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 |
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%
| 73.8
/ NA
| 20 | intergenic (‑2733/‑2683) | h16_A1684/ycaC | conserved hypothetical protein/YcaC related amidohydrolase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (11/9); total (11/9) |
ATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATA > AM260479/1841068‑1841304
|
aTCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑ggg > 1:1133706/1‑133 (MQ=255)
gaagaaGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑ggggatgg < 2:700670/133‑6 (MQ=255)
cGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCgct > 1:540299/1‑134 (MQ=255)
gatgatCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCgc < 2:1133706/132‑1 (MQ=255)
atgatCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCgctgg > 1:659155/1‑134 (MQ=255)
atgatCCGGCCGGTACGGCAAAGCGCACCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCgctgg > 1:521944/1‑134 (MQ=255)
gccggTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTggtggt > 2:897595/1‑134 (MQ=255)
gccggTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTggtggt < 2:540299/134‑1 (MQ=255)
tACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGTAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGAcc > 1:371243/1‑134 (MQ=255)
tCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTc > 1:189505/1‑83 (MQ=255)
tCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTc < 2:189505/83‑1 (MQ=255)
tGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGc > 1:1034214/1‑134 (MQ=255)
ggCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCg < 1:1078429/133‑1 (MQ=255)
ccgccTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACg < 2:1034214/134‑1 (MQ=255)
cTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt > 2:992337/1‑89 (MQ=255)
cTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCtggt < 1:992337/89‑1 (MQ=255)
cTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGAc > 2:574/1‑96 (MQ=255)
cTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGAc < 1:574/96‑1 (MQ=255)
gATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATa < 2:478225/129‑1 (MQ=255)
gATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATa > 1:478225/1‑129 (MQ=255)
aGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAg < 2:1025753/111‑1 (MQ=255)
aGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAg > 1:1025753/1‑111 (MQ=255)
|
ATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATA > AM260479/1841068‑1841304
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ 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
TTCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGTGGCGCGCCTGCGCTCGAGTAGTGGC > AM260479/1841053‑1841348
|
TTCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGG > GWNJ‑0478:712:GW2002102894th:2:2215:11989:48842/1‑149 (MQ=60)
TCTGCGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGG < GWNJ‑0478:712:GW2002102894th:2:1116:11679:73096/148‑1 (MQ=60)
CCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTG > GWNJ‑0478:712:GW2002102894th:2:1214:11973:38075/1‑150 (MQ=60)
CAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGC > GWNJ‑0478:712:GW2002102894th:2:2107:9763:22072/1‑150 (MQ=60)
CAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCACCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGC > GWNJ‑0478:712:GW2002102894th:2:1215:12675:53491/1‑150 (MQ=60)
CGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGTAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCC > GWNJ‑0478:712:GW2002102894th:2:1207:9282:48202/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacagGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATC < GWNJ‑0478:712:GW2002102894th:2:2207:18548:34165/119‑1 (MQ=60)
GTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCtgtctcttatacacatctccgagcccacgagacact > GWNJ‑0478:712:GW2002102894th:2:1113:8109:23866/1‑114 (MQ=60)
cggagatgtgtataagagacagGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTC < GWNJ‑0478:712:GW2002102894th:2:1101:13379:5530/126‑1 (MQ=60)
GCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCC > GWNJ‑0478:712:GW2002102894th:2:2211:16845:65227/1‑150 (MQ=60)
AGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCC < GWNJ‑0478:712:GW2002102894th:2:2212:8838:90513/149‑1 (MQ=60)
CCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGG > GWNJ‑0478:712:GW2002102894th:2:1213:17908:40039/1‑150 (MQ=60)
CCATGATAGTCGCGCAGGAAGTTCAGGGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCctgtctctt > GWNJ‑0478:712:GW2002102894th:2:2211:5882:21140/1‑141 (MQ=60)
GGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGTGGCGCGCCTGCGCTCGAGTAGTGGC < GWNJ‑0478:712:GW2002102894th:2:2203:11861:77395/150‑1 (MQ=60)
|
TTCTGGGCCTTGGCGATCTCGAAGAAGCGTCGGCGGCAATGCGCCCAGCATCCGCCCTCGATGATCCGGCCGGTACGGCAAAGCGCATCGTGGCCGCTGTAGGCAGCCGCCTGCAGGTAGCCATGATAGTCGCGCAGGAAGTTCA‑GGGATGGGCGCCGGCGCGGGATTCCGCGAACTCGAACAGCACCGCTGGCTGGTGGTCGACCCATAATCCGTTCTCCTGCCGCAGCCCGGCCACGAGGTAGCCCCATAGATGGGCCTGCCGCGTGGTGGCGCGCCTGCGCTCGAGTAGTGGC > AM260479/1841053‑1841348
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
