Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 117 of 328
Found at i:33268596 original size:27 final size:27
Alignment explanation
Indices: 33268558--33268699 Score: 198
Period size: 27 Copynumber: 5.3 Consensus size: 27
33268548 TGGAGGAAGC
*
33268558 GTTCTGGTGGCTATGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
* *
33268585 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
*
33268612 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
33268639 GTTCTGGTGGCTCTGCCACGAT-TATCT
1 GTTCTGGTGGCTCTGCCAC-ATATATCT
* *
33268666 GTATCTGGTGACTCTGTCACAT-TATCT
1 GT-TCTGGTGGCTCTGCCACATATATCT
33268693 GTTCTGG
1 GTTCTGG
33268700 CAGCCATGCT
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACATATATCT
Found at i:33268785 original size:19 final size:22
Alignment explanation
Indices: 33268761--33268800 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
33268751 CTCCCCACAC
33268761 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
33268780 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
33268801 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:33270834 original size:43 final size:44
Alignment explanation
Indices: 33270773--33270892 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 44
33270763 TCACATATAT
*
33270773 CATA-CAATGCCAACGTCCCAGACATGGTCTTACAT-GTAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACATCGTAAACA
* * *
33270815 CATATCAATGCC-ACTGTCCCAGAAAGGGTTTTAC-TCGTAAACA
1 CATATCAATGCCAAC-GTCCCAGACATGGTCTTACATCGTAAACA
* * *
33270858 CATATCGATGCCAACATCCCAGACGTGGTCTTACA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACA
33270893 CAAGAACACA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 7 0.11
43 54 0.86
44 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (44 bp):
CATATCAATGCCAACGTCCCAGACATGGTCTTACATCGTAAACA
Found at i:33271141 original size:10 final size:9
Alignment explanation
Indices: 33271125--33271170 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
33271115 ACTAAACCCC
33271125 TAAACCCAT
1 TAAACCCAT
33271134 TAAAACCC-T
1 T-AAACCCAT
33271143 T-AACCCAT
1 TAAACCCAT
*
33271151 CAAACCCACT
1 TAAACCCA-T
33271161 TAAACCCAT
1 TAAACCCAT
33271170 T
1 T
33271171 TACATCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 5 0.16
8 1 0.03
9 11 0.35
10 14 0.45
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAACCCAT
Found at i:33271142 original size:17 final size:17
Alignment explanation
Indices: 33271117--33271170 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
33271107 ACATTACAAC
33271117 TAAACCCCTAAACCCAT
1 TAAACCCCTAAACCCAT
* *
33271134 TAAAACCCTTAACCCAT
1 TAAACCCCTAAACCCAT
*
33271151 CAAACCCACTTAAACCCAT
1 TAAACCC-C-TAAACCCAT
33271170 T
1 T
33271171 TACATCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 20 0.69
18 1 0.03
19 8 0.28
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAACCCCTAAACCCAT
Found at i:33272234 original size:3 final size:3
Alignment explanation
Indices: 33272226--33272312 Score: 56
Period size: 3 Copynumber: 29.0 Consensus size: 3
33272216 CTTTATTAGA
* *
33272226 TAT TAT TAT TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAAG T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT TAT TAT
* * * *
33272271 CAA TAT TAT TAT T-T TTT TAT ATAT TAG TAT ATAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT
33272313 ATACATATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
2 6 0.09
3 51 0.78
4 8 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:33272323 original size:22 final size:22
Alignment explanation
Indices: 33272272--33272326 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
33272262 TAAGTTTATC
* *
33272272 AATATTAT-TATTTTTTTATAT
1 AATAGTATATATTTTATTATAT
*
33272293 ATTAGTATATATTTTATTATAT
1 AATAGTATATATTTTATTATAT
33272315 ACATA-TATATAT
1 A-ATAGTATATAT
33272327 ATTGTAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 6 0.21
22 20 0.71
23 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
AATAGTATATATTTTATTATAT
Found at i:33272609 original size:33 final size:33
Alignment explanation
Indices: 33272572--33272647 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
33272562 TACATAGTCT
* * *
33272572 TATTT-TTATTACTTTATTTCAATATTTTTGTTA
1 TATTTATTATTAC-GTATTTCAATATATTTATTA
* * *
33272605 TATTTGTTTTTTCGTATTTCAATATATTTATTA
1 TATTTATTATTACGTATTTCAATATATTTATTA
33272638 TATTTATTAT
1 TATTTATTAT
33272648 ATAGTAGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (33 bp):
TATTTATTATTACGTATTTCAATATATTTATTA
Found at i:33272661 original size:21 final size:23
Alignment explanation
Indices: 33272636--33272693 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
33272626 ATATATTTAT
*
33272636 TATATTTATTATATA-GTA-GTG
1 TATATTTATTATATACCTATGTG
33272657 TATATTT-TTAT-TACCTATGTG
1 TATATTTATTATATACCTATGTG
*
33272678 TATATATATATATATA
1 TATATTTAT-TATATA
33272694 TATAGTATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.07
20 6 0.20
21 16 0.53
22 1 0.03
23 3 0.10
24 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (23 bp):
TATATTTATTATATACCTATGTG
Found at i:33272757 original size:23 final size:23
Alignment explanation
Indices: 33272722--33272765 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33272712 TACTTTATTA
*
33272722 TTTTTATTATATTTTATTATTCT
1 TTTTTATTATATTTTAATATTCT
* *
33272745 TTTTTTTTGTATTTTAATATT
1 TTTTTATTATATTTTAATATT
33272766 ATTACTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTATATTTTAATATTCT
Found at i:33272828 original size:12 final size:12
Alignment explanation
Indices: 33272809--33272848 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
33272799 AGTATTTTGT
*
33272809 TATATGTATGTA
1 TATATGTATATA
*
33272821 TGTATGTATATA
1 TATATGTATATA
*
33272833 TATATGTATTTA
1 TATATGTATATA
33272845 TATA
1 TATA
33272849 ATAGTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (12 bp):
TATATGTATATA
Found at i:33273243 original size:2 final size:2
Alignment explanation
Indices: 33273238--33273268 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33273228 ATATACTTTA
*
33273238 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33273269 GTACTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33275656 original size:26 final size:26
Alignment explanation
Indices: 33275627--33275734 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
33275617 TGGTACAAAT
33275627 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33275653 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33275679 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33275705 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33275731 TGAT
1 TGAT
33275735 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33277240 original size:26 final size:26
Alignment explanation
Indices: 33277177--33277252 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
33277167 AAAAGCAGCT
* * * *
33277177 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
33277205 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
33277231 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
33277253 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:33277388 original size:27 final size:26
Alignment explanation
Indices: 33277356--33277495 Score: 163
Period size: 27 Copynumber: 5.2 Consensus size: 26
33277346 GGAAGCGTCT
* *
33277356 TGGTGGTTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
33277383 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
* *
33277410 TGGTGGCTATGCGACGATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
33277437 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
* *
33277464 TGGTGGCTCTACCACAATATCTGTATC
1 TGGTGGCTCTGCCACATTATCTG-ATC
33277491 TGGTG
1 TGGTG
33277496 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 85 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:33277438 original size:54 final size:54
Alignment explanation
Indices: 33277356--33277495 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
33277346 GGAAGCGTCT
*
33277356 TGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
* *
33277410 TGGTGGCTATGCGACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
* *
33277464 TGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
33277496 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.08
54 72 0.92
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
Found at i:33288579 original size:72 final size:72
Alignment explanation
Indices: 33288436--33288594 Score: 257
Period size: 73 Copynumber: 2.2 Consensus size: 72
33288426 TGATGTTTTT
33288436 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
33288501 AATTTCA
66 AATTTCA
* *
33288508 ATTTCTGTTTGTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
33288572 TATTTTCA
65 TAATTTCA
*
33288580 ATGTCTGCTTTTCAA
1 ATTTCTG-TTTTCAA
33288595 TTTCTGCTTT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
72 39 0.48
73 42 0.52
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCA
Found at i:33288593 original size:14 final size:14
Alignment explanation
Indices: 33288574--33288608 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33288564 CGCTGAGGTA
33288574 TTTTCAATGTCTGC
1 TTTTCAATGTCTGC
*
33288588 TTTTCAATTTCTGC
1 TTTTCAATGTCTGC
33288602 TTTTCAA
1 TTTTCAA
33288609 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (14 bp):
TTTTCAATGTCTGC
Found at i:33288718 original size:93 final size:87
Alignment explanation
Indices: 33288521--33288874 Score: 326
Period size: 88 Copynumber: 4.0 Consensus size: 87
33288511 TCTGTTTGTC
* *
33288521 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTC-AATGTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAAAT-TC
* * *
33288585 TGCTTTTCAATTTCTGCTTTTCAA
65 TG-TTTTTAATTTCTGATTTTAAA
33288609 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAAATTC
* *
33288674 TGTTTTTATTTATTTATTTATATTTAAA
65 TGTTTTTA---ATTT-CTGAT-TTTAAA
*
33288702 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG--ACACGCT-GAGGTATTTTCAAA
* * * * * *
33288766 ATCTGCTTTTCAA-AT-TAAGTTT-CA
62 TTCTG-TTTTTAATTTCTGATTTTAAA
* * * * * *
33288790 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGGCTCATATGCTGAGTTATTTTC-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAAAT
*
33288854 TCTGTTTTTAATGTCT-ATTTT
63 TCTGTTTTTAATTTCTGATTTT
33288875 TTTTAAAAAA
Statistics
Matches: 226, Mismatches: 25, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
86 6 0.03
87 13 0.06
88 94 0.42
89 27 0.12
90 5 0.02
91 4 0.02
92 3 0.01
93 46 0.20
94 1 0.00
95 22 0.10
96 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAAATTCT
GTTTTTAATTTCTGATTTTAAA
Found at i:33288886 original size:181 final size:180
Alignment explanation
Indices: 33288521--33288886 Score: 458
Period size: 181 Copynumber: 2.0 Consensus size: 180
33288511 TCTGTTTGTC
* **
33288521 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATGTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAAAATCT
* ** * *
33288586 GCTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GCTTTTCAAATTAAGC-TTTCAAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGA
* *
33288651 CACGCTGAGGTATTTTCAAATTCTGTTTTTATTTATTTATTTATATTTAAA
130 CACGCTGAGGTATTTTCAAATTCTGTTTTTATATATCTATTTATATTTAAA
*
33288702 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG---CACGCT-GAGGTATTTTCAAA
*
33288766 ATCTGCTTTTCAAATTAAG-TTTC-AAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCT-T
62 ATCTGCTTTTCAAATTAAGCTTTCAAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCA
* * * * *
33288828 GGCTCATATGCTGAGTTATTTTC-AATTCTGTTTTTA-ATGTCTATTT-TTTTTAAA
127 GG---ACACGCTGAGGTATTTTCAAATTCTGTTTTTATATATCTATTTATATTTAAA
33288882 AAAAA
1 AAAAA
33288887 GAAGGTCAAT
Statistics
Matches: 161, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
180 14 0.09
181 83 0.52
182 17 0.11
183 16 0.10
184 31 0.19
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (180 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAAAATCT
GCTTTTCAAATTAAGCTTTCAAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTCAAATTCTGTTTTTATATATCTATTTATATTTAAA
Found at i:33289429 original size:17 final size:17
Alignment explanation
Indices: 33289404--33289437 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33289394 ATATTACAAC
*
33289404 TAAACCCCTAAACCCAT
1 TAAAACCCTAAACCCAT
*
33289421 TAAAACCCTTAACCCAT
1 TAAAACCCTAAACCCAT
33289438 CAGACCCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAACCCTAAACCCAT
Found at i:33290081 original size:28 final size:28
Alignment explanation
Indices: 33290036--33290099 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 28
33290026 ACCTGCAGAG
33290036 AAAAAAAAAGAAGAGAAAGAA-AATTTA
1 AAAAAAAAAGAAGAGAAAGAAGAATTTA
33290063 AAAAAAAAAGCAA-AGGAAAGAATGAATTTA
1 AAAAAAAAAG-AAGA-GAAAGAA-GAATTTA
33290093 AAAAAAA
1 AAAAAAA
33290100 CAATCTGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 11 0.33
28 9 0.27
30 13 0.39
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (28 bp):
AAAAAAAAAGAAGAGAAAGAAGAATTTA
Found at i:33290599 original size:22 final size:21
Alignment explanation
Indices: 33290552--33290602 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
33290542 AAGTTTATCA
* *
33290552 ATAT-TATTTTTTTATATATT
1 ATATATATTTTATTATATAAT
33290572 AGTATATATTTTATTATATACAT
1 A-TATATATTTTATTATATA-AT
33290595 ATATATAT
1 ATATATAT
33290603 ATATATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 20 0.77
23 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATATATATTTTATTATATAAT
Found at i:33290795 original size:114 final size:111
Alignment explanation
Indices: 33290631--33290839 Score: 244
Period size: 114 Copynumber: 1.8 Consensus size: 111
33290621 TATTACTTCA
* ** * *
33290631 TTTTTATATTTTGTTATATTTGCTTTTTTGCATTACAATATTATTATATAT-GAGTGTATATGTT
1 TTTTTATATTTTATTATACGTGCTTTTTTG-ATTACAATATTAATATATATAGAGTGTATA-CTT
* *
33290695 TTTAT-GTACGTATATGTATATATATTTATATAGCCTTATTTTTATCATT
64 TTTATCATA--TATATGTATATATATATATATAGCCTTATTTTTATCATT
* *
33290744 TTTTTAATATTTTATTATACGTGCTTTTTTG-TTACTATTATTAATATTATATAATAGTGTATAC
1 TTTTT-ATATTTTATTATACGTGCTTTTTTGATTAC-AATATTAATA-TATAT-AGAGTGTATAC
33290808 TTTTTATCATATATATGTATATATATATATAT
62 TTTTTATCATATATATGTATATATATATATAT
33290840 TTTGTACATA
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
112 4 0.05
113 13 0.16
114 47 0.58
115 7 0.09
116 10 0.12
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (111 bp):
TTTTTATATTTTATTATACGTGCTTTTTTGATTACAATATTAATATATATAGAGTGTATACTTTT
TATCATATATATGTATATATATATATATAGCCTTATTTTTATCATT
Found at i:33290891 original size:33 final size:33
Alignment explanation
Indices: 33290854--33290922 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
33290844 TACATAGTCT
* * *
33290854 TATTT-TTATTACTTTATTTCAATATTTTTGTTA
1 TATTTGTTATTAC-GTATTTCAATATATTTATTA
* *
33290887 TATTTGTTTTTTCGTATTTCAATATATTTATTA
1 TATTTGTTATTACGTATTTCAATATATTTATTA
33290920 TAT
1 TAT
33290923 AGTGTATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (33 bp):
TATTTGTTATTACGTATTTCAATATATTTATTA
Found at i:33290998 original size:18 final size:19
Alignment explanation
Indices: 33290975--33291017 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33290965 ATATAGTATG
33290975 ATTTTTAAT-TACTTTATT
1 ATTTTTAATATACTTTATT
* *
33290993 ATTTTTAGTATATTTTATT
1 ATTTTTAATATACTTTATT
33291012 ATTTTT
1 ATTTTT
33291018 TTATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTAATATACTTTATT
Found at i:33290999 original size:9 final size:9
Alignment explanation
Indices: 33290987--33291049 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
33290977 TTTTAATTAC
33290987 TTTATTATT
1 TTTATTATT
*
33290996 TTTAGTATAT
1 TTTATTAT-T
33291006 TTTATTATT
1 TTTATTATT
*
33291015 TTT-TTATA
1 TTTATTATT
*
33291023 TTTAATATT
1 TTTATTATT
* *
33291032 ATTACTATT
1 TTTATTATT
*
33291041 ATTATTATT
1 TTTATTATT
33291050 ATCATTGTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 7 0.16
9 29 0.66
10 8 0.18
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTATTATT
Found at i:33291021 original size:27 final size:30
Alignment explanation
Indices: 33290962--33291026 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 30
33290952 TATATATTAA
*
33290962 TATATATAGTATGATTTTTAATTACTTTAT
1 TATATTTAGTATGATTTTTAATTACTTTAT
* * *
33290992 TATTTTTAGTAT-A-TTTT-ATTATTTTTT
1 TATATTTAGTATGATTTTTAATTACTTTAT
33291019 TATATTTA
1 TATATTTA
33291027 ATATTATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 15 0.50
28 4 0.13
29 1 0.03
30 10 0.33
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (30 bp):
TATATTTAGTATGATTTTTAATTACTTTAT
Found at i:33291103 original size:16 final size:16
Alignment explanation
Indices: 33291078--33291113 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33291068 AATATTTTGT
*
33291078 TATATGTATGTATGTA
1 TATATATATGTATGTA
*
33291094 TATATATATGTATTTA
1 TATATATATGTATGTA
33291110 TATA
1 TATA
33291114 ATAGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TATATATATGTATGTA
Found at i:33291226 original size:3 final size:3
Alignment explanation
Indices: 33291218--33291243 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33291208 TAATTTACTG
33291218 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
33291244 CACTATTGTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:33291520 original size:23 final size:23
Alignment explanation
Indices: 33291493--33291549 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
33291483 ATCTTTTTAG
33291493 TATGTACATATTTTCAATACTAT
1 TATGTACATATTTTCAATACTAT
* * * *
33291516 TATGTAAACACTTTTCATTCCTAT
1 TATGTACATA-TTTTCAATACTAT
33291540 TAT-TACATAT
1 TATGTACATAT
33291550 ATACTTTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 1 0.04
23 12 0.44
24 14 0.52
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (23 bp):
TATGTACATATTTTCAATACTAT
Found at i:33292625 original size:54 final size:53
Alignment explanation
Indices: 33292552--33292735 Score: 309
Period size: 54 Copynumber: 3.5 Consensus size: 53
33292542 TCATCAAATA
* *
33292552 CAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAG-ACAGATATATGTGGCAGAGCCACCAGAT
*
33292605 CAGATAATTGTGGCGTAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCA-GACAGATATATGTGGCAGAGCCACCAGAT
33292659 CAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGCCACCAGAT
33292712 -AGATAATTGTGGCATAGCCACCAG
1 CAGATAATTGTGGCATAGCCACCAG
33292736 GACGCTTCCT
Statistics
Matches: 125, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
52 24 0.19
53 34 0.27
54 66 0.53
55 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (53 bp):
CAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGCCACCAGAT
Found at i:33292696 original size:26 final size:26
Alignment explanation
Indices: 33292551--33292735 Score: 227
Period size: 27 Copynumber: 7.0 Consensus size: 26
33292541 GTCATCAAAT
33292551 ACAGATAT-TGTGGCAGAGCCACCAG
1 ACAGATATATGTGGCAGAGCCACCAG
*
33292576 AACAGATATATGTGGTAGAGCCACCAG
1 -ACAGATATATGTGGCAGAGCCACCAG
33292603 ATCAGATA-ATTGTGGC-GTAGCCACCAGG
1 A-CAGATATA-TGTGGCAG-AGCCACCA-G
33292631 ACAGATATATGTGGCAGAGCCACCAG
1 ACAGATATATGTGGCAGAGCCACCAG
*
33292657 ATCAGATA-ATTGTGGCATAGCCACCAG
1 A-CAGATATA-TGTGGCAGAGCCACCAG
33292684 ACAGATATATGTGGCAGAGCCACCAG
1 ACAGATATATGTGGCAGAGCCACCAG
* *
33292710 ATAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
33292736 GACGCTTCCT
Statistics
Matches: 142, Mismatches: 6, Indels: 22
0.84 0.04 0.13
Matches are distributed among these distances:
25 1 0.01
26 58 0.41
27 79 0.56
28 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (26 bp):
ACAGATATATGTGGCAGAGCCACCAG
Found at i:33293139 original size:8 final size:8
Alignment explanation
Indices: 33293122--33293152 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
33293112 TCTCAAAATA
33293122 TCGGCTTT
1 TCGGCTTT
*
33293130 TCGGCATT
1 TCGGCTTT
33293138 TCGGCTTT
1 TCGGCTTT
33293146 TCGGCTT
1 TCGGCTT
33293153 GTGCCGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.26, G:0.26, T:0.45
Consensus pattern (8 bp):
TCGGCTTT
Found at i:33300696 original size:27 final size:27
Alignment explanation
Indices: 33300666--33300858 Score: 215
Period size: 27 Copynumber: 7.3 Consensus size: 27
33300656 GTGATGAAGT
33300666 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
33300693 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
33300720 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
33300747 CACCAG-GACAGATATATGTGGCAGAG-
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
33300773 C-CTAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
33300799 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
33300826 CA-CAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
33300852 CACCAGA
1 CACCAGA
33300859 CGCTTCCTCC
Statistics
Matches: 141, Mismatches: 11, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
25 17 0.12
26 36 0.26
27 86 0.61
28 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:33300738 original size:54 final size:54
Alignment explanation
Indices: 33300666--33300858 Score: 313
Period size: 52 Copynumber: 3.6 Consensus size: 54
33300656 GTGATGAAGT
*
33300666 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
33300720 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAG-
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
33300773 C-CTAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
33300826 CA-CAGATCAGATAATTGTGGCATAGCCACCAGA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGA
33300859 CGCTTCCTCC
Statistics
Matches: 131, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
52 50 0.38
53 36 0.27
54 45 0.34
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:33309425 original size:2 final size:2
Alignment explanation
Indices: 33309418--33309445 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33309408 TCCGATGGAA
33309418 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
33309446 TGATGATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33318937 original size:27 final size:27
Alignment explanation
Indices: 33318907--33319025 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
33318897 ATTATTGAAA
** *
33318907 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
33318934 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
33318961 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
33318988 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
33319015 TACCCTCGATT
1 TACCCTCGATT
33319026 GTGAAATTAC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:33319072 original size:53 final size:51
Alignment explanation
Indices: 33319015--33319179 Score: 141
Period size: 53 Copynumber: 3.1 Consensus size: 51
33319005 ATTACCATTT
* * *
33319015 TACCCTCGATTGTGAAATTACTGAAATACCCTTGTAGGATAGAATTACCAAAA
1 TACCCT-GATTGTGAAATTACCGAAATACCCTAGTAGG-TAAAATTACCAAAA
* * * ** *
33319068 TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 TACCCT-GATTGTGAAATTACCGAAATA-CCCTAGTAGGTAAAATTACCAAAA
* * * ** *
33319121 TACCACTGGTTTTGAAATTACCGAAATACCCTCAATTTGTAAAATTACAAAAA
1 TACC-CTGATTGTGAAATTACCGAAATACCCT-AGTAGGTAAAATTACCAAAA
33319174 TACCCT
1 TACCCT
33319180 TGACTTTTTA
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
52 6 0.07
53 77 0.84
54 9 0.10
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (51 bp):
TACCCTGATTGTGAAATTACCGAAATACCCTAGTAGGTAAAATTACCAAAA
Found at i:33319179 original size:27 final size:26
Alignment explanation
Indices: 33319057--33319179 Score: 158
Period size: 27 Copynumber: 4.7 Consensus size: 26
33319047 TGTAGGATAG
33319057 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCCTAGTTTGTAA
33319083 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
* * *
33319110 AATTACCGAAATACCACTGGTTT-TGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* *
33319136 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
*
33319163 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
33319180 TGACTTTTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
25 2 0.02
26 35 0.41
27 48 0.56
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:33319229 original size:27 final size:26
Alignment explanation
Indices: 33319186--33319241 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
33319176 CCCTTGACTT
33319186 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
33319212 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
33319239 TTT
1 TTT
33319242 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:33319337 original size:27 final size:27
Alignment explanation
Indices: 33319258--33319359 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
33319248 TTACCAAAAC
* * * **
33319258 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCTTATAGGGTAAAATGACTGTAAT
* * *
33319285 ACCCCTAATA-GGTAAAAAGACCGTAA-
1 A-CCCTTATAGGGTAAAATGACTGTAAT
* *
33319311 AGCCCTTGTAGGGTAAAGTGACTGTAAT
1 A-CCCTTATAGGGTAAAATGACTGTAAT
*
33319339 ACCCTTATATGGTAAAATGAC
1 ACCCTTATAGGGTAAAATGAC
33319360 GAATACACCC
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
26 7 0.13
27 41 0.75
28 7 0.13
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
ACCCTTATAGGGTAAAATGACTGTAAT
Found at i:33320208 original size:25 final size:24
Alignment explanation
Indices: 33320170--33320239 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
33320160 AGGAAGTGCT
*
33320170 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
33320194 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
33320219 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
33320240 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:33320252 original size:24 final size:24
Alignment explanation
Indices: 33320169--33320252 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
33320159 GAGGAAGTGC
* *
33320169 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
33320194 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
33320218 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
33320242 TAAAAGAGGCT
1 TAAAAG-GGCT
33320253 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 36 0.72
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:33320508 original size:31 final size:31
Alignment explanation
Indices: 33320459--33320536 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
33320449 CGCTTACAGT
*
33320459 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
33320489 AAAGGCTTTGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
33320520 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
33320537 TTATGTCGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 10 0.23
31 34 0.77
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:33321396 original size:9 final size:8
Alignment explanation
Indices: 33321379--33321411 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
33321369 AAAATTATTG
33321379 TTATTTTT
1 TTATTTTT
33321387 TTATTTTT
1 TTATTTTT
33321395 TTATTTTT
1 TTATTTTT
*
33321403 TTCTTTTT
1 TTATTTTT
33321411 T
1 T
33321412 CGAAATTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:33322882 original size:27 final size:27
Alignment explanation
Indices: 33322852--33322995 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
33322842 TCCTGAAATG
* * *
33322852 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
33322879 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
33322906 CCCTCAATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
33322933 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
33322960 CCCTC-AGTTTATAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTA
33322987 CCCTCGATT
1 CCCTCGATT
33322996 GTGAAATTAC
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCGTTTTA
Found at i:33323042 original size:53 final size:53
Alignment explanation
Indices: 33322985--33323150 Score: 174
Period size: 53 Copynumber: 3.1 Consensus size: 53
33322975 ATTACCGTTT
* * * *
33322985 TACCCTCGATTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAA
1 TACCCTAGTTTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAA
* * ** *
33323038 TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 TACCCTAGTTTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAA
* * **
33323091 TACCACTGGTTTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTAGTTTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAA
33323145 TACCCT
1 TACCCT
33323151 TGATTTACAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 50 0.52
54 46 0.48
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
TACCCTAGTTTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAA
Found at i:33323156 original size:27 final size:27
Alignment explanation
Indices: 33323027--33323261 Score: 176
Period size: 27 Copynumber: 8.7 Consensus size: 27
33323017 TGTAGGATAG
*
33323027 AATTACCAAAATACCCTAG-TTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
33323053 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
33323080 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
* **
33323107 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
33323134 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
33323161 AATTA-TAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * **
33323190 AATTA-TAGAAATACCATTG-TTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** * *
33323216 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
33323243 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
33323262 TAGGATGAAA
Statistics
Matches: 170, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
26 35 0.21
27 111 0.65
28 4 0.02
29 20 0.12
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:33323164 original size:54 final size:53
Alignment explanation
Indices: 33323027--33323262 Score: 197
Period size: 54 Copynumber: 4.4 Consensus size: 53
33323017 TGTAGGATAG
* ** *
33323027 AATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTTGTTTACAAAATTACCGAAATACCCTC-AGTTTGTAA
* * *** *
33323080 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACC-CTTGTTTACAAAATTACCGAAATACCCTCAGTTTGTAA
** * * *
33323134 AATTACCAAAATACCCTTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCTTG-TTTACAAAATTACCGAAATACCC-TCAGTTTGT-AA
* * * ** *
33323190 AATTA-TAGAAATACCATTGTTTACAAAATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCTTGTTTACAAAATTACCGAAATACCCTCAGTTTGTAA
* *
33323243 ATTTACCAAAACACCCTTGT
1 AATTACCAAAATACCCTTGT
33323263 AGGATGAAAT
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
53 32 0.22
54 70 0.47
55 29 0.20
56 17 0.11
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (53 bp):
AATTACCAAAATACCCTTGTTTACAAAATTACCGAAATACCCTCAGTTTGTAA
Found at i:33323165 original size:81 final size:80
Alignment explanation
Indices: 33323027--33323175 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 80
33323017 TGTAGGATAG
* ** *
33323027 AATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAAT
1 AATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAAT
33323092 ACCACTGGTTTGTGA
66 ACCACTGGTTTGTGA
* * *
33323107 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTATAGAA
1 AATTACCAAAATACCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGAA
33323171 ATACC
64 ATACC
33323176 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 21 0.35
81 39 0.65
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAAT
ACCACTGGTTTGTGA
Found at i:33323199 original size:29 final size:27
Alignment explanation
Indices: 33323142--33323234 Score: 120
Period size: 29 Copynumber: 3.4 Consensus size: 27
33323132 AAAATTACCA
33323142 AAATACCCTTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
33323169 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
*
33323198 AAATACCATTG-TTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
33323224 AAATACCCTTG
1 AAATACCCTTG
33323235 GTTTGTAGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
26 18 0.31
27 17 0.29
28 4 0.07
29 20 0.34
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:33324205 original size:25 final size:25
Alignment explanation
Indices: 33324168--33324261 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
33324158 GGAAGTGCTA
* *
33324168 AAAGGGCTCTGCCCCAGTTTA-CCG
1 AAAGGGCTTTGCCCCAGTTTATCAG
*
33324192 AAAAGGGCTTTGCCCTAGTTTATCAG
1 -AAAGGGCTTTGCCCCAGTTTATCAG
*
33324218 AAAGGGCTTTGCCCTAGTTTATCAG
1 AAAGGGCTTTGCCCCAGTTTATCAG
33324243 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
33324262 ATTAAAAGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 62 0.97
26 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:33324530 original size:31 final size:31
Alignment explanation
Indices: 33324481--33324563 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
33324471 CGCTTGCAGT
33324481 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33324511 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33324542 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33324564 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33340099 original size:47 final size:47
Alignment explanation
Indices: 33340030--33340123 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
33340020 CGATTGAGTT
* *
33340030 AGAGAAAATCCTTAATGTGTTTCATGTATCTATGTTGCATCGATATA
1 AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
33340077 AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
1 AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
33340124 GGTCGGATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (47 bp):
AGAGAAAATCCATAATGTGTTTCATGTATCGATGTTGCATCGATATA
Found at i:33346526 original size:55 final size:55
Alignment explanation
Indices: 33346416--33346526 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 55
33346406 CAAGCCTGCC
* * * *
33346416 AAAACAACACTGGCATGCGACACGCCCGTGTGGAAGACCCATGGTTGAACCTGTT
1 AAAACAACACGGGCATGCGACACGCCCGTGTCGAACACCCATGGTCGAACCTGTT
* * * * * * *
33346471 AAAACAGCACGGGCGTGTGACATGCCCGTGTCTAACACCCGTGGTCGAACTTGTT
1 AAAACAACACGGGCATGCGACACGCCCGTGTCGAACACCCATGGTCGAACCTGTT
33346526 A
1 A
33346527 GATTGACACG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (55 bp):
AAAACAACACGGGCATGCGACACGCCCGTGTCGAACACCCATGGTCGAACCTGTT
Found at i:33373898 original size:13 final size:13
Alignment explanation
Indices: 33373873--33373905 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33373863 TTACTTTAGT
*
33373873 TTAG-TTAGTTAA
1 TTAGTTTAGCTAA
33373885 TTAGTTTAGCTAA
1 TTAGTTTAGCTAA
33373898 TTAGTTTA
1 TTAGTTTA
33373906 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (13 bp):
TTAGTTTAGCTAA
Found at i:33382309 original size:13 final size:13
Alignment explanation
Indices: 33382291--33382316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33382281 CTTTAGTTTA
33382291 ATTAGTTAATTAG
1 ATTAGTTAATTAG
33382304 ATTAGTTAATTAG
1 ATTAGTTAATTAG
33382317 TTTAATAAAC
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTAGTTAATTAG
Found at i:33386249 original size:209 final size:208
Alignment explanation
Indices: 33385867--33386290 Score: 704
Period size: 209 Copynumber: 2.0 Consensus size: 208
33385857 TTCAATTTCC
*
33385867 ATTCAAGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTTCTTTTAT
1 ATTCAAGGGTTTAGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTTCTTTTAT
*
33385932 AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGATGAATCTTGTTACTATT
66 AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGAATCTTGTTACTATT
*
33385997 ATCTAAATTGTATGATAGATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
131 ATCTAAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
*
33386062 TTCTAGGATATTG
196 TTCCAGGATATTG
* *
33386075 ATTCAAGGGCTTTAGGTTTTTTTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTTCTTTTA
1 ATTCAAGGG-TTTAGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTTCTTTTA
* * * * *
33386140 TAATTATGAACTAAACCTCCTATATACCTAAGGGGAATGAAACCTAAGGCGGATCTTGTTATTAT
65 TAATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGAATCTTGTTACTAT
* * * *
33386205 TATCTGAATTGTATGATAAATATTTTACTTGTTGTTACTTATGTGTTCTTAATTCTTGTTTTAAT
130 TATCTAAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAAT
33386270 ATTCCAGGATATTG
195 ATTCCAGGATATTG
33386284 ATTCAAG
1 ATTCAAG
33386291 TTAATGCTCT
Statistics
Matches: 200, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
208 9 0.05
209 191 0.95
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (208 bp):
ATTCAAGGGTTTAGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTTCTTTTAT
AATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGAATCTTGTTACTATT
ATCTAAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTAATA
TTCCAGGATATTG
Found at i:33391211 original size:25 final size:25
Alignment explanation
Indices: 33391183--33391230 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33391173 TTGGTTTTGG
33391183 TTTTGAGTTTTCGATTTAACCTACT
1 TTTTGAGTTTTCGATTTAACCTACT
*** *
33391208 TTTTTCTTTTTCGATTTTACCTA
1 TTTTGAGTTTTCGATTTAACCTA
33391231 AAGGCATGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTGAGTTTTCGATTTAACCTACT
Found at i:33392309 original size:23 final size:23
Alignment explanation
Indices: 33392275--33392329 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
33392265 TTATCACGTT
33392275 GTCATGACAAGAGGAAGCTCCTC
1 GTCATGACAAGAGGAAGCTCCTC
*
33392298 GTCGTGACAAGAGGAAGCTCCTC
1 GTCATGACAAGAGGAAGCTCCTC
33392321 GTCATGACA
1 GTCATGACA
33392330 TCAAGTGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
GTCATGACAAGAGGAAGCTCCTC
Found at i:33392931 original size:45 final size:45
Alignment explanation
Indices: 33392867--33392960 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
33392857 ACTACAGGGG
33392867 ACACATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTC
1 ACACATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTC
33392912 ACACATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTC
1 ACACATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTC
33392957 ACAC
1 ACAC
33392961 TCCCATGTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (45 bp):
ACACATAGCCATGTCGCATGACCGTATGTCACACACGGCTGAGTC
Found at i:33393093 original size:20 final size:20
Alignment explanation
Indices: 33393068--33393108 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33393058 CAAGGCATCA
*
33393068 AAACATACTAAATCATTCAT
1 AAACATACTAAATCATGCAT
33393088 AAACATACTAAATCATGCAT
1 AAACATACTAAATCATGCAT
33393108 A
1 A
33393109 TAATGACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (20 bp):
AAACATACTAAATCATGCAT
Found at i:33394757 original size:138 final size:138
Alignment explanation
Indices: 33394504--33394772 Score: 326
Period size: 138 Copynumber: 1.9 Consensus size: 138
33394494 AACCATAAAA
*
33394504 TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAAACTAAATAATGCTGCTCATACAAGCTAAC
1 TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAAACTAAATAATGCTGCTCACACAAGCTAAC
** * * * *
33394569 GAGTATTTGTAACAAATGTTAGAACTCAGTCATCAGTAGGACATTCAGGACTAGCACCTGAAACA
66 GAGTATCCGGAACAAATGTTAGAACTCAGCCATCAGTAGAACATTCAGGACCAGCACCTGAAACA
33394634 TAGTAACC
131 TAGTAACC
* * * * * * *
33394642 TGGGTCTGCTGACACAAGCTGA-GAGTCGGAATGTAAGCTACATGATGCTGCTCACACAAGCTTA
1 TGGGTCTGCTCACACAAGCTAACG-GTCAGAATGTAAACTAAATAATGCTGCTCACACAAGCTAA
* * * ** *
33394706 TGAGTATCCGCGAA-AAATGTTGGACCTCAGCCATTGGTAGAACATTTAGGACCAGCACCTGAAA
65 CGAGTATCCG-GAACAAATGTTAGAACTCAGCCATCAGTAGAACATTCAGGACCAGCACCTGAAA
33394770 CAT
129 CAT
33394773 GAAAACCCTA
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 1 0.01
138 106 0.97
139 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (138 bp):
TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAAACTAAATAATGCTGCTCACACAAGCTAAC
GAGTATCCGGAACAAATGTTAGAACTCAGCCATCAGTAGAACATTCAGGACCAGCACCTGAAACA
TAGTAACC
Found at i:33406498 original size:46 final size:46
Alignment explanation
Indices: 33406379--33406742 Score: 470
Period size: 46 Copynumber: 8.0 Consensus size: 46
33406369 GCCTTCTGAA
*
33406379 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33406425 ATGAAATG--TAAGACCATGGTTGAAAGATACCATGGCATCATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
33406469 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATTGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33406515 A-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33406561 ATGAAATGAATAAGACCATGGTTTAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
33406607 ATGAAATGAATAAGACCACGATTGAAAGATGCCATGGCAA-A-GCAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG--AT
* * *
33406653 ATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
33406699 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
33406743 TCAAAGATAA
Statistics
Matches: 281, Mismatches: 28, Indels: 18
0.86 0.09 0.06
Matches are distributed among these distances:
44 44 0.16
45 3 0.01
46 231 0.82
47 2 0.01
48 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:33414760 original size:26 final size:26
Alignment explanation
Indices: 33414724--33414859 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
33414714 TGATACAAAT
33414724 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33414750 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33414776 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
33414802 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
33414828 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33414854 TGATAA
1 TGATAA
33414860 GAATTTCATG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:33416580 original size:27 final size:27
Alignment explanation
Indices: 33416478--33416585 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
33416468 GAGGAAGCGT
* *
33416478 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
33416505 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
33416532 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
33416560 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGT
33416586 TCTAGCAGCC
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.01
27 55 0.75
28 17 0.23
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:33416583 original size:54 final size:54
Alignment explanation
Indices: 33416476--33416588 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
33416466 TGGAGGAAGC
*
33416476 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
33416530 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
33416584 GTTCT
1 GTTCT
33416589 AGCAGCCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:33417826 original size:16 final size:16
Alignment explanation
Indices: 33417805--33417859 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
33417795 GTTTGGTTCA
*
33417805 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
33417821 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
33417837 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
33417853 CTGTAAT
1 CTGTAAT
33417860 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:33417933 original size:44 final size:46
Alignment explanation
Indices: 33417841--33417933 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
33417831 ATAGAGTTGT
*
33417841 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
***
33417887 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
33417931 AAT
1 AAT
33417934 AATGTTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:33418122 original size:16 final size:16
Alignment explanation
Indices: 33418103--33418134 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33418093 AATTATTATT
33418103 AAATATAATTTAATAA
1 AAATATAATTTAATAA
33418119 AAATATAATTTAATAA
1 AAATATAATTTAATAA
33418135 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:33418175 original size:53 final size:53
Alignment explanation
Indices: 33418055--33418178 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 53
33418045 TAAAATAATT
* * *
33418055 TAATGAAAATAATAA-ATAATTTAATCATATTTTAACATAATTATTATTAAATA
1 TAAT-AAAATAAAAATATAATTTAATAACATTTTAACATAATTATTATTAAATA
** * *
33418108 TAATTTAATAAAAATATAATTTAATAACATTCTTAATATAATTATTATATGAAT-
1 TAATAAAATAAAAATATAATTTAATAACATT-TTAACATAATTATTAT-TAAATA
*
33418162 TAA-AAAATCAAAATATA
1 TAATAAAATAAAAATATA
33418179 TAATACTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
52 7 0.12
53 29 0.50
54 18 0.31
55 4 0.07
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (53 bp):
TAATAAAATAAAAATATAATTTAATAACATTTTAACATAATTATTATTAAATA
Found at i:33421902 original size:26 final size:26
Alignment explanation
Indices: 33421830--33421930 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 26
33421820 TTATAATAGG
*
33421830 AATATTACTAAATATAATTTAATAAT
1 AATATTATTAAATATAATTTAATAAT
* * * *
33421856 AA-ATAATTTAATCATACTTTAAT-TT
1 AATATTATTAAAT-ATAATTTAATAAT
33421881 AAGTATTATTAAATATAATTTAATAA-
1 AA-TATTATTAAATATAATTTAATAAT
*
33421907 AA-A-TAATAACATATAATTTAATAA
1 AATATTATTAA-ATATAATTTAATAA
33421931 CATTCTTAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.08
24 15 0.25
25 10 0.17
26 22 0.37
27 8 0.13
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (26 bp):
AATATTATTAAATATAATTTAATAAT
Found at i:33421972 original size:63 final size:61
Alignment explanation
Indices: 33421849--33421986 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 61
33421839 AAATATAATT
* *
33421849 TAATAATAAATAATTTAATCATACTTTAATTTAAGTATTATTAAATATAATTTAATAAAAA
1 TAATAATATATAATTTAATCATACTTTAATATAAGTATTATTAAATATAATTTAATAAAAA
* * *
33421910 TAATAACATATAATTTAATAACATTC-TTAATATAATTATTATTAAAATATGAA-TTAATAAAAA
1 TAATAATATATAATTTAAT--CATACTTTAATATAAGTATTATT-AAATAT-AATTTAATAAAAA
*
33421973 TCATAATATATAAT
1 TAATAATATATAAT
33421987 ATTAGAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
61 17 0.26
62 15 0.23
63 32 0.48
64 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (61 bp):
TAATAATATATAATTTAATCATACTTTAATATAAGTATTATTAAATATAATTTAATAAAAA
Found at i:33422100 original size:15 final size:16
Alignment explanation
Indices: 33422080--33422114 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33422070 TAATTTAATT
33422080 ATCTTC-TATAAATGA
1 ATCTTCTTATAAATGA
*
33422095 ATCTTCTTATAAATTA
1 ATCTTCTTATAAATGA
33422111 ATCT
1 ATCT
33422115 CAGTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (16 bp):
ATCTTCTTATAAATGA
Found at i:33422249 original size:13 final size:11
Alignment explanation
Indices: 33422223--33422247 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33422213 TCATTTGTTA
33422223 TTTATATAATT
1 TTTATATAATT
33422234 TTTATATAATT
1 TTTATATAATT
33422245 TTT
1 TTT
33422248 TTTTTTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATATAATT
Found at i:33422296 original size:19 final size:18
Alignment explanation
Indices: 33422269--33422311 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33422259 TGTTATAATC
33422269 TAAAAATGATAAATTGTAT
1 TAAAAATGA-AAATTGTAT
* * *
33422288 TAAACATGAAATTTTTAT
1 TAAAAATGAAAATTGTAT
33422306 TAAAAA
1 TAAAAA
33422312 AAAAAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (18 bp):
TAAAAATGAAAATTGTAT
Found at i:33423010 original size:5 final size:5
Alignment explanation
Indices: 33422986--33423024 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
33422976 TGAACATTGA
*
33422986 AAACT AAA-T AACCAT AAACT AAACT AAACT AAACT AAAC
1 AAACT AAACT AAAC-T AAACT AAACT AAACT AAACT AAAC
33423025 AACTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.77
6 4 0.13
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
AAACT
Found at i:33423677 original size:12 final size:12
Alignment explanation
Indices: 33423660--33423686 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33423650 AGTCATAAGC
33423660 CCTTAATTGCAA
1 CCTTAATTGCAA
33423672 CCTTAATTGCAA
1 CCTTAATTGCAA
33423684 CCT
1 CCT
33423687 CAGTCATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (12 bp):
CCTTAATTGCAA
Found at i:33443834 original size:46 final size:46
Alignment explanation
Indices: 33443768--33443910 Score: 171
Period size: 46 Copynumber: 3.1 Consensus size: 46
33443758 CCGCCACTTT
* * *
33443768 GGCTTACAA-TTCGACAGGCTCGTACTTTGCTTACTGTCTTTAATA
1 GGCTTACAACTTTGACAGGCTCGTACTTTGCTTACTGTCTTCAACA
* * * *
33443813 GGCTTACAACTTTGACAGGCTCGTACTCTACTTTCTATCTTCAACA
1 GGCTTACAACTTTGACAGGCTCGTACTTTGCTTACTGTCTTCAACA
* * **
33443859 GGCTCACAACTTTGACAAGCTCACACTTTGGCTTACTGTCTTCAACA
1 GGCTTACAACTTTGACAGGCTCGTACTTT-GCTTACTGTCTTCAACA
33443906 GGCTT
1 GGCTT
33443911 GCACGTTTAC
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 9 0.11
46 53 0.66
47 18 0.22
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (46 bp):
GGCTTACAACTTTGACAGGCTCGTACTTTGCTTACTGTCTTCAACA
Found at i:33456706 original size:29 final size:28
Alignment explanation
Indices: 33456673--33456800 Score: 107
Period size: 29 Copynumber: 4.5 Consensus size: 28
33456663 GACGAGATTA
33456673 GCACTAAGTGTGCATGCTAGAAATATATG
1 GCACTAAGTGTGCATGCT-GAAATATATG
*
33456702 GCACTAAGTGTGCATGCTGGAAATATACG
1 GCACTAAGTGTGCATGCT-GAAATATATG
* ***
33456731 GCACT-GGTGTGCGA-GCTTGAAGGGTATG
1 GCACTAAGTGTGC-ATGC-TGAAATATATG
* ** * *
33456759 GCACTATGTGTGCGGGCTTAAATCACATG
1 GCACTAAGTGTGCATGCTGAAAT-ATATG
33456788 GCACTAAGTGTGC
1 GCACTAAGTGTGC
33456801 GAAATCGAGT
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
28 22 0.28
29 57 0.72
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (28 bp):
GCACTAAGTGTGCATGCTGAAATATATG
Found at i:33464225 original size:29 final size:28
Alignment explanation
Indices: 33464192--33464319 Score: 107
Period size: 29 Copynumber: 4.5 Consensus size: 28
33464182 GACGAGATTA
33464192 GCACTAAGTGTGCATGCTAGAAATATATG
1 GCACTAAGTGTGCATGCT-GAAATATATG
*
33464221 GCACTAAGTGTGCATGCTGGAAATATACG
1 GCACTAAGTGTGCATGCT-GAAATATATG
* ***
33464250 GCACT-GGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGC-ATGCT-GAAATATATG
* ** * *
33464278 GCACTATGTGTGCGGGCTTAAATCACATG
1 GCACTAAGTGTGCATGCTGAAAT-ATATG
33464307 GCACTAAGTGTGC
1 GCACTAAGTGTGC
33464320 GAAATCGAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
28 22 0.28
29 57 0.72
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (28 bp):
GCACTAAGTGTGCATGCTGAAATATATG
Found at i:33466784 original size:20 final size:20
Alignment explanation
Indices: 33466759--33466799 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33466749 ACACCCAAAG
33466759 TTGAAGGATCCTAGATGTTT
1 TTGAAGGATCCTAGATGTTT
33466779 TTGAAGGATCCTAGATGTTT
1 TTGAAGGATCCTAGATGTTT
33466799 T
1 T
33466800 ACCATACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (20 bp):
TTGAAGGATCCTAGATGTTT
Found at i:33473417 original size:19 final size:19
Alignment explanation
Indices: 33473393--33473436 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33473383 AGGCTTTTTC
33473393 ATTGTTCATTAATGACACA
1 ATTGTTCATTAATGACACA
**
33473412 ATTGTTTTTTAATGACACA
1 ATTGTTCATTAATGACACA
*
33473431 GTTGTT
1 ATTGTT
33473437 TTCATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (19 bp):
ATTGTTCATTAATGACACA
Found at i:33473437 original size:19 final size:19
Alignment explanation
Indices: 33473401--33473438 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33473391 TCATTGTTCA
33473401 TTAATGACACAATTGTTTT
1 TTAATGACACAATTGTTTT
*
33473420 TTAATGACACAGTTGTTTT
1 TTAATGACACAATTGTTTT
33473439 CATTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
TTAATGACACAATTGTTTT
Found at i:33474959 original size:43 final size:43
Alignment explanation
Indices: 33474906--33474988 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
33474896 TCATCGAATA
* * * *
33474906 AAATCAAAGTAGGTAAGTTGTCACACGTAGTGCATCATCAGGC
1 AAATCAAAGTAGGGAAATTGACACACATAGTGCATCATCAGGC
*
33474949 AAATCGAAGTAGGGAAATTGACACACATAGTGCATCATCA
1 AAATCAAAGTAGGGAAATTGACACACATAGTGCATCATCA
33474989 AATAAATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (43 bp):
AAATCAAAGTAGGGAAATTGACACACATAGTGCATCATCAGGC
Found at i:33475392 original size:2 final size:2
Alignment explanation
Indices: 33475385--33475419 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33475375 CCACATATGC
33475385 AT AT AT AT 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 AT AT AT AT A
33475420 ATGATTTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33487503 original size:192 final size:193
Alignment explanation
Indices: 33487122--33487513 Score: 655
Period size: 192 Copynumber: 2.0 Consensus size: 193
33487112 TTGAAATTTT
*
33487122 AGTATTGACTTAAGAAGTATCCATTAAATCTATTAACTAAAATGATGTTACTTTTTACGAGAATT
1 AGTATTGACTTAAGAAGTATCCATTAAATCTATTAACTAAAATAATGTTACTTTTTACGAGAATT
* *
33487187 ATATAGAAATAACAAGCTGGCATGACATTACATATGTAATTACATGTTTGTTGCATAAGATTTTG
66 ATATAAAAATAACAAGCTGACATGACATTACATATGTAATTACATGTTTGTTGCATAAGATTTTG
* *
33487252 GAAAAATAGGATTTAACTTAAGGAATCTAATTGCTATTATTTGATTAAAACTAAAAAA-TTAA
131 AAAAAATAGGATTTAACTTAAGGAATCTAATTGCTACTATTTGATTAAAACTAAAAAATTTAA
* *
33487314 AGTATTGACTTAAGAAGTATTCGTTAAATCTATTAACTAAAATAATGTTACTTTTTACGAGAATT
1 AGTATTGACTTAAGAAGTATCCATTAAATCTATTAACTAAAATAATGTTACTTTTTACGAGAATT
* ** *
33487379 ATATAAAAATAGCAATTTGACATGACATTACATATGTAATTACATTTTTGTTGCATAAGATTTTG
66 ATATAAAAATAACAAGCTGACATGACATTACATATGTAATTACATGTTTGTTGCATAAGATTTTG
33487444 AAAATAATAGGATTTAACTTAAGGAATCTAATTGCTACTATTTGATTAAAACT-AAAAATTTAA
131 AAAA-AATAGGATTTAACTTAAGGAATCTAATTGCTACTATTTGATTAAAACTAAAAAATTTAA
33487507 AGT-TTGA
1 AGTATTGA
33487514 AAAATTACAG
Statistics
Matches: 187, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
192 133 0.71
193 54 0.29
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (193 bp):
AGTATTGACTTAAGAAGTATCCATTAAATCTATTAACTAAAATAATGTTACTTTTTACGAGAATT
ATATAAAAATAACAAGCTGACATGACATTACATATGTAATTACATGTTTGTTGCATAAGATTTTG
AAAAAATAGGATTTAACTTAAGGAATCTAATTGCTACTATTTGATTAAAACTAAAAAATTTAA
Found at i:33490673 original size:37 final size:37
Alignment explanation
Indices: 33490447--33490669 Score: 187
Period size: 37 Copynumber: 6.0 Consensus size: 37
33490437 CATGCATTTC
*
33490447 GTATAATCAGTAGATATCGCTTGTTTGAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTCA
* * * *
33490484 GTATAATTAATGGATATCGCTCGTTTGAGCACCTTTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGC-CCATTCA
* * * * * * *
33490522 GTAGAATGAGTAGA-AGTTGCTCTTTTGAGCACGTTTA
1 GTATAATCAGTAGATA-TCGCTCGTTTGAGCCCATTCA
* * * *
33490559 GTATATTCAATAGATATTGCTTGTTTGAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTCA
* * * * * * *
33490596 GTACAATTAGTGGATATCACTCATTTGAGCACATTTA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTCA
* * *
33490633 ATATAATCAGTAGACATTGCTCGTTTGAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTCA
33490670 ATATTCCATA
Statistics
Matches: 139, Mismatches: 44, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
37 110 0.79
38 29 0.21
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (37 bp):
GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTCA
Found at i:33493711 original size:24 final size:24
Alignment explanation
Indices: 33493683--33493734 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
33493673 TTTCTAGCAG
* *
33493683 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
33493707 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
33493731 ATTT
1 ATTT
33493735 GATTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:33495671 original size:6 final size:7
Alignment explanation
Indices: 33495651--33495678 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
33495641 ACTATTTGAT
33495651 AATAAAA
1 AATAAAA
33495658 AATAAAA
1 AATAAAA
33495665 AATAAAA
1 AATAAAA
33495672 AATAAAA
1 AATAAAA
33495679 TTATACCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:33496799 original size:31 final size:31
Alignment explanation
Indices: 33496753--33496823 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
33496743 TTACAAGTAT
33496753 AATTTATA-TATTCAACAAAAAATTCTTTAA
1 AATTTATATTATTCAACAAAAAATTCTTTAA
33496783 AATTTATATTATTCAACAAAAAATTCTTTAA
1 AATTTATATTATTCAACAAAAAATTCTTTAA
33496814 AATTTATATT
1 AATTTATATT
33496824 TCATATTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 8 0.20
31 32 0.80
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (31 bp):
AATTTATATTATTCAACAAAAAATTCTTTAA
Found at i:33497991 original size:16 final size:16
Alignment explanation
Indices: 33497970--33498003 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33497960 ATCGAATTAA
33497970 ATAATATATATTATAT
1 ATAATATATATTATAT
*
33497986 ATAATATATATTTTAT
1 ATAATATATATTATAT
33498002 AT
1 AT
33498004 TAGCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATATATATTATAT
Found at i:33499691 original size:24 final size:25
Alignment explanation
Indices: 33499655--33499719 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
33499645 CTCAATAGTA
* *
33499655 ATTTATTACAATAAATAATTAAAAT
1 ATTTATAAGAATAAATAATTAAAAT
33499680 GA-TTATAA-AATAAATAATTAAAAT
1 -ATTTATAAGAATAAATAATTAAAAT
33499704 ATTTATAAGAA-AAATA
1 ATTTATAAGAATAAATA
33499720 TTATGACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 1 0.03
24 27 0.75
25 7 0.19
26 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
ATTTATAAGAATAAATAATTAAAAT
Found at i:33499703 original size:13 final size:13
Alignment explanation
Indices: 33499659--33499704 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
33499649 ATAGTAATTT
*
33499659 ATTACAATAAATA
1 ATTAAAATAAATA
* *
33499672 ATTAAAAT-GATT
1 ATTAAAATAAATA
33499684 A-TAAAATAAATA
1 ATTAAAATAAATA
33499696 ATTAAAATA
1 ATTAAAATA
33499705 TTTATAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
11 6 0.23
12 6 0.23
13 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATTAAAATAAATA
Found at i:33500396 original size:30 final size:31
Alignment explanation
Indices: 33500345--33500412 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
33500335 GGTTTCATTT
* *
33500345 CAGTCACTCAACTTTAGAAAAA-TAACAAAA
1 CAGTCACTCAACGTTACAAAAAGTAACAAAA
* *
33500375 CAGTCACT-AACGTTATCAAAAAGTGACAAAT
1 CAGTCACTCAACGTTA-CAAAAAGTAACAAAA
33500406 CAGTCAC
1 CAGTCAC
33500413 CCACTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.19
30 13 0.41
31 13 0.41
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.21
Consensus pattern (31 bp):
CAGTCACTCAACGTTACAAAAAGTAACAAAA
Found at i:33513544 original size:4 final size:4
Alignment explanation
Indices: 33513535--33513742 Score: 398
Period size: 4 Copynumber: 52.0 Consensus size: 4
33513525 CTAACATTTT
33513535 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
33513583 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
33513631 TATA CATA CATA CATA CATA CATA CATA CAGA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
33513679 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
33513727 CATA CATA CATA CATA
1 CATA CATA CATA CATA
33513743 TTTACTAAAG
Statistics
Matches: 200, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 200 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:33515022 original size:6 final size:7
Alignment explanation
Indices: 33515006--33515030 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33514996 TTAATTTTTA
33515006 TTTTTGT
1 TTTTTGT
33515013 TTTTTGT
1 TTTTTGT
33515020 TTTTTGT
1 TTTTTGT
33515027 TTTT
1 TTTT
33515031 CAAAATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:33515103 original size:23 final size:22
Alignment explanation
Indices: 33515076--33515123 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
33515066 TTCTTCTCTT
* *
33515076 TTCCTTCTGTCTTCTCTATTTTG
1 TTCCTACTGTCTCCTC-ATTTTG
*
33515099 TTCCTACTTTCTCCTCATTTTG
1 TTCCTACTGTCTCCTCATTTTG
33515121 TTC
1 TTC
33515124 TTTCGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.58
Consensus pattern (22 bp):
TTCCTACTGTCTCCTCATTTTG
Found at i:33519133 original size:80 final size:80
Alignment explanation
Indices: 33519049--33519197 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33519039 TATGGTAACC
* * * *
33519049 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33519113 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33519129 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33519194 CCGG
66 CCGG
33519198 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33519139 original size:40 final size:38
Alignment explanation
Indices: 33519090--33519197 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33519080 ATCACGATTT
*
33519090 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33519130 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33519170 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33519198 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33527689 original size:17 final size:18
Alignment explanation
Indices: 33527647--33527695 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
33527637 AGTTGAAAAG
33527647 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
33527666 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
33527683 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
33527696 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:33528584 original size:40 final size:40
Alignment explanation
Indices: 33528518--33528684 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33528508 AAATTGAATG
* * *
33528518 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
33528557 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
33528597 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
33528637 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
33528677 ATATCCGG
1 ATATCCGG
33528685 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:33535689 original size:17 final size:18
Alignment explanation
Indices: 33535647--33535695 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
33535637 AGTTGAAAAG
33535647 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
33535666 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
33535683 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
33535696 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:33536583 original size:40 final size:40
Alignment explanation
Indices: 33536517--33536683 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33536507 AAATTGAATG
* * *
33536517 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
33536556 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
33536596 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
33536636 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
33536676 ATATCCGG
1 ATATCCGG
33536684 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:33538301 original size:80 final size:80
Alignment explanation
Indices: 33538217--33538365 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33538207 TATGGTAACC
* * * *
33538217 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33538281 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33538297 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33538362 CCGG
66 CCGG
33538366 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33538307 original size:40 final size:38
Alignment explanation
Indices: 33538258--33538365 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33538248 ATCACGATTT
*
33538258 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33538298 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33538338 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33538366 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33546829 original size:106 final size:106
Alignment explanation
Indices: 33546708--33546932 Score: 369
Period size: 106 Copynumber: 2.1 Consensus size: 106
33546698 ACAGCCAAGC
33546708 CACACGCTCGTGTGCTAGGCCGTGTGAGCATATTGACTTGCATCCTTAAGAAGCTACAGGGGACA
1 CACACGCTCGTGTGCTAGGCCGTGTGAGCATATTGACTTGCATCCTTAAGAAGCTACAGGGGACA
* *
33546773 TATAACCGTGTCACCTGGCCATATGTCACACACGGCTAAGA
66 CACAACCGTGTCACCTGGCCATATGTCACACACGGCTAAGA
* * *
33546814 CACACGTTCGTGTGCTAGGCTGTGTGAGCATATTGACTTGCATCCTTAAGAAGCTATAGGGGACA
1 CACACGCTCGTGTGCTAGGCCGTGTGAGCATATTGACTTGCATCCTTAAGAAGCTACAGGGGACA
* * * *
33546879 CACAACCGTGTCACTTGGCCATGTGTCACACACTGCTGAGA
66 CACAACCGTGTCACCTGGCCATATGTCACACACGGCTAAGA
33546920 CACACGCTCGTGT
1 CACACGCTCGTGT
33546933 CTCTACCAGT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (106 bp):
CACACGCTCGTGTGCTAGGCCGTGTGAGCATATTGACTTGCATCCTTAAGAAGCTACAGGGGACA
CACAACCGTGTCACCTGGCCATATGTCACACACGGCTAAGA
Found at i:33548137 original size:25 final size:25
Alignment explanation
Indices: 33548109--33548162 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
33548099 AGCTCTTCTT
*
33548109 AGCTGAATAACAGTAAGCTCATGCG
1 AGCTGAATAACAGTAAGCTCATACG
* * *
33548134 AGCTGAGTATCGGTAAGCTCATACG
1 AGCTGAATAACAGTAAGCTCATACG
33548159 AGCT
1 AGCT
33548163 AAAATCGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (25 bp):
AGCTGAATAACAGTAAGCTCATACG
Found at i:33553366 original size:40 final size:39
Alignment explanation
Indices: 33553201--33553384 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
33553191 AAATTGAATG
* * *
33553201 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
33553241 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
33553281 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
33553321 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
33553360 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
33553385 CTTGGTACGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:33554922 original size:20 final size:20
Alignment explanation
Indices: 33554897--33554957 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
33554887 AATAAAAAAT
33554897 AAAATTATAAAAATTATTAG
1 AAAATTATAAAAATTATTAG
* * *
33554917 AAAATTCA-AAATATT-GTAA
1 AAAATT-ATAAAAATTATTAG
33554936 AAAATTAT-AAAATTATTAG
1 AAAATTATAAAAATTATTAG
33554955 AAA
1 AAA
33554958 TTGTAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 6 0.19
19 13 0.41
20 12 0.38
21 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAATTATTAG
Found at i:33555560 original size:25 final size:26
Alignment explanation
Indices: 33555525--33555577 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
33555515 TAATTTTTAA
* *
33555525 TAATTTGAATAATTATTTTTTATTTT
1 TAATTTGAATAATTATTTGTAATTTT
33555551 TAATTT-AATAATTATTTGTAATTTT
1 TAATTTGAATAATTATTTGTAATTTT
33555576 TA
1 TA
33555578 TATTCTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
TAATTTGAATAATTATTTGTAATTTT
Found at i:33557488 original size:46 final size:44
Alignment explanation
Indices: 33557431--33557550 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 44
33557421 GATGAGAGCT
*
33557431 AGTGTAGGACATGTCTAGGACATGCATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAG-CTACGAG-T-TAAGCC
* * *
33557477 AGTGTAAGACATGTCTGGGATATGCATCAGCTACGAGTTAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGTTAAGCC
*
33557521 AATGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATC
33557551 GGCATCCTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 13 0.20
45 15 0.23
46 36 0.56
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGTTAAGCC
Found at i:33564917 original size:46 final size:45
Alignment explanation
Indices: 33564859--33565030 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
33564849 GGACTATTGT
* * * *
33564859 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-GATGA
** * *
33564905 GAGCCAGTGTAAGACCATGTCCAGGACATGGCATCAGCAGAGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACAGATGA
* * * *
33564953 GAGCTAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATG-A
33565000 -AGCCAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT
33565031 TAGCTACGAG
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
46 54 0.52
47 25 0.24
48 22 0.21
49 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA
Found at i:33566079 original size:28 final size:29
Alignment explanation
Indices: 33566038--33566093 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
33566028 ACACAGGCTA
*
33566038 GGACACGGGTGTGT-C-ATGGCCGTGTGAG
1 GGACACGGGCGTGTGCTA-GGCCGTGTGAG
33566066 GGACACGGGCGTGTGCTAGGCCGTGTGA
1 GGACACGGGCGTGTGCTAGGCCGTGTGA
33566094 AAGCCCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 11 0.44
30 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.46, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCGTGTGAG
Found at i:33568827 original size:8 final size:8
Alignment explanation
Indices: 33568814--33568842 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33568804 AGATATTTGT
33568814 TAATTAAA
1 TAATTAAA
33568822 TAATTAAA
1 TAATTAAA
33568830 TAATTAAA
1 TAATTAAA
33568838 TAATT
1 TAATT
33568843 GTGTGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATTAAA
Found at i:33568875 original size:5 final size:4
Alignment explanation
Indices: 33568849--33568882 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33568839 AATTGTGTGA
33568849 AAAT AAAT AAAT AAAT AAAT AAAAT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT
33568883 GGTGACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:33573228 original size:15 final size:15
Alignment explanation
Indices: 33573210--33573242 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
33573200 TGAATGTTCT
33573210 AATGT-TGAGATTATG
1 AATGTGTGA-ATTATG
33573225 AATGTGTGAATTATG
1 AATGTGTGAATTATG
33573240 AAT
1 AAT
33573243 TAGTAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (15 bp):
AATGTGTGAATTATG
Found at i:33575202 original size:46 final size:46
Alignment explanation
Indices: 33575146--33575316 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
33575136 ACATTTCGTA
33575146 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * * *
33575192 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* * * * *
33575238 GCCGATGCCATATCCCAGACACGGTCTTAAACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTCTCAT-CTCGAG
* *
33575286 GCTGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
33575317 AGCGCACAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 56 0.54
47 24 0.23
48 22 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:33575272 original size:94 final size:92
Alignment explanation
Indices: 33575146--33575319 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 92
33575136 ACATTTCGTA
* * * *
33575146 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAG
1 GCCGATGCATATCCCAGACAGGTCTTAAACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAG
33575209 ACATGTCTTACACTAGCTCTCGTCTCAAT
64 ACATGTCTTACACTAGCTCTCGTCTCAAT
* * *
33575238 GCCGATGCCATATCCCAGACACGGTCTTAAACTGGCTCTCATAATGTGGCTGATGCATGTCCTAG
1 GCCGATG-CATATCCCAGACA-GGTCTTAAACTGGCTCTCATAATGAGGCCGATGCATGTCCCAG
33575303 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
33575320 GCACAAATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 50 0.70
95 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCATATCCCAGACAGGTCTTAAACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Done.