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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
735,524 |
+G |
intergenic (‑409/+175) |
h16_A0685 ← / ← h16_A0686 |
hypothetical membrane spanning protein/Predictedpermease/CBS‑domain‑containing membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 735,521 | 1 | . | G | 100.0%
| 59.9
/ NA
| 17 | intergenic (‑406/+178) | h16_A0685/h16_A0686 | hypothetical membrane spanning protein/Predictedpermease/CBS‑domain‑containing membrane protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (9/8); total (9/8) |
GAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGC > AM260479/735388‑735611
|
gAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCa < 2:981224/134‑1 (MQ=255)
gAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCa < 2:93258/134‑1 (MQ=255)
cAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑ggggca < 2:57871/134‑4 (MQ=255)
aaaGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTg < 2:602133/134‑1 (MQ=255)
gTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCt < 1:49767/134‑1 (MQ=255)
cgcgTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGcc < 2:804284/121‑1 (MQ=255)
cgcgTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGcc > 1:804284/1‑121 (MQ=255)
aGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGAt < 1:462591/134‑1 (MQ=255)
aatTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGgc < 1:72171/133‑1 (MQ=255)
tggtTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCtgctgc > 1:105236/1‑133 (MQ=255)
cACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCa > 1:303362/1‑134 (MQ=255)
aCGGTGGTGCTTGCTGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCa < 2:522516/101‑1 (MQ=255)
aCGGTGGTGCTTGCTGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCa > 1:522516/1‑101 (MQ=255)
aCGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCAt > 2:748121/1‑134 (MQ=255)
aCGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑gg < 2:288822/63‑1 (MQ=35)
aCGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑gg > 1:288822/1‑63 (MQ=35)
ccGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGtt < 1:60648/65‑1 (MQ=255)
ccGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGtt > 2:60648/1‑65 (MQ=255)
ccGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGgc > 2:356825/1‑134 (MQ=255)
ccGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGgc > 2:842722/1‑134 (MQ=255)
aGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGgccg > 2:1032938/1‑61 (MQ=255)
aGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGgccg < 1:1032938/61‑1 (MQ=255)
|
GAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGC > AM260479/735388‑735611
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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
CACTTTTTGTCCGAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGCTGCTGCGCGGGCTCAAAGTGCATCGTCGGTTTCTTCTGCGCTTGCGCGGGGCGCAGCCAA > AM260479/735376‑735671
|
CACTTTTTGTCCGAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGG < GWNJ‑0478:712:GW2002102894th:2:2205:19505:55015/150‑1 (MQ=60)
gtttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGgc < GWNJ‑0478:712:GW2002102894th:2:1113:19096:78068/73‑3 (MQ=12)
AAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACT > GWNJ‑0478:712:GW2002102894th:2:2202:17801:17008/1‑150 (MQ=60)
AGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTAT < GWNJ‑0478:712:GW2002102894th:2:1102:13177:44971/150‑1 (MQ=60)
cggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAAC < GWNJ‑0478:712:GW2002102894th:2:1104:16492:19808/95‑1 (MQ=54)
GAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGC < GWNJ‑0478:712:GW2002102894th:2:1212:18116:95678/150‑1 (MQ=60)
CAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTG < GWNJ‑0478:712:GW2002102894th:2:1104:2528:98447/149‑1 (MQ=60)
ATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCG > GWNJ‑0478:712:GW2002102894th:2:1108:13591:11658/1‑149 (MQ=60)
ATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGgcagtgccctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccg > GWNJ‑0478:712:GW2002102894th:2:2201:10678:47406/1‑87 (MQ=33)
aagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGC < GWNJ‑0478:712:GW2002102894th:2:2216:6296:90797/91‑1 (MQ=47)
GGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCAT > GWNJ‑0478:712:GW2002102894th:2:1205:18647:36688/1‑150 (MQ=60)
GTGTTGGTGGTTCGCACGGTGGTGCTTGCTGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCctgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:2101:13043:28233/1‑131 (MQ=57)
GTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:1202:20538:38842/1‑93 (MQ=27)
GCTACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGCTGCTGCGCGGGCTCAAAGTGCATCGTCGGTTTCTTCTGCGC > GWNJ‑0478:712:GW2002102894th:2:1215:8088:86503/1‑150 (MQ=60)
TACGCCATGTGAGTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCAATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGCTGCTGCGCGGGCTCAAAGTGCATCGTCGGTTTCTTCTGCGCTT > GWNJ‑0478:712:GW2002102894th:2:1201:5940:17019/1‑150 (MQ=60)
GTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaacgaacggaaagaaagaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2214:20874:78410/1‑49 (MQ=12)
GTCAGGGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGCTGCTGCGCGGGCTCAAAGTGCATCGTCGGTTTCTTCTGCGCTTGCGCGGGGCGC > GWNJ‑0478:712:GW2002102894th:2:2201:5005:10112/1‑149 (MQ=60)
GGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaagagcaatgaaatatgt > GWNJ‑0478:712:GW2002102894th:2:2116:7564:6368/1‑54 (MQ=34)
|
CACTTTTTGTCCGAGCGACAAAAAGTAACCAAAAAACGCGTCGCCTGAGCGGCCGGCAATCAATTCCAGGGTGTTGGTGGTTCGCACGGTGGTGCTTGCCGTTCCGGCGTGGTTGCCCGTTCGACCCTGCTACGCCATGTGAGTCA‑GGGCAGTGCCTGCGTTAACCCACTATTGAACGATCCCCATGCAGGGCGCAGGCCGCCTGCTGCGAGCGGCATCGCGGGGACGCCTACGGCTGCTGCGCGGGCTCAAAGTGCATCGTCGGTTTCTTCTGCGCTTGCGCGGGGCGCAGCCAA > AM260479/735376‑735671
|
| 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: ‑ |
