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 |
1,841,200 |
+G |
intergenic (‑2736/‑2680) |
h16_A1684 ← / → ycaC |
conserved hypothetical protein/YcaC related amidohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,841,197 | 1 | . | G | 100.0%
| 110.1
/ NA
| 29 | intergenic (‑2733/‑2683) | h16_A1684/ycaC | conserved hypothetical protein/YcaC related amidohydrolase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (13/16); total (13/16) |
GATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGT > AM260479/1841067‑1841323
|
gATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑ggg > 1:1042724/1‑134 (MQ=255)
gcCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGaa < 1:919188/134‑1 (MQ=255)
ccAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACt < 2:1042724/134‑1 (MQ=255)
cGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGc < 2:998737/134‑1 (MQ=255)
gccggTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCg > 2:415973/1‑112 (MQ=255)
gccggTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCg < 1:415973/112‑1 (MQ=255)
ccggTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt < 1:994778/130‑1 (MQ=255)
ccggTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt > 2:994778/1‑130 (MQ=255)
tCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt < 2:926852/112‑1 (MQ=255)
tCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt > 1:926852/1‑112 (MQ=255)
tCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTtctc > 1:133819/1‑134 (MQ=255)
ggCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt < 2:913673/108‑1 (MQ=255)
ggCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt > 1:913673/1‑108 (MQ=255)
gCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATc < 2:910408/122‑1 (MQ=255)
gCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATc > 1:910408/1‑122 (MQ=255)
gTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGcc > 2:107968/1‑134 (MQ=255)
tAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGccc > 1:109090/1‑134 (MQ=255)
cgccTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGa < 1:302043/134‑1 (MQ=255)
gccTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAg < 1:713576/134‑1 (MQ=255)
cTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCa < 2:587687/77‑1 (MQ=255)
cTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCa > 1:587687/1‑77 (MQ=255)
tGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTc < 2:308879/92‑1 (MQ=255)
tGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTc > 1:308879/1‑92 (MQ=255)
cAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAg < 1:951558/133‑1 (MQ=255)
cAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGc > 1:46094/1‑134 (MQ=255)
tAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGc < 2:133819/134‑1 (MQ=255)
gTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCt < 1:796916/95‑1 (MQ=255)
gTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCt > 2:796916/1‑95 (MQ=255)
ggAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCgtg > 1:188981/1‑134 (MQ=255)
aaGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCgtggt < 2:109090/134‑1 (MQ=255)
|
GATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGT > AM260479/1841067‑1841323
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTTCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGTGGCGCGCCTGCGCTCGAGTAGTGGC > AM260479/1841052‑1841348
|
CTTCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGG > GWNJ‑0478:712:GW2002102894th:2:2210:9073:8707/1‑150 (MQ=60)
TCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGG < GWNJ‑0478:712:GW2002102894th:2:2205:20152:18533/148‑1 (MQ=60)
CGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGC < GWNJ‑0478:712:GW2002102894th:2:2204:15252:10318/150‑1 (MQ=60)
agagacagGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGC < GWNJ‑0478:712:GW2002102894th:2:1208:12530:68530/142‑1 (MQ=60)
CCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATC < GWNJ‑0478:712:GW2002102894th:2:2207:5432:48732/149‑1 (MQ=60)
GTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCtgtctct > GWNJ‑0478:712:GW2002102894th:2:2204:14951:56209/1‑143 (MQ=60)
GTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCC > GWNJ‑0478:712:GW2002102894th:2:1109:21301:4462/1‑150 (MQ=60)
GGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCtgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2202:17238:76386/1‑139 (MQ=60)
GCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCG > GWNJ‑0478:712:GW2002102894th:2:2202:8871:56497/1‑150 (MQ=60)
GCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCG > GWNJ‑0478:712:GW2002102894th:2:1106:8133:64746/1‑150 (MQ=60)
gctcggagatgtgtataagagacaGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCA < GWNJ‑0478:712:GW2002102894th:2:2112:19938:36862/126‑1 (MQ=60)
GCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCtgtctcttatacacatctccgagcccacgagacactcgcta > GWNJ‑0478:712:GW2002102894th:2:2101:18794:31217/1‑108 (MQ=60)
CTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1203:18768:40016/1‑124 (MQ=60)
GTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCC > GWNJ‑0478:712:GW2002102894th:2:1105:15347:85528/1‑150 (MQ=60)
CCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGAT < GWNJ‑0478:712:GW2002102894th:2:1201:4863:96850/150‑1 (MQ=60)
CGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATG < GWNJ‑0478:712:GW2002102894th:2:2108:4821:94486/150‑1 (MQ=60)
gagtgtctcgtgggctcggagatgtgtataagagaCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGG < GWNJ‑0478:712:GW2002102894th:2:2102:1455:20822/115‑1 (MQ=60)
GCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCC < GWNJ‑0478:712:GW2002102894th:2:2209:16923:3615/149‑1 (MQ=60)
CATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGG > GWNJ‑0478:712:GW2002102894th:2:1113:16773:2101/1‑150 (MQ=60)
GGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGTGGCGCGCCTGCGCT > GWNJ‑0478:712:GW2002102894th:2:1210:2921:67109/1‑150 (MQ=60)
GTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgc > GWNJ‑0478:712:GW2002102894th:2:1206:13140:30159/1‑88 (MQ=60)
GGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCtgtctcttatacacatctccgagcccacgagacactc > GWNJ‑0478:712:GW2002102894th:2:1211:2368:48389/1‑113 (MQ=60)
|
CTTCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGTGGCGCGCCTGCGCTCGAGTAGTGGC > AM260479/1841052‑1841348
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
