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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,253,193 |
+C |
coding (243/258 nt) |
h16_A2071 → |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,253,191 | 1 | . | C | 100.0%
| 66.2
/ NA
| 18 | T81P (ACC→CCC) | h16_A2071 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (8/10); total (8/10) |
GCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGT > AM260479/2253061‑2253267
|
gCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc < 1:94581/134‑2 (MQ=255)
gCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccctgc > 1:162269/1‑130 (MQ=255)
gTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGAt > 1:203674/1‑128 (MQ=255)
gTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGAt < 2:203674/128‑1 (MQ=255)
ccGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAg > 1:303043/1‑111 (MQ=255)
ccGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAg < 2:303043/111‑1 (MQ=255)
gATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCgaga < 2:162269/134‑1 (MQ=255)
gATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATCTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCgaga > 2:787575/1‑134 (MQ=255)
gccgccGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGcc < 1:119358/111‑1 (MQ=255)
gccgccGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGcc > 2:119358/1‑111 (MQ=255)
gTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTg < 1:538086/134‑1 (MQ=255)
cATCTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGt < 1:787575/133‑1 (MQ=255)
aTTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGcc > 1:175339/1‑108 (MQ=255)
aTTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGcc < 2:175339/108‑1 (MQ=255)
tccGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 2:967212/1‑78 (MQ=255)
tccGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:967212/78‑1 (MQ=255)
acaacaacaGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAg > 1:907460/1‑102 (MQ=255)
acaacaacaGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAg < 2:907460/102‑1 (MQ=255)
aGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 2:319338/1‑38 (MQ=25)
aGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:319338/38‑1 (MQ=255)
|
GCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGT > AM260479/2253061‑2253267
|
| 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
GCCCATCACCTGGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGC > AM260479/2253049‑2253294
|
GCCCATCACCTGGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCG > GWNJ‑0478:712:GW2002102894th:2:1110:13911:58092/1‑150 (MQ=60)
GGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAG < GWNJ‑0478:712:GW2002102894th:2:1106:8587:41704/150‑1 (MQ=60)
ACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGC > GWNJ‑0478:712:GW2002102894th:2:1112:15999:99613/1‑148 (MQ=60)
aagagacaGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:1108:13067:100438/142‑1 (MQ=60)
TCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCctgtctctt > GWNJ‑0478:712:GW2002102894th:2:1205:3579:34875/1‑141 (MQ=60)
gtagctccgtctcgtgggctcggagatgtgtataagagacaGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:2213:9126:31209/109‑1 (MQ=60)
tttttttttgtttttttgtttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:2104:13886:68881/52‑1 (MQ=60)
gttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:1204:13766:40634/69‑1 (MQ=60)
CAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1113:3327:34790/1‑138 (MQ=60)
GGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCC < GWNJ‑0478:712:GW2002102894th:2:2103:4547:39242/150‑1 (MQ=60)
GCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCctgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:2208:15399:80841/1‑132 (MQ=60)
GCATCTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACAC < GWNJ‑0478:712:GW2002102894th:2:2203:17275:3667/149‑1 (MQ=60)
gtgggctcggagatgtgtataagagacagGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGC < GWNJ‑0478:712:GW2002102894th:2:1115:18955:47374/121‑1 (MQ=60)
GATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaagaaaacacagcaaaacaaacaa > GWNJ‑0478:712:GW2002102894th:2:2103:7938:40887/1‑50 (MQ=60)
|
GCCCATCACCTGGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGC > AM260479/2253049‑2253294
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
