Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold170
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: 1632119
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.33
Warning! 57634 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:660913 original size:30 final size:29
Alignment explanation
Indices: 660877--660938 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
660867 TTCGATATGA
*
660877 ATATATTTAATATTTTATATATTTAA-AAAT
1 ATATATTTAATA-TTTAAAT-TTTAATAAAT
660907 ATATATTTAATATTTAAATTTTAATAAAT
1 ATATATTTAATATTTAAATTTTAATAAAT
660936 ATA
1 ATA
660939 AAATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 5 0.17
29 13 0.43
30 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATATTTAATATTTAAATTTTAATAAAT
Found at i:660941 original size:37 final size:38
Alignment explanation
Indices: 660879--660952 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
660869 CGATATGAAT
* * *
660879 ATATTTAATATTTTATATATTTAAAA-ATATATATTTA
1 ATATTTAATATTTTATAAATATAAAATATAAATATTTA
660916 ATATTTAA-ATTTTAATAAATATAAAATATAAATATTT
1 ATATTTAATATTTT-ATAAATATAAAATATAAATATTT
660953 TGAGTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 5 0.16
37 18 0.56
38 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (38 bp):
ATATTTAATATTTTATAAATATAAAATATAAATATTTA
Found at i:664185 original size:14 final size:13
Alignment explanation
Indices: 664168--664201 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
664158 TAAATAAGTG
664168 AAATTTTTTTTAAA
1 AAATTTTTTTT-AA
664182 AAATTTTTTTTAA
1 AAATTTTTTTTAA
664195 AAATTTT
1 AAATTTT
664202 ACACCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AAATTTTTTTTAA
Found at i:664190 original size:13 final size:13
Alignment explanation
Indices: 664172--664201 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
664162 TAAGTGAAAT
664172 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
*
664185 TTTTTTTTAAAAA
1 TTTTTTTAAAAAA
664198 TTTT
1 TTTT
664202 ACACCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTTTAAAAAA
Found at i:664837 original size:24 final size:24
Alignment explanation
Indices: 664810--664855 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
664800 TTTAACTACG
* *
664810 ATGATACATAAATTAATATAAAAT
1 ATGATACAAAAAATAATATAAAAT
*
664834 ATGATATAAAAAATAATATAAA
1 ATGATACAAAAAATAATATAAA
664856 TAAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
ATGATACAAAAAATAATATAAAAT
Found at i:664848 original size:14 final size:12
Alignment explanation
Indices: 664823--664867 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
664813 ATACATAAAT
*
664823 TAATATAAAATA
1 TAATATAAAAAA
*
664835 TGATATAAAAAA
1 TAATATAAAAAA
664847 TAATATAAATAAA
1 TAATATAAA-AAA
664860 TAAATATA
1 T-AATATA
664868 TTAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.64
13 4 0.14
14 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
TAATATAAAAAA
Found at i:665353 original size:15 final size:15
Alignment explanation
Indices: 665333--665366 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
665323 TTTAATATAA
*
665333 ATATCATATATAAAT
1 ATATCACATATAAAT
*
665348 ATATCACGTATAAAT
1 ATATCACATATAAAT
665363 ATAT
1 ATAT
665367 TTAATTCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (15 bp):
ATATCACATATAAAT
Found at i:666257 original size:2 final size:2
Alignment explanation
Indices: 666252--666301 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
666242 CACACTGGAT
666252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
666294 TA TA TA TA
1 TA TA TA TA
666302 CGCACACACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:668335 original size:23 final size:25
Alignment explanation
Indices: 668309--668355 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
668299 AATTCTTTAA
668309 TAAAAATA-TATTA-TATATACATG
1 TAAAAATATTATTATTATATACATG
* *
668332 TAAATATATTTTTATTATATACAT
1 TAAAAATATTATTATTATATACAT
668356 TTACACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
TAAAAATATTATTATTATATACATG
Found at i:668457 original size:21 final size:19
Alignment explanation
Indices: 668417--668457 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
668407 TTAGTATTTC
668417 TAAATATAAATAAATAAAA
1 TAAATATAAATAAATAAAA
*
668436 TAAATAT-AA-AAATATAA
1 TAAATATAAATAAATAAAA
668453 TAAAT
1 TAAAT
668458 TAATATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 2 0.10
19 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAATATAAATAAATAAAA
Found at i:668461 original size:8 final size:9
Alignment explanation
Indices: 668417--668462 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
668407 TTAGTATTTC
668417 TAAATATAAA
1 TAAATAT-AA
*
668427 TAAATAAAA
1 TAAATATAA
668436 TAAATATAA
1 TAAATATAA
668445 -AAATATAA
1 TAAATATAA
668453 TAAAT-TAA
1 TAAATATAA
668461 TA
1 TA
668463 TTCATAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 13 0.39
9 14 0.42
10 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAATATAA
Found at i:668463 original size:21 final size:21
Alignment explanation
Indices: 668417--668456 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
668407 TTAGTATTTC
668417 TAAATAT--AAATAAATAAAA
1 TAAATATAAAAATAAATAAAA
668436 TAAATATAAAAATATAATAAA
1 TAAATATAAAAATA-AATAAA
668457 TTAATATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATATAAAAATAAATAAAA
Found at i:668758 original size:2 final size:2
Alignment explanation
Indices: 668751--668778 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
668741 GAGTAAAATT
668751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
668779 AAAGATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:668950 original size:18 final size:18
Alignment explanation
Indices: 668892--668952 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
668882 GCATCTGATA
* *
668892 AATATTATTATTTAAATT
1 AATATTATCATTTAAAAT
* * *
668910 TATGTTATC-CTTAAAACT
1 AATATTATCATTTAAAA-T
*
668928 GATATTATCATTTAAAAT
1 AATATTATCATTTAAAAT
668946 AATATTA
1 AATATTA
668953 AAAATTTTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
17 5 0.16
18 21 0.66
19 6 0.19
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (18 bp):
AATATTATCATTTAAAAT
Found at i:669402 original size:12 final size:12
Alignment explanation
Indices: 669364--669404 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
669354 TTTCTAAAAT
669364 TTTAAACTCAAA
1 TTTAAACTCAAA
*
669376 -TT-AACTCATAT
1 TTTAAACTCA-AA
669387 TTTAAACTCAAA
1 TTTAAACTCAAA
669399 TTTAAA
1 TTTAAA
669405 GCAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 9 0.38
13 6 0.25
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (12 bp):
TTTAAACTCAAA
Found at i:670178 original size:96 final size:101
Alignment explanation
Indices: 670008--670326 Score: 387
Period size: 96 Copynumber: 3.1 Consensus size: 101
669998 AATTGTTATT
* * *
670008 TTAATAATTCAATTAATTCAACGATTGATTTAATTTTTTTCGAAGCTTAAGGTATGATTATGTTA
1 TTAATAATTCAATTAATTCAACGATTGATTTAA-TTTTTTCAAAAC-T-A--TATGA-TAGGTTA
670073 TACGAATTGTTATTTAATATCAAAATATAATTAAATTAATAA
60 TACGAATTGTTATTTAATATCAAAATATAATTAAATTAATAA
* * * *
670115 TTAATAATTCAATTAATTCCACGGTTGATTTAATTTTTTTAAAA-T-T-T-A-AGGTTATACGGA
1 TTAATAATTCAATTAATTCAACGATTGATTTAATTTTTTCAAAACTATATGATAGGTTATACGAA
*
670175 TTGTTGTTTAATATCAAAATATAATTAAATTAATAA
66 TTGTTATTTAATATCAAAATATAATTAAATTAATAA
* *
670211 TTAATAATTCAATTAATTCAACTATTGATTTAATTTTTTCAAAACTTAATGCATGATTATGTTAT
1 TTAATAATTCAATTAATTCAACGATTGATTTAATTTTTTCAAAAC-T-AT--ATGA-TAGGTTAT
* * *
670276 ACAAATTATTATTTAATACCAAAATATAATTAAATTAATAA
61 ACGAATTGTTATTTAATATCAAAATATAATTAAATTAATAA
670317 TTAATAATTC
1 TTAATAATTC
670327 TACTATTGAT
Statistics
Matches: 184, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
96 85 0.46
98 2 0.01
99 1 0.01
100 2 0.01
103 1 0.01
104 2 0.01
106 60 0.33
107 31 0.17
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (101 bp):
TTAATAATTCAATTAATTCAACGATTGATTTAATTTTTTCAAAACTATATGATAGGTTATACGAA
TTGTTATTTAATATCAAAATATAATTAAATTAATAA
Found at i:670983 original size:18 final size:18
Alignment explanation
Indices: 670962--671063 Score: 50
Period size: 18 Copynumber: 5.4 Consensus size: 18
670952 AATATTATAT
670962 ATATAAAAAATAATTAAA
1 ATATAAAAAATAATTAAA
* *
670980 ATATAATATAAT-ATT-AT
1 ATATAA-AAAATAATTAAA
*
670997 ATA-AAAAAATATTTTTAATTA
1 ATATAAAAAATA--ATTAA--A
* *
671018 ATATAATATAAATTATTAAT
1 ATATAA-A-AAATAATTAAA
*
671038 ATATAAAAAATTA-TATAA
1 ATATAAAAAATAATTA-AA
671056 ATATAAAA
1 ATATAAAA
671064 TATTTAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 22
0.67 0.09 0.23
Matches are distributed among these distances:
15 4 0.06
16 2 0.03
17 6 0.09
18 26 0.41
19 6 0.09
20 6 0.09
21 3 0.05
22 6 0.09
23 1 0.02
24 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAAAAATAATTAAA
Found at i:671000 original size:15 final size:15
Alignment explanation
Indices: 670980--671061 Score: 50
Period size: 15 Copynumber: 5.7 Consensus size: 15
670970 AATAATTAAA
670980 ATATAATATAATATT
1 ATATAATATAATATT
* *
670995 ATATAAAAAAATATT
1 ATATAATATAATATT
* *
671010 -TTTAAT-TAATATA
1 ATATAATATAATATT
671023 ATATAA-AT--TATT
1 ATATAATATAATATT
* *
671035 A-ATATATAAAAAATT
1 ATATA-ATATAATATT
671050 ATATAAATATAA
1 ATAT-AATATAA
671062 AATATTTAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 15
0.65 0.15 0.20
Matches are distributed among these distances:
11 3 0.06
12 5 0.10
13 6 0.12
14 9 0.19
15 17 0.35
16 7 0.15
17 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAATATAATATT
Found at i:671003 original size:33 final size:33
Alignment explanation
Indices: 670959--671026 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
670949 AGGAATATTA
670959 TATATATAAAAAATAATTAAAATATAATATAATAT
1 TATATA-AAAAAATAATTAAAAT-TAATATAATAT
* **
670994 TATATAAAAAAATATTTTTAATTAATATAATAT
1 TATATAAAAAAATAATTAAAATTAATATAATAT
671027 AAATTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 11 0.37
34 13 0.43
35 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TATATAAAAAAATAATTAAAATTAATATAATAT
Found at i:671066 original size:25 final size:26
Alignment explanation
Indices: 671020--671083 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
671010 TTTAATTAAT
*
671020 ATAATATAAATTATTAATATATAAAAA
1 ATAATATAAA-TATTAAAATATAAAAA
* **
671047 ATTATATAAATA-TAAAATATTTAAA
1 ATAATATAAATATTAAAATATAAAAA
671072 ATAATATAAATA
1 ATAATATAAATA
671084 GGTGAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 21 0.66
26 2 0.06
27 9 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATAATATAAATATTAAAATATAAAAA
Found at i:682408 original size:4 final size:4
Alignment explanation
Indices: 682399--682429 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
682389 AAAGAACCAA
682399 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
682430 GATATGATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:685170 original size:3 final size:3
Alignment explanation
Indices: 685158--685191 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
685148 CTATTACATT
685158 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
685192 TTATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:685196 original size:3 final size:3
Alignment explanation
Indices: 685190--685222 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
685180 ATAATAATAA
685190 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
685223 AGACAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:687297 original size:2 final size:2
Alignment explanation
Indices: 687290--687323 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
687280 TGTGTAATAC
687290 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
687324 GTAAAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:687665 original size:116 final size:116
Alignment explanation
Indices: 687456--687694 Score: 442
Period size: 116 Copynumber: 2.1 Consensus size: 116
687446 TAAAATGACA
* *
687456 AACTACACTTAATGTAACTCCTGAACTCCATCAGCAAGGACAAGTTCTCCATTTCTAAAGTAAAT
1 AACTGCACTTAATGTAACTCCTGAACTCCATCAGCAAGGACAAGTTCTCCATTTCTAAAGTAAAC
687521 AAAAAGGATGCTCTTCTTTTACAGAGGTTGTCAAACATGGATCTCACACAG
66 AAAAAGGATGCTCTTCTTTTACAGAGGTTGTCAAACATGGATCTCACACAG
*
687572 AACTGCACTTAATGTAACTCCTGAACTCCATCAGCAAGGACAAGTTCTCCATTTCTAACGTAAAC
1 AACTGCACTTAATGTAACTCCTGAACTCCATCAGCAAGGACAAGTTCTCCATTTCTAAAGTAAAC
*
687637 AAAAAGGATGCTCTTTTTTTACAGAGGTTGTCAAACATGGATCTCACACAG
66 AAAAAGGATGCTCTTCTTTTACAGAGGTTGTCAAACATGGATCTCACACAG
687688 AACTGCA
1 AACTGCA
687695 TGCTGCTTAC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (116 bp):
AACTGCACTTAATGTAACTCCTGAACTCCATCAGCAAGGACAAGTTCTCCATTTCTAAAGTAAAC
AAAAAGGATGCTCTTCTTTTACAGAGGTTGTCAAACATGGATCTCACACAG
Found at i:691715 original size:88 final size:88
Alignment explanation
Indices: 691471--691729 Score: 351
Period size: 89 Copynumber: 2.9 Consensus size: 88
691461 GCAATAATAA
* * ** * * * * *
691471 AGAAATAATCAATTAACACGAACTATTGTTGCGTTAACCTATATGCATTGCGAGAGAGAATCGAT
1 AGAAAGAATCAATTAATAAAAACTATTGTTGCATTAACCTATCTGCATTGCAAGAGCGAATCAAT
*
691536 GGAAATTGCAACTTCATCCTTTT
66 GGAAATTGCAACTTCATCATTTT
691559 AGAAAGAATCAATTAATACAAAACTATTGTTGCATTAACCTATCTGCATTGCAAGA-CTGAATCA
1 AGAAAGAATCAATTAATA-AAAACTATTGTTGCATTAACCTATCTGCATTGCAAGAGC-GAATCA
*
691623 ATGGAAATTACAACTTCATCATTTT
64 ATGGAAATTGCAACTTCATCATTTT
* * *
691648 AGATAGAATCAATTAATAAAAACTTTTGTTGCTTTAACCTATCTGCATTAG-AAGAGCGAATCAA
1 AGAAAGAATCAATTAATAAAAACTATTGTTGCATTAACCTATCTGCATT-GCAAGAGCGAATCAA
691712 TGGAAATTGCAACTTCAT
65 TGGAAATTGCAACTTCAT
691730 GTTTTTCTCA
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
88 73 0.48
89 79 0.52
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (88 bp):
AGAAAGAATCAATTAATAAAAACTATTGTTGCATTAACCTATCTGCATTGCAAGAGCGAATCAAT
GGAAATTGCAACTTCATCATTTT
Found at i:692805 original size:20 final size:20
Alignment explanation
Indices: 692750--692805 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
692740 GAGCGGAATT
*
692750 TTAAATAATT-TTTTTATTAA
1 TTAAA-AATTATTTTTAATAA
* *
692770 TT-TAAATTAATATTTAATAA
1 TTAAAAATT-ATTTTTAATAA
692790 TTAAAAATTATTTTTA
1 TTAAAAATTATTTTTA
692806 TTTAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.14
19 1 0.04
20 18 0.64
21 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAAATTATTTTTAATAA
Found at i:693234 original size:17 final size:17
Alignment explanation
Indices: 693201--693236 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
693191 GATTAGAATC
* *
693201 AATTTAATTTTATATAA
1 AATTTAATTTAAAATAA
693218 AATTTAATTTAAAATAA
1 AATTTAATTTAAAATAA
693235 AA
1 AA
693237 ATAAATGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTAATTTAAAATAA
Found at i:697008 original size:16 final size:17
Alignment explanation
Indices: 696987--697050 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 17
696977 TTCGTTTTGA
696987 TAAATTTAATTT-ATAT
1 TAAATTTAATTTAATAT
*
697003 TAAATTAAATTTAAATAT
1 TAAATTTAATTT-AATAT
*
697021 TATATTTAA--TAAT-T
1 TAAATTTAATTTAATAT
*
697035 TAAA-TTAATATAATAT
1 TAAATTTAATTTAATAT
697051 AATTTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 7 0.18
16 13 0.33
18 11 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTTAATTTAATAT
Found at i:697052 original size:20 final size:19
Alignment explanation
Indices: 697028--697097 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 19
697018 TATTATATTT
697028 AATAATTTAAATTAATATA
1 AATAATTTAAATTAATATA
*
697047 ATATAATTTAAATTATTATA
1 A-ATAATTTAAATTAATATA
697067 AA-AATATATAAATATTAATATAA
1 AATAAT-T-T-AA-ATTAATAT-A
697090 AATAATTT
1 AATAATTT
697098 TTTAATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 19 0.45
21 2 0.05
22 8 0.19
23 4 0.10
24 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATTTAAATTAATATA
Found at i:697131 original size:13 final size:12
Alignment explanation
Indices: 697108--697155 Score: 71
Period size: 11 Copynumber: 4.0 Consensus size: 12
697098 TTTAATATTT
*
697108 TTAAATAATAAA
1 TTAAATTATAAA
697120 TTAAATTTATAAA
1 TTAAA-TTATAAA
697133 TTAAATTA-AAA
1 TTAAATTATAAA
697144 TTAAATTATAAA
1 TTAAATTATAAA
697156 AATAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
11 11 0.33
12 11 0.33
13 11 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TTAAATTATAAA
Found at i:697146 original size:6 final size:6
Alignment explanation
Indices: 697117--697168 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
697107 TTTAAATAAT
* * *
697117 AAATTA AATTTA TAAATT- AAATTA AAATTA AATTATA AAAATA AAATTA
1 AAATTA AAATTA -AAATTA AAATTA AAATTA AAAT-TA AAATTA AAATTA
697166 AAA
1 AAA
697169 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 5 0.14
6 24 0.65
7 8 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATTA
Found at i:697146 original size:24 final size:24
Alignment explanation
Indices: 697108--697179 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
697098 TTTAATATTT
*
697108 TTAAATAATAAATTAAATTTATAAA
1 TTAAATTA-AAATTAAATTTATAAA
*
697133 TTAAATTAAAATTAAATTATAAAAA
1 TTAAATTAAAATTAAATT-TATAAA
*
697158 TAAAATTAAAA--AAATTT-TAAA
1 TTAAATTAAAATTAAATTTATAAA
697179 T
1 T
697180 CAGCTCTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 4 0.10
22 1 0.02
23 5 0.12
24 10 0.24
25 22 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAAATTAAAATTAAATTTATAAA
Found at i:697156 original size:13 final size:12
Alignment explanation
Indices: 697117--697168 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
697107 TTTAAATAAT
697117 AAATTAAATTTA
1 AAATTAAATTTA
697129 TAAATTAAA-TTA
1 -AAATTAAATTTA
697141 AAATTAAATTATA
1 AAATTAAATT-TA
* *
697154 AAAATAAAATTA
1 AAATTAAATTTA
697166 AAA
1 AAA
697169 AAATTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 8 0.23
12 9 0.26
13 18 0.51
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATTAAATTTA
Found at i:697163 original size:14 final size:14
Alignment explanation
Indices: 697130--697172 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
697120 TTAAATTTAT
*
697130 AAATTAAATTAAAATT
1 AAATTAAA--AAAATA
*
697146 AAATTATAAAAATA
1 AAATTAAAAAAATA
697160 AAATTAAAAAAAT
1 AAATTAAAAAAAT
697173 TTTAAATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 17 0.71
16 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTAAAAAAATA
Found at i:697403 original size:2 final size:2
Alignment explanation
Indices: 697398--697428 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
697388 TGTTGCCCCC
697398 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
697429 ACAGCTCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:698414 original size:33 final size:33
Alignment explanation
Indices: 698376--698476 Score: 139
Period size: 33 Copynumber: 3.1 Consensus size: 33
698366 AGGCTATTGG
* *
698376 GGTTCCAAATGAGGTTGGACCTCAAGAGGATGT
1 GGTTCCAAGTGAGGTTGGACCTCAGGAGGATGT
* ** * *
698409 GGTTCCAAGCGACATTGGACCTCTGGAGGCTGT
1 GGTTCCAAGTGAGGTTGGACCTCAGGAGGATGT
698442 GGTTCCAAGTGAGGTTGGACCTCAGGAGGATGT
1 GGTTCCAAGTGAGGTTGGACCTCAGGAGGATGT
698475 GG
1 GG
698477 CAGTGTCAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.24
Consensus pattern (33 bp):
GGTTCCAAGTGAGGTTGGACCTCAGGAGGATGT
Found at i:699333 original size:405 final size:403
Alignment explanation
Indices: 698565--699782 Score: 1697
Period size: 405 Copynumber: 3.0 Consensus size: 403
698555 TTGACGAGGG
* * * *
698565 AGGGACTGAAGAATTTAATGGTAGAAAGGAGGTACCTGAAATCAGT-GTTACTGGAGAAACCA-A
1 AGGGACTGATGAATTGAATGGTGGAAAGGAGGTACCTAAAATCAGTAGTT-CTGGAGAAA-CAGA
* * * * * *
698628 TGT-CTCGAGGGATGAGCATGAAGGAAATATGAAGTCTGATACAGCAACTGATAAGCCTGTAAAA
64 AGTCCT-GAGGGATGAGGATGAAGGAAATCTGAAGTCTGATACAACAACTGAGAAGCCTGTAAAG
* * *
698692 GGAGATGCTGATAAGGTATATTTAGAGGGAACATTGGCAGACGAAAGTTTGGAAACTTTGGAATG
128 GGAGATGCTGATAAGGTATATTTAGAGGGAACATTGGCTGAC-AAAATTTGG-AACTTTGGAAAG
* * * * *
698757 TGATAAGGTGGAGGAGGATGTACAAATGGAAACCAAGTTGGAGATTTTGCTGCAAGACGTTAAGG
191 TGATAAGGTGGAGGAGGATGTACAAATGGAATCCAAGTTGGAGGTTTTGCCGCAAGAGGGTAAGG
* * * * *
698822 GTGAGGAGTCAGGGGAGGATACACTGGCTGCTGATTATCAAGACGATAAGGTTGGGGAATCTGCT
256 GTGAGGAATCAAGGGAGGATGCACTGGCTACTGATTATCAAGACGATAAGGTTGGGGAATCTTCT
* * * *
698887 GACACTTCAGCTGGCATGATTGTTAAGTTTCAAGTTGATGAAGTTGTTGAAGCATTGAATGACAA
321 GATACTTCAGCTGGCATGATTGTCAAGCTTCAAGATGATGAAGTTGTTGAAGCATTGAATGACAA
698952 GTCAGCTAATGTTGATAC
386 GTCAGCTAATGTTGATAC
* *
698970 AGGGACTGATGAATTGAATGGTGGAAAGGAAGTACCAAAAATCAGTAGTTCTGGAGAAACAGAAG
1 AGGGACTGATGAATTGAATGGTGGAAAGGAGGTACCTAAAATCAGTAGTTCTGGAGAAACAGAAG
* * *
699035 TCCTGAGGGATGAGGATGAAGGAAATCTCAAGTCTGATAGAACAACTGAGAAGCCTGTAAAGGGT
66 TCCTGAGGGATGAGGATGAAGGAAATCTGAAGTCTGATACAACAACTGAGAAGCCTGTAAAGGGA
* * *
699100 GATGCTGATAAGGTGTATATAGAGGGAACATTGGCTGACAAGAATTTGGCAACTTTAGAAAGTGA
131 GATGCTGATAAGGTATATTTAGAGGGAACATTGGCTGACAA-AATTTGG-AACTTTGGAAAGTGA
* * * * *
699165 TAAGGTGGAGGATGATGGACAAATAGAATCCAAGTTGAAGGTTTTGCCACAAGAGGGTAAGGGTG
194 TAAGGTGGAGGAGGATGTACAAATGGAATCCAAGTTGGAGGTTTTGCCGCAAGAGGGTAAGGGTG
*
699230 AGGAATCAAGGGAGGATGCACTGGCTACTGATTATCAAGATGATAAGGTTGGGGAATCTTCTGAT
259 AGGAATCAAGGGAGGATGCACTGGCTACTGATTATCAAGACGATAAGGTTGGGGAATCTTCTGAT
* * *
699295 ACTTCACCTGGCATGATTGTCAAGCTTCAAGATGATGAAGTTGTTGAAGCATTGAATGACAATTT
324 ACTTCAGCTGGCATGATTGTCAAGCTTCAAGATGATGAAGTTGTTGAAGCATTGAATGACAAGTC
*
699360 AGCCAATGTTGATAC
389 AGCTAATGTTGATAC
* * * *
699375 AAGGATTGATGAATTGAATGGTGGAAAGGAGGTACCTAAAATCAGTAGTACTGGAGAAACTGAAG
1 AGGGACTGATGAATTGAATGGTGGAAAGGAGGTACCTAAAATCAGTAGTTCTGGAGAAACAGAAG
*
699440 TCCTGAGGGATGAGGATGAAGGAAATCTGAAGTCTGATACAACAACCGAGAAGCCTGTAAAGGGA
66 TCCTGAGGGATGAGGATGAAGGAAATCTGAAGTCTGATACAACAACTGAGAAGCCTGTAAAGGGA
* *
699505 GATGCTGATAAGGTATATTTAGAGGGAACATTGGCTGAAAAAATTTGGATACTTTGGAACGTGAT
131 GATGCTGATAAGGTATATTTAGAGGGAACATTGGCTGACAAAATTTGGA-ACTTTGGAAAGTGAT
* * * *
699570 GAA-GTGGGGGAGGATGTACAAATGGAATCCAAGTTGGAGGTTTTGACGCAAGAGGGTAAGGCTA
195 -AAGGTGGAGGAGGATGTACAAATGGAATCCAAGTTGGAGGTTTTGCCGCAAGAGGGTAAGGGTG
* * * * * * *
699634 AGGAATCAAGGGAGGATGCACTGGGTTCTGATTACCAAGGCAAAAAGGTTGGGGAATCTTGTGAT
259 AGGAATCAAGGGAGGATGCACTGGCTACTGATTATCAAGACGATAAGGTTGGGGAATCTTCTGAT
* * ** * *
699699 ACTTCAGCTGGCATGATGGTCAAGCTTCAAGATGACGAAGTCATAGAAGCGTTGAATGACAAGTC
324 ACTTCAGCTGGCATGATTGTCAAGCTTCAAGATGATGAAGTTGTTGAAGCATTGAATGACAAGTC
*
699764 TGCTAATGTTGATAC
389 AGCTAATGTTGATAC
699779 AGGG
1 AGGG
699783 GATCTGGGAA
Statistics
Matches: 717, Mismatches: 90, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
403 1 0.00
404 205 0.29
405 506 0.71
406 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (403 bp):
AGGGACTGATGAATTGAATGGTGGAAAGGAGGTACCTAAAATCAGTAGTTCTGGAGAAACAGAAG
TCCTGAGGGATGAGGATGAAGGAAATCTGAAGTCTGATACAACAACTGAGAAGCCTGTAAAGGGA
GATGCTGATAAGGTATATTTAGAGGGAACATTGGCTGACAAAATTTGGAACTTTGGAAAGTGATA
AGGTGGAGGAGGATGTACAAATGGAATCCAAGTTGGAGGTTTTGCCGCAAGAGGGTAAGGGTGAG
GAATCAAGGGAGGATGCACTGGCTACTGATTATCAAGACGATAAGGTTGGGGAATCTTCTGATAC
TTCAGCTGGCATGATTGTCAAGCTTCAAGATGATGAAGTTGTTGAAGCATTGAATGACAAGTCAG
CTAATGTTGATAC
Found at i:705155 original size:2 final size:2
Alignment explanation
Indices: 705150--705186 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
705140 ATAGTGTGTG
*
705150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
705187 GTGTGTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:705580 original size:2 final size:2
Alignment explanation
Indices: 705573--705600 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
705563 GTTTTATGGA
705573 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
705601 TTAACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:706103 original size:19 final size:22
Alignment explanation
Indices: 706077--706118 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
706067 ATGGTCACAA
* *
706077 AAAAAAAAAAAACT-TAATAAT
1 AAAAAATAATAACTCTAATAAT
706098 AAAAAATAATAACTCTAATAA
1 AAAAAATAATAACTCTAATAA
706119 CATGGGCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAATAATAACTCTAATAAT
Found at i:710767 original size:114 final size:115
Alignment explanation
Indices: 710574--710786 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 115
710564 CACAGACAGT
* * **
710574 GACCAAAAATCAACGTTTTGGGTTCCACCGACGGGTAGACCGTTATCCAAACCACCGGAGGAATA
1 GACCAAAAATCAACGCTTGGGGTTCCACCGACGGCAAGACCGTTATCCAAACCACCGGAGGAATA
**
710639 ACCTGATTTCATTGTATTTGTAGCCCTTGAATGCTATTTTCAGAGTCTGA
66 ACCCAATTTCATTGTATTTGTAGCCCTTGAATGCTATTTTCAGAGTCTGA
* * * * *
710689 GACCAAAGATCAATGCTTGGGGTTCCACCGGCGGCAAGACCG-TATCCGAACCACCGGAGGGATA
1 GACCAAAAATCAACGCTTGGGGTTCCACCGACGGCAAGACCGTTATCCAAACCACCGGAGGAATA
710753 ACCCAATTTCATTGTATTTGTAGCCCTTGAATGC
66 ACCCAATTTCATTGTATTTGTAGCCCTTGAATGC
710787 ACTTGCTGGA
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
114 52 0.60
115 35 0.40
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (115 bp):
GACCAAAAATCAACGCTTGGGGTTCCACCGACGGCAAGACCGTTATCCAAACCACCGGAGGAATA
ACCCAATTTCATTGTATTTGTAGCCCTTGAATGCTATTTTCAGAGTCTGA
Found at i:711741 original size:11 final size:11
Alignment explanation
Indices: 711725--711772 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
711715 ATAATTAATT
711725 TAAATATAAAA
1 TAAATATAAAA
711736 TAAATATAAAA
1 TAAATATAAAA
* *
711747 T-ATTTTAAAA
1 TAAATATAAAA
* *
711757 TTAATATAATA
1 TAAATATAAAA
711768 TAAAT
1 TAAAT
711773 TATTAATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATATAAAA
Found at i:711746 original size:39 final size:39
Alignment explanation
Indices: 711698--711828 Score: 126
Period size: 39 Copynumber: 3.3 Consensus size: 39
711688 AAATTAAGTA
711698 AAATATAAAATAATTTAATAATTAATTTAAATATAAAAT
1 AAATATAAAATAATTTAATAATTAATTTAAATATAAAAT
* *
711737 AAATATAAAATATTTTAA-AATTAATAT-AATATAAATTAT
1 AAATATAAAATAATTTAATAATTAATTTAAATATAAA--AT
* * *
711776 TAATATAAAA-AATTATATTTAAATGTAATTTAAATATAATA-
1 AAATATAAAATAATT-TA-AT-AAT-TAATTTAAATATAAAAT
711817 AAATATATAAAT
1 AAATATA-AAAT
711829 TTAATTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
37 8 0.11
38 11 0.15
39 30 0.41
41 6 0.08
42 7 0.09
43 5 0.07
44 7 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.40
Consensus pattern (39 bp):
AAATATAAAATAATTTAATAATTAATTTAAATATAAAAT
Found at i:711794 original size:18 final size:18
Alignment explanation
Indices: 711756--711791 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
711746 ATATTTTAAA
711756 ATTAATATAATATAAATT
1 ATTAATATAATATAAATT
711774 ATTAATATAA-A-AAATT
1 ATTAATATAATATAAATT
711790 AT
1 AT
711792 ATTTAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAATATAATATAAATT
Found at i:711850 original size:18 final size:16
Alignment explanation
Indices: 711839--711868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
711829 TTAATTATTT
711839 TATATATATTAATATA
1 TATATATATTAATATA
711855 TATATATA-TAATAT
1 TATATATATTAATAT
711869 TTAACGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATATATTAATATA
Found at i:712128 original size:5 final size:5
Alignment explanation
Indices: 712118--712164 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
712108 AAATAATAAT
* * *
712118 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTATA TCAAT TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT
712165 TTATATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (5 bp):
TTAAA
Found at i:712620 original size:13 final size:15
Alignment explanation
Indices: 712587--712624 Score: 53
Period size: 13 Copynumber: 2.6 Consensus size: 15
712577 ATTTAATTAA
712587 AAAATTATATGAAATT
1 AAAATTATA-GAAATT
712603 AAAATTATA-AAA-T
1 AAAATTATAGAAATT
712616 AAAATTATA
1 AAAATTATA
712625 TTTATTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 3 0.14
16 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATTATAGAAATT
Found at i:714593 original size:39 final size:39
Alignment explanation
Indices: 714541--714675 Score: 207
Period size: 39 Copynumber: 3.5 Consensus size: 39
714531 GAAGTGGCTT
*
714541 CTTGTACACTGGAACTGGATGAGGCTTGTACACTGGCGG
1 CTTGTAAACTGGAACTGGATGAGGCTTGTACACTGGCGG
*
714580 CTTGTAAACTGGAATTGGATGAGGCTTGTACACTGGCGG
1 CTTGTAAACTGGAACTGGATGAGGCTTGTACACTGGCGG
* * *
714619 CTTGTAAACTGGAACTGGATGAGGCTTATACACCGGAGG
1 CTTGTAAACTGGAACTGGATGAGGCTTGTACACTGGCGG
* *
714658 CTTGTAGATTGGAACTGG
1 CTTGTAAACTGGAACTGG
714676 TGGAGGAAGT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.27
Consensus pattern (39 bp):
CTTGTAAACTGGAACTGGATGAGGCTTGTACACTGGCGG
Found at i:717087 original size:20 final size:17
Alignment explanation
Indices: 717046--717095 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
717036 TGATTAAAAA
*
717046 TAATAAATTATTATATT
1 TAATAAAATATTATATT
717063 TAATAAAATATTATCATT
1 TAATAAAATATTAT-ATT
*
717081 ATAAATAATATATTA
1 -T-AATAAAATATTA
717096 ATTAATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.46
18 3 0.11
19 1 0.04
20 11 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAAAATATTATATT
Found at i:717111 original size:40 final size:40
Alignment explanation
Indices: 717038--717113 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
717028 CTATTAAATG
* *
717038 ATTAAAAATAATAAATTATTATATTTAATAAAATATTATC
1 ATTAAAAATAATAAATTATTATATTGAAAAAAATATTATC
* *
717078 ATTATAAATAATATATTAATTA-ATTGAAAAAAATAT
1 ATTAAAAATAATAAATT-ATTATATTGAAAAAAATAT
717114 ATATTTACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (40 bp):
ATTAAAAATAATAAATTATTATATTGAAAAAAATATTATC
Found at i:718346 original size:26 final size:25
Alignment explanation
Indices: 718286--718347 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
718276 GTATTGTAAT
* *
718286 TTAAATTTAAAATTATTAATTATTAA
1 TTAAA-TTAAAATAATTAATAATTAA
**
718312 TTATTTTAAAATAATTAAATAATTAA
1 TTAAATTAAAATAATT-AATAATTAA
718338 TTAAATTAAA
1 TTAAATTAAA
718348 TTTTAATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAAATTAAAATAATTAATAATTAA
Found at i:722298 original size:30 final size:30
Alignment explanation
Indices: 722235--722298 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
722225 CACTCATAAT
* * * *
722235 TTTTAAATTTTTAAATTTATTTTATATTAA
1 TTTTAAAATTTTAAATATATATTAAATTAA
722265 TTTTAAAATTTTAAA-ATATATTAAATTAGA
1 TTTTAAAATTTTAAATATATATTAAATTA-A
722295 TTTT
1 TTTT
722299 TTATTTTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTTAAAATTTTAAATATATATTAAATTAA
Found at i:722524 original size:29 final size:29
Alignment explanation
Indices: 722455--722528 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
722445 TTAAGATACA
*
722455 AAATATTAAATAATTTAATTAATATATTTT
1 AAATATTAAA-AATTTAATTAAAATATTTT
*
722485 AAATTTTAAAAA-TTAATATAAAATATTTT
1 AAATATTAAAAATTTAAT-TAAAATATTTT
*
722514 AAATAAT-AAAATTTA
1 AAATATTAAAAATTTA
722529 TTATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 9 0.24
29 20 0.53
30 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATATTAAAAATTTAATTAAAATATTTT
Found at i:722532 original size:3 final size:3
Alignment explanation
Indices: 722526--722569 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
722516 ATAATAAAAT
722526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
722570 CCACTACCCG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:734022 original size:2 final size:2
Alignment explanation
Indices: 734010--734044 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
734000 TCTCATGAGA
*
734010 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
734045 CTGACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:735225 original size:23 final size:23
Alignment explanation
Indices: 735199--735247 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
735189 AATTACCTAA
*
735199 TTATTATA-TAATTATATATTTAT
1 TTATTATATTAAATATATATTT-T
735222 TTATTATATTAAATATATATTTT
1 TTATTATATTAAATATATATTTT
735245 TTA
1 TTA
735248 AATAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTATATTAAATATATATTTT
Found at i:735258 original size:24 final size:23
Alignment explanation
Indices: 735199--735261 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
735189 AATTACCTAA
* *
735199 TTATTATATAATTATATATTTAT
1 TTATAATATAAATATATATTTAT
*
735222 TTATTATATTAAATATATATTT-T
1 TTATAATA-TAAATATATATTTAT
735245 TTAAATAATATAAATAT
1 TT--ATAATATAAATAT
735262 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 11 0.31
24 19 0.54
25 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATAATATAAATATATATTTAT
Found at i:735273 original size:19 final size:20
Alignment explanation
Indices: 735238--735279 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
735228 TATTAAATAT
*
735238 ATATTTTTTAAATAATATAA
1 ATATTTTTTAAATAATAAAA
735258 ATATTTTTTAAA-AATAAAA
1 ATATTTTTTAAATAATAAAA
735277 ATA
1 ATA
735280 AAAAGGGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTTTTAAATAATAAAA
Found at i:742234 original size:26 final size:26
Alignment explanation
Indices: 742175--742274 Score: 105
Period size: 28 Copynumber: 3.8 Consensus size: 26
742165 AAAAATTAGT
* * *
742175 CACCAATTTTGACAAATAACAAG--C
1 CACCATTTTTGACAAACAAAAAGAAC
*
742199 CACCATTTTTGACAAACAAAAAGAAT
1 CACCATTTTTGACAAACAAAAAGAAC
*
742225 CACCATTTTTGACAAATAAAAAAAGAAC
1 CACCATTTTTGAC-AA-ACAAAAAGAAC
* *
742253 CATCATTTTTGACAAACTAAAA
1 CACCATTTTTGACAAACAAAAA
742275 TGGTGGCTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
24 20 0.32
26 18 0.29
27 4 0.06
28 21 0.33
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (26 bp):
CACCATTTTTGACAAACAAAAAGAAC
Found at i:747664 original size:26 final size:25
Alignment explanation
Indices: 747614--747664 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
747604 AATAAAATAA
*
747614 TTAAAATAAAATAAAAATATATATT
1 TTAAAATAAAATAAAAAAATATATT
*
747639 TTAAAATTTAAATAATAAAAAT-TATT
1 TTAAAA-TAAAATAA-AAAAATATATT
747665 AATTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 11 0.50
27 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TTAAAATAAAATAAAAAAATATATT
Found at i:751992 original size:33 final size:33
Alignment explanation
Indices: 751916--752098 Score: 226
Period size: 33 Copynumber: 5.5 Consensus size: 33
751906 GTAAAAACCA
* *
751916 CCATTTAATCAACAATGGCAACCTACCAAATCAC
1 CCATTTAATCAACAATGGTAAACTACCAAAT-AC
* **
751950 CCATTTAATCAACAATGGTAAGCTACCAAATTT
1 CCATTTAATCAACAATGGTAAACTACCAAATAC
*
751983 CCATTTAATCAACAATGGTAAGCTACCAAAT-C
1 CCATTTAATCAACAATGGTAAACTACCAAATAC
* * *
752015 TCCATTTAGTCAACAATGGCAAACCACCAAATCAC
1 -CCATTTAATCAACAATGGTAAACTACCAAAT-AC
*
752050 CCATTTAATCAACAATGGTAAACTACTAAAT-C
1 CCATTTAATCAACAATGGTAAACTACCAAATAC
752082 ACCATTTAATCAACAAT
1 -CCATTTAATCAACAAT
752099 TCTCCCACTT
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
32 1 0.01
33 74 0.56
34 56 0.42
35 1 0.01
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (33 bp):
CCATTTAATCAACAATGGTAAACTACCAAATAC
Found at i:752028 original size:100 final size:100
Alignment explanation
Indices: 751916--752098 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
751906 GTAAAAACCA
*
751916 CCATTTAATCAACAATGGC-AACCTACCAAATCACCCATTTAATCAACAATGGTAAGCTACCAAA
1 CCATTTAATCAACAATGGCAAACC-ACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAA
**
751980 TTTCCATTTAATCAACAATGGTAAGCTACCAAATCT
65 TCACCATTTAATCAACAATGGTAAGCTACCAAATCT
* *
752016 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAAAT
1 CCATTTAATCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
752081 CACCATTTAATCAACAAT
66 CACCATTTAATCAACAAT
752099 TCTCCCACTT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 73 0.95
101 4 0.05
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (100 bp):
CCATTTAATCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCT
Found at i:752054 original size:67 final size:66
Alignment explanation
Indices: 751916--752098 Score: 249
Period size: 67 Copynumber: 2.7 Consensus size: 66
751906 GTAAAAACCA
* * * * *
751916 CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCA-CCATTTAATCAACAATGGCAAACCACCAAAT
**
751981 TT
65 AC
* * *
751983 CCATTTAATCAACAATGGTAAGCTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAATC
1 CCATTTAATCAACAATGGTAAACTACCAAATCACCATTTAATCAACAATGGCAAACCACCAAAT-
752048 AC
65 AC
*
752050 CCATTTAATCAACAATGGTAAACTACTAAATCACCATTTAATCAACAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCACCATTTAATCAACAAT
752099 TCTCCCACTT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 27 0.26
67 75 0.74
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (66 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCACCATTTAATCAACAATGGCAAACCACCAAATA
C
Found at i:761597 original size:14 final size:15
Alignment explanation
Indices: 761562--761634 Score: 55
Period size: 14 Copynumber: 5.0 Consensus size: 15
761552 TGATTAATTA
761562 AAATATAATATAAATT
1 AAATATAATATAAA-T
**
761578 TGATATAATA-AAAT
1 AAATATAATATAAAT
*
761592 AAATATAA-ATATAT
1 AAATATAATATAAAT
761606 AAATAT-ATCA-AAAT
1 AAATATAAT-ATAAAT
**
761620 TTATATAATATAAAT
1 AAATATAATATAAAT
761635 TATTAATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
13 2 0.05
14 24 0.55
15 10 0.23
16 8 0.18
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (15 bp):
AAATATAATATAAAT
Found at i:761637 original size:14 final size:14
Alignment explanation
Indices: 761564--761643 Score: 51
Period size: 16 Copynumber: 5.6 Consensus size: 14
761554 ATTAATTAAA
761564 ATATAATATAAATTT
1 ATATAATATAAA-TT
*
761579 GATATAATA-AAATAA
1 -ATATAATATAAAT-T
*
761594 ATATAAATATATAAAT
1 ATAT-AATATA-AATT
* *
761610 ATATCA-A-AATTT
1 ATATAATATAAATT
761622 ATATAATATAAATT
1 ATATAATATAAATT
761636 AT-TAATAT
1 ATATAATAT
761644 TTCAAATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
12 7 0.14
13 8 0.16
14 12 0.24
15 8 0.16
16 13 0.26
17 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (14 bp):
ATATAATATAAATT
Found at i:761649 original size:32 final size:32
Alignment explanation
Indices: 761588--761663 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
761578 TGATATAATA
761588 AAATAAATATAAATATATAAATATATCAAAATTT
1 AAAT-AATATAAATATATAAATATATC-AAATTT
* * *
761622 ATATAATATAAAT-TATTAATATTTCAAATTT
1 AAATAATATAAATATATAAATATATCAAATTT
761653 AAATAGATATA
1 AAATA-ATATA
761664 TAAAATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.27
32 15 0.41
33 9 0.24
34 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (32 bp):
AAATAATATAAATATATAAATATATCAAATTT
Found at i:763379 original size:7 final size:7
Alignment explanation
Indices: 763369--763393 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
763359 TAATTTTAAT
763369 ATTTATA
1 ATTTATA
763376 ATTTATA
1 ATTTATA
763383 ATTTATA
1 ATTTATA
763390 ATTT
1 ATTT
763394 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTATA
Found at i:763927 original size:22 final size:21
Alignment explanation
Indices: 763900--763965 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
763890 GATAAAAATT
*
763900 TATTAAATTTTAAT-CTTTATA
1 TATTAAATTTTAATATTTTA-A
763921 TAATTAAA-TTTAATATTTTAA
1 T-ATTAAATTTTAATATTTTAA
* *
763942 TATTATAATTTTAAAATTATAA
1 TATTA-AATTTTAATATTTTAA
763964 TA
1 TA
763966 AATAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.11
21 11 0.29
22 23 0.61
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAAATTTTAATATTTTAA
Found at i:763941 original size:14 final size:15
Alignment explanation
Indices: 763924--763965 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
763914 CTTTATATAA
763924 TTAAATT-TAATATT
1 TTAAATTATAATATT
763938 TTAATATTATAAT-TT
1 TTAA-ATTATAATATT
*
763953 TAAAATTATAATA
1 TTAAATTATAATA
763966 AATAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAATTATAATATT
Found at i:765280 original size:2 final size:2
Alignment explanation
Indices: 765273--765325 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
765263 CCAATAACAT
765273 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
765315 TG TG TG TG TG T
1 TG TG TG TG TG T
765326 ATATATATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:766108 original size:160 final size:160
Alignment explanation
Indices: 765910--766358 Score: 672
Period size: 160 Copynumber: 2.8 Consensus size: 160
765900 TGATTTTTAT
* * * **
765910 TTTGTTTTAATTTCCATGGTTATCA-TTAGAATGATAATCTCTTGTATTGTCATGATCAGATTGT
1 TTTGTTTTATTTTCAAT-GTTATTATTTAGAATGATAATCTAATGTATTG-CATGATCAGATTGT
* *
765974 TAGGATCAGATATTAGGAACAG-TTCTTTAATTGATAAACCCTGCTTGAATTTGTTGTTTCGGAA
64 TAGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGAA
*
766038 ATAT-TTTGATAAACCTTGTTTGGGGTTTTGA
129 ATATATTCGATAAACCTTGTTTGGGGTTTTGA
766069 TTTGTTTTAGTTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGCCATGATCAGATTGT
1 TTTGTTTTA-TTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTG-CATGATCAGATTGT
* *
766134 TAGGATCAGATATTAGG-ACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCATTGTTTTGGAA
64 TAGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGAA
* * *
766198 GTATATTCGATAAGCCTTTTTTGGGGTTTTGA
129 ATATATTCGATAAACCTTGTTTGGGGTTTTGA
*
766230 TTTGTTTTACTTTTCAATGTTATTATTTAGAATGATAATCTAATGTGTTGCTATGATCAGATTGT
1 TTTGTTTTA-TTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGC-ATGATCAGATTGT
* *
766295 TAGGATAAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATACGTTGTTTCGGA
64 TAGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGA
766359 TGTATACTTG
Statistics
Matches: 264, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
159 19 0.07
160 101 0.38
161 101 0.38
162 43 0.16
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (160 bp):
TTTGTTTTATTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGCATGATCAGATTGTTA
GGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGAAAT
ATATTCGATAAACCTTGTTTGGGGTTTTGA
Found at i:766288 original size:161 final size:161
Alignment explanation
Indices: 765910--766364 Score: 677
Period size: 161 Copynumber: 2.8 Consensus size: 161
765900 TGATTTTTAT
* * * **
765910 TTTGTTTTAATTTCCATGGTTATCA-TTAGAATGATAATCTCTTGTATTG-TCATGATCAGATTG
1 TTTGTTTTATTTTCAAT-GTTATTATTTAGAATGATAATCTAATGTATTGCT-ATGATCAGATTG
* *
765973 TTAGGATCAGATATTAGGAACAG-TTCTTTAATTGATAAACCCTGCTTGAATTTGTTGTTTCGGA
64 TTAGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGA
* *
766037 AATAT-TTTGATAAACCTTGTTTGGGGTTTTGA
129 AGTATATTCGATAAACCTTGTTTGGGGTTTTGA
*
766069 TTTGTTTTAGTTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGCCATGATCAGATTGT
1 TTTGTTTTA-TTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGCTATGATCAGATTGT
* *
766134 TAGGATCAGATATTAGG-ACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCATTGTTTTGGAA
65 TAGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGAA
* *
766198 GTATATTCGATAAGCCTTTTTTGGGGTTTTGA
130 GTATATTCGATAAACCTTGTTTGGGGTTTTGA
*
766230 TTTGTTTTACTTTTCAATGTTATTATTTAGAATGATAATCTAATGTGTTGCTATGATCAGATTGT
1 TTTGTTTTA-TTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGCTATGATCAGATTGT
* * *
766295 TAGGATAAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATACGTTGTTTCGGAT
65 TAGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGAA
766360 GTATA
130 GTATA
766365 CTTGCAAACC
Statistics
Matches: 268, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
159 19 0.07
160 99 0.37
161 102 0.38
162 48 0.18
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (161 bp):
TTTGTTTTATTTTCAATGTTATTATTTAGAATGATAATCTAATGTATTGCTATGATCAGATTGTT
AGGATCAGATATTAGGAACAGATTCTTTAGTTGATAAACCCTGCTTGAATTCGTTGTTTCGGAAG
TATATTCGATAAACCTTGTTTGGGGTTTTGA
Found at i:770745 original size:21 final size:20
Alignment explanation
Indices: 770715--770754 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
770705 TAAATTTTTT
770715 AAAATTTTTTATATATTTAA
1 AAAATTTTTTATATATTTAA
*
770735 AAAATTATTTTTTATATTTA
1 AAAATT-TTTTATATATTTA
770755 TATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AAAATTTTTTATATATTTAA
Found at i:777119 original size:23 final size:21
Alignment explanation
Indices: 777092--777144 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
777082 GATAATTTTG
* *
777092 AATATGATATAAATATATTACAA
1 AATATAATATAAA-AAATTA-AA
777115 AATATAATATAAAAAATTAAA
1 AATATAATATAAAAAATTAAA
777136 AATA-AATAT
1 AATATAATAT
777145 GTCAAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.18
21 6 0.21
22 5 0.18
23 12 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AATATAATATAAAAAATTAAA
Found at i:777523 original size:4 final size:4
Alignment explanation
Indices: 777514--777545 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
777504 GAACTACTAG
777514 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
777546 TGATTGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:778977 original size:18 final size:18
Alignment explanation
Indices: 778954--778988 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
778944 ATAAAATTTG
778954 ATCCGTCCAATTAGTTTA
1 ATCCGTCCAATTAGTTTA
**
778972 ATCCGTCTTATTAGTTT
1 ATCCGTCCAATTAGTTT
778989 TTGCATCGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (18 bp):
ATCCGTCCAATTAGTTTA
Found at i:779168 original size:2 final size:2
Alignment explanation
Indices: 779161--779190 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
779151 TATGGTTAAT
779161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
779191 CAAACAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:781779 original size:27 final size:26
Alignment explanation
Indices: 781748--781811 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
781738 ATTTTACTTG
781748 AAATAAAATTT-TTTAAATATAAATTAA
1 AAATAAAATTTATTTAAATAT-AA-TAA
*
781775 AAATAAATTTTAATTTAAATATAATAA
1 AAATAAAATTT-ATTTAAATATAATAA
*
781802 AAATATAATT
1 AAATAAAATT
781812 ACTAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 21 0.66
28 2 0.06
29 9 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATAAAATTTATTTAAATATAATAA
Found at i:781794 original size:29 final size:29
Alignment explanation
Indices: 781759--781824 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
781749 AATAAAATTT
*
781759 TTTAAATATAAATTAAAAATA-AATT-TTAA
1 TTTAAATAT-AA-TAAAAATATAATTACTAA
781788 TTTAAATATAATAAAAATATAATTACTAA
1 TTTAAATATAATAAAAATATAATTACTAA
781817 TTTAAATA
1 TTTAAATA
781825 AAACAATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.24
28 6 0.18
29 20 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TTTAAATATAATAAAAATATAATTACTAA
Found at i:782654 original size:11 final size:11
Alignment explanation
Indices: 782630--782667 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
782620 TTCATATCAT
782630 TAAATTTATTAA
1 TAAATTT-TTAA
782642 TAAATTTTTAA
1 TAAATTTTTAA
*
782653 T-ATTTTTTAA
1 TAAATTTTTAA
782663 TAAAT
1 TAAAT
782668 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 9 0.39
11 7 0.30
12 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAAATTTTTAA
Found at i:782657 original size:21 final size:20
Alignment explanation
Indices: 782629--782678 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
782619 TTTCATATCA
782629 TTAAATTTATTAATAAATTT
1 TTAAATTTATTAATAAATTT
* *
782649 TTAATATTTTTTAATAAATAT
1 TTAA-ATTTATTAATAAATTT
*
782670 TAAAATTTA
1 TTAAATTTA
782679 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATTTATTAATAAATTT
Found at i:783102 original size:16 final size:16
Alignment explanation
Indices: 783068--783111 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
783058 AATAATAAAA
783068 TAAATTTTAAATTAATT
1 TAAA-TTTAAATTAATT
* *
783085 TAAATTTAATTTATTT
1 TAAATTTAAATTAATT
783101 TAAATTTAAAT
1 TAAATTTAAAT
783112 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAATTTAAATTAATT
Found at i:783286 original size:5 final size:5
Alignment explanation
Indices: 783278--783340 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
783268 TTTAATTTAT
* * * **
783278 TAAAA TAAAA TAAAA TTATAA TAAAA T-AAT TATAA TAATAA TTTAA TAAAA
1 TAAAA TAAAA TAAAA -TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA
783329 TAAAA TAAAA TA
1 TAAAA TAAAA TA
783341 TTATTAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
4 3 0.07
5 35 0.78
6 7 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (5 bp):
TAAAA
Found at i:783290 original size:51 final size:51
Alignment explanation
Indices: 783234--783340 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 51
783224 AGAATGGCTC
* * * ** *
783234 AAATAATACTAAAAGAAAAT-ATTTTAATGATATATTTAATTTATTAAAATA
1 AAATAAAACTAAAAGAAAATAATTATAATAATA-ATTTAATAAAATAAAATA
* * *
783285 AAATAAAATTATAATAAAATAATTATAATAATAATTTAATAAAATAAAATA
1 AAATAAAACTAAAAGAAAATAATTATAATAATAATTTAATAAAATAAAATA
783336 AAATA
1 AAATA
783341 TTATTAAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
51 36 0.78
52 10 0.22
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (51 bp):
AAATAAAACTAAAAGAAAATAATTATAATAATAATTTAATAAAATAAAATA
Found at i:783618 original size:16 final size:14
Alignment explanation
Indices: 783579--783614 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
783569 ATTTTTTAAT
783579 TTATT-AAATTATA
1 TTATTAAAATTATA
*
783592 TTATTAAAATTTTA
1 TTATTAAAATTATA
783606 TTATTAAAA
1 TTATTAAAA
783615 AATTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTAAAATTATA
Found at i:783650 original size:47 final size:43
Alignment explanation
Indices: 783566--783667 Score: 100
Period size: 47 Copynumber: 2.3 Consensus size: 43
783556 TATATACATT
* *
783566 AAAATTTTTTAATTTATTAAATTATATTATTAAAATTTTATTATTAA
1 AAAATTATTT-ATTTATTAAATTATATTATAAAAATTTTA--A-TAA
783613 AAAATTATTTATTTATTTTAAA-TATATT-TAAATAATTTTAATAA
1 AAAATTATTTATTTA--TTAAATTATATTATAAA-AATTTTAATAA
*
783657 AAAATAATTTA
1 AAAATTATTTA
783668 ATATAAATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
44 13 0.27
45 1 0.02
46 8 0.16
47 22 0.45
48 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (43 bp):
AAAATTATTTATTTATTAAATTATATTATAAAAATTTTAATAA
Found at i:783752 original size:14 final size:15
Alignment explanation
Indices: 783728--783767 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
783718 AAAATTTCTT
783728 TAAAATT-ATTTAA-
1 TAAAATTAATTTAAG
783741 TAAAATTAATTTAAG
1 TAAAATTAATTTAAG
*
783756 TAATA-TAATTTA
1 TAAAATTAATTTA
783768 TTAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 13 0.54
15 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TAAAATTAATTTAAG
Found at i:783788 original size:13 final size:13
Alignment explanation
Indices: 783772--783809 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
783762 AATTTATTAA
783772 TAATAAAAAAATT
1 TAATAAAAAAATT
*
783785 TAATAATAAAATT
1 TAATAAAAAAATT
*
783798 TTA-AAAAAAATT
1 TAATAAAAAAATT
783810 AAAATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAATAAAAAAATT
Found at i:784049 original size:26 final size:26
Alignment explanation
Indices: 784013--784063 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
784003 GAGATCGAAA
*
784013 AACTGTCTCGAATCGAACCAATTGAG
1 AACTGTCTCGAATCAAACCAATTGAG
*
784039 AACTGTCTCGAATCAAATCAATTGA
1 AACTGTCTCGAATCAAACCAATTGA
784064 CGACCCGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (26 bp):
AACTGTCTCGAATCAAACCAATTGAG
Found at i:786304 original size:2 final size:2
Alignment explanation
Indices: 786297--786329 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
786287 TATTTAAAAT
786297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
786330 TTGGAGATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:787404 original size:2 final size:2
Alignment explanation
Indices: 787397--787422 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
787387 ATCAAACCTT
787397 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
787423 GAAATGGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:787504 original size:41 final size:40
Alignment explanation
Indices: 787430--787514 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 40
787420 ATAGAAATGG
* * *
787430 ATATGTTATGGCCTTACATTTGCTACAATCATCAAACCTT
1 ATATATTATGGCCTTACATTTGCTACAAGCATCAAACCAT
*
787470 ATATATTATTGCCTTACATTTTGCTACAAGCATCAAACCAT
1 ATATATTATGGCCTTACA-TTTGCTACAAGCATCAAACCAT
787511 ATAT
1 ATAT
787515 GTATAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 16 0.40
41 24 0.60
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (40 bp):
ATATATTATGGCCTTACATTTGCTACAAGCATCAAACCAT
Found at i:788015 original size:2 final size:2
Alignment explanation
Indices: 788008--788045 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
787998 TGGAATCCTC
788008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
788046 ATTTCACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:789719 original size:24 final size:24
Alignment explanation
Indices: 789686--789744 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
789676 TCAGTAATAA
789686 ATTTA-ATTATGTATTCATATCAT
1 ATTTATATTATGTATTCATATCAT
* * *
789709 ATTTATATTATTTTTTTATATCAT
1 ATTTATATTATGTATTCATATCAT
789733 ATTTTATATTAT
1 A-TTTATATTAT
789745 ATTTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 5 0.16
24 16 0.52
25 10 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTATATTATGTATTCATATCAT
Found at i:789744 original size:25 final size:24
Alignment explanation
Indices: 789702--789770 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
789692 TTATGTATTC
*
789702 ATATCATATTTATATTATTTTTTT
1 ATATCATATTTATATTATATTTTT
*
789726 ATATCATATTTTATATTATATTTTA
1 ATATCATA-TTTATATTATATTTTT
*
789751 AT-TTA-ATTTATATTATATTT
1 ATATCATATTTATATTATATTT
789771 ATTTCATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
22 14 0.34
23 1 0.02
24 10 0.24
25 16 0.39
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (24 bp):
ATATCATATTTATATTATATTTTT
Found at i:790976 original size:17 final size:16
Alignment explanation
Indices: 790923--790979 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
790913 TATATTTTTA
*
790923 TTAATATTTATATTAATT
1 TTAATATTT-TAATAA-T
790941 TTAATATTTTAATAA-
1 TTAATATTTTAATAAT
790956 TTAATATTATGTAA-AAT
1 TTAATATT-T-TAATAAT
790973 TTAATAT
1 TTAATAT
790980 AATATTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 8 0.23
16 3 0.09
17 15 0.43
18 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAATATTTTAATAAT
Found at i:790996 original size:23 final size:21
Alignment explanation
Indices: 790953--790996 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
790943 AATATTTTAA
*
790953 TAATTAATATTATGTAAAATT
1 TAATTAATATTATATAAAATT
*
790974 TAATATAATATTTATATATAATT
1 TAAT-TAATA-TTATATAAAATT
790997 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATTAATATTATATAAAATT
Found at i:791430 original size:20 final size:21
Alignment explanation
Indices: 791386--791431 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
791376 AATAAATAAT
*
791386 TTTTAA-TATATTATTTAACA
1 TTTTAATTATAATATTTAACA
*
791406 -GTTAATTATAATATTTAA-A
1 TTTTAATTATAATATTTAACA
791425 TTTTAAT
1 TTTTAAT
791432 AAAATAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTAATTATAATATTTAACA
Found at i:791503 original size:21 final size:20
Alignment explanation
Indices: 791457--791505 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
791447 TTAAAAATAT
791457 TTAATTTAAATTTAATTTAA
1 TTAATTTAAATTTAATTTAA
791477 TATAATTTAAATTTTATATTT-A
1 T-TAATTTAAA-TTTA-ATTTAA
791499 TTAATTT
1 TTAATTT
791506 TTGAATAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 15 0.58
22 6 0.23
23 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTTAAATTTAATTTAA
Found at i:791866 original size:17 final size:19
Alignment explanation
Indices: 791826--791871 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
791816 GATGAAAAAT
*
791826 AAAA-TAAATTTATATATT
1 AAAATTAAATTTATATATA
791844 AAAATTAAATTTAT-T-TA
1 AAAATTAAATTTATATATA
791861 AAAATTAAATT
1 AAAATTAAATT
791872 ATTAATACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 12 0.46
18 5 0.19
19 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTAAATTTATATATA
Found at i:792565 original size:24 final size:25
Alignment explanation
Indices: 792511--792565 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
792501 AATTTTTTAA
* * *
792511 AATAATAAATTAAATTTTATCGATT
1 AATAATAAAATAAATTTAATCAATT
*
792536 TA-AATAAAATAAA-TTAATCAATT
1 AATAATAAAATAAATTTAATCAATT
792559 AATAATA
1 AATAATA
792566 TTTTTATGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 9 0.38
24 14 0.58
25 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
AATAATAAAATAAATTTAATCAATT
Found at i:794495 original size:17 final size:17
Alignment explanation
Indices: 794470--794502 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
794460 TCAAAATAAC
794470 TTTTATATTAATTTAAT
1 TTTTATATTAATTTAAT
*
794487 TTTTTTATTAATTTAA
1 TTTTATATTAATTTAA
794503 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATTAATTTAAT
Found at i:795144 original size:20 final size:21
Alignment explanation
Indices: 795119--795160 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
795109 TTTTGTAAAG
* *
795119 TTATTTTATATGAT-AAAATT
1 TTATTTAAAATGATGAAAATT
795139 TTATTTAAAATGATGAAAATT
1 TTATTTAAAATGATGAAAATT
795160 T
1 T
795161 ATTAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TTATTTAAAATGATGAAAATT
Found at i:795717 original size:11 final size:11
Alignment explanation
Indices: 795701--795731 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
795691 TTTAAAGATT
795701 ATTCTTTACAA
1 ATTCTTTACAA
795712 ATTC-TTACAA
1 ATTCTTTACAA
795722 ATTCTTTACA
1 ATTCTTTACA
795732 GATTTCGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTCTTTACAA
Found at i:796127 original size:19 final size:20
Alignment explanation
Indices: 796095--796147 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
796085 TTTTATTCGT
796095 AAATATAATATATAATATA-TA
1 AAATA-AAT-TATAATATATTA
*
796116 AAATAAATTATATTATATTA
1 AAATAAATTATAATATATTA
* *
796136 TAATAATTTATA
1 AAATAAATTATA
796148 TCGTCACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 15 0.54
21 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAAATTATAATATATTA
Found at i:796416 original size:16 final size:16
Alignment explanation
Indices: 796391--796421 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
796381 AATAAATTTT
*
796391 TGTTTTATATTAAATA
1 TGTTTAATATTAAATA
796407 TGTTTAATATTAAAT
1 TGTTTAATATTAAAT
796422 TTTAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TGTTTAATATTAAATA
Found at i:797005 original size:30 final size:30
Alignment explanation
Indices: 796971--797044 Score: 130
Period size: 30 Copynumber: 2.4 Consensus size: 30
796961 TGAAGTGCAA
796971 TTTTTAAAAATATATATATAATTAATGAAAT
1 TTTTTAAAAA-ATATATATAATTAATGAAAT
*
797002 TTTTTTAAAAATATATATAATTAATGAAAT
1 TTTTTAAAAAATATATATAATTAATGAAAT
797032 TTTTTAAAAAATA
1 TTTTTAAAAAATA
797045 ATAAAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 32 0.78
31 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (30 bp):
TTTTTAAAAAATATATATAATTAATGAAAT
Found at i:802208 original size:17 final size:17
Alignment explanation
Indices: 802186--802239 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
802176 ATAAATAAAT
802186 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
*
802203 ATATT-AATTATTA-ATA
1 ATATTAAAAT-TTATATA
* *
802219 A-ATTATAATTTATAAA
1 ATATTAAAATTTATATA
802235 ATATT
1 ATATT
802240 TTAAATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:802605 original size:2 final size:2
Alignment explanation
Indices: 802598--802626 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
802588 CAATGAAAAC
802598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
802627 TGGGTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:811279 original size:15 final size:15
Alignment explanation
Indices: 811261--811299 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
811251 TATTCATAAA
811261 ATTTT-TATTTTTAAT
1 ATTTTATATTTTT-AT
811276 ATTTTATATTTTTAT
1 ATTTTATATTTTTAT
*
811291 ATTATATAT
1 ATTTTATAT
811300 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTATATTTTTAT
Found at i:814599 original size:28 final size:28
Alignment explanation
Indices: 814563--814631 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
814553 ATTTACATAA
814563 TAAATAATTATTATTTAATA-TAATTTAAT
1 TAAA-AATTATTATTTAA-AGTAATTTAAT
* *
814592 TTAAAATTACT-TTTAAAGTTAATTTAAT
1 TAAAAATTATTATTTAAAG-TAATTTAAT
814620 TAAAAATT-TTAT
1 TAAAAATTATTAT
814632 AAATATTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
26 1 0.03
27 6 0.18
28 23 0.70
29 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TAAAAATTATTATTTAAAGTAATTTAAT
Found at i:814698 original size:15 final size:14
Alignment explanation
Indices: 814678--814728 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
814668 TTAAATTTTT
814678 TATATTAATTAAATA
1 TATATTAATTAAA-A
* *
814693 TATATTATTTATGAA
1 TATATTAATTA-AAA
814708 TAT-TTAATTAAAA
1 TATATTAATTAAAA
*
814721 TATTTTAA
1 TATATTAA
814729 AATTTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 5 0.17
14 10 0.33
15 14 0.47
16 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TATATTAATTAAAA
Found at i:815732 original size:15 final size:16
Alignment explanation
Indices: 815700--815927 Score: 98
Period size: 16 Copynumber: 13.9 Consensus size: 16
815690 TATTTAAAAT
815700 TTTTAAAGTTAATATTTAA
1 TTTTAAA-TT-AT-TTTAA
*
815719 -TTAAAATTATTTTAAA
1 TTTTAAATTATTTT-AA
* *
815735 TTTTAAATCAATTTAA
1 TTTTAAATTATTTTAA
815751 TTTTAAATTATTTTAA
1 TTTTAAATTATTTTAA
*
815767 GTTTAAA-TATTTTAA
1 TTTTAAATTATTTTAA
*
815782 ATTTAAATTA---TAGA
1 TTTTAAATTATTTTA-A
815796 -TTTAAATTTATTTTAA
1 TTTTAAA-TTATTTTAA
**
815812 AATTAAATTAATTAAGTTAA
1 TTTTAAATT-ATT---TTAA
*
815832 TATTTACATTAATTTTTTAA
1 T-TTTAAATT-A--TTTTAA
** *
815852 AATT-AATTAAGTTTAA
1 TTTTAAATT-ATTTTAA
*
815868 TATTTAAATT-TATTAA
1 T-TTTAAATTATTTTAA
*
815884 ATTT-AATTATTTTAA
1 TTTTAAATTATTTTAA
* *
815899 ATTTAAATTATTATAA
1 TTTTAAATTATTTTAA
*
815915 ATTTAAA-TATTTT
1 TTTTAAATTATTTT
815928 TAAATGTGAG
Statistics
Matches: 165, Mismatches: 24, Indels: 44
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.05
14 8 0.05
15 34 0.21
16 57 0.35
17 24 0.15
18 14 0.08
19 2 0.01
20 8 0.05
21 8 0.05
23 2 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTAAATTATTTTAA
Found at i:815787 original size:31 final size:31
Alignment explanation
Indices: 815691--815932 Score: 163
Period size: 31 Copynumber: 8.1 Consensus size: 31
815681 AAATTGAGTT
* *
815691 ATTTAAAAT-TTTTAAAGTT-AATA-TTT-A
1 ATTTAAATTATTTTAAATTTAAATATTTTAA
* *
815718 ATTAAAATTATTTTAAATTTTAAATCAATTTAA
1 ATTTAAATTATTTTAAA-TTTAAAT-ATTTTAA
* *
815751 TTTTAAATTATTTTAAGTTTAAATATTTTAA
1 ATTTAAATTATTTTAAATTTAAATATTTTAA
*
815782 ATTTAAATTA---TAGATTTAAATTTATTTTAA
1 ATTTAAATTATTTTAAATTTAAA--TATTTTAA
* * * *
815812 AATTAAATTA-ATT-AAGTT-AATA-TTTAC
1 ATTTAAATTATTTTAAATTTAAATATTTTAA
* * *
815839 A-TT-AATT-TTTTAAAATTAATTAAGTTTAA
1 ATTTAAATTATTTTAAATTTAAAT-ATTTTAA
* *
815868 TATTTAAATT-TATTAAATTTAATTATTTTAA
1 -ATTTAAATTATTTTAAATTTAAATATTTTAA
*
815899 ATTTAAATTATTATAAATTTAAATATTTTTAA
1 ATTTAAATTATTTTAAATTTAAATA-TTTTAA
815931 AT
1 AT
815933 GTGAGTTGAT
Statistics
Matches: 171, Mismatches: 24, Indels: 35
0.74 0.10 0.15
Matches are distributed among these distances:
25 6 0.04
26 6 0.04
27 14 0.08
28 18 0.11
29 6 0.04
30 32 0.19
31 39 0.23
32 35 0.20
33 15 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTTAAATTATTTTAAATTTAAATATTTTAA
Found at i:815882 original size:22 final size:24
Alignment explanation
Indices: 815723--815903 Score: 91
Period size: 22 Copynumber: 7.7 Consensus size: 24
815713 ATTTAATTAA
*
815723 AATTATTTTAAA-TT-TTAAA-TC
1 AATTATTTTAAATTTATTAAATTT
* *
815744 AATTTAATTTTAAATTATTTTAAGTTT
1 AA-TT-ATTTTAAATT-TATTAAATTT
*
815771 AAATATTTTAAATTTAAATTATAGATTT
1 AATTATTTTAAATTT--ATTA-A-ATTT
815799 AAATTTATTTTAAA---ATTAAA-TT
1 -AA-TTATTTTAAATTTATTAAATTT
** * *
815821 AATTAAGTT-AATAT-TTACA-TT
1 AATTATTTTAAATTTATTAAATTT
* *
815842 AATT-TTTTAAAATTAATTAAGTTT
1 AATTATTTT-AAATTTATTAAATTT
815866 AA-TA-TTTAAATTTATTAAATTT
1 AATTATTTTAAATTTATTAAATTT
815888 AATTATTTTAAATTTA
1 AATTATTTTAAATTTA
815904 AATTATTATA
Statistics
Matches: 121, Mismatches: 17, Indels: 41
0.68 0.09 0.23
Matches are distributed among these distances:
19 2 0.02
20 7 0.06
21 14 0.12
22 22 0.18
23 18 0.15
24 17 0.14
25 15 0.12
26 8 0.07
27 4 0.03
28 3 0.02
29 2 0.02
30 9 0.07
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTATTTTAAATTTATTAAATTT
Found at i:815980 original size:5 final size:5
Alignment explanation
Indices: 815970--816002 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
815960 TTTTTTAATA
815970 AATTT AATTT AATTT AATTT AATTT ATATTT AA
1 AATTT AATTT AATTT AATTT AATTT A-ATTT AA
816003 ATAAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:817578 original size:15 final size:15
Alignment explanation
Indices: 817535--817583 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
817525 TTATATAAAG
*
817535 ATAATAAG-TATAAA
1 ATAATAAGTTATGAA
*
817549 ATAATAAAATTATGAA
1 ATAAT-AAGTTATGAA
*
817565 ATAATAAGTTATGAC
1 ATAATAAGTTATGAA
817580 ATAA
1 ATAA
817584 ATATATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 5 0.17
15 14 0.48
16 10 0.34
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (15 bp):
ATAATAAGTTATGAA
Found at i:817852 original size:19 final size:19
Alignment explanation
Indices: 817805--817853 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
817795 ATCAATTAAC
*
817805 AATTTATTTTATTATTTTA
1 AATTAATTTTATTATTTTA
* *
817824 AAATATTTTTA-TATTTTA
1 AATTAATTTTATTATTTTA
817842 TAATTAATTTTA
1 -AATTAATTTTA
817854 AATATAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTAATTTTATTATTTTA
Found at i:817867 original size:20 final size:19
Alignment explanation
Indices: 817844--817889 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
817834 ATATTTTATA
817844 ATTAATTTTAAATATAAAAT
1 ATTAATTTTAAA-ATAAAAT
*
817864 ATT-A-TTTATAATAAAAT
1 ATTAATTTTAAAATAAAAT
*
817881 AATAATTTT
1 ATTAATTTT
817890 TATAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 4 0.18
20 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTAATTTTAAAATAAAAT
Done.