Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003780.1 Hibiscus syriacus cultivar Beakdansim tig00008092_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67094
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Found at i:1179 original size:23 final size:22
Alignment explanation
Indices: 1120--1182 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
1110 TATGGACATC
*
1120 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
*
1142 ACTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1164 ATTCTACGGGGCACTTCGG
1 ATTCTAC-GGGCACTTCGG
1183 CATTTATACG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 26 0.70
23 11 0.30
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.24
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:3302 original size:16 final size:16
Alignment explanation
Indices: 3281--3323 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
3271 AGGTAATAAA
3281 GATTGATAAAGAATTT
1 GATTGATAAAGAATTT
* *
3297 GATTGATTAAGGATTTT
1 GATTGA-TAAAGAATTT
*
3314 GAGTGATAAA
1 GATTGATAAA
3324 ACTGATGCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (16 bp):
GATTGATAAAGAATTT
Found at i:4214 original size:20 final size:21
Alignment explanation
Indices: 4189--4232 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
4179 GATTTCTGGG
*
4189 CAAGGGGAATCG-TACCCATT
1 CAAGGGGAACCGATACCCATT
*
4209 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4230 CAA
1 CAA
4233 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:5943 original size:23 final size:22
Alignment explanation
Indices: 5884--5950 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
5874 TATGGACATC
*
5884 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
*
5906 ACTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
5928 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
5951 TTTATACGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 26 0.63
23 15 0.37
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.24
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:7754 original size:20 final size:22
Alignment explanation
Indices: 7729--7768 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7719 TGTTGTATAT
7729 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
7749 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
7769 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:7823 original size:21 final size:21
Alignment explanation
Indices: 7797--7838 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7787 CTACGATATG
7797 GGGTATC-AGTACCCCTTCATA
1 GGGTATCGA-TACCCCTTCATA
*
7818 GGGTATCGATACTCCTTCATA
1 GGGTATCGATACCCCTTCATA
7839 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
GGGTATCGATACCCCTTCATA
Found at i:8088 original size:29 final size:31
Alignment explanation
Indices: 8055--8114 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
8045 AAACTTTGAA
* *
8055 TAAATTCAATT-AAGTC-CAAAATCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
8084 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
8115 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 5 0.19
31 11 0.41
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCTAAAAACCATTTTG
Found at i:8252 original size:20 final size:20
Alignment explanation
Indices: 8224--8262 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8214 ATGTTTAATG
8224 AAAAAGATACCAATTGTTAC
1 AAAAAGATACCAATTGTTAC
* *
8244 AAAAGGATACTAATTGTTA
1 AAAAAGATACCAATTGTTA
8263 AGAAGATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGATACCAATTGTTAC
Found at i:10644 original size:21 final size:21
Alignment explanation
Indices: 10618--10659 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10608 CTACGATATG
10618 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
10639 GGGTATCGGTACTCCTTCATA
1 GGGTATCGGTACCCCTTCATA
10660 AAATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:10876 original size:29 final size:31
Alignment explanation
Indices: 10843--10902 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
10833 AAACTTTGAA
* *
10843 TAAATTCAATT-AAGTC-CAAAATCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
10872 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
10903 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 5 0.19
31 11 0.41
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCTAAAAACCATTTTG
Found at i:12365 original size:13 final size:13
Alignment explanation
Indices: 12347--12371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12337 GACACCTTTT
12347 GTATTTGCATTTG
1 GTATTTGCATTTG
12360 GTATTTGCATTT
1 GTATTTGCATTT
12372 TCATTATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
GTATTTGCATTTG
Found at i:14368 original size:42 final size:42
Alignment explanation
Indices: 14321--14403 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
14311 TAAGTTCTTC
* *
14321 GGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTA
1 GGGCCATCAATAAGTCTTTCGAGCACGATGATTAAATCCTTA
*
14363 GGGCCATCAGTAAGTCTTTCGAGCACGATGATTAAATCCTT
1 GGGCCATCAATAAGTCTTTCGAGCACGATGATTAAATCCTT
14404 CGGGTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
GGGCCATCAATAAGTCTTTCGAGCACGATGATTAAATCCTTA
Found at i:14503 original size:80 final size:80
Alignment explanation
Indices: 14366--14578 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
14356 ATCCTTAGGG
* * *
14366 CCATCAGTAAGTCTTTCGAGCACGATGATTAAATCCTTCGGGTAATTTGTAATCCTTCACGGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
14431 AGTACTGAAGCAAAC
66 AGTACTGAAGCAAAC
* *
14446 CCATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
* *
14511 AGTAGTGAAGCAAAT
66 AGTACTGAAGCAAAC
* * * *
14526 CCATCAATAAGTCTTTCGAGTATGATGATGAAATCCTTCGGGTCATTTGTAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
14579 TCTTTCGAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 120 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (80 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
AGTACTGAAGCAAAC
Found at i:15074 original size:53 final size:53
Alignment explanation
Indices: 14988--15249 Score: 416
Period size: 53 Copynumber: 4.9 Consensus size: 53
14978 AGAATTACAC
* *
14988 CAGAAAATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
15041 CAGACGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
*
15094 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGAGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * *
15147 CAGAAGATTTTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCATAAA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
15200 TAGAAGATTGTTCGAGTTCTACTCCCTAAAGCAATAGGGAGCGAACCCGT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGT
15250 TTTTTAGAAG
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 193 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.21
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:17283 original size:2 final size:2
Alignment explanation
Indices: 17276--17304 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17266 ATTTTTAGTG
17276 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17305 TTTTAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18316 original size:20 final size:20
Alignment explanation
Indices: 18272--18479 Score: 160
Period size: 20 Copynumber: 10.2 Consensus size: 20
18262 AATGACCAAC
*
18272 AAAATCGCAACGCGA--AATA
1 AAAATCGCAACGCGATTAA-G
*
18291 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
18311 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
18331 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
18351 AAAATCGCAACGCGATATTCC
1 AAAATCGCAACGCGAT-TAAG
*
18372 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
18393 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
18414 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
18435 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
18457 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
18475 AAAAT
1 AAAAT
18480 GAGTAAATTC
Statistics
Matches: 152, Mismatches: 22, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.03
19 15 0.10
20 88 0.58
21 14 0.09
22 31 0.20
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:18399 original size:42 final size:42
Alignment explanation
Indices: 18348--18479 Score: 223
Period size: 42 Copynumber: 3.2 Consensus size: 42
18338 CAACGGTCAA
*
18348 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
* *
18390 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
18432 AAGAAAATCGCAACGCG--ATTCCAAGAATCGCAACGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
18472 AAGAAAAT
1 AAGAAAAT
18480 GAGTAAATTC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
40 30 0.35
42 55 0.65
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (42 bp):
AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
Found at i:18465 original size:40 final size:40
Alignment explanation
Indices: 18272--18479 Score: 210
Period size: 42 Copynumber: 5.1 Consensus size: 40
18262 AATGACCAAC
* * *
18272 AAAATCGCAACGCGAAAT--AAAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCG-ATTCCAAGAATCGCAACGCGATTAAG
* **** *
18311 AAAATCGCAACGTTGAAAAGAA-AATCGCAACG-G-TCAAAAG
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGAT--TAAG
*
18351 AAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCG--ATTCCAAGAATCGCAACGCGATTAAG
*
18393 AGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTAAG
18435 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
18475 AAAAT
1 AAAAT
18480 GAGTAAATTC
Statistics
Matches: 143, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.11
40 56 0.39
41 5 0.03
42 63 0.44
43 1 0.01
44 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
Found at i:18586 original size:6 final size:6
Alignment explanation
Indices: 18575--18677 Score: 192
Period size: 6 Copynumber: 17.5 Consensus size: 6
18565 GACACGTATT
18575 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
18623 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A-C-CG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
18669 ACCACG ACC
1 ACCACG ACC
18678 CGAGACGAGA
Statistics
Matches: 95, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
4 3 0.03
5 2 0.02
6 90 0.95
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:19187 original size:6 final size:6
Alignment explanation
Indices: 19176--19256 Score: 162
Period size: 6 Copynumber: 13.5 Consensus size: 6
19166 TCTCGTCTCG
19176 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
19224 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
19257 AATACGTGTC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:19377 original size:20 final size:20
Alignment explanation
Indices: 19352--19819 Score: 502
Period size: 20 Copynumber: 23.2 Consensus size: 20
19342 GAATTTACTC
19352 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19372 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19392 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
19412 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19432 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
19452 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
19472 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19492 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
19512 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
*
19532 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19552 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
19572 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19592 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
*
19612 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
19632 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
19652 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
***
19672 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTTA-ATCGCGTTGCG
* *
19694 ATTCTCTTAATCGCATTGCG
1 ATTTTCTTAATCGCGTTGCG
***
19714 ATTCTTGGAATATCGCGTTGCG
1 ATT-TTCTTA-ATCGCGTTGCG
*
19736 ATTTTCTT--TTGACCGTTGCG
1 ATTTTCTTAATCG--CGTTGCG
* *
19756 ATTTTCTT-TTCAACGTTGCG
1 ATTTTCTTAATC-GCGTTGCG
*
19776 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
*
19796 A-TTT-TTATTTCGCGTTGCG
1 ATTTTCTTA-ATCGCGTTGCG
19815 ATTTT
1 ATTTT
19820 GTTGGTCATT
Statistics
Matches: 389, Mismatches: 28, Indels: 62
0.81 0.06 0.13
Matches are distributed among these distances:
18 27 0.07
19 14 0.04
20 284 0.73
21 12 0.03
22 52 0.13
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTTTCTTAATCGCGTTGCG
Found at i:25094 original size:2 final size:2
Alignment explanation
Indices: 25087--25130 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
25077 ATAAAATGTA
25087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25129 AT
1 AT
25131 TTACGTAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28420 original size:19 final size:19
Alignment explanation
Indices: 28396--28453 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
28386 TTATGTGATT
28396 TATTTATAATATATAAAAA
1 TATTTATAATATATAAAAA
28415 TATTTA-AAT-TATACAAAA
1 TATTTATAATATATA-AAAA
* * *
28433 -ATTAATCATAAATAAAAA
1 TATTTATAATATATAAAAA
28451 TAT
1 TAT
28454 ATAAATACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 8 0.25
18 13 0.41
19 11 0.34
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTTATAATATATAAAAA
Found at i:32027 original size:42 final size:41
Alignment explanation
Indices: 31970--32101 Score: 164
Period size: 41 Copynumber: 3.2 Consensus size: 41
31960 ACATTTTTTA
*
31970 ACAAACGCCGCAATAGAGTGGTAAATTAGCGGTGTTTATACC
1 ACAAACGCCGCAATAGA-TGGTAAATTAGCGGCGTTTATACC
* *
32012 ACAAACGCCGTAATAGAT--TAACATATAGTGGCGTTT-TAACC
1 ACAAACGCCGCAATAGATGGTAA-AT-TAGCGGCGTTTAT-ACC
32053 A-AAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACC
1 ACAAACGCCGCAATAGAT-GGTAAATTAGCGGCGTTTATACC
32094 ACAAACGC
1 ACAAACGC
32102 TTATTCTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
39 3 0.04
40 18 0.23
41 28 0.36
42 25 0.32
43 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (41 bp):
ACAAACGCCGCAATAGATGGTAAATTAGCGGCGTTTATACC
Found at i:33669 original size:41 final size:42
Alignment explanation
Indices: 33621--33713 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 42
33611 GTTTTTGACG
* * *
33621 TAAACGCCGCAATTGAGTTGTTCGTTAGTGGCGTTTTTTA-A
1 TAAACGCCGCAATAGAGTTGTCCGTTAGTGGCGTTTTTAATA
* * ** *
33662 TAAACGCCACAGTAGTTTTGTCCTTTAGTGGCGTTTTTAATA
1 TAAACGCCGCAATAGAGTTGTCCGTTAGTGGCGTTTTTAATA
33704 TAAACGCCGC
1 TAAACGCCGC
33714 CATTTTCCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 32 0.76
42 10 0.24
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
TAAACGCCGCAATAGAGTTGTCCGTTAGTGGCGTTTTTAATA
Found at i:40975 original size:21 final size:21
Alignment explanation
Indices: 40959--41001 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
40949 AAAGAAGTAG
40959 CGGCAACACAGAGAGAAGCAA
1 CGGCAACACAGAGAGAAGCAA
*
40980 CGGCAGCACAGAGAGAAGCAA
1 CGGCAACACAGAGAGAAGCAA
41001 C
1 C
41002 ATATCAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.26, G:0.30, T:0.00
Consensus pattern (21 bp):
CGGCAACACAGAGAGAAGCAA
Found at i:41407 original size:43 final size:42
Alignment explanation
Indices: 41357--41580 Score: 173
Period size: 43 Copynumber: 5.2 Consensus size: 42
41347 AGACCTTTAC
* * * *
41357 CGGCGTTTTTAGCAAAAATGCTGTAAAACATCAACACCTACTG
1 CGGCGTTTTGAG-AAAAACGCCGCAAAACATCAACACCTACTG
* *
41400 CGTCGTTTGTGAGAAAAACGCCGCAAAACATCAACACTTACTG
1 CGGCGTTT-TGAGAAAAACGCCGCAAAACATCAACACCTACTG
* * *
41443 CGGCGTTTTAGAGAAAAACACCGCTAAACATCATA-ACCTATTG
1 CGGCGTTTT-GAGAAAAACGCCGCAAAACATCA-ACACCTACTG
* * * * * * *
41486 CGGCATTTGTCTA-AAAAATGCCGCTAAATATCAACACATATTG
1 CGGCGTTT-T-GAGAAAAACGCCGCAAAACATCAACACCTACTG
* * * * *
41529 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTG
1 CGGCGTTTTGA-GAAAAACGCCGCAAAACATCAACACCTACTG
*
41572 CGGCATTTT
1 CGGCGTTTT
41581 TCTGACAAAC
Statistics
Matches: 151, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 140 0.93
44 6 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
CGGCGTTTTGAGAAAAACGCCGCAAAACATCAACACCTACTG
Found at i:41474 original size:86 final size:86
Alignment explanation
Indices: 41382--41579 Score: 231
Period size: 86 Copynumber: 2.3 Consensus size: 86
41372 AAATGCTGTA
* * * *
41382 AAACATCAACACCTACTGCGTCGTTTGT-GAGAAAAACGCCGCAAAACATCAACACTTACTGCGG
1 AAACATCAACACCTATTGCGGCATTTGTCGA-AAAAACGCCGCAAAACATCAACACATACTGCGG
41446 CG-TTTTAGAGAAAAACACCGCT
65 CGTTTTTA-AGAAAAACACCGCT
* * * * *
41468 AAACATCATA-ACCTATTGCGGCATTTGTCTAAAAAATGCCGCTAAATATCAACACATATTGCGG
1 AAACATCA-ACACCTATTGCGGCATTTGTCGAAAAAACGCCGCAAAACATCAACACATACTGCGG
* * *
41532 CGTTTTTATGACAAACGCCGCT
65 CGTTTTTAAGAAAAACACCGCT
*
41554 AAATATCAACACCTATTGCGGCATTT
1 AAACATCAACACCTATTGCGGCATTT
41580 TTCTGACAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 1 0.01
86 87 0.92
87 7 0.07
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (86 bp):
AAACATCAACACCTATTGCGGCATTTGTCGAAAAAACGCCGCAAAACATCAACACATACTGCGGC
GTTTTTAAGAAAAACACCGCT
Found at i:41581 original size:43 final size:43
Alignment explanation
Indices: 41382--41594 Score: 189
Period size: 43 Copynumber: 5.0 Consensus size: 43
41372 AAATGCTGTA
* * * * *
41382 AAACATCAACACCTACTGCGTCGTTTGTGA-GAAAAACGCCGCA
1 AAACATCAACACCTATTGCGGCATTT-TTATGAAAAACGCCGCT
* * * * *
41425 AAACATCAACACTTACTGCGGC-GTTTTAGAGAAAAACACCGCT
1 AAACATCAACACCTATTGCGGCATTTTTA-TGAAAAACGCCGCT
* * * *
41468 AAACATCATA-ACCTATTGCGGCATTTGTCTAAAAAATGCCGCT
1 AAACATCA-ACACCTATTGCGGCATTTTTATGAAAAACGCCGCT
* * * *
41511 AAATATCAACACATATTGCGGCGTTTTTATGACAAACGCCGCT
1 AAACATCAACACCTATTGCGGCATTTTTATGAAAAACGCCGCT
* * *
41554 AAATATCAACACCTATTGCGGCATTTTTCTGACAAACGCCG
1 AAACATCAACACCTATTGCGGCATTTTTATGAAAAACGCCG
41595 AACTTTAGCG
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 130 0.94
44 4 0.03
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACATCAACACCTATTGCGGCATTTTTATGAAAAACGCCGCT
Found at i:42324 original size:21 final size:21
Alignment explanation
Indices: 42295--42353 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
42285 ATGAATCGGA
*
42295 TGAACAGTATCAATACTGAT-
1 TGAATAGTATCAATACTGATG
* *
42315 TGAAGTAGTATCGATACTTATG
1 TGAA-TAGTATCAATACTGATG
*
42337 TGGAT-GTATCAATACTG
1 TGAATAGTATCAATACTG
42354 TAATTGAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 14 0.45
21 14 0.45
22 3 0.10
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
TGAATAGTATCAATACTGATG
Found at i:46835 original size:3 final size:3
Alignment explanation
Indices: 46827--46862 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46817 GTAAATATTT
46827 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46863 ATTTTTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49178 original size:24 final size:24
Alignment explanation
Indices: 49149--49205 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
49139 CACCTAAGTG
49149 CCACATAGAATTTGTCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
* *
49173 CTACATA-TATTTGTCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
49196 CCACATAGAA
1 CCACATAGAA
49206 CCCTTGACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (24 bp):
CCACATAGAATTTGTCCCGAAGGA
Found at i:58280 original size:16 final size:16
Alignment explanation
Indices: 58257--58353 Score: 149
Period size: 16 Copynumber: 6.1 Consensus size: 16
58247 TAATAAATAA
58257 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
58273 AAGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
58289 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
58305 AAGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
58321 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
58337 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
58353 A
1 A
58354 TAAACGTTGG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 72 1.00
ACGTcount: A:0.60, C:0.21, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:58293 original size:32 final size:32
Alignment explanation
Indices: 58257--58353 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
58247 TAATAAATAA
*
58257 ACGAACATAAACGAACAAGAACATAAACGAAC
1 ACGAACATAAATGAACAAGAACATAAACGAAC
58289 ACGAACATAAATGAACAAGAACATAAACGAAC
1 ACGAACATAAATGAACAAGAACATAAACGAAC
* *
58321 ACGAACATAAATGAACACGAACATAAACAAAC
1 ACGAACATAAATGAACAAGAACATAAACGAAC
58353 A
1 A
58354 TAAACGTTGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.60, C:0.21, G:0.11, T:0.08
Consensus pattern (32 bp):
ACGAACATAAATGAACAAGAACATAAACGAAC
Found at i:58616 original size:11 final size:11
Alignment explanation
Indices: 58580--58669 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
58570 AAAATTCATC
* *
58580 AGCTCGAATAA
1 AGCTCGATTGA
*
58591 AGCTCGACTCG-
1 AGCTCGA-TTGA
58602 AGCTCGATTGA
1 AGCTCGATTGA
*
58613 AGCTCAATTTTG-
1 AGCTCGA--TTGA
*
58625 AGCTCGATTCA
1 AGCTCGATTGA
*
58636 AGCTTGATATTG-
1 AGCTCG--ATTGA
*
58648 AGCTCGATTCA
1 AGCTCGATTGA
58659 AGCTCGATTGA
1 AGCTCGATTGA
58670 CCCAGTCCAG
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
10 7 0.12
11 35 0.59
12 11 0.19
13 6 0.10
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:58630 original size:23 final size:23
Alignment explanation
Indices: 58601--58663 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
58591 AGCTCGACTC
* *
58601 GAGCTCGATTGAAGCTCAATTTT
1 GAGCTCGATTCAAGCTCAATATT
**
58624 GAGCTCGATTCAAGCTTGATATT
1 GAGCTCGATTCAAGCTCAATATT
58647 GAGCTCGATTCAAGCTC
1 GAGCTCGATTCAAGCTC
58664 GATTGACCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCAATATT
Found at i:59908 original size:7 final size:7
Alignment explanation
Indices: 59896--60024 Score: 98
Period size: 7 Copynumber: 18.4 Consensus size: 7
59886 AATCAGATTA
59896 AGGGTTT
1 AGGGTTT
59903 AGGGTTT
1 AGGGTTT
59910 A-GGTGTT
1 AGGGT-TT
*
59917 ATGGTTT
1 AGGGTTT
*
59924 AGGTTTT
1 AGGGTTT
*
59931 AGGTTTT
1 AGGGTTT
*
59938 ATGGTTT
1 AGGGTTT
*
59945 ATGGTTT
1 AGGGTTT
*
59952 ATGGTTT
1 AGGGTTT
* *
59959 ATGTTTT
1 AGGGTTT
*
59966 ATGGTTT
1 AGGGTTT
*
59973 AGGATTT
1 AGGGTTT
*
59980 AGAGTTT
1 AGGGTTT
59987 AGGGTTT
1 AGGGTTT
**
59994 AGAATTT
1 AGGGTTT
*
60001 AGAGTTT
1 AGGGTTT
*
60008 AGGATTT
1 AGGGTTT
*
60015 AGGATTT
1 AGGGTTT
60022 AGG
1 AGG
60025 ATTTTTAATA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
6 3 0.03
7 98 0.94
8 3 0.03
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
AGGGTTT
Found at i:59924 original size:21 final size:20
Alignment explanation
Indices: 59898--60022 Score: 110
Period size: 21 Copynumber: 6.0 Consensus size: 20
59888 TCAGATTAAG
59898 GGTTTAGGGTTTAGGTGTTAT
1 GGTTTAGGGTTTAGGT-TTAT
*
59919 GGTTTAGGTTTTAGGTTTTAT
1 GGTTTAGGGTTTAGG-TTTAT
*
59940 GGTTTATGGTTTATGGTTTAT
1 GGTTTAGGGTTTA-GGTTTAT
* *
59961 GTTTTATGGTTTAGGATTTA-
1 GGTTTAGGGTTTAGG-TTTAT
*
59981 GAGTTTAGGGTTTAGAATTTA-
1 G-GTTTAGGGTTTAG-GTTTAT
*
60002 GAGTTTAGGATTTAGGATTTA
1 G-GTTTAGGGTTTAGG-TTTA
60023 GGATTTTTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.03
21 83 0.93
22 3 0.03
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (20 bp):
GGTTTAGGGTTTAGGTTTAT
Found at i:61056 original size:13 final size:13
Alignment explanation
Indices: 61040--61068 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61030 GTGTATATCG
61040 ATGTACATCATTA
1 ATGTACATCATTA
61053 ATGTACATCATTA
1 ATGTACATCATTA
61066 ATG
1 ATG
61069 GTGCATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (13 bp):
ATGTACATCATTA
Found at i:63129 original size:21 final size:21
Alignment explanation
Indices: 63090--63129 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63080 GTTAAGTATT
* **
63090 TAAAACATAATTACTATGTAA
1 TAAAAAATAATTAAAATGTAA
63111 TAAAAAATAATTAAAATGT
1 TAAAAAATAATTAAAATGT
63130 TACTTTCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAAAAATAATTAAAATGTAA
Found at i:63883 original size:2 final size:2
Alignment explanation
Indices: 63876--63915 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
63866 TTTACCATAC
63876 TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63915 T
1 T
63916 GAATAATACT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:64719 original size:15 final size:16
Alignment explanation
Indices: 64682--64732 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
64672 TAAAAGGGAA
* *
64682 AAATAAA-AAATAAAT
1 AAATAAATAGATAAAG
64697 AAATAAATAGATAAAG
1 AAATAAATAGATAAAG
64713 AAA-AAATAG-TAAAG
1 AAATAAATAGATAAAG
*
64727 TAATAA
1 AAATAA
64733 TATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 7 0.23
15 15 0.48
16 9 0.29
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (16 bp):
AAATAAATAGATAAAG
Found at i:65173 original size:12 final size:12
Alignment explanation
Indices: 65152--65190 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
65142 ATATATATAC
65152 ACATATAATAATA
1 ACATA-AATAATA
65165 ACATAAATAATA
1 ACATAAATAATA
*
65177 AAATAAATGAATA
1 ACATAAAT-AATA
65190 A
1 A
65191 TATCCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (12 bp):
ACATAAATAATA
Found at i:66465 original size:104 final size:103
Alignment explanation
Indices: 66169--67094 Score: 1280
Period size: 104 Copynumber: 9.0 Consensus size: 103
66159 GCATGTTCCA
* * ** *
66169 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGAAATTGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGG-ATTGGAAATTG-TTGTTGACAAGC
* * * * *
66234 ATCCGTCCCTTCGTTGTGAAG-TGAACTTGTGTTTGTCTCG
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG-TTGTCTGG
** *
66274 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCT-GAAT-GAAATT-TTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAAGCAG
66336 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
66374 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGGAAGTTGTTGTTGACAAACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATT-GGAAATTGTTGTTGACAAGCA
*
66439 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
66478 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAT-GAAATT-TTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAAGCAG
66540 CGGTCCC-TCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
66577 AGTCC-A-ATCCTTCG-TGTGAAGTTGAAATTGGCTCTAAGATTGGAAGTTGTTGTTGACAAGCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GGATTGGAAATTGTTGTTGACAAGCA
* *
66639 GCGGTCCCTCCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
66678 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAT-GAAATT-TTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAAGCAG
*
66740 CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66778 AGTCCAATATCCTTCGTTGTGAAG-TGAAATTGGCTCTGAGATTGGAAAGTTG-TGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATTGGAAA-TTGTTGTTGACAAGC
* *
66841 AGCGGCCCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
64 AGCGG-TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
66882 AGTCCAATATCCTTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTT-TTGTTGACAAC
1 AGTCCAATATCCTT-CGTTGTGAAGTTGAAATTGGCTCTG-GATT-GGAAATTGTTGTTGACAAG
66946 CAGCGGTCCC-TCGTCGTGAAGTTGAACTTGCGTTGTCTGG
63 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
66986 AGTCCAATATCCTTCGCTGTGAAG-TGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATTGG-AAATTG-TTGTTGACAAG
67050 CAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
63 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
67090 AGTCC
1 AGTCC
Statistics
Matches: 747, Mismatches: 47, Indels: 55
0.88 0.06 0.06
Matches are distributed among these distances:
96 21 0.03
97 8 0.01
98 4 0.01
99 52 0.07
100 184 0.25
101 60 0.08
102 36 0.05
103 46 0.06
104 249 0.33
105 47 0.06
106 36 0.05
107 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (103 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAATTGTTGTTGACAAGCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Done.