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 |
3,602,642 |
+A |
intergenic (‑39/+87) |
h16_A3328 ← / ← h16_A3329 |
conserved hypothetical membrane protein/unassigned peptidase, M61 subfamily (glycyl aminopeptidase) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,602,641 | 1 | . | A | 100.0%
| 77.4
/ NA
| 21 | intergenic (‑38/+88) | h16_A3328/h16_A3329 | conserved hypothetical membrane protein/unassigned peptidase, M61 subfamily (glycyl aminopeptidase) |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (10/11); total (10/11) |
CATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCG > AM260479/3602514‑3602748
|
cATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑aataca < 2:939214/134‑6 (MQ=255)
gCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAgg > 2:167866/1‑134 (MQ=255)
gCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑aataca > 2:594344/1‑123 (MQ=255)
gCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑aataca < 1:594344/128‑6 (MQ=255)
tGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCgg > 2:517923/1‑134 (MQ=255)
aTCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATc < 1:155887/125‑1 (MQ=255)
aTCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATc > 2:155887/1‑125 (MQ=255)
tCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTAt < 2:927119/134‑1 (MQ=255)
tCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTAt < 1:475787/134‑1 (MQ=255)
aTCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCgggg < 2:1052028/110‑1 (MQ=255)
aTCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCgggg > 1:1052028/1‑110 (MQ=255)
gCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg > 2:283650/1‑134 (MQ=255)
ggTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGt > 1:119855/1‑134 (MQ=255)
tCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGc < 2:414618/134‑1 (MQ=255)
tCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGc < 1:167866/134‑1 (MQ=255)
cTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt < 2:527629/97‑1 (MQ=255)
cTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGt > 1:1093281/1‑134 (MQ=255)
cTGAAGTGCAGCGCGATAAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt > 1:527629/1‑97 (MQ=255)
cgcCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAg < 1:517923/134‑1 (MQ=255)
aGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCagcgcg < 2:1093281/134‑1 (MQ=255)
tAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGtgtg > 1:327503/1‑78 (MQ=255)
tAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGtgtg < 2:327503/78‑1 (MQ=255)
aGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtg < 2:1014493/75‑1 (MQ=255)
aGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtg > 1:1014493/1‑75 (MQ=255)
|
CATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCG > AM260479/3602514‑3602748
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAGCGGGCTGGGCAGGTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTG > AM260479/3602496‑3602791
|
CAGCGGGCTGGGCAGGTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑Aat < GWNJ‑0478:712:GW2002102894th:2:2204:15476:17776/149‑3 (MQ=60)
ccttctttttgtttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATAC < GWNJ‑0478:712:GW2002102894th:2:1106:18483:80339/55‑1 (MQ=60)
gatgtgtataagagacagGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGA < GWNJ‑0478:712:GW2002102894th:2:2111:13069:36267/132‑1 (MQ=60)
cagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAA < GWNJ‑0478:712:GW2002102894th:2:2115:15328:48616/88‑1 (MQ=60)
tattttttttttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGG < GWNJ‑0478:712:GW2002102894th:2:1208:10417:88675/53‑1 (MQ=60)
CCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGAT < GWNJ‑0478:712:GW2002102894th:2:2103:13030:26922/150‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagCCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGAT < GWNJ‑0478:712:GW2002102894th:2:2209:1478:61431/117‑1 (MQ=60)
CTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAActgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:1209:5432:79655/1‑131 (MQ=60)
CAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCAT < GWNJ‑0478:712:GW2002102894th:2:1111:7742:42586/150‑1 (MQ=60)
CCCATCAACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCtgtctctt > GWNJ‑0478:712:GW2002102894th:2:2210:20162:56541/1‑141 (MQ=60)
ATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGG < GWNJ‑0478:712:GW2002102894th:2:1213:5912:27874/150‑1 (MQ=60)
tagcgagtgtctcgtgggctcggagatgtgtataagagacagttcctgtattcgcactacatctaCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGG < GWNJ‑0478:712:GW2002102894th:2:2102:10844:78210/84‑1 (MQ=60)
CCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTG > GWNJ‑0478:712:GW2002102894th:2:1108:1956:42489/1‑150 (MQ=60)
GCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCtgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:2102:10653:8116/1‑110 (MQ=60)
GCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTG > GWNJ‑0478:712:GW2002102894th:2:2213:11731:63163/1‑150 (MQ=60)
GCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATAAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1215:10219:78568/1‑127 (MQ=60)
gcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑TGGGGCGATGGCGTGCGGTGGCGGGT < GWNJ‑0478:712:GW2002102894th:2:1201:3663:15984/87‑1 (MQ=60)
tcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGT < GWNJ‑0478:712:GW2002102894th:2:1208:15898:78684/83‑1 (MQ=60)
GTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGC < GWNJ‑0478:712:GW2002102894th:2:1110:11534:5955/150‑1 (MQ=60)
GCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCC < GWNJ‑0478:712:GW2002102894th:2:1215:7187:35474/150‑1 (MQ=60)
CGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGctgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:1202:18184:79189/1‑108 (MQ=60)
GCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcatctgcttgaaaaaaaaaagggacaaccagattccaggcacg > GWNJ‑0478:712:GW2002102894th:2:1115:16395:90550/1‑51 (MQ=60)
GCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTctgtctcttatacacatctccgagcccacgagacactcgctaatc > GWNJ‑0478:712:GW2002102894th:2:2208:6152:58420/1‑105 (MQ=60)
ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1213:8587:4629/1‑136 (MQ=60)
|
CAGCGGGCTGGGCAGGTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTG > AM260479/3602496‑3602791
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
