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 |
AM260480 |
1,192,562 |
+C |
coding (163/594 nt) |
cccA → |
cytochrome c, mono‑or diheme variant |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 1,192,560 | 1 | . | C | 100.0%
| 93.7
/ NA
| 25 | V54A (GTC→GCC) | cccA | cytochrome c, mono‑or diheme variant |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (12/13); total (12/13) |
CGGGCCTGGTCCGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGT‑CCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATG > AM260480/1192435‑1192688
|
cGGGCCTGGTCCGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGAcc > 2:543250/1‑134 (MQ=255)
ggctggctGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCccggcc < 1:543250/134‑1 (MQ=255)
ggctggctGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCccggcc < 1:910027/134‑1 (MQ=255)
gctggctgGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCccggccg < 2:981369/134‑1 (MQ=255)
ggctggTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCt > 1:433633/1‑134 (MQ=255)
aaaCAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGAc > 2:985941/1‑134 (MQ=255)
aaaCAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGAc > 1:355639/1‑134 (MQ=255)
aaCAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACg < 2:433633/134‑1 (MQ=255)
aaaCAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGccc < 2:227416/134‑1 (MQ=255)
aacaacCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTcc > 1:1017394/1‑95 (MQ=255)
aacaacCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTcc < 2:1017394/95‑1 (MQ=255)
cACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCa > 1:915546/1‑132 (MQ=255)
aTGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGc < 1:1158411/56‑1 (MQ=255)
aTGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGc > 2:1158411/1‑56 (MQ=255)
aTGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTggg > 2:854098/1‑134 (MQ=255)
aCGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGc > 1:1068338/1‑98 (MQ=255)
aCGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGc < 2:1068338/98‑1 (MQ=255)
cAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATg < 1:854098/134‑1 (MQ=255)
gccgccTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGgcgc > 1:229509/1‑134 (MQ=255)
cgccTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGccc > 1:223072/1‑134 (MQ=255)
gccTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCg < 1:538071/134‑1 (MQ=255)
cgcgCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACaa < 2:1133511/123‑1 (MQ=255)
cgcgCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACaa > 1:1133511/1‑123 (MQ=255)
gcTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCg < 1:2399/134‑1 (MQ=255)
cgcgTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATg < 1:422733/134‑1 (MQ=255)
|
CGGGCCTGGTCCGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGT‑CCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATG > AM260480/1192435‑1192688
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAGGCGCCTCCGGGCCTGGTCCGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGT‑CCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATGCGCACAAGGAGGCTCTGCGG > AM260480/1192425‑1192708
|
cgtgggctcggagatgtgtataagagacagGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCC < GWNJ‑0478:712:GW2002102894th:2:2112:3560:61100/117‑1 (MQ=60)
agcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTC < GWNJ‑0478:712:GW2002102894th:2:2216:18727:55547/86‑1 (MQ=60)
GGGCCTGGTCCGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTC > GWNJ‑0478:712:GW2002102894th:2:1211:10577:8047/1‑150 (MQ=60)
CGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:2202:9958:54407/150‑1 (MQ=60)
CGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:1214:7052:52115/150‑1 (MQ=60)
ttttgtttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:2210:17593:76022/62‑1 (MQ=60)
GTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACG > GWNJ‑0478:712:GW2002102894th:2:1204:5979:54369/1‑150 (MQ=60)
TGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCctgtctcttatacacatctcgagcc > GWNJ‑0478:712:GW2002102894th:2:2208:6142:74913/1‑125 (MQ=60)
CAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAA > GWNJ‑0478:712:GW2002102894th:2:2202:12573:88593/1‑148 (MQ=60)
CTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGT‑CCctgaccctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2103:8323:24212/1‑63 (MQ=60)
GAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:2212:21229:41562/1‑128 (MQ=60)
CCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCC > GWNJ‑0478:712:GW2002102894th:2:1115:2129:30347/1‑150 (MQ=60)
ATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCG > GWNJ‑0478:712:GW2002102894th:2:1112:17775:97864/1‑150 (MQ=60)
attagcgagtgtctcgtgggctcggagatgtgtataagagacagCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGAC < GWNJ‑0478:712:GW2002102894th:2:2202:11256:12054/106‑1 (MQ=60)
GCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCC < GWNJ‑0478:712:GW2002102894th:2:2116:18964:28252/150‑1 (MQ=60)
CGCCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGT < GWNJ‑0478:712:GW2002102894th:2:1214:5079:27643/150‑1 (MQ=60)
CCTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGT > GWNJ‑0478:712:GW2002102894th:2:2215:17567:47926/1‑148 (MQ=60)
CTGCTTGCCTTGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaagactccaaacat > GWNJ‑0478:712:GW2002102894th:2:1115:3139:28199/1‑58 (MQ=60)
TGCTCGCGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATGCGC > GWNJ‑0478:712:GW2002102894th:2:1106:16427:73176/1‑150 (MQ=60)
CGCTTTGCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATGCGCACAAGG < GWNJ‑0478:712:GW2002102894th:2:1101:8769:17308/150‑1 (MQ=60)
GCGCGTCCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATGCGCACAAGGAGGCTC < GWNJ‑0478:712:GW2002102894th:2:1209:14162:46394/150‑1 (MQ=60)
tcCCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTgtctcttatacacatctccgagcccacgagacact > GWNJ‑0478:712:GW2002102894th:2:2101:18627:41624/3‑115 (MQ=60)
|
CAGGCGCCTCCGGGCCTGGTCCGGCTGGCTGGTATGGCTCTTGCGGAAACAGGGCAAACAACCAAGACCCGTCCACTGTAGGAGACATCCATGAAAACGCAGCGCCGCCTGCTTGCCTTGCTCGCGCTTTGCGCGT‑CCTGACCGCCCTCCCGGCCGGCTCCGTGCTGGCCCATGGCGACGTCACGCCCCAGGCCGTCGATACCAAAGCGTTACCACAACTGGGCGACGAATGGCGCCCGGACAATCCCTACCGTAGCGGTGATGCGCACAAGGAGGCTCTGCGG > AM260480/1192425‑1192708
|
| 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: ‑ |
