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 |
AM260480 |
2,308,233 |
(C)5→4 |
intergenic (+176/‑161) |
h16_B2050 → / → h16_B2051 |
response regulator containing a GGDEF effector domain/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,308,229 | 0 | C | . | 100.0%
| 133.0
/ NA
| 30 | intergenic (+172/‑165) | h16_B2050/h16_B2051 | response regulator containing a GGDEF effector domain/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (12/18); total (12/18) |
GCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGG > AM260480/2308102‑2308353
|
gcCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGccccgcg > 1:39920/1‑131 (MQ=255)
ccACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGccccgcgc > 2:846960/1‑130 (MQ=255)
ccACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGccccgcgc > 1:723384/1‑130 (MQ=255)
aCCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt < 2:39920/134‑1 (MQ=255)
aCCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt < 1:391975/134‑1 (MQ=255)
aCCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt < 2:243739/134‑1 (MQ=255)
aCCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt < 1:846960/134‑1 (MQ=255)
cAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 1:879092/134‑1 (MQ=255)
aaCCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGc < 2:963215/134‑1 (MQ=255)
cGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTCGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGcccc < 1:415765/134‑1 (MQ=255)
gggCCACCAGCCCGGCCAACGGCCCGCCAGGCCCCGCGCCTACGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCTCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCt < 2:34924/134‑1 (MQ=255)
gCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg > 1:1134679/1‑104 (MQ=255)
gCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 2:1134679/104‑1 (MQ=255)
ggCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt < 1:430798/79‑1 (MQ=255)
ggCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt > 2:430798/1‑79 (MQ=255)
ggCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTgcg < 2:66863/134‑1 (MQ=255)
gCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGt < 1:151077/93‑1 (MQ=255)
gCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGt > 2:151077/1‑93 (MQ=255)
gCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATc < 1:398179/112‑1 (MQ=255)
gCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATc > 2:398179/1‑112 (MQ=255)
gccggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGc > 2:992856/1‑133 (MQ=255)
gccggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGc > 1:26723/1‑133 (MQ=255)
ccggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGcaa > 2:98929/1‑134 (MQ=255)
gCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 2:1026943/70‑1 (MQ=255)
gCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg > 1:1026943/1‑70 (MQ=255)
tCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGc < 1:269675/55‑1 (MQ=255)
tCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGc > 2:269675/1‑55 (MQ=255)
cGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGAcc < 1:98929/134‑1 (MQ=255)
gAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAacaaca < 2:933773/102‑1 (MQ=255)
gAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAacaaca > 1:933773/1‑102 (MQ=255)
gAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGccc > 2:398620/1‑134 (MQ=255)
tCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCcgcgc < 2:26723/134‑1 (MQ=255)
cGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATggg > 2:158246/1‑134 (MQ=255)
|
GCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGG > AM260480/2308102‑2308353
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGCCAGATCGTCTCTGACTC > AM260480/2308087‑2308371
|
AGTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGC > GWNJ‑0478:712:GW2002102894th:2:1105:7590:55180/1‑150 (MQ=60)
GTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCC > GWNJ‑0478:712:GW2002102894th:2:2109:9852:85292/1‑150 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGT < GWNJ‑0478:712:GW2002102894th:2:1209:12180:91861/109‑1 (MQ=60)
CACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGT < GWNJ‑0478:712:GW2002102894th:2:1206:21154:71554/150‑1 (MQ=60)
CACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGT < GWNJ‑0478:712:GW2002102894th:2:2114:18421:95733/150‑1 (MQ=60)
CCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAC < GWNJ‑0478:712:GW2002102894th:2:2201:18249:62487/150‑1 (MQ=60)
aagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACC < GWNJ‑0478:712:GW2002102894th:2:1116:9308:27833/86‑1 (MQ=60)
ttttgatttgtttttgttcttttttttttttttttttcaagcagaagacgtcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAC < GWNJ‑0478:712:GW2002102894th:2:2207:2800:81395/44‑1 (MQ=60)
CCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTCGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTAT < GWNJ‑0478:712:GW2002102894th:2:1209:10363:7146/150‑1 (MQ=60)
gggctcggagatgtgtataagagaCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTG < GWNJ‑0478:712:GW2002102894th:2:1111:5902:17730/126‑1 (MQ=60)
tgcgtggcggggccgGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2215:16625:53033/16‑136 (MQ=60)
agagaCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATC < GWNJ‑0478:712:GW2002102894th:2:1208:13326:8636/145‑1 (MQ=60)
ttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCG < GWNJ‑0478:712:GW2002102894th:2:2215:2317:97064/71‑1 (MQ=60)
GCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCA > GWNJ‑0478:712:GW2002102894th:2:1103:2033:72615/1‑149 (MQ=60)
GGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:2211:18605:27118/1‑102 (MQ=60)
CGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCctgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:2204:3614:99235/1‑132 (MQ=60)
CCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGC < GWNJ‑0478:712:GW2002102894th:2:1106:18602:18107/150‑1 (MQ=60)
ATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgct > GWNJ‑0478:712:GW2002102894th:2:2114:9085:23467/1‑86 (MQ=60)
|
AGTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGCCAGATCGTCTCTGACTC > AM260480/2308087‑2308371
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
