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 |
2,322,732 |
T→C |
intergenic (‑40/+60) |
ECW_RS11650 ← / ← ECW_RS11655 |
head completion/stabilization protein/terminase endonuclease subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,322,732 | 0 | T | C | 100.0%
| 65.0
/ NA
| 23 | intergenic (‑40/+60) | ECW_RS11650/ECW_RS11655 | head completion/stabilization protein/terminase endonuclease subunit |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/10); total (13/10) |
ATCATGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGG > NC_017635/2322688‑2322777
|
atcatGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAg < 2:579919/50‑1 (MQ=255)
atGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGt < 2:1069303/49‑1 (MQ=255)
tGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGa > 1:1285943/1‑50 (MQ=255)
aCTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGAtt > 1:1842801/1‑50 (MQ=255)
cTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTc < 1:1959481/50‑1 (MQ=255)
aCCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAc > 1:1576442/1‑50 (MQ=255)
aCCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAc > 1:1631056/1‑50 (MQ=255)
aCCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAc > 2:616601/1‑50 (MQ=255)
aCCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAc > 2:364395/1‑50 (MQ=255)
aCCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAc > 2:1971298/1‑50 (MQ=255)
ccTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCa < 2:336428/48‑1 (MQ=255)
ccTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAcc < 1:1447856/50‑1 (MQ=255)
ccTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCAcc > 1:946022/1‑50 (MQ=255)
gAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCAc > 1:1329206/1‑50 (MQ=11)
aaaaGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCa < 2:634493/48‑1 (MQ=11)
aaaaGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCa < 1:39167/48‑1 (MQ=11)
aGTCCGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGAc > 1:2039178/1‑50 (MQ=11)
gTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGAcc < 2:2064906/50‑1 (MQ=11)
gTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGAcc > 1:1967962/1‑50 (MQ=11)
tCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCg < 1:573292/50‑1 (MQ=11)
gggCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCgg < 1:1789949/49‑1 (MQ=11)
ggTACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcg > 2:569180/1‑50 (MQ=11)
aCAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGgcgctg > 1:333615/1‑48 (MQ=11)
|
ATCATGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGG > NC_017635/2322688‑2322777
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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
TGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGG > NC_017635/2322692‑2322778
|
TGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGAT > M01420:85:000000000‑AC936:1:2104:29009:13833/1‑51 (MQ=13)
ACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTC > M01420:85:000000000‑AC936:1:2111:15270:24754/1‑51 (MQ=13)
ACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTC < M01420:85:000000000‑AC936:1:2113:12453:13508/51‑1 (MQ=13)
ACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACC < M01420:85:000000000‑AC936:1:2106:7957:17775/51‑1 (MQ=13)
ACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACC > M01420:85:000000000‑AC936:1:2108:10525:11969/1‑51 (MQ=13)
ACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACC > M01420:85:000000000‑AC936:1:2109:18419:5281/1‑51 (MQ=13)
CCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCC > M01420:85:000000000‑AC936:1:1113:17992:22513/1‑51 (MQ=13)
GAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACT > M01420:85:000000000‑AC936:1:2105:21371:2739/1‑51 (MQ=12)
GAAAAGTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCA < M01420:85:000000000‑AC936:1:1101:18566:15951/49‑1 (MQ=23)
AGTCCGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACC > M01420:85:000000000‑AC936:1:2114:21581:14085/1‑51 (MQ=47)
GTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCG < M01420:85:000000000‑AC936:1:1108:17225:20545/51‑1 (MQ=60)
GTCGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCG > M01420:85:000000000‑AC936:1:2113:3254:15922/1‑51 (MQ=12)
CGGGCGGTGGACGCCGGTACAGCGTCAGGTGATTCACCCTCACTGACCGG < M01420:85:000000000‑AC936:1:2111:6967:8392/50‑1 (MQ=60)
ACAGCGTCAGGTGATTCACCCTCACTGACCGGCGTGCCGCCCTGGCGCTGG > M01420:85:000000000‑AC936:1:1105:9173:15050/1‑51 (MQ=0)
|
TGACTACCTCTGAAAAGTCGGGCGGTGGACGCCGGTACAGTGTCAGGTGATTCACCGTCACTGACCGGCGTGCCGCCCTGGCGCGGG > NC_017635/2322692‑2322778
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
