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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,354,645 |
+C |
intergenic (+98/‑15) |
h16_A1248 → / → h16_A1249 |
predicted signal transduction protein containingCHASE, PAS, GGDEF and EAL domains/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,354,643 | 1 | . | C | 100.0%
| 112.4
/ NA
| 30 | intergenic (+96/‑17) | h16_A1248/h16_A1249 | predicted signal transduction protein containingCHASE, PAS, GGDEF and EAL domains/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (22/8); total (22/8) |
CAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACG‑CCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATC > AM260479/1354530‑1354765
|
cAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGAt > 1:820002/1‑133 (MQ=255)
ccGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAg < 2:820002/134‑1 (MQ=255)
cGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAgg > 1:797842/1‑134 (MQ=255)
gcgcCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAgc > 1:691151/1‑134 (MQ=255)
gcgcCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAgc > 2:160065/1‑134 (MQ=255)
cTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCAt < 2:691151/134‑1 (MQ=255)
tgcTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCa < 2:729332/91‑1 (MQ=255)
tgcTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCa > 1:729332/1‑91 (MQ=255)
aTAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTg > 1:324637/1‑132 (MQ=255)
gCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAg < 1:117673/80‑1 (MQ=255)
gCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAg > 2:117673/1‑80 (MQ=255)
gCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAAt < 2:77802/117‑1 (MQ=255)
gCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAAt > 1:77802/1‑117 (MQ=255)
gCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCg > 2:376682/1‑131 (MQ=255)
gCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCg > 1:196448/1‑131 (MQ=255)
ggACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACt < 1:259023/47‑1 (MQ=38)
ggACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACt > 2:259023/1‑47 (MQ=38)
ggACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCgg > 2:659813/1‑133 (MQ=255)
ggACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCgg > 2:671453/1‑133 (MQ=255)
attcaaaTCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTc > 2:313279/5‑132 (MQ=255)
aTTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTc > 2:256417/1‑132 (MQ=255)
aTTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTc > 2:927154/1‑132 (MQ=255)
aaTCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTgg > 2:943331/1‑134 (MQ=255)
tCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCAt < 1:92698/59‑1 (MQ=39)
tCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCAt > 2:92698/1‑59 (MQ=39)
tCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTggcg > 2:96102/1‑134 (MQ=255)
tgtgGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTggcggc > 2:190243/1‑133 (MQ=255)
tgtgGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTggcggc > 2:1049453/1‑133 (MQ=255)
cAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCa > 2:889911/1‑134 (MQ=255)
ggCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATc < 1:256417/134‑1 (MQ=255)
|
CAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACG‑CCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATC > AM260479/1354530‑1354765
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
CTCGAGCATGGACCGCAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACG‑CCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATCCGGACACGCCCGTCGTCCCCAGCGAG > AM260479/1354515‑1354791
|
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATG < GWNJ‑0478:712:GW2002102894th:2:2109:14740:76209/83‑1 (MQ=60)
CTCGAGCATGGACCGCAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATG > GWNJ‑0478:712:GW2002102894th:2:2115:21220:53370/1‑149 (MQ=60)
ttttttttttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGG < GWNJ‑0478:712:GW2002102894th:2:2111:21315:76018/57‑1 (MQ=60)
tttttttcaagcagaagacggcatacgagattagcgagtgtctcgtggctcggagatgtgtataagagacaGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGG < GWNJ‑0478:712:GW2002102894th:2:1114:17672:54463/78‑1 (MQ=60)
AGCATGGACCGCAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGC > GWNJ‑0478:712:GW2002102894th:2:2112:10688:41594/1‑150 (MQ=60)
GACCGCAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCT > GWNJ‑0478:712:GW2002102894th:2:2106:7499:68975/1‑150 (MQ=60)
gcgagtgtctcgtgggctcggagatgtgtataagagacagGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAG < GWNJ‑0478:712:GW2002102894th:2:1108:20379:13816/110‑1 (MQ=60)
agaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCAT < GWNJ‑0478:712:GW2002102894th:2:1107:18263:68857/90‑1 (MQ=60)
CGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCctgtctcttatacacatctccgagcccac > GWNJ‑0478:712:GW2002102894th:2:2109:2269:82183/1‑121 (MQ=60)
TGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGG > GWNJ‑0478:712:GW2002102894th:2:1202:17039:37156/1‑148 (MQ=60)
GTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGctg > GWNJ‑0478:712:GW2002102894th:2:1104:16656:82458/1‑147 (MQ=60)
GTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGG > GWNJ‑0478:712:GW2002102894th:2:1113:13065:39858/1‑147 (MQ=60)
GTGGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATCCGGACACGCC > GWNJ‑0478:712:GW2002102894th:2:2208:5423:76204/1‑150 (MQ=60)
GGCAGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1102:13350:8758/1‑123 (MQ=60)
AGGCCATCGACGCCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATCCGGACACGCCCGTCG < GWNJ‑0478:712:GW2002102894th:2:1114:19123:41659/150‑1 (MQ=60)
gcCCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATCCGGACctgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:2116:7944:39690/3‑129 (MQ=60)
|
CTCGAGCATGGACCGCAACCGATGCGCGCCTGACTGCCCGTCAGTCCGGTGCGTGCTTAAGCAGTCCAATAACAGGGAGCTAGATCATGCAGGACCGTACTATTGAAATCATGTGGCAGGCCATCGACG‑CCTGGACTTTTCCAGGATGAAGGCCAAGCTGCTGCATCAGAAGCATGCGCATTGGTCGCCGGAATCGCTGGAGCAGGCGGAGAGCGGCTACCGGCAATTCCTCAAGCTGGCGGCGAAGCATCCGGACACGCCCGTCGTCCCCAGCGAG > AM260479/1354515‑1354791
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
