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 |
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%
| 67.8
/ NA
| 19 | intergenic (+58/‑125) | h16_A0979/h16_A0980 | Hypothetical protein/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (9/10); total (9/10) |
CTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAG > AM260479/1071865‑1072110
|
cTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg < 1:511497/134‑2 (MQ=255)
cgcTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGt > 1:814759/1‑133 (MQ=255)
tgGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATc < 2:965959/132‑1 (MQ=255)
ggCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGc < 1:241410/133‑1 (MQ=255)
ctgctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGaaa < 1:938716/133‑1 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGc > 1:170511/1‑125 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGc < 2:170511/125‑1 (MQ=255)
gctgACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATcc > 2:914050/1‑134 (MQ=255)
aCCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTg < 1:914050/132‑1 (MQ=255)
gcctggACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGa > 2:306396/6‑134 (MQ=255)
gACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCt < 2:814759/132‑1 (MQ=255)
ggCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTg < 1:18562/108‑1 (MQ=255)
ggCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTg > 2:18562/1‑108 (MQ=255)
ggCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGt > 1:249596/1‑134 (MQ=255)
cGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCccg > 2:996263/1‑134 (MQ=255)
gCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCccgc < 2:43559/134‑1 (MQ=255)
aGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCccgc < 1:170292/120‑1 (MQ=255)
aGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCccgc > 2:170292/1‑120 (MQ=255)
ccaGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAg < 2:126505/124‑1 (MQ=255)
ccaGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAg > 1:126505/1‑124 (MQ=255)
|
CTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAG > AM260479/1071865‑1072110
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ 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
ACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGGCGTGC > AM260479/1071857‑1072143
|
ACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTG > GWNJ‑0478:712:GW2002102894th:2:2202:12081:89044/1‑149 (MQ=60)
CCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACAC < GWNJ‑0478:712:GW2002102894th:2:1216:6114:56113/150‑1 (MQ=60)
GGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:1101:8569:101170/149‑1 (MQ=60)
CGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGC < GWNJ‑0478:712:GW2002102894th:2:1116:13521:13936/149‑1 (MQ=60)
GGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCT > GWNJ‑0478:712:GW2002102894th:2:1113:7924:7418/1‑150 (MQ=60)
GCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACC < GWNJ‑0478:712:GW2002102894th:2:2210:18934:65605/149‑1 (MQ=60)
GACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGC < GWNJ‑0478:712:GW2002102894th:2:2211:8693:21004/148‑1 (MQ=60)
ataagagacaGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATC < GWNJ‑0478:712:GW2002102894th:2:1103:12586:33585/139‑1 (MQ=60)
CCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTG > GWNJ‑0478:712:GW2002102894th:2:1116:20981:62128/1‑150 (MQ=60)
CGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAG < GWNJ‑0478:712:GW2002102894th:2:1113:14799:5780/150‑1 (MQ=60)
GCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGgcctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaataacagacgcataaaatgccaaccacgtataagaaat > GWNJ‑0478:712:GW2002102894th:2:2104:13065:40309/1‑34 (MQ=60)
AGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATG > GWNJ‑0478:712:GW2002102894th:2:1109:18916:44954/1‑150 (MQ=60)
CCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCctgtct > GWNJ‑0478:712:GW2002102894th:2:1112:17006:31473/1‑144 (MQ=60)
AGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttg > GWNJ‑0478:712:GW2002102894th:2:2205:13417:12942/1‑84 (MQ=60)
G‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGGCGTGC > GWNJ‑0478:712:GW2002102894th:2:2115:1730:44529/1‑150 (MQ=60)
|
ACGCGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGGCGTGC > AM260479/1071857‑1072143
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
