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 |
885,786 |
T→G |
L81R (CTG→CGG) |
ybjM → |
inner membrane protein YbjM |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 885,786 | 0 | T | G | 100.0%
| 119.2
/ NA
| 32 | L81R (CTG→CGG) | ybjM | inner membrane protein YbjM |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (13/19); total (13/19) |
TCTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCTGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACTGTG > NZ_CP009273/885705‑885870
|
tcttTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTc > 1:586945/1‑91 (MQ=255)
cacaGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGAc < 2:446632/91‑1 (MQ=255)
cacaGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGAc < 1:329745/91‑1 (MQ=255)
cacaGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGAc < 2:847122/91‑1 (MQ=255)
gCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACgcgc < 2:88814/91‑1 (MQ=255)
gCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACgcgc > 1:666277/1‑91 (MQ=255)
cGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCt > 2:233/1‑91 (MQ=255)
cGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCAACGCGCt > 1:551848/1‑91 (MQ=255)
gagaAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCAtt > 1:547901/1‑91 (MQ=255)
gagaAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCAtt < 2:28490/91‑1 (MQ=255)
gTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGc > 2:338036/1‑91 (MQ=255)
tGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAaga < 2:188138/91‑1 (MQ=255)
ctGTTTGGCGCAATGCTGGCGGCACTCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCAt < 2:445991/91‑1 (MQ=255)
ctGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCAt < 2:234212/91‑1 (MQ=255)
cTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCgg < 2:596574/91‑1 (MQ=255)
cTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCgg < 2:169932/91‑1 (MQ=255)
cTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCgg < 1:425790/91‑1 (MQ=255)
cACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTg > 1:514166/1‑91 (MQ=255)
cACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTg > 2:435419/1‑91 (MQ=255)
cTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGgtgt > 2:574751/1‑91 (MQ=255)
tGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATg > 1:87872/1‑65 (MQ=255)
tGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATg < 2:87872/65‑1 (MQ=255)
tGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGtgtg < 1:19272/91‑1 (MQ=255)
gATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTg < 2:612302/91‑1 (MQ=255)
aTGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTgg > 1:295494/1‑91 (MQ=255)
cATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCa > 1:783806/1‑91 (MQ=255)
aTTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCAc < 1:782172/91‑1 (MQ=255)
ttATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACt < 2:735645/91‑1 (MQ=255)
ttATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACt < 2:813334/91‑1 (MQ=255)
ttATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACt < 1:383879/91‑1 (MQ=255)
tATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACtg < 2:848463/91‑1 (MQ=255)
tGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACtgtg > 2:93070/1‑91 (MQ=255)
|
TCTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCTGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACTGTG > NZ_CP009273/885705‑885870
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTCGCCAGCTTCTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCTGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACTGTGTTTCTTA > NZ_CP009273/885695‑885877
|
GTCGCCAGCTTCTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTC > SRR3722118.599394/1‑101 (MQ=60)
TCTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGC > SRR3722118.680712/1‑101 (MQ=60)
CTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCAACGCGCT > SRR3722118.563546/1‑101 (MQ=60)
TCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATT > SRR3722118.559521/1‑101 (MQ=60)
CACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTC < SRR3722118.336519/101‑1 (MQ=60)
ATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTG > SRR3722118.525073/1‑101 (MQ=60)
CTGGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTG < SRR3722118.434776/101‑1 (MQ=60)
GGCGGCACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCctgtctcttatacaca > SRR3722118.89488/1‑85 (MQ=60)
ACCCTGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGG > SRR3722118.301547/1‑101 (MQ=60)
TGTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGC < SRR3722118.19636/101‑1 (MQ=60)
GTTCGATGCTCATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCA > SRR3722118.801000/1‑101 (MQ=60)
CATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGctgtctcttatacacatctccga > SRR3722118.547150/1‑78 (MQ=60)
ATTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACTGTGTTTCTT < SRR3722118.799337/101‑1 (MQ=60)
TTATGCGGCGGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACTGTGTTTCTTA < SRR3722118.391922/101‑1 (MQ=60)
|
GTCGCCAGCTTCTTTTCACAGCGTAGAGAAGTCCTGAAACCTCTGTTTGGCGCAATGCTGGCGGCACCCTGTTCGATGCTCATTATGCGGCTGTTTTTTTCACCGACGCGCTCATTCTGGCAAGAGCTGGCATGGTTACTAAGCGCGGTGTTCTGGTGTGCGCTGGGGGCACTGTGTTTCTTA > NZ_CP009273/885695‑885877
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
