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 |
1,071,996 |
+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%
| 49.6
/ NA
| 14 | intergenic (+58/‑125) | h16_A0979/h16_A0980 | Hypothetical protein/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (10/4); total (10/4) |
GCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCT > AM260479/1071879‑1072115
|
gCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg < 1:868106/120‑2 (MQ=255)
gCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑ggg > 2:868106/1‑119 (MQ=255)
ggACCGGCTTCGGCATGCAGGACCACACCGTGCCGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCt > 2:404430/1‑133 (MQ=255)
ggCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCt > 1:86075/1‑134 (MQ=255)
ggCATGCAGGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCt > 2:908334/1‑134 (MQ=255)
gTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCgg > 2:477778/1‑133 (MQ=255)
gcctggACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGaa > 1:878146/6‑120 (MQ=255)
gcctggACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGaa < 2:878146/115‑1 (MQ=255)
tggACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCt > 2:175628/3‑134 (MQ=255)
gACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCt < 1:908334/132‑1 (MQ=255)
cGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGc > 1:643183/1‑83 (MQ=255)
cGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGc < 2:643183/83‑1 (MQ=255)
aTCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATc > 1:1029696/1‑108 (MQ=255)
aTCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATc < 2:1029696/108‑1 (MQ=255)
gCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCt > 1:110247/1‑134 (MQ=255)
cccACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCt > 2:552454/1‑133 (MQ=255)
|
GCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCT > AM260479/1071879‑1072115
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
CGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGG > AM260479/1071860‑1072138
|
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)
GGACCACACCGTGCTGCTGACCAACGCCTGGACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGatgcggcccaggtccagtttc > GWNJ‑0478:712:GW2002102894th:2:2214:4160:100177/1‑128 (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)
gtagctccgtctcgtgggctcggagatgtgtataagagacaGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGT < GWNJ‑0478:712:GW2002102894th:2:1208:10514:5011/108‑1 (MQ=60)
GCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACctgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:2109:15096:23324/1‑113 (MQ=60)
GGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCtgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2216:14385:37525/1‑139 (MQ=60)
GATCAAGGAAGCGGTGCCCACCAGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTG > GWNJ‑0478:712:GW2002102894th:2:1108:20268:44778/1‑150 (MQ=60)
AGCAAGGGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGG < GWNJ‑0478:712:GW2002102894th:2:1201:1622:34288/150‑1 (MQ=60)
|
CGGCCCTGCGCGCGCTGTGGCCGGGCTGGACCGGCTTCGGCATGCAGGACCACACCGTGCTGCTGACCAACGCCT‑GACGCCCGAGGGGCGCAACGGCACGCTCGCCGTGATCAAGGAAGCGGTGCCCACCAGCAA‑GGCGGCGTGATCGACACCGCGCTGACCGTCGGGCTGGCCGCCTTCGGGCCGGAAATCCTGAAACTGGACCTGGGCCGCATCCAGCCCGACGTGGTCCCCGCCGACCGCCTGGGGAGCCGCTGAGATGAAAGCCTGCATGCATGG > AM260479/1071860‑1072138
|
| 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: ‑ |
