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 F14 I0 R1
|
248 |
61.6 |
2601574 |
98.7% |
2567753 |
146.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,499,506:1 |
+C |
100% |
intergenic (+83/‑81) |
trpS → / → zapE |
tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,499,506 | 1 | . | C | 100.0%
| 29.9
/ NA
| 10 | intergenic (+83/‑81) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (9/1); total (9/1) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCGCGAAACAGGCGCCGCGGTGCATGGCCACGGCTTTGCCGGTG‑TT‑TCGGGCACG‑CCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACGTCCCGAC > NC_002947_CJ‑RC/1499452‑1499631
|
ccGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCt > 6:315278/1‑147 (MQ=37)
ccGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTa > 1:247613/1‑149 (MQ=37)
gcgAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAg > 5:10558/1‑148 (MQ=37)
aGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTAt > 1:202417/1‑149 (MQ=37)
gccgcGGTGCATGGCACCGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAg > 2:138490/1‑149 (MQ=37)
gCATGGCACCGGCTTTGCCGGTGATC‑GCGGGCACGCCCGCTCCAACAGACAGATTGCCATTAATCGGGCCTATCGCTACAGTTACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCATTAGAACGCAATCAAGCAGATCt > 6:128017/1‑148 (MQ=25)
accGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGCGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACGTc > 7:127394/3‑149 (MQ=38)
ccGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACGTcc < 2:247613/148‑1 (MQ=39)
cGGCTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACGTccc > 8:46680/1‑149 (MQ=39)
cTTTGCCGGTG‑TTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACGTCCCGAc > 5:191687/1‑149 (MQ=39)
|
CCGCGAAACAGGCGCCGCGGTGCATGGCCACGGCTTTGCCGGTG‑TT‑TCGGGCACG‑CCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACGTCCCGAC > NC_002947_CJ‑RC/1499452‑1499631
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
