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 |
3,529,607 |
+C |
intergenic (‑121/‑183) |
secA ← / → h16_A3265 |
preprotein translocase subunit SecA/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,529,606 | 1 | . | C | 100.0%
| 87.6
/ NA
| 23 | intergenic (‑120/‑184) | secA/h16_A3265 | preprotein translocase subunit SecA/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (11/12); total (11/12) |
ATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTT > AM260479/3529482‑3529718
|
atcatcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg < 1:133866/134‑1 (MQ=255)
gggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAc > 1:580131/1‑134 (MQ=255)
ggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcg < 2:760077/134‑1 (MQ=255)
ggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcg < 2:505574/134‑1 (MQ=255)
ctgctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcgcg > 1:226650/1‑134 (MQ=255)
gctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGc > 2:393195/1‑87 (MQ=255)
gctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGc < 1:393195/87‑1 (MQ=255)
gctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCgtg > 2:20781/1‑134 (MQ=255)
ggCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt < 2:580131/134‑1 (MQ=255)
gAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGc > 2:158041/1‑95 (MQ=255)
gAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGc < 1:158041/95‑1 (MQ=255)
gATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGcc < 1:20781/134‑1 (MQ=255)
aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCa > 1:629244/1‑134 (MQ=255)
aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCa > 2:593315/1‑134 (MQ=255)
ccGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTg < 2:245076/105‑1 (MQ=255)
ccGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTg > 1:245076/1‑105 (MQ=255)
aTCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGtt < 2:629244/133‑1 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGcc > 1:388304/1‑50 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGcc < 2:388304/50‑1 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTgc < 1:457560/105‑1 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTgc > 2:457560/1‑105 (MQ=255)
cACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTgcg > 2:216544/1‑102 (MQ=255)
cACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTgcg < 1:216544/102‑1 (MQ=255)
|
ATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTT > AM260479/3529482‑3529718
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
GATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGC > AM260479/3529481‑3529730
|
GATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCC < GWNJ‑0478:712:GW2002102894th:2:1109:16946:21716/150‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagccagGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGG < GWNJ‑0478:712:GW2002102894th:2:1206:1822:78883/113‑1 (MQ=60)
gctcggagatgtgtataagagacaGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGC < GWNJ‑0478:712:GW2002102894th:2:1111:5153:53774/126‑1 (MQ=60)
GCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACG > GWNJ‑0478:712:GW2002102894th:2:2101:8208:36513/1‑150 (MQ=60)
CCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGT > GWNJ‑0478:712:GW2002102894th:2:1115:10316:16418/1‑150 (MQ=60)
GGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAT > GWNJ‑0478:712:GW2002102894th:2:2105:10773:44807/1‑150 (MQ=60)
AGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGC < GWNJ‑0478:712:GW2002102894th:2:1103:4868:35713/150‑1 (MQ=60)
GATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1114:2795:6462/1‑135 (MQ=60)
gtgtataagagacagGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAG < GWNJ‑0478:712:GW2002102894th:2:1210:18817:33726/135‑1 (MQ=60)
gatgtgtataagagacagATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGT < GWNJ‑0478:712:GW2002102894th:2:1112:10871:64940/132‑1 (MQ=60)
GTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCcttgcgggacgctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaa > GWNJ‑0478:712:GW2002102894th:2:1206:15531:49351/1‑69 (MQ=60)
|
GATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGC > AM260479/3529481‑3529730
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
