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 |
1,071,996 |
+G |
intergenic (+60/‑123) |
h16_A0979 → / → h16_A0980 |
Hypothetical protein/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,071,994 | 1 | . | G | 100.0%
| 58.5
/ NA
| 16 | intergenic (+58/‑125) | h16_A0979/h16_A0980 | Hypothetical protein/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (9/7); total (9/7) |
CTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATG > AM260479/1071865‑1072121
|
cTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGTGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg < 2:184481/134‑2 (MQ=255)
gtcgCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATc > 1:378016/4‑133 (MQ=255)
ccGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCg > 2:954472/1‑134 (MQ=255)
gTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCgg > 2:41114/1‑133 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACcg < 1:1081563/95‑1 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACcg > 2:1081563/1‑95 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATcc > 2:1137605/1‑134 (MQ=255)
cctggACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGAc < 1:458308/130‑1 (MQ=255)
tggACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATC‑AGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTg > 1:71463/3‑134 (MQ=255)
ggggCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATc > 2:22965/1‑133 (MQ=255)
aCGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGAc > 1:670583/1‑134 (MQ=255)
aCGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg > 1:190342/1‑45 (MQ=255)
aCGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg < 2:190342/46‑2 (MQ=255)
gCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTcccc < 1:41114/132‑1 (MQ=255)
aaGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCt < 1:1137605/134‑1 (MQ=255)
ggTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGcc < 2:670583/134‑1 (MQ=255)
ccaGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTgg > 2:169899/1‑120 (MQ=255)
ccaGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTgg < 1:169899/120‑1 (MQ=255)
caGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATg < 1:954472/134‑1 (MQ=255)
|
CTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATG > AM260479/1071865‑1072121
|
| 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
CCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGGCGTG > AM260479/1071848‑1072142
|
gcttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagcctgGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GG < GWNJ‑0478:712:GW2002102894th:2:1202:7119:27589/62‑1 (MQ=60)
ttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagcctgGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGG < GWNJ‑0478:712:GW2002102894th:2:2104:15144:83897/63‑1 (MQ=60)
gcgcagggccgcgttgtcGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCG > GWNJ‑0478:712:GW2002102894th:2:1207:12752:87653/19‑149 (MQ=60)
gctcggagatgtgtataagagacagGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGC < GWNJ‑0478:712:GW2002102894th:2:2213:12660:7094/125‑1 (MQ=60)
gttttttttttgcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagccagcaagGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAAC < GWNJ‑0478:712:GW2002102894th:2:1115:4994:10695/64‑1 (MQ=60)
ttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACT < GWNJ‑0478:712:GW2002102894th:2:1112:12849:14714/75‑1 (MQ=60)
CTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATC‑AGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGG > GWNJ‑0478:712:GW2002102894th:2:1104:19199:55911/1‑150 (MQ=60)
GCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAG < GWNJ‑0478:712:GW2002102894th:2:1210:13327:37630/150‑1 (MQ=60)
CGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1113:20774:28207/1‑77 (MQ=60)
CGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACG > GWNJ‑0478:712:GW2002102894th:2:2107:15133:85708/1‑150 (MQ=60)
CGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGG < GWNJ‑0478:712:GW2002102894th:2:1105:2571:62290/148‑1 (MQ=60)
CAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGA < GWNJ‑0478:712:GW2002102894th:2:2215:16440:65739/150‑1 (MQ=60)
AGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATG < GWNJ‑0478:712:GW2002102894th:2:1110:15632:16862/150‑1 (MQ=60)
CCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCAT < GWNJ‑0478:712:GW2002102894th:2:2209:7952:21188/150‑1 (MQ=60)
AG‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGGCGTG < GWNJ‑0478:712:GW2002102894th:2:1103:19897:49212/150‑1 (MQ=60)
|
CCGGCGACAACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGGCGTG > AM260479/1071848‑1072142
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
