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 F3 I96 R1
|
172 |
34.7 |
2005794 |
96.2% |
1929573 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,786,467 |
T→C |
I193V (ATT→GTT) |
yibB ← |
protein YibB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,786,467 | 0 | T | C | 100.0%
| 205.2
/ NA
| 58 | I193V (ATT→GTT) | yibB | protein YibB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (42/16); total (42/16) |
TTTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGG > NZ_CP009273/3786383‑3786551
|
tttCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGa > 1:325559/1‑90 (MQ=255)
tttCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGa > 1:299750/1‑90 (MQ=255)
ttCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGaa < 2:204370/90‑1 (MQ=255)
aaTTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAAcc < 1:968335/90‑1 (MQ=255)
aaTTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAAcc > 1:595031/1‑90 (MQ=255)
ttATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCtgt < 2:31549/90‑1 (MQ=255)
aGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTgttgtt < 2:107751/90‑1 (MQ=255)
aTTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTgag > 2:859561/1‑90 (MQ=255)
aTTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTgag > 1:931586/1‑90 (MQ=255)
aTTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTgag < 1:208828/90‑1 (MQ=255)
aTTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTgag > 2:577709/1‑90 (MQ=255)
ttCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTgaga < 2:22842/90‑1 (MQ=255)
tCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGAt > 2:458942/1‑90 (MQ=255)
ttCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGAtgtg > 2:567248/1‑90 (MQ=255)
ttCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGAtgtg > 1:919346/1‑90 (MQ=255)
cATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACa > 2:306583/1‑90 (MQ=255)
aTGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAg > 1:286019/1‑90 (MQ=255)
aTGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAg > 1:173021/1‑90 (MQ=255)
aTGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAg > 2:683239/1‑90 (MQ=255)
gCTGTGAACCAACAATTGCGCCCCCAATAATGTATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGcc < 1:333973/90‑1 (MQ=255)
tgtgAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCt < 2:595031/90‑1 (MQ=255)
tgtgAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCt < 2:334372/90‑1 (MQ=255)
tgtgAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCt > 2:448811/1‑90 (MQ=255)
gtgAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCtt > 1:797300/1‑90 (MQ=255)
gAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCtttt > 2:153870/1‑90 (MQ=255)
aacaaTTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTtat < 2:543094/90‑1 (MQ=255)
aacaaTTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTtat > 2:908426/1‑90 (MQ=255)
aaTTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGAtgtg < 1:819106/67‑1 (MQ=255)
aaTTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGAtgtg > 2:819106/1‑67 (MQ=255)
ttGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGa > 2:209970/1‑90 (MQ=255)
ttGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGa > 1:565725/1‑90 (MQ=255)
cgcCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGaaaa < 1:326437/90‑1 (MQ=255)
cccAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATg > 2:702158/1‑90 (MQ=255)
ccAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGc < 2:594395/90‑1 (MQ=255)
tataCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGcc < 1:819124/58‑1 (MQ=255)
tataCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGcc > 2:819124/1‑58 (MQ=255)
tataCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACtt > 2:306617/1‑90 (MQ=255)
taCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtc > 1:629859/1‑90 (MQ=255)
taCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtc > 1:432163/1‑90 (MQ=255)
taCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtc > 2:484629/1‑90 (MQ=255)
taCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtc > 1:293822/1‑90 (MQ=255)
cATGATTGCCAACCATGAAATCAGAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcat > 1:715376/1‑90 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGAt < 1:65277/75‑1 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGAt > 2:65277/1‑75 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcat > 2:871971/1‑90 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcat > 1:166312/1‑90 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcat > 2:18204/1‑90 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcat > 1:788413/1‑90 (MQ=255)
aTGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcatc < 1:209970/90‑1 (MQ=255)
gATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCaa > 2:676584/1‑90 (MQ=255)
gATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCaa > 1:199785/1‑90 (MQ=255)
gATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCaa > 1:817654/1‑90 (MQ=255)
gATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCaa > 1:955791/1‑90 (MQ=255)
aTTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCaaa > 1:580909/1‑90 (MQ=255)
ttGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAt > 2:616192/1‑90 (MQ=255)
ttGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAt > 2:558028/1‑90 (MQ=255)
ttGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAt > 1:142089/1‑90 (MQ=255)
gCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATgg > 1:271150/1‑90 (MQ=255)
|
TTTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGG > NZ_CP009273/3786383‑3786551
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATTTTTTGACTTTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGGGAAA > NZ_CP009273/3786373‑3786555
|
ATTTTTTGACTTTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGA > SRR3722236.304085/1‑100 (MQ=60)
ATTTTTTGACTTTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGA > SRR3722236.330205/1‑100 (MQ=60)
TTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACC > SRR3722236.604398/1‑100 (MQ=60)
AATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAG < SRR3722236.985417/100‑1 (MQ=60)
AATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAG > SRR3722236.948037/1‑100 (MQ=60)
ATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTG > SRR3722236.935591/1‑100 (MQ=60)
ATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGT < SRR3722236.211949/100‑1 (MQ=60)
CTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAG > SRR3722236.175558/1‑100 (MQ=60)
CTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAG > SRR3722236.290157/1‑100 (MQ=60)
gtataagagacagGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCC < SRR3722236.833378/87‑1 (MQ=60)
CATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTT > SRR3722236.811143/1‑100 (MQ=60)
gtcagatgtgtataagagacagCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTAT < SRR3722236.833396/78‑1 (MQ=60)
GCTGTGAACCAACAATTGCGCCCCCAATAATGTATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTAT < SRR3722236.338737/100‑1 (MQ=60)
GAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGA > SRR3722236.574436/1‑100 (MQ=60)
CGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTC < SRR3722236.331098/100‑1 (MQ=60)
gacagATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACT < SRR3722236.66201/95‑1 (MQ=60)
CAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTC > SRR3722236.438218/1‑100 (MQ=60)
CAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTC > SRR3722236.640094/1‑100 (MQ=60)
CAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTC > SRR3722236.298077/1‑100 (MQ=60)
ATAATATATACATGATTGCCAACCATGAAATCAGAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCAT > SRR3722236.727490/1‑100 (MQ=60)
ATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCAT > SRR3722236.802048/1‑100 (MQ=60)
ATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCAT > SRR3722236.168754/1‑100 (MQ=60)
ATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAA > SRR3722236.831905/1‑100 (MQ=60)
ATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAA > SRR3722236.202766/1‑100 (MQ=60)
ATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAA > SRR3722236.972652/1‑100 (MQ=60)
TATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAA > SRR3722236.589921/1‑100 (MQ=60)
ATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAT > SRR3722236.144149/1‑100 (MQ=60)
ATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGG > SRR3722236.275105/1‑100 (MQ=60)
ATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGGGAAA < SRR3722236.213120/100‑1 (MQ=60)
|
ATTTTTTGACTTTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGGGAAA > NZ_CP009273/3786373‑3786555
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
