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 |
|
A2 F5 I176 R1
|
180 |
42.9 |
1710034 |
96.5% |
1650182 |
119.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,017,704 |
C→A |
A549S (GCC→TCC) |
yccS ← |
YccS family putative transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,017,704 | 0 | C | A | 100.0%
| 143.8
/ NA
| 37 | A549S (GCC→TCC) | yccS | YccS family putative transporter |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (20/17); total (20/17) |
CGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGCGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAG > NZ_CP009273/1017598‑1017836
|
cGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACt > 1:739453/1‑139 (MQ=255)
tgtgCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGt < 1:815767/139‑1 (MQ=255)
tgtgCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGt > 1:521206/1‑139 (MQ=255)
tgtgCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGt < 2:547276/139‑1 (MQ=255)
tgCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGt > 1:764140/1‑137 (MQ=255)
aTCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGc > 2:511119/1‑139 (MQ=255)
tCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGcc < 2:268941/139‑1 (MQ=255)
cggGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATg > 2:412370/1‑138 (MQ=255)
gACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTg < 2:751207/103‑1 (MQ=255)
gACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTg > 1:751207/1‑103 (MQ=255)
aCGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCa < 1:250180/139‑1 (MQ=255)
ccTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAgg > 2:395300/1‑97 (MQ=255)
ccTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAgg < 1:644674/97‑1 (MQ=255)
ccTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAgg > 2:644674/1‑97 (MQ=255)
ccTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAgg < 1:395300/97‑1 (MQ=255)
ccTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGca < 1:355299/131‑1 (MQ=255)
ccTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGca > 2:355299/1‑131 (MQ=255)
tGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGcc < 1:465301/88‑1 (MQ=255)
tGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGcc > 2:465301/1‑88 (MQ=255)
cAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTAcg < 2:521206/139‑1 (MQ=255)
gCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTgccgcc > 1:749256/1‑96 (MQ=255)
gCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTgccgcc < 2:749256/96‑1 (MQ=255)
gCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGt > 2:842961/1‑138 (MQ=255)
cATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGa < 2:528023/126‑1 (MQ=255)
cATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGa > 1:528023/1‑126 (MQ=255)
gagaTACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCt < 2:764140/139‑1 (MQ=255)
agaTACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATg > 2:230011/1‑75 (MQ=255)
agaTACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATg < 1:230011/75‑1 (MQ=255)
aCCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGcc < 2:474000/66‑1 (MQ=255)
aCCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGcc > 1:474000/1‑66 (MQ=255)
ccGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCa < 1:412370/139‑1 (MQ=255)
aCAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTAcg > 1:709240/1‑118 (MQ=255)
aCAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTAcg < 2:709240/118‑1 (MQ=255)
gTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCt > 1:480189/1‑139 (MQ=255)
ttGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCtt > 1:642654/1‑139 (MQ=255)
tgtgGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAg > 2:175900/1‑138 (MQ=255)
tgtgGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAg > 2:4736/1‑138 (MQ=255)
|
CGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGCGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAG > NZ_CP009273/1017598‑1017836
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TCGCTGGACATATTTGATACCACCGACGCCAGCTCAGCATCACGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGCGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAGTAAGTTAAAACACAGT > NZ_CP009273/1017556‑1017852
|
TCGCTGGACATATTTGATACCACCGACGCCAGCTCAGCATCACGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGC > SRR3722130.838747/1‑151 (MQ=60)
GCTCAGCATCACGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTG > SRR3722130.750327/1‑151 (MQ=60)
CATCACGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTC > SRR3722130.529205/1‑151 (MQ=60)
TCACGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTC > SRR3722130.775295/1‑149 (MQ=60)
GTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATG < SRR3722130.827643/151‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacaGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGC < SRR3722130.401584/120‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacaGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGC < SRR3722130.654329/120‑1 (MQ=60)
cgccttagtctcgtgggctcggagatgtgtataagagacagCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTC < SRR3722130.472556/110‑1 (MQ=60)
ggcatacgagattcgccttagtctcgtgggctcggagatgtgtataagagacagGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGC < SRR3722130.233541/97‑1 (MQ=60)
ACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCctgtctcttatacacatctccgagcc > SRR3722130.762212/1‑125 (MQ=60)
GACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACC < SRR3722130.254036/151‑1 (MQ=60)
ATCACGCCCCGGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAG < SRR3722130.360822/150‑1 (MQ=60)
GCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGAGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCctgtctcttatacacatctccgagcccacg > SRR3722130.760237/1‑118 (MQ=60)
CTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTctg > SRR3722130.536099/1‑148 (MQ=60)
GGCATCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCctgtctcttatacacatctccgagcccacgagactaaggcgaatatcgtatgccgtcttctgc > SRR3722130.481365/1‑88 (MQ=60)
TCGAGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCctgtctcttat > SRR3722130.719739/1‑140 (MQ=60)
AGATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTT > SRR3722130.487630/1‑151 (MQ=60)
GATACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTC > SRR3722130.652271/1‑151 (MQ=60)
ACCGACAGTTGGCCTCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACC < SRR3722130.418903/151‑1 (MQ=60)
TCTGTGGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCctgtctcttatacacatctccgagcccacgagactaaggcgaagctcgtatgccgtcttctgcttgacaaaaaaaaa > SRR3722130.343506/1‑73 (MQ=60)
GGAGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAGTAAGTTAAAACACAGT < SRR3722130.518971/151‑1 (MQ=60)
|
TCGCTGGACATATTTGATACCACCGACGCCAGCTCAGCATCACGGTTGTGTGCATCGCGGCGGGCAATACGATACGCCAGACGGTTATCACGCCCCTGATGGTATTGCTCCAGTATGGCATCGAGATACCGACAGTTGGCCTCTGTGGCGCGTTCGAGCATGCGCGGCAGATTGCGAAACTGCCAGTCAGGCCAGATGTAGCTCACTGCCGCCCACGCAATGGCACAACCAATCAGCGTATCGATTACGCGAGGTAACGCTACTTCAAAACCTTCACCCAGTAAGTTAAAACACAGT > NZ_CP009273/1017556‑1017852
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
