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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
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%
| 86.1
/ NA
| 23 | T81P (ACC→CCC) | h16_A2071 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (10/13); total (10/13) |
GCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGT > AM260479/2253061‑2253267
|
gCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc < 2:974227/134‑2 (MQ=255)
cACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 2:50597/132‑1 (MQ=255)
cACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 2:660638/132‑1 (MQ=255)
gCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTAc < 1:442271/134‑1 (MQ=255)
gATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:653035/120‑1 (MQ=255)
gATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 2:653035/1‑120 (MQ=255)
gATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc < 1:909379/94‑2 (MQ=255)
gATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑ccc > 2:909379/1‑93 (MQ=255)
cgccgGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCg < 1:134257/126‑1 (MQ=255)
cgccgGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCg > 2:134257/1‑126 (MQ=255)
ccACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGccc > 1:482074/1‑134 (MQ=255)
gTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTg < 2:482074/134‑1 (MQ=255)
ttCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 1:278708/1‑82 (MQ=255)
ttCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 2:278708/82‑1 (MQ=255)
tccGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCa < 1:489420/83‑1 (MQ=255)
tccGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCa > 2:489420/1‑83 (MQ=255)
tAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 2:1079857/1‑73 (MQ=255)
tAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:1079857/73‑1 (MQ=255)
aacaGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc < 1:867569/66‑1 (MQ=255)
aacaGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATc > 2:867569/1‑66 (MQ=255)
gtgtTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTAcg > 2:1120382/1‑79 (MQ=255)
gtgtTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTAcg < 1:1120382/79‑1 (MQ=255)
cGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGt < 1:1076324/103‑1 (MQ=255)
cGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGt > 2:1076324/1‑103 (MQ=255)
aGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGaa > 2:655380/1‑81 (MQ=255)
aGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGaa < 1:655380/81‑1 (MQ=255)
|
GCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGT > AM260479/2253061‑2253267
|
| 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
GGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGCATCGCCCGACG > AM260479/2253060‑2253305
|
ggctcggagatgtgtataagagacagCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGTCCGCTGGTAG < GWNJ‑0478:712:GW2002102894th:2:2202:19129:49936/124‑1 (MQ=60)
ggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:2116:17726:88023/96‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:2213:6969:2050/103‑1 (MQ=60)
GCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGAC < GWNJ‑0478:712:GW2002102894th:2:2104:18204:40550/148‑1 (MQ=60)
agtgtctcgtgggctcggagatgtgtataagagacaGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGC < GWNJ‑0478:712:GW2002102894th:2:1213:5175:51007/114‑1 (MQ=60)
CGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCC < GWNJ‑0478:712:GW2002102894th:2:1211:6415:11554/150‑1 (MQ=60)
CACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCG < GWNJ‑0478:712:GW2002102894th:2:1109:7764:7173/150‑1 (MQ=60)
CACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCG > GWNJ‑0478:712:GW2002102894th:2:1213:17268:15352/1‑150 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCC < GWNJ‑0478:712:GW2002102894th:2:2214:3147:99117/109‑1 (MQ=60)
GGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACctgtctcttatacacatctccgagcccacgagacactc > GWNJ‑0478:712:GW2002102894th:2:1116:16882:53709/1‑112 (MQ=60)
cgagtgtctcgtgggctcggagatgtgtataagagacaGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGC < GWNJ‑0478:712:GW2002102894th:2:2104:19742:55699/112‑1 (MQ=60)
atgtgtataagagacagCAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAACCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACAC < GWNJ‑0478:712:GW2002102894th:2:2212:4331:83560/133‑1 (MQ=60)
CCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCcctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaacaagaaaaaagaaagaaa > GWNJ‑0478:712:GW2002102894th:2:1210:14387:36194/1‑53 (MQ=60)
cgtgggctcggagatgtgtataagagacagacCCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGCATCGCCCGACG < GWNJ‑0478:712:GW2002102894th:2:2202:6359:12954/114‑1 (MQ=60)
|
GGCAGCCACCGCGGTCGACCCGCATCCTGCACGTACGCACCGATGCCGCCGGCCACGTCGCGCAGGTGCGCCTGTGCATTTCCTCCGATAACAACAACAGCGTGTTCGCTCCGCAGCCGGTGCAGTGGCAAA‑CCTGCGCCCGCTGGTAGCGGCCGAGATCGCGCAGTACCGAGACTACGCGGCCCGAGCAGGCCGCTGTTGAAGCCGTGACCCCCAGCAACACCCGCCTCCCCGCATCGCCCGACG > AM260479/2253060‑2253305
|
| 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: ‑ |
