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 |
856,437 |
T→C |
39.4% |
P311P (CCA→CCG) |
trpB ← |
tryptophan synthase, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 856,437 | 0 | T | C | 39.4%
| 29.9
/ 47.4
| 71 | P311P (CCA→CCG) | trpB | tryptophan synthase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base T (30/13); new base C (22/6); total (52/19) |
| Fisher's exact test for biased strand distribution p-value = 5.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGGGCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGATTCTTCAATCTGCCC > minE/856371‑856496
|
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:510205/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2032535/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:3137055/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:1588489/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:210237/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:3110377/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:1553472/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:1549479/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:1032013/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:447538/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2370596/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2383016/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:680150/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:693961/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2821426/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:1309331/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2956775/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2971863/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:2979920/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:1158312/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCATGTTGCgg > 1:981557/2‑69 (MQ=255)
caGGGCTTCATCGTCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTGAGATACGCAAGTTGCgg > 1:851856/2‑69 (MQ=255)
ggCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGcc > 1:3029041/1‑69 (MQ=255)
ggCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGcc > 1:3136076/1‑69 (MQ=255)
ggCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGcc > 1:1809277/1‑69 (MQ=255)
ggCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGcc > 1:455075/1‑69 (MQ=255)
ggCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGcc > 1:155735/1‑69 (MQ=255)
aaTAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATc < 1:3158044/69‑1 (MQ=255)
aaTAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATc < 1:3413117/69‑1 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:1995100/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:1725885/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:1647311/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:3340487/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:1168585/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:1235462/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:2322799/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:2464905/1‑69 (MQ=255)
gACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGt > 1:1335781/1‑69 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGc > 1:2273187/1‑44 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCcgg > 1:2976005/1‑68 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCcgg > 1:1940657/1‑68 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCcgg > 1:1269648/1‑68 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCcgg > 1:543814/1‑68 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCcgg > 1:3395623/1‑68 (MQ=255)
gTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCcg > 1:3160716/1‑67 (MQ=255)
aTCAGCGCGTCCAGTGCTGTTGAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGga < 1:1969739/69‑1 (MQ=255)
aTCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGga < 1:2204543/69‑1 (MQ=255)
aTCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGga < 1:1090500/69‑1 (MQ=255)
aTCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGga < 1:1541834/69‑1 (MQ=255)
aTCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGga < 1:2030156/69‑1 (MQ=255)
aGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGa < 1:3424642/69‑1 (MQ=255)
aGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGa < 1:895556/69‑1 (MQ=255)
aGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGa < 1:1365888/69‑1 (MQ=255)
aGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGa < 1:1616193/69‑1 (MQ=255)
aGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGa < 1:31462/69‑1 (MQ=255)
aGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGa < 1:194927/69‑1 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATc > 1:3331445/1‑41 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATc > 1:1533137/1‑41 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATc > 1:1490126/1‑41 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGAttc > 1:3104848/1‑68 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGAttc > 1:948753/1‑68 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGAttc > 1:2147201/1‑68 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGAttc > 1:1303112/1‑68 (MQ=255)
cTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGAttc > 1:1401377/1‑68 (MQ=255)
aTACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGATTCTTCAATCTg > 1:2100700/1‑69 (MQ=255)
cgcaTGTTGCGTGCCGACGGACGTGAAATCCAGCCCGGCAGAAATGGAGTAAGACTCTTCAATTTGccc < 1:2091001/69‑1 (MQ=255)
cgcaTGTTGCGGGCCGACGGACGGGAAATCCAGCCCGGCATAAATGGAGTAAGACTCTTCAATTTGccc < 1:572059/69‑1 (MQ=255)
cgcaTGTTGCGGGCCGACGGACGGGAAATCCAGCCCGGCAGAAATGGAGTAAGACTCTTCAATTTGccc < 1:1350278/69‑1 (MQ=255)
cgcaTGTTGCGGGCCGACGGACGGGAAATCCAGCCCGGCAGAAATGGAGTAAGACTCTTCAATTTGccc < 1:1416063/69‑1 (MQ=255)
cgcaTGTTGCGGGCCGACGGACGGGAAATCCAGCCCGGCAGAAATGGAGTAAGACTCTTCAATTTGccc < 1:2991093/69‑1 (MQ=255)
cgcaTGTTGCGGGCCGACGGACGGGAAATCCAGCCCGGCAGAAATGGAGTAAGACTCTTCAATTTGccc < 1:1557336/69‑1 (MQ=255)
|
AAGGGCTTCATCATCGGTAATAGACACGTAATCAGCGCGTCCAGTGCTGTTAAGATACGCGTGTTGTGGGCCGACAGACGGGAAATCCAGTCCGGCGGAGATGGAGTAAGATTCTTCAATCTGCCC > minE/856371‑856496
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
