Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold320
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: 2598547
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 17
Found at i:655074 original size:2 final size:2
Alignment explanation
Indices: 655069--655095 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
655059 ATATATATAT
655069 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
655096 AGATAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:659241 original size:6 final size:6
Alignment explanation
Indices: 659230--659262 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
659220 GAGCTGTTGG
659230 AACCGA AACCGA AACCGA AACCGA AACCGA AAC
1 AACCGA AACCGA AACCGA AACCGA AACCGA AAC
659263 AGCAGCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.33, G:0.15, T:0.00
Consensus pattern (6 bp):
AACCGA
Found at i:659371 original size:181 final size:181
Alignment explanation
Indices: 659067--659406 Score: 671
Period size: 181 Copynumber: 1.9 Consensus size: 181
659057 TTTTTCTTTG
*
659067 AACCGAAACCGAAACAGCAGTTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
1 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
659132 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
66 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
659197 TTGCTGCCGGTCGTGGGATGCACGAGCTGTTGGAACCGAAACCGAAACCGA
131 TTGCTGCCGGTCGTGGGATGCACGAGCTGTTGGAACCGAAACCGAAACCGA
659248 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
1 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
659313 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
66 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
659378 TTGCTGCCGGTCGTGGGATGCACGAGCTG
131 TTGCTGCCGGTCGTGGGATGCACGAGCTG
659407 CAAGCTGCTG
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 158 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (181 bp):
AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
TTGCTGCCGGTCGTGGGATGCACGAGCTGTTGGAACCGAAACCGAAACCGA
Found at i:659585 original size:20 final size:19
Alignment explanation
Indices: 659548--659586 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
659538 GAGCAGACGC
*
659548 TGGAAGCTGCTGCTATGGA
1 TGGAAGCTGCTGCAATGGA
*
659567 TGGAAGGCTGCTGGAATGGA
1 TGGAA-GCTGCTGCAATGGA
659587 AGTTGGAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.23, C:0.13, G:0.41, T:0.23
Consensus pattern (19 bp):
TGGAAGCTGCTGCAATGGA
Found at i:659953 original size:5 final size:5
Alignment explanation
Indices: 659940--660048 Score: 119
Period size: 5 Copynumber: 21.8 Consensus size: 5
659930 GCATGAAAGC
* * * * *
659940 AATGT AATGA AATGC AATGC AATGA AATGA AATGA AATGA AATGC AATGC
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA
* * * * * *
659990 AATGA AATGC AATGC AATGA AATGC AATGA AATGA AATGA AGTGC AATGC
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA
660040 AATGA AATG
1 AATGA AATG
660049 TTTTTGAAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 91 1.00
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (5 bp):
AATGA
Found at i:659958 original size:15 final size:15
Alignment explanation
Indices: 659928--660048 Score: 158
Period size: 15 Copynumber: 8.2 Consensus size: 15
659918 CGGCCATTTC
659928 ATGC-ATGAAA-GCA
1 ATGCAATGAAATGCA
*
659941 ATGTAATGAAATGCA
1 ATGCAATGAAATGCA
*
659956 ATGCAATGAAATGAA
1 ATGCAATGAAATGCA
*
659971 ATGAAATGAAATGCA
1 ATGCAATGAAATGCA
659986 ATGCAATGAAATGCA
1 ATGCAATGAAATGCA
660001 ATGCAATGAAATGCA
1 ATGCAATGAAATGCA
*
660016 ATGAAATGAAATG-A
1 ATGCAATGAAATGCA
* *
660030 AGTGCAATGCAATGAA
1 A-TGCAATGAAATGCA
660046 ATG
1 ATG
660049 TTTTTGAAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
13 3 0.03
14 8 0.08
15 82 0.86
16 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (15 bp):
ATGCAATGAAATGCA
Found at i:660167 original size:44 final size:43
Alignment explanation
Indices: 660060--660160 Score: 193
Period size: 44 Copynumber: 2.3 Consensus size: 43
660050 TTTTGAAATG
660060 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
1 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
660103 CATGAAATGAAAAATTATGCATGCATGAAATGTTACGTGAAAAA
1 CATGAAATG-AAAATTATGCATGCATGAAATGTTACGTGAAAAA
660147 CATGAAATGAAAAT
1 CATGAAATGAAAAT
660161 GCATGCAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 14 0.25
44 43 0.75
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.25
Consensus pattern (43 bp):
CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
Found at i:660315 original size:15 final size:16
Alignment explanation
Indices: 660285--660321 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
660275 AAAATTTTTA
*
660285 TTTTTGTTTATTTATT
1 TTTTTGTTTATATATT
660301 TTTTTGTTTA-ATATT
1 TTTTTGTTTATATATT
660316 TTTTTG
1 TTTTTG
660322 AAATCTCGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTTGTTTATATATT
Found at i:664602 original size:18 final size:18
Alignment explanation
Indices: 664548--664615 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 18
664538 TATAAGTTGA
* *
664548 ATTTTAATTATATTTTTT
1 ATTTAAATTAAATTTTTT
* **
664566 A-TTAATTTAAA-TTAAT
1 ATTTAAATTAAATTTTTT
664582 ATTTAAATTAAATTTTTT
1 ATTTAAATTAAATTTTTT
*
664600 ATTTAAATTTAATTTT
1 ATTTAAATTAAATTTT
664616 AAAATAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 4 0.10
17 16 0.41
18 19 0.49
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTAAATTAAATTTTTT
Found at i:668639 original size:42 final size:42
Alignment explanation
Indices: 668580--668661 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
668570 AGCGTCTATG
*
668580 CTTGTTTCATACACAAGTACTCATAAACTTATTAACAATGGC
1 CTTGTTTCATACACAAGTACTCATAAACTTATTAAAAATGGC
* *
668622 CTTGTTTTATATACAAGTACTCATAAACTTATTAAAAATG
1 CTTGTTTCATACACAAGTACTCATAAACTTATTAAAAATG
668662 ACTTTCATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (42 bp):
CTTGTTTCATACACAAGTACTCATAAACTTATTAAAAATGGC
Found at i:668765 original size:15 final size:14
Alignment explanation
Indices: 668730--668768 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
668720 TCGTAACATT
668730 TATCTCAACATCTA
1 TATCTCAACATCTA
668744 TATCTCAACATCTA
1 TATCTCAACATCTA
668758 TAATCTCAACA
1 T-ATCTCAACA
668769 CCTCCATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.33
Consensus pattern (14 bp):
TATCTCAACATCTA
Found at i:669369 original size:23 final size:25
Alignment explanation
Indices: 669332--669382 Score: 88
Period size: 23 Copynumber: 2.1 Consensus size: 25
669322 GCACTTAATA
669332 ATAATAAAGTATGTATATAATAAAT
1 ATAATAAAGTATGTATATAATAAAT
669357 ATAATAAA-T-TGTATATAATAAAT
1 ATAATAAAGTATGTATATAATAAAT
669380 ATA
1 ATA
669383 TAACACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 17 0.65
24 1 0.04
25 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
ATAATAAAGTATGTATATAATAAAT
Found at i:669383 original size:25 final size:26
Alignment explanation
Indices: 669327--669385 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
669317 TAAATGCACT
669327 TAATA-ATAATAAAGTATGTATATAA
1 TAATATATAATAAAGTATGTATATAA
669352 TAA-ATATAATAAA-T-TGTATATAA
1 TAATATATAATAAAGTATGTATATAA
669375 TAAATATATAA
1 T-AATATATAA
669386 CACTAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 10 0.32
24 4 0.13
25 17 0.55
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (26 bp):
TAATATATAATAAAGTATGTATATAA
Found at i:670688 original size:21 final size:21
Alignment explanation
Indices: 670655--670694 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
670645 TTCAGTTTTT
*
670655 TAAATTTTAAAATTTAAATAA
1 TAAATTTTAAAATTCAAATAA
670676 TAAACTTTT-AAATTCAAAT
1 TAAA-TTTTAAAATTCAAAT
670695 CTATCTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTTAAAATTCAAATAA
Found at i:676863 original size:43 final size:40
Alignment explanation
Indices: 676775--676865 Score: 96
Period size: 43 Copynumber: 2.1 Consensus size: 40
676765 ATATATTATA
*
676775 TTAATATTAAAATAATAAAATTTTATATTTTTAATTATATTT
1 TTAA-ATTAAAATAATAAAATTTTATATTTTAAATTATA-TT
676817 TTAAATTAAAATTAAATAAAATATTATATATTATTAAATTA-A-T
1 TTAAATTAAAA-T-AATAAAAT-TT-TATATT-TTAAATTATATT
676860 TTAAAT
1 TTAAAT
676866 AAGTCGAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
41 7 0.16
42 5 0.12
43 15 0.35
44 2 0.05
45 7 0.16
46 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (40 bp):
TTAAATTAAAATAATAAAATTTTATATTTTAAATTATATT
Found at i:678264 original size:12 final size:12
Alignment explanation
Indices: 678244--678273 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
678234 TAATTAAATC
*
678244 AATTGAATTAAA
1 AATTAAATTAAA
678256 AATTAAATTAAA
1 AATTAAATTAAA
678268 AATTAA
1 AATTAA
678274 TATTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAAATTAAA
Found at i:680478 original size:31 final size:29
Alignment explanation
Indices: 680405--680480 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 29
680395 TCAAATTATT
*
680405 ATTTAAATATTAAAATATATTTTAATTTAA
1 ATTTAAATATTTAAATATATTTT-ATTTAA
680435 ATTTAAA-A-TTAAATATATTTT-TTTAA
1 ATTTAAATATTTAAATATATTTTATTTAA
680461 TATTTTAACATATTTAAATA
1 -A-TTTAA-ATATTTAAATA
680481 ATAAATTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 5 0.12
27 1 0.03
28 17 0.43
29 2 0.05
30 8 0.20
31 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTAAATATTTAAATATATTTTATTTAA
Found at i:680521 original size:12 final size:13
Alignment explanation
Indices: 680506--680534 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
680496 GAATCAAATC
680506 AAATTTAA-ATTT
1 AAATTTAATATTT
680518 AAATTTAATATTT
1 AAATTTAATATTT
680531 AAAT
1 AAAT
680535 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTTAATATTT
Found at i:681242 original size:2 final size:2
Alignment explanation
Indices: 681235--681271 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
681225 ACAAAAAGAA
*
681235 AT AT AT AT AT AT AA AT AT AT AT -T AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
681272 AATTTACAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:681252 original size:14 final size:14
Alignment explanation
Indices: 681233--681271 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
681223 AAACAAAAAG
681233 AAATATATATATAT
1 AAATATATATATAT
681247 AAATATATAT-TAT
1 AAATATATATATAT
681260 ATAATATATATA
1 A-AATATATATA
681272 AATTTACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:681848 original size:13 final size:13
Alignment explanation
Indices: 681830--681855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
681820 TTTAATTTTT
681830 AAATATATAATAA
1 AAATATATAATAA
681843 AAATATATAATAA
1 AAATATATAATAA
681856 TTTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATATAATAA
Found at i:682132 original size:14 final size:14
Alignment explanation
Indices: 682113--682146 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
682103 ATTATGAAGT
*
682113 TATATAAAAATATA
1 TATATAAAAATAGA
*
682127 TATATAAATATAGA
1 TATATAAAAATAGA
682141 TATATA
1 TATATA
682147 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TATATAAAAATAGA
Found at i:682462 original size:16 final size:16
Alignment explanation
Indices: 682436--682523 Score: 99
Period size: 16 Copynumber: 5.6 Consensus size: 16
682426 TAAAGTATCT
*
682436 TAATTTAAATTTATAA
1 TAATTTAAATTTAAAA
* *
682452 TGATTTGAA-TT-AAA
1 TAATTTAAATTTAAAA
682466 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
682482 TAATTTAAATATTAAAA
1 TAATTTAAAT-TTAAAA
* * *
682499 TTATTTTAATTTAATA
1 TAATTTAAATTTAAAA
682515 TAATTTAAA
1 TAATTTAAA
682524 AATTAAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
14 9 0.15
15 4 0.07
16 32 0.54
17 14 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:682510 original size:33 final size:33
Alignment explanation
Indices: 682436--682544 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 33
682426 TAAAGTATCT
* * *
682436 TAATTTAAATTTATAATGATTT--GAATT-AAA
1 TAATTTAAATTTAAAATAATTTAAAAATTAAAA
*
682466 TAATTTAAATTTAAAATAATTTAAATATTAAAA
1 TAATTTAAATTTAAAATAATTTAAAAATTAAAA
* * *
682499 TTATTTTAATTTAATATAATTTAAAAATTAAAA
1 TAATTTAAATTTAAAATAATTTAAAAATTAAAA
*
682532 -AACTTGAAATTTA
1 TAA-TTTAAATTTA
682545 TGGTGGCTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 20 0.31
32 4 0.06
33 40 0.62
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (33 bp):
TAATTTAAATTTAAAATAATTTAAAAATTAAAA
Found at i:684509 original size:18 final size:17
Alignment explanation
Indices: 684488--684522 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
684478 TTTTTTAAAG
*
684488 ATAAAAGTTTATATTTAA
1 ATAAAAATTTAT-TTTAA
684506 ATAAAAATTTATTTTAA
1 ATAAAAATTTATTTTAA
684523 TTATACCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATAAAAATTTATTTTAA
Found at i:684808 original size:21 final size:20
Alignment explanation
Indices: 684771--684809 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
684761 AAAAATTATA
**
684771 TTTATAAATAATGATGAAAT
1 TTTATAAATAAAAATGAAAT
684791 TTTATAAGATAAAAATGAA
1 TTTATAA-ATAAAAATGAA
684810 TAAAAAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
TTTATAAATAAAAATGAAAT
Found at i:684997 original size:20 final size:22
Alignment explanation
Indices: 684955--684999 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
684945 TTCAAGAATT
684955 TTTTTCTTAATTTTTAAATTATA
1 TTTTTCTTAATTTTT-AATTATA
684978 TTTTT-TTAATTTTT-ATTATA
1 TTTTTCTTAATTTTTAATTATA
684998 TT
1 TT
685000 AGTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTCTTAATTTTTAATTATA
Found at i:685000 original size:25 final size:23
Alignment explanation
Indices: 684955--685010 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 23
684945 TTCAAGAATT
684955 TTTTTCTTAATTTTTAAATTA-TA
1 TTTTT-TTAATTTTTAAATTAGTA
684978 TTTTTTTAATTTTTATTATATTAGTTA
1 TTTTTTTAATTTTTA--A-ATTAG-TA
685005 TTTTTT
1 TTTTTT
685011 GACATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 10 0.36
23 5 0.18
24 1 0.04
25 4 0.14
27 8 0.29
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTTTAATTTTTAAATTAGTA
Found at i:685041 original size:24 final size:25
Alignment explanation
Indices: 685009--685056 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
684999 TAGTTATTTT
685009 TTGACATAAATAT-ATTTTAATAAA
1 TTGACATAAATATAATTTTAATAAA
*
685033 TTGATATAAATATAATTTTAATAA
1 TTGACATAAATATAATTTTAATAA
685057 TTTTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
TTGACATAAATATAATTTTAATAAA
Found at i:685808 original size:2 final size:2
Alignment explanation
Indices: 685803--685829 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
685793 ATATAAATTA
685803 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
685830 ACGATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:686240 original size:2 final size:2
Alignment explanation
Indices: 686233--686268 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
686223 AAAACACTCA
686233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
686269 TGTTAGACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:688324 original size:2 final size:2
Alignment explanation
Indices: 688317--688350 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
688307 GAAACAAAAC
*
688317 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
688351 AAAAGCCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:690355 original size:22 final size:21
Alignment explanation
Indices: 690329--690370 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
690319 CTATCAAAAA
690329 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
690349 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
690370 A
1 A
690371 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:698003 original size:53 final size:56
Alignment explanation
Indices: 697946--698056 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 56
697936 TACTTATGAA
* *
697946 ATTAATAAATAATCAAAATTTATTAA-AATATATTTATGTT-A-AATAAT-AATTTT
1 ATTAATAAATAATCAAAATTTAATAATAATATATTAAT-TTCACAATAATAAATTTT
*
697999 ATTAATAAATAATTAAAATTTAATAATAATATATTAATTTCACAATAATAAATTTT
1 ATTAATAAATAATCAAAATTTAATAATAATATATTAATTTCACAATAATAAATTTT
698055 AT
1 AT
698057 ATATTTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
53 26 0.51
54 11 0.22
55 6 0.12
56 8 0.16
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (56 bp):
ATTAATAAATAATCAAAATTTAATAATAATATATTAATTTCACAATAATAAATTTT
Found at i:698025 original size:21 final size:21
Alignment explanation
Indices: 697996--698035 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
697986 AAATAATAAT
*
697996 TTTATTAATAA-ATAATTAAAA
1 TTTAATAATAATAT-ATTAAAA
698017 TTTAATAATAATATATTAA
1 TTTAATAATAATATATTAA
698036 TTTCACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATAATAATATATTAAAA
Found at i:698081 original size:23 final size:23
Alignment explanation
Indices: 698019--698100 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
698009 AATTAAAATT
* *
698019 TAATAATAATATATTAATTTCACAA
1 TAATAA-AATATATTTATTT-ATAA
698044 TAATAAATTTTATATATTTATTATATAA
1 TAATAAA----ATATATTTATT-TATAA
698072 -AATAAAATATATTTATTTATAA
1 TAATAAAATATATTTATTTATAA
698094 TAATAAA
1 TAATAAA
698101 TTTTGTTATA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
22 5 0.10
23 17 0.35
24 1 0.02
25 6 0.12
27 6 0.12
28 13 0.27
29 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAAAATATATTTATTTATAA
Found at i:701645 original size:3 final size:3
Alignment explanation
Indices: 701637--701662 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
701627 GATGGCCATA
701637 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
701663 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:707273 original size:20 final size:21
Alignment explanation
Indices: 707248--707286 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
707238 TTAATTATAT
707248 TTATTA-ATAATATT-TTAAAA
1 TTATTATAT-ATATTATTAAAA
707268 TTATTATATATATTATTAA
1 TTATTATATATATTATTAA
707287 TAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTATATATATTATTAAAA
Found at i:707289 original size:32 final size:30
Alignment explanation
Indices: 707233--707291 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
707223 TTTAAATTAA
707233 TAAAATTAATTATATTTATTAATAATATTT
1 TAAAATTAATTATATTTATTAATAATATTT
*
707263 TAAAATTATTATATATATTATTAATAATA
1 TAAAATTAAT-TATAT-TTATTAATAATA
707292 ATATTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 9 0.35
31 5 0.19
32 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAAATTAATTATATTTATTAATAATATTT
Found at i:707954 original size:3 final size:3
Alignment explanation
Indices: 707946--707997 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
707936 ATATACTTAA
*
707946 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
707994 TAT T
1 TAT T
707998 GGATTTGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:708532 original size:26 final size:27
Alignment explanation
Indices: 708489--708542 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
708479 TTTAAAATTA
** *
708489 ATTAATATATTATTTGTAA-TAATAAT
1 ATTAATATATTAAATGTAAGAAATAAT
*
708515 ATTATTATATTAAATGTAAGAAATAAT
1 ATTAATATATTAAATGTAAGAAATAAT
708542 A
1 A
708543 ATTTTAGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (27 bp):
ATTAATATATTAAATGTAAGAAATAAT
Found at i:712818 original size:24 final size:24
Alignment explanation
Indices: 712781--712840 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
712771 CACAATACAG
*
712781 ATATAATATT-AAAAAATAATTA-AA
1 ATATAAT-TTAAAAAAAT-ATCATAA
*
712805 ATATAATTTAAAAATATATCATAA
1 ATATAATTTAAAAAAATATCATAA
*
712829 ATATAATATAAA
1 ATATAATTTAAA
712841 TATATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATAATTTAAAAAAATATCATAA
Found at i:714317 original size:5 final size:5
Alignment explanation
Indices: 714309--714391 Score: 54
Period size: 5 Copynumber: 17.8 Consensus size: 5
714299 AATTATTTTA
* * *
714309 AATAT AATAT AA-A- AATTT AATAT AAAAT AATAT -ATTT AATA- AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* * *
714355 TATAT AATA- AATTT AAATAT AA-AT AAAAT AAT-T AATA
1 AATAT AATAT AATAT -AATAT AATAT AATAT AATAT AATA
714392 ACAAATAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
3 2 0.03
4 19 0.32
5 34 0.58
6 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:714324 original size:13 final size:13
Alignment explanation
Indices: 714308--714377 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 13
714298 TAATTATTTT
714308 AAATATAATATAA
1 AAATATAATATAA
*
714321 AAATTTAATAT-A
1 AAATATAATATAA
*
714333 AAATAATATATTTAA
1 AAAT-ATA-ATATAA
*
714348 TAAATATTATATAA
1 -AAATATAATATAA
*
714362 TAAATTTAAATATAA
1 -AAATAT-AATATAA
714377 A
1 A
714378 TAAAATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
12 5 0.11
13 12 0.27
14 15 0.33
15 9 0.20
16 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:714353 original size:23 final size:25
Alignment explanation
Indices: 714321--714386 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 25
714311 TATAATATAA
* *
714321 AAATTTAATATAAAATAATATATTT
1 AAATATAATATAAAATAATAAATTT
* *
714346 -AATA-AATATTATATAATAAATTT
1 AAATATAATATAAAATAATAAATTT
714369 AAATATAA-ATAAAATAAT
1 AAATATAATATAAAATAAT
714387 TAATAACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 16 0.48
24 15 0.45
25 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATATAATATAAAATAATAAATTT
Found at i:714379 original size:42 final size:41
Alignment explanation
Indices: 714307--714392 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 41
714297 TTAATTATTT
* *
714307 TAAATATAATATAAAAATTTAATATAAAATAATATATTTAA
1 TAAATATAATATAAAAATTTAATATAAAATAAAATAATTAA
*
714348 TAAATATTATATAATAAATTTAA-ATATAAATAAAATAATTAA
1 TAAATATAATATAA-AAATTTAATATA-AAATAAAATAATTAA
714390 TAA
1 TAA
714393 CAAATAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 16 0.40
42 24 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (41 bp):
TAAATATAATATAAAAATTTAATATAAAATAAAATAATTAA
Found at i:716253 original size:16 final size:16
Alignment explanation
Indices: 716232--716263 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
716222 TTTATTAATC
716232 TTAAATTATTATTAAA
1 TTAAATTATTATTAAA
*
716248 TTAAATTCTTATTAAA
1 TTAAATTATTATTAAA
716264 ATGTTCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATTATTATTAAA
Found at i:717097 original size:19 final size:19
Alignment explanation
Indices: 717050--717099 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
717040 AATTAACTTA
717050 AAATAATATTTAAAAAGAT
1 AAATAATATTTAAAAAGAT
* *
717069 TAATGTATATTTAAAAA-AT
1 AAAT-AATATTTAAAAAGAT
717088 AAATAAATATTT
1 AAAT-AATATTT
717100 TTAAACTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAATAATATTTAAAAAGAT
Found at i:717672 original size:15 final size:16
Alignment explanation
Indices: 717652--717689 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
717642 AGATCTTATT
*
717652 TTTTAATTTTTAA-AA
1 TTTTAATATTTAATAA
717667 TTTTAATATTTAATAA
1 TTTTAATATTTAATAA
717683 -TTTAATA
1 TTTTAATA
717690 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATATTTAATAA
Found at i:717702 original size:14 final size:15
Alignment explanation
Indices: 717665--717725 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 15
717655 TAATTTTTAA
717665 AATTTTAAT-A-TTT
1 AATTTTAATAATTTT
717678 AATAATTTAATAATTTT
1 AAT--TTTAATAATTTT
717695 -ATTTTAATAAGTTTT
1 AATTTTAATAA-TTTT
717710 AAATTTTAAATAATTT
1 -AATTTT-AATAATTT
717726 AACATATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.08
14 8 0.20
15 10 0.25
16 3 0.08
17 11 0.28
18 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
AATTTTAATAATTTT
Found at i:717710 original size:24 final size:24
Alignment explanation
Indices: 717659--717727 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 24
717649 ATTTTTTAAT
717659 TTTTAAAATTTTAATATTTAATAA
1 TTTTAAAATTTTAATATTTAATAA
717683 -TTTAATAATTTT-AT-TTTAATAA
1 TTTTAA-AATTTTAATATTTAATAA
717705 GTTTT-AAATTTTAAATAATTTAA
1 -TTTTAAAATTTT-AAT-ATTTAA
717728 CATATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 11 0.29
26 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (24 bp):
TTTTAAAATTTTAATATTTAATAA
Found at i:719974 original size:28 final size:30
Alignment explanation
Indices: 719943--720004 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
719933 ATCAGCGTGG
* *
719943 AAACAAGTAAAAAAATTC-TTG-AAAGAAA
1 AAACAAATAAAAAAATGCATTGAAAAGAAA
*
719971 AAACAAATAAAGAAATGCATTGCAAAAGAAA
1 AAACAAATAAAAAAATGCATTG-AAAAGAAA
720002 AAA
1 AAA
720005 AATGAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.54
29 3 0.11
31 10 0.36
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.15
Consensus pattern (30 bp):
AAACAAATAAAAAAATGCATTGAAAAGAAA
Found at i:720120 original size:2 final size:2
Alignment explanation
Indices: 720113--720139 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
720103 AATAAACGGC
720113 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 T
720140 TAGAATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:720237 original size:21 final size:21
Alignment explanation
Indices: 720208--720264 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
720198 TCAAATCTTT
* *
720208 AAATAAATAAATTTTAAATTA
1 AAATTAATAAATTATAAATTA
*
720229 AAATTAATAAATTATACATTA
1 AAATTAATAAATTATAAATTA
*
720250 AAATTACAAAAATTA
1 AAATTA-ATAAATTA
720265 AATTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTAATAAATTATAAATTA
Found at i:722001 original size:28 final size:25
Alignment explanation
Indices: 721954--722005 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
721944 TTCTATTTTT
721954 TATTTTTTGTATTCATATTATATTTA
1 TATTTTTTGTATTCATATTA-ATTTA
721980 TATTATTTT-TATATCATAATTAATTT
1 TATT-TTTTGTAT-TCAT-ATTAATTT
722006 TAAAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTTTTTGTATTCATATTAATTTA
Found at i:723076 original size:22 final size:24
Alignment explanation
Indices: 723051--723098 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
723041 GAGTTAAATA
*
723051 TTAAAAATA-TTTAAT-ATTTAAT
1 TTAAAAATATTTTAATAATATAAT
723073 TTAAAAATATTTTAATAATATAAT
1 TTAAAAATATTTTAATAATATAAT
723097 TT
1 TT
723099 TTAATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.39
23 6 0.26
24 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAAAATATTTTAATAATATAAT
Found at i:723159 original size:57 final size:57
Alignment explanation
Indices: 723088--723206 Score: 202
Period size: 57 Copynumber: 2.1 Consensus size: 57
723078 AATATTTTAA
* *
723088 TAATATAATTTTTAATATTTATATTTTGAATGTTATTAAACATACATATTTCTATTT
1 TAATATAATTTTTAATATTTATATTTTAAATATTATTAAACATACATATTTCTATTT
* *
723145 TAATATAATTTTTAATATTTATATTTTAAATATTATTAAACATGCATATTTTTATTT
1 TAATATAATTTTTAATATTTATATTTTAAATATTATTAAACATACATATTTCTATTT
723202 TAATA
1 TAATA
723207 AGTTGATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.55
Consensus pattern (57 bp):
TAATATAATTTTTAATATTTATATTTTAAATATTATTAAACATACATATTTCTATTT
Found at i:723173 original size:14 final size:14
Alignment explanation
Indices: 723133--723178 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
723123 TTAAACATAC
*
723133 ATATTTCTATTTTA
1 ATATTTATATTTTA
*
723147 ATA-TAAT-TTTTA
1 ATATTTATATTTTA
723159 ATATTTATATTTTAA
1 ATATTTATATTTT-A
723174 ATATT
1 ATATT
723179 ATTAAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 8 0.31
13 5 0.19
14 7 0.27
15 6 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTTATATTTTA
Found at i:723195 original size:31 final size:31
Alignment explanation
Indices: 723102--723204 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 31
723092 ATAATTTTTA
* *
723102 ATATTTATATTTTGAATGTTATTAAACATAC
1 ATATTTATATTTTAAATATTATTAAACATAC
* * **
723133 ATATTTCTATTTT-AATATAATT---TTTA-
1 ATATTTATATTTTAAATATTATTAAACATAC
*
723159 ATATTTATATTTTAAATATTATTAAACATGC
1 ATATTTATATTTTAAATATTATTAAACATAC
*
723190 ATATTTTTATTTTAA
1 ATATTTATATTTTAA
723205 TAAGTTGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 12 0.21
27 10 0.18
30 8 0.14
31 26 0.46
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (31 bp):
ATATTTATATTTTAAATATTATTAAACATAC
Found at i:723285 original size:17 final size:17
Alignment explanation
Indices: 723225--723286 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
723215 TTATTTTCAA
723225 ATATATTAATACTTTGT
1 ATATATTAATACTTTGT
* * **
723242 ATATCATTGTCAAAAGTTTAA
1 ATAT-A-T-T-AATACTTTGT
723263 ATATATTAATACTTTGT
1 ATATATTAATACTTTGT
723280 ATATATT
1 ATATATT
723287 TTAAATTTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 17 0.52
18 2 0.06
19 2 0.06
20 2 0.06
21 10 0.30
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
ATATATTAATACTTTGT
Found at i:724716 original size:2 final size:2
Alignment explanation
Indices: 724709--724750 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
724699 ATACCTTCAT
*
724709 TA TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
724749 TA
1 TA
724751 CAGCATATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:725055 original size:57 final size:57
Alignment explanation
Indices: 724962--725077 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
724952 ATCAATTATC
*
724962 ATTATGAACCACTATTATCTAATGTAGGTTGGTATGACCGGTAAAAAATAAAAAACG
1 ATTACGAACCACTATTATCTAATGTAGGTTGGTATGACCGGTAAAAAATAAAAAACG
725019 ATTACGAACCACTATTATCTAATGTAGGTTGGTATGACCGGTAAAAAATAAAAAACG
1 ATTACGAACCACTATTATCTAATGTAGGTTGGTATGACCGGTAAAAAATAAAAAACG
725076 AT
1 AT
725078 ATGATACTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (57 bp):
ATTACGAACCACTATTATCTAATGTAGGTTGGTATGACCGGTAAAAAATAAAAAACG
Found at i:725435 original size:2 final size:2
Alignment explanation
Indices: 725367--725417 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
725357 TAATATGTCA
725367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
725409 AT AT AT AT A
1 AT AT AT AT A
725418 CACACACTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:725870 original size:14 final size:14
Alignment explanation
Indices: 725853--725888 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
725843 TATATTAATT
725853 TTAAAATAAATTTA
1 TTAAAATAAATTTA
**
725867 TTAAAATATTTTTA
1 TTAAAATAAATTTA
725881 TTAAAATA
1 TTAAAATA
725889 GTATTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAAATAAATTTA
Found at i:729521 original size:28 final size:30
Alignment explanation
Indices: 729490--729551 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
729480 ATCAGCGTGG
* *
729490 AAACAAGTAAAAAAATTC-TTG-AAAGAAA
1 AAACAAATAAAAAAATGCATTGAAAAGAAA
*
729518 AAACAAATAAAGAAATGCATTGCAAAAGAAA
1 AAACAAATAAAAAAATGCATTG-AAAAGAAA
729549 AAA
1 AAA
729552 AATGAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.54
29 3 0.11
31 10 0.36
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.15
Consensus pattern (30 bp):
AAACAAATAAAAAAATGCATTGAAAAGAAA
Found at i:730046 original size:19 final size:21
Alignment explanation
Indices: 730022--730066 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
730012 GAAATAGGAC
*
730022 ATAATTATAAC-T-TACAAAA
1 ATAATTAAAACATATACAAAA
730041 ATAATTAAAACATAATACAAAA
1 ATAATTAAAACAT-ATACAAAA
730063 ATAA
1 ATAA
730067 AATAAACAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
22 11 0.50
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAATTAAAACATATACAAAA
Found at i:730191 original size:125 final size:126
Alignment explanation
Indices: 730062--730302 Score: 283
Period size: 125 Copynumber: 1.9 Consensus size: 126
730052 ATAATACAAA
* * * ** *
730062 AATAAAAT-AAACAGGACATATGATATAAATGTATCAAAATTTACATAAAATAAATTATTAACG-
1 AATAAAATAAAACAAGACAAATG-CATAAACATAT-AAAATCTACATAAAATAAATTATTAA-GA
** *
730125 TGTAAAAATTTATATAAATTTATAATAATTTGAACATAA-AA-ATAACATAAACATAAAATGAG
63 CATAAAAATTTATATAAATTTATAATAATTTGAACATAATAATACAACATAAACATAAAATGAG
* * * *
730187 AATAAAATAAAAACAATACAAATGCATGAACATATTAAATCTACGTAAAATAAATTATTAAGACA
1 AATAAAAT-AAAACAAGACAAATGCATAAACATATAAAATCTACATAAAATAAATTATTAAGACA
* *
730252 TAAAAATTTATATAAATTTATAATACTTTGAATATAATAATACAACATAAA
65 TAAAAATTTATATAAATTTATAATAATTTGAACATAATAATACAACATAAA
730303 TAAATCATAA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
124 1 0.01
125 66 0.69
126 9 0.09
127 20 0.21
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.30
Consensus pattern (126 bp):
AATAAAATAAAACAAGACAAATGCATAAACATATAAAATCTACATAAAATAAATTATTAAGACAT
AAAAATTTATATAAATTTATAATAATTTGAACATAATAATACAACATAAACATAAAATGAG
Found at i:730350 original size:11 final size:10
Alignment explanation
Indices: 730336--730400 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
730326 TCTCTGATTT
730336 TTTCCTTTGTC
1 TTTCCTTT-TC
730347 TTTCC-TTTC
1 TTTCCTTTTC
*
730356 TTTCTTTTTC
1 TTTCCTTTTC
*
730366 TTTTCTTTTC
1 TTTCCTTTTC
*
730376 TTTTTCTTTTTTC
1 --TTTC-CTTTTC
730389 TTTCCTTTTC
1 TTTCCTTTTC
730399 TT
1 TT
730401 CATTATTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 6 0.14
10 21 0.48
11 9 0.20
12 3 0.07
13 5 0.11
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTCCTTTTC
Found at i:730367 original size:10 final size:10
Alignment explanation
Indices: 730352--730400 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
730342 TTGTCTTTCC
730352 TTTCTTTCTT
1 TTTCTTTCTT
730362 TTTCTTTTCTT
1 TTTC-TTTCTT
*
730373 TTCTTTTTCTTT
1 TT-TCTTTC-TT
*
730385 TTTCTTTCCT
1 TTTCTTTCTT
730395 TTTCTT
1 TTTCTT
730401 CATTATTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 11 0.33
11 17 0.52
12 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:730369 original size:5 final size:5
Alignment explanation
Indices: 730347--730400 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
730337 TTCCTTTGTC
* * *
730347 TTTCC TTTC- TTTCTT TTTCT TTTCT TTTCT TTT-T CTT-T TTTCT TTCCT
1 TTTCT TTTCT TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
730395 TTTCT T
1 TTTCT T
730401 CATTATTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 10 0.24
5 28 0.67
6 4 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:731255 original size:18 final size:18
Alignment explanation
Indices: 731219--731255 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
731209 TTTGTACTAA
*
731219 AAAATTTATTTTATCTTG
1 AAAATTTATTTTATATTG
*
731237 AAAATTTATTTTTTATTG
1 AAAATTTATTTTATATTG
731255 A
1 A
731256 TCTTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
AAAATTTATTTTATATTG
Found at i:731555 original size:3 final size:3
Alignment explanation
Indices: 731547--731575 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
731537 AGCTCTCTAC
731547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
731576 AATCAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:733000 original size:20 final size:21
Alignment explanation
Indices: 732968--733011 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
732958 TTTAATTTTT
732968 TATTTTATATA-TTTATATCA
1 TATTTTATATATTTTATATCA
732988 TATTTGTAT-TATTTTTATATCA
1 TATTT-TATATA-TTTTATATCA
733010 TA
1 TA
733012 ATTAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 11 0.52
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTTATATATTTTATATCA
Found at i:734042 original size:7 final size:7
Alignment explanation
Indices: 734030--734142 Score: 53
Period size: 7 Copynumber: 16.0 Consensus size: 7
734020 TATTAATAAA
734030 AATATTT
1 AATATTT
734037 AATATTT
1 AATATTT
734044 AAT-TTAT
1 AATATT-T
734051 AAATATTT
1 -AATATTT
*
734059 AATAATAT
1 AAT-ATTT
734067 AGAT-TTT
1 A-ATATTT
734074 AATATTT
1 AATATTT
734081 -ATATTT
1 AATATTT
734087 CAAATATTGTT
1 --AATA-T-TT
* *
734098 AA-ACATA
1 AATA-TTT
734105 AATATTT
1 AATATTT
734112 -ATATTT
1 AATATTT
734118 AATA--T
1 AATATTT
*
734123 AATTTTT
1 AATATTT
734130 AATATTT
1 AATATTT
734137 -ATATTT
1 AATATTT
734143 TAAATATTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 31
0.67 0.07 0.25
Matches are distributed among these distances:
5 4 0.05
6 22 0.27
7 34 0.41
8 10 0.12
9 9 0.11
10 1 0.01
11 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
AATATTT
Found at i:734135 original size:56 final size:56
Alignment explanation
Indices: 734049--734178 Score: 169
Period size: 56 Copynumber: 2.4 Consensus size: 56
734039 TATTTAATTT
*
734049 ATAAATATTTA-A--TAATATAGATTTTAATATTTATATTTCAAATATTGTTAAAC
1 ATAAATATTTATATTTAATATAGATTTTAATATTTATATTTCAAATATTATTAAAC
* **
734102 ATAAATATTTATATTTAATATA-ATTTTTAATATTTATATTTTAAATATTATTAAGT
1 ATAAATATTTATATTTAATATAGA-TTTTAATATTTATATTTCAAATATTATTAAAC
*
734158 ATACATATTTATACTTTAATA
1 ATAAATATTTATA-TTTAATA
734179 ACTTGTTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
53 11 0.16
54 1 0.01
55 1 0.01
56 47 0.70
57 7 0.10
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (56 bp):
ATAAATATTTATATTTAATATAGATTTTAATATTTATATTTCAAATATTATTAAAC
Found at i:734148 original size:15 final size:15
Alignment explanation
Indices: 734103--734150 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
734093 TTGTTAAACA
734103 TAAATATTTATA-TT
1 TAAATATTTATATTT
734117 T-AATA--TA-ATTT
1 TAAATATTTATATTT
*
734128 TTAATATTTATATTT
1 TAAATATTTATATTT
734143 TAAATATT
1 TAAATATT
734151 ATTAAGTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
10 1 0.04
11 5 0.18
12 4 0.14
13 4 0.14
14 3 0.11
15 11 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAATATTTATATTT
Found at i:734166 original size:31 final size:29
Alignment explanation
Indices: 734073--734176 Score: 90
Period size: 31 Copynumber: 3.6 Consensus size: 29
734063 ATATAGATTT
* * *
734073 TAATATTTATATTTCAAATATTGTTAAACA
1 TAATATTTATATTTTAAATATTATT-AATA
* *
734103 TAAATATTTATA-TTT-AATATAATT--TT
1 T-AATATTTATATTTTAAATATTATTAATA
734129 TAATATTTATATTTTAAATATTATTAAGTA
1 TAATATTTATATTTTAAATATTATTAA-TA
*
734159 TACATATTTATACTTTAA
1 TA-ATATTTATATTTTAA
734177 TAACTTGTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
25 10 0.17
26 4 0.07
27 8 0.14
29 7 0.12
30 6 0.10
31 24 0.41
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATATTTATATTTTAAATATTATTAATA
Found at i:734268 original size:14 final size:13
Alignment explanation
Indices: 734251--734305 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
734241 TTATTTGACT
734251 ATTTTAATAATAA
1 ATTTTAATAATAA
*
734264 AATTT-AT-ATAA
1 ATTTTAATAATAA
* *
734275 ATTATATTAATAA
1 ATTTTAATAATAA
734288 ATATTTAATAAT-A
1 AT-TTTAATAATAA
734301 ATTTT
1 ATTTT
734306 TCATATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
11 7 0.21
12 6 0.18
13 13 0.39
14 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTAATAATAA
Found at i:734520 original size:21 final size:22
Alignment explanation
Indices: 734479--734520 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
734469 TAAATATTAT
* *
734479 TATTAAAATATTACTATTTTAG
1 TATTAAAATATTAATAGTTTAG
734501 TATTAAAA-ATTAATAGTTTA
1 TATTAAAATATTAATAGTTTA
734521 ATGATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TATTAAAATATTAATAGTTTAG
Found at i:734586 original size:26 final size:26
Alignment explanation
Indices: 734535--734586 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
734525 TAAATTATTT
* **
734535 TTATTATTTTAATATTTATGTCAATA
1 TTATTATTTTAAAATTTAAATCAATA
734561 TTATTATTTTAAAATTGTAAAT-AATA
1 TTATTATTTTAAAATT-TAAATCAATA
734587 GTTTAATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATTATTTTAAAATTTAAATCAATA
Found at i:734685 original size:26 final size:26
Alignment explanation
Indices: 734633--734687 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
734623 TAATTAATGT
*
734633 TTTAATAATAAATAATATTTTAAAGTA
1 TTTAATAATAAAAAATATTTT-AAGTA
*
734660 TTTAATATTAATAAAATATTTT-AGTA
1 TTTAATAATAA-AAAATATTTTAAGTA
734686 TT
1 TT
734688 AAAAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 10 0.40
28 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
TTTAATAATAAAAAATATTTTAAGTA
Found at i:735169 original size:20 final size:20
Alignment explanation
Indices: 735130--735169 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
735120 TTATTGTCAC
* *
735130 TGTTAACAATTTATTTAATT
1 TGTTAACAATTTAATAAATT
*
735150 TGTTAATAATTTAATAAATT
1 TGTTAACAATTTAATAAATT
735170 AAATTGATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
TGTTAACAATTTAATAAATT
Found at i:736402 original size:15 final size:15
Alignment explanation
Indices: 736346--736407 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
736336 ATTTTATAAT
736346 TAAATTTAAA-TAAA
1 TAAATTTAAATTAAA
*
736360 AAAATTTTAATTATTAAA
1 TAAA-TTTAA--ATTAAA
736378 TATTAATTTAAATTAAA
1 TA--AATTTAAATTAAA
736395 TAAATTTAAATTA
1 TAAATTTAAATTA
736408 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 3 0.08
15 16 0.40
17 9 0.22
18 5 0.12
19 5 0.12
20 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATTTAAATTAAA
Found at i:736874 original size:27 final size:27
Alignment explanation
Indices: 736831--736882 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
736821 TAAATTTATA
*
736831 TAAATTAAATTATTAAT-TTATTAAAAT
1 TAAAATAAATTATTAATATT-TTAAAAT
736858 TAAAATAAA-TATATAATATTTTAAA
1 TAAAATAAATTAT-TAATATTTTAAA
736883 TATAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 3 0.14
27 17 0.77
28 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TAAAATAAATTATTAATATTTTAAAAT
Found at i:736898 original size:22 final size:21
Alignment explanation
Indices: 736857--736896 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
736847 TTTATTAAAA
736857 TTAAAATAAATATATAATATT
1 TTAAAATAAATATATAATATT
736878 TT-AAATATAAT-TATAATAT
1 TTAAAATA-AATATATAATAT
736897 ATAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATAAATATATAATATT
Found at i:736899 original size:29 final size:29
Alignment explanation
Indices: 736862--736921 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
736852 TAAAATTAAA
736862 ATAAATAT-ATAATATTTTAAATAT-AATT
1 ATAAATATAAT-ATATTTTAAATATAAATT
* *
736890 ATAATATATAATATTTTTTATATATAAATT
1 ATAA-ATATAATATATTTTAAATATAAATT
736920 AT
1 AT
736922 TTTATCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 15 0.56
30 8 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
ATAAATATAATATATTTTAAATATAAATT
Found at i:736914 original size:16 final size:16
Alignment explanation
Indices: 736866--736926 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
736856 ATTAAAATAA
736866 ATATAT-AA-TATTTT
1 ATATATAAATTATTTT
* *
736880 AAATAT-AATTA--TA
1 ATATATAAATTATTTT
736893 ATATATAATATT-TTTT
1 ATATATAA-ATTATTTT
736909 ATATATAAATTATTTT
1 ATATATAAATTATTTT
736925 AT
1 AT
736927 CGAATTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 6 0.16
14 8 0.22
15 8 0.22
16 15 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATATAAATTATTTT
Found at i:736914 original size:18 final size:19
Alignment explanation
Indices: 736888--736924 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
736878 TTAAATATAA
736888 TTATAATATATAA-TATTTT
1 TTATAATATA-AATTATTTT
736907 TTAT-ATATAAATTATTTT
1 TTATAATATAAATTATTTT
736925 ATCGAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 11 0.65
19 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATAATATAAATTATTTT
Found at i:748556 original size:3 final size:3
Alignment explanation
Indices: 748548--748580 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
748538 ACGTAACTGG
748548 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
748581 AATAATAAAT
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):
TTA
Found at i:748645 original size:18 final size:17
Alignment explanation
Indices: 748592--748649 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
748582 ATAATAAATT
*
748592 AATAAATATATTATATAAT
1 AATAAATA-ATTA-ATAAA
748611 AATAAA-AATTAATTAAA
1 AATAAATAATTAA-TAAA
748628 AATAAATAATTACATAAA
1 AATAAATAATTA-ATAAA
748646 AATA
1 AATA
748650 TATTATTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 1 0.03
17 13 0.37
18 14 0.40
19 7 0.20
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAATAATTAATAAA
Found at i:752933 original size:21 final size:20
Alignment explanation
Indices: 752905--752945 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
752895 TTTCCTTTGC
752905 TTTTTTTTTAAAAAAAAATA
1 TTTTTTTTTAAAAAAAAATA
* *
752925 TTTTGTTTTTACAAATAAATA
1 TTTT-TTTTTAAAAAAAAATA
752946 CAAAAAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTTTTTTAAAAAAAAATA
Found at i:753958 original size:18 final size:17
Alignment explanation
Indices: 753933--753966 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
753923 AAAAAAATTT
*
753933 AATATATAAATTTTAAA
1 AATATATAAAATTTAAA
753950 AATATTATAAAATTTAA
1 AATA-TATAAAATTTAA
753967 TAATTGATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATAAAATTTAAA
Found at i:755059 original size:2 final size:2
Alignment explanation
Indices: 755052--755081 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
755042 TGCATACAAT
755052 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
755082 AAACAGAAAT
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:755305 original size:2 final size:2
Alignment explanation
Indices: 755300--755350 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
755290 TTTTTGTATG
*
755300 TA TA TA TA TA TA TA TA CA 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
*
755342 TT TA TA TA T
1 TA TA TA TA T
755351 GCATCCCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:758928 original size:3 final size:3
Alignment explanation
Indices: 758920--758946 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
758910 GGGCGAATTG
758920 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
758947 TTTGACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:759267 original size:17 final size:16
Alignment explanation
Indices: 759242--759313 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
759232 TTTTTAAAAT
*
759242 TTTAGATTATTTTGAAG
1 TTTAAATTATTTT-AAG
759259 TTTAAATTATTTT-AG
1 TTTAAATTATTTTAAG
*
759274 ATTTAAATTATTTTAAT
1 -TTTAAATTATTTTAAG
* *
759291 TTTAAATCATTTTAAA
1 TTTAAATTATTTTAAG
759307 TTTAAAT
1 TTTAAAT
759314 CAATCGAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
15 2 0.04
16 34 0.69
17 13 0.27
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTATTTTAAG
Found at i:759303 original size:32 final size:33
Alignment explanation
Indices: 759233--759313 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
759223 TTATCTGAAT
* *
759233 TTTTAAAATTTTAGATTATTTTGAAGTTTAAATTA
1 TTTT-AAA-TTTAAATTATTTTGAAGTTTAAATCA
* *
759268 TTTTAGATTTAAATTATTTT-AATTTTAAATCA
1 TTTTAAATTTAAATTATTTTGAAGTTTAAATCA
759300 TTTTAAATTTAAAT
1 TTTTAAATTTAAAT
759314 CAATCGAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 23 0.56
33 12 0.29
34 2 0.05
35 4 0.10
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (33 bp):
TTTTAAATTTAAATTATTTTGAAGTTTAAATCA
Found at i:759467 original size:15 final size:16
Alignment explanation
Indices: 759447--759481 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
759437 CAGTTTATCG
759447 AGTTTA-ATCATTTTA
1 AGTTTAGATCATTTTA
759462 AGTTTAGATCATTTTA
1 AGTTTAGATCATTTTA
759478 AGTT
1 AGTT
759482 AAGTATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (16 bp):
AGTTTAGATCATTTTA
Found at i:759537 original size:32 final size:32
Alignment explanation
Indices: 759501--759561 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
759491 ATTTAATTTA
* *
759501 AGTTTGAATCATTTCAACTTTAAATTATTTCG
1 AGTTTAAATCATTTCAAATTTAAATTATTTCG
* *
759533 AGTTTAAATCATTTTAAATTTAATTTATT
1 AGTTTAAATCATTTCAAATTTAAATTATT
759562 ATAAATTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (32 bp):
AGTTTAAATCATTTCAAATTTAAATTATTTCG
Found at i:759555 original size:16 final size:16
Alignment explanation
Indices: 759496--759546 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
759486 ATTCGATTTA
*
759496 ATTT-AAGTTTGAATC
1 ATTTCAAGTTTAAATC
* *
759511 ATTTCAACTTTAAATT
1 ATTTCAAGTTTAAATC
*
759527 ATTTCGAGTTTAAATC
1 ATTTCAAGTTTAAATC
759543 ATTT
1 ATTT
759547 TAAATTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (16 bp):
ATTTCAAGTTTAAATC
Found at i:759610 original size:21 final size:20
Alignment explanation
Indices: 759585--759631 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
759575 ATCGATTTCG
*
759585 AATTAAAA-TTAGATTAAATT
1 AATTAAAATTTA-AATAAATT
759605 ATATTAAAATTTAAATAAATT
1 A-ATTAAAATTTAAATAAATT
759626 AATTAA
1 AATTAA
759632 TTTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTAAAATTTAAATAAATT
Found at i:760982 original size:5 final size:5
Alignment explanation
Indices: 760972--761001 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
760962 TGCAAAAACC
760972 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
761002 GAAAGTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:767181 original size:13 final size:13
Alignment explanation
Indices: 767163--767187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
767153 ATTTATGTAA
767163 AAATATAATAATG
1 AAATATAATAATG
767176 AAATATAATAAT
1 AAATATAATAAT
767188 AATAATAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATATAATAATG
Found at i:767803 original size:23 final size:22
Alignment explanation
Indices: 767775--767837 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
767765 GAGTCAGATA
767775 AATATTTATTTTTATTAAAAATT
1 AATATTTATTTTTATTAAAAA-T
* * * *
767798 ATTATTTCTTTATTTTTTAAAAT
1 AATATTTATTT-TTATTAAAAAT
767821 AATATTTATTATTTATT
1 AATATTTATT-TTTATT
767838 TTTATATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
23 22 0.71
24 9 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
AATATTTATTTTTATTAAAAAT
Found at i:767826 original size:26 final size:25
Alignment explanation
Indices: 767777--767840 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
767767 GTCAGATAAA
*
767777 TATTTATTTTTATTAAAAAT-TATTATT
1 TATTTATTTTT-TAAAAAATAT-TTA-T
*
767804 TCTTTATTTTTTAAAATAATATTTAT
1 TATTTATTTTTTAAAA-AATATTTAT
767830 TATTTATTTTT
1 TATTTATTTTT
767841 ATATTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 15 0.47
27 16 0.50
28 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTTATTTTTTAAAAAATATTTAT
Found at i:767844 original size:19 final size:19
Alignment explanation
Indices: 767822--767859 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
767812 TTTTAAAATA
767822 ATATTTATTATTTAT-TTTT
1 ATATTTA-TATTTATATTTT
767841 ATATTTATATTTATATTTT
1 ATATTTATATTTATATTTT
767860 CATAAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
ATATTTATATTTATATTTT
Found at i:767847 original size:6 final size:6
Alignment explanation
Indices: 767822--767858 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
767812 TTTTAAAATA
*
767822 ATATTT ATTATTT ATTTTT ATATTT ATATTT ATATTT
1 ATATTT A-TATTT ATATTT ATATTT ATATTT ATATTT
767859 TCATAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATATTT
Found at i:769209 original size:15 final size:16
Alignment explanation
Indices: 769187--769226 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
769177 TATAATAATA
* *
769187 ATAATTTTTATTATAT
1 ATAATTTTAAATATAT
769203 A-AATTTTAAATATAT
1 ATAATTTTAAATATAT
769218 ATAATTTTA
1 ATAATTTTA
769227 CTATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATTTTAAATATAT
Found at i:769832 original size:23 final size:24
Alignment explanation
Indices: 769806--769870 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 24
769796 AATTTATTTT
769806 ATTATTAATAT-TTAAAATTAA-TA
1 ATTATTAATATATT-AAATTAACTA
769829 ATTA--AATATATTAAATTAACTTA
1 ATTATTAATATATTAAATTAAC-TA
*
769852 ACTATTAATATATTTAAAT
1 ATTATTAATATA-TTAAAT
769871 ACTTTATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 12 0.34
22 2 0.06
23 9 0.26
25 6 0.17
26 6 0.17
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTATTAATATATTAAATTAACTA
Found at i:770775 original size:19 final size:20
Alignment explanation
Indices: 770726--770775 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 20
770716 AGAGAAAAAA
770726 ATTT-AAATATTTATGATAT
1 ATTTAAAATATTTATGATAT
* * * *
770745 ATTCATATTATTT-TTATAT
1 ATTTAAAATATTTATGATAT
770764 ATTTAAAATATT
1 ATTTAAAATATT
770776 ATAAATTTAT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTAAAATATTTATGATAT
Found at i:770990 original size:142 final size:141
Alignment explanation
Indices: 770746--771013 Score: 319
Period size: 142 Copynumber: 1.9 Consensus size: 141
770736 TTATGATATA
* * **
770746 TTCATATTATTTTTATATATTTAAAATATTATAAATTTATTTAAATTTTTATATGTAAGTAATTT
1 TTCATATTATTTTTATATATTTAAAACATTATAAATTTATGTAAATTTTTATATGTAAGTAATAC
* * * *
770811 ATTTTATGTAAATTTTGATAAATTTATATATTTATATTGTATTTATATTATTTTTTTATTTTGTG
66 ATTTTATATAAATTTTAATAAATTTATATATTTATATTGTATTCATACTA-TTTTTTATTTTGTG
770876 TTTATGTTTGTG
130 TTTATGTTTGTG
* *
770888 TTCATATTATTTTT-TATATGTTGAAAGCATTAT-AATTTATGTAATTTTTTACATAT-TAA-TA
1 TTCATATTATTTTTATATAT-TT-AAAACATTATAAATTTATGTAAATTTTT--ATATGTAAGTA
* ** * * *
770949 ATACATTTTATATAGATTTTAATACGTTTATGTATTTATATTTTGTTCATACTATTTTTTATTTT
62 ATACATTTTATATAAATTTTAATAAATTTATATATTTATATTGTATTCATACTATTTTTTATTTT
771014 ATATTTTAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
141 16 0.15
142 75 0.71
143 11 0.10
144 4 0.04
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (141 bp):
TTCATATTATTTTTATATATTTAAAACATTATAAATTTATGTAAATTTTTATATGTAAGTAATAC
ATTTTATATAAATTTTAATAAATTTATATATTTATATTGTATTCATACTATTTTTTATTTTGTGT
TTATGTTTGTG
Found at i:771324 original size:13 final size:12
Alignment explanation
Indices: 771304--771339 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
771294 TTTTTTTATG
771304 TTATATTATATT
1 TTATATTATATT
771316 TTGATATTAT-TT
1 TT-ATATTATATT
771328 TTATATTATATT
1 TTATATTATATT
771340 CATGTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.32
12 8 0.36
13 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TTATATTATATT
Found at i:771896 original size:19 final size:19
Alignment explanation
Indices: 771872--771928 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
771862 AAAAAGAGGG
771872 AATTTTTTTAATTTTGTTT
1 AATTTTTTTAATTTTGTTT
* *
771891 AA-TTTTTAAATATTTAATTT
1 AATTTTTTTAAT-TTT-GTTT
*
771911 AATTTTATTAA-TTTGTTT
1 AATTTTTTTAATTTTGTTT
771929 TTATTATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
18 11 0.37
19 8 0.27
20 5 0.17
21 6 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
AATTTTTTTAATTTTGTTT
Found at i:772134 original size:35 final size:35
Alignment explanation
Indices: 772068--772146 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
772058 ATTAATCAAA
* * *
772068 ATAAATATAATTTTACTCATATTTTATTATTTAAT
1 ATAAATATAATTTTAATAATATTTTAATATTTAAT
*
772103 ATAAATATAATTTTAATAAT-TTTTAAATATTTATT
1 ATAAATATAATTTTAATAATATTTT-AATATTTAAT
*
772138 ATATATATA
1 ATAAATATA
772147 CATATATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (35 bp):
ATAAATATAATTTTAATAATATTTTAATATTTAAT
Found at i:772456 original size:25 final size:26
Alignment explanation
Indices: 772400--772457 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
772390 TTTTTTTGTA
772400 TATTTAAAGCATTATAAATTTATATT
1 TATTTAAAGCATTATAAATTTATATT
*
772426 TA-TTAAA-CATTA-ATAATTTATTTT
1 TATTTAAAGCATTATA-AATTTATATT
772450 TATTTAAA
1 TATTTAAA
772458 TTATGGCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 16 0.55
25 10 0.34
26 2 0.07
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTTAAAGCATTATAAATTTATATT
Found at i:773005 original size:29 final size:28
Alignment explanation
Indices: 772972--773030 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
772962 TCGTCTATTG
772972 ATATCATATTCAT-ATTATTTTTTTATGTT
1 ATATCATATT-ATAATTA-TTTTTTATGTT
* *
773001 ATATCGTATTTTAATTATTTTTTATGTT
1 ATATCATATTATAATTATTTTTTATGTT
773029 AT
1 AT
773031 TTTCGTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (28 bp):
ATATCATATTATAATTATTTTTTATGTT
Found at i:773460 original size:25 final size:24
Alignment explanation
Indices: 773432--773489 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 24
773422 GATTTGATTC
773432 AAATTAAATTAATCAAAA-TTTAAAA
1 AAATTAAA-T-ATCAAAATTTTAAAA
773457 AAATTTTAAATATCAAAATTTTAAAA
1 AAA--TTAAATATCAAAATTTTAAAA
773483 AAATTAA
1 AAATTAA
773490 GTGAAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 4 0.13
25 10 0.33
26 11 0.37
27 5 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATTAAATATCAAAATTTTAAAA
Found at i:773875 original size:3 final size:3
Alignment explanation
Indices: 773861--773892 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
773851 AGTCATATGG
*
773861 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
773893 TTGCAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:774727 original size:13 final size:13
Alignment explanation
Indices: 774709--774766 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
774699 TTTTTATTTA
774709 TATTATAAATATT
1 TATTATAAATATT
*
774722 TATTATATATATT
1 TATTATAAATATT
* *
774735 ATTTTATTAAATTTT
1 -TATTA-TAAATATT
*
774750 TATTATTAATAATT
1 TATTATAAAT-ATT
774764 TAT
1 TAT
774767 AGTATCTATG
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
13 16 0.46
14 13 0.37
15 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATAAATATT
Found at i:774978 original size:23 final size:24
Alignment explanation
Indices: 774952--775014 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
774942 AACTTATTAA
*
774952 TAATAAAAGTTAATGA-TATAATT
1 TAATAAAAGTTAATAATTATAATT
* *
774975 TAATAAAA-TAAAAAATTTATAATT
1 TAATAAAAGTTAATAA-TTATAATT
774999 TATATAAAAGTTAATA
1 TA-ATAAAAGTTAATA
775015 CTAAATTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.13
23 8 0.26
24 9 0.29
25 6 0.19
26 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
TAATAAAAGTTAATAATTATAATT
Done.