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 F2 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,726,562 |
(T)5→4 |
coding (971/2574 nt) |
clpB ← |
ATP‑dependent chaperone ClpB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,726,558 | 0 | T | . | 100.0%
| 81.3
/ NA
| 20 | coding (975/2574 nt) | clpB | ATP‑dependent chaperone ClpB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (14/6); total (14/6) |
CTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCA > NZ_CP009273/2726470‑2726618
|
cTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCtt < 2:643625/90‑1 (MQ=255)
cTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCtt < 1:476833/90‑1 (MQ=255)
tCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCttttc < 1:655339/90‑2 (MQ=255)
aCGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTAc > 2:365067/1‑90 (MQ=255)
aTCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGat < 1:240154/90‑1 (MQ=255)
gCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATAtt > 2:327288/1‑90 (MQ=255)
ggTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCa > 1:345555/1‑90 (MQ=255)
ggTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCa > 2:382997/1‑90 (MQ=255)
ggTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCa > 1:607689/1‑90 (MQ=255)
aTCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGc > 1:650361/1‑90 (MQ=255)
tCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGcg < 2:568394/90‑1 (MQ=255)
ttCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGcgtc > 2:556345/1‑90 (MQ=255)
aaCAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTg < 1:382997/90‑1 (MQ=255)
aCAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTgg > 2:537797/1‑90 (MQ=255)
cAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGc > 2:417349/1‑90 (MQ=255)
gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCAc > 2:655496/1‑90 (MQ=255)
aaGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCAcc < 2:514043/90‑1 (MQ=255)
aGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCt > 1:692793/1‑90 (MQ=255)
gCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTAc < 1:690243/90‑1 (MQ=255)
tCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGc < 1:662173/90‑1 (MQ=255)
cGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCa > 2:497268/1‑90 (MQ=255)
cTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTcacc > 2:722925/1‑90 (MQ=255)
tttCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTcacca > 2:458682/1‑90 (MQ=255)
|
CTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCA > NZ_CP009273/2726470‑2726618
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TAACGTTCTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAGCGCCGGTTTCAGCATGTTTCCGGCGTCCATTGC > NZ_CP009273/2726463‑2726659
|
TAACGTTCTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTC < SRR3722073.572101/100‑1 (MQ=60)
CTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTAC < SRR3722073.486981/100‑1 (MQ=60)
TCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGG < SRR3722073.668784/100‑1 (MQ=60)
GAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCA > SRR3722073.352868/1‑100 (MQ=60)
GAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCA > SRR3722073.620352/1‑100 (MQ=60)
ATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAG < SRR3722073.245190/100‑1 (MQ=60)
TCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGC > SRR3722073.663732/1‑100 (MQ=60)
CTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCT > SRR3722073.706891/1‑100 (MQ=60)
AACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGC < SRR3722073.391137/100‑1 (MQ=60)
GCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAAT < SRR3722073.704302/100‑1 (MQ=60)
TCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTC < SRR3722073.675745/100‑1 (MQ=60)
TTTTCAATGTACTGGTGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAGCGCCGGTTTCAGCATGTTTCCGGCGTCCATTG < SRR3722073.627163/100‑1 (MQ=60)
TTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCtgtctcttatacacatctgacgctgccgacgatatgcagtgt > SRR3722073.551187/1‑58 (MQ=60)
|
TAACGTTCTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAGCGCCGGTTTCAGCATGTTTCCGGCGTCCATTGC > NZ_CP009273/2726463‑2726659
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
