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 |
1,071,935 |
+G |
coding (626/627 nt) |
h16_A0979 → |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,071,934 | 1 | . | G | 100.0%
| 62.0
/ NA
| 17 | *209G (TGA→GGA) | h16_A0979 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (9/8); total (9/8) |
GCCACGCGCAACCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGG > AM260479/1071805‑1072046
|
gCCACGCGCAACCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑ggac > 2:262520/1‑131 (MQ=255)
ccGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCa < 1:808304/131‑1 (MQ=255)
gggCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGc < 2:753699/134‑1 (MQ=255)
ggTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCg < 2:948385/134‑1 (MQ=255)
gTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGa < 1:855115/101‑1 (MQ=255)
gTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGa > 2:855115/1‑101 (MQ=255)
tgGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAgg < 1:721994/70‑1 (MQ=255)
tgGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAgg > 2:721994/1‑70 (MQ=255)
gCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg < 1:868106/120‑2 (MQ=255)
gCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg > 2:868106/1‑119 (MQ=255)
ggACCGGCTTCGGCATGCAGGACCACACCGTGCCGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCt > 2:404430/1‑133 (MQ=255)
ggCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCt > 2:908334/1‑134 (MQ=255)
ggCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCt > 1:86075/1‑134 (MQ=255)
gTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCt > 1:390330/1‑47 (MQ=39)
gTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCt < 2:390330/47‑1 (MQ=39)
gTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCgg > 2:477778/1‑133 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAg < 1:97283/59‑1 (MQ=39)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAg > 2:97283/1‑59 (MQ=39)
|
GCCACGCGCAACCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGG > AM260479/1071805‑1072046
|
| 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
GCCGGCTTCGACCTGGCCACGCGCAACCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCC > AM260479/1071790‑1072080
|
gacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACG < GWNJ‑0478:712:GW2002102894th:2:2107:15590:64962/93‑1 (MQ=60)
cggagatgtgtataagagacagCCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCC < GWNJ‑0478:712:GW2002102894th:2:1111:12315:67023/126‑1 (MQ=60)
GCTTCGACCTGGCCACGCGCAACCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCG < GWNJ‑0478:712:GW2002102894th:2:1210:16594:43077/150‑1 (MQ=60)
ttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGG < GWNJ‑0478:712:GW2002102894th:2:1201:15701:88476/71‑1 (MQ=60)
tccccggatctggacggacccagtgctttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGG < GWNJ‑0478:712:GW2002102894th:2:2209:19312:41170/43‑1 (MQ=60)
agatgtgtataagagacagGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCAC < GWNJ‑0478:712:GW2002102894th:2:2209:11897:27257/131‑1 (MQ=60)
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGC < GWNJ‑0478:712:GW2002102894th:2:2112:5952:84161/101‑1 (MQ=60)
CCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑Ggacctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2111:4797:14235/1‑120 (MQ=60)
ACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCG < GWNJ‑0478:712:GW2002102894th:2:2202:12605:12380/147‑1 (MQ=60)
agaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCA < GWNJ‑0478:712:GW2002102894th:2:1106:14466:62192/89‑1 (MQ=60)
aagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCG < GWNJ‑0478:712:GW2002102894th:2:2208:8113:3513/92‑1 (MQ=60)
CCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACAC < GWNJ‑0478:712:GW2002102894th:2:2206:13933:5659/150‑1 (MQ=60)
GGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTG > GWNJ‑0478:712:GW2002102894th:2:1107:12995:89440/1‑150 (MQ=60)
ATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGActgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1209:3386:72924/1‑77 (MQ=60)
GGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGatgcggcccaggtccagtttc > GWNJ‑0478:712:GW2002102894th:2:2214:4160:100177/1‑128 (MQ=60)
GGACCACACCGTGCTGCTGACCAACGCCT‑Ggacctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaacaaacagacctacaataagaacaaacgtatcgtcaataaa > GWNJ‑0478:712:GW2002102894th:2:1107:3379:68794/1‑30 (MQ=60)
GTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGAC > GWNJ‑0478:712:GW2002102894th:2:2206:16639:70150/1‑150 (MQ=60)
G‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCC < GWNJ‑0478:712:GW2002102894th:2:2208:8417:60988/148‑1 (MQ=60)
|
GCCGGCTTCGACCTGGCCACGCGCAACCTCTACCGGGCCGAGGTGGGGTTGTCCGTCGCCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCC > AM260479/1071790‑1072080
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
