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 |
|
A0 F0 I1 R1
|
61 |
39.0 |
4165548 |
97.4% |
4057243 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
2,292,091 |
+G |
coding (36/39 nt) |
ECW_RS27980 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,292,091 | 1 | . | G | 100.0%
| 54.3
/ NA
| 28 | V12V (GTA→GTC) | ECW_RS27980 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (9/19); total (9/19) |
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTT > NC_017635/2292042‑2292134
|
agagCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTtat > 1:130474/1‑50 (MQ=255)
agagCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTtat > 2:512085/1‑50 (MQ=255)
gagCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTtat < 1:1232153/49‑1 (MQ=255)
gggTTCCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTaa < 2:1709490/50‑1 (MQ=17)
gTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAaga < 2:809898/50‑1 (MQ=17)
cccccGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGca < 1:1988563/49‑1 (MQ=17)
cccGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGcacca < 1:1893003/50‑1 (MQ=17)
cccGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGcacca > 1:2013267/1‑50 (MQ=17)
cGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACg < 2:1186205/50‑1 (MQ=17)
gCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACga < 1:841354/50‑1 (MQ=17)
ccTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatg < 1:724434/50‑1 (MQ=17)
tGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACgatgat > 2:1429234/1‑50 (MQ=17)
tAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAg > 1:194484/1‑50 (MQ=17)
gTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTa < 1:709783/50‑1 (MQ=17)
gTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTa < 2:851590/50‑1 (MQ=17)
gTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTa < 2:2054033/50‑1 (MQ=17)
aGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCt < 1:183666/48‑1 (MQ=17)
gTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtca < 1:794160/50‑1 (MQ=17)
tAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcat < 1:1907547/50‑1 (MQ=17)
aaGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcat > 2:1114226/1‑49 (MQ=17)
aGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcatca < 1:396579/50‑1 (MQ=17)
aGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTtcatca < 1:294359/50‑1 (MQ=17)
cGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTcatcat > 1:1897140/1‑49 (MQ=14)
cGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATg < 1:1812204/50‑1 (MQ=14)
ggggAAGCTTATGACTAAGAGCACCACGATGATGATTAGCTTCATCATGa < 2:990173/50‑1 (MQ=14)
ggggAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGa < 1:2033675/50‑1 (MQ=14)
ggggAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGa > 2:1592104/1‑50 (MQ=14)
gAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGAccc > 2:2031298/1‑50 (MQ=11)
aaGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCt > 1:610709/1‑50 (MQ=11)
aaGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCt > 2:1143472/1‑50 (MQ=11)
gCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCttt < 1:1737219/50‑1 (MQ=1)
|
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTT > NC_017635/2292042‑2292134
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCCTTAT > NC_017635/2292042‑2292140
|
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑G > M01420:85:000000000‑AC936:1:1102:26659:21083/1‑51 (MQ=52)
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT < M01420:85:000000000‑AC936:1:2103:23451:20022/50‑1 (MQ=53)
GGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTA > M01420:85:000000000‑AC936:1:1114:8775:7475/1‑50 (MQ=49)
GGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTA > M01420:85:000000000‑AC936:1:1102:13141:9439/1‑50 (MQ=49)
TCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCA < M01420:85:000000000‑AC936:1:2113:24606:21982/50‑1 (MQ=53)
CCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCA < M01420:85:000000000‑AC936:1:2112:24002:16442/51‑1 (MQ=52)
CCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCAC > M01420:85:000000000‑AC936:1:2114:16126:6103/1‑51 (MQ=52)
CGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGA < M01420:85:000000000‑AC936:1:1112:14036:13030/51‑1 (MQ=52)
CCCTGGTAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATG < M01420:85:000000000‑AC936:1:1110:26683:22093/51‑1 (MQ=60)
TAGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGT > M01420:85:000000000‑AC936:1:1103:3702:17890/1‑51 (MQ=52)
AGTCTTAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTA < M01420:85:000000000‑AC936:1:1110:4792:17438/51‑1 (MQ=52)
TAGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCT < M01420:85:000000000‑AC936:1:1103:28130:14709/49‑1 (MQ=60)
AGTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCA < M01420:85:000000000‑AC936:1:1111:16132:20990/51‑1 (MQ=37)
GTAAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCAT < M01420:85:000000000‑AC936:1:2112:26819:20700/51‑1 (MQ=34)
AAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCA < M01420:85:000000000‑AC936:1:1106:17762:11688/51‑1 (MQ=28)
AAGCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCA < M01420:85:000000000‑AC936:1:1104:12490:26921/51‑1 (MQ=28)
GCGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATG < M01420:85:000000000‑AC936:1:2111:26502:15087/51‑1 (MQ=19)
CGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGA < M01420:85:000000000‑AC936:1:2114:3951:12533/51‑1 (MQ=16)
CGGGGAAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATG > M01420:85:000000000‑AC936:1:2112:17483:17629/1‑50 (MQ=16)
AAGCTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTT > M01420:85:000000000‑AC936:1:1109:22546:9624/1‑51 (MQ=0)
CTTATGACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCC > M01420:85:000000000‑AC936:1:2109:18345:18586/1‑51 (MQ=0)
G‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCCTTAT < M01420:85:000000000‑AC936:1:1107:19638:23083/50‑1 (MQ=0)
|
AGAGCGGGGTTTCCCCCGCCCTGGTAGTCTTAGTAAGCGGGGAAGCTTAT‑ACTAAGAGCACCACGATGATGAGTAGCTTCATCATGACCCTTTCCTTAT > NC_017635/2292042‑2292140
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
