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
|
61 |
39.0 |
4165548 |
97.4% |
4057243 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
2,331,461 |
(T)8→7 |
intergenic (‑905/+261) |
ECW_RS11680 ← / ← ECW_RS11685 |
AAA family ATPase/replication endonuclease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,331,454 | 0 | T | . | 100.0%
| 182.0
/ NA
| 42 | intergenic (‑898/+268) | ECW_RS11680/ECW_RS11685 | AAA family ATPase/replication endonuclease |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (16/26); total (16/26) |
CATTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGTTTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGAC > NC_017635/2331406‑2331497
|
cATTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtt > 1:1493376/1‑50 (MQ=255)
aTTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGttt > 1:485816/1‑50 (MQ=255)
aTTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGttt > 1:364425/1‑50 (MQ=255)
aTTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGttt > 2:1302278/1‑50 (MQ=255)
aTTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGACAGGGTGGttt < 1:1235061/50‑1 (MQ=255)
ttATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttt < 2:1938401/50‑1 (MQ=255)
ttATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttt < 2:197430/50‑1 (MQ=255)
tATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGttttt > 1:1456554/1‑50 (MQ=255)
aTGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttt > 2:1614998/1‑50 (MQ=255)
tGCTTTAATATTCTTCAAACAAAAAAACCACCTGCCAGGGTGGttttttt < 2:485668/50‑1 (MQ=255)
tGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGttttttt < 1:560346/50‑1 (MQ=255)
tGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGttttttt < 1:1897434/50‑1 (MQ=255)
tGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttt < 1:140718/49‑1 (MQ=255)
gCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttttg > 1:2054785/1‑49 (MQ=255)
gCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttttg > 2:592947/1‑49 (MQ=255)
cTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttttgc > 2:126814/1‑48 (MQ=255)
cTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttttgc > 1:158885/1‑48 (MQ=255)
cTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGtttttttgc > 1:1277572/1‑48 (MQ=255)
aaTATGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGcc < 1:1811290/49‑1 (MQ=38)
aaTATGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGcc < 2:906521/49‑1 (MQ=38)
atatGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCca > 2:940876/1‑50 (MQ=39)
tatGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCcat > 2:1054335/1‑50 (MQ=39)
gCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCcatcat > 1:1637546/1‑50 (MQ=39)
cTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCcatcat < 2:1109628/49‑1 (MQ=38)
cTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCatcatc < 1:491897/50‑1 (MQ=39)
cTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCatcatc < 1:1037585/50‑1 (MQ=39)
caaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCAtcatca < 2:131714/48‑1 (MQ=38)
caaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCAtcatca < 2:1061545/48‑1 (MQ=38)
caaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCaa > 1:682425/1‑49 (MQ=38)
caaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCACCaa > 1:1561148/1‑49 (MQ=38)
aaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAAt < 1:775296/49‑1 (MQ=38)
aaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAAt < 2:2016740/49‑1 (MQ=38)
aaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAAt < 2:1907338/49‑1 (MQ=38)
aaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATa > 2:1647838/1‑50 (MQ=39)
aaacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATa > 2:1791541/1‑50 (MQ=39)
aacaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATAc < 2:610271/50‑1 (MQ=39)
acaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATAc > 1:28938/1‑49 (MQ=38)
acaaaAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACg < 1:75009/50‑1 (MQ=39)
aaaaaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGAt > 1:689885/1‑50 (MQ=39)
aaaaaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGAt < 2:1706968/50‑1 (MQ=39)
aaaaaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGAt < 2:1824585/50‑1 (MQ=39)
aaaaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATg < 2:626042/50‑1 (MQ=39)
aaaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATg > 2:2081770/1‑49 (MQ=39)
aaaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGa < 2:343077/50‑1 (MQ=255)
aaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGaa < 2:1241771/50‑1 (MQ=255)
aaaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGa > 2:938076/1‑49 (MQ=39)
aaaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGa > 1:1922961/1‑48 (MQ=39)
aaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGa > 1:1186375/1‑47 (MQ=39)
aaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAg < 1:2055819/50‑1 (MQ=255)
aaCCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAg < 1:1140090/50‑1 (MQ=255)
accaccTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGa < 2:1263916/50‑1 (MQ=255)
ccaccTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGAc < 2:1415801/50‑1 (MQ=255)
tGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGAc > 1:885817/1‑49 (MQ=39)
gCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGAc > 2:575949/1‑48 (MQ=39)
ccAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGAc > 2:1557647/1‑47 (MQ=39)
ccAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACaa < 2:1652045/49‑1 (MQ=39)
ccAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACa < 2:1686783/48‑1 (MQ=39)
ccAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACa < 2:1654669/48‑1 (MQ=39)
ccAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACa < 2:297310/48‑1 (MQ=39)
aGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGAc < 1:338894/50‑1 (MQ=255)
|
CATTATGCTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGTTTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGAC > NC_017635/2331406‑2331497
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGTTTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCAAGAC > NC_017635/2331413‑2331509
|
CTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCG > M01420:85:000000000‑AC936:1:1103:21896:6967/1‑51 (MQ=60)
CTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCG > M01420:85:000000000‑AC936:1:2104:10295:11314/1‑51 (MQ=60)
TAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCC < M01420:85:000000000‑AC936:1:2111:5225:14817/50‑1 (MQ=60)
GCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATC > M01420:85:000000000‑AC936:1:2109:15635:7804/1‑51 (MQ=60)
GCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATC < M01420:85:000000000‑AC936:1:1107:21974:18033/51‑1 (MQ=60)
GCTTCAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATC < M01420:85:000000000‑AC936:1:2101:9459:4277/51‑1 (MQ=60)
CAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAAT > M01420:85:000000000‑AC936:1:1110:12031:9177/1‑50 (MQ=60)
CAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAAT < M01420:85:000000000‑AC936:1:1111:16951:15241/50‑1 (MQ=60)
CAAACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCACCAAT > M01420:85:000000000‑AC936:1:2108:18777:7081/1‑50 (MQ=54)
AACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACG < M01420:85:000000000‑AC936:1:1102:12703:2359/51‑1 (MQ=60)
ACAAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACG > M01420:85:000000000‑AC936:1:1101:4446:12919/1‑50 (MQ=60)
AAAAAAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATG > M01420:85:000000000‑AC936:1:1110:5720:11512/1‑51 (MQ=60)
AAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAG < M01420:85:000000000‑AC936:1:2114:4131:18751/51‑1 (MQ=60)
AAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAG < M01420:85:000000000‑AC936:1:2102:2956:14556/51‑1 (MQ=60)
AAACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAA > M01420:85:000000000‑AC936:1:2112:10326:26263/1‑49 (MQ=60)
AACCACCTGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAA > M01420:85:000000000‑AC936:1:2103:20403:5587/1‑48 (MQ=60)
TGCCAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACA > M01420:85:000000000‑AC936:1:1113:14004:1718/1‑50 (MQ=60)
CAGGGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGAC < M01420:85:000000000‑AC936:1:1105:7479:16579/51‑1 (MQ=60)
GGTGG‑TTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTC < M01420:85:000000000‑AC936:1:1102:26913:15048/51‑1 (MQ=60)
GGTTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGC < M01420:85:000000000‑AC936:1:2107:4583:8582/50‑1 (MQ=60)
GTTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTC > M01420:85:000000000‑AC936:1:1111:14389:11011/1‑51 (MQ=60)
TTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCAAG < M01420:85:000000000‑AC936:1:2101:24401:6099/50‑1 (MQ=60)
TTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCAAG < M01420:85:000000000‑AC936:1:1102:18018:4388/50‑1 (MQ=60)
TTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCA > M01420:85:000000000‑AC936:1:1106:27204:18673/1‑48 (MQ=60)
TTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCA > M01420:85:000000000‑AC936:1:1103:11953:13332/1‑48 (MQ=60)
TTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCAAGAC > M01420:85:000000000‑AC936:1:1112:7587:20398/1‑51 (MQ=60)
TTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCAAGAC < M01420:85:000000000‑AC936:1:2104:23516:5521/50‑1 (MQ=60)
|
CTTTAATATGCTTCAAACAAAAAAACCACCTGCCAGGGTGGTTTTTTTTGCGCCCATCATCAATACGATGAAAGACTGACAAGACTTCGCTCAAGAC > NC_017635/2331413‑2331509
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
