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 |
|
A30 F2 I0 R1
|
161 |
23.0 |
1354186 |
89.7% |
1214704 |
133.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947 |
2,633,849 |
C→T |
100% |
H173H (CAC→CAT) |
clpP → |
ATP‑dependent Clp protease proteolytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947 | 2,633,849 | 0 | C | T | 100.0%
| 32.7
/ NA
| 12 | H173H (CAC→CAT) | clpP | ATP‑dependent Clp protease proteolytic subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (5/7); total (5/7) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCTGCCTAACTCGCGCGTGATGATCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCACACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTGATCGACTCGGTCTACGACAAGCGGCAACTGGCCTCCTGAACCGGGG > NC_002947/2633720‑2633979
|
cctgcctAACTCGCGCGTGATGATCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGc < 1:533055/136‑1 (MQ=255)
cctgcctAACTCGCGCGTGATGATCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGc < 2:526227/136‑1 (MQ=255)
ctAACTCGCGCGTGATGATCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGa < 2:523593/136‑1 (MQ=255)
cgTGATGATCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGAcc < 1:483123/136‑1 (MQ=255)
tgatgaTCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCaa > 1:481034/1‑135 (MQ=255)
tGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCg < 2:36193/136‑1 (MQ=255)
gggCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGt < 1:543807/136‑1 (MQ=255)
ccAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTg > 1:192787/1‑136 (MQ=255)
ccAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTg > 1:411252/1‑136 (MQ=255)
ccAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTg > 1:418748/1‑136 (MQ=255)
gAACGAGCTGCTGGCCTATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTGATCGACTCGGTCTACGACAAGCGGCAACTg > 1:289044/1‑136 (MQ=255)
tATCATACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTGATCGACTCGGTCTACGACAAGCGGCAACTGGCCTCCTGAACCgggg < 1:52623/136‑1 (MQ=255)
|
CCTGCCTAACTCGCGCGTGATGATCCACCAGCCGCTGGGCGGCTTCCAGGGTCAGGCCACCGATATCGAGATCCACGCCCAGGAAATTCTCAATATCAAGGCCCGTCTGAACGAGCTGCTGGCCTATCACACCGGCCAGGACCTCGAGACCATCAAGCGTGACACCGAGCGTGACAACTTCATGAGCGCCTCGCGCGCAGCCGAGTACGGCCTGATCGACTCGGTCTACGACAAGCGGCAACTGGCCTCCTGAACCGGGG > NC_002947/2633720‑2633979
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
