcgtgggctcggagacgtgtataagagtcagGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CC < GWNJ‑0478:712:GW2002102894th:2:2213:7414:82560/108‑1 (MQ=60)
CCACCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATG < GWNJ‑0478:712:GW2002102894th:2:2212:8893:87716/150‑1 (MQ=60)
CACCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGG > GWNJ‑0478:712:GW2002102894th:2:1112:20175:98331/1‑150 (MQ=60)
CCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCG > GWNJ‑0478:712:GW2002102894th:2:2116:12837:60349/1‑150 (MQ=60)
ATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGG < GWNJ‑0478:712:GW2002102894th:2:1210:16264:33197/150‑1 (MQ=60)
tttttcaagcagaagacggcatacgagttgtagctccgtctcgtgggctcggagatgtgtataagagacagAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGC < GWNJ‑0478:712:GW2002102894th:2:1115:7374:38503/78‑1 (MQ=60)
GCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACC < GWNJ‑0478:712:GW2002102894th:2:2106:4650:77720/150‑1 (MQ=60)
GACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCG < GWNJ‑0478:712:GW2002102894th:2:1115:13228:87973/150‑1 (MQ=60)
GCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGAT > GWNJ‑0478:712:GW2002102894th:2:1110:14556:8521/1‑150 (MQ=60)
gccaccagctgGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCtgtctcttatacacat > GWNJ‑0478:712:GW2002102894th:2:2205:14223:34977/12‑134 (MQ=60)
ggagatgtgtataagagacagGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCC < GWNJ‑0478:712:GW2002102894th:2:1211:7635:49243/129‑1 (MQ=60)
CCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGAC < GWNJ‑0478:712:GW2002102894th:2:1204:10393:92854/150‑1 (MQ=60)
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCC < GWNJ‑0478:712:GW2002102894th:2:2207:3519:36296/100‑1 (MQ=60)
catacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAAC < GWNJ‑0478:712:GW2002102894th:2:1207:12862:54552/98‑1 (MQ=60)
GCCCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtct > GWNJ‑0478:712:GW2002102894th:2:2104:12541:5303/1‑93 (MQ=60)
CCGGGCGCACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGA < GWNJ‑0478:712:GW2002102894th:2:1102:15218:35448/150‑1 (MQ=60)
CACACGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGC < GWNJ‑0478:712:GW2002102894th:2:2205:17438:87404/150‑1 (MQ=60)
CGGCCCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtctcctgcttgaaacaaaaaacctccttcatggacaatctgc > GWNJ‑0478:712:GW2002102894th:2:2114:20014:16713/1‑53 (MQ=60)
GC‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGCCTGCCC < GWNJ‑0478:712:GW2002102894th:2:2112:17064:21093/150‑1 (MQ=60)
|
TATCGGCCACCATACCTTCGGCCTGGACGACAACGAAATCGTGCTGTTCGACGCCGCCGGCATGACGCGGCTGCCGCGCGCCGACAAGCTGTCACTGGCGCGCCAGCTGGTGGCGGCGATCGGCCAGCGCCTGCCCGGGCGCACACGG‑CCTGATGGCGGGCGCGCGTCCGGTATCATGCGCGGCTGCCACCTATTCCGTTGAACCGATTTCCCCCAGGATTCCCATGACCCAGCCACTGAACCCAACCGTCGAAATCAAGGTGCTCGATGCGCGCCTGAATGAATGGGGCCTGCCC > AM260479/3302771‑3303066
|
| 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: ‑ |
