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 |
782,333 |
+A |
intergenic (‑683/‑39) |
h16_A0723 ← / → h16_A0724 |
hypothetical membrane protein/hypothetical membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 782,333 | 1 | . | A | 100.0%
| 91.6
/ NA
| 25 | intergenic (‑683/‑39) | h16_A0723/h16_A0724 | hypothetical membrane protein/hypothetical membrane protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (11/14); total (11/14) |
GTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGC‑ATG‑GCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATC > AM260479/782209‑782449
|
gTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGa > 2:351255/1‑134 (MQ=255)
cTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATa < 1:46360/133‑1 (MQ=255)
tGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGcc > 2:758956/1‑134 (MQ=255)
tGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGcc > 1:695422/1‑134 (MQ=255)
aCCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCa < 2:839534/134‑1 (MQ=255)
gTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCAt < 2:695422/134‑1 (MQ=255)
gTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCAt < 1:957965/134‑1 (MQ=255)
aTCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGc > 2:872622/1‑134 (MQ=255)
cATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGAcc < 2:432709/133‑1 (MQ=255)
gccgcTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGgc < 2:568717/88‑1 (MQ=255)
gccgcTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGgc > 1:568717/1‑88 (MQ=255)
gccgcTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAg > 2:710865/1‑134 (MQ=255)
gCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGtctc > 1:108718/1‑134 (MQ=255)
gCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCggg < 1:710865/133‑1 (MQ=255)
cAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCt < 1:758956/134‑1 (MQ=255)
aaTCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGtt < 2:199956/134‑1 (MQ=255)
tCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGc < 1:872622/134‑1 (MQ=255)
ggCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGt < 2:108718/134‑1 (MQ=255)
ggCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGt < 1:351255/134‑1 (MQ=255)
ggggATGGGGAGCGATGAGCCTGGACCATAGCCCGgcagca > 2:631161/1‑41 (MQ=25)
ggggATGGGGAGCGATGAGCCTGGACCATAGCCCGgcagca < 1:631161/41‑1 (MQ=25)
ggggATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGt > 2:375473/1‑125 (MQ=255)
ggggATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGt < 1:375473/125‑1 (MQ=255)
ggggATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATc > 2:704553/1‑134 (MQ=255)
ggggATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATc > 1:974774/1‑134 (MQ=255)
|
GTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGC‑ATG‑GCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATC > AM260479/782209‑782449
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ 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
TCAGCGCCCCCGCGCAGGCCTTGGTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGC‑ATG‑GCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATCGTGGCATGGGCATTC > AM260479/782186‑782464
|
ttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATG < GWNJ‑0478:712:GW2002102894th:2:1111:4368:65342/69‑1 (MQ=60)
gtataagagacagGGTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACC < GWNJ‑0478:712:GW2002102894th:2:2213:5807:49833/137‑1 (MQ=60)
GCAGGCCTTGGTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAG < GWNJ‑0478:712:GW2002102894th:2:2103:8901:44653/150‑1 (MQ=60)
GGCCTTGGTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCC > GWNJ‑0478:712:GW2002102894th:2:2113:5026:75523/1‑150 (MQ=60)
GCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGC < GWNJ‑0478:712:GW2002102894th:2:1102:12339:15981/149‑1 (MQ=60)
ttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTG < GWNJ‑0478:712:GW2002102894th:2:2108:10575:92012/71‑1 (MQ=60)
AGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAG < GWNJ‑0478:712:GW2002102894th:2:2213:8802:10567/150‑1 (MQ=60)
GTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2105:19629:83993/1‑118 (MQ=60)
CGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCC > GWNJ‑0478:712:GW2002102894th:2:1108:19667:26151/1‑150 (MQ=60)
TGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCG < GWNJ‑0478:712:GW2002102894th:2:2112:14985:69670/149‑1 (MQ=60)
CCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGC < GWNJ‑0478:712:GW2002102894th:2:2116:3225:53863/150‑1 (MQ=60)
ATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTA < GWNJ‑0478:712:GW2002102894th:2:2206:8824:96324/150‑1 (MQ=60)
gagatgtgtataagagacagTATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGG < GWNJ‑0478:712:GW2002102894th:2:1116:17233:8650/130‑1 (MQ=60)
AGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGG < GWNJ‑0478:712:GW2002102894th:2:1206:19622:55978/150‑1 (MQ=60)
GCCACAGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATCG > GWNJ‑0478:712:GW2002102894th:2:2214:4525:5353/1‑150 (MQ=60)
AGAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATCGTGGCA < GWNJ‑0478:712:GW2002102894th:2:1209:5929:5986/150‑1 (MQ=60)
GAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgc > GWNJ‑0478:712:GW2002102894th:2:2101:8747:42062/1‑87 (MQ=60)
GAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATCGTGGCAT > GWNJ‑0478:712:GW2002102894th:2:2104:17819:2699/1‑150 (MQ=60)
GAATATCAGGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATCGTGGCAT > GWNJ‑0478:712:GW2002102894th:2:1116:1413:30263/1‑150 (MQ=60)
GGGGGATGGGGAGCGATGAGCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccg > GWNJ‑0478:712:GW2002102894th:2:2202:11487:43656/1‑97 (MQ=60)
|
TCAGCGCCCCCGCGCAGGCCTTGGTTCTGCTTGTACATCGGTGGGCGCCTGACCAGAATGGAGCCAGTACATCGATGCATCGCCGCTGCATTGCCAAGAAGAAATCAGGCCGGCGCTGCCACAGAATATCAGGGGGATGGGGAGC‑ATG‑GCCTGGACCATAGCCCGGCAGCAACGCCGGGGTCAGTGATGTCGCGGCATTGGCTGGACCTGGAGCGTCTCCGGGCCTACAGCGTTGCCGTGCTGATCATCTATGGTGCCTTGATCGTGGCATGGGCATTC > AM260479/782186‑782464
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
