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 |
AM260480 |
2,135,859 |
+C |
intergenic (‑237/‑97) |
h16_B1889 ← / → h16_B1890 |
transcriptional regulator, IclR‑family/APC transporter, AAT family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,135,857 | 1 | . | C | 100.0%
| 91.4
/ NA
| 24 | intergenic (‑235/‑99) | h16_B1889/h16_B1890 | transcriptional regulator, IclR‑family/APC transporter, AAT family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (13/11); total (13/11) |
AAAGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCAACAAC > AM260480/2135724‑2135968
|
aaaGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACAGAACGACCACGGCCCCAGGCTGGCAATTActg < 1:134344/134‑1 (MQ=255)
ttCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTActg < 2:919123/122‑1 (MQ=255)
ttCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTActg > 1:919123/1‑122 (MQ=255)
tAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCgcct > 2:966573/1‑134 (MQ=255)
ccGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACg > 1:1012085/1‑134 (MQ=255)
ccGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACg > 1:288814/1‑134 (MQ=255)
gTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCAGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACg > 2:423930/1‑133 (MQ=255)
gCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGc < 1:566238/107‑1 (MQ=255)
gCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGc > 2:566238/1‑107 (MQ=255)
ccATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAg < 2:1012085/134‑1 (MQ=255)
ccctcccCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGa > 1:327516/1‑127 (MQ=255)
ccctcccCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGa < 2:658110/127‑1 (MQ=255)
ccctcccCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGa < 2:327516/127‑1 (MQ=255)
ccctcccCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGa > 1:658110/1‑127 (MQ=255)
ccctcccCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAg > 1:319779/1‑134 (MQ=255)
ccccGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAgcg > 2:765053/1‑132 (MQ=255)
ccGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCgcagc < 1:765053/134‑1 (MQ=255)
cGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCgcagca < 1:966573/134‑1 (MQ=255)
cGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCgcagca < 2:319779/134‑1 (MQ=255)
cGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCAGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCgcagca < 1:423930/134‑1 (MQ=255)
aaTACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCa < 1:731681/98‑1 (MQ=255)
aaTACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCa > 2:731681/1‑98 (MQ=255)
aaTACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAg > 2:163954/1‑117 (MQ=255)
aaTACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAg < 1:163954/117‑1 (MQ=255)
aCCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATcc > 2:126838/1‑133 (MQ=255)
ccACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCcaa < 2:288814/134‑1 (MQ=255)
ggCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCaacaac > 2:760190/1‑134 (MQ=255)
|
AAAGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCAACAAC > AM260480/2135724‑2135968
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ 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
TACATTCCAGTGAAAGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCAACAACCAGAGTCCGGCAACGGGCTATCCCACGGCCTGAAGC > AM260480/2135712‑2136004
|
tttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagTGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCC < GWNJ‑0478:712:GW2002102894th:2:1111:3079:72360/74‑1 (MQ=60)
ttgtttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCC < GWNJ‑0478:712:GW2002102894th:2:1102:2736:39533/69‑1 (MQ=60)
agtttttcttgctttttttttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagTTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCC < GWNJ‑0478:712:GW2002102894th:2:1212:3196:42332/46‑1 (MQ=60)
GTGAAAGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTAT > GWNJ‑0478:712:GW2002102894th:2:2211:8956:51632/1‑150 (MQ=60)
GAAAGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACAGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATAC < GWNJ‑0478:712:GW2002102894th:2:1109:14192:91819/150‑1 (MQ=60)
GTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGC > GWNJ‑0478:712:GW2002102894th:2:2215:9420:76137/1‑150 (MQ=60)
GTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGC > GWNJ‑0478:712:GW2002102894th:2:1202:17170:38811/1‑150 (MQ=60)
gtataagagacagGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAAC < GWNJ‑0478:712:GW2002102894th:2:2105:2052:41503/137‑1 (MQ=60)
cggagatgtgtataagagacagCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAG < GWNJ‑0478:712:GW2002102894th:2:2115:11318:64547/128‑1 (MQ=60)
tttttcatgcagaagacggcatacgagctgtagctccgtctcgtgggctcggagatgtgtataagagacaggcCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCT < GWNJ‑0478:712:GW2002102894th:2:2215:3924:4996/76‑1 (MQ=60)
GTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGC > GWNJ‑0478:712:GW2002102894th:2:1204:11358:43531/1‑150 (MQ=60)
GTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGC > GWNJ‑0478:712:GW2002102894th:2:1204:4536:96261/1‑150 (MQ=60)
GTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGC > GWNJ‑0478:712:GW2002102894th:2:2111:12508:35855/1‑150 (MQ=60)
cagCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGAC < GWNJ‑0478:712:GW2002102894th:2:1110:9023:68711/147‑1 (MQ=60)
CCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACA < GWNJ‑0478:712:GW2002102894th:2:2116:12366:53128/150‑1 (MQ=60)
CCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACAT < GWNJ‑0478:712:GW2002102894th:2:2213:8047:27738/150‑1 (MQ=60)
CCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCAGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACAT < GWNJ‑0478:712:GW2002102894th:2:1210:1719:78257/150‑1 (MQ=60)
TGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTGCCCTGCCATCTATACCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaagaaagaaaaaac > GWNJ‑0478:712:GW2002102894th:2:1102:16564:61014/1‑58 (MQ=60)
GGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1101:9002:69259/1‑73 (MQ=60)
GGCAATTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGTAGACACAACATGATCCAACAACCAGAGTCCGGCAACGGGCTATCCCACG > GWNJ‑0478:712:GW2002102894th:2:2103:13803:72883/1‑150 (MQ=60)
TTACTGCCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCAACAACCAGAGTCCGGCAACGGGCTATCCCACGGCCTG > GWNJ‑0478:712:GW2002102894th:2:2206:1490:94566/1‑150 (MQ=60)
gcCCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCAACAACCAGAGTCCGGCAACGGGCTATCCCACGGCCTGAAGC < GWNJ‑0478:712:GW2002102894th:2:2116:4955:26182/147‑1 (MQ=60)
|
TACATTCCAGTGAAAGAACAATTTTTCGGAACTTCTGGTTCCAGTTTTTAAGCGATCACCGGAGACAAGTCGACATGTACGGATAGGCCATCCCTCCCCGGGATTGCAAATACTGAACGACCACGGCCCCAGGCTGGCAATTACTG‑CCTGCCATCTATACCGAAGAGAAGCCGTGGCGCCTGCCTTAAACGCTGTACTGGCTGCAACGCAGTACCGACAGCTAGCGCAGCACAGGAGACACAACATGATCCAACAACCAGAGTCCGGCAACGGGCTATCCCACGGCCTGAAGC > AM260480/2135712‑2136004
|
| 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: ‑ |
