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 |
2,160,370 |
C→T |
62.8% |
L406L (CTG→CTA) |
murA ← |
UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,160,370 | 0 | C | T | 62.8%
| 25.7
/ 29.7
| 51 | L406L (CTG→CTA) | murA | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (13/6); new base T (5/27); total (18/33) |
| Fisher's exact test for biased strand distribution p-value = 2.28e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
CGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAACCA > minE/2160305‑2160425
|
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1177839/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:716199/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:661908/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1393731/69‑1 (MQ=255)
cGGGGCTGCCAGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1476594/69‑1 (MQ=255)
aGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTc < 1:1184451/67‑1 (MQ=255)
aGCTCTCAGACAATTACTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGt < 1:1218481/59‑1 (MQ=38)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:904942/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:594983/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:313886/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:2843212/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:2528436/1‑68 (MQ=255)
aGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGtt > 1:1798526/1‑68 (MQ=255)
cTTTCACACGCTGAATATTTGCACCTAAAGCGCGTTGTTTGTCTTCAATGCGTTCGTAg < 1:2366518/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1740061/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1129829/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:783019/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:756418/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1228294/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1266045/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:65796/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:621891/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:372937/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:3426477/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:3377743/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:3346560/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1313/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:2905264/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:2792112/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:2116426/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1726231/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:2170123/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1603522/59‑1 (MQ=255)
cTTTCACACGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAg < 1:1753110/59‑1 (MQ=255)
aggCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATa > 1:1950984/3‑69 (MQ=255)
acGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAGCCAcga > 1:586778/1‑58 (MQ=255)
acGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGAt > 1:325759/1‑68 (MQ=255)
acGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATa > 1:3215025/1‑69 (MQ=255)
acGCTCAATATTTGCACCTAAAGCGCGTAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATa > 1:445283/1‑69 (MQ=255)
cGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGAt > 1:3080418/1‑67 (MQ=255)
cGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATa > 1:2310671/1‑68 (MQ=255)
cGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATa > 1:1436672/1‑68 (MQ=255)
cGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATa > 1:1365179/1‑68 (MQ=255)
tatTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAg > 1:2329008/1‑44 (MQ=255)
tttGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCAcgatc < 1:76345/50‑1 (MQ=255)
tttGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCAcgatc < 1:2911120/50‑1 (MQ=255)
tttGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCAcgatc < 1:1827222/50‑1 (MQ=255)
tttGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCAcgatc < 1:1301629/50‑1 (MQ=255)
tttGCACCTAAAGCGCCCAGTTTGTCTTCAATGCGTTCGTAGCCAcgatc < 1:528484/50‑1 (MQ=255)
cACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAacca > 1:57647/1‑69 (MQ=255)
cACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAacca > 1:2344505/1‑69 (MQ=255)
|
CGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAACCA > minE/2160305‑2160425
|
| 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
