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 |
2,253,193 |
+C |
coding (243/258 nt) |
h16_A2071 → |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,253,191 | 1 | . | C | 100.0%
| 80.1
/ NA
| 22 | T81P (ACC→CCC) | h16_A2071 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (10/12); total (10/12) |
GCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCC > AM260479/2253081‑2253292
|
gCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGcc < 1:679569/134‑1 (MQ=255)
cACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:622274/132‑1 (MQ=255)
ccgccgGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGAt < 1:345548/115‑1 (MQ=255)
ccgccgGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGAt > 2:345548/1‑115 (MQ=255)
gccgGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTAcgc > 2:78372/1‑134 (MQ=255)
gTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 1:288067/1‑105 (MQ=255)
gTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 2:288067/105‑1 (MQ=255)
gcCTGTGCATTTCCTCCGATAACACCAACGGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc < 1:557605/66‑2 (MQ=255)
gcCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc > 2:557605/1‑65 (MQ=255)
cATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGt < 1:78372/133‑1 (MQ=255)
cGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAg < 1:1157527/104‑1 (MQ=255)
cGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAg > 2:1157527/1‑104 (MQ=255)
tAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc < 2:881788/47‑2 (MQ=255)
tAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc > 1:881788/1‑46 (MQ=255)
gCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCaa < 2:433295/122‑1 (MQ=255)
gCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCaa > 1:433295/1‑122 (MQ=255)
gtTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAg > 1:812647/1‑47 (MQ=38)
gtTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAg < 2:812647/47‑1 (MQ=38)
ttCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 1:86616/1‑57 (MQ=255)
ttCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 2:418477/1‑57 (MQ=255)
ttCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:418477/57‑1 (MQ=255)
ttCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 2:86616/57‑1 (MQ=255)
ttCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTcccc < 2:1067407/130‑1 (MQ=255)
ttCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTcccc > 1:1067407/1‑130 (MQ=255)
cAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGaa < 1:635834/82‑1 (MQ=255)
cAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGaa > 2:635834/1‑82 (MQ=255)
|
GCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCC > AM260479/2253081‑2253292
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
TCACCTGGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGCATCGCCCGACGCCCTGCCCGCCCATGCCCCGGCAGCGCAC > AM260479/2253054‑2253334
|
agattgaggttcttgctgtttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGC < GWNJ‑0478:712:GW2002102894th:2:1103:2300:92892/51‑1 (MQ=60)
ggcatacgagtttagcgagtgtctcgtgggctcggagatgtgtataagagacagACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACACCAACGGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAG < GWNJ‑0478:712:GW2002102894th:2:1216:4618:20327/96‑1 (MQ=60)
CGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTAC < GWNJ‑0478:712:GW2002102894th:2:2106:4783:40494/150‑1 (MQ=60)
gacagACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGA < GWNJ‑0478:712:GW2002102894th:2:1205:6216:91729/145‑1 (MQ=60)
gcagaatacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:1209:7761:22397/87‑1 (MQ=60)
GCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:2105:2602:4938/148‑1 (MQ=60)
GATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1201:15425:25635/1‑135 (MQ=60)
gtgtataagagacaGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAA < GWNJ‑0478:712:GW2002102894th:2:2216:7627:51930/135‑1 (MQ=60)
gagtgtctcgtgggctcggagatgtgtataagagacagGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGC < GWNJ‑0478:712:GW2002102894th:2:2105:4649:83322/112‑1 (MQ=60)
GTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2201:10454:79854/1‑78 (MQ=60)
GCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACAC < GWNJ‑0478:712:GW2002102894th:2:1104:6235:97748/149‑1 (MQ=60)
CCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCC > GWNJ‑0478:712:GW2002102894th:2:1211:5378:6414/1‑150 (MQ=60)
TAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2115:11921:35373/1‑77 (MQ=60)
AACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgc > GWNJ‑0478:712:GW2002102894th:2:1107:3249:46123/1‑87 (MQ=60)
AACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGCATC > GWNJ‑0478:712:GW2002102894th:2:2212:7250:36759/1‑150 (MQ=60)
GGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaatcagccactactagtcctgccc > GWNJ‑0478:712:GW2002102894th:2:1108:15898:2640/1‑50 (MQ=60)
|
TCACCTGGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGCATCGCCCGACGCCCTGCCCGCCCATGCCCCGGCAGCGCAC > AM260479/2253054‑2253334
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
