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 |
647,833 |
C→T |
79.7% |
R171R (CGC→CGT) |
pepN → |
aminopeptidase N |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 647,833 | 0 | C | T | 79.7%
| 58.4
/ 8.9
| 44 | R171R (CGC→CGT) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base C (2/7); new base T (20/15); total (22/22) |
| Fisher's exact test for biased strand distribution p-value = 1.32e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01 |
AAATCAAATATCCCTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGCTACCTGTTTG > minE/647766‑647882
|
aaaTCAAATATCCCTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGcc < 1:820234/69‑1 (MQ=255)
cccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGt > 1:25797/1‑65 (MQ=255)
cccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAg > 1:1956816/1‑69 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:1102814/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:906952/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:814729/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:643951/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:498258/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:2921744/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:2583520/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:240108/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:1938750/56‑1 (MQ=255)
ccTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:1230292/56‑1 (MQ=255)
cattCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:1815941/54‑1 (MQ=255)
cTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGc < 1:3209380/55‑1 (MQ=255)
tCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGc < 1:1705924/69‑1 (MQ=255)
tCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGc < 1:2955244/69‑1 (MQ=255)
tCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGc < 1:2246093/69‑1 (MQ=255)
tCCTGCTTTCCAATGGTAACCGCGTTCCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGc < 1:2618291/69‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:3433876/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:429611/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:465663/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:521732/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:2886721/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:272652/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:1558120/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:2017471/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:1848547/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:1895332/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:1998910/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:1994211/68‑1 (MQ=255)
cgcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:1599459/68‑1 (MQ=255)
gcgTTGCGCAAGGTGAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:2800216/67‑1 (MQ=255)
gcgTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGt < 1:3168895/69‑1 (MQ=255)
gcgTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGt < 1:1403547/69‑1 (MQ=255)
gcgTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGt < 1:781137/69‑1 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGTGTACAGTGGCAGGACCCGTTCCCGAAAcc < 1:2927220/53‑1 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGa > 1:653831/3‑40 (MQ=37)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGAccc > 1:3303540/3‑43 (MQ=37)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGt > 1:1607075/3‑57 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTg > 1:1399207/3‑65 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGttt > 1:1332252/3‑68 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGttt > 1:254699/3‑68 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:630514/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:1354543/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:1067385/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:3404908/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:3108088/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:3105006/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:3046500/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:1472889/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:14860/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:2030630/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:1925336/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:1862712/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:177317/3‑69 (MQ=255)
gtgAACTGGAAAATGGACGTCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGTTACCTGTTTg > 1:1747362/3‑69 (MQ=255)
|
AAATCAAATATCCCTTCCTGCTTTCCAATGGTAACCGCGTTGCGCAAGGCGAACTGGAAAACGGACGCCATTGGGTACAGTGGCAGGACCCGTTCCCGAAACCGTGCTACCTGTTTG > minE/647766‑647882
|
| 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
