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 |
2,703,017 |
T→C |
70.0% |
D136D (GAT→GAC) |
aroB → |
3‑dehydroquinate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,703,017 | 0 | T | C | 70.0%
| 71.5
/ 31.6
| 73 | D136D (GAT→GAC) | aroB | 3‑dehydroquinate synthase |
| Reads supporting (aligned to +/- strand): ref base T (7/15); new base C (44/7); total (51/22) |
| Fisher's exact test for biased strand distribution p-value = 8.25e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.69e-01 |
CGGCGGCGAGTTATCAGCGCGGTGTCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATGATTGGCGCGTTCT > minE/2702950‑2703081
|
cggcggcgAGTTATCAGCGCGGTGTCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGAt < 1:837856/68‑1 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGTTCGActcctc > 1:1398791/1‑62 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:1963269/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:2657887/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:2614778/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:2592158/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:2830621/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:2869760/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:2424265/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:3182739/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:3248296/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:424673/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:1971842/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:1908209/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:991748/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:564133/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:904084/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:127697/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:891043/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:1359903/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:1368784/1‑63 (MQ=255)
tATCAGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACtcctcc > 1:1806597/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:3276695/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:1083368/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2896988/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:856908/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:800176/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:3379288/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:402361/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:75599/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:427111/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:506923/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:649999/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2737730/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:561572/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:1443449/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2518364/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2481261/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:1723283/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:1780599/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:1858587/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:200453/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2136352/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2188028/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2401122/1‑63 (MQ=255)
aGCGCGGTGTACGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTg > 1:2191849/1‑63 (MQ=255)
gtCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCg < 1:1299302/69‑1 (MQ=255)
gtCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCg > 1:2753968/1‑69 (MQ=255)
gtCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCg < 1:809807/69‑1 (MQ=255)
tCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCg > 1:110386/1‑68 (MQ=255)
tCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCg < 1:1646648/68‑1 (MQ=255)
tttCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCa < 1:2851223/68‑1 (MQ=255)
tttCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCa < 1:466942/68‑1 (MQ=255)
tttCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCa < 1:512085/68‑1 (MQ=255)
ttcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAc < 1:1189717/69‑1 (MQ=255)
ttcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAc < 1:1501460/69‑1 (MQ=255)
ttcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAc < 1:3230579/69‑1 (MQ=255)
ttcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAc < 1:2113349/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:2405737/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:2625493/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:2346006/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:3209987/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:485455/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:3229149/69‑1 (MQ=255)
tcattcaAGTCCCGACGACGTTACTGTCGCAGGTCGACTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAcc < 1:345789/69‑1 (MQ=255)
cattcaAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGCAAAAACTGCGGTCAAc < 1:2704106/68‑1 (MQ=255)
cgTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAAc < 1:947373/50‑1 (MQ=255)
ttACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATg < 1:2548445/69‑1 (MQ=255)
tACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATg < 1:577078/68‑1 (MQ=255)
aGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCa < 1:2975427/36‑1 (MQ=255)
gTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATGATTGGCGCGTTc > 1:2657442/1‑69 (MQ=255)
tCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAAc > 1:1538983/1‑53 (MQ=255)
cGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATGATTGGCGCGTTCt > 1:3094384/1‑68 (MQ=255)
cGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATGATTGGCGCGTTCt > 1:3254970/1‑68 (MQ=255)
cGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATGATTGGCGCGTTCt > 1:3345252/1‑68 (MQ=255)
|
CGGCGGCGAGTTATCAGCGCGGTGTCCGTTTCATTCAAGTCCCGACGACGTTACTGTCGCAGGTCGATTCCTCCGTTGGCGGC‑AAAACTGCGGTCAACCATCCCCTCGGTAAAAACATGATTGGCGCGTTCT > minE/2702950‑2703081
|
| 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
