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 |
|
A28 F1 I1 R1
|
15 |
45.6 |
2893554 |
96.7% |
2798066 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,085 |
Δ2 bp |
coding (474‑475/825 nt) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,085 | 0 | A | . | 100.0%
| 125.6
/ NA
| 26 | coding (475/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (21/5); total (21/5) |
| * | REL606 | 4,202,086 | 0 | A | . | 100.0%
| 125.6
/ NA
| 26 | coding (474/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (21/5); total (21/5) |
TTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCT > REL606/4202017‑4202150
||
tttGCGGTGCAGNAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCAt > 1:23657/1‑76 (MQ=255)
tttGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCAt > 2:973656/1‑76 (MQ=255)
tttGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCAt < 2:1241581/76‑1 (MQ=255)
cGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGc < 2:731480/76‑1 (MQ=255)
ggTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCa > 1:536193/1‑76 (MQ=255)
gTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCaa < 2:1034728/76‑1 (MQ=255)
tGCAGCAGCTTCGTCACCTGTTCTTCGCTCATTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAAt < 2:43643/76‑1 (MQ=255)
tGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAAt < 2:665423/76‑1 (MQ=255)
ttCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTAccgccg > 2:96559/1‑76 (MQ=255)
cGTCCCCTGTTCTTCGCTCAGTTGGGAAAAAAAGGCTTTCCCTGC‑CCGG‑GGCGTGCATCGGCATTTTACCGCCGAt < 2:354510/76‑1 (MQ=255)
gTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATa > 1:415583/1‑76 (MQ=255)
tGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGcgcg > 2:321503/1‑76 (MQ=255)
ttcttcGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGAAATTTACCGACGATAGGCGCGGa > 1:1235225/1‑76 (MQ=255)
tcttcGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCTCCGATAGGCGCGGAc > 1:1176475/1‑76 (MQ=255)
tcttcGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGAc > 2:332895/1‑76 (MQ=255)
tCAGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCa > 1:1166497/1‑76 (MQ=255)
tCAGTTGGGCAAAAAAGGCTTTCCCTGCCCCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCa < 2:1133830/76‑1 (MQ=255)
cAGTTGGGCTAAAAAGGCTTTACCTGCNCCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCAt > 1:1431564/1‑76 (MQ=255)
aGTTGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATc > 2:179846/1‑76 (MQ=255)
tGGGCTAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGa > 1:750975/1‑76 (MQ=255)
caaaaaaGGTTTTCCCTGCCCCGG‑‑GCGTGCATCGGCAATTTCCCGCCGATAGGCGCGGACATTCGCATCAGATGCg < 2:160546/74‑1 (MQ=255)
cTAAAAAGGCTTTACCTGCAGCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCg > 2:504363/1‑76 (MQ=255)
tAAAAAGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGt > 2:1143976/1‑76 (MQ=255)
aaaGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTaca > 2:480336/1‑76 (MQ=255)
aaGGCTTTACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTacac > 1:902940/1‑76 (MQ=255)
tttACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTAc > 1:1288680/1‑76 (MQ=255)
ttACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTANACTGTAcc > 1:1272572/1‑76 (MQ=255)
ttACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTAcc > 1:1051171/1‑76 (MQ=255)
tACCTGCACCGG‑‑GCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCt > 2:113875/1‑76 (MQ=255)
||
TTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCT > REL606/4202017‑4202150
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
