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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
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 (9/12); total (9/12) |
GGTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCG > AM260479/3602510‑3602752
|
ggTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑aa > 2:38797/1‑133 (MQ=255)
tCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑aata < 1:439660/134‑4 (MQ=255)
tCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑aata < 1:657237/134‑4 (MQ=255)
tCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAgg < 2:372855/134‑1 (MQ=255)
caGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGAt < 1:42458/134‑1 (MQ=255)
aGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATc < 1:38797/134‑1 (MQ=255)
cgcCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt < 2:443934/134‑1 (MQ=255)
cATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGcgcg > 2:151680/1‑133 (MQ=255)
gACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATtg < 1:151680/134‑1 (MQ=255)
ccaccaTCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATtgcatg < 1:336152/134‑1 (MQ=255)
gggCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCgggggcgat > 1:337231/1‑130 (MQ=255)
aGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCg > 1:905766/1‑134 (MQ=255)
ggTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt > 1:8081/1‑102 (MQ=255)
ggTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt < 2:8081/102‑1 (MQ=255)
ggTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGt > 1:253689/1‑134 (MQ=255)
gCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCgg < 2:337231/134‑1 (MQ=255)
aGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtgt > 1:240048/1‑134 (MQ=255)
gcgATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTgg > 1:592073/1‑133 (MQ=255)
aTCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGc < 2:592073/134‑1 (MQ=255)
cAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCggg < 2:252946/101‑1 (MQ=255)
cAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCggg > 1:252946/1‑101 (MQ=255)
cAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCagcgcgagcg < 2:240048/134‑1 (MQ=255)
gATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt < 1:740993/35‑1 (MQ=255)
gATGTAGTGCGAATACAGGAAGGTGCGGGGATCGt > 2:740993/1‑35 (MQ=255)
|
GGTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCG > AM260479/3602510‑3602752
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
GTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTC > AM260479/3602511‑3602780
|
GTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGG < GWNJ‑0478:712:GW2002102894th:2:2111:4025:30953/150‑1 (MQ=60)
GTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGG < GWNJ‑0478:712:GW2002102894th:2:1213:10354:67150/150‑1 (MQ=60)
acattaactgtatgtttgtttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCA < GWNJ‑0478:712:GW2002102894th:2:2115:17242:23171/51‑1 (MQ=60)
ACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCA < GWNJ‑0478:712:GW2002102894th:2:1105:20736:92587/150‑1 (MQ=60)
CAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCAT < GWNJ‑0478:712:GW2002102894th:2:1105:10292:68271/150‑1 (MQ=60)
ttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGC < GWNJ‑0478:712:GW2002102894th:2:2114:11080:14798/65‑1 (MQ=60)
CGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGcg < GWNJ‑0478:712:GW2002102894th:2:1111:19082:93758/150‑3 (MQ=60)
CACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATG > GWNJ‑0478:712:GW2002102894th:2:1207:1410:59356/1‑150 (MQ=60)
atgttagtttttttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaggaATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGG < GWNJ‑0478:712:GW2002102894th:2:2207:12243:56076/52‑1 (MQ=60)
ACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGG < GWNJ‑0478:712:GW2002102894th:2:1207:17750:52914/150‑1 (MQ=60)
ACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGT > GWNJ‑0478:712:GW2002102894th:2:2208:17342:70589/1‑150 (MQ=60)
CCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCctgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:1101:14036:60139/1‑132 (MQ=60)
CCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTG > GWNJ‑0478:712:GW2002102894th:2:1116:8902:89012/1‑150 (MQ=60)
gatcgcgctgcacttcagcgacctgcccaccgcgatggtggtgtCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGT > GWNJ‑0478:712:GW2002102894th:2:2106:1837:95842/45‑150 (MQ=60)
agcgtgctgctGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTG > GWNJ‑0478:712:GW2002102894th:2:1116:14881:6051/12‑150 (MQ=60)
TCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGC > GWNJ‑0478:712:GW2002102894th:2:2107:13692:17667/1‑149 (MQ=60)
GAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGctgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:1116:4359:84194/1‑131 (MQ=60)
CCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑Aatacaggctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaacaaaacaaaccaagacacaaata > GWNJ‑0478:712:GW2002102894th:2:2115:12288:35972/1‑40 (MQ=60)
GGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCctgtctcttatacacatctccgagcccacgagacggagctacatct > GWNJ‑0478:712:GW2002102894th:2:2102:20561:61992/1‑104 (MQ=60)
GGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCG > GWNJ‑0478:712:GW2002102894th:2:1210:13834:55545/1‑148 (MQ=60)
ATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTC > GWNJ‑0478:712:GW2002102894th:2:2101:18626:11579/1‑149 (MQ=60)
|
GTCCATCAGGCTGGTGCACAGCGCCCCCATCGACACCACCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTC > AM260479/3602511‑3602780
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
