Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167995.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_251, 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: 42538
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Found at i:188 original size:41 final size:43
Alignment explanation
Indices: 143--231 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 43
133 AATCTATTCA
143 TATAAATAAT-TATATTAATATAACTTT-ATT-TA-AAGTATTAT
1 TATAAATAATCT-TATTAAT-TAACTTTGATTCTATAAGTATTAT
* * *
184 TATAATTAATCTTATTAATTATCTTTGATTCTATAATTATTAT
1 TATAAATAATCTTATTAATTAACTTTGATTCTATAAGTATTAT
227 TATAA
1 TATAA
232 TATTATTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 6 0.15
41 19 0.46
42 3 0.07
43 13 0.32
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (43 bp):
TATAAATAATCTTATTAATTAACTTTGATTCTATAAGTATTAT
Found at i:609 original size:32 final size:33
Alignment explanation
Indices: 551--612 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
541 ATATTTATAC
551 TAAATAAATAAATTATAATGTAATTTAATACTA
1 TAAATAAATAAATTATAATGTAATTTAATACTA
* * *
584 TAAATTAAT-AATTATTATGTTATTTAATA
1 TAAATAAATAAATTATAATGTAATTTAATA
613 ATTATTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (33 bp):
TAAATAAATAAATTATAATGTAATTTAATACTA
Found at i:681 original size:19 final size:19
Alignment explanation
Indices: 654--721 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
644 AGTTTTAAAT
*
654 TATTTTAATATAATTATTA
1 TATTATAATATAATTATTA
*
673 TATTATAATATTATT-TT-
1 TATTATAATATAATTATTA
690 T-TTATAATAT-ATTATTAA
1 TATTATAATATAATTATT-A
708 TATTATAATTATAA
1 TATTATAA-TATAA
722 ATTTATAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.07
16 11 0.27
17 1 0.02
18 3 0.07
19 19 0.46
20 3 0.07
21 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATAATATAATTATTA
Found at i:683 original size:8 final size:8
Alignment explanation
Indices: 666--785 Score: 54
Period size: 8 Copynumber: 14.8 Consensus size: 8
656 TTTTAATATA
*
666 ATTATTAT
1 ATTATAAT
674 ATTATAAT
1 ATTATAAT
**
682 ATTATTTT
1 ATTATAAT
*
690 TTTATAATAT
1 ATTAT-A-AT
700 ATTATTAAT
1 ATTA-TAAT
709 ATTAT-A-
1 ATTATAAT
715 ATTATAA-
1 ATTATAAT
722 ATTTATAAGT
1 A-TTATAA-T
*
732 A-AATAAT
1 ATTATAAT
739 ATTAATATAT
1 ATT-ATA-AT
749 AATTATAAT
1 -ATTATAAT
*
758 ATTA-ATT
1 ATTATAAT
*
765 GTTATAA-
1 ATTATAAT
*
772 ATTATAAA
1 ATTATAAT
780 ATTATA
1 ATTATA
786 TTAATATTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
6 5 0.06
7 16 0.19
8 39 0.45
9 11 0.13
10 11 0.13
11 4 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (8 bp):
ATTATAAT
Found at i:756 original size:19 final size:18
Alignment explanation
Indices: 692--763 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
682 ATTATTTTTT
*
692 TATAATATATTATTAATA
1 TATAATATAATATTAATA
*
710 TTATAATTATAA-ATTTATA
1 -TATAA-TATAATATTAATA
729 -AGTAA-ATAATATTAATA
1 TA-TAATATAATATTAATA
746 TATAATTATAATATTAAT
1 TATAA-TATAATATTAAT
764 TGTTATAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.09
17 10 0.23
18 4 0.09
19 22 0.50
20 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
TATAATATAATATTAATA
Found at i:797 original size:15 final size:15
Alignment explanation
Indices: 779--823 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
769 TAAATTATAA
779 AATTATATTAA-TATT
1 AATTA-ATTAAGTATT
794 AATTAATTAAGTATT
1 AATTAATTAAGTATT
*
809 AA-T-AGTAAGTATT
1 AATTAATTAAGTATT
822 AA
1 AA
824 ATAAATTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 11 0.39
14 6 0.21
15 11 0.39
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
AATTAATTAAGTATT
Found at i:1645 original size:13 final size:13
Alignment explanation
Indices: 1627--1655 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1617 TCTATTTTTG
1627 TTATTATAATTAA
1 TTATTATAATTAA
1640 TTATTATAATTAA
1 TTATTATAATTAA
1653 TTA
1 TTA
1656 ATTAATCAAT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTATAATTAA
Found at i:1671 original size:18 final size:18
Alignment explanation
Indices: 1633--1693 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
1623 TTTGTTATTA
* *
1633 TAATTAATTATTATA-AT
1 TAATTAATTAATAAATAT
*
1650 TAATTAATTAATCAATAT
1 TAATTAATTAATAAATAT
* * *
1668 TAATTAAATATTAAATGT
1 TAATTAATTAATAAATAT
1686 TAATTAAT
1 TAATTAAT
1694 ATAAATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 12 0.34
18 23 0.66
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TAATTAATTAATAAATAT
Found at i:3185 original size:71 final size:71
Alignment explanation
Indices: 3093--3241 Score: 262
Period size: 71 Copynumber: 2.1 Consensus size: 71
3083 CACTGACAGG
* *
3093 ATCGATCCCCTTATAGAAGGGATCAATCGGGTCGTGATTTTCAAAGGCAAATTGTTTCAAAACAT
1 ATCGATCCCCTCATAGAAGGGATCAATCGGGTCATGATTTTCAAAGGCAAATTGTTTCAAAACAT
3158 GAACCA
66 GAACCA
* *
3164 ATCGATCCCCTCATGGAAGGGATCGATCGGGTCATGATTTTCAAAGGCAAATTGTTTCAAAACAT
1 ATCGATCCCCTCATAGAAGGGATCAATCGGGTCATGATTTTCAAAGGCAAATTGTTTCAAAACAT
3229 GAACCA
66 GAACCA
3235 ATCGATC
1 ATCGATC
3242 TTCAAAGGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (71 bp):
ATCGATCCCCTCATAGAAGGGATCAATCGGGTCATGATTTTCAAAGGCAAATTGTTTCAAAACAT
GAACCA
Found at i:3257 original size:39 final size:39
Alignment explanation
Indices: 3203--3280 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
3193 GGTCATGATT
3203 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
1 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
3242 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
1 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
3281 CCCTCATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (39 bp):
TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
Found at i:3325 original size:110 final size:110
Alignment explanation
Indices: 3132--3351 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
3122 GGTCGTGATT
* *
3132 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATCCCCTCATGGAAGGGATCGATCGGGTC
1 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATCCCCTCATGGAAGGGATCGATCAGCTC
3197 ATGATTTTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
66 ATGATTTTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
*
3242 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATCCCCTCATGGAAGGGATCGATTAGCTC
1 TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATCCCCTCATGGAAGGGATCGATCAGCTC
3307 ATGATTTTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
66 ATGATTTTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
3352 CCCTCATGGA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (110 bp):
TTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATCCCCTCATGGAAGGGATCGATCAGCTC
ATGATTTTCAAAGGCAAATTGTTTCAAAACATGAACCAATCGATC
Found at i:4993 original size:11 final size:11
Alignment explanation
Indices: 4977--5006 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4967 CTATTTGCAC
4977 AATTATATCAT
1 AATTATATCAT
*
4988 AATTATATCGT
1 AATTATATCAT
4999 AATTATAT
1 AATTATAT
5007 TAGATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTATATCAT
Found at i:5347 original size:29 final size:28
Alignment explanation
Indices: 5296--5352 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
5286 TTAATATTAC
*
5296 TTAATTATATATTATTAAATAATTAATA
1 TTAATTATATATTAATAAATAATTAATA
*
5324 TTAATTATAATATTAATAATTAATTAATA
1 TTAATTAT-ATATTAATAAATAATTAATA
5353 ATACTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAATTATATATTAATAAATAATTAATA
Found at i:5355 original size:32 final size:32
Alignment explanation
Indices: 5262--5368 Score: 84
Period size: 33 Copynumber: 3.4 Consensus size: 32
5252 ATACTATATA
* *
5262 TTAATCATAAT-TTATATAATAATTTTAATATTAC
1 TTAATTATAATATTA-ATAATAA--TTAATAATAC
*
5296 TTAATTAT-ATATT-AT--TAAATAATTAATA-
1 TTAATTATAATATTAATAATAATTAA-TAATAC
5324 TTAATTATAATATTAATAATTAATTAATAATAC
1 TTAATTATAATATTAATAA-TAATTAATAATAC
*
5357 TTATTTA-AATAT
1 TTAATTATAATAT
5369 AAGTTATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
28 11 0.18
29 9 0.15
30 5 0.08
32 12 0.20
33 14 0.23
34 9 0.15
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TTAATTATAATATTAATAATAATTAATAATAC
Found at i:5409 original size:13 final size:14
Alignment explanation
Indices: 5391--5423 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5381 TTATAAAAAT
*
5391 ATATTTG-TTATTA
1 ATATTTGATTATAA
5404 ATATTTGATTATAA
1 ATATTTGATTATAA
5418 ATATTT
1 ATATTT
5424 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
ATATTTGATTATAA
Found at i:5445 original size:11 final size:11
Alignment explanation
Indices: 5425--5453 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5415 TAAATATTTA
5425 TAAT-AATTAT
1 TAATAAATTAT
5435 TAATAAATTAT
1 TAATAAATTAT
5446 TAATAAAT
1 TAATAAAT
5454 AATTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAAATTAT
Found at i:5858 original size:11 final size:11
Alignment explanation
Indices: 5842--5870 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5832 TATATAAATT
5842 ATTTATTAATA
1 ATTTATTAATA
5853 ATTTATTAATA
1 ATTTATTAATA
5864 A-TTATTA
1 ATTTATTA
5871 TAAATGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTATTAATA
Found at i:5995 original size:17 final size:19
Alignment explanation
Indices: 5963--6019 Score: 68
Period size: 17 Copynumber: 3.2 Consensus size: 19
5953 AATTATTTTA
*
5963 TATAAATTATACTATAATT
1 TATAAATTATATTATAATT
*
5982 TA-AAATTAT-TTATAA-A
1 TATAAATTATATTATAATT
5998 TATAAATTATATT-TAATT
1 TATAAATTATATTATAATT
6016 TATA
1 TATA
6020 TTATTATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.06
17 15 0.47
18 13 0.41
19 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TATAAATTATATTATAATT
Found at i:6005 original size:35 final size:31
Alignment explanation
Indices: 5947--6041 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 31
5937 TGTAGGATTT
*
5947 ATTTGAAATTATTTTATATAAATTATACTATA
1 ATTTAAAATTATTTTATATAAATTATA-TATA
*
5979 ATTTAAAATTATTTATAAATATAAATTATATTTA
1 ATTTAAAATTATTT-T--ATATAAATTATATATA
* *
6013 ATTT-ATATTA--TTATACAAATTATA-ATA
1 ATTTAAAATTATTTTATATAAATTATATATA
6040 AT
1 AT
6042 AATTGTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
27 4 0.07
28 11 0.20
30 1 0.02
31 1 0.02
32 13 0.24
33 6 0.11
34 7 0.13
35 12 0.22
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTAAAATTATTTTATATAAATTATATATA
Found at i:6150 original size:7 final size:7
Alignment explanation
Indices: 6103--6173 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
6093 TTAAAGTTAT
6103 TAATT-A
1 TAATTAA
*
6109 TAATTAT
1 TAATTAA
*
6116 TTATTAA
1 TAATTAA
6123 T-A-TAA
1 TAATTAA
6128 T-ATTAA
1 TAATTAA
6134 TTAATTAA
1 -TAATTAA
6142 TAATTAA
1 TAATTAA
*
6149 TAAGTAA
1 TAATTAA
* *
6156 TAAGTCA
1 TAATTAA
6163 TAATTAA
1 TAATTAA
6170 -AATT
1 TAATT
6174 TTATTATTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
5 5 0.09
6 13 0.24
7 31 0.57
8 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (7 bp):
TAATTAA
Found at i:6288 original size:17 final size:17
Alignment explanation
Indices: 6257--6302 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
6247 ATTATAAACT
*
6257 TAATTATACTATATAAA
1 TAATTATATTATATAAA
* *
6274 TAATTATATTTTATAAT
1 TAATTATATTATATAAA
6291 TAA-TATATTATA
1 TAATTATATTATA
6303 ATATATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTATATTATATAAA
Found at i:6376 original size:16 final size:16
Alignment explanation
Indices: 6341--6388 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6331 GTAGTAATAA
*
6341 TTATAATTTATAATTA-
1 TTATAATAT-TAATTAT
6357 TTATAATATTAATTAT
1 TTATAATATTAATTAT
* *
6373 TTATATTATAAATTAT
1 TTATAATATTAATTAT
6389 AATATAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATAATATTAATTAT
Found at i:6407 original size:28 final size:27
Alignment explanation
Indices: 6355--6426 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 27
6345 AATTTATAAT
*
6355 TATTATAATATTAATTATTTATATTATAA
1 TATTATAATA-TAATCATTTATATT-TAA
*
6384 -ATTATAATATAATCATTTTGTATTTAA
1 TATTATAATATAATCA-TTTATATTTAA
6411 TATTAATAATAATAAT
1 TATT-ATAAT-ATAAT
6427 AATGAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 8 0.22
28 19 0.51
29 5 0.14
30 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
TATTATAATATAATCATTTATATTTAA
Found at i:6619 original size:22 final size:22
Alignment explanation
Indices: 6569--6620 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
6559 GTCATAAATA
6569 AATAATAATTATTAAATTATTAT
1 AATAAT-ATTATTAAATTATTAT
*
6592 AATAATATTATTCAA-TATTAAT
1 AATAATATTATTAAATTATT-AT
*
6614 ATTAATA
1 AATAATA
6621 CATATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATAATATTATTAAATTATTAT
Found at i:7654 original size:19 final size:18
Alignment explanation
Indices: 7613--7694 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 18
7603 TTAATTTTAA
*
7613 ATAAATTATATATTAATT
1 ATAAATTATATATAAATT
7631 ATAAATATATATAATAAATT
1 ATAAAT-TATAT-ATAAATT
7651 -TAAATCT-TAT-TAATATT
1 ATAAAT-TATATATAA-ATT
7668 -TAAATTTTAATATATAATATT
1 ATAAA--TT-ATATATAA-ATT
7689 ATAAAT
1 ATAAAT
7695 AAATTATTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
16 3 0.06
17 7 0.13
18 10 0.19
19 12 0.23
20 10 0.19
21 7 0.13
22 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAATTATATATAAATT
Found at i:8068 original size:24 final size:24
Alignment explanation
Indices: 8041--8121 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
8031 TTGTAATATA
*
8041 AATATTTTTATATTAATAAATTAT
1 AATATTTATATATTAATAAATTAT
* *
8065 AATAATTATA-ATTTAAAATAATTAT
1 AATATTTATATA-TTAATA-AATTAT
8090 AAATATATTATATATT-ATAAATCTAAT
1 -AATAT-TTATATATTAATAAAT-T-AT
8117 AATAT
1 AATAT
8122 AATATAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 1 0.02
24 13 0.29
25 9 0.20
26 12 0.27
27 9 0.20
28 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (24 bp):
AATATTTATATATTAATAAATTAT
Found at i:8074 original size:22 final size:22
Alignment explanation
Indices: 8048--8119 Score: 56
Period size: 25 Copynumber: 3.0 Consensus size: 22
8038 ATAAATATTT
8048 TTATATTAATAAATTATAATAA
1 TTATATTAATAAATTATAATAA
*
8070 TTATAATTTAAAATAATTATAAATATA
1 TTAT-A-TTAATA-AATTAT-AATA-A
* *
8097 TTATATATTATAAA-TCTAATAA
1 TTATAT-TAATAAATTATAATAA
8119 T
1 T
8120 ATAATATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
22 6 0.15
23 5 0.12
24 7 0.17
25 9 0.22
26 8 0.20
27 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATATTAATAAATTATAATAA
Found at i:8899 original size:181 final size:180
Alignment explanation
Indices: 8499--8988 Score: 547
Period size: 181 Copynumber: 2.7 Consensus size: 180
8489 TATTAAATCT
* ** * * *
8499 CTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAACAAACTTATATGAACAA
1 CTTATTAATATTTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTGTATGAA-AA
* ** *
8564 AAATATTTGTTTTACAACAAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCATATAA
65 AAATAATTGTTTTATGAC-AAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAA
* * * *
8629 CCTTAACTATTTGAATTGGTTCAATAAACAAATTTATTTTTTAAATCTAGCA
129 CCATAAATATTTGAATTGGTTCAAAAAACAAATTTATTTTATAAATCTAGCA
* * * *
8681 GTTATTAA-ATTTCATAATATTACTATA-TAAGTATTATTTTATTTCAAATAAGCTTGTATGAAA
1 CTTATTAATATTT-AAAATATTAATAAATTAA-TATTATTTTATTTCAAATAAGCTTGTATGAAA
* * * * *
8744 ATAAATAATTATTTTATGACAAAACAAAAGGTTATAACGATTGGAAATATATAATTATTCAAATA
64 A-AAATAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATA
** * ***
8809 GTCATAAATATTTTGAA-TGTGTTCAAAAAACAAATTTATTTTATATAT-TTTTA
128 ACCATAAATA-TTTGAATTG-GTTCAAAAAACAAATTTATTTTATAAATCTAGCA
* * * * * *
8862 CTTATTAATCTTTGAAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGTATGAATAG
1 CTTATTAATATTTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTGTATGAA-AA
* *
8927 AAATAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAAT
65 AAATAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAAT
8989 CTCCTACTTA
Statistics
Matches: 255, Mismatches: 45, Indels: 17
0.80 0.14 0.05
Matches are distributed among these distances:
181 160 0.63
182 95 0.37
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.41
Consensus pattern (180 bp):
CTTATTAATATTTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTGTATGAAAAA
AATAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAACC
ATAAATATTTGAATTGGTTCAAAAAACAAATTTATTTTATAAATCTAGCA
Found at i:9195 original size:18 final size:19
Alignment explanation
Indices: 9172--9228 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 19
9162 TAATAGTTAA
9172 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
9190 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
9207 TAAATTATAATAATTAATAAGT
1 TAAATTA-AAT-A-TAATAAGT
9229 AAACGTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.21
17 9 0.27
18 6 0.18
20 2 0.06
21 1 0.03
22 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:9299 original size:32 final size:35
Alignment explanation
Indices: 9257--9349 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 35
9247 TATATTTAAT
*
9257 TTATTTAATTATATAATATTATATAAT-ATTAA-A
1 TTATTTAATTATATAATATTATATAATAATAAATA
* *
9290 -TATTTAATTAAATATTATTATA-ATATAATAAATA
1 TTATTTAATTATATAATATTATATA-ATAATAAATA
*
9324 TTATTTAATTATATAATAATAT-TAAT
1 TTATTTAATTATATAATATTATATAAT
9350 TTTATTAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.02
32 22 0.45
33 4 0.08
34 3 0.06
35 19 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
TTATTTAATTATATAATATTATATAATAATAAATA
Found at i:9314 original size:30 final size:29
Alignment explanation
Indices: 9271--9348 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
9261 TTAATTATAT
9271 AATATTA-TATAATATTAAATATTTAATTA
1 AATATTATTATAATATTAAATA-TTAATTA
*
9300 AATATTATTATAATATAATAAATATTATTTA
1 AATATTATTATAATAT--TAAATATTAATTA
* *
9331 ATTA-TATAATAATATTAA
1 AATATTATTATAATATTAA
9349 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.07
29 7 0.16
30 18 0.42
31 9 0.21
32 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AATATTATTATAATATTAAATATTAATTA
Found at i:10224 original size:19 final size:18
Alignment explanation
Indices: 10202--10260 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
10192 TATAATAATT
10202 TAATTATTATATTTAATAA
1 TAATTATTATATTTAA-AA
* *
10221 TAATTTTTAATGTTTAAAA
1 TAATTATT-ATATTTAAAA
*
10240 TAATTGTTATTAATTTAAAA
1 TAATTATTA-T-ATTTAAAA
10260 T
1 T
10261 GCTATTTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TAATTATTATATTTAAAA
Found at i:10256 original size:20 final size:20
Alignment explanation
Indices: 10205--10260 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
10195 AATAATTTAA
*
10205 TTATTATATTTAATAATAATTT
1 TTATTA-ATTTAA-AATAATTG
* *
10227 TTAAT-GTTTAAAATAATTG
1 TTATTAATTTAAAATAATTG
10246 TTATTAATTTAAAAT
1 TTATTAATTTAAAAT
10261 GCTATTTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 11 0.39
20 13 0.46
22 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TTATTAATTTAAAATAATTG
Found at i:10358 original size:14 final size:13
Alignment explanation
Indices: 10325--10389 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
10315 ATATTTAATC
*
10325 TATTAACAATTATT
1 TATTAATAATTA-T
10339 TATTAATAATTAT
1 TATTAATAATTAT
10352 TAGTTAATAAGTTAT
1 TA-TTAATAA-TTAT
* *
10367 AATAATACTAATTAT
1 --TATTAATAATTAT
10382 TA-TAATAA
1 TATTAATAA
10390 CTAATTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 18 0.42
15 8 0.19
16 5 0.12
17 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TATTAATAATTAT
Found at i:10381 original size:15 final size:16
Alignment explanation
Indices: 10363--10395 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10353 AGTTAATAAG
10363 TTATAATAAT-ACTAA
1 TTATAATAATAACTAA
*
10378 TTATTATAATAACTAA
1 TTATAATAATAACTAA
10394 TT
1 TT
10396 GAAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAATAATAACTAA
Found at i:10477 original size:27 final size:24
Alignment explanation
Indices: 10463--10515 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
10453 TCACGTTATT
10463 ATATTATAAATTATAATTCAATTA
1 ATATTATAAATTATAATTCAATTA
10487 ATATTATAAATTAGT-ATT-AATTA
1 ATATTATAAATTA-TAATTCAATTA
*
10510 TTATTA
1 ATATTA
10516 ATATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 16 0.59
25 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATTATAAATTATAATTCAATTA
Found at i:10514 original size:10 final size:10
Alignment explanation
Indices: 10483--10563 Score: 56
Period size: 10 Copynumber: 8.1 Consensus size: 10
10473 TTATAATTCA
10483 ATTAA-TATT
1 ATTAATTATT
* *
10492 ATAAATTAGT
1 ATTAATTATT
10502 ATTAATTATT
1 ATTAATTATT
*
10512 ATTAATATTTT
1 ATTAAT-TATT
* *
10523 AATAATTAAT
1 ATTAATTATT
*
10533 ATAAATTATT
1 ATTAATTATT
* *
10543 TTTACTTATT
1 ATTAATTATT
* *
10553 ACTAATAATT
1 ATTAATTATT
10563 A
1 A
10564 ATATATATTA
Statistics
Matches: 52, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
9 4 0.08
10 40 0.77
11 8 0.15
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (10 bp):
ATTAATTATT
Found at i:10530 original size:21 final size:22
Alignment explanation
Indices: 10504--10544 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10494 AAATTAGTAT
* *
10504 TAATTATTATTAA-TATTTTAA
1 TAATTAATATAAATTATTTTAA
10525 TAATTAATATAAATTATTTT
1 TAATTAATATAAATTATTTT
10545 TACTTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTAATATAAATTATTTTAA
Found at i:11793 original size:22 final size:21
Alignment explanation
Indices: 11768--11823 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 21
11758 TAGTAAAAAT
*
11768 TATTTTATAATCATATTATAAG
1 TATTTTATAAT-AAATTATAAG
*
11790 TATTAGTTAT-ATAAATTATAAT
1 TATT--TTATAATAAATTATAAG
11812 TATTTTAATAAT
1 TATTTT-ATAAT
11824 TACAACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 18 0.64
23 2 0.07
24 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
TATTTTATAATAAATTATAAG
Found at i:12078 original size:28 final size:28
Alignment explanation
Indices: 12019--12108 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
12009 AATCAAATTA
* * *
12019 TAATATTATGATTATGTTATAATTCATT-T
1 TAATAATATTATTAT-TTATAATT-GTTAT
12048 TAATAATATTATTATTTATAATTGTTAT
1 TAATAATATTATTATTTATAATTGTTAT
* * *
12076 TAATATATAATATTA-ATATAAATGTTAT
1 TAATA-ATATTATTATTTATAATTGTTAT
12104 TAATA
1 TAATA
12109 TAACTTAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 2 0.04
28 30 0.57
29 21 0.40
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (28 bp):
TAATAATATTATTATTTATAATTGTTAT
Found at i:12082 original size:15 final size:14
Alignment explanation
Indices: 12050--12111 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
12040 ATTCATTTTA
* *
12050 ATAATATTATTATTT
1 ATAATGTTATTA-AT
12065 ATAATTGTTATTAAT
1 ATAA-TGTTATTAAT
**
12080 AT-ATAATATTAAT
1 ATAATGTTATTAAT
12093 ATAAATGTTATTAAT
1 AT-AATGTTATTAAT
12108 ATAA
1 ATAA
12112 CTTAAATTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 10 0.26
14 3 0.08
15 18 0.47
16 7 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
ATAATGTTATTAAT
Found at i:12109 original size:28 final size:29
Alignment explanation
Indices: 12047--12110 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
12037 ATAATTCATT
* * *
12047 TTAATA-ATATTATTATTTATAATTGTTA
1 TTAATATATAATATTATATATAAATGTTA
12075 TTAATATATAATATTA-ATATAAATGTTA
1 TTAATATATAATATTATATATAAATGTTA
12103 TTAATATA
1 TTAATATA
12111 ACTTAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
TTAATATATAATATTATATATAAATGTTA
Found at i:12841 original size:24 final size:23
Alignment explanation
Indices: 12804--12874 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
12794 TCATTTTATA
*
12804 AATTTAATTAATAATA-AATAATT
1 AATTT-ATAAATAATAGAATAATT
*
12827 AATTTATTATTATAATAGAAT-ATT
1 AATTTA-TA-AATAATAGAATAATT
*
12851 AATTTATAAATAATATAATAATT
1 AATTTATAAATAATAGAATAATT
12874 A
1 A
12875 TTAATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 15 0.38
25 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
AATTTATAAATAATAGAATAATT
Found at i:12885 original size:22 final size:22
Alignment explanation
Indices: 12807--12886 Score: 74
Period size: 22 Copynumber: 3.5 Consensus size: 22
12797 TTTTATAAAT
12807 TTAATTAATAATAAATAATTAA
1 TTAATTAATAATAAATAATTAA
*
12829 TTTATTATTATAATAGAAT-ATTAA
1 TTAATTA--ATAATA-AATAATTAA
* *
12853 TTTATAAATAATATAATAATT-A
1 TTAATTAATAATA-AATAATTAA
*
12875 TTAATTTATAAT
1 TTAATTAATAAT
12887 TTAACATTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 25 0.52
23 3 0.06
24 17 0.35
25 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (22 bp):
TTAATTAATAATAAATAATTAA
Found at i:13095 original size:23 final size:24
Alignment explanation
Indices: 13064--13118 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
13054 TTATTAATAA
* *
13064 TTAATATTAATTGTTAATTTA-AAT
1 TTAA-ATTAATTATTAAGTTATAAT
13088 TTAAATTAATTATTAAGTTATAAT
1 TTAAATTAATTATTAAGTTATAAT
13112 TATAAAT
1 T-TAAAT
13119 AACTTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 14 0.52
24 8 0.30
25 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TTAAATTAATTATTAAGTTATAAT
Found at i:13230 original size:25 final size:28
Alignment explanation
Indices: 13198--13256 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
13188 AAGTTTATTA
13198 ATTTATAATAA-A-TAT-AATTATTAAT
1 ATTTATAATAATATTATAAATTATTAAT
*
13223 ATTTATAATAATATTATAAATTATTTAT
1 ATTTATAATAATATTATAAATTATTAAT
*
13251 AATTAT
1 ATTTAT
13257 TATCCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.38
26 1 0.03
27 3 0.10
28 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTATAATAATATTATAAATTATTAAT
Found at i:13326 original size:24 final size:24
Alignment explanation
Indices: 13299--13447 Score: 82
Period size: 24 Copynumber: 6.2 Consensus size: 24
13289 TATACTATTA
13299 ATAATATTTAATTATAAATAATTT
1 ATAATATTTAATTATAAATAATTT
13323 ATAATA-TT-ATTATAAATTATATTT
1 ATAATATTTAATTATAAA-TA-ATTT
* * * *
13347 AT-TTAATTAATTTATTAATAATTA
1 ATAATATTTAA-TTATAAATAATTT
* *
13371 ATTAATTATTTATGTTATATATAATTT
1 A-TAA-TATTTA-ATTATAAATAATTT
* *
13398 A-AAAATTATAAATTAT-TATAA--T
1 ATAATATT-T-AATTATAAATAATTT
*
13420 ATAATAATT-ATTA-AAATAATTT
1 ATAATATTTAATTATAAATAATTT
13442 ATAATA
1 ATAATA
13448 AATTCTTTAT
Statistics
Matches: 96, Mismatches: 14, Indels: 32
0.68 0.10 0.23
Matches are distributed among these distances:
20 8 0.08
22 18 0.19
23 10 0.10
24 26 0.27
25 11 0.11
26 7 0.07
27 16 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
ATAATATTTAATTATAAATAATTT
Found at i:13370 original size:15 final size:14
Alignment explanation
Indices: 13324--13379 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
13314 AAATAATTTA
13324 TAATATTATTATAAAT
1 TAAT-TTATTAT-AAT
13340 TATATTTATT-TAAT
1 TA-ATTTATTATAAT
13354 TAATTTATTAATAAT
1 TAATTTATT-ATAAT
*
13369 TAATTAATTAT
1 TAATTTATTAT
13380 TTATGTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 7 0.19
14 7 0.19
15 13 0.36
16 7 0.19
17 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTTATTATAAT
Found at i:13395 original size:23 final size:23
Alignment explanation
Indices: 13339--13396 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
13329 TTATTATAAA
* *
13339 TTATATTTATTTAATTAATTTAT
1 TTATATATAATTAATTAATTTAT
*
13362 TAATA-ATTAATTAATT-ATTTAT
1 TTATATA-TAATTAATTAATTTAT
13384 GTTATATATAATT
1 -TTATATATAATT
13397 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
22 6 0.21
23 21 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATATATAATTAATTAATTTAT
Found at i:13432 original size:27 final size:27
Alignment explanation
Indices: 13321--13447 Score: 70
Period size: 27 Copynumber: 4.7 Consensus size: 27
13311 TATAAATAAT
* *
13321 TTATAATATTATTATAA-ATTATATTTA
1 TTATAA-ATTATTATAATATAATAATTA
*
13348 TTTAATTAATTTATTAATAAT-TAATTAATTA
1 -TT-A-TAAATTATT-ATAATATAA-TAATTA
** *
13379 TT-TATGTTATATATAATTTAA-AA--A
1 TTATAAATTAT-TATAATATAATAATTA
13403 TTATAAATTATTATAATATAATAATTA
1 TTATAAATTATTATAATATAATAATTA
*
13430 TTA-AAATAATTTATAATA
1 TTATAAATTA-TTATAATA
13448 AATTCTTTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 25
0.70 0.08 0.22
Matches are distributed among these distances:
24 12 0.15
25 8 0.10
26 7 0.09
27 23 0.29
28 6 0.08
29 6 0.08
30 11 0.14
31 5 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TTATAAATTATTATAATATAATAATTA
Found at i:14208 original size:157 final size:157
Alignment explanation
Indices: 13980--14264 Score: 385
Period size: 157 Copynumber: 1.8 Consensus size: 157
13970 TATTATTAGT
* * * * * * *
13980 AATAATAATTTTATGACAAAAGAAAATGTCATAATGATTTTAAATAGACAATTGTTCAGATAGTC
1 AATAATAATTTTATGACAAAAAAAAAGGTCAAAACGATTTTAAATAAACAATTGATCAAATAGTC
* *
14045 ATAACTATCTAAATTTGTTTGATAAACAAATTTATTTTTT-AAACTCCTACTTATTAATTTTTTT
66 ATAACTATCTAAACTTGTTTGATAAACAAATTTATTTTTTCAAACTACTACTTATTAATTTTTTT
14109 TATTTTGGATAAGCTTTTATGAATTGA
131 TATTTTGGATAAGCTTTTATGAATTGA
* * *
14136 AATAATTATTTTATGTCAAAACAAAAAGGTCAAAACGATTTTATAA-AAATAATTGATCAAATAG
1 AATAATAATTTTATGACAAAA-AAAAAGGTCAAAACGATTTTA-AATAAACAATTGATCAAATAG
* * * * *
14200 TCATAACTATTTAAACTTGTTTGGTAAACAAATTTATTTTTTCAAATTATTGCTTATTAATTTTT
64 TCATAACTATCTAAACTTGTTTGATAAACAAATTTATTTTTTCAAACTACTACTTATTAATTTTT
14265 CAAATGTTCA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
156 19 0.17
157 70 0.64
158 20 0.18
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (157 bp):
AATAATAATTTTATGACAAAAAAAAAGGTCAAAACGATTTTAAATAAACAATTGATCAAATAGTC
ATAACTATCTAAACTTGTTTGATAAACAAATTTATTTTTTCAAACTACTACTTATTAATTTTTTT
TATTTTGGATAAGCTTTTATGAATTGA
Found at i:15166 original size:18 final size:18
Alignment explanation
Indices: 15145--15189 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
15135 TGTATAAATA
*
15145 TTAATTTATTTATACAAC
1 TTAATTTATTAATACAAC
* * *
15163 TTAATTAATTAATACTAT
1 TTAATTTATTAATACAAC
15181 TTAATTTAT
1 TTAATTTAT
15190 AAAATCAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTATTAATACAAC
Found at i:15530 original size:24 final size:23
Alignment explanation
Indices: 15502--15568 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
15492 TCTTAATTAT
15502 TTATCAATAAATTTAATTTTTGAA
1 TTATCAATAAATTTAATTTTT-AA
15526 TTATCAAATAAATATT-ATTTTTAA
1 TTATC-AATAAAT-TTAATTTTTAA
* *
15550 TT-TGAAATAAATATAATTT
1 TTAT-CAATAAATTTAATTT
15569 AATATTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 1 0.03
23 12 0.32
24 9 0.24
25 13 0.35
26 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
TTATCAATAAATTTAATTTTTAA
Found at i:15575 original size:23 final size:22
Alignment explanation
Indices: 15507--15583 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
15497 ATTATTTATC
* *
15507 AATAAATTTAATTTTTGAATTATCA
1 AATAAATATAATTTAT-AATT-T-A
* *
15532 AATAAATATTATTTTTAATTTGA
1 AATAAATATAATTTATAATTT-A
15555 AATAAATATAATTTA-ATATTTA
1 AATAAATATAATTTATA-ATTTA
*
15577 AAGAAAT
1 AATAAAT
15584 TATTATATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.18
23 19 0.42
24 4 0.09
25 14 0.31
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (22 bp):
AATAAATATAATTTATAATTTA
Found at i:15769 original size:14 final size:15
Alignment explanation
Indices: 15697--15770 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 15
15687 TATTCTATTC
15697 TGATTTAAT-ATTAT
1 TGATTTAATAATTAT
*
15711 TGATATAACTTAATATAT
1 TGATTTAA--TAAT-TAT
15729 T-ATTTAATTAATTAT
1 TGATTTAA-TAATTAT
*
15744 T-ATTAAATAATTAT
1 TGATTTAATAATTAT
15758 TGATTTAA-AATTA
1 TGATTTAATAATTA
15771 AATCAAACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
14 20 0.39
15 14 0.27
16 6 0.12
17 7 0.14
18 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (15 bp):
TGATTTAATAATTAT
Found at i:15861 original size:22 final size:23
Alignment explanation
Indices: 15826--15869 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
15816 ATATAATTCT
15826 ATTTATATAAATTTAAT-TTAAA
1 ATTTATATAAATTTAATATTAAA
15848 ATTTA-ATAATATTTAATATTAA
1 ATTTATATAA-ATTTAATATTAA
15870 TAATAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATATAAATTTAATATTAAA
Found at i:16449 original size:22 final size:21
Alignment explanation
Indices: 16413--16462 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
16403 TACATTTACT
*
16413 AATTAATAATGTTAATTAATA
1 AATTAATAATATTAATTAATA
16434 AATTAACTAATATTAATTAATA
1 AATTAA-TAATATTAATTAATA
*
16456 AAATAAT
1 AATTAAT
16463 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTAATAATATTAATTAATA
Found at i:16717 original size:21 final size:21
Alignment explanation
Indices: 16685--16730 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
16675 TGATCTATTG
*
16685 AATAATATATATTATTTATAATTA
1 AATAA-ATATAATA-TT-TAATTA
16709 AATAAATATAATATTTAATTA
1 AATAAATATAATATTTAATTA
16730 A
1 A
16731 CAATTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 7 0.33
24 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAATATAATATTTAATTA
Found at i:17265 original size:40 final size:42
Alignment explanation
Indices: 17210--17311 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 42
17200 ATAAATTAAT
17210 TATAAT-TATATTAATAATTCAAATAATATAATAATAA-AT-A
1 TATAATATA-ATTAATAATTCAAATAATATAATAATAACATAA
* * * ** *
17250 TATAATATAATTAATACTACAAATATTATTCTAATAACCTAA
1 TATAATATAATTAATAATTCAAATAATATAATAATAACATAA
*
17292 TATAATTATAAATAATAATT
1 TATAA-TATAATTAATAATT
17312 TATTTATATT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 29 0.59
41 3 0.06
42 6 0.12
43 11 0.22
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (42 bp):
TATAATATAATTAATAATTCAAATAATATAATAATAACATAA
Found at i:17338 original size:28 final size:28
Alignment explanation
Indices: 17294--17349 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
17284 TAACCTAATA
17294 TAATTATAAATAATAATT-TATTTATAT
1 TAATTATAAATAATAATTATATTTATAT
17321 TAATTATAAAATAATAATTAATATTTATA
1 TAATTAT-AAATAATAATT-ATATTTATA
17350 ATATAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.27
28 11 0.42
30 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATTATAAATAATAATTATATTTATAT
Found at i:17734 original size:21 final size:21
Alignment explanation
Indices: 17710--17766 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
17700 TATATATATG
*
17710 TTAATTATATATATTAATAAA
1 TTAATTATATATAATAATAAA
** *
17731 TTAAAAATATTTAATAATAAA
1 TTAATTATATATAATAATAAA
17752 TTATATTA-ATATAAT
1 TTA-ATTATATATAAT
17767 GATATTAAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATTATATATAATAATAAA
Found at i:17973 original size:35 final size:33
Alignment explanation
Indices: 17925--18010 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 33
17915 TAGTTACAAC
*
17925 TAATTATA-AATAATTATTAATAATAACTATA-AA
1 TAATTATATTATAATTATTAAT-A-AACTATATAA
*
17958 TTAATTATATTATAATAATTAATAAACTATATAA
1 -TAATTATATTATAATTATTAATAAACTATATAA
*
17992 TAATT-TATTATTA-TATTAA
1 TAATTATATTATAATTATTAA
18011 AAAAATCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 5 0.11
32 7 0.15
33 12 0.26
34 11 0.24
35 11 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (33 bp):
TAATTATATTATAATTATTAATAAACTATATAA
Found at i:18593 original size:29 final size:27
Alignment explanation
Indices: 18531--18595 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
18521 CCAATATTTG
*
18531 AAAAT-ATTAATAACAATTATCTAAAT
1 AAAATAATTAATAACAATTATCAAAAT
18557 AATGAATAATTAATTAACAATTATTCAAAAT
1 AA--AATAATTAA-TAACAATTA-TCAAAAT
18588 AAAATAAT
1 AAAATAAT
18596 ACTAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 2 0.06
28 3 0.09
29 11 0.33
30 9 0.27
31 8 0.24
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAATAATTAATAACAATTATCAAAAT
Found at i:18602 original size:31 final size:30
Alignment explanation
Indices: 18533--18602 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
18523 AATATTTGAA
*
18533 AATATTAA-TAACAATTATCTAAATAATGAAT
1 AATA-TAATTAACAATTATCAAAATAA-GAAT
18564 AAT-TAATTAACAATTATTCAAAATAA-AAT
1 AATATAATTAACAATTA-TCAAAATAAGAAT
18593 AATACTAATT
1 AATA-TAATT
18603 TATTAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 9 0.26
30 9 0.26
31 16 0.47
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (30 bp):
AATATAATTAACAATTATCAAAATAAGAAT
Found at i:19113 original size:22 final size:23
Alignment explanation
Indices: 19098--19142 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
19088 TTATTTATTC
19098 ATTAATAAATAATTATTAATATA
1 ATTAATAAATAATTATTAATATA
* *
19121 ATTAAT-ATTAATTATTATTATA
1 ATTAATAAATAATTATTAATATA
19143 TCTGTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTAATAAATAATTATTAATATA
Found at i:19171 original size:21 final size:21
Alignment explanation
Indices: 19066--19172 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
19056 TATTTTTGTA
19066 ATATTAATT-TTAA-ATAA-T
1 ATATTAATTATTAATATAATT
* *
19084 ATATTTATTTATTCAT-TAA-T
1 ATA-TTAATTATTAATATAATT
*
19104 A-AATAATTATTAATATAATT
1 ATATTAATTATTAATATAATT
*
19124 AATATTAATTATTATTAT-ATCT
1 -ATATTAATTATTAATATAAT-T
* *
19146 GTATTAATTATTAAAATAATT
1 ATATTAATTATTAATATAATT
19167 ATATTA
1 ATATTA
19173 TAGATTATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
18 12 0.17
19 9 0.13
20 9 0.13
21 23 0.33
22 16 0.23
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (21 bp):
ATATTAATTATTAATATAATT
Found at i:20324 original size:178 final size:177
Alignment explanation
Indices: 20113--20434 Score: 392
Period size: 178 Copynumber: 1.8 Consensus size: 177
20103 AAAATTTTTT
* * * *
20113 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTATTTTAATCCAAATAAGCTTGTATAAATA
1 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTACTTTAATCCAAATAAACTTATATAAACA
* * * * *
20178 GAAACAATTGTTTTATAATAGAACAAAAAGTCATAACAATTTGAAATAAATAATTACTCAAATAG
66 AAAACAATTGTTTTATAACAAAACAAAAAATAATAACAATTTGAAATAAATAATTACTCAAATA-
*
20243 TTATAACTTTTTGAACTAGTTTCATACATAGATTTTATTTTTTAAATC
130 CTATAACTTTTTGAACTAGTTTCATACATAGATTTTATTTTTTAAATC
* ** * * * ** *
20291 ACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTATTCTGAATAAACTTATATGAACA
1 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTACTTTAATCCAAATAAACTTATATAAACA
* * ** * **
20356 AAAACATTTGTTTTATGACAAAACAAAAAATAATAATGATTTGAAATATATAATTGTTCAAATAC
66 AAAACAATTGTTTTATAACAAAACAAAAAATAATAACAATTTGAAATAAATAATTACTCAAATAC
*
20421 TATAATTTTTTGAA
131 TATAACTTTTTGAA
20435 TTGGTTAGGT
Statistics
Matches: 117, Mismatches: 27, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
177 13 0.11
178 104 0.89
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (177 bp):
ACTTATTAATTGTCAAAATATTAACAAATTAGTATTACTTTAATCCAAATAAACTTATATAAACA
AAAACAATTGTTTTATAACAAAACAAAAAATAATAACAATTTGAAATAAATAATTACTCAAATAC
TATAACTTTTTGAACTAGTTTCATACATAGATTTTATTTTTTAAATC
Found at i:22187 original size:179 final size:178
Alignment explanation
Indices: 21224--22206 Score: 736
Period size: 179 Copynumber: 5.5 Consensus size: 178
21214 AATATTCTAA
* * * ** * * **
21224 AAATTAATAACTAAGAGATTTAAAAAATAAAAT-TGTTTGCCGAACTAGTTCAAATAGTTAAAAC
1 AAATTAATAAGTAAAAGATTT-AAAAAT-AAATCTGTTTACTAAACAAGTTCAAATAATTATGAC
* * * ** * * * * * *
21288 TATATGAATAATTATCTATTTCAAATTATTATAACCATTTGTTTTGTCGTGAAACAATATTTTCA
64 TATTTGAACAATTATTTATTTCAAATCGTTATGACC-TTTGTTCTGTCATAAAATAAT-TTTTTA
* * * *
21353 -ATTCATACTAGCTTATTTAGAATAAAATAAAATAAATTTATTAA-ATTTCAA-
127 TGTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATA-TT-AAG
* * * *
21404 AAATTAATAAGTAAGAGAATTAAAAATAATTCTGTTTACCT-AACAA-TTCAAATAATAATGACT
1 AAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTA-CTAAACAAGTTCAAATAATTATGACT
* * *
21467 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTT-TGTCATAAAACTAATGTTTT-T
65 ATTTGAACAATTATTTATTTCAAATCGTTATGACC-TTTGTTCTGTCATAAAA-TAATTTTTTAT
* * * * * *
21530 GTTCATATAAGTTTGTTTAAAATAAAATAATACTAATATATTAATATTTCAA-
128 GTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATA-TT-AAG
* ** *
21582 AAATTAAT-A--AAAA-TTTTAAAAAATAAATCTGTTTA-TCAAACTGGTTC--A-AATTAAGAC
1 AAATTAATAAGTAAAAGATTT-AAAAATAAATCTGTTTACT-AAACAAGTTCAAATAATTATGAC
* * * * *
21639 TATTT-AAGCAATTATTTATTTCAAATCATTATGACTTTTTGTTCTGTTATAAGATAATAGTTTC
64 TATTTGAA-CAATTATTTATTTCAAATCGTTATGAC-CTTTGTTCTGTCATAAAATAAT--TTTT
* ** * **
21703 TAT-TT-ATTCAAGCTTATTCGGATTAAAATAATACAAATTTATTAATATTTTG
125 TATGTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATATTAAG
* * * * * * * *
21755 ACAATTAATAAGTAAAAAATGTAAAAAATTAAATATGTTTACTAAACTAGATCAAACAGTCATGA
1 A-AATTAATAAGTAAAAGAT-TTAAAAA-TAAATCTGTTTACTAAACAAGTTCAAATAATTATGA
* * * * *
21820 CTATTTGAATAGTTATCTATTTCAAATCGTTATGACCTTTTCTTCTAGTCATAAAAAAATTATTT
63 CTATTTGAACAATTATTTATTTCAAATCGTTATGACC-TTTGTTCT-GTCATAAAATAATT-TTT
* * * * ** * **
21885 CA-ATTCATATAAGCTTA-TTCGAAATAAAATAATATTAAGTTATTAATATTTTG
125 TATGTTCATACAAGCTTATTTAG-AATAAAATAATACAAATTTATTAATATTAAG
* * * * * * *
21938 AAAATTAATAATTAAGAGATTTAAAAATGAATCTGTTTACTGAACAAGTTTAAATAATTATAATT
1 -AAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTACTAAACAAGTTCAAATAATTATGACT
** * * *
22003 ATTTGAACAATTATTTATTGGAAATCGCTATAAACCTTTGCTT-TGTCATAAAATGATTTTTTAT
65 ATTTGAACAATTATTTATTTCAAATCGTTAT-GACCTTTG-TTCTGTCATAAAATAATTTTTTAT
*
22067 GTTCATACAAGCTTATTTTGAATAAAATAATACAAATTTATTAA-ATTAAG
128 GTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATATTAAG
**
22117 ACAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTACTAAACAAGTTCAAATCGTTATGACT
1 A-AATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTACTAAACAAGTTCAAATAATTATGACT
*
22182 ATTTGAATAATTATTTATTTCAAAT
65 ATTTGAACAATTATTTATTTCAAAT
22207 TATTATGAAT
Statistics
Matches: 632, Mismatches: 131, Indels: 81
0.75 0.16 0.10
Matches are distributed among these distances:
172 2 0.00
173 50 0.08
174 50 0.08
175 28 0.04
176 4 0.01
177 50 0.08
178 78 0.12
179 119 0.19
180 67 0.11
181 61 0.10
182 59 0.09
183 63 0.10
184 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (178 bp):
AAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTACTAAACAAGTTCAAATAATTATGACTA
TTTGAACAATTATTTATTTCAAATCGTTATGACCTTTGTTCTGTCATAAAATAATTTTTTATGTT
CATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATATTAAG
Found at i:22234 original size:154 final size:157
Alignment explanation
Indices: 22061--22362 Score: 441
Period size: 156 Copynumber: 1.9 Consensus size: 157
22051 TAAAATGATT
*
22061 TTTTATGTTCATACAAGCTTATTTTG-AATAAAATAATACAAATTTATTAA-ATTAAGACAATTA
1 TTTTATGTTCATACAAGCTTA-TTCGAAATAAAATAATACAAATTTATTAATATTAAGACAATTA
* * * *
22124 ATAAGTAAAAGATTT-AAAAATAAATCTGTTTACTAAACAAGTTCAAATCGTTATGACTATTTGA
65 ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTCATGACTATTTGA
* *
22188 ATAATTATTTATTTCAAATTATTATGAA
130 ATAATAATCTATTTCAAATTATTATGAA
* ** ** *
22216 TTTT-TGTTCATACTAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCGACAATTTA
1 TTTTATGTTCATACAAGCTTATTCGAAATAAAATAATACAAATTTATTAATATTAAGACAATTAA
*
22280 TAAGTAAAAGATTTAAAAAATAAATATGTTTGCCAAACAAGTTCAAATAGTCATGACTATTTGAA
66 TAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTCATGACTATTTGAA
22345 TAATAATCTATTTCAAAT
131 TAATAATCTATTTCAAAT
22363 CATTGTGAGC
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
153 3 0.02
154 37 0.28
155 29 0.22
156 61 0.47
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.40
Consensus pattern (157 bp):
TTTTATGTTCATACAAGCTTATTCGAAATAAAATAATACAAATTTATTAATATTAAGACAATTAA
TAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTCATGACTATTTGAA
TAATAATCTATTTCAAATTATTATGAA
Found at i:22869 original size:25 final size:24
Alignment explanation
Indices: 22825--22884 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
22815 TATCAATGAT
*
22825 ATATAAATTCAATTAAAATTATCAA
1 ATATTAATT-AATTAAAATTATCAA
* *
22850 ATATTCATTAATTAATAATTATTAA
1 ATATTAATTAATTAA-AATTATCAA
22875 ATATTAATTA
1 ATATTAATTA
22885 TTCATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTAATTAATTAAAATTATCAA
Found at i:22882 original size:17 final size:18
Alignment explanation
Indices: 22858--22917 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
22848 AAATATTCAT
22858 TAATTAATAATTATTAAA
1 TAATTAATAATTATTAAA
*
22876 T-ATTAATTATTCATTAAA
1 TAATTAATAATT-ATTAAA
* *
22894 TAATAAATGA-TATTAAA
1 TAATTAATAATTATTAAA
22911 TAATTAA
1 TAATTAA
22918 AATATATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 21 0.58
18 9 0.25
19 6 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATTAATAATTATTAAA
Found at i:22888 original size:32 final size:35
Alignment explanation
Indices: 22851--22917 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 35
22841 AATTATCAAA
*
22851 TATTCATTAATTAAT-AAT-TATTAAAT-ATTAAT
1 TATTCATTAAATAATAAATATATTAAATAATTAAT
22883 TATTCATTAAATAATAAATGATATTAAATAATTAA
1 TATTCATTAAATAATAAAT-ATATTAAATAATTAA
22918 AATATATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 14 0.47
33 3 0.10
35 8 0.27
36 5 0.17
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (35 bp):
TATTCATTAAATAATAAATATATTAAATAATTAAT
Found at i:22924 original size:18 final size:17
Alignment explanation
Indices: 22869--22941 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
22859 AATTAATAAT
*
22869 TATTAAAT-ATTAATTA
1 TATTAAATAATTAAATA
22885 TTCATTAAATAA-TAAATGA
1 -T-ATTAAATAATTAAAT-A
22904 TATTAAATAATTAAA-A
1 TATTAAATAATTAAATA
* *
22920 TA-TATAATAACTATATA
1 TATTA-AATAATTAAATA
22937 TATTA
1 TATTA
22942 TATAGTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.04
16 11 0.24
17 13 0.28
18 18 0.39
19 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
TATTAAATAATTAAATA
Found at i:22997 original size:12 final size:12
Alignment explanation
Indices: 22931--22999 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
22921 ATATAATAAC
22931 TATA-TATATTA
1 TATATTATATTA
*
22942 TATAGT-TATTA
1 TATATTATATTA
22953 -ATATTCATATTA
1 TATATT-ATATTA
22965 -ATA--AT-TTA
1 TATATTATATTA
22973 TATATTA-ATTTA
1 TATATTATA-TTA
22985 TATATTATATTA
1 TATATTATATTA
22997 TAT
1 TAT
23000 TGAATACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 17
0.73 0.02 0.26
Matches are distributed among these distances:
8 3 0.06
9 5 0.10
10 4 0.08
11 10 0.21
12 25 0.52
13 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (12 bp):
TATATTATATTA
Found at i:23358 original size:28 final size:31
Alignment explanation
Indices: 23285--23358 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 31
23275 CAATCCAATT
*
23285 TAATATTAAATTATTAATTTATGATAATTAGTA
1 TAATATTAAA-TATTAATTCAT-ATAATTAGTA
*
23318 TAATA-TATTATATTAA-TCAT-TAA-TAGTA
1 TAATATTA-AATATTAATTCATATAATTAGTA
23346 TAATATTAAATAT
1 TAATATTAAATAT
23359 ATTATTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
28 14 0.39
29 5 0.14
31 3 0.08
32 8 0.22
33 6 0.17
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (31 bp):
TAATATTAAATATTAATTCATATAATTAGTA
Found at i:23679 original size:17 final size:18
Alignment explanation
Indices: 23639--23679 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
23629 AATATATGAT
*
23639 TATAATTTTATTATAATA
1 TATAATTTTATCATAATA
23657 -ATTAATTTT-TCATAATA
1 TA-TAATTTTATCATAATA
23674 TATAAT
1 TATAAT
23680 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTTTATCATAATA
Found at i:24307 original size:15 final size:18
Alignment explanation
Indices: 24258--24302 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
24248 AAATATCATA
*
24258 ATATATATTATTAGAATATT
1 ATATA-ATTATT-TAATATT
24278 ATATAATTATTTAATATT
1 ATATAATTATTTAATATT
24296 AT-TAATT
1 ATATAATT
24303 TTAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 6 0.25
20 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATATAATTATTTAATATT
Found at i:24575 original size:14 final size:15
Alignment explanation
Indices: 24558--24591 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
24548 AATATTTATT
24558 TATAAATAA-TAATA
1 TATAAATAACTAATA
*
24572 TATAAATAACTATTA
1 TATAAATAACTAATA
24587 TATAA
1 TATAA
24592 GTTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATAACTAATA
Found at i:24618 original size:32 final size:33
Alignment explanation
Indices: 24582--24660 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
24572 TATAAATAAC
*
24582 TATTATATAAGTTATTATTTTA-ATAATAGTTA
1 TATTATATAAGTTATTATTTTATAAAATAGTTA
* *
24614 TATTAGATAA-CTATTATTTTATAAAATAGTTA
1 TATTATATAAGTTATTATTTTATAAAATAGTTA
24646 -ATTTATATTAAGTTA
1 TA-TTATA-TAAGTTA
24661 ATTTAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 11 0.29
32 22 0.58
33 3 0.08
34 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (33 bp):
TATTATATAAGTTATTATTTTATAAAATAGTTA
Found at i:25112 original size:30 final size:28
Alignment explanation
Indices: 25077--25191 Score: 83
Period size: 30 Copynumber: 3.9 Consensus size: 28
25067 CTAAGTAATA
25077 ATTATTTAATTATATATAATTAAATAA-ACT
1 ATTATTTAATT-TATAT-ATT-AATAATACT
* *
25107 ATTATTAAATTTATATATTAATAATAGT
1 ATTATTTAATTTATATATTAATAATACT
* *
25135 -TTATTTAATACTTAAATATT-ATAATTAAAT
1 ATTATTTAAT--TTATATATTAATAA-T-ACT
25165 ATTATATTAATTTATAAATATTAATAA
1 ATTAT-TTAATTTAT--ATATTAATAA
25192 CTGAATTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
27 13 0.19
28 9 0.13
29 14 0.20
30 15 0.22
31 4 0.06
32 10 0.14
33 4 0.06
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTATTTAATTTATATATTAATAATACT
Found at i:25762 original size:19 final size:18
Alignment explanation
Indices: 25738--25776 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
25728 TTAATTTTAT
*
25738 ATTAATTTAACTAATATAA
1 ATTAATTTAAAT-ATATAA
25757 ATTAATTTAAATATATAA
1 ATTAATTTAAATATATAA
25775 AT
1 AT
25777 ATATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAATTTAAATATATAA
Found at i:25810 original size:23 final size:23
Alignment explanation
Indices: 25763--25839 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
25753 ATAAATTAAT
* * *
25763 TTAAATATATAAATATATAAATTA
1 TTAATTAT-TAAATATTTAATTTA
25787 TTAATTATTAAATATTTAATTTA
1 TTAATTATTAAATATTTAATTTA
* *
25810 TTAATGATT--ATA-TTCATTTA
1 TTAATTATTAAATATTTAATTTA
25830 TTAA-TATTAA
1 TTAATTATTAA
25840 CAAATATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 3 0.07
20 11 0.24
21 3 0.07
23 21 0.47
24 7 0.16
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TTAATTATTAAATATTTAATTTA
Found at i:26259 original size:180 final size:178
Alignment explanation
Indices: 25949--26613 Score: 487
Period size: 180 Copynumber: 3.7 Consensus size: 178
25939 TAATATCATT
* * * * ** * * **
25949 AATAATACTAATTTATTAATATTTAAAAAATTAATCAGTAAGAGATTTAAAAAGTAAA-CTTGCT
1 AATAAAACTAATTTAATAATATTTCAAAAATTAATAACCAAGA-AATTAAAAA-AAAATC-TAAT
* ** ** * * *
26013 TACCAAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTTGAATTGTTATAACCTT
63 TACCAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCGTTATAACCTT
* * * ** *
26078 TTATTTTATCATCAAACAATTGGTTCTGTTTATACTATTTTGTTCGAAATAA
128 TTATTTTATCATAAAACAATT-GTTCTGTTCATACAAGCTTATTCGAAATAA
* *
26130 AATAAAACTAATTTACTAATA-TTCTAAAACTTAATAACCAAGAAAATTAAAAAAAAATCTAATT
1 AATAAAACTAATTTAATAATATTTC-AAAAATTAATAACCAAG-AAATTAAAAAAAAATCTAATT
* * * *
26194 GCCAAACCAGTTGAAATAGTTAAGACTA-TATGAATGATTATCTATTTTAAATCGTTATGACCTT
64 ACCAAACCAGTTCAAATAGTTAAGACTATTA-GAATAATTATCTATTTTAAATCGTTATAACCTT
* * * * * * * *
26258 TTCTTTTGTCGTAAAACAATTGTTTTGTTCGTACAAGCTTATTTGGATTAA
128 TTATTTTATCATAAAACAATTGTTCTGTTCATACAAGCTTATTCGAAATAA
* * * * * * * ** *
26309 AATAATATTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAAATTTTGTTTAT
1 AATAAAACTAATTTAATAATATTTCAAAAATTAATAACCAAGAAATTAAAAAAAAATCTAATTAC
* * * * * **
26374 CAAATCAGTTCAAATGGTTAAGACTATTAGAATAATTATCTATTTTAAATCATTCTGATATTTTA
66 CAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCGTTATAACCTTTTA
** * * * * *
26439 TTTGGTTATAAAACAATTGTTTTAGTTCATAAAAGGTTATT-TAGAATAA
131 TTTTATCATAAAACAATTGTTCT-GTTCATACAAGCTTATTCGA-AATAA
* ** * * * * * *
26488 ATTAATGCAAATTTAGTAACA-TTCAAAAAATTAATAA-AAATGAGATTTAAAAAAAAATCTATT
1 AATAAAACTAATTTAATAATATTTC-AAAAATTAATAACCAA-GA-AATTAAAAAAAAATCTAAT
* * ** * *
26551 TACCAAACAAGTACAAATAGTTATTATTATTTGAATAATTATCTATTTTAAATCGTTATAACC
63 TACCAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCGTTATAACC
26614 AATTATTGAT
Statistics
Matches: 378, Mismatches: 95, Indels: 23
0.76 0.19 0.05
Matches are distributed among these distances:
178 93 0.25
179 103 0.27
180 140 0.37
181 41 0.11
182 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (178 bp):
AATAAAACTAATTTAATAATATTTCAAAAATTAATAACCAAGAAATTAAAAAAAAATCTAATTAC
CAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCGTTATAACCTTTTA
TTTTATCATAAAACAATTGTTCTGTTCATACAAGCTTATTCGAAATAA
Found at i:26453 original size:178 final size:179
Alignment explanation
Indices: 26125--26609 Score: 469
Period size: 179 Copynumber: 2.7 Consensus size: 179
26115 TTTTGTTCGA
* * * * * * * * *
26125 AATAAAATAAAACTAATTTACTAATATTCTAAAACTTAATAACCAA-GAAAATTAAAAAAAAATC
1 AATAAAATAATACAAATTTAATAACATTCAAAAAATTAATAA-AAATGAGATTTAAAAAAAAATC
* * * * *
26189 TAATTGCCAAACCAGTTGAAATAGTTAAGACTA-TATGAATGATTATCTATTTTAAATCGTTATG
65 TATTTACCAAA-CAGTTCAAATAGTTAAGACTATTA-GAATAATTATCTATTTTAAATCATTATG
* * * * * * *
26253 ACCTTTTCTTTTGTCGTAAAACAATTGTTTT-GTTCGTACAAGCTTATTTGG
128 ACATTTTATTTGGTCATAAAACAATTGTTTTAGTTCATAAAAGCTTATTTAG
* ** * * *
26304 ATTAAAATAATATTAATTTAATAATATTTC-AAAAATTAATAACTAA-GAGATTT-AAAAAAATT
1 AATAAAATAATACAAATTTAATAACA-TTCAAAAAATTAATAA-AAATGAGATTTAAAAAAAAAT
* * * * *
26366 TTGTTTATCAAATCAGTTCAAATGGTTAAGACTATTAGAATAATTATCTATTTTAAATCATTCTG
64 CTATTTACCAAA-CAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCATTATG
* * *
26431 ATATTTTATTTGGTTATAAAACAATTGTTTTAGTTCATAAAAGGTTATTTAG
128 ACATTTTATTTGGTCATAAAACAATTGTTTTAGTTCATAAAAGCTTATTTAG
* * *
26483 AATAAATTAATGCAAATTTAGTAACATTCAAAAAATTAATAAAAATGAGATTTAAAAAAAAATCT
1 AATAAAATAATACAAATTTAATAACATTCAAAAAATTAATAAAAATGAGATTTAAAAAAAAATCT
* ** * * *
26548 ATTTACCAAACAAGTACAAATAGTTATTATTATTTGAATAATTATCTATTTTAAATCGTTAT
66 ATTTACCAAAC-AGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCATTAT
26610 AACCAATTAT
Statistics
Matches: 249, Mismatches: 50, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
178 89 0.36
179 98 0.39
180 62 0.25
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (179 bp):
AATAAAATAATACAAATTTAATAACATTCAAAAAATTAATAAAAATGAGATTTAAAAAAAAATCT
ATTTACCAAACAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTTAAATCATTATGACA
TTTTATTTGGTCATAAAACAATTGTTTTAGTTCATAAAAGCTTATTTAG
Found at i:28195 original size:18 final size:19
Alignment explanation
Indices: 28170--28218 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
28160 ATTATTAAAC
28170 TAAA-AATAATTAAT-ATT
1 TAAATAATAATTAATAATT
** *
28187 TTTATAAT-ATTAGTAATT
1 TAAATAATAATTAATAATT
28205 TAAATAATAATTAA
1 TAAATAATAATTAA
28219 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAATAATAATTAATAATT
Found at i:28840 original size:14 final size:16
Alignment explanation
Indices: 28823--28873 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
28813 TAAACTAGTT
28823 TAAATT-TTAATTA-A
1 TAAATTATTAATTATA
28837 TAAATTATTAATTATA
1 TAAATTATTAATTATA
28853 TAATATTATTAATTCATA
1 TAA-ATTATTAATT-ATA
28871 TAA
1 TAA
28874 TTAAATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
16 4 0.12
17 10 0.30
18 6 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATTATTAATTATA
Found at i:29373 original size:25 final size:25
Alignment explanation
Indices: 29345--29392 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
29335 TGTTCCTATA
29345 ATAT-TTTATAAATATTTAAAATATT
1 ATATGTTTA-AAATATTTAAAATATT
* *
29370 ATATGTTTAAATTATTTGAAATA
1 ATATGTTTAAAATATTTAAAATA
29393 AATTTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
ATATGTTTAAAATATTTAAAATATT
Found at i:29571 original size:17 final size:17
Alignment explanation
Indices: 29548--29586 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
29538 AATTTAGGAA
29548 ATTTTAATAAT-TTAATT
1 ATTTTAA-AATATTAATT
*
29565 GTTTTAAAATATTAATT
1 ATTTTAAAATATTAATT
29582 ATTTT
1 ATTTT
29587 GTTATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTAAAATATTAATT
Found at i:29743 original size:26 final size:24
Alignment explanation
Indices: 29709--29778 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
29699 TTATTCAAAT
29709 TATTT-ATTATAATTAATTTAATACA
1 TATTTAATTATAATTAA-TTAATA-A
29734 TATTTAATTATAATTAATTAATAA
1 TATTTAATTATAATTAATTAATAA
* *
29758 TATTTAACATATATTTAATTA
1 TATTTAA-TTATAATTAATTA
29779 TATACTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 8 0.20
25 22 0.54
26 11 0.27
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTTAATTATAATTAATTAATAA
Found at i:29763 original size:35 final size:35
Alignment explanation
Indices: 29706--29801 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 35
29696 AAGTTATTCA
* *
29706 AATTATTTA-TTA-TAATTAATTTAATACATATTT
1 AATTATATACTTATTAATAAATTTAATACATATTT
* *
29739 AATTATA-A-TTAATTAATAATATTTAACATATATTT
1 AATTATATACTT-ATTAATAA-ATTTAATACATATTT
*
29774 AATTATATACTTATTAATAAATATAATA
1 AATTATATACTTATTAATAAATTTAATA
29802 ATAAATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
32 3 0.06
33 7 0.13
34 5 0.10
35 26 0.50
36 9 0.17
37 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (35 bp):
AATTATATACTTATTAATAAATTTAATACATATTT
Found at i:29805 original size:12 final size:12
Alignment explanation
Indices: 29788--29812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29778 ATATACTTAT
29788 TAATAAATATAA
1 TAATAAATATAA
29800 TAATAAATATAA
1 TAATAAATATAA
29812 T
1 T
29813 TATTTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATAAATATAA
Found at i:29939 original size:4 final size:4
Alignment explanation
Indices: 29930--29958 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
29920 TTTAATTTTA
29930 AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT A
29959 TATACAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:30181 original size:22 final size:20
Alignment explanation
Indices: 30156--30202 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
30146 AATATTTCAT
*
30156 TAATATACTATAAAATTAATTA
1 TAATATA-TATAAAA-TAATAA
*
30178 TAATA-ATATATAATAATAA
1 TAATATATATAAAATAATAA
30197 TAATAT
1 TAATAT
30203 TAATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.45
20 6 0.27
21 1 0.05
22 5 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATATATATAAAATAATAA
Found at i:30185 original size:3 final size:3
Alignment explanation
Indices: 30172--30215 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
30162 ACTATAAAAT
* * *
30172 TAA TTA TAA TAA TATA TAA TAA TAA TAA TAT TAA TAA TAT TAA T
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30216 TTAATTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:30191 original size:16 final size:15
Alignment explanation
Indices: 30165--30235 Score: 72
Period size: 15 Copynumber: 4.5 Consensus size: 15
30155 TTAATATACT
* *
30165 ATAAAATTAATTATA
1 ATAATATTAATAATA
30180 ATAATATATAATAATA
1 ATAATAT-TAATAATA
30196 ATAATATTAATAATA
1 ATAATATTAATAATA
*
30211 TTAAT-TTAATTTAATTA
1 ATAATATTAA--TAA-TA
30228 ATAATATT
1 ATAATATT
30236 TAATCTTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
14 4 0.09
15 18 0.38
16 17 0.36
17 6 0.13
18 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATTAATAATA
Found at i:30220 original size:23 final size:24
Alignment explanation
Indices: 30178--30235 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
30168 AAATTAATTA
30178 TAATAATATATAATAATAATA-ATAT
1 TAATAATAT-TAATAATAATATA-AT
* *
30203 TAATAATATTAAT-TTAATTTAAT
1 TAATAATATTAATAATAATATAAT
30226 TAATAATATT
1 TAATAATATT
30236 TAATCTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 16 0.53
24 5 0.17
25 9 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATAATATTAATAATAATATAAT
Found at i:30228 original size:9 final size:10
Alignment explanation
Indices: 30107--30230 Score: 50
Period size: 9 Copynumber: 12.5 Consensus size: 10
30097 TATAAACATA
30107 TAATATT-AT
1 TAATATTAAT
*
30116 T-ATATT-AG
1 TAATATTAAT
30124 TAATTATATAAT
1 TAA-TAT-TAAT
*
30136 TATTATT-AT
1 TAATATTAAT
*
30145 TAATATTTCAT
1 TAATA-TTAAT
*
30156 TAATA-TACT
1 TAATATTAAT
*
30165 ATAAAATTAAT
1 -TAATATTAAT
*
30176 T-ATAATAA-
1 TAATATTAAT
*
30184 TATATAATAAT
1 TA-ATATTAAT
30195 AATAATATTAA-
1 --TAATATTAAT
30206 TAATATTAATT
1 TAATATTAA-T
30217 TAAT-TTAAT
1 TAATATTAAT
30226 TAATA
1 TAATA
30231 ATATTTAATC
Statistics
Matches: 88, Mismatches: 11, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
8 8 0.09
9 29 0.33
10 22 0.25
11 18 0.20
12 9 0.10
13 2 0.02
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (10 bp):
TAATATTAAT
Found at i:31305 original size:19 final size:16
Alignment explanation
Indices: 31272--31310 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
31262 AATATTAATC
31272 ATTATAATTAAATATT
1 ATTATAATTAAATATT
*
31288 ATTATTAATTAATTA-T
1 ATTA-TAATTAAATATT
31304 ATTATAA
1 ATTATAA
31311 ATAGTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.43
17 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTATAATTAAATATT
Found at i:31606 original size:19 final size:18
Alignment explanation
Indices: 31580--31628 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
31570 CAAATTATAA
*
31580 AAATTATTAATAATCATT
1 AAATTATTAATAATAATT
* *
31598 AATATTATTATTAGTAATT
1 AA-ATTATTAATAATAATT
31617 AAATTA-TAATAA
1 AAATTATTAATAA
31629 ATATATGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATTATTAATAATAATT
Done.