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 I199 R1
|
220 |
57.5 |
3163680 |
97.0% |
3068769 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,753,169 |
T→C |
S276P (TCA→CCA) |
yfjI → |
YfjI family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,753,169 | 0 | T | C | 100.0%
| 162.9
/ NA
| 49 | S276P (TCA→CCA) | yfjI | YfjI family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (27/22); total (27/22) |
AAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCG > NZ_CP009273/2753084‑2753251
|
aaaGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCaaa > 1:1471292/1‑90 (MQ=255)
aaaGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCaaa > 2:709503/1‑90 (MQ=255)
aaGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAAt > 1:372453/1‑90 (MQ=255)
gattggattTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACa > 1:424031/1‑90 (MQ=255)
ttggattTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACAtt > 1:976077/1‑90 (MQ=255)
attTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGcc < 1:925873/90‑1 (MQ=255)
ttttttGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGcc > 1:50769/1‑89 (MQ=255)
ttttttGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGcc < 2:50769/89‑1 (MQ=255)
ttttttGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCg > 1:53095/1‑90 (MQ=255)
cACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTc < 2:1085181/90‑1 (MQ=255)
gTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCa > 1:158053/1‑90 (MQ=255)
tGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCaa < 2:1218156/90‑1 (MQ=255)
aTGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCtt < 2:1046740/90‑1 (MQ=255)
aTGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCtt < 1:709503/90‑1 (MQ=255)
tgtgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTa > 2:1422717/1‑90 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCg < 2:1169364/69‑1 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCg > 1:1169364/1‑69 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATg > 2:1577334/1‑90 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATg > 1:766509/1‑90 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATg > 1:1088226/1‑90 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATg > 2:1281365/1‑90 (MQ=255)
tgCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGCCTTATg > 2:479986/1‑90 (MQ=255)
ccAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGa > 1:937174/1‑90 (MQ=255)
ccAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGa > 2:1324306/1‑90 (MQ=255)
cAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGaa < 1:777094/90‑1 (MQ=255)
cAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGaa < 2:937174/90‑1 (MQ=255)
cAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGaa < 1:1244857/90‑1 (MQ=255)
aGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGaaa > 2:961457/1‑90 (MQ=255)
gCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAt < 2:1420023/90‑1 (MQ=255)
gCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAt > 2:719627/1‑90 (MQ=255)
gCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAt < 2:976077/90‑1 (MQ=255)
gCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAt < 2:1086112/90‑1 (MQ=255)
gCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAt > 1:625718/1‑90 (MQ=255)
gCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAt < 1:305541/90‑1 (MQ=255)
gCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGtt > 1:947306/1‑90 (MQ=255)
gCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGtt > 2:1459494/1‑90 (MQ=255)
cTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTa < 1:284735/90‑1 (MQ=255)
cAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATg < 1:405389/90‑1 (MQ=255)
caAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGc < 1:796406/90‑1 (MQ=255)
caAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGc < 2:1197015/90‑1 (MQ=255)
caAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGc < 2:766509/90‑1 (MQ=255)
aaGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGca > 1:1545174/1‑90 (MQ=255)
aGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGaa < 1:703187/73‑1 (MQ=255)
aGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGaa > 2:703187/1‑73 (MQ=255)
aCAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTa > 1:839498/1‑90 (MQ=255)
aCAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTa > 1:22777/1‑90 (MQ=255)
aaaTTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTa > 1:1452117/1‑90 (MQ=255)
aaTTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTaa < 2:625718/90‑1 (MQ=255)
aaTTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCg < 2:839498/90‑1 (MQ=255)
|
AAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCG > NZ_CP009273/2753084‑2753251
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ 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
GAGATATGGCAAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTA > NZ_CP009273/2753074‑2753238
|
GAGATATGGCAAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAA > SRR3722078.1495298/1‑100 (MQ=60)
AGATATGGCAAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAAT > SRR3722078.377009/1‑100 (MQ=60)
TGGCAAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACA > SRR3722078.429139/1‑100 (MQ=60)
GCAAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATT > SRR3722078.990105/1‑100 (MQ=60)
GGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCG > SRR3722078.51360/1‑100 (MQ=60)
GGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCG > SRR3722078.53721/1‑100 (MQ=60)
ATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCAC < SRR3722078.938591/100‑1 (MQ=60)
TTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCA > SRR3722078.159899/1‑100 (MQ=60)
GTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCctgtctcttat > SRR3722078.1187542/1‑89 (MQ=60)
GTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATG > SRR3722078.776390/1‑100 (MQ=60)
GTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATG > SRR3722078.1104732/1‑100 (MQ=60)
GCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGA > SRR3722078.950168/1‑100 (MQ=60)
TCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAAT > SRR3722078.632923/1‑100 (MQ=60)
ATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTG < SRR3722078.718144/100‑1 (MQ=60)
GTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTT > SRR3722078.960563/1‑100 (MQ=60)
gagacaGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATG < SRR3722078.711675/94‑1 (MQ=60)
CAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATG < SRR3722078.1264541/100‑1 (MQ=60)
CAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATG < SRR3722078.787165/100‑1 (MQ=60)
GCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAG < SRR3722078.309270/100‑1 (MQ=60)
GCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCA > SRR3722078.1570352/1‑100 (MQ=60)
CTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCAT < SRR3722078.288207/100‑1 (MQ=60)
CAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCAT < SRR3722078.410305/100‑1 (MQ=60)
ACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTA > SRR3722078.850672/1‑100 (MQ=60)
ACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTA > SRR3722078.23067/1‑100 (MQ=60)
CAAGGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAA < SRR3722078.806877/100‑1 (MQ=60)
GGTAACAGAAAAATTTCCAACCCAATTTTTCCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTA > SRR3722078.1475793/1‑100 (MQ=60)
|
GAGATATGGCAAAGGGGATTGGATTTTTTGCACGGTGCCTCATGTGCCAGCCTGCTTCAACACAAGGTAACAGAAAAATTTCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTA > NZ_CP009273/2753074‑2753238
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
