Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold485
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: 999764
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 7 of 8
Found at i:771380 original size:25 final size:27
Alignment explanation
Indices: 771352--771401 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
771342 AATTTAATTT
771352 TAAAAT-ATATTTTAA-ATTATTAATG
1 TAAAATAATATTTTAATATTATTAATG
*
771377 TAAAATAATATTTTAATATTTTTAA
1 TAAAATAATATTTTAATATTATTAA
771402 ATAGTAGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 9 0.41
27 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TAAAATAATATTTTAATATTATTAATG
Found at i:771571 original size:3 final size:3
Alignment explanation
Indices: 771563--771595 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
771553 AACTAATTCA
*
771563 AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
771596 GATGATGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:771600 original size:3 final size:3
Alignment explanation
Indices: 771594--771625 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
771584 AATAATAATA
*
771594 ATG ATG ATG ATG ATG ATG ATG TTG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
771626 ATATACCAAA
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:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (3 bp):
ATG
Found at i:772880 original size:19 final size:21
Alignment explanation
Indices: 772836--772882 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
772826 ACACCTAGGT
772836 AAAAAATATATATTTTTCCAAA
1 AAAAAATATATATTTTT-CAAA
772858 AAAAAA-ATA-ATTTTT-AAA
1 AAAAAATATATATTTTTCAAA
*
772876 GAAAAAT
1 AAAAAAT
772883 GAATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
20 6 0.26
21 3 0.13
22 6 0.26
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAAATATATATTTTTCAAA
Found at i:775704 original size:32 final size:32
Alignment explanation
Indices: 775668--775728 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
775658 ATAATGTAAT
** * *
775668 TAATATATTATTTTTAAAAAATTTAATAAAAA
1 TAATATATTAAATATAAAAAATTAAATAAAAA
775700 TAATATATTAAATATAAAAAATTAAATAA
1 TAATATATTAAATATAAAAAATTAAATAA
775729 TAATTAAATA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
TAATATATTAAATATAAAAAATTAAATAAAAA
Found at i:776303 original size:21 final size:20
Alignment explanation
Indices: 776279--776323 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
776269 TAATTTTAAT
776279 TTAAATAAAAACTATATAA-AA
1 TTAAATAAAAA-TA-ATAATAA
*
776300 TTAAATTAAAATAATAATAA
1 TTAAATAAAAATAATAATAA
776320 TTAA
1 TTAA
776324 GAGTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 8 0.36
21 10 0.45
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAATAAAAATAATAATAA
Found at i:776431 original size:23 final size:23
Alignment explanation
Indices: 776386--776431 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
776376 CACTTAAAAA
* * *
776386 TTATTTTTATTTTTAATTTTAAT
1 TTATTTTTATTTTAAAATATAAT
*
776409 TTATTTTTCTTTTAAAATATAAT
1 TTATTTTTATTTTAAAATATAAT
776432 AAAATATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTTTTATTTTAAAATATAAT
Found at i:781077 original size:2 final size:2
Alignment explanation
Indices: 781070--781109 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
781060 TAAATTAATT
781070 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
781110 AAACTAGGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:781747 original size:24 final size:24
Alignment explanation
Indices: 781720--781767 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
781710 TTATTGTAAA
*
781720 AAAATATTATTGAAA-TATTAAAAT
1 AAAATA-TATTGAAAGTAATAAAAT
*
781744 AAAATATATTTAAAGTAATAAAAT
1 AAAATATATTGAAAGTAATAAAAT
781768 TTTAGAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAATATATTGAAAGTAATAAAAT
Found at i:790388 original size:5 final size:5
Alignment explanation
Indices: 790375--790411 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
790365 TAAATTACTG
790375 TTATAT TTATT TTATT TTATT TTAATT TTATT TTATT
1 TTAT-T TTATT TTATT TTATT TT-ATT TTATT TTATT
790412 ATTACAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:790402 original size:11 final size:11
Alignment explanation
Indices: 790380--790409 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
790370 TACTGTTATA
790380 TTTATTTT-AT
1 TTTATTTTAAT
790390 TTTATTTTAAT
1 TTTATTTTAAT
790401 TTTATTTTA
1 TTTATTTTA
790410 TTATTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:790923 original size:7 final size:7
Alignment explanation
Indices: 790911--790942 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
790901 ATAATTTAAA
790911 AAATTTT
1 AAATTTT
790918 AAATTTT
1 AAATTTT
790925 AAA-TTT
1 AAATTTT
790931 AAA-TTT
1 AAATTTT
790937 AAATTT
1 AAATTT
790943 AATTTAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:790951 original size:5 final size:6
Alignment explanation
Indices: 790915--790949 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
790905 TTTAAAAAAT
790915 TTTAAA TTTTAAA TTTAAA TTTAAA TTT-AA TTTAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
790950 TTCGTCGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:791062 original size:21 final size:21
Alignment explanation
Indices: 791029--791085 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
791019 TAATATATTT
791029 TATA-ATTATTTTTAAATAAAA
1 TATATATTA-TTTTAAATAAAA
* *
791050 TATATATTATTTTAATTTAAA
1 TATATATTATTTTAAATAAAA
791071 -A-ATATTATTTTAAAT
1 TATATATTATTTTAAAT
791086 CAAACTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.41
20 1 0.03
21 14 0.44
22 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATATTATTTTAAATAAAA
Found at i:791095 original size:22 final size:20
Alignment explanation
Indices: 791033--791095 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 20
791023 ATATTTTATA
*
791033 ATTATTTTTAAATAAAATATAT
1 ATTA-TTTTAAAT-AAATAAAT
* *
791055 ATTATTTTAATTTAA-AAAT
1 ATTATTTTAAATAAATAAAT
791074 ATTATTTTAAATCAAACTAAAT
1 ATTATTTTAAAT-AAA-TAAAT
791096 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 14 0.42
20 4 0.12
21 7 0.21
22 8 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTTTAAATAAATAAAT
Found at i:792063 original size:2 final size:2
Alignment explanation
Indices: 792056--792093 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
792046 TTAATGGACC
792056 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
792094 GTATTACTCA
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:792166 original size:2 final size:2
Alignment explanation
Indices: 792159--792186 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
792149 ATAGTGGATT
792159 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
792187 ATGTTGATAA
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:792382 original size:16 final size:16
Alignment explanation
Indices: 792353--792433 Score: 94
Period size: 16 Copynumber: 5.0 Consensus size: 16
792343 CCGATCGACC
792353 CAAACCCGAAAATGACT
1 CAAACCC-AAAATGACT
792370 CAAACCCAAAATGA-T
1 CAAACCCAAAATGACT
*
792385 CCGAACCCAAAATGACT
1 -CAAACCCAAAATGACT
* *
792402 CAAATCCGAAATGA-T
1 CAAACCCAAAATGACT
792417 CTAAACCCAAAATGACT
1 C-AAACCCAAAATGACT
792434 TCAACAATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.06
16 42 0.78
17 9 0.17
ACGTcount: A:0.47, C:0.28, G:0.10, T:0.15
Consensus pattern (16 bp):
CAAACCCAAAATGACT
Found at i:792397 original size:32 final size:32
Alignment explanation
Indices: 792352--792433 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 32
792342 ACCGATCGAC
792352 CCAAACCCGAAAATGACTCAAACCCAAAATGAT
1 CCAAACCC-AAAATGACTCAAACCCAAAATGAT
* * *
792385 CCGAACCCAAAATGACTCAAATCCGAAATGAT
1 CCAAACCCAAAATGACTCAAACCCAAAATGAT
*
792417 CTAAACCCAAAATGACT
1 CCAAACCCAAAATGACT
792434 TCAACAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 37 0.84
33 7 0.16
ACGTcount: A:0.46, C:0.29, G:0.10, T:0.15
Consensus pattern (32 bp):
CCAAACCCAAAATGACTCAAACCCAAAATGAT
Found at i:792483 original size:23 final size:23
Alignment explanation
Indices: 792420--792484 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
792410 AAATGATCTA
* *
792420 AACCCAAAATGACTTCAACAATT
1 AACCCCAAATGACTTGAACAATT
792443 AACCCCAAATGACTTGAACAATT
1 AACCCCAAATGACTTGAACAATT
* * *
792466 AACTCGAAATGACCTGAAC
1 AACCCCAAATGACTTGAAC
792485 TTAAGTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.20
Consensus pattern (23 bp):
AACCCCAAATGACTTGAACAATT
Found at i:793153 original size:176 final size:169
Alignment explanation
Indices: 792827--793174 Score: 464
Period size: 176 Copynumber: 2.0 Consensus size: 169
792817 AATAACTATT
* * * *
792827 ATTGTTCTATTTTAAATTTTTTAATATGAAATTGTTTATCACTTGGGTATGATAAAAAGATATAT
1 ATTGTTCTATTTTAAATTTTTTAATATGAAATTCTTTATCACTTGAGTATCATAAAAAAATATAT
* *
792892 TTGTAATTATCATTGTCAATTATCAAATATGCTTTTATTTCTTTAGCTAGAACATAACGATGGAA
66 TTGTAATTATCATTATCAATTATCAAATATGCTTTTATTTCTTTAGCTAGAACATAACAATGGAA
** **
792957 TTGAAAAAAATTTGAGTCGTGATCAAATAAAATTTCAAA
131 TCAAAAAAAATTCAAGTCGTGATCAAATAAAATTTCAAA
* * *
792996 ATTGTTTTATTTTTAATTTTTTAATATGAAATTACTTT-TTACTTGAGTATCATAAAAAAATATA
1 ATTGTTCTATTTTAAATTTTTTAATATGAAATT-CTTTATCACTTGAGTATCATAAAAAAATATA
* *
793060 TTTGTAATTATTATTATCAATTATCAATTATCGAATATGTTTTTATTTCTTTAGCTAGAACATAA
65 TTTG----TA--ATTATC-ATTATCAATTATCAAATATGCTTTTATTTCTTTAGCTAGAACATAA
* *
793125 CAATGGAATCAAAAAAAATTCAAGTCGTGATTAAATGAAATTTCAAA
123 CAATGGAATCAAAAAAAATTCAAGTCGTGATCAAATAAAATTTCAAA
793172 ATT
1 ATT
793175 CAATCGTGGC
Statistics
Matches: 154, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
169 57 0.37
170 3 0.02
173 2 0.01
175 6 0.04
176 86 0.56
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (169 bp):
ATTGTTCTATTTTAAATTTTTTAATATGAAATTCTTTATCACTTGAGTATCATAAAAAAATATAT
TTGTAATTATCATTATCAATTATCAAATATGCTTTTATTTCTTTAGCTAGAACATAACAATGGAA
TCAAAAAAAATTCAAGTCGTGATCAAATAAAATTTCAAA
Found at i:793765 original size:97 final size:97
Alignment explanation
Indices: 793599--793783 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 97
793589 ACTTAATCCG
** *
793599 AAAGTGGGTCTGTAGAAGCTTCTGAGTCAAGGCCTGTCGAAGAGAATTTGGGCCACGAAAGGGGA
1 AAAGTGGGTCTCCAGAAGCTTCTCAGTCAAGGCCTGTCGAAGAGAATTTGGGCCACGAAAGGGGA
793664 TTTTGGGTTGGACATGGCAATGACCTGACCCA
66 TTTTGGGTTGGACATGGCAATGACCTGACCCA
*** *
793696 AAAGTGGGTCTCCAGAAGCTTCTCAGTCAAGGCCTGTCGAAGAGAGA-TTGGGCCGTTAATGGGG
1 AAAGTGGGTCTCCAGAAGCTTCTCAGTCAAGGCCTGTCGAAGAGA-ATTTGGGCCACGAAAGGGG
* *
793760 ATTTTGGGTTGGATATTGCAATGA
65 ATTTTGGGTTGGACATGGCAATGA
793784 TCCAATATCT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 77 0.99
98 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (97 bp):
AAAGTGGGTCTCCAGAAGCTTCTCAGTCAAGGCCTGTCGAAGAGAATTTGGGCCACGAAAGGGGA
TTTTGGGTTGGACATGGCAATGACCTGACCCA
Found at i:796631 original size:29 final size:29
Alignment explanation
Indices: 796572--796642 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
796562 ATTTTTATAA
* *
796572 ATATAAAATATTTTAAATATAATTATGAT
1 ATATAAAATATTATAAATATAATTACGAT
796601 ATAATAAAATA-TATAAATATAA-TACGAAT
1 AT-ATAAAATATTATAAATATAATTACG-AT
*
796630 ATATAAATTATTA
1 ATATAAAATATTA
796643 GATTTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 10 0.28
29 18 0.50
30 8 0.22
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (29 bp):
ATATAAAATATTATAAATATAATTACGAT
Found at i:796632 original size:19 final size:18
Alignment explanation
Indices: 796599--796637 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
796589 TATAATTATG
796599 ATATAATAAAATATATAA
1 ATATAATAAAATATATAA
*
796617 ATATAATACGAATATATAA
1 ATATAATA-AAATATATAA
796636 AT
1 AT
796638 TATTAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATAATAAAATATATAA
Found at i:796752 original size:22 final size:22
Alignment explanation
Indices: 796709--796754 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
796699 CCTGTATTTG
*
796709 TATTTTACACTTATTCTCAATC
1 TATTTTACACTTATTCACAATC
*
796731 TATTTTACACTTATTCAGAATC
1 TATTTTACACTTATTCACAATC
796753 TA
1 TA
796755 AGTAATGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTTTACACTTATTCACAATC
Found at i:796879 original size:10 final size:10
Alignment explanation
Indices: 796864--796898 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
796854 GAATATATTT
796864 AATTTTTTAA
1 AATTTTTTAA
796874 AATTTTTT-A
1 AATTTTTTAA
*
796883 TATTTTTTAA
1 AATTTTTTAA
796893 AATTTT
1 AATTTT
796899 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:796889 original size:19 final size:18
Alignment explanation
Indices: 796861--796898 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
796851 TACGAATATA
796861 TTTAATTTTTTAAAATTT
1 TTTAATTTTTTAAAATTT
796879 TTTATATTTTTTAAAATTT
1 TTTA-ATTTTTTAAAATTT
796898 T
1 T
796899 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTTTTTAAAATTT
Found at i:797473 original size:13 final size:13
Alignment explanation
Indices: 797455--797482 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
797445 TAAAATTAGG
797455 TTAAATATAAATA
1 TTAAATATAAATA
797468 TTAAATATAAATA
1 TTAAATATAAATA
797481 TT
1 TT
797483 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:797607 original size:15 final size:15
Alignment explanation
Indices: 797583--797643 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 15
797573 AAACTCTAAG
797583 TTAAATTTTTA-TTT
1 TTAAATTTTTATTTT
797597 TTAATATTTTTATTTT
1 TTAA-ATTTTTATTTT
797613 TTAAAATTTTTTTATTTT
1 TT-AAA--TTTTTATTTT
*
797631 TTAAATATTTATT
1 TTAAATTTTTATT
797644 AACTTAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 4 0.10
15 14 0.34
16 6 0.15
17 5 0.12
18 12 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTAAATTTTTATTTT
Found at i:797626 original size:18 final size:19
Alignment explanation
Indices: 797588--797640 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
797578 CTAAGTTAAA
797588 TTTTTA-TTTTT-AATA--
1 TTTTTATTTTTTAAATATT
797603 TTTTTATTTTTTAAA-ATT
1 TTTTTATTTTTTAAATATT
797621 TTTTTATTTTTTAAATATT
1 TTTTTATTTTTTAAATATT
797640 T
1 T
797641 ATTAACTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 2 0.06
18 15 0.45
19 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTTTAAATATT
Found at i:798382 original size:48 final size:49
Alignment explanation
Indices: 798300--798426 Score: 154
Period size: 48 Copynumber: 2.6 Consensus size: 49
798290 TTTAAATTAA
* * *
798300 ATTA-AATAA-TTTAATATATAAAAATTTTAATTTAATTCTAAAAGTAAT
1 ATTATAATAATTTTAAAATAT-AAAATATTAATTTAATTATAAAAGTAAT
* *
798348 ATTATAA-CATTTTAAAAT-TAAATATATTAATTTAATTATAAACGTAAT
1 ATTATAATAATTTTAAAATATAAA-ATATTAATTTAATTATAAAAGTAAT
*
798396 ATTATAATAATTTTAATATATAAAATATTAA
1 ATTATAATAATTTTAAAATATAAAATATTAA
798427 CTTTGTTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
47 3 0.04
48 35 0.52
49 25 0.37
50 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (49 bp):
ATTATAATAATTTTAAAATATAAAATATTAATTTAATTATAAAAGTAAT
Found at i:798489 original size:23 final size:22
Alignment explanation
Indices: 798463--798517 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
798453 ATATTTAAAA
798463 ATATTATATATTCTAAAATTAAT
1 ATATTATATATT-TAAAATTAAT
*
798486 ATATTTATATATTTATAATTAAT
1 ATA-TTATATATTTAAAATTAAT
*
798509 AAATTATAT
1 ATATTATAT
798518 TTAAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.21
23 14 0.48
24 9 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTATATATTTAAAATTAAT
Found at i:800052 original size:24 final size:24
Alignment explanation
Indices: 800025--800095 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
800015 GCCACTACCA
*
800025 TCCCTTCCACCGCTCCATCCACCG
1 TCCCTTCCACCACTCCATCCACCG
800049 TCCCTTCCACCACTCCATCCACCG
1 TCCCTTCCACCACTCCATCCACCG
* *
800073 TCCCTTCCGCCACTCCTTCCACC
1 TCCCTTCCACCACTCCATCCACC
800096 ACCTCTTCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.13, C:0.59, G:0.06, T:0.23
Consensus pattern (24 bp):
TCCCTTCCACCACTCCATCCACCG
Found at i:800090 original size:12 final size:12
Alignment explanation
Indices: 800027--800106 Score: 58
Period size: 12 Copynumber: 6.7 Consensus size: 12
800017 CACTACCATC
*
800027 CCTTCCACCGCT
1 CCTTCCACCACT
* *
800039 CCATCCACC-GT
1 CCTTCCACCACT
800050 CCCTTCCACCACT
1 -CCTTCCACCACT
* *
800063 CCATCCACC-GT
1 CCTTCCACCACT
*
800074 CCCTTCCGCCACT
1 -CCTTCCACCACT
800087 CCTTCCACCAC-
1 CCTTCCACCACT
800098 CTCTTCCAC
1 C-CTTCCAC
800107 TGCCTTCACC
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
11 3 0.06
12 48 0.91
13 2 0.04
ACGTcount: A:0.14, C:0.59, G:0.05, T:0.23
Consensus pattern (12 bp):
CCTTCCACCACT
Found at i:800103 original size:24 final size:24
Alignment explanation
Indices: 800026--800106 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
800016 CCACTACCAT
* *
800026 CCCTTCCACCGCTCCATCCACCGT
1 CCCTTCCACCACTCCATCCACCGA
*
800050 CCCTTCCACCACTCCATCCACCGT
1 CCCTTCCACCACTCCATCCACCGA
* *
800074 CCCTTCCGCCACTCCTTCCACC-A
1 CCCTTCCACCACTCCATCCACCGA
800097 CCTCTTCCAC
1 CC-CTTCCAC
800107 TGCCTTCACC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 2 0.04
24 49 0.96
ACGTcount: A:0.14, C:0.59, G:0.05, T:0.22
Consensus pattern (24 bp):
CCCTTCCACCACTCCATCCACCGA
Found at i:800932 original size:18 final size:18
Alignment explanation
Indices: 800906--800941 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
800896 CTGACCTCTT
800906 CCACCTTTCTGGAATGAA
1 CCACCTTTCTGGAATGAA
*
800924 CCACTTTTCTGGAATGAA
1 CCACCTTTCTGGAATGAA
800942 TTGTTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
CCACCTTTCTGGAATGAA
Found at i:804498 original size:191 final size:190
Alignment explanation
Indices: 804187--804567 Score: 615
Period size: 191 Copynumber: 2.0 Consensus size: 190
804177 AACAGTGGCT
* *
804187 GCTACCTTTGTTTTTGCGGCAGGATTCTAAATCAAAATTTAACAACAGAGATAAAGTCAAGAGCT
1 GCTACCTTTGTTTTTGCAGCAGGATTCTAAATCAAAATTCAACAACAGAGATAAAGTCAAGAGCT
*
804252 TGTATGGTTATTATTGTTTTCTGTCCAGCATTTGCCTCAATTTAATACTCACATCATCCTCATCA
66 TGTATGGTTATTATTGTTTTCTGTCCAGCATTTGCCTCAATTCAATACTCACATCATCCTCATCA
* * *
804317 GAATCGTCATCAGAAGAAGAATCTGAACTGCTGGAGGACTTGCCTTTCTTAACAGGTGCA
131 GAATCATCATCAGAAGAAGAATCTGAACTGCTGGAAGACTCGCCTTTCTTAACAGGTGCA
*
804377 GCTACCTTTGTTTTTGCAGCA-TACTTCTAAATCAAAATTCAACAAACA-ATGATAAAGTCAAGA
1 GCTACCTTTGTTTTTGCAGCAGGA-TTCTAAATCAAAATTCAAC-AACAGA-GATAAAGTCAAGA
804440 -CTTTGTATGGTTATTATTGTTTTCTGTCCAGCATTTGCCTCAATTCAATACTCACATCATCCTC
63 GC-TTGTATGGTTATTATTGTTTTCTGTCCAGCATTTGCCTCAATTCAATACTCACATCATCCTC
* * *
804504 ATCAGAATCATCATCAGAAGAAGATTCTGAGCTGCTGGAAGACTCGCCTTTGTTAACAGGTGCA
127 ATCAGAATCATCATCAGAAGAAGAATCTGAACTGCTGGAAGACTCGCCTTTCTTAACAGGTGCA
804568 CAGCCATTTT
Statistics
Matches: 177, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
189 1 0.01
190 40 0.23
191 136 0.77
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (190 bp):
GCTACCTTTGTTTTTGCAGCAGGATTCTAAATCAAAATTCAACAACAGAGATAAAGTCAAGAGCT
TGTATGGTTATTATTGTTTTCTGTCCAGCATTTGCCTCAATTCAATACTCACATCATCCTCATCA
GAATCATCATCAGAAGAAGAATCTGAACTGCTGGAAGACTCGCCTTTCTTAACAGGTGCA
Found at i:804951 original size:211 final size:212
Alignment explanation
Indices: 804365--804962 Score: 975
Period size: 212 Copynumber: 2.8 Consensus size: 212
804355 CTTGCCTTTC
* *
804365 TTAACAGGTGCAGCTACCTTTGTTTTTGCAGCATACTTCTAAATCAAAATTCAACAAACAATGAT
1 TTAACAGCTGCAGCTACCTTTGTTTTTGCAGCAGACTTCTAAATCAAAATTCAACAAACAATGAT
* * * *
804430 AAAGTCAAGA-CTTTGTATGGTTATTATTGTTTTCTGTCCAGCATTTGCCTCAATTCAATACTCA
66 AAAGTCAAGAGC-TTGTATAGTTATTATAGTGTTCTGTCTAGCATTTGCCTCAATTCAATACTCA
* * *
804494 CATCATCCTCATCAGAATCATCATCAGAAGAAGATTCTGAGCTGCTGGAAGACTCGCCTTTGTTA
130 CATCATCCTCATCAGAATCATCATCAGAAGAAGAATCTGAACTGCTGGAAGACTCGCCTTTCTTA
*
804559 ACAGGTGCACAGCCATTT
195 ACAGGTGCACAGACATTT
* * *
804577 TTAACAGCTGTAGCTACCTTTGTTTTTGCAGAAGACTTCTAAATCAAAATTCAACAAACAACGAT
1 TTAACAGCTGCAGCTACCTTTGTTTTTGCAGCAGACTTCTAAATCAAAATTCAACAAACAATGAT
* * *
804642 AAAGTCAAGAGCTTGTATAGTTATCATAGTGCTCTGTCTAGCATTTGCCTCAATTCAAAACTCAC
66 AAAGTCAAGAGCTTGTATAGTTATTATAGTGTTCTGTCTAGCATTTGCCTCAATTCAATACTCAC
* *
804707 ATCATCCTCATCAGAATCATCATCAGAAGAAGAATCTGAACTGCTGGAGGACTCGCTTTTCTTAA
131 ATCATCCTCATCAGAATCATCATCAGAAGAAGAATCTGAACTGCTGGAAGACTCGCCTTTCTTAA
*
804772 CAGGTGCAGAGACATTT
196 CAGGTGCACAGACATTT
*
804789 TTAACAGCCGCAGCTACCTTTGTTTTTGCAGCAGACTTCTAAATCAAAATTCAAC-AACAATGAT
1 TTAACAGCTGCAGCTACCTTTGTTTTTGCAGCAGACTTCTAAATCAAAATTCAACAAACAATGAT
*
804853 AAAGTCAAGAGCTAGTATAGTTATTATAGTGTTCTGTCTAGCATTTGCCTCAATTCAATACTCAC
66 AAAGTCAAGAGCTTGTATAGTTATTATAGTGTTCTGTCTAGCATTTGCCTCAATTCAATACTCAC
*
804918 ATCATCCTCATCAGAATCGTCATCAGAAGAAGAATCTGAACTGCT
131 ATCATCCTCATCAGAATCATCATCAGAAGAAGAATCTGAACTGCT
804963 ATCAGCTTTC
Statistics
Matches: 357, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
211 113 0.32
212 243 0.68
213 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (212 bp):
TTAACAGCTGCAGCTACCTTTGTTTTTGCAGCAGACTTCTAAATCAAAATTCAACAAACAATGAT
AAAGTCAAGAGCTTGTATAGTTATTATAGTGTTCTGTCTAGCATTTGCCTCAATTCAATACTCAC
ATCATCCTCATCAGAATCATCATCAGAAGAAGAATCTGAACTGCTGGAAGACTCGCCTTTCTTAA
CAGGTGCACAGACATTT
Found at i:806469 original size:19 final size:19
Alignment explanation
Indices: 806447--806496 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
806437 ATAAATATTT
* *
806447 TATTTATAAATTATTGAAA
1 TATTTAAAAAATATTGAAA
**
806466 TATTTAAAAAATATTTTAA
1 TATTTAAAAAATATTGAAA
806485 TATTTAAAAAAT
1 TATTTAAAAAAT
806497 CGATGAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TATTTAAAAAATATTGAAA
Found at i:807732 original size:17 final size:18
Alignment explanation
Indices: 807703--807736 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
807693 CATTGTAACA
807703 AGTATGTAATGAAATATT
1 AGTATGTAATGAAATATT
807721 AGTATG-AATGAAATAT
1 AGTATGTAATGAAATAT
807737 GCTGTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (18 bp):
AGTATGTAATGAAATATT
Found at i:813434 original size:37 final size:36
Alignment explanation
Indices: 813385--813458 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 36
813375 AACTTATGAA
813385 TATCAATTCTTTCTACTCCCATTTCTCTCTTCTTTT
1 TATCAATTCTTTCTACTCCCATTTCTCTCTTCTTTT
* *
813421 TATCAGATTCTTTCTATTCCCATTTCTCTTTTCTTTT
1 TATCA-ATTCTTTCTACTCCCATTTCTCTCTTCTTTT
813458 T
1 T
813459 TCTTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 5 0.14
37 30 0.86
ACGTcount: A:0.14, C:0.27, G:0.01, T:0.58
Consensus pattern (36 bp):
TATCAATTCTTTCTACTCCCATTTCTCTCTTCTTTT
Found at i:816293 original size:22 final size:22
Alignment explanation
Indices: 816268--816310 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
816258 TATTTTTATT
816268 TAAAT-TTAATAATAAAAATATA
1 TAAATATTAAT-ATAAAAATATA
816290 TAAATATTAATATAAAAATAT
1 TAAATATTAATATAAAAATAT
816311 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:816367 original size:14 final size:14
Alignment explanation
Indices: 816348--816423 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
816338 ATTTTAAAGT
*
816348 AAATATATAAATAA
1 AAATATAAAAATAA
816362 AAATATAAAAAT-A
1 AAATATAAAAATAA
*
816375 AAATA-AAAAAT-T
1 AAATATAAAAATAA
** *
816387 TTATTTAAAATATAA
1 AAATATAAAA-ATAA
* *
816402 TAATATAAACATAA
1 AAATATAAAAATAA
816416 AAATATAA
1 AAATATAA
816424 TTATTAATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
12 8 0.16
13 10 0.20
14 24 0.49
15 7 0.14
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATATAAAAATAA
Found at i:816375 original size:6 final size:7
Alignment explanation
Indices: 816348--816423 Score: 54
Period size: 6 Copynumber: 11.1 Consensus size: 7
816338 ATTTTAAAGT
816348 AAATATA
1 AAATATA
816355 TAAATA-A
1 -AAATATA
816362 AAATATA
1 AAATATA
816369 AAA-ATA
1 AAATATA
816375 AAATA-A
1 AAATATA
*
816381 AAA-ATT
1 AAATATA
** *
816387 TTATTTA
1 AAATATA
816394 AAATATA
1 AAATATA
816401 ATAATATA
1 A-AATATA
816409 AACATA-A
1 AA-ATATA
816416 AAATATA
1 AAATATA
816423 A
1 A
816424 TTATTAATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
5 1 0.02
6 19 0.36
7 18 0.34
8 15 0.28
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATATA
Found at i:816708 original size:6 final size:6
Alignment explanation
Indices: 816676--816731 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
816666 AATCTTGCTT
* * *
816676 ACCAAA ACGCAAG ACCATA ATCAAA ACCAAA ACCAAA ACCAAA ACCAAA
1 ACCAAA AC-CAAA ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
816725 ACCAAA A
1 ACCAAA A
816732 GCCGAAACCT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.62, C:0.30, G:0.04, T:0.04
Consensus pattern (6 bp):
ACCAAA
Found at i:818189 original size:14 final size:14
Alignment explanation
Indices: 818170--818199 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
818160 TGACTTAAAT
818170 TTTTCATCTTTAGA
1 TTTTCATCTTTAGA
818184 TTTTCATCTTTAGA
1 TTTTCATCTTTAGA
818198 TT
1 TT
818200 ATCTTCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTCATCTTTAGA
Found at i:824780 original size:25 final size:25
Alignment explanation
Indices: 824751--824800 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
824741 AATGATAAAG
824751 AATGTTTATCCATGTTCTTGTATGT
1 AATGTTTATCCATGTTCTTGTATGT
824776 AATGTTTATCCATGTTCTTGTATGT
1 AATGTTTATCCATGTTCTTGTATGT
824801 CCAAGTCGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (25 bp):
AATGTTTATCCATGTTCTTGTATGT
Found at i:826998 original size:12 final size:13
Alignment explanation
Indices: 826981--827014 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
826971 CAATTTGAAT
826981 TTAAAAAAAGA-A
1 TTAAAAAAAGATA
*
826993 TTAAAAAGAGATA
1 TTAAAAAAAGATA
827006 TTAAAAAAA
1 TTAAAAAAA
827015 AAAAGAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (13 bp):
TTAAAAAAAGATA
Found at i:830656 original size:27 final size:27
Alignment explanation
Indices: 830618--830669 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
830608 TCCTTGGTGT
830618 ATTTTAACTTGATTTGAATGAGACAGA
1 ATTTTAACTTGATTTGAATGAGACAGA
830645 ATTTTAACTTGATTTGAATGAGACA
1 ATTTTAACTTGATTTGAATGAGACA
830670 ATTTTCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTAACTTGATTTGAATGAGACAGA
Found at i:831645 original size:16 final size:16
Alignment explanation
Indices: 831624--831654 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
831614 TGTTATAACT
831624 ATTCTATTTAATTTTA
1 ATTCTATTTAATTTTA
*
831640 ATTCTATTTTATTTT
1 ATTCTATTTAATTTT
831655 CACGAAATAA
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:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTCTATTTAATTTTA
Found at i:832094 original size:28 final size:28
Alignment explanation
Indices: 832032--832103 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
832022 CATGATTAAC
*
832032 AATATAAATGCATAAAAAATAATTAAATAT
1 AATATAAAT--ATAAAAAATAATTAAACAT
* *
832062 GATAT-AATATAAAAAATAATATGAACAT
1 AATATAAATATAAAAAATAAT-TAAACAT
832090 AATATAAATATAAA
1 AATATAAATATAAA
832104 TATATTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.33
28 9 0.25
29 11 0.31
30 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (28 bp):
AATATAAATATAAAAAATAATTAAACAT
Found at i:832105 original size:23 final size:21
Alignment explanation
Indices: 832055--832106 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
832045 AAAAAATAAT
*
832055 TAAATATGATATAATATAAAA
1 TAAATATGACATAATATAAAA
*
832076 AATAATATGAACATAATATAAATA
1 TA-AATATG-ACATAATATAAA-A
832100 TAAATAT
1 TAAATAT
832107 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 6 0.24
23 16 0.64
24 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAATATGACATAATATAAAA
Found at i:832140 original size:22 final size:25
Alignment explanation
Indices: 832091--832140 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
832081 TATGAACATA
832091 ATATAAATATAAATATATTAAAATTT
1 ATATAAATATAAATATATT-AAATTT
832117 ATATAAA-ATAAAT-TATT-AATTT
1 ATATAAATATAAATATATTAAATTT
832139 AT
1 AT
832141 TTACATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.29
24 4 0.17
25 6 0.25
26 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATAAATATAAATATATTAAATTT
Found at i:832232 original size:5 final size:5
Alignment explanation
Indices: 832222--832255 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
832212 AAATTTTTCC
* *
832222 TTCTT TTCTT TTCCT TTCTT TTCTT TTCTC TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
832256 CTCCTTGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
TTCTT
Found at i:832240 original size:15 final size:14
Alignment explanation
Indices: 832216--832255 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
832206 CGCCCAAAAT
832216 TTTTCCTTCTTTTC
1 TTTTCCTTCTTTTC
832230 TTTTCCTTTCTTTTC
1 TTTTCC-TTCTTTTC
832245 TTTTCTCTTCT
1 TTTTC-CTTCT
832256 CTCCTTGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.25
15 17 0.71
16 1 0.04
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCCTTCTTTTC
Found at i:834005 original size:2 final size:2
Alignment explanation
Indices: 834000--834024 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
833990 ACCAAAATAC
834000 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 T
834025 TAAATGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:836090 original size:14 final size:15
Alignment explanation
Indices: 836053--836090 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
836043 TATCTAAATT
*
836053 TAAATGATTTGAATCA
1 TAAAT-ATTTAAATCA
836069 TAAATATTTAAATCA
1 TAAATATTTAAATCA
836084 T-AATATT
1 TAAATATT
836091 CTAACCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 10 0.48
16 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (15 bp):
TAAATATTTAAATCA
Found at i:838187 original size:7 final size:7
Alignment explanation
Indices: 838175--838213 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
838165 GAGATACAGC
838175 GAAAAAA
1 GAAAAAA
838182 GAAAAAA
1 GAAAAAA
*
838189 GGAAAAA
1 GAAAAAA
838196 GAAAAAA
1 GAAAAAA
838203 G-AAAAA
1 GAAAAAA
838209 GAAAA
1 GAAAA
838214 CATGGACGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:840566 original size:6 final size:6
Alignment explanation
Indices: 840555--840585 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
840545 CGCTATCTAA
840555 CCCTCG CCCTCG CCCTCG CCCTCG CCCTCG C
1 CCCTCG CCCTCG CCCTCG CCCTCG CCCTCG C
840586 TGTGTCCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.16, T:0.16
Consensus pattern (6 bp):
CCCTCG
Found at i:841627 original size:15 final size:16
Alignment explanation
Indices: 841577--841626 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
841567 TCTAAGATCG
* * *
841577 AAATAATTTGAATCTG
1 AAATAATTTAAATTTA
*
841593 AATTAATTTAAATTTA
1 AAATAATTTAAATTTA
*
841609 AAATAATTTAATTTTA
1 AAATAATTTAAATTTA
841625 AA
1 AA
841627 TTGATCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:843430 original size:18 final size:18
Alignment explanation
Indices: 843401--843448 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
843391 ATATAATATT
*
843401 TTAAAAATATTTTAAATA
1 TTAAAAATATTTTAAAAA
843419 TATAAAAA-ATTTTAAAAA
1 T-TAAAAATATTTTAAAAA
843437 TTAAAAATATTT
1 TTAAAAATATTT
843449 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 15 0.56
19 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAATATTTTAAAAA
Found at i:843455 original size:15 final size:16
Alignment explanation
Indices: 843437--843480 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
843427 ATTTTAAAAA
843437 TTAAAAATATTTAT-T
1 TTAAAAATATTTATAT
843452 TTAAAAATATTTATAT
1 TTAAAAATATTTATAT
843468 TTAAAAAATATTT
1 TT-AAAAATATTT
843481 TTAAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 14 0.52
16 3 0.11
17 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAAATATTTATAT
Found at i:843468 original size:17 final size:17
Alignment explanation
Indices: 843386--843480 Score: 72
Period size: 17 Copynumber: 5.6 Consensus size: 17
843376 TATATAAATA
*
843386 TAAAAATA-TAATATTT
1 TAAAAATATTTATATTT
* *
843402 TAAAAATATTTTAAATATA
1 TAAAAATA-TTTATAT-TT
* **
843421 TAAAAA-ATTTTAAAAAT
1 TAAAAATA-TTTATATTT
843438 TAAAAATA-TT-TATTT
1 TAAAAATATTTATATTT
843453 TAAAAATATTTATATTT
1 TAAAAATATTTATATTT
*
843470 AAAAAATATTT
1 TAAAAATATTT
843481 TTAAATTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
15 10 0.16
16 12 0.19
17 21 0.33
18 13 0.21
19 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAATATTTATATTT
Found at i:844375 original size:24 final size:24
Alignment explanation
Indices: 844348--844393 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
844338 GAATTTATTG
*
844348 ATATTTTTAAAATATT-TTTTAAGT
1 ATATATTTAAAAT-TTATTTTAAGT
*
844372 ATATATTTATAATTTATTTTAA
1 ATATATTTAAAATTTATTTTAA
844394 AATTTTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
ATATATTTAAAATTTATTTTAAGT
Found at i:844429 original size:17 final size:17
Alignment explanation
Indices: 844405--844451 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
844395 ATTTTTAGTA
844405 AAATATATATTATATAC
1 AAATATATATTATATAC
* *
844422 ACATATATA-TAT-TTC
1 AAATATATATTATATAC
844437 AAATATATATT-TATA
1 AAATATATATTATATA
844452 TGTAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATATATTATATAC
Found at i:844478 original size:15 final size:16
Alignment explanation
Indices: 844458--844498 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
844448 TATATGTAAA
*
844458 TATAAAATTTGAT-TT
1 TATAAAATTTAATATT
844473 TATAAATATTTAATATT
1 TATAAA-ATTTAATATT
844490 TA-AAAATTT
1 TATAAAATTT
844499 TAAATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 9 0.39
17 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATAAAATTTAATATT
Found at i:846654 original size:40 final size:42
Alignment explanation
Indices: 846577--846667 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 42
846567 TTGTAATATT
*
846577 TATAAAATTTTTAATTAAATAAAATTATAAGTATTAAAATTTA
1 TATAAAATTTTTAATAAAATAAAATTATAAG-ATTAAAATTTA
* *
846620 TTTAAAATTATTTAA-AAAATAAATTTA-AAG-TTAAAATTTA
1 TATAAAATT-TTTAATAAAATAAAATTATAAGATTAAAATTTA
846660 TATAAAAT
1 TATAAAAT
846668 ATAAGATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
40 17 0.40
42 3 0.07
43 18 0.42
44 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (42 bp):
TATAAAATTTTTAATAAAATAAAATTATAAGATTAAAATTTA
Found at i:847300 original size:18 final size:20
Alignment explanation
Indices: 847263--847303 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
847253 ATATATATAT
847263 ATAAAAAATTAAAACAAAAC
1 ATAAAAAATTAAAACAAAAC
*
847283 ATAAAAAA-TAATAC-AAAC
1 ATAAAAAATTAAAACAAAAC
847301 ATA
1 ATA
847304 GTACGAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
ATAAAAAATTAAAACAAAAC
Found at i:847583 original size:15 final size:14
Alignment explanation
Indices: 847563--847608 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
847553 AATATAAAAT
847563 TTTTTTCTCTTTTTC
1 TTTTTTCT-TTTTTC
*
847578 TTTTTT-TTCTTTC
1 TTTTTTCTTTTTTC
847591 TTTTTTCTTTCTTTC
1 TTTTTTCTTT-TTTC
847606 TTT
1 TTT
847609 CTTGCCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.41
14 3 0.11
15 13 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:847590 original size:4 final size:4
Alignment explanation
Indices: 847583--847611 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
847573 TTTTCTTTTT
847583 TTTC TTTC TTT- TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
847612 GCCTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:847592 original size:19 final size:19
Alignment explanation
Indices: 847562--847611 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
847552 GAATATAAAA
847562 TTTT-TTTCTCTTTTTCTTTT
1 TTTTCTTTCT-TTTTTC-TTT
847582 TTTTCTTTCTTTTTTCTTT
1 TTTTCTTTCTTTTTTCTTT
*
847601 CTTTCTTTCTT
1 TTTTCTTTCTT
847612 GCCTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
20 10 0.36
21 5 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTCTTT
Found at i:848399 original size:2 final size:2
Alignment explanation
Indices: 848392--848432 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
848382 GACGTGATTT
*
848392 TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
848433 ATACATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:849097 original size:2 final size:2
Alignment explanation
Indices: 849092--849122 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
849082 GTTGGCGAAT
849092 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
849123 GTTTCATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:849755 original size:2 final size:2
Alignment explanation
Indices: 849748--849776 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
849738 ATTTATGTTA
849748 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
849777 GTATTGTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:849952 original size:2 final size:2
Alignment explanation
Indices: 849945--849989 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
849935 TATCCCATTA
* * *
849945 AT AT AT AT AT AT AT AT AT AT AT AT AG AT ACT AG AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
849988 AT
1 AT
849990 TAATGTCAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (2 bp):
AT
Found at i:851346 original size:13 final size:15
Alignment explanation
Indices: 851321--851353 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
851311 GTGATTTTTT
851321 TGTTTATTATAAA-A
1 TGTTTATTATAAATA
851335 TGTTTA-TATAAATA
1 TGTTTATTATAAATA
851349 TGTTT
1 TGTTT
851354 TAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
TGTTTATTATAAATA
Found at i:853712 original size:3 final size:3
Alignment explanation
Indices: 853704--853738 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
853694 ATCCACCTTT
853704 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
853739 CTTTTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:854714 original size:12 final size:10
Alignment explanation
Indices: 854664--854716 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
854654 TTCTATTTTA
854664 ATATAAAATT
1 ATATAAAATT
854674 ATATAAAAAGTT
1 ATAT-AAAA-TT
854686 A-ATAAAATT
1 ATATAAAATT
854695 ATAT-AAATT
1 ATATAAAATT
854704 ATTACTAAAATT
1 A-TA-TAAAATT
854716 A
1 A
854717 CCTTAAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
9 9 0.24
10 12 0.32
11 7 0.19
12 9 0.24
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
ATATAAAATT
Found at i:856233 original size:13 final size:13
Alignment explanation
Indices: 856214--856246 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
856204 GTTTTGATAC
856214 TAAATTAGAAACTA
1 TAAATTAGAAA-TA
856228 -AAATTAGAAATA
1 TAAATTAGAAATA
856240 TAAATTA
1 TAAATTA
856247 TTTCTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 16 0.89
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (13 bp):
TAAATTAGAAATA
Found at i:857274 original size:2 final size:2
Alignment explanation
Indices: 857267--857298 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
857257 AGAATTCTTG
857267 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
857299 TTCTTTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:860930 original size:15 final size:16
Alignment explanation
Indices: 860904--860933 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
860894 ATGGTAAATA
860904 AATAATAAATATAATT
1 AATAATAAATATAATT
860920 AATAA-AAATATAAT
1 AATAATAAATATAAT
860934 ACATACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAAATATAATT
Found at i:861628 original size:250 final size:237
Alignment explanation
Indices: 861150--861820 Score: 743
Period size: 250 Copynumber: 2.8 Consensus size: 237
861140 TTACATCATT
*
861150 TGTGATCAAGATTTATTTATTAGTAAGGAAATT-TTTTT-AATTGTCAAGAGAAAAGATATACTA
1 TGTGATCAAGATTTATTTATTAGTAA-G-AATTATTTTTAAATTGTCAAGAGAAAATATATACTA
* * *
861213 -TCGAATTTACCTTTGATTTTAAGTTTATTTTTCATTCAACTTTAGCAAAAAAAATAGAATGAAA
64 CT-AAATTTACCCTTGATTTTAAGTTT-TTTTTCATTCAACCTTAGC-AAAAAAATAGAATGAAA
* * * * * * * * *
861277 GGAGAAAGGCCAGTAATGATCAAGCAGCCGAACCCAACATCCTCTCAGCCAAAATCAGCCATTGA
126 -AAGAGAGGCCAGTAATGATCAGGTAGCCGAACCCAGCATCCTTTTAGCCAAAATTAGCCATCGA
* * * *
861342 TTCTTTTTTATTGACTTGACCCAATAGTTAGGTTCGAATTTTCAACACC
190 TTCTCTGTTATCGACTTGACCCAACAGTTAGGTTCGAATTTTCAACA-C
861391 ATTTGTGATCAAGATTTATTTATTAGTAAGTAA-TATTTTT-AATTG-CTAAGAGAAAATATATA
1 ---TGTGATCAAGATTTATTTATTAGTAAG-AATTATTTTTAAATTGTC-AAGAGAAAATATATA
*
861453 CTACTGAATTTACCCTTGATTTTAAGGTTTTTTTTTTTTTTTTTTCATTCAACCTT-GC-AAAAA
61 CTACTAAATTTACCCTTGATTTTAA-G----------TTTTTTTTCATTCAACCTTAGCAAAAAA
* *
861516 ATAAAATGAAAATAGAGAGGCCAGTAATGATCAGGTAGCCCAACCCAGCATCCTTTTAGCCAAAA
115 ATAGAATGAAAA-AGAGAGGCCAGTAATGATCAGGTAGCCGAACCCAGCATCCTTTTAGCCAAAA
* * * * *
861581 TTAGCCATCGATTCTCTGTTATCGACTTGGCCCAACAGTTTGGTTCGATTTTTTAATAC
179 TTAGCCATCGATTCTCTGTTATCGACTTGACCCAACAGTTAGGTTCGAATTTTCAACAC
*
861640 TGTGATCAAGATTTATTTATTAGTAAGAATTTTTTTTTTAAATTGTCAAGAGAAAATATATACTA
1 TGTGATCAAGATTTATTTATTAGTAAGAA--TTATTTTTAAATTGTCAAGAGAAAATATATACTA
* *
861705 TTAAATTTACCCTTGATTTTAAGTTTATTTTCATTCAACCTTAGCAAAAAAATAGAATG--AAAG
64 CTAAATTTACCCTTGATTTTAAGTTTTTTTTCATTCAACCTTAGCAAAAAAATAGAATGAAAAAG
* * *
861768 AGAGGCCAGTAATGATTAGGTAGCTGAACCCAGCATCCTCTCT-GCCAAAATTA
129 AGAGGCCAGTAATGATCAGGTAGCCGAACCCAGCATCCT-TTTAGCCAAAATTA
861821 ACGATGGCCA
Statistics
Matches: 371, Mismatches: 33, Indels: 53
0.81 0.07 0.12
Matches are distributed among these distances:
237 48 0.13
238 22 0.06
239 2 0.01
240 12 0.03
242 2 0.01
243 49 0.13
244 28 0.08
245 2 0.01
246 27 0.07
248 7 0.02
249 44 0.12
250 108 0.29
252 2 0.01
253 15 0.04
254 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (237 bp):
TGTGATCAAGATTTATTTATTAGTAAGAATTATTTTTAAATTGTCAAGAGAAAATATATACTACT
AAATTTACCCTTGATTTTAAGTTTTTTTTCATTCAACCTTAGCAAAAAAATAGAATGAAAAAGAG
AGGCCAGTAATGATCAGGTAGCCGAACCCAGCATCCTTTTAGCCAAAATTAGCCATCGATTCTCT
GTTATCGACTTGACCCAACAGTTAGGTTCGAATTTTCAACAC
Found at i:861872 original size:42 final size:42
Alignment explanation
Indices: 861792--861881 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
861782 ATTAGGTAGC
* * *
861792 TGAACCCAGCATCCTCTCTGCCAAAATTAACGATGGCCAAGT
1 TGAACCCAGCATCCTCTCTGCCAAAATAAACCACGGCCAAGT
* * *
861834 TGAATCCAGCATCCT-TGTAGCCAAAATAAACCACGGCCACGT
1 TGAACCCAGCATCCTCTCT-GCCAAAATAAACCACGGCCAAGT
*
861876 CGAACC
1 TGAACC
861882 TAGATTCCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.05
42 37 0.95
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (42 bp):
TGAACCCAGCATCCTCTCTGCCAAAATAAACCACGGCCAAGT
Found at i:862349 original size:29 final size:30
Alignment explanation
Indices: 862285--862341 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
862275 CAAGTTTGAT
* *
862285 AAAAATCCACTTACCTCTCTTTAATTTTAA
1 AAAAATCCACTTACCTCTCTTAAAATTTAA
*
862315 AAAAATCCATTTACCT-TCTTAAAATTT
1 AAAAATCCACTTACCTCTCTTAAAATTT
862342 CATAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.40
Consensus pattern (30 bp):
AAAAATCCACTTACCTCTCTTAAAATTTAA
Found at i:864377 original size:23 final size:25
Alignment explanation
Indices: 864330--864380 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
864320 AATTTAGATT
*
864330 AAGAAGAAAAACAAAGTTGTAAAAG
1 AAGAAGAAAAACAAAGCTGTAAAAG
*
864355 AAGAA-AAAAATAAAGCTGT-AAAG
1 AAGAAGAAAAACAAAGCTGTAAAAG
864378 AAG
1 AAG
864381 CACAAGATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 12 0.50
25 5 0.21
ACGTcount: A:0.65, C:0.04, G:0.20, T:0.12
Consensus pattern (25 bp):
AAGAAGAAAAACAAAGCTGTAAAAG
Found at i:867843 original size:2 final size:2
Alignment explanation
Indices: 867836--867871 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
867826 TCTACAAACA
867836 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
867872 CAAATAAGCA
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:869052 original size:24 final size:25
Alignment explanation
Indices: 869022--869075 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
869012 TTTAATTTAT
869022 TTTTAAT-TCAATTATATT-TATTAA
1 TTTTAATATCAA-TATATTATATTAA
* *
869046 TTTTAATATTAATATATTATATTAT
1 TTTTAATATCAATATATTATATTAA
869071 TTTTA
1 TTTTA
869076 TTTAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTAATATCAATATATTATATTAA
Found at i:870723 original size:24 final size:25
Alignment explanation
Indices: 870684--870734 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
870674 ATCATTGAAT
** *
870684 TTTTAAATAATGATAAT-TAATTTA
1 TTTTAAATAAAAATAATATAATATA
870708 TTTTAAATAAAAATAATATAATATA
1 TTTTAAATAAAAATAATATAATATA
870733 TT
1 TT
870735 ATCAAAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TTTTAAATAAAAATAATATAATATA
Found at i:871086 original size:13 final size:13
Alignment explanation
Indices: 871065--871096 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
871055 TTGATACATT
*
871065 ATACTTTGTATCG
1 ATACATTGTATCG
871078 ATACATTGTATCG
1 ATACATTGTATCG
871091 ATACAT
1 ATACAT
871097 GGGCAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:871174 original size:20 final size:20
Alignment explanation
Indices: 871149--871199 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
871139 CCACTATTTA
*
871149 TATCGATACATGGT-ACAATG
1 TATCGATACATGATGA-AATG
*
871169 TATCGATACATGATGAATTG
1 TATCGATACATGATGAAATG
871189 TATCGATACAT
1 TATCGATACAT
871200 TACTTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACATGATGAAATG
Found at i:872198 original size:31 final size:33
Alignment explanation
Indices: 872138--872198 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
872128 CTTTAAAAAT
*
872138 CTAAATAAGTATATTTATTTTAAACTTTAAGGG
1 CTAAATAAGTATATTTATTTAAAACTTTAAGGG
*
872171 CTAAATAAGTAT-TTT-TTTAAAATTTTAA
1 CTAAATAAGTATATTTATTTAAAACTTTAA
872199 AAGGTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.42
32 3 0.12
33 12 0.46
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (33 bp):
CTAAATAAGTATATTTATTTAAAACTTTAAGGG
Found at i:874794 original size:3 final size:3
Alignment explanation
Indices: 874786--874820 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
874776 TCATTATATA
*
874786 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
874821 CTACTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:875642 original size:16 final size:18
Alignment explanation
Indices: 875609--875643 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
875599 AAAAAATAAA
875609 AATATATTAAATTTATTT
1 AATATATTAAATTTATTT
875627 AATA-ATTAAA-TTATTT
1 AATATATTAAATTTATTT
875643 A
1 A
875644 TTTGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 6 0.35
18 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATATTAAATTTATTT
Found at i:875659 original size:21 final size:20
Alignment explanation
Indices: 875619--875659 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
875609 AATATATTAA
*
875619 ATTTATTTAATAATTAAATT
1 ATTTATTTAATAAATAAATT
*
875639 ATTTATTTGATTAAATAAATT
1 ATTTATTT-AATAAATAAATT
875660 TAATTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTATTTAATAAATAAATT
Found at i:882276 original size:17 final size:16
Alignment explanation
Indices: 882248--882297 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
882238 TAATTAAATT
882248 TAAATA-TT-AAATAA
1 TAAATATTTAAAATAA
**
882262 TAAATATTTTAAAATTT
1 TAAATA-TTTAAAATAA
*
882279 TAAATATTTAAAAAAA
1 TAAATATTTAAAATAA
882295 TAA
1 TAA
882298 TAAATTCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 6 0.21
16 12 0.43
17 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATATTTAAAATAA
Found at i:882301 original size:19 final size:19
Alignment explanation
Indices: 882256--882322 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
882246 TTTAAATATT
*
882256 AAATAATAAATATTT--TA
1 AAATAATAAATATTTAAAA
**
882273 AAATTTTAAATATTTAAAA
1 AAATAATAAATATTTAAAA
**
882292 AAATAATAAAT-TCAAAAA
1 AAATAATAAATATTTAAAA
882310 TAAATAATAAATA
1 -AAATAATAAATA
882323 AACATGAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 13 0.33
18 5 0.13
19 21 0.54
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATAAATATTTAAAA
Found at i:882470 original size:2 final size:2
Alignment explanation
Indices: 882463--882488 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
882453 CTGCGGGTCA
882463 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
882489 TTCTCTCTCG
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):
AT
Found at i:882668 original size:45 final size:45
Alignment explanation
Indices: 882617--882741 Score: 187
Period size: 45 Copynumber: 2.7 Consensus size: 45
882607 CATACAATAA
882617 ACCATGATAGTAAGCTATATATCATGTAATAACTCAAGCCAATTT
1 ACCATGATAGTAAGCTATATATCATGTAATAACTCAAGCCAATTT
* * *
882662 ACCATGATAGTAAGCTATATATCATGTAATATCTCATGTCAATTT
1 ACCATGATAGTAAGCTATATATCATGTAATAACTCAAGCCAATTT
* *
882707 ACCATGATATTAAGCTACATATATCATGCAATAAC
1 ACCATGATAGTAAGCT--ATATATCATGTAATAAC
882742 GCCACAAGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 57 0.79
47 15 0.21
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (45 bp):
ACCATGATAGTAAGCTATATATCATGTAATAACTCAAGCCAATTT
Found at i:884290 original size:27 final size:28
Alignment explanation
Indices: 884255--884307 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
884245 TTTATTTTTT
*
884255 TAATT-AAAAGTAAT-TTATTTTTATTAA
1 TAATTAAAAAATAATATT-TTTTTATTAA
884282 TAATTAAAAAATAATATTTTTTTATT
1 TAATTAAAAAATAATATTTTTTTATT
884308 TTATTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 16 0.70
29 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATTAAAAAATAATATTTTTTTATTAA
Found at i:884808 original size:19 final size:18
Alignment explanation
Indices: 884786--884870 Score: 75
Period size: 19 Copynumber: 4.6 Consensus size: 18
884776 TAGATATAAT
*
884786 TATTTATGTATTTATATTA
1 TATTTATATATTTATA-TA
*
884805 TATTTATATATTTTTATA
1 TATTTATATATTTATATA
*
884823 TATTATAATTATATTTA-AAA
1 TATT-T-A-TATATTTATATA
884843 TA-TTATATATTTATATA
1 TATTTATATATTTATATA
* *
884860 AATTTTTATAT
1 TATTTATATAT
884871 ATTAATAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
16 8 0.15
17 4 0.07
18 14 0.26
19 16 0.30
20 5 0.09
21 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
TATTTATATATTTATATA
Found at i:884811 original size:23 final size:23
Alignment explanation
Indices: 884780--884858 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 23
884770 TTGTATTAGA
*
884780 TATAATTATTTATGTATT-TATAT
1 TATATTTATTTAT-TATTATATAT
* *
884803 TATATTTATATATTTTTATATAT
1 TATATTTATTTATTATTATATAT
*
884826 TATAATTATATTTAAAATATTATATATT
1 TAT-ATT-TATTT--ATTATTATATA-T
884854 TATAT
1 TATAT
884859 AAATTTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.07
23 19 0.43
24 3 0.07
25 4 0.09
27 11 0.25
28 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (23 bp):
TATATTTATTTATTATTATATAT
Found at i:884812 original size:29 final size:29
Alignment explanation
Indices: 884780--884858 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
884770 TTGTATTAGA
*
884780 TATAATTATTTATGTATTTATATTATATT
1 TATAATTATTTATATATTTATATTATATT
884809 TATATATT-TTTATATA-TTATAATTATATT
1 TATA-ATTATTTATATATTTAT-ATTATATT
*
884838 TA-AAATA-TTATATATTTATAT
1 TATAATTATTTATATATTTATAT
884859 AAATTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
27 11 0.25
28 9 0.20
29 21 0.48
30 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (29 bp):
TATAATTATTTATATATTTATATTATATT
Found at i:884814 original size:8 final size:8
Alignment explanation
Indices: 884803--884859 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
884793 GTATTTATAT
884803 TATATTTA
1 TATATTTA
*
884811 TATATTTT
1 TATATTTA
884819 TATATATTA
1 TATAT-TTA
884828 TA-A-TTA
1 TATATTTA
*
884834 TAT-TTAA
1 TATATTTA
*
884841 AATA-TTA
1 TATATTTA
884848 TATATTTA
1 TATATTTA
884856 TATA
1 TATA
884860 AATTTTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
6 5 0.13
7 9 0.24
8 20 0.53
9 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATTTA
Found at i:884861 original size:20 final size:20
Alignment explanation
Indices: 884789--884873 Score: 63
Period size: 20 Copynumber: 4.5 Consensus size: 20
884779 ATATAATTAT
* * *
884789 TTATGTATTTATATTATAT-
1 TTATATATTTATATAAAATA
*
884808 TTATATATTT-T-T-ATATA
1 TTATATATTTATATAAAATA
*
884825 TTATA-ATTATATTTAAAATA
1 TTATATATT-TATATAAAATA
* *
884845 TTATATATTTATATAAATTT
1 TTATATATTTATATAAAATA
884865 TTATATATT
1 TTATATATT
884874 AATAATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
16 7 0.13
17 7 0.13
18 2 0.04
19 10 0.18
20 26 0.47
21 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
TTATATATTTATATAAAATA
Found at i:884896 original size:17 final size:17
Alignment explanation
Indices: 884803--884885 Score: 63
Period size: 17 Copynumber: 5.1 Consensus size: 17
884793 GTATTTATAT
*
884803 TATATTTATATATTTTTA
1 TATATTAATA-ATTTTTA
884821 TATATT-ATAA---TTA
1 TATATTAATAATTTTTA
*
884834 TAT-TTAA-AA-TATTA
1 TATATTAATAATTTTTA
884848 TATATTTATATAAATTTTTA
1 TATA-TTA-AT-AATTTTTA
884868 TATATTAATAATTTTTA
1 TATATTAATAATTTTTA
884885 T
1 T
884886 TTTTTATTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 19
0.73 0.01 0.25
Matches are distributed among these distances:
12 4 0.07
13 7 0.13
14 6 0.11
16 4 0.07
17 13 0.24
18 8 0.15
19 5 0.09
20 8 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTAATAATTTTTA
Found at i:886361 original size:15 final size:15
Alignment explanation
Indices: 886332--886392 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
886322 ATTTATATTA
* *
886332 TATTTTTTATTATAT
1 TATTTTTAATAATAT
886347 TATTTTTAATAATATTT
1 TATTTTTAATAATA--T
886364 TAATTTTTAATAATA-
1 T-ATTTTTAATAATAT
*
886379 TATTTAT-ATAATAT
1 TATTTTTAATAATAT
886393 AATTATATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.15
14 5 0.13
15 13 0.33
17 2 0.05
18 13 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTTTAATAATAT
Found at i:886371 original size:18 final size:19
Alignment explanation
Indices: 886348--886384 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
886338 TTATTATATT
886348 ATTTTTAATAATAT-TTTA
1 ATTTTTAATAATATATTTA
886366 ATTTTTAATAATATATTTA
1 ATTTTTAATAATATATTTA
886385 TATAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTAATAATATATTTA
Found at i:886666 original size:13 final size:14
Alignment explanation
Indices: 886644--886673 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
886634 GTATAATTTA
886644 TAATATATAAAATAT
1 TAATATA-AAAATAT
886659 TAATATAAAAATAT
1 TAATATAAAAATAT
886673 T
1 T
886674 TTTAATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATAAAAATAT
Found at i:886760 original size:22 final size:22
Alignment explanation
Indices: 886689--886760 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 22
886679 TTAACAAAAA
886689 TAATTATTATTTATTATATTTTAAAT
1 TAATTA-TATTTATT-TATTTT--AT
**
886715 TATCATTATAAATATTT-TTATTAT
1 TA--ATTATATTTATTTATT-TTAT
886739 TAATTATATTTATTTATTTTAT
1 TAATTATATTTATTTATTTTAT
886761 GAGTAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
22 15 0.39
23 2 0.05
24 4 0.11
25 2 0.05
26 5 0.13
27 6 0.16
28 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATTATATTTATTTATTTTAT
Found at i:888482 original size:14 final size:15
Alignment explanation
Indices: 888463--888504 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
888453 TTTAGGTTTT
888463 TATAAAAATAAAA-A
1 TATAAAAATAAAATA
888477 TATAAAATATAAAATA
1 TATAAAA-ATAAAATA
* *
888493 TTTTAAAATAAA
1 TATAAAAATAAA
888505 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 11 0.46
16 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TATAAAAATAAAATA
Found at i:888501 original size:17 final size:16
Alignment explanation
Indices: 888467--888516 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
888457 GGTTTTTATA
888467 AAAATAAAAATA---T
1 AAAATAAAAATATTTT
888480 AAAATATAAAATATTTT
1 AAAATA-AAAATATTTT
**
888497 AAAATAAATTTATTTT
1 AAAATAAAAATATTTT
888513 AAAA
1 AAAA
888517 AAATATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
16 12 0.39
17 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATAAAAATATTTT
Found at i:888520 original size:15 final size:16
Alignment explanation
Indices: 888491--888520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
888481 AAATATAAAA
888491 TATTTTAAAATAAATT
1 TATTTTAAAATAAATT
888507 TATTTTAAAA-AAAT
1 TATTTTAAAATAAAT
888521 ATGAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTTAAAATAAATT
Found at i:906735 original size:19 final size:18
Alignment explanation
Indices: 906693--906728 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
906683 GAATACAGTT
*
906693 AAAAAATTTTAAAAAATA
1 AAAAAATTTAAAAAAATA
906711 AAAAAATGTTAAAAAAAT
1 AAAAAAT-TTAAAAAAAT
906729 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAAATTTAAAAAAATA
Found at i:907978 original size:95 final size:95
Alignment explanation
Indices: 907844--908033 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
907834 TTAGCCTATA
907844 ACTTCTCTTGTCGAAAAGACAATTCTGATATATTAAAAAAAGTTAAATTTTATTTTTTATGGCGT
1 ACTTCTCTTGTCGAAAAGACAATTCTGATATATTAAAAAAAGTTAAATTTTATTTTTTATGGCGT
907909 ATGAAAAATGAAATTCAAGTAAATCTAGGT
66 ATGAAAAATGAAATTCAAGTAAATCTAGGT
907939 ACTTCTCTTGTCGAAAAGACAATTCTGATATATTAAAAAAAGTTAAATTTTATTTTTTATGGCGT
1 ACTTCTCTTGTCGAAAAGACAATTCTGATATATTAAAAAAAGTTAAATTTTATTTTTTATGGCGT
908004 ATGAAAAATGAAATTCAAGTAAATCTAGGT
66 ATGAAAAATGAAATTCAAGTAAATCTAGGT
908034 GCTTGGTAAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (95 bp):
ACTTCTCTTGTCGAAAAGACAATTCTGATATATTAAAAAAAGTTAAATTTTATTTTTTATGGCGT
ATGAAAAATGAAATTCAAGTAAATCTAGGT
Found at i:909402 original size:18 final size:17
Alignment explanation
Indices: 909371--909429 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
909361 TGATTCTTTG
*
909371 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAAAAAAAGA
909388 AAAAAATAAAAAAAAAGA
1 AAAAAA-AAAAAAAAAGA
* **
909406 AAGAAAAGAAAAAATTGA
1 AA-AAAAAAAAAAAAAGA
909424 AAAAAA
1 AAAAAA
909430 TTATTTAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.28
18 22 0.61
19 4 0.11
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Found at i:909412 original size:27 final size:27
Alignment explanation
Indices: 909371--909429 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
909361 TGATTCTTTG
909371 AAAAAAAAAGAAAAAGAAAAAAATAAA
1 AAAAAAAAAGAAAAAGAAAAAAATAAA
* *
909398 AAAAAAGAAAG-AAAAGAAAAAATTGAA
1 AAAAAA-AAAGAAAAAGAAAAAAATAAA
909425 AAAAA
1 AAAAA
909430 TTATTTAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAGAAAAAAATAAA
Found at i:909840 original size:77 final size:77
Alignment explanation
Indices: 909713--909865 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
909703 CCTAAAACAC
*
909713 ATGAGTGAATATTGTGACAACCGTGAGGTAATTCATCGAGATTTTTGCATTTACTTTGGAATAAC
1 ATGAGTGAATATTGTGACAACCATGAGGTAATTCATCGAGATTTTTGCATTTACTTTGGAATAAC
909778 ACTTTCATTGCT
66 ACTTTCATTGCT
* *
909790 ATGAGTGAATATTGTGACAACCATGAGGTGATTCATCGAGATTTTTGCATTTACTTTGGAATGAC
1 ATGAGTGAATATTGTGACAACCATGAGGTAATTCATCGAGATTTTTGCATTTACTTTGGAATAAC
909855 ACTTTCATTGC
66 ACTTTCATTGC
909866 AAATTTTTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (77 bp):
ATGAGTGAATATTGTGACAACCATGAGGTAATTCATCGAGATTTTTGCATTTACTTTGGAATAAC
ACTTTCATTGCT
Found at i:914237 original size:41 final size:43
Alignment explanation
Indices: 914187--914281 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 43
914177 AGAGTGATTT
914187 TGTATTGATACATTTCA-AGCATGTATCGATACATTCACT-TA
1 TGTATTGATACATTTCACAGCATGTATCGATACATTCACTGTA
* * ** * *
914228 TGTATTGATA-TTTTTACAGTTTGTATCGATACATTTACTGTT
1 TGTATTGATACATTTCACAGCATGTATCGATACATTCACTGTA
*
914270 TGTATCGATACA
1 TGTATTGATACA
914282 AATTGTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 4 0.09
41 29 0.67
42 10 0.23
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (43 bp):
TGTATTGATACATTTCACAGCATGTATCGATACATTCACTGTA
Found at i:914252 original size:21 final size:21
Alignment explanation
Indices: 914185--914281 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
914175 GCAGAGTGAT
*
914185 TTTGTATTGATACATTT-CAAG
1 TTTGTATCGATACATTTAC-AG
** *
914206 CATGTATCGATACA-TT-CAC
1 TTTGTATCGATACATTTACAG
* **
914225 TTATGTATTGATATTTTTACAG
1 TT-TGTATCGATACATTTACAG
*
914247 TTTGTATCGATACATTTACTG
1 TTTGTATCGATACATTTACAG
914268 TTTGTATCGATACA
1 TTTGTATCGATACA
914282 AATTGTAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
19 1 0.02
20 12 0.20
21 42 0.71
22 4 0.07
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (21 bp):
TTTGTATCGATACATTTACAG
Found at i:922526 original size:22 final size:22
Alignment explanation
Indices: 922500--922563 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
922490 TAATAATTTT
* *
922500 AAATATAATATAATTATATAAA
1 AAATAAAATATAATTATAAAAA
922522 AAATAAAATATAATT-TAAAAA
1 AAATAAAATATAATTATAAAAA
* *
922543 ATAATACGAATATAAATATAA
1 A-AATA-AAATATAATTATAA
922564 TAATATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 6 0.17
22 18 0.51
23 8 0.23
24 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATAAAATATAATTATAAAAA
Done.