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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,323,502 |
A→G |
60.8% |
C284C (TGT→TGC) |
pfkA ← |
6‑phosphofructokinase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,323,502 | 0 | A | G | 60.8%
| 24.6
/ 32.6
| 54 | C284C (TGT→TGC) | pfkA | 6‑phosphofructokinase I |
| Reads supporting (aligned to +/- strand): ref base A (11/10); new base G (16/16); total (28/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01 |
CGCTTCATGTTTTCGATAGCGTCGATGATGTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATACGGGAAGCCAGAAT > minE/2323437‑2323567
|
cGCTTCATGTTTTCGATAGCGTCGATGATGTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTAcaca > 1:1996240/1‑68 (MQ=255)
cATGTTTTCGATAGCGTCGATGATGTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGAcc > 1:1781256/1‑69 (MQ=255)
cATGTTTTCGATAGCGTCGATGATGTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGAcc > 1:501181/1‑69 (MQ=255)
tCGATGATGTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCcagc > 1:3057877/1‑69 (MQ=255)
gatgTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCcagcagcag < 1:2970017/69‑1 (MQ=255)
gatgTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCcagcagcag < 1:2846209/69‑1 (MQ=255)
gatgTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCcagcagcag < 1:787922/69‑1 (MQ=255)
gatgTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCcagcagcag < 1:659957/69‑1 (MQ=255)
ggtgAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAg < 1:1858990/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:2254338/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1708824/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1241346/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1470022/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1807854/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1827933/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:648882/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:2615969/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1400149/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:2104254/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:1992493/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:145281/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:38808/69‑1 (MQ=255)
gAACCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCAAGCAGCAGCTCGATAGCGt < 1:1526756/69‑1 (MQ=255)
aaCCAGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:2480164/68‑1 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:66379/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:2521671/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:1359702/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:1354856/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:601687/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:2268084/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:1543635/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:3200115/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:362979/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:2065230/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:93357/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:1894148/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:184856/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:1848141/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:1494352/1‑69 (MQ=255)
aGCTGTTCGTTCTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAg > 1:879082/1‑67 (MQ=255)
aGCTGTTCGTTCTGGATACCTAC‑GAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGTAAgcg > 1:416705/1‑68 (MQ=255)
gttcgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa > 1:1245800/1‑69 (MQ=255)
gttcgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa > 1:2036442/1‑69 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATa < 1:3045183/68‑1 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATa < 1:3055639/68‑1 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATa < 1:2843954/68‑1 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATa < 1:2187042/68‑1 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATa < 1:2018933/68‑1 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATAc > 1:837423/1‑69 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATAc > 1:2315724/1‑69 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATAc > 1:2225426/1‑69 (MQ=255)
cgttcTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATAc > 1:1725362/1‑69 (MQ=255)
cgttcTGGATACCTACACAACGACCGCAGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATAc > 1:2110762/1‑69 (MQ=255)
cTGGATACCTACGCAACGACCACCGTAACCTGCCAGCAGCAGCTCGATAGCGt < 1:2291226/53‑1 (MQ=38)
tACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATACGGGAAGCCAGAAt > 1:1897715/1‑69 (MQ=255)
acacAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa < 1:589294/52‑1 (MQ=255)
acacAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa < 1:3297257/52‑1 (MQ=255)
acacAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa < 1:2560595/52‑1 (MQ=255)
acacAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa < 1:2420389/52‑1 (MQ=255)
acacAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCa < 1:984062/52‑1 (MQ=255)
cacaACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCg > 1:726326/1‑41 (MQ=255)
cacaACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTa > 1:624244/1‑43 (MQ=255)
cacaACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTa > 1:313893/1‑43 (MQ=255)
cacaACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTa > 1:3101123/1‑43 (MQ=255)
cacaACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTa > 1:219305/1‑43 (MQ=255)
|
CGCTTCATGTTTTCGATAGCGTCGATGATGTCGTGGTGAACCAGCTGTTCGTTCTGGATACCTACACAACGACCGCCGTAACCTGCCAGCAGCAGATCGATAGCGTAAGCGCCCATACGGGAAGCCAGAAT > minE/2323437‑2323567
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
