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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,081,436 |
+C |
coding (437/447 nt) |
h16_A0989 → |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,081,433 | 1 | . | C | 100.0%
| 41.1
/ NA
| 12 | G145A (GGC→GCC) | h16_A0989 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (5/7); total (5/7) |
GAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTT > AM260479/1081306‑1081531
|
gAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAAGGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑cccctg < 2:591809/134‑4 (MQ=255)
aGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑cccctg > 2:8695/1‑130 (MQ=255)
gTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCg < 2:878407/133‑1 (MQ=255)
gcgcAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGc > 2:959839/1‑134 (MQ=255)
cgtcGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCgggg < 2:1033475/133‑1 (MQ=255)
gtcGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCa < 2:725202/134‑1 (MQ=255)
cgcgGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGa > 1:528718/1‑91 (MQ=255)
cgcgGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGa < 2:528718/91‑1 (MQ=255)
cgcgGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATAccc < 1:959839/133‑1 (MQ=255)
aTGCCGGGGCGCGCATTGCTGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGcc > 1:104281/1‑134 (MQ=255)
aTGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGcc < 1:8695/134‑1 (MQ=255)
cattgctGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAgg < 2:104281/128‑1 (MQ=255)
tGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTgcgcc > 1:62713/1‑133 (MQ=255)
cccGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTgcgcct > 2:877934/1‑131 (MQ=255)
|
GAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTT > AM260479/1081306‑1081531
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
CGGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGAT > AM260479/1081293‑1081579
|
CGGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGAC < GWNJ‑0478:712:GW2002102894th:2:2109:13050:24674/150‑1 (MQ=60)
GGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCcctgtctcttatacacatctccgagcccacgagacg > GWNJ‑0478:712:GW2002102894th:2:2213:21205:99491/1‑114 (MQ=60)
gcatTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCctgtctcttatacacatctccgagcccac > GWNJ‑0478:712:GW2002102894th:2:2101:15683:40108/5‑121 (MQ=60)
TCCGCGGCCTGTCCGATGCCGGGGCGCGCATTGC‑‑TGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCC > GWNJ‑0478:712:GW2002102894th:2:1108:2631:8111/1‑150 (MQ=60)
CCGCGGCCTGTCCGATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCC < GWNJ‑0478:712:GW2002102894th:2:2212:16445:61073/149‑1 (MQ=60)
GATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCC < GWNJ‑0478:712:GW2002102894th:2:1101:10143:64513/150‑1 (MQ=60)
GATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCctggctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2112:7822:7175/1‑68 (MQ=60)
CA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCT > GWNJ‑0478:712:GW2002102894th:2:1104:4019:36871/1‑150 (MQ=60)
CGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGG > GWNJ‑0478:712:GW2002102894th:2:1206:5023:30166/1‑149 (MQ=60)
cagcCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGAT < GWNJ‑0478:712:GW2002102894th:2:1107:11166:52344/146‑1 (MQ=60)
C‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCC > GWNJ‑0478:712:GW2002102894th:2:2110:2397:77645/1‑143 (MQ=60)
|
CGGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCA‑‑GCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGAT > AM260479/1081293‑1081579
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
