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 |
561,006 |
+G |
intergenic (+9/+38) |
h16_A0532 → / ← h16_A0533 |
conserved hypothetical protein/universal stress protein, UspA family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 561,005 | 1 | . | G | 100.0%
| 87.3
/ NA
| 23 | intergenic (+8/+39) | h16_A0532/h16_A0533 | conserved hypothetical protein/universal stress protein, UspA family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (12/11); total (12/11) |
TTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCG > AM260479/560899‑561129
|
ttCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGtttt > 2:833953/1‑134 (MQ=255)
ccTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCa < 2:158482/134‑1 (MQ=255)
aGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGgc > 1:383668/1‑134 (MQ=255)
cATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGgcgc > 1:1112219/1‑129 (MQ=255)
cATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGgcgc < 2:1112219/129‑1 (MQ=255)
cATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGa > 1:639082/1‑134 (MQ=255)
cATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGa > 1:640920/1‑134 (MQ=255)
cATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGa < 2:67412/134‑1 (MQ=255)
tCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGAcc < 1:565826/134‑1 (MQ=255)
cgcgAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCg < 2:640920/133‑1 (MQ=255)
aaCAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCAc > 1:276664/1‑134 (MQ=255)
aaCAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCAc > 1:680670/1‑134 (MQ=255)
aaCAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCAc > 1:31254/1‑134 (MQ=255)
aCAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCAct < 2:31254/134‑1 (MQ=255)
gcTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTctgcctgag > 1:511524/1‑132 (MQ=255)
aTGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAg < 2:639082/134‑1 (MQ=255)
aTGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAg < 2:511524/134‑1 (MQ=255)
gcgcCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCAcgc < 2:935675/117‑1 (MQ=255)
gcgcCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCAcgc > 1:935675/1‑117 (MQ=255)
tGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCttt > 2:484502/1‑63 (MQ=255)
tGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCttt < 1:484502/63‑1 (MQ=255)
aGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTCCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCAc < 1:833953/132‑1 (MQ=255)
ggTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCg > 2:441785/1‑133 (MQ=255)
|
TTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCG > AM260479/560899‑561129
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
CGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACCG > AM260479/560915‑561146
|
CGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCG > GWNJ‑0478:712:GW2002102894th:2:1206:6013:21412/1‑150 (MQ=60)
CTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGAC > GWNJ‑0478:712:GW2002102894th:2:2104:4071:2673/1‑150 (MQ=60)
CTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGAC > GWNJ‑0478:712:GW2002102894th:2:2104:9241:12861/1‑150 (MQ=60)
CTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGAC > GWNJ‑0478:712:GW2002102894th:2:2214:10973:50932/1‑150 (MQ=60)
gacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACC < GWNJ‑0478:712:GW2002102894th:2:1213:6186:70780/94‑1 (MQ=60)
ATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCAC < GWNJ‑0478:712:GW2002102894th:2:1216:5334:57822/150‑1 (MQ=60)
TCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACT > GWNJ‑0478:712:GW2002102894th:2:1103:10796:100776/1‑150 (MQ=60)
TCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACT > GWNJ‑0478:712:GW2002102894th:2:1116:19164:61020/1‑150 (MQ=60)
TCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACT > GWNJ‑0478:712:GW2002102894th:2:2106:13557:47216/1‑150 (MQ=60)
GCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGAGC > GWNJ‑0478:712:GW2002102894th:2:1215:1640:7687/1‑150 (MQ=60)
AAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCtg > GWNJ‑0478:712:GW2002102894th:2:2205:3805:11041/1‑148 (MQ=60)
CGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGA > GWNJ‑0478:712:GW2002102894th:2:2206:16494:85884/1‑149 (MQ=60)
GAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTCCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGA < GWNJ‑0478:712:GW2002102894th:2:2114:20690:33741/148‑1 (MQ=60)
GGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACCG > GWNJ‑0478:712:GW2002102894th:2:1201:4633:58892/1‑150 (MQ=60)
|
CGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACCG > AM260479/560915‑561146
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
