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 F169 I0 R1
|
75 |
34.0 |
794130 |
95.7% |
759982 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,851,260 |
C→A |
100% |
A115S (GCG→TCG) |
acsA_1 ← |
Acetyl‑coenzyme A synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,851,260 | 0 | C | A | 100.0%
| 74.3
/ NA
| 28 | A115S (GCG→TCG) | acsA_1 | Acetyl‑coenzyme A synthetase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (16/12); total (16/12) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AATGCCTTATTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGCAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGATAACCGTTGCATATCTTTATAAGTATACGATTCTTTTC > USA300TCH1516_ALE/1851136‑1851394
|
aaTGCCTTATTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGgt < 2:204393/141‑1 (MQ=255)
aaTGCCTTAGTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCGTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGgt < 2:378109/141‑1 (MQ=255)
aTGCCTGATTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCTCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGgtt > 2:291302/1‑140 (MQ=255)
ccTAATTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCATTTTCCATAAATGCTTCAAATAACGGCCCTACAATTGCACCAATGATTAAATGACCTAACAACGAAAAATAGAGTTCAGGTGTAc < 2:45984/141‑1 (MQ=255)
cTTATTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTAcg < 1:394705/141‑1 (MQ=255)
cTTATTAGTAACTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTAcg < 2:225072/141‑1 (MQ=255)
aTTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTATCAACGAAAAATATAGCCCAGGTGCACGCAACataaaa > 2:31139/1‑140 (MQ=255)
gCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTg > 1:153242/1‑141 (MQ=255)
cTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAAAGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACCTAAATATAAATACACTGt > 2:161826/1‑141 (MQ=255)
ttCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTc < 2:346467/141‑1 (MQ=255)
ttCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATTCTCTGTCACCTTTg < 2:126344/141‑1 (MQ=255)
ctctAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTTTc > 2:177353/1‑141 (MQ=255)
tctAATCTATCCGCAACTGCCATTTCCATAAATGCTTCAAATAACGGCCCAACAACTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTAAGGTGTACGCCACAAAAATATAAATACTCTGCCACCttttcca > 2:123329/1‑137 (MQ=255)
aTCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCCCCTTTGTCAACtt > 1:23119/1‑141 (MQ=255)
aTCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACtt > 1:26603/1‑141 (MQ=255)
tCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGCCATAAATATAAATACTCTGTCACCTTTGTCAACTTCTTCa > 2:294820/1‑141 (MQ=255)
gCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGAc > 2:202298/1‑141 (MQ=255)
ccATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACAt > 2:251230/1‑141 (MQ=255)
cAAATAACGGCCCAACAATTGCACGAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATTCTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTttat < 2:251232/141‑1 (MQ=255)
tAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCTACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGa < 1:364013/141‑1 (MQ=255)
aaaCGGCCCAACAATTGCACCAATTGTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGa < 2:73096/140‑1 (MQ=255)
gCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGATAAcc > 1:61272/1‑141 (MQ=255)
ccAACAATTGCACCAATTTTTAAAACACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGATACCCGt > 1:4498/1‑141 (MQ=255)
gCACCAATTTCTTAAACACCTAACAACAAAAAACATCGTTCACGTGTACGCGACATAAATATAAATACTCTGTCCATTTTGGCATCTTGTGCATTTTCAGACAAAACATTCGCTTCTTTTTTAGATAACCGTTGCATATCt < 2:258044/141‑1 (MQ=255)
aaaCACCTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAAGATAAATACACTGTCACCTTGGTCAACTTCTGCATGTTCAGACAAAACATTCGCTACATTATTAGATAACGGTTGCATATCTGTATAAGTATACg > 2:296528/1‑141 (MQ=255)
acacCTAACAACGAAAAATATAGTTCAGGTGTAAGCGAAGTAAATATAAATACACTGTCACATTTGTTTAATACTAAATGTAAAGACACAACAGGCGCCGCGCTATTAGATAACCCTTTCATATCTTTATAAGTATACGAt > 2:190160/1‑141 (MQ=255)
cTAACAACGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGATAACCGTTGCATATCTTTATAAGTATACGATTCtt > 1:162387/1‑141 (MQ=255)
acaacGAAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGATAACCGTTGCATATCTTTATAAGTATACGATTCTTTTc < 1:16272/141‑1 (MQ=255)
|
AATGCCTTATTAGTAATTAACACTTTAGCTTCACTGTTCTCTAATCTATCCGCAACTGCCTTTTCCATAAATGCTTCAAATAACGGCCCAACAATTGCACCAATTTTTAAAACACCTAACAACGCAAAATATAGTTCAGGTGTACGCGACATAAATATAAATACTCTGTCACCTTTGTCAACTTCTGCATGTTCAGACAAAACATTCGCTGCTTTATTAGATAACCGTTGCATATCTTTATAAGTATACGATTCTTTTC > USA300TCH1516_ALE/1851136‑1851394
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
