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 |
|
A6 F73 I1 R1
|
31 |
34.8 |
1203930 |
99.1% |
1193094 |
139.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,425,164 |
C→A |
A24S (GCG→TCG) |
hisM ← |
lysine/arginine/ornithine ABC transporter/histidine ABC transporter, membrane subunit HisM |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,425,164 | 0 | C | A | 97.3%
| 122.5
/ NA
| 37 | A24S (GCG→TCG) | hisM | lysine/arginine/ornithine ABC transporter/histidine ABC transporter, membrane subunit HisM |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (16/20); total (16/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTACCGCGAAAAATATAGGTAAATAACCAGATTGGAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGCCACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGCACACCATTGGAAACA > NC_000913/2425027‑2425299
|
cgTACCGCGAAAAATATAGGTAAATAACCAGATTGGAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGAca > 1:564779/1‑140 (MQ=255)
aaTAACCAGATTGGAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAGACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTc > 2:274806/1‑140 (MQ=255)
aGATTGGAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCcac > 1:466469/1‑140 (MQ=255)
gATTGGAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCcaca > 1:254905/1‑140 (MQ=255)
ggAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTGCCGACAGAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCAcagcag < 1:276302/140‑1 (MQ=255)
aaaCTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCg < 2:570906/140‑1 (MQ=255)
accggATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGt > 1:213952/4‑140 (MQ=255)
aCTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGt < 2:353450/140‑1 (MQ=255)
cTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGtt < 2:248116/140‑1 (MQ=255)
tGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGttt > 2:431560/1‑140 (MQ=255)
tGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGttt > 1:198006/1‑140 (MQ=255)
gATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTcc > 2:452141/1‑140 (MQ=255)
atttattACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTAt < 1:233611/140‑1 (MQ=255)
atttattACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTAt < 1:210261/140‑1 (MQ=255)
ttaCTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATg > 2:136966/1‑140 (MQ=255)
ttaCTGGAGACACGACCAATCGCCAGAAACAACGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGCCACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATg < 2:250351/140‑1 (MQ=255)
aCTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGCTTCCAGTATTCATGTa > 2:154981/1‑140 (MQ=255)
aCCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATca < 1:194192/140‑1 (MQ=255)
aGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGcc < 1:406928/140‑1 (MQ=255)
gAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGccc > 2:314478/1‑140 (MQ=255)
gcgcCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGATACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTca < 1:475484/140‑1 (MQ=255)
cgcCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTcac < 1:408474/140‑1 (MQ=255)
ggACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCa < 1:431560/140‑1 (MQ=255)
cGCCTATCACTACCGACAAAATAAGCAGACACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGt > 2:259400/1‑140 (MQ=255)
tATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAgcg < 2:483116/140‑1 (MQ=255)
aTCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAgcgg > 2:574423/1‑140 (MQ=255)
tCACTACCGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAgcggc < 2:466737/140‑1 (MQ=255)
ccGACAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCaa > 1:96846/1‑140 (MQ=255)
cAAAATAAGCAGCCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGaa < 1:136966/140‑1 (MQ=255)
gcagcCACAGCGTGATCGTCCAACTAGTAAAGCGATAACCGTCGGTCCACAGCCTCGGTTCCCACTATTCATGTAAGATCTCGATCACAAGTCAGCCCACTTCTCACCCGCGGAGTAGCGGCGCTCAAGGAACAgcagca < 2:198006/140‑1 (MQ=255)
gcagcCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAgcagca < 2:269394/140‑1 (MQ=255)
gcagcCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAgcagca < 2:96846/140‑1 (MQ=255)
agcCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGcaca < 2:45637/140‑1 (MQ=255)
agcCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGcaca < 2:25631/140‑1 (MQ=255)
agcCACAGAGTGATCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGcaca < 1:314478/140‑1 (MQ=255)
aTCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGCACACCATTGGAAACa > 2:254804/1‑140 (MQ=255)
aTCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGCACACCATTGGAAACa < 2:564779/140‑1 (MQ=255)
aTCGACACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGCACACCATTGGAAACa > 1:256/1‑140 (MQ=255)
|
CGTACCGCGAAAAATATAGGTAAATAACCAGATTGGAAACTGGATGTATTTATTACTGGAGACACGACCAATCGCCAGAAACAGCGCCAGGACTCCGCCTATCACTACCGACAAAATAAGCAGCCACAGAGTGATCGCCACACCAGTAAAGCGATAACCGTCGGTCCACAGCAGCGGTTTCCAGTATTCATGTAAGATTTCGATCACAGGTCAGCCCTCTTCACACCCACGGAGTAGCGGCGCTCAAGGAACAGCAGCACACCATTGGAAACA > NC_000913/2425027‑2425299
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
