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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,018,102 |
+C |
intergenic (+111/+98) |
h16_B1778 → / ← h16_B1779 |
putative peptidase/putative peptidase, S33 family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,018,101 | 1 | . | C | 100.0%
| 50.0
/ NA
| 14 | intergenic (+110/+99) | h16_B1778/h16_B1779 | putative peptidase/putative peptidase, S33 family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (7/7); total (7/7) |
CAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTC > AM260480/2017969‑2018201
|
cAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGA‑c < 1:246712/134‑1 (MQ=255)
ttCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGA‑ccatgc > 1:495193/1‑129 (MQ=255)
cgcTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGc > 2:879609/1‑133 (MQ=255)
cTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCACTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAg > 1:699238/1‑134 (MQ=255)
gcggcggcgGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGAt > 1:238228/1‑134 (MQ=255)
cgggcgCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGcc < 1:398526/108‑1 (MQ=255)
cgggcgCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGcc > 2:398526/1‑108 (MQ=255)
gCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGc < 2:495193/134‑1 (MQ=255)
aaTGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAg > 2:465063/1‑134 (MQ=255)
aTGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGc > 2:404999/1‑134 (MQ=255)
cAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTAt < 1:419019/133‑1 (MQ=255)
cgccCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTgcgc < 1:879609/134‑1 (MQ=255)
cGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGAc < 1:541518/84‑1 (MQ=255)
cGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGAc > 2:541518/1‑84 (MQ=255)
cGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCg < 2:150601/134‑1 (MQ=255)
cTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTc < 1:404999/134‑1 (MQ=255)
|
CAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTC > AM260480/2017969‑2018201
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ 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
GAGTTGCGCGCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTGGGCGCTT > AM260480/2017959‑2018249
|
GAGTTGCGCGCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCG > GWNJ‑0478:712:GW2002102894th:2:1214:3264:87730/1‑150 (MQ=60)
GCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGG < GWNJ‑0478:712:GW2002102894th:2:1116:6779:57496/150‑1 (MQ=60)
GTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCACTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGC > GWNJ‑0478:712:GW2002102894th:2:2113:13664:99246/1‑150 (MQ=60)
ataatccgttcattattttgatattttctttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagacgcccgacCATGCGCACCGATGGCCAGCGCCGCCCAGCTC < GWNJ‑0478:712:GW2002102894th:2:2209:4118:38364/32‑1 (MQ=60)
ataagagacaGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTC < GWNJ‑0478:712:GW2002102894th:2:1211:13449:44947/139‑1 (MQ=60)
GAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATG > GWNJ‑0478:712:GW2002102894th:2:1116:1922:4003/1‑150 (MQ=60)
tttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGTGTCATGG < GWNJ‑0478:712:GW2002102894th:2:2208:5411:22471/77‑1 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagacaGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCC < GWNJ‑0478:712:GW2002102894th:2:2103:16521:91209/115‑1 (MQ=60)
TCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCAT < GWNJ‑0478:712:GW2002102894th:2:1210:2408:62146/149‑1 (MQ=60)
CCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATG < GWNJ‑0478:712:GW2002102894th:2:2207:7413:40013/150‑1 (MQ=60)
GCTTATCCGGGCGCATGGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACAT < GWNJ‑0478:712:GW2002102894th:2:1211:8459:80979/150‑1 (MQ=60)
ggctcggagatgtgtataagagacagacCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGCATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCAC < GWNJ‑0478:712:GW2002102894th:2:1113:14728:95118/122‑1 (MQ=60)
GGTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCtgtctctt > GWNJ‑0478:712:GW2002102894th:2:1108:2621:38716/1‑142 (MQ=60)
GTCCGGGGCATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCT > GWNJ‑0478:712:GW2002102894th:2:1103:1737:3287/1‑150 (MQ=60)
ATGCCCGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTG > GWNJ‑0478:712:GW2002102894th:2:1212:21236:2131/1‑150 (MQ=60)
acCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTGGGCGCTT > GWNJ‑0478:712:GW2002102894th:2:2113:13766:73110/3‑150 (MQ=60)
|
GAGTTGCGCGCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCCGA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTGGGCGCTT > AM260480/2017959‑2018249
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
