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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
781,531 |
T→C |
I148T (ATC→ACC) |
aroG → |
3‑deoxy‑7‑phosphoheptulonate synthase AroG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 781,531 | 0 | T | C | 100.0%
| 114.5
/ NA
| 33 | I148T (ATC→ACC) | aroG | 3‑deoxy‑7‑phosphoheptulonate synthase AroG |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/14); total (19/14) |
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTG > NZ_CP009273/781444‑781613
|
tCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAc < 1:845665/91‑1 (MQ=255)
aaCGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAccc > 1:861692/1‑91 (MQ=255)
gacgGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCcac < 2:366782/91‑1 (MQ=255)
cgGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACaa < 1:657713/91‑1 (MQ=255)
gCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATAtctc > 1:300529/1‑91 (MQ=255)
gTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGc < 1:538641/91‑1 (MQ=255)
taGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGa < 2:861692/91‑1 (MQ=255)
cGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtga > 1:94270/1‑91 (MQ=255)
cGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGAGAGATTCCCGCTATGACCACCCCACAATATCTAGCTGACCtga > 2:217370/1‑91 (MQ=255)
gTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtgat > 1:133345/1‑91 (MQ=255)
gTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtgat > 2:36820/1‑91 (MQ=255)
gTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtgat > 1:343776/1‑91 (MQ=255)
tgctgcTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTg < 1:770677/91‑1 (MQ=255)
gctgctTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCCCAATATCTCGCTGACCTGATGAGCTgg > 2:30321/1‑91 (MQ=255)
tatTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAAtt < 1:710733/91‑1 (MQ=255)
cGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCa < 1:36820/91‑1 (MQ=255)
cAGCGGTCTGCCCGCGGCAGGGGGGTTTCTCGATATGACGACCCCCCAATATCCCGCTGCCCTGACGGCCTGGGGCGCAAATTGCGCACGt > 2:380409/1‑91 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGGGCAATTGGCGCACGt > 2:164534/1‑91 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGt > 2:298371/1‑91 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGt < 1:132398/91‑1 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGGGGGTTTCTCGATATGACCACCCCACAGTATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCCCGt > 1:665069/1‑91 (MQ=255)
gCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGAac > 1:862702/1‑91 (MQ=255)
gCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTac > 1:766384/1‑91 (MQ=255)
ggTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGc < 1:831713/66‑1 (MQ=255)
ggTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGc > 2:831713/1‑66 (MQ=255)
gTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTaccac > 1:471932/1‑91 (MQ=255)
cTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCg > 1:716361/1‑91 (MQ=255)
cTGCCAGCGGCAGGGGAGGTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGGCCGTACCACCg > 2:193361/1‑91 (MQ=255)
cAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATc < 2:187946/91‑1 (MQ=255)
aGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTg > 2:391446/1‑91 (MQ=255)
aGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACcg > 1:570745/1‑91 (MQ=255)
tttCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACcgcg < 1:673157/91‑1 (MQ=255)
ttCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGa > 2:427490/1‑91 (MQ=255)
ctcGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAAc < 2:495154/91‑1 (MQ=255)
cGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTg < 2:266606/91‑1 (MQ=255)
|
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTG > NZ_CP009273/781444‑781613
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATCAGGGC > NZ_CP009273/781436‑781623
|
CTTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCC > SRR3722118.880860/1‑101 (MQ=60)
TTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCC < SRR3722118.759179/101‑1 (MQ=60)
GATCAACGACGGTCTGCGTATAGCCCGTANNNNNNNNNTTGATATTAACGACNGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAAT < SRR3722118.690252/101‑1 (MQ=60)
GATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAAT < SRR3722118.150118/101‑1 (MQ=60)
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATAT < SRR3722118.864362/101‑1 (MQ=60)
cgagataggagtccgtctcgtgggctcggagatgtgtataagagacagGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTC < SRR3722118.628517/53‑1 (MQ=60)
ACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTC > SRR3722118.306701/1‑101 (MQ=60)
CGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTG < SRR3722118.671948/101‑1 (MQ=60)
GCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGA > SRR3722118.95996/1‑101 (MQ=60)
CGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGAT > SRR3722118.135871/1‑101 (MQ=60)
CGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGAT > SRR3722118.350902/1‑101 (MQ=60)
GTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATG < SRR3722118.550069/101‑1 (MQ=60)
gtgtataagagacagTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAA < SRR3722118.850041/86‑1 (MQ=60)
TGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATT < SRR3722118.787609/101‑1 (MQ=60)
ATATTAACGACAGCGGTCTGCCAGCGGCAGGGGGGTTTCTCGATATGACCACCCCACAGTATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCCCGT > SRR3722118.679455/1‑101 (MQ=60)
TATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTA < SRR3722118.726308/101‑1 (MQ=60)
ATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGAAC > SRR3722118.881896/1‑101 (MQ=60)
ATTAACGACAGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTAC > SRR3722118.783208/1‑101 (MQ=60)
AACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCAC > SRR3722118.481901/1‑101 (MQ=60)
CGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCG > SRR3722118.732076/1‑101 (MQ=60)
CGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCG < SRR3722118.37491/101‑1 (MQ=60)
CAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAAT < SRR3722118.134909/101‑1 (MQ=60)
GCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCG > SRR3722118.582853/1‑101 (MQ=60)
TTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATC < SRR3722118.687751/101‑1 (MQ=60)
CGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATCAGGGC > SRR3722118.738157/1‑101 (MQ=60)
|
CTTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATCAGGGC > NZ_CP009273/781436‑781623
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
