Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 252 of 255
Found at i:81508756 original size:30 final size:29
Alignment explanation
Indices: 81508720--81508833 Score: 129
Period size: 30 Copynumber: 3.8 Consensus size: 29
81508710 ACTTTTCTCA
81508720 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTCCACCACCAACTCC
81508750 ACTAGCCACTCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTCCACCACCAACTCC
* * ** *
81508779 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACTCTT-TTCCACCACCAACTCC
* * *
81508809 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACTCTT-TTCCACCACCA
81508834 CTTGTACCTA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 31 0.42
30 43 0.58
ACGTcount: A:0.25, C:0.47, G:0.04, T:0.23
Consensus pattern (29 bp):
ACTAGCCACTCTTTTCCACCACCAACTCC
Found at i:81508770 original size:29 final size:30
Alignment explanation
Indices: 81508735--81508833 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 30
81508725 CCACTCCTTT
* *
81508735 TCCACCACCAACTCCACTAGCCACTCTT-T
1 TCCACCACCAACTCCACTAGCCACACTTGC
81508764 TCCACCACCAACTCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
81508794 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
81508824 TCCACCACCA
1 TCCACCACCA
81508834 CTTGTACCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 27 0.45
30 33 0.55
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:81509351 original size:23 final size:23
Alignment explanation
Indices: 81509314--81509443 Score: 74
Period size: 23 Copynumber: 5.5 Consensus size: 23
81509304 TTTTTTTTGT
81509314 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
81509337 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
81509359 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
81509382 TATTACGTATATATATTTTATACTATTT
1 TATTA--TATATAT-TCTTA-A-TATTA
81509410 TATT-TATATA-TCTTTAATATTA
1 TATTATATATATTC-TTAATATTA
*
81509432 TATTATTTATAT
1 TATTATATATAT
81509444 ATTTTTTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
21 3 0.04
22 23 0.28
23 25 0.31
24 7 0.09
25 11 0.14
26 1 0.01
27 3 0.04
28 6 0.07
29 1 0.01
30 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:81509445 original size:16 final size:16
Alignment explanation
Indices: 81509393--81509446 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
81509383 ATTACGTATA
* *
81509393 TATATTTTATACTATT
1 TATATATTATATTATT
*
81509409 T-TAT-TTATATATCTT
1 TATATATTATAT-TATT
81509424 TA-ATATTATATTATT
1 TATATATTATATTATT
81509439 TATATATT
1 TATATATT
81509447 TTTTCTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.16
15 14 0.45
16 12 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATATTATATTATT
Found at i:81509527 original size:25 final size:25
Alignment explanation
Indices: 81509320--81509529 Score: 143
Period size: 25 Copynumber: 8.5 Consensus size: 25
81509310 TTGTTATTAT
*
81509320 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATACTATATTATGTA
* *
81509344 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
81509366 TATATTTTAAATTCTATATTACGTA
1 TATATTTTTAATACTATATTATGTA
* *
81509391 TATATATTTT-ATACTATTTTATTTA
1 TATAT-TTTTAATACTATATTATGTA
* * *
81509416 TATATCTTTAATATTATATTATTTA
1 TATATTTTTAATACTATATTATGTA
** *
81509441 TATATTTTTTCTACATGTTATCTTATGTA
1 TATA--TTTT-TA-ATACTATATTATGTA
*
81509470 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
81509492 TATATTTTTAATACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
81509517 CATATTTTTAATA
1 TATATTTTTAATA
81509530 TTATCACGTA
Statistics
Matches: 147, Mismatches: 24, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.01
22 29 0.20
23 12 0.08
24 13 0.09
25 65 0.44
26 5 0.03
27 3 0.02
28 2 0.01
29 16 0.11
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:81509570 original size:101 final size:101
Alignment explanation
Indices: 81509379--81509570 Score: 219
Period size: 101 Copynumber: 1.9 Consensus size: 101
81509369 ATTTTAAATT
* * * * **
81509379 CTATATTACGTATATATATTTTATACTATTTTATTTATATATCTTTAATATTATATTATTTATAT
1 CTATATTACGTATATATATTTTATACTATATTATGTACATATCTTTAATATTATATCACGTATAT
* * *
81509444 ATTTTTTCTACATGTTATCTTATGTATATATCTTAA
66 ATTTTTTATACATGTCATATTATGTATATATCTTAA
* * *
81509480 CTATATTATGTATATAT-TTTTAATACTATATTATGTACATATTTTTAATA-T-TATCACGTATT
1 CTATATTACGTATATATATTTT-ATACTATATTATGTACATATCTTTAATATTATATCACGTATA
*
81509542 TATTTTTTATATATGTACATATTGATGTA
65 TATTTTTTATACATGT-CATATT-ATGTA
81509571 GTATTATTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
99 21 0.28
100 9 0.12
101 45 0.60
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (101 bp):
CTATATTACGTATATATATTTTATACTATATTATGTACATATCTTTAATATTATATCACGTATAT
ATTTTTTATACATGTCATATTATGTATATATCTTAA
Found at i:81509700 original size:16 final size:15
Alignment explanation
Indices: 81509676--81509723 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
81509666 TAATTATTAT
*
81509676 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
81509692 TATTTTAATATTTTA
1 TATTTTAATATTTTA
81509707 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
81509723 T
1 T
81509724 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:81509711 original size:7 final size:8
Alignment explanation
Indices: 81509676--81509727 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
81509666 TAATTATTAT
*
81509676 TATTCTAA
1 TATTTTAA
*
81509684 TATTTTGA
1 TATTTTAA
81509692 TATTTTAA
1 TATTTTAA
81509700 TATTTT-A
1 TATTTTAA
81509707 TATTTTATA
1 TATTTTA-A
*
81509716 TATTTTAT
1 TATTTTAA
81509724 TATT
1 TATT
81509728 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:81510571 original size:14 final size:14
Alignment explanation
Indices: 81510529--81510571 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
81510519 GATAGTGAAA
81510529 TTTATAAATATATT
1 TTTATAAATATATT
* *
81510543 TTCAT--ATAAATT
1 TTTATAAATATATT
81510555 TTTATAAATATATT
1 TTTATAAATATATT
81510569 TTT
1 TTT
81510572 TATGTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATAAATATATT
Found at i:81513230 original size:29 final size:29
Alignment explanation
Indices: 81513197--81513256 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
81513187 CACAAAAATT
81513197 ACACTCAGTTTCGTATTTCGAAAATACAA
1 ACACTCAGTTTCGTATTTCGAAAATACAA
81513226 ACACTCAGTTTCGTATTTCGAAAATACAA
1 ACACTCAGTTTCGTATTTCGAAAATACAA
81513255 AC
1 AC
81513257 TGATGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (29 bp):
ACACTCAGTTTCGTATTTCGAAAATACAA
Found at i:81514475 original size:14 final size:14
Alignment explanation
Indices: 81514456--81514483 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
81514446 ACAAATTTAC
81514456 TATAGTAAAAATAT
1 TATAGTAAAAATAT
81514470 TATAGTAAAAATAT
1 TATAGTAAAAATAT
81514484 ACAACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TATAGTAAAAATAT
Found at i:81521652 original size:38 final size:40
Alignment explanation
Indices: 81521608--81521699 Score: 125
Period size: 38 Copynumber: 2.3 Consensus size: 40
81521598 AAAAATTATA
*
81521608 TTTAATAAAATAAAACATTTATTATATTTAT-TTGTG-TT
1 TTTAATAAAATAAAACATTTATTATATTTATGTAGTGTTT
* *
81521646 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTAT-GTAGTGTTT
81521687 TTTAATATAAATA
1 TTTAATA-AAATA
81521700 CTTTTTAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 29 0.63
40 4 0.09
41 9 0.20
42 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATATTTATGTAGTGTTT
Found at i:81523397 original size:70 final size:70
Alignment explanation
Indices: 81523287--81523425 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
81523277 TTTCATTTAT
* *
81523287 AAAATCAAAAGTTCGATGGTATTATTATATTTTTGGGTATTTTAATGATAATTATTGTTTTACTA
1 AAAATCAAAAGTTCGATAGTATTATTATATTTTTGAGTATTTTAATGATAATTATTGTTTTACTA
81523352 AAATC
66 AAATC
*
81523357 AAAATTAAAAGTTCGATAGTATTATTATATTTTTGAGTATTTTAATGATAATTATTGTTTTACTA
1 AAAATCAAAAGTTCGATAGTATTATTATATTTTTGAGTATTTTAATGATAATTATTGTTTTACTA
81523422 AAAT
66 AAAT
81523426 AATTGTATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (70 bp):
AAAATCAAAAGTTCGATAGTATTATTATATTTTTGAGTATTTTAATGATAATTATTGTTTTACTA
AAATC
Found at i:81524979 original size:10 final size:11
Alignment explanation
Indices: 81524963--81524987 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
81524953 TTAATTATAC
81524963 AAAAAAAAAAG
1 AAAAAAAAAAG
81524974 AAAAAAAAAAG
1 AAAAAAAAAAG
81524985 AAA
1 AAA
81524988 GGGTTTGCCT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:81525330 original size:34 final size:35
Alignment explanation
Indices: 81525260--81525330 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
81525250 AGTTGTAATT
81525260 TTTATAGTTTTTGATGGACCCCGTACATTAAAATC
1 TTTATAGTTTTTGATGGACCCCGTACATTAAAATC
* *
81525295 TTTATAGTTTTTGTTGGACGCC-TA-ATTTAAAATC
1 TTTATAGTTTTTGATGGACCCCGTACA-TTAAAATC
81525329 TT
1 TT
81525331 ATCATTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 1 0.03
34 12 0.36
35 20 0.61
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (35 bp):
TTTATAGTTTTTGATGGACCCCGTACATTAAAATC
Found at i:81526227 original size:20 final size:19
Alignment explanation
Indices: 81526172--81526249 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 19
81526162 TTTTAAAAAT
**
81526172 AATTTTTTATTTAAATTTT
1 AATTTTTTATTTAAATTCG
* *
81526191 AA-TTTGTA--TAAACTCG
1 AATTTTTTATTTAAATTCG
81526207 AATTTTTTATGTTAAATTCG
1 AATTTTTTAT-TTAAATTCG
* *
81526227 AATATTTTATTTAAATTTG
1 AATTTTTTATTTAAATTCG
81526246 AATT
1 AATT
81526250 AAATAATAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
16 7 0.15
17 5 0.11
18 5 0.11
19 13 0.28
20 16 0.35
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (19 bp):
AATTTTTTATTTAAATTCG
Found at i:81527179 original size:5 final size:5
Alignment explanation
Indices: 81527132--81527165 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
81527122 CTGCCCATGA
* *
81527132 ATATT ATATT ATATT ACATT ATATT TTATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATAT
81527166 AAAACATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:81529738 original size:17 final size:18
Alignment explanation
Indices: 81529718--81529757 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
81529708 TCTAAAATAA
*
81529718 TAAATAAATCTA-AATTT
1 TAAATAAATCTACAAATT
*
81529735 TAAATAAATTTACAAATT
1 TAAATAAATCTACAAATT
81529753 TAAAT
1 TAAAT
81529758 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATAAATCTACAAATT
Found at i:81529751 original size:25 final size:24
Alignment explanation
Indices: 81529723--81529775 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
81529713 AATAATAAAT
*
81529723 AAATCTAAATTTTA-AATAAATTTAC
1 AAATCTAAATGTTATAA-AAA-TTAC
*
81529748 AAATTTAAATGTTATAAAAATTAC
1 AAATCTAAATGTTATAAAAATTAC
81529772 AAAT
1 AAAT
81529776 ATTCAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 15 0.60
26 2 0.08
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATCTAAATGTTATAAAAATTAC
Found at i:81529756 original size:18 final size:17
Alignment explanation
Indices: 81529708--81529757 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
81529698 AGATTTGGAT
*
81529708 TCTAAAATAATAAATAAA
1 TCTAAAAT-TTAAATAAA
*
81529726 TCTAAATTTTAAATAAA
1 TCTAAAATTTAAATAAA
*
81529743 TTTACAAATTTAAAT
1 TCTA-AAATTTAAAT
81529758 GTTATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TCTAAAATTTAAATAAA
Found at i:81530383 original size:17 final size:17
Alignment explanation
Indices: 81530361--81530393 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
81530351 TATGATTTAC
81530361 AAAATTAAAAATAAATT
1 AAAATTAAAAATAAATT
*
81530378 AAAATTAAAATTAAAT
1 AAAATTAAAAATAAAT
81530394 ATTATTAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAAAATAAATT
Found at i:81532382 original size:204 final size:204
Alignment explanation
Indices: 81531969--81532676 Score: 971
Period size: 204 Copynumber: 3.5 Consensus size: 204
81531959 GTTAGTTCTA
* * * * * *
81531969 TTTCTCCTTCTAGATCTAGCTGTTCGTTTCAAAGTTCATCGATATTTCCCTTTTTTTTAGTTTGA
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCCCTTTTTTTAGTTTGA
* *
81532034 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATCTT-TCGTTCTAGATCTCGCTCTTCGT
66 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAAT-TTCTCGTTCTAGATCTCGCTATTCAT
*
81532098 TTATATTTCCTTTTTTTTAAA--TGATTTATAATAGTATTTCTTTGCTGATTAGTTTGAATTCAT
130 TTATATTTCC-TTTTTTTAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCAT
*
81532161 TTTTAGCTCAC
194 TTTTAGCTCAT
* * * **
81532172 TTTCTCCTTCCAGACCTCGTTATTCATTTCGAAGTTCATCTATATTTCCGGTTTTTTTAGTTTGA
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCCCTTTTTTTAGTTTGA
* * * *
81532237 -TTGTATTAATGTTTCTTTGCTGATTACTTTGTTCAATTTCTCGTCCTAGGTCTCGCTATTCATT
66 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCATT
81532301 TATATTTCCTTTTTTTAAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCATT
131 TATATTTCCTTTTTTT-AAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCATT
*
81532366 TTTAGCTTAT
195 TTTAGCTCAT
* *
81532376 TTTCTCCTTCTAGACCTGGTTATTCATTTCAAAGTTCATCGATATTTCCCCTTTTTTTACTTTGA
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCCCTTTTTTTAGTTTGA
* * * *
81532441 TTTGAATTAGTGTTTCTTTGCTCATTAATTTGTTCAATTTCTCCTTCTAGATCTCGTTATTCATT
66 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCATT
*
81532506 TATATTTCCTTTTTGTT-AATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTGATT
131 TATATTTCCTTTTT-TTAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCATT
**
81532570 TCGAG-TCAT
195 TTTAGCTCAT
** * * * *
81532579 TTTCTCCTTCTAGACCTCG-TATTGGTTTCGAAGTTCATCAACATTTCCTCTCTTTTTTTAGTTC
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCC-C-CTTTTTTTAGTTT
* * *
81532643 GATTTTTATTGGTGTTTCTTTTCTGATTAATTTG
64 GATTTGTATTAGTGTTTCTTTGCTGATTAATTTG
81532677 AATTGATTTT
Statistics
Matches: 446, Mismatches: 51, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
201 9 0.02
202 91 0.20
203 77 0.17
204 197 0.44
205 70 0.16
206 2 0.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (204 bp):
TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCCCTTTTTTTAGTTTGA
TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCATT
TATATTTCCTTTTTTTAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCATTT
TTAGCTCAT
Found at i:81532925 original size:120 final size:120
Alignment explanation
Indices: 81532657--81532971 Score: 345
Period size: 120 Copynumber: 2.6 Consensus size: 120
81532647 TTTATTGGTG
* *
81532657 TTTCTTTTCTGATTAATTTGAATTGATTTTTAGTTCAATTTCTCGCTCTAGATCTTGCTATTCAT
1 TTTCTTTGCTGATTAATTTGAATTGATTTTTAGTTCAATTTCTC-CTCTAGATCTCGCTATTCAT
** * * * *
81532722 TTCAAAGTTCGTCAATATTTTCTTCTTCTTAAAAAATAAAAATTGATTTGTGTTAGTA
65 TTCAAAGTTCACCAATATATTATTCGTCTT--AAAATAAAAATTGATTTGTGTTAGCA
* *
81532780 TTTCTTTGCTGATAAATTTGAA-T--TTTTTAGTTCAATTTCTCACTCTAGATCTGGCTATTCAT
1 TTTCTTTGCTGATTAATTTGAATTGATTTTTAGTTCAATTTCTC-CTCTAGATCTCGCTATTCAT
* *** **
81532842 TTCAAAGTTCACCATTATATTATT-GTCTT-TTTTAAAGTTTGATTTGTGTTAGCA
65 TTCAAAGTTCACCAATATATTATTCGTCTTAAAATAAAAATTGATTTGTGTTAGCA
* * * *
81532896 TTTCTTTGGTGATTAATTTGAATTGATTTTTAGTTC-ATTGTGTCCTTCTTGATCTCGCTTTTCA
1 TTTCTTTGCTGATTAATTTGAATTGATTTTTAGTTCAATT-TCTCC-TCTAGATCTCGCTATTCA
*
81532960 TTTTAAAGTTCA
64 TTTCAAAGTTCA
81532972 GTAATGTCAT
Statistics
Matches: 164, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
116 39 0.24
117 1 0.01
118 4 0.02
119 43 0.26
120 56 0.34
122 1 0.01
123 20 0.12
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (120 bp):
TTTCTTTGCTGATTAATTTGAATTGATTTTTAGTTCAATTTCTCCTCTAGATCTCGCTATTCATT
TCAAAGTTCACCAATATATTATTCGTCTTAAAATAAAAATTGATTTGTGTTAGCA
Found at i:81537513 original size:80 final size:80
Alignment explanation
Indices: 81537416--81537578 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
81537406 TTACATTTCA
*
81537416 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCGAAGCAAAATCCATCACAAACTAATAGTA
1 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
81537481 AATTTTGACAATCAC
66 AATTTTGACAATCAC
81537496 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
1 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
81537561 AATTTTGACAATCAC
66 AATTTTGACAATCAC
81537576 AAA
1 AAA
81537579 ACAAGATTAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (80 bp):
AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
AATTTTGACAATCAC
Found at i:81537667 original size:99 final size:99
Alignment explanation
Indices: 81537496--81537701 Score: 394
Period size: 99 Copynumber: 2.1 Consensus size: 99
81537486 TGACAATCAC
81537496 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
1 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
81537561 AATTTTGACAATCACAAAACAAGATTACATTTCA
66 AATTTTGACAATCACAAAACAAGATTACATTTCA
*
81537595 AAACATCTCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
1 AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
*
81537660 AATTTTGACAATCACAAAACAATATTACATTTCA
66 AATTTTGACAATCACAAAACAAGATTACATTTCA
81537694 AAACATCC
1 AAACATCC
81537702 TTTAAAAAAA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (99 bp):
AAACATCCCTAAAACAACATTACTTCTAAGCTTTTCAAAGCAAAATCCATCACAAACTAATAGTA
AATTTTGACAATCACAAAACAAGATTACATTTCA
Found at i:81538750 original size:30 final size:30
Alignment explanation
Indices: 81538704--81538790 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
81538694 TTTTATTATG
*
81538704 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
81538735 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
81538765 CCATTATTTGATACCCATATCTTTGA
1 CCAATATTTGATACCCATATCTTTGA
81538791 ATTTTCCATA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 47 0.87
31 7 0.13
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:81538759 original size:15 final size:15
Alignment explanation
Indices: 81538714--81538790 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
81538704 CCAATATCTC
81538714 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
81538729 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
81538744 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
81538759 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
81538774 GATACCCATATCTTT
1 GATACCCATATCTTT
81538789 GA
1 GA
81538791 ATTTTCCATA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.20
15 28 0.61
16 9 0.20
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:81547586 original size:37 final size:36
Alignment explanation
Indices: 81547537--81547609 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
81547527 TGATTTATTT
*
81547537 ATTTATAAATAAA-TCATTGCAATAT-ATGTAAAAATA
1 ATTTAAAAATAAATTCATT--AATATAATGTAAAAATA
*
81547573 ATTTAAAATATAAATTTATTAATATAATGTAAAAATA
1 ATTTAAAA-ATAAATTCATTAATATAATGTAAAAATA
81547610 GTTTTTCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 12 0.38
37 16 0.50
38 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (36 bp):
ATTTAAAAATAAATTCATTAATATAATGTAAAAATA
Found at i:81547712 original size:19 final size:21
Alignment explanation
Indices: 81547684--81547726 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
81547674 CTAAACACCA
*
81547684 AAAAAGTAAATTATTTT-CAG
1 AAAAAGTAAATCATTTTCCAG
81547704 AAAAA-TAAATCATTTTCCAG
1 AAAAAGTAAATCATTTTCCAG
81547724 AAA
1 AAA
81547727 TTATTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAAAGTAAATCATTTTCCAG
Found at i:81549341 original size:173 final size:175
Alignment explanation
Indices: 81548976--81549690 Score: 850
Period size: 175 Copynumber: 4.1 Consensus size: 175
81548966 CAATTAGCTA
* * * * * * *
81548976 CCACTTGGTGGTTGACGATGTTTTCTTTTTCAACGTTTGTTTGCGAAGCGATTGATCTGCCGACA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTTCGCGAAGCGATTGGTATGCCGACA
* *
81549041 TTTTATTGACAGAGAATGTTTTATGGAGATGTCA-TGATCAAGTTGATTAATTATTTAGTGGTTT
66 TTTTATTGACAGAGAATGTTTTATGAAGATGT-AGTGA--AA-TTGATTAATTATTTAGTGGTCT
* * * *
81549105 GTCATATTATCATGTTTGCTTTTTACTATGTTAAGAACTTGTTTCTTGC
127 GCCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
* * *
81549154 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTCCGCGAAGCGATTGGTATGTCGAAA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTTCGCGAAGCGATTGGTATGCCGACA
*
81549219 TTTTATTGACAGAGAATGTTTTATGAAGATGT-G-GAAATTGATTAATTATTTTGTGGTCTGCCA
66 TTTTATTGACAGAGAATGTTTTATGAAGATGTAGTGAAATTGATTAATTATTTAGTGGTCTGCCA
81549282 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
131 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
* * * * * * * *
81549327 CCACTTGCTGGTTGGCCACGTTTTCTTCTTGAACATTTGTTCACAAAGTGATTGGTATGTCGATA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTTCGCGAAGCGATTGGTATGCCGACA
* * ** * * *
81549392 TTTTATTAACAGCGAATGTTTTATGAAGACATGGTGAAATTGATTAATTATTTAGTGGTTTGTCA
66 TTTTATTGACAGAGAATGTTTTATGAAGATGTAGTGAAATTGATTAATTATTTAGTGGTCTGCCA
*
81549457 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCTTGC
131 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
* * * * * *
81549502 CCACTTGGCGATTGGCAACGTTTTCTTTTTGAACAATTGTTCGTGAAGTGATTGGTATGCCGACA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTTCGCGAAGCGATTGGTATGCCGACA
* * * * * * *
81549567 TTTTATTGACAAAGCATGTTTTGTGGAA-ACGTGGTGAAGTTGATTAATT-TTTCAATGG-CT-C
66 TTTTATTGACAGAGAATGTTTTAT-GAAGATGTAGTGAAATTGATTAATTATTT-AGTGGTCTGC
* * * *
81549628 CTTATATTATAATGTTTGCTTCTTACTATGTTAGGAATTTTTTTTCTGC
129 C--ATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
*
81549677 CCAGTTGGTGGTTG
1 CCACTTGGTGGTTG
81549691 ATGATATTCG
Statistics
Matches: 468, Mismatches: 62, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
173 151 0.32
174 7 0.01
175 219 0.47
176 5 0.01
178 86 0.18
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.43
Consensus pattern (175 bp):
CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTTCGCGAAGCGATTGGTATGCCGACA
TTTTATTGACAGAGAATGTTTTATGAAGATGTAGTGAAATTGATTAATTATTTAGTGGTCTGCCA
TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
Found at i:81549988 original size:25 final size:24
Alignment explanation
Indices: 81549960--81550020 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
81549950 AATCTGAAAC
81549960 CTAAAGCTCTATATAAACCCTAAAT
1 CTAAA-CTCTATATAAACCCTAAAT
* * *
81549985 CTAAAACCCAATATAAATCCTAAAT
1 CT-AAACTCTATATAAACCCTAAAT
81550010 CATAAACTCTA
1 C-TAAACTCTA
81550021 ACCCAAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.26
Consensus pattern (24 bp):
CTAAACTCTATATAAACCCTAAAT
Found at i:81554217 original size:56 final size:56
Alignment explanation
Indices: 81554131--81554244 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
81554121 TATTTCAAAG
81554131 TAGGAAAAGGGACCACAAGCAAATAAAAATTATTCTAATCATAACTCAATCTCTCA
1 TAGGAAAAGGGACCACAAGCAAATAAAAATTATTCTAATCATAACTCAATCTCTCA
81554187 TAGGAAAAGGGACCACAAGCAAATAAAAATTATTCTAATCATAACTCAATCTCTCA
1 TAGGAAAAGGGACCACAAGCAAATAAAAATTATTCTAATCATAACTCAATCTCTCA
81554243 TA
1 TA
81554245 AACATTTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (56 bp):
TAGGAAAAGGGACCACAAGCAAATAAAAATTATTCTAATCATAACTCAATCTCTCA
Found at i:81554440 original size:18 final size:17
Alignment explanation
Indices: 81554417--81554454 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
81554407 TAATGGACAG
81554417 AAAGTAAATTATAAAATT
1 AAAGTAAATTAT-AAATT
81554435 AAAGTAAATTATAAATT
1 AAAGTAAATTATAAATT
81554452 AAA
1 AAA
81554455 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAGTAAATTATAAATT
Found at i:81555043 original size:333 final size:333
Alignment explanation
Indices: 81554437--81555419 Score: 1425
Period size: 333 Copynumber: 2.9 Consensus size: 333
81554427 ATAAAATTAA
81554437 AGTAAATTATAAATTAAAATTATAAAAATTATAAGATGTGGAAATTGATTAATTATTTAGTGGCC
1 AGTAAATTATAAATTAAAATTATAAAAATTATAAGATGTGGAAATTGATTAATTATTTAGTGGCC
81554502 TGTCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGCCCACTTGCTGGTTGG
66 TGTCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGCCCACTTGCTGGTTGG
81554567 CCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATTGGTATGTCGATATTTTATTAACAGCGA
131 CCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATTGGTATGTCGATATTTTATTAACAGCGA
81554632 ATGTTTTATGAAGACATGGTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGC
196 ATGTTTTATGAAGACATGGTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGC
81554697 TTCTTACTATGTTAGGAATTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAAAA
261 TTCTTACTATGTTAGGAATTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAAAA
81554762 CATTTGTT
326 CATTTGTT
81554770 AGTAAATTATAAATTAAAATTATAAAAATTATAAGATGTGGAAATTGATTAATTATTTAGTGGCC
1 AGTAAATTATAAATTAAAATTATAAAAATTATAAGATGTGGAAATTGATTAATTATTTAGTGGCC
81554835 TGTCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGCCCACTTGCTGGTTGG
66 TGTCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGCCCACTTGCTGGTTGG
81554900 CCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATTGGTATGTCGATATTTTATTAACAGCGA
131 CCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATTGGTATGTCGATATTTTATTAACAGCGA
81554965 ATGTTTTATGAAGACATGGTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGC
196 ATGTTTTATGAAGACATGGTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGC
81555030 TTCTTACTATGTTAGGAATTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAAAA
261 TTCTTACTATGTTAGGAATTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAAAA
81555095 CATTTGTT
326 CATTTGTT
* * * ** **
81555103 TGCAAAGTGATTGGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATGGTGG-AAT
1 AGTAAA-TTA-T-AAAT-T--A-AAATTA-TAA-A---AA----TTAT-AAG--AT-GTGGAAAT
** *
81555167 TGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAATTTGTTT
46 TGATTAATTATTTAGTGGCCTGTCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTT
* * * * * **
81555232 CTTGCCCACTTGGC-GATTGGCAACGTTTTCTTTTTGAACAATTGTTCGTGAAGTGATTGGTATG
111 CCTGCCCACTT-GCTGGTTGGCCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATTGGTATG
* * * ** * * * * *
81555296 CCGACATTTTATTGACAAAGCATGTTTTATGAAAACGTGGTGAAATTGATTAATT-TTTCAATGG
175 TCGATATTTTATTAACAGCGAATGTTTTATGAAGACATGGTGGAATTGATTAATTATTT-AGTGG
* ** * * * *
81555360 CTCCTTATATTATAATGTTTGCTTCTTACTATGTTAGGAATTT-TTTTTCTGCCCAGTTGG
239 TTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAATTTGTTTCT-TGCCCACTTGG
81555420 TGGTTGATGA
Statistics
Matches: 593, Mismatches: 34, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
333 337 0.57
334 2 0.00
335 1 0.00
336 2 0.00
337 1 0.00
339 1 0.00
340 4 0.01
341 3 0.01
342 1 0.00
345 2 0.00
349 4 0.01
350 3 0.01
351 7 0.01
352 219 0.37
353 6 0.01
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.44
Consensus pattern (333 bp):
AGTAAATTATAAATTAAAATTATAAAAATTATAAGATGTGGAAATTGATTAATTATTTAGTGGCC
TGTCATATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGCCCACTTGCTGGTTGG
CCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATTGGTATGTCGATATTTTATTAACAGCGA
ATGTTTTATGAAGACATGGTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGC
TTCTTACTATGTTAGGAATTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAAAA
CATTTGTT
Found at i:81555182 original size:177 final size:175
Alignment explanation
Indices: 81554807--81555419 Score: 908
Period size: 175 Copynumber: 3.5 Consensus size: 175
81554797 ATTATAAGAT
* *
81554807 GTGGAAATTGATTAATTATTTAGTGGCCTGTCATATTATCATGTTTGCTTTTTACTATGTTAGGA
1 GTGG-AATTGATTAATTATTTAGTGGCTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGA
* * *
81554872 ATTTGTTTCCTGCCCACTT-GCTGGTTGGCCACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGA
65 ATTTGTTTCTTGCCCACTTGGC-GATTGGCAACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGA
81554936 TTGGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATG
129 TTGGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATG
*
81554983 GTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAA
1 GTGGAATTGATTAATTATTTAGTGGCTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAA
81555048 TTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAAAACATTTGTTTGCAAAGTGA
66 TTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTG--AACATTTGTTTGCAAAGTGA
81555113 TTGGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATG
129 TTGGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATG
*
81555160 GTGGAATTGATTAATTATTTAGTGGTTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAA
1 GTGGAATTGATTAATTATTTAGTGGCTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAA
* * **
81555225 TTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAACAATTGTTCGTGAAGTGATT
66 TTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATT
* * * ** * * *
81555290 GGTATGCCGACATTTTATTGACAAAGCATGTTTTATGAAAACGTG
131 GGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATG
* * ** * *
81555335 GTGAAATTGATTAATT-TTTCAATGGCTCCTTATATTATAATGTTTGCTTCTTACTATGTTAGGA
1 GTGGAATTGATTAATTATTT-AGTGGCTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGA
* *
81555399 ATTT-TTTTTCTGCCCAGTTGG
65 ATTTGTTTCT-TGCCCACTTGG
81555420 TGGTTGATGA
Statistics
Matches: 405, Mismatches: 27, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
174 7 0.02
175 217 0.54
176 6 0.01
177 175 0.43
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (175 bp):
GTGGAATTGATTAATTATTTAGTGGCTTGTCATATTATCATGTTTGCTTCTTACTATGTTAGGAA
TTTGTTTCTTGCCCACTTGGCGATTGGCAACGTTTTCTTTTTGAACATTTGTTTGCAAAGTGATT
GGTATGTCGATATTTTATTAACAGCGAATGTTTTATGAAGACATG
Found at i:81555723 original size:25 final size:24
Alignment explanation
Indices: 81555695--81555755 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
81555685 AATCTGAAAC
81555695 CTAAAGCTCTATATAAACCCTAAAT
1 CTAAA-CTCTATATAAACCCTAAAT
* * *
81555720 CTAAAACCCAATATAAATCCTAAAT
1 CT-AAACTCTATATAAACCCTAAAT
81555745 CATAAACTCTA
1 C-TAAACTCTA
81555756 ACCCAAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.26
Consensus pattern (24 bp):
CTAAACTCTATATAAACCCTAAAT
Found at i:81558735 original size:31 final size:31
Alignment explanation
Indices: 81558665--81558725 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
81558655 CCTGGAAAAA
*
81558665 AAACATTAAAACAAAACTCAGGTACCAAATT
1 AAACATTAAAACAAAACTCAAGTACCAAATT
*
81558696 AAACATTAAAACCAAACTCAAGTACCAAAT
1 AAACATTAAAACAAAACTCAAGTACCAAAT
81558726 AGTATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (31 bp):
AAACATTAAAACAAAACTCAAGTACCAAATT
Found at i:81559825 original size:68 final size:67
Alignment explanation
Indices: 81559744--81559877 Score: 241
Period size: 68 Copynumber: 2.0 Consensus size: 67
81559734 CTTTTAAAAA
* *
81559744 TTTTAAAAAATATAAATGATCCATAAATAATATAAATTTATTTTTTTAAGTCGTATTTCTGAATT
1 TTTTAAAAAATATAAATAATCCATAAATAATATAAATTTATCTTTTTAAGTCGTATTTCTGAATT
81559809 CT
66 CT
81559811 TTTTAAAAATATATAAATAATCCATAAATAATATAAATTTATCTTTTTAAGTCGTATTTCTGAAT
1 TTTTAAAAA-ATATAAATAATCCATAAATAATATAAATTTATCTTTTTAAGTCGTATTTCTGAAT
81559876 TC
65 TC
81559878 GTCGTTGTAC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 9 0.14
68 55 0.86
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (67 bp):
TTTTAAAAAATATAAATAATCCATAAATAATATAAATTTATCTTTTTAAGTCGTATTTCTGAATT
CT
Found at i:81560396 original size:25 final size:25
Alignment explanation
Indices: 81560362--81560413 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
81560352 AAATAACTTG
81560362 TAATAATAATAACTAGGTTATGACA
1 TAATAATAATAACTAGGTTATGACA
81560387 TAATAATAATAACTAGGTTATGACA
1 TAATAATAATAACTAGGTTATGACA
81560412 TA
1 TA
81560414 TCCACTGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (25 bp):
TAATAATAATAACTAGGTTATGACA
Found at i:81562424 original size:47 final size:46
Alignment explanation
Indices: 81562340--81562432 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 46
81562330 TATAACGTTA
81562340 ATACTACAATTTTTGAGGTTAATTGATTTCTTGAGTAAGATTGTTT
1 ATACTACAATTTTTGAGGTTAATTGATTTCTTGAGTAAGATTGTTT
81562386 ATACTACAATTTTTGAGGTTTAATTGATTTCTTGAGTAAGATTGTTT
1 ATACTACAATTTTTGAGG-TTAATTGATTTCTTGAGTAAGATTGTTT
81562433 TGATGGGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 18 0.39
47 28 0.61
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.48
Consensus pattern (46 bp):
ATACTACAATTTTTGAGGTTAATTGATTTCTTGAGTAAGATTGTTT
Found at i:81571860 original size:26 final size:26
Alignment explanation
Indices: 81571794--81571860 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
81571784 TGGATTCTCT
*
81571794 GAAGCTAGTGTTAGCAACATTGTATC
1 GAAGCTAGTGTTAGCAACACTGTATC
* *
81571820 -AAGATACTGTTAGCAATC-CTG-ATC
1 GAAGCTAGTGTTAGCAA-CACTGTATC
81571844 AGAAGCTAGTGTTAGCA
1 -GAAGCTAGTGTTAGCA
81571861 GCCTGAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
24 3 0.09
25 16 0.48
26 14 0.42
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (26 bp):
GAAGCTAGTGTTAGCAACACTGTATC
Found at i:81574072 original size:19 final size:19
Alignment explanation
Indices: 81574050--81574089 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
81574040 TTTATTTTTA
81574050 TATTATTAAAT-TATATTAT
1 TATT-TTAAATATATATTAT
*
81574069 TATTTTTAATATATATTAT
1 TATTTTAAATATATATTAT
81574088 TA
1 TA
81574090 ACCCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTAAATATATATTAT
Found at i:81578045 original size:26 final size:28
Alignment explanation
Indices: 81578016--81578068 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
81578006 TTATTTTTTT
*
81578016 ATTTTAAAAATAC-TTT-TTTATAAATA
1 ATTTAAAAAATACATTTGTTTATAAATA
81578042 ATTTAAAAAATACATTTGTTTATAAAT
1 ATTTAAAAAATACATTTGTTTATAAAT
81578069 TAAGATGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
27 3 0.12
28 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAAAAAATACATTTGTTTATAAATA
Found at i:81593720 original size:14 final size:14
Alignment explanation
Indices: 81593701--81593729 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
81593691 GGACTGAAAC
81593701 TAGAATTCGACCTA
1 TAGAATTCGACCTA
81593715 TAGAATTCGACCTA
1 TAGAATTCGACCTA
81593729 T
1 T
81593730 TATGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (14 bp):
TAGAATTCGACCTA
Found at i:81604298 original size:87 final size:86
Alignment explanation
Indices: 81604146--81604398 Score: 321
Period size: 87 Copynumber: 2.9 Consensus size: 86
81604136 ATTCCTATTT
* * * *
81604146 AACATAAAAGAATCTAGAAAAAAAAAGTATC-GAGTAACTTCAAATACTTAAACACGAAGTGAAT
1 AACATAAAAGAATCTAGAAAAAAAAAGT-GCAGAGTAATTTCAACTACTTAAACACAAAGTGAAT
*
81604210 CAGTTCCTTACTAATGGTATGC
65 CAGTTCCTTACTAATAGTATGC
* * *
81604232 AACATAAAAGAATCTAGAGAAAAAGAAGTGCAGACTAATTTCAACTACTTAAACACAAAGTAAAT
1 AACATAAAAGAATCTAGA-AAAAAAAAGTGCAGAGTAATTTCAACTACTTAAACACAAAGTGAAT
*
81604297 CAGCTCCTTACTAATAGTATGC
65 CAGTTCCTTACTAATAGTATGC
* * * * *
81604319 AACATACAAGAATCTAGAAAAAAAATAGTGCCA-AGTAATTTGAACTGCTTCACCACAAAGTGAA
1 AACATAAAAGAATCTAGAAAAAAAA-AGTG-CAGAGTAATTTCAACTACTTAAACACAAAGTGAA
*
81604383 TCAATTCCTTACTAAT
64 TCAGTTCCTTACTAAT
81604399 CGTTGTAAGA
Statistics
Matches: 144, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
86 25 0.17
87 117 0.81
88 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (86 bp):
AACATAAAAGAATCTAGAAAAAAAAAGTGCAGAGTAATTTCAACTACTTAAACACAAAGTGAATC
AGTTCCTTACTAATAGTATGC
Found at i:81618439 original size:15 final size:15
Alignment explanation
Indices: 81618419--81618451 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
81618409 TGAGGCTTTG
81618419 GCTGCTTCCTTTT-CT
1 GCTGCTT-CTTTTGCT
81618434 GCTGCTTCTTTTGCT
1 GCTGCTTCTTTTGCT
81618449 GCT
1 GCT
81618452 ATCCTCTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.30, G:0.18, T:0.52
Consensus pattern (15 bp):
GCTGCTTCTTTTGCT
Found at i:81625846 original size:18 final size:18
Alignment explanation
Indices: 81625819--81625860 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
81625809 TCCTCTAAAC
*
81625819 TTTATAGAGAAATATTAT
1 TTTATAGAGAAATACTAT
* *
81625837 TTTATTGAGAAATCCTAT
1 TTTATAGAGAAATACTAT
81625855 TTTATA
1 TTTATA
81625861 AAAACCTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (18 bp):
TTTATAGAGAAATACTAT
Found at i:81626257 original size:18 final size:20
Alignment explanation
Indices: 81626213--81626258 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
81626203 TAAAAATTAA
81626213 AATTATATAATATATTATTCT
1 AATTA-ATAATATATTATTCT
*
81626234 ACATTAATAAT-TATT-TTTT
1 A-ATTAATAATATATTATTCT
81626253 AATTAA
1 AATTAA
81626259 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 4 0.17
21 6 0.26
22 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTAATAATATATTATTCT
Found at i:81630268 original size:68 final size:68
Alignment explanation
Indices: 81630159--81630295 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
81630149 TTTTGTCTGG
*
81630159 ACCATTACATCGCTAAAACTTTGGTGAATGATTTTTTTTTTCATTGAACAAATATTTAGGCATTT
1 ACCATTACATCGCTAAAACTTTGGAGAATGATTTTTTTTTTCATTGAACAAATATTTAGGCATTT
81630224 TCA
66 TCA
*
81630227 ACCATTACGTCGCTAAAACTTTGGAGAATGATTTTTTTTTTCATTGAACAAATATTTAGGCATTT
1 ACCATTACATCGCTAAAACTTTGGAGAATGATTTTTTTTTTCATTGAACAAATATTTAGGCATTT
81630292 TCA
66 TCA
81630295 A
1 A
81630296 TTTATTAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (68 bp):
ACCATTACATCGCTAAAACTTTGGAGAATGATTTTTTTTTTCATTGAACAAATATTTAGGCATTT
TCA
Found at i:81630673 original size:26 final size:26
Alignment explanation
Indices: 81630626--81630676 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
81630616 TGGTACCTGA
* *
81630626 TTTTTTCAATTTGATACTTGAGTTTT
1 TTTTTTCAATTAGATACATGAGTTTT
81630652 TTTTTTCAATTA-AGTACATGAGTTT
1 TTTTTTCAATTAGA-TACATGAGTTT
81630677 GATTTCAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.57
Consensus pattern (26 bp):
TTTTTTCAATTAGATACATGAGTTTT
Found at i:81630850 original size:30 final size:30
Alignment explanation
Indices: 81630794--81630851 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
81630784 ATTAAATTGA
* *
81630794 ACATTGAAACCAAACTCATATACTAAATTC
1 ACATTAAAACCAAACTCAGATACTAAATTC
81630824 ACATTAAAACCAAACTCAAGAT-CTAAAT
1 ACATTAAAACCAAACTC-AGATACTAAAT
81630852 AGTATATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.24
Consensus pattern (30 bp):
ACATTAAAACCAAACTCAGATACTAAATTC
Found at i:81632942 original size:52 final size:53
Alignment explanation
Indices: 81632863--81632967 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 53
81632853 CATCCTATTC
81632863 TCATAAAATCCTTCCATGAAATCCGTACAATCACGTCGGATTATAACAGTTTG
1 TCATAAAATCCTTCCATGAAATCCGTACAATCACGTCGGATTATAACAGTTTG
*
81632916 TCATAAAA-GCTTCCATGAAATCCGTACAATCACGTCGGATTATAACAGTTTG
1 TCATAAAATCCTTCCATGAAATCCGTACAATCACGTCGGATTATAACAGTTTG
81632968 ATTGGTAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 43 0.84
53 8 0.16
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (53 bp):
TCATAAAATCCTTCCATGAAATCCGTACAATCACGTCGGATTATAACAGTTTG
Found at i:81642262 original size:132 final size:131
Alignment explanation
Indices: 81641973--81642365 Score: 361
Period size: 132 Copynumber: 3.0 Consensus size: 131
81641963 TTTCTGTTTA
* ** *
81641973 AGCACTTGTTCATGCTTGTATACACTTGTAATCAATATGTTAGCTTAGAATA-GGCATAGATGAG
1 AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATAGGGCATAGATGAG
* * * *** ** * ** ***
81642037 CTTAGATGCAAATTGTAGCATAGGTTCGCTG-TTGATGTAA-CATACATACTTCCCAGTTTTTG-
66 C-TAGATACAAATTGTAACATAGGTTTGCTGATCCTTGTAACCATGGAT--GTAACA-TAAATGC
***
81642099 T-GTA
127 TCCCC
*
81642103 AGCACTTGTTCATGCTTGTATATACTTGTATTCAATATGTTAATTTATAATA-GGCATAGATGAG
1 AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATAGGGCATAGATGAG
81642167 CTAGATACAAATTGTAACATAGTGTTT-CTGATTCAGC-TGTAACCATGGATGTAACATAAATGC
66 CTAGATACAAATTGTAACATAG-GTTTGCTGA-TC--CTTGTAACCATGGATGTAACATAAATGC
81642230 TCCCC
127 TCCCC
* * *
81642235 AGCACTTGTTCATGCTTGTATATACTTGTAATCGATATGTTAGTTTGTAATAGGGGCATAGATGA
1 AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATA-GGGCATAGATGA
* *** * * *
81642300 GCTTGATGTGAATTGTAACATAGGTTTGCTGATCCTTGTAACCGTTGATGTAACATACATGCTCC
65 GCTAGATACAAATTGTAACATAGGTTTGCTGATCCTTGTAACCATGGATGTAACATAAATGCTCC
81642365 C
130 C
81642366 TTTTTCTGTA
Statistics
Matches: 219, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
129 22 0.10
130 66 0.30
131 6 0.03
132 80 0.37
133 11 0.05
134 34 0.16
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (131 bp):
AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATAGGGCATAGATGAG
CTAGATACAAATTGTAACATAGGTTTGCTGATCCTTGTAACCATGGATGTAACATAAATGCTCCC
C
Found at i:81642762 original size:135 final size:133
Alignment explanation
Indices: 81642568--81642809 Score: 378
Period size: 135 Copynumber: 1.8 Consensus size: 133
81642558 TCGAAGTAAT
* * *
81642568 ATACATGCTCTCCAGTTTCTGTGTAAGCACTTGTTCATGCTTTGTATATATTTGTAATATATATG
1 ATACATGCGCCCCAGTTTCTGTGTAAGCACTTGTTCATGCTTTGTATATACTTGTAATATATATG
* *
81642633 TTAGCATAGTAATCATAGATGAGCTATCTGCAAATTGCAACATAGTGCCACTGATCCAGCTGTAA
66 TTAGCATAG---TCATAGATAAGCTATATGCAAATTGCAACATAGTGCCACTGATCCAGCTGTAA
81642698 CCATTG
128 CCATTG
*
81642704 ATACATGCGCCCCAGTTTCTGTGTAAGCAC-TGTTCATGCTTTGTATATACTTGTAATATGTATG
1 ATACATGCGCCCCAGTTTCTGTGTAAGCACTTGTTCATGCTTTGTATATACTTGTAATATATATG
* *
81642768 TTAGCATAGTCATTGATAAGCTATATGCAAATTGTAACATAG
66 TTAGCATAGTCATAGATAAGCTATATGCAAATTGCAACATAG
81642810 GATTGCCGAT
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
132 29 0.30
135 41 0.42
136 28 0.29
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (133 bp):
ATACATGCGCCCCAGTTTCTGTGTAAGCACTTGTTCATGCTTTGTATATACTTGTAATATATATG
TTAGCATAGTCATAGATAAGCTATATGCAAATTGCAACATAGTGCCACTGATCCAGCTGTAACCA
TTG
Found at i:81651552 original size:42 final size:42
Alignment explanation
Indices: 81651506--81651586 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
81651496 TAGAAAAGTT
*
81651506 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
*
81651548 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGA
81651587 AAGAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.05
Consensus pattern (42 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:81652410 original size:47 final size:47
Alignment explanation
Indices: 81652346--81652456 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
81652336 GACATTGAGT
*
81652346 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
81652393 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
81652440 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
81652457 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:81663371 original size:29 final size:29
Alignment explanation
Indices: 81663338--81663393 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
81663328 TTTTAGGGAC
* * *
81663338 TATCAAATTAGTCTCTCTATTATTAAACG
1 TATCAAATTAGTCCCTATACTATTAAACG
*
81663367 TATCAATTTAGTCCCTATACTATTAAA
1 TATCAAATTAGTCCCTATACTATTAAA
81663394 AAGAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (29 bp):
TATCAAATTAGTCCCTATACTATTAAACG
Found at i:81664483 original size:34 final size:36
Alignment explanation
Indices: 81664443--81664511 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
81664433 AATTTGTTAT
81664443 TATACCAAC-TTAAAAA-CTTCCATGTAATCTTTTA
1 TATACCAACTTTAAAAACCTTCCATGTAATCTTTTA
81664477 TATACCAACTTTAAAAACCTTCCATGTAATCTTTT
1 TATACCAACTTTAAAAACCTTCCATGTAATCTTTT
81664512 TGTCAACCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 9 0.27
35 7 0.21
36 17 0.52
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (36 bp):
TATACCAACTTTAAAAACCTTCCATGTAATCTTTTA
Found at i:81664794 original size:12 final size:12
Alignment explanation
Indices: 81664777--81664801 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81664767 GGTGTTCATT
81664777 CGGTTAACCGAC
1 CGGTTAACCGAC
81664789 CGGTTAACCGAC
1 CGGTTAACCGAC
81664801 C
1 C
81664802 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:81664976 original size:9 final size:9
Alignment explanation
Indices: 81664962--81665004 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
81664952 TTTGGTTAAA
81664962 AATTACCCG
1 AATTACCCG
81664971 AATTACCCG
1 AATTACCCG
*
81664980 AATTAACCG
1 AATTACCCG
*
81664989 AATTAACCG
1 AATTACCCG
81664998 AATTACC
1 AATTACC
81665005 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:81666662 original size:25 final size:22
Alignment explanation
Indices: 81666606--81666662 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
81666596 ATTTAAAATT
81666606 AAAAATATTTATAAAAATTTAA
1 AAAAATATTTATAAAAATTTAA
*
81666628 AAAATTATATTTTTAAAAAATTCTAA
1 AAAA--ATATTTAT-AAAAATT-TAA
81666654 ATAAAATAT
1 A-AAAATAT
81666663 AAAAAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 4 0.14
24 7 0.24
25 11 0.38
26 4 0.14
27 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATATTTATAAAAATTTAA
Found at i:81671890 original size:32 final size:33
Alignment explanation
Indices: 81671854--81671920 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
81671844 TAAAATGAGG
** *
81671854 TTTTAGGTTCCTTAAAAGTTAG-AAAAAAATTT
1 TTTTAGGCCCCTTAAAAGTTAGTAAAAAAAATT
*
81671886 TTTTAGGCCCCTTAAAAGTTGGTAAAAAAAATT
1 TTTTAGGCCCCTTAAAAGTTAGTAAAAAAAATT
81671919 TT
1 TT
81671921 GAGCCCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (33 bp):
TTTTAGGCCCCTTAAAAGTTAGTAAAAAAAATT
Found at i:81671930 original size:30 final size:32
Alignment explanation
Indices: 81671863--81671933 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
81671853 GTTTTAGGTT
* *
81671863 CCTTAAAAGTTAGAAAAAAATTTTTTTAGGCC
1 CCTTAAAAGTTAGAAAAAAATATTTTGAGGCC
*
81671895 CCTTAAAAGTTGGTAAAAAAA-ATTTTGA-G-C
1 CCTTAAAAGTTAG-AAAAAAATATTTTGAGGCC
81671925 CCTTAAAAG
1 CCTTAAAAG
81671934 CTAATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.29
31 1 0.03
32 17 0.49
33 7 0.20
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (32 bp):
CCTTAAAAGTTAGAAAAAAATATTTTGAGGCC
Found at i:81672933 original size:20 final size:21
Alignment explanation
Indices: 81672892--81672935 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
81672882 TAAAAATTGA
* *
81672892 TAATTTAATCTATTTAATCAT
1 TAATTTAATCTATTAAAACAT
81672913 TAATTTAAT-TATTAAAACAT
1 TAATTTAATCTATTAAAACAT
81672933 TAA
1 TAA
81672936 ATATAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTTAATCTATTAAAACAT
Found at i:81673881 original size:17 final size:17
Alignment explanation
Indices: 81673856--81673897 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
81673846 TTTTTATTTT
81673856 TATTATA-TTAAAATAAA
1 TATTATATTTAAAA-AAA
*
81673873 TATTTTATTTAAAAAAA
1 TATTATATTTAAAAAAA
81673890 TTATTATA
1 -TATTATA
81673898 CAAACAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTATATTTAAAAAAA
Found at i:81674870 original size:12 final size:11
Alignment explanation
Indices: 81674855--81674897 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
81674845 ATGTTACTTA
81674855 TTATTTTAATTT
1 TTATTTT-ATTT
81674867 TTATTTTATTGT
1 TTATTTTATT-T
* *
81674879 TAATTTTATTA
1 TTATTTTATTT
81674890 TTATTTTA
1 TTATTTTA
81674898 AAGACATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:81674885 original size:17 final size:18
Alignment explanation
Indices: 81674852--81674898 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
81674842 GTTATGTTAC
81674852 TTATTATTTTAATTTTTA
1 TTATTATTTTAATTTTTA
81674870 TT-TTATTGTTAA-TTTTA
1 TTATTATT-TTAATTTTTA
81674887 TTATTATTTTAA
1 TTATTATTTTAA
81674899 AGACATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTATTTTAATTTTTA
Found at i:81676149 original size:58 final size:58
Alignment explanation
Indices: 81675994--81676165 Score: 195
Period size: 58 Copynumber: 2.9 Consensus size: 58
81675984 TTTGAATTTT
* * * *
81675994 TTTTTGTCCAAGTTAGTCACTGAACTTGACAATTATTCCCAACATTAGGACCTGAACTC
1 TTTTTGTCCAAGTTAGTCCCTGAACTTAACAATTGTTCCC-ACATTAGGACCTAAACTC
* * * *
81676053 TTTTTAGTCCAAGTTAGTACCTGAAC-TAGACAACTGTTCCCACATT-TGAGCCTAAATTC
1 TTTTT-GTCCAAGTTAGTCCCTGAACTTA-ACAATTGTTCCCACATTAGGA-CCTAAACTC
* * *
81676112 TTTTTGTCCAAATTGGTCCCTGAACTTAACAATTGTTCCCACATTGGGACCTAA
1 TTTTTGTCCAAGTTAGTCCCTGAACTTAACAATTGTTCCCACATTAGGACCTAA
81676166 TCATTTTGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
58 40 0.42
59 27 0.28
60 28 0.29
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (58 bp):
TTTTTGTCCAAGTTAGTCCCTGAACTTAACAATTGTTCCCACATTAGGACCTAAACTC
Found at i:81680405 original size:263 final size:259
Alignment explanation
Indices: 81679892--81680606 Score: 869
Period size: 263 Copynumber: 2.7 Consensus size: 259
81679882 TCAAAGCTTG
* * * *
81679892 AAAG-TTGAAACTCAACAGAAGCTCGATTGAGTTCCACTTTTAAAGCATAACTCTCATGATCAAT
1 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGC-TAACTCTCATGATCGAT
* ** * * * * * *
81679956 TTCAAGCTCAATTATTAGTACTGGAGCTAGAATTAAGTGTTTAAATGTTTACATTGAAGTTTTTC
65 TTCAAGCTCAATTATTAGTGCTCAAACTAGAACTCA-TGTTTAAATG-TTAAACTGAAGTTTCTC
* * * *
81680021 AATA-TCGTTAAATATAGAAAAAAGCTGGATTAAACTGATAAGGTACTCAGATTAAGTATTAGTA
128 AATACTCATTAAA-ATAGAAAAAAGCTGGATTAAACTGATAAGCTACTCAAATAAAGTATTAGTA
* * **
81680085 TACTCGAATTTGACCACTTCAACAGCCCAAGCCCTAAGAAGCTTGAGCTCAAGTTTGACTTGAAA
192 TACTCGAATTCGAACACTTCAACAGCCCAAGCCAAAAGAAGCTTGAGCTCAAGTTTGACTTGAAA
81680150 ATC
257 ATC
* *
81680153 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTCAACTCTCACGCTCGAT
1 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCT-AACTCTCATGATCGAT
* * *
81680218 TTCAATCTCAATTATTAGTGCTTTAACCT-GAACTCATGTTTAAATGTTCAAAACTGAAGTTTCT
65 TTCAAGCTCAATTATTAGTGC-TCAAACTAGAACTCATGTTTAAATGTT--AAACTGAAGTTTCT
* * * *
81680282 CAATACTCATTAAACATAGAAAAAAGCAGGACTAAGCTGATAAGCTACACAAATAAAGTATTAGT
127 CAATACTCATTAAA-ATAGAAAAAAGCTGGATTAAACTGATAAGCTACTCAAATAAAGTATTAGT
* *
81680347 ATACTCGAATTCGAACAGTTCAACAGCTCAAGCCAAAAGAAGCTTGAGCTCAAGTTTGACTTGAA
191 ATACTCGAATTCGAACACTTCAACAGCCCAAGCCAAAAGAAGCTTGAGCTCAAGTTTGACTTGAA
*
81680412 ACTC
256 AATC
* * ** * *
81680416 GAAGCCTGAAACTCAACAGAAGCTCAATCGAGTTCCATGTTTAAAGCTAAACTTTCATGTTCGAT
1 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCT-AACTCTCATGATCGAT
* * * * * * * *
81680481 TTCAAGCTCAATGATTAGTGCTCAAACTCGAACTCGTGTTTAAAGGTTTAACTTGTAGTTTCCCG
65 TTCAAGCTCAATTATTAGTGCTCAAACTAGAACTCATGTTTAAATGTTAAAC-TGAAGTTTCTCA
*
81680546 ATACTCATTAAGAATAGAAAAAAGCTGCATTAAACTGATAAGCTACTCAAATAAAGTATTA
129 ATACTCATTAA-AATAGAAAAAAGCTGGATTAAACTGATAAGCTACTCAAATAAAGTATTA
81680607 TCGGGGAATT
Statistics
Matches: 390, Mismatches: 55, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
260 2 0.01
261 18 0.05
262 160 0.41
263 210 0.54
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (259 bp):
AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTAACTCTCATGATCGATT
TCAAGCTCAATTATTAGTGCTCAAACTAGAACTCATGTTTAAATGTTAAACTGAAGTTTCTCAAT
ACTCATTAAAATAGAAAAAAGCTGGATTAAACTGATAAGCTACTCAAATAAAGTATTAGTATACT
CGAATTCGAACACTTCAACAGCCCAAGCCAAAAGAAGCTTGAGCTCAAGTTTGACTTGAAAATC
Found at i:81689391 original size:37 final size:37
Alignment explanation
Indices: 81689340--81689424 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
81689330 TAACCGACCT
*
81689340 GAATTAACATATTTTGATTAGTTAGATCGGTTAAACC
1 GAATTAACAGATTTTGATTAGTTAGATCGGTTAAACC
*
81689377 GAATTAACAGATTTTGATTAGTTAGATTGGTTAAACC
1 GAATTAACAGATTTTGATTAGTTAGATCGGTTAAACC
81689414 GAATTAACAGA
1 GAATTAACAGA
81689425 AATTCAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (37 bp):
GAATTAACAGATTTTGATTAGTTAGATCGGTTAAACC
Found at i:81697975 original size:28 final size:28
Alignment explanation
Indices: 81697944--81698006 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
81697934 TCGATATTTT
*
81697944 GCACACTAACTGTCATTCTCAATATCTC
1 GCACACTAACTGCCATTCTCAATATCTC
* *
81697972 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAACTGCCATTCTCAATATCTC
*
81698000 GTACACT
1 GCACACT
81698007 GAGTACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (28 bp):
GCACACTAACTGCCATTCTCAATATCTC
Found at i:81698015 original size:28 final size:28
Alignment explanation
Indices: 81697957--81698015 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
81697947 CACTAACTGT
*
81697957 CATTCTCAATATCTCGCACACTAAGTGC
1 CATTCTCAATATCTCGCACACTAAGTAC
* * *
81697985 CATTCTCAATATTTCGTACACTGAGTAC
1 CATTCTCAATATCTCGCACACTAAGTAC
81698013 CAT
1 CAT
81698016 ATTTGATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
CATTCTCAATATCTCGCACACTAAGTAC
Found at i:81703068 original size:29 final size:29
Alignment explanation
Indices: 81703033--81703127 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
81703023 GGTTACGGAA
81703033 CTCGCACACACAGTGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACTGAT
*** *
81703062 CTCGCACACACAGT--CTC-GTTACGGA-
1 CTCGCACACACAGTGCCTCAACAACTGAT
*
81703087 ATCGCACACACAGTGCCTCAACAA-TCGAT
1 CTCGCACACACAGTGCCTCAACAACT-GAT
81703116 CTCGCACACACA
1 CTCGCACACACA
81703128 TGCTCGGTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
25 13 0.25
26 4 0.08
27 6 0.12
28 3 0.06
29 25 0.49
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.17
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACTGAT
Found at i:81703091 original size:25 final size:26
Alignment explanation
Indices: 81703013--81703100 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 26
81703003 AACGATCCCA
*
81703013 ACACAGTCTCGGTTACGGAACTCGCAC
1 ACACAGTCTCAGTTACGGAA-TCGCAC
*** * *
81703040 ACACAGTGCCTCAACAACTGATCTCGCAC
1 ACACAGT--CTCAGTTACGGA-ATCGCAC
81703069 ACACAGTCTC-GTTACGGAATCGCAC
1 ACACAGTCTCAGTTACGGAATCGCAC
81703094 ACACAGT
1 ACACAGT
81703101 GCCTCAACAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
25 13 0.28
26 4 0.09
27 10 0.21
29 20 0.43
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (26 bp):
ACACAGTCTCAGTTACGGAATCGCAC
Found at i:81703093 original size:54 final size:55
Alignment explanation
Indices: 81703013--81703158 Score: 228
Period size: 54 Copynumber: 2.7 Consensus size: 55
81703003 AACGATCCCA
81703013 ACACAGTCTCGGTTACGGAACTCGCACACACAGTGCCTCAACAA-CTGATCTCGCAC
1 ACACAGTCTCGGTTACGGAA-TCGCACACACAGTGCCTCAACAATC-GATCTCGCAC
81703069 ACACAGTCTC-GTTACGGAATCGCACACACAGTGCCTCAACAATCGATCTCGCAC
1 ACACAGTCTCGGTTACGGAATCGCACACACAGTGCCTCAACAATCGATCTCGCAC
*
81703123 ACACA-TGCTCGGTTACGGAA-CACACACACAGTGCCT
1 ACACAGT-CTCGGTTACGGAATCGCACACACAGTGCCT
81703159 ATGTTCACTT
Statistics
Matches: 86, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
53 1 0.01
54 56 0.65
55 19 0.22
56 10 0.12
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (55 bp):
ACACAGTCTCGGTTACGGAATCGCACACACAGTGCCTCAACAATCGATCTCGCAC
Found at i:81721791 original size:22 final size:22
Alignment explanation
Indices: 81721740--81721785 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
81721730 CCTCCTTGCC
81721740 TTAGGTTTTAGATGACCAATTA
1 TTAGGTTTTAGATGACCAATTA
81721762 TTAGGTTTTAGATGACCAATTA
1 TTAGGTTTTAGATGACCAATTA
81721784 TT
1 TT
81721786 GAGTTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (22 bp):
TTAGGTTTTAGATGACCAATTA
Found at i:81732716 original size:21 final size:22
Alignment explanation
Indices: 81732692--81732733 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
81732682 ACATGAAATT
*
81732692 TTTTAATTTGTTT-ATTTTTTC
1 TTTTAATTTATTTAATTTTTTC
*
81732713 TTTTATTTTATTTAATTTTTT
1 TTTTAATTTATTTAATTTTTT
81732734 ATGAAGTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTAATTTATTTAATTTTTTC
Found at i:81733264 original size:28 final size:28
Alignment explanation
Indices: 81733213--81733267 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
81733203 TTAAACATTG
* *
81733213 AAATCAGAATCAAATATGAAATTAAAAA
1 AAATCAAAATCAAATATAAAATTAAAAA
81733241 AAATCAAAATCAAAT-TAAATATTAAAA
1 AAATCAAAATCAAATATAAA-ATTAAAA
81733268 CTAAATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (28 bp):
AAATCAAAATCAAATATAAAATTAAAAA
Found at i:81735328 original size:28 final size:28
Alignment explanation
Indices: 81735297--81735359 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
81735287 TCGATATTTT
*
81735297 GCACACTAACTGTCATTCTCAATATCTC
1 GCACACTAACTGCCATTCTCAATATCTC
* *
81735325 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAACTGCCATTCTCAATATCTC
*
81735353 GTACACT
1 GCACACT
81735360 GAGTACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (28 bp):
GCACACTAACTGCCATTCTCAATATCTC
Found at i:81735368 original size:28 final size:28
Alignment explanation
Indices: 81735310--81735368 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
81735300 CACTAACTGT
*
81735310 CATTCTCAATATCTCGCACACTAAGTGC
1 CATTCTCAATATCTCGCACACTAAGTAC
* * *
81735338 CATTCTCAATATTTCGTACACTGAGTAC
1 CATTCTCAATATCTCGCACACTAAGTAC
81735366 CAT
1 CAT
81735369 ATTTGATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
CATTCTCAATATCTCGCACACTAAGTAC
Found at i:81740395 original size:57 final size:57
Alignment explanation
Indices: 81740304--81740547 Score: 389
Period size: 57 Copynumber: 4.2 Consensus size: 57
81740294 GATCTCATTT
* * * * **
81740304 CACACACTTAGTGCCCCAACAACCGGTCTTGCACACACATTTTTCGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
81740363 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
81740420 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
81740477 CACACACAGTGCCTCAACAATCGATCTCGCACACACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
81740534 CACACACAGTGCCT
1 CACACACAGTGCCT
81740548 ATGTTCACTT
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
57 168 0.96
59 7 0.04
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:81740396 original size:29 final size:29
Alignment explanation
Indices: 81740359--81740517 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
81740349 GGTTACGGAA
81740359 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
81740388 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
81740416 CTCGCACACACAGTGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
81740445 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
81740473 CTCGCACACACAGTGCCTCAACAATCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
81740502 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
81740518 TCGGTTACGG
Statistics
Matches: 103, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 44 0.43
29 59 0.57
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.16
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:81741942 original size:11 final size:11
Alignment explanation
Indices: 81741926--81741952 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
81741916 TCCCAAGCAG
81741926 ATTTATTACAA
1 ATTTATTACAA
81741937 ATTTATTACAA
1 ATTTATTACAA
81741948 ATTTA
1 ATTTA
81741953 CTCTTTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTATTACAA
Found at i:81742606 original size:28 final size:28
Alignment explanation
Indices: 81742548--81742606 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
81742538 CACTAACTGT
*
81742548 CATTCTCAATATCTCGCACACTAAGTGC
1 CATTCTCAATATCTCGCACACTAAGTAC
* * * *
81742576 CATTCTCAATATTTCGTATACTGAGTAC
1 CATTCTCAATATCTCGCACACTAAGTAC
81742604 CAT
1 CAT
81742607 ATTTGATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (28 bp):
CATTCTCAATATCTCGCACACTAAGTAC
Found at i:81752813 original size:18 final size:18
Alignment explanation
Indices: 81752784--81752818 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
81752774 TATTTGTTGG
81752784 TGGCATAATATT-TTTTT
1 TGGCATAATATTCTTTTT
81752801 TGGCATAATTATTCTTTT
1 TGGCATAA-TATTCTTTT
81752819 AATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (18 bp):
TGGCATAATATTCTTTTT
Found at i:81754598 original size:21 final size:19
Alignment explanation
Indices: 81754569--81754615 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
81754559 TTTTATTTTT
*
81754569 ATTTTTTAAAATCTATAAATA
1 ATTTATTAAAAT-TATAAA-A
*
81754590 GTTTATTAAAATTATAAAA
1 ATTTATTAAAATTATAAAA
81754609 ATTTATT
1 ATTTATT
81754616 TTATAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTTATTAAAATTATAAAA
Found at i:81761032 original size:18 final size:19
Alignment explanation
Indices: 81761009--81761047 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
81760999 TTTATGCTAT
81761009 AATTTTAA-AATTATTATA
1 AATTTTAATAATTATTATA
*
81761027 AATTTTAATATTTATTATA
1 AATTTTAATAATTATTATA
81761046 AA
1 AA
81761048 ATATGTTGTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTAATAATTATTATA
Found at i:81763840 original size:21 final size:21
Alignment explanation
Indices: 81763787--81763840 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
81763777 TAAAAATTAA
* *
81763787 AAATATTTTATATTAATATTTT
1 AAATATTTTTTATCAATA-TTT
*
81763809 AATATATTTTTAATCAA-ATTT
1 AA-ATATTTTTTATCAATATTT
81763830 AAATATTTTTT
1 AAATATTTTTT
81763841 TAAATAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.30
21 5 0.19
22 3 0.11
23 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATATTTTTTATCAATATTT
Found at i:81777460 original size:31 final size:31
Alignment explanation
Indices: 81777425--81777488 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
81777415 TCTGTATTGA
81777425 CAACAATATATATATTAATCGAACTAAAACT
1 CAACAATATATATATTAATCGAACTAAAACT
81777456 CAACAATATATATATTAATCGAACTAAAACT
1 CAACAATATATATATTAATCGAACTAAAACT
81777487 CA
1 CA
81777489 CGCAGAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (31 bp):
CAACAATATATATATTAATCGAACTAAAACT
Found at i:81780060 original size:31 final size:31
Alignment explanation
Indices: 81779968--81780061 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
81779958 TCACTGGTAG
* **
81779968 GACTTAAA-AAAAA-TTTTTAATAGCCCAGT
1 GACTTAAATAAAAACTTTTAAATAGTTCAGT
*
81779997 GACTTAAATAAAAACTTTTAAATAGTTGAGT
1 GACTTAAATAAAAACTTTTAAATAGTTCAGT
* * *
81780028 GACTTAAATGAAAACTTTTGAATGGTTCAGT
1 GACTTAAATAAAAACTTTTAAATAGTTCAGT
81780059 GAC
1 GAC
81780062 CATTTTGTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 8 0.15
30 5 0.09
31 42 0.76
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTTAAATAGTTCAGT
Found at i:81781791 original size:12 final size:12
Alignment explanation
Indices: 81781757--81781791 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
81781747 TGGAAACTTC
81781757 GAAGAACAAGAA
1 GAAGAACAAGAA
*
81781769 GAGGAACAAGAA
1 GAAGAACAAGAA
*
81781781 GAAGAATAAGA
1 GAAGAACAAGA
81781792 GTGGAAGGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.63, C:0.06, G:0.29, T:0.03
Consensus pattern (12 bp):
GAAGAACAAGAA
Found at i:81781923 original size:6 final size:6
Alignment explanation
Indices: 81781912--81781941 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
81781902 GCCCAGGTTC
*
81781912 AGCCAG AGCCAG AGCCAG AGCCGG AGCCAG
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG
81781942 TTATCGCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.37, T:0.00
Consensus pattern (6 bp):
AGCCAG
Found at i:81787200 original size:353 final size:353
Alignment explanation
Indices: 81786554--81787261 Score: 1416
Period size: 353 Copynumber: 2.0 Consensus size: 353
81786544 TAGTTATTTC
81786554 CCCTAAATTTGGAGGTAACTCTCATTCTTGACTTTATTGAGCTCACCTTGAGGCTCTAAGTACCA
1 CCCTAAATTTGGAGGTAACTCTCATTCTTGACTTTATTGAGCTCACCTTGAGGCTCTAAGTACCA
81786619 ACTATTTCCACTTGTCCTTGAGCTTTCAAGTAACTGATGCACAAAGATTAGGTTTGATTCACACT
66 ACTATTTCCACTTGTCCTTGAGCTTTCAAGTAACTGATGCACAAAGATTAGGTTTGATTCACACT
81786684 ATGAATCTTATGTCAGTCCTTGATAGAGAACTTAGTACACATTTTACAGCACGGGCCAATACAAA
131 ATGAATCTTATGTCAGTCCTTGATAGAGAACTTAGTACACATTTTACAGCACGGGCCAATACAAA
81786749 CATGTATCATTTTTCCATACTAGCAGTGGACTCTCTTTGTCTCCTCAAGTGGGGTTATAAAACTA
196 CATGTATCATTTTTCCATACTAGCAGTGGACTCTCTTTGTCTCCTCAAGTGGGGTTATAAAACTA
81786814 GGCTTTTCCCGTTTATGTTTTTATCATTTTTATTATAGCTTAAGGATATATATTGATTGTTTTAA
261 GGCTTTTCCCGTTTATGTTTTTATCATTTTTATTATAGCTTAAGGATATATATTGATTGTTTTAA
81786879 CTTTGCTTGTCTAGTTAAAAAAACTCTA
326 CTTTGCTTGTCTAGTTAAAAAAACTCTA
81786907 CCCTAAATTTGGAGGTAACTCTCATTCTTGACTTTATTGAGCTCACCTTGAGGCTCTAAGTACCA
1 CCCTAAATTTGGAGGTAACTCTCATTCTTGACTTTATTGAGCTCACCTTGAGGCTCTAAGTACCA
81786972 ACTATTTCCACTTGTCCTTGAGCTTTCAAGTAACTGATGCACAAAGATTAGGTTTGATTCACACT
66 ACTATTTCCACTTGTCCTTGAGCTTTCAAGTAACTGATGCACAAAGATTAGGTTTGATTCACACT
81787037 ATGAATCTTATGTCAGTCCTTGATAGAGAACTTAGTACACATTTTACAGCACGGGCCAATACAAA
131 ATGAATCTTATGTCAGTCCTTGATAGAGAACTTAGTACACATTTTACAGCACGGGCCAATACAAA
81787102 CATGTATCATTTTTCCATACTAGCAGTGGACTCTCTTTGTCTCCTCAAGTGGGGTTATAAAACTA
196 CATGTATCATTTTTCCATACTAGCAGTGGACTCTCTTTGTCTCCTCAAGTGGGGTTATAAAACTA
81787167 GGCTTTTCCCGTTTATGTTTTTATCATTTTTATTATAGCTTAAGGATATATATTGATTGTTTTAA
261 GGCTTTTCCCGTTTATGTTTTTATCATTTTTATTATAGCTTAAGGATATATATTGATTGTTTTAA
81787232 CTTTGCTTGTCTAGTTAAAAAAACTCTA
326 CTTTGCTTGTCTAGTTAAAAAAACTCTA
81787260 CC
1 CC
81787262 TATGAACATA
Statistics
Matches: 355, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
353 355 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (353 bp):
CCCTAAATTTGGAGGTAACTCTCATTCTTGACTTTATTGAGCTCACCTTGAGGCTCTAAGTACCA
ACTATTTCCACTTGTCCTTGAGCTTTCAAGTAACTGATGCACAAAGATTAGGTTTGATTCACACT
ATGAATCTTATGTCAGTCCTTGATAGAGAACTTAGTACACATTTTACAGCACGGGCCAATACAAA
CATGTATCATTTTTCCATACTAGCAGTGGACTCTCTTTGTCTCCTCAAGTGGGGTTATAAAACTA
GGCTTTTCCCGTTTATGTTTTTATCATTTTTATTATAGCTTAAGGATATATATTGATTGTTTTAA
CTTTGCTTGTCTAGTTAAAAAAACTCTA
Found at i:81796887 original size:13 final size:14
Alignment explanation
Indices: 81796869--81796915 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
81796859 TTTAAATTTT
81796869 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
81796882 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
*
81796897 ATTTTAAATAATATT
1 ATTTT-AATAATATA
81796912 ATTT
1 ATTT
81796916 GAAGATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
15 12 0.43
16 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:81796895 original size:16 final size:16
Alignment explanation
Indices: 81796873--81796909 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
81796863 AATTTTATTT
81796873 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
81796890 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
81796905 TAATA
1 TAATA
81796910 TTATTTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:81802892 original size:12 final size:12
Alignment explanation
Indices: 81802875--81802917 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
81802865 AATAAAAAAT
81802875 ATATTAATATTA
1 ATATTAATATTA
81802887 ATATTAATATTA
1 ATATTAATATTA
81802899 ATATTAATATTA
1 ATATTAATATTA
81802911 ATATTAA
1 ATATTAA
81802918 ATAAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTAATATTA
Found at i:81802898 original size:18 final size:18
Alignment explanation
Indices: 81802875--81802917 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
81802865 AATAAAAAAT
81802875 ATATTAATATTAATATTA
1 ATATTAATATTAATATTA
81802893 ATATTAATATTAATATTA
1 ATATTAATATTAATATTA
81802911 ATATTAA
1 ATATTAA
81802918 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTAATATTAATATTA
Found at i:81804460 original size:21 final size:22
Alignment explanation
Indices: 81804435--81804475 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
81804425 GAAGGAAGAG
81804435 CTTAAT-AGATAC-TTTTAAGGA
1 CTTAATCAGA-ACATTTTAAGGA
81804456 CTTAATCAGAACATTTTAAG
1 CTTAATCAGAACATTTTAAG
81804476 CTTTTAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (22 bp):
CTTAATCAGAACATTTTAAGGA
Found at i:81817397 original size:17 final size:17
Alignment explanation
Indices: 81817372--81817405 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
81817362 GAAAAAAAAT
*
81817372 GTACTCGTATCGAACAC
1 GTACCCGTATCGAACAC
*
81817389 GTACCCGTATCTAACAC
1 GTACCCGTATCGAACAC
81817406 TCACCAAAAC
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:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (17 bp):
GTACCCGTATCGAACAC
Found at i:81817455 original size:15 final size:15
Alignment explanation
Indices: 81817435--81817466 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
81817425 ATGGACTTTA
81817435 TCCCTTTTTTAACTC
1 TCCCTTTTTTAACTC
81817450 TCCCTTTTTTAACTC
1 TCCCTTTTTTAACTC
81817465 TC
1 TC
81817467 TTGCTCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.34, G:0.00, T:0.53
Consensus pattern (15 bp):
TCCCTTTTTTAACTC
Found at i:81822627 original size:109 final size:109
Alignment explanation
Indices: 81822420--81822617 Score: 279
Period size: 110 Copynumber: 1.8 Consensus size: 109
81822410 TCATACAAGC
* * *
81822420 ATCCAATACTCACCCCTAGTCCAAGTAACAAACTAGCATCCTAATGTATACATATATTATACAAA
1 ATCCAATACTCACCCCAAGTCCAAGTAACAAACTAGCATCATAAAGTATACATATATTATACAAA
* *
81822485 ACTGACATTGAACGTACCCTTATCAGAAATATACTCATACACAT
66 ACTGACATTGAACATACCCTCATCAGAAATATACTCATACACAT
* ** * * *
81822529 ATCCAATACTCACCCCAAGTTCGGGTAACAAATTGGCATTCATAAAGTATGCATATATTATACAA
1 ATCCAATACTCACCCCAAGTCCAAGTAACAAACTAGCA-TCATAAAGTATACATATATTATACAA
*
81822594 AACTGAGATTGAACATACCCTCAT
65 AACTGACATTGAACATACCCTCAT
81822618 TGGACTATAC
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
109 32 0.42
110 44 0.58
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (109 bp):
ATCCAATACTCACCCCAAGTCCAAGTAACAAACTAGCATCATAAAGTATACATATATTATACAAA
ACTGACATTGAACATACCCTCATCAGAAATATACTCATACACAT
Found at i:81825244 original size:19 final size:19
Alignment explanation
Indices: 81825217--81825254 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
81825207 TTGATTGAAT
*
81825217 CATTCAAAAT-TAGTAAAAA
1 CATTAAAAATCTAG-AAAAA
81825236 CATTAAAAATCTAGAAAAA
1 CATTAAAAATCTAGAAAAA
81825255 AAATAGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (19 bp):
CATTAAAAATCTAGAAAAA
Found at i:81825310 original size:21 final size:21
Alignment explanation
Indices: 81825280--81825322 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
81825270 CCTAATGAAC
81825280 AAATTTATAAAA-TTTTAATT
1 AAATTTATAAAATTTTTAATT
81825300 AAATTCTATAAAATTTTTAATT
1 AAATT-TATAAAATTTTTAATT
81825322 A
1 A
81825323 TTAATTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTTATAAAATTTTTAATT
Found at i:81829662 original size:15 final size:16
Alignment explanation
Indices: 81829642--81829671 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
81829632 TGTAAAAGTG
81829642 TAATTTT-ATTTTTAT
1 TAATTTTAATTTTTAT
81829657 TAATTTTAATTTTTA
1 TAATTTTAATTTTTA
81829672 ATTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TAATTTTAATTTTTAT
Found at i:81831571 original size:21 final size:19
Alignment explanation
Indices: 81831545--81831593 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
81831535 GGGTAGGTAC
81831545 AATATGCATTCCCCATGTCTG
1 AATATGCATT--CCATGTCTG
*
81831566 AATATGTA-TCCATGTCTG
1 AATATGCATTCCATGTCTG
81831584 AATATGCATT
1 AATATGCATT
81831594 GACGATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 16 0.64
19 1 0.04
20 1 0.04
21 7 0.28
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (19 bp):
AATATGCATTCCATGTCTG
Found at i:81831871 original size:16 final size:16
Alignment explanation
Indices: 81831850--81831881 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81831840 TACCATGTTC
*
81831850 AAATGTATATTGATAT
1 AAATGTACATTGATAT
81831866 AAATGTACATTGATAT
1 AAATGTACATTGATAT
81831882 GAGTGTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (16 bp):
AAATGTACATTGATAT
Found at i:81843188 original size:33 final size:33
Alignment explanation
Indices: 81843151--81843219 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
81843141 TAATGTATTT
*
81843151 AGATTTAATGGTGTACAATGCATGTTTAGGTAG
1 AGATTTAATGGTGTACAATGCACGTTTAGGTAG
81843184 AGATTTAATGGTGTACAATGCACGTTTAGGTAG
1 AGATTTAATGGTGTACAATGCACGTTTAGGTAG
81843217 AGA
1 AGA
81843220 AAATATTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (33 bp):
AGATTTAATGGTGTACAATGCACGTTTAGGTAG
Found at i:81843707 original size:24 final size:24
Alignment explanation
Indices: 81843675--81843721 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
81843665 GCTAACGGTG
81843675 ACGACTTTTAAAATTGACACTATA
1 ACGACTTTTAAAATTGACACTATA
81843699 ACGACTTTTAAAATTGACACTAT
1 ACGACTTTTAAAATTGACACTAT
81843722 TGTGTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (24 bp):
ACGACTTTTAAAATTGACACTATA
Found at i:81846136 original size:31 final size:29
Alignment explanation
Indices: 81846099--81846174 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
81846089 CACCACAAAA
* *
81846099 TTTTTGAAATTTTTGTTAGATCCCTGAAAGT
1 TTTTTGAAATTTTTATTAG-TACCT-AAAGT
* *
81846130 TTTTTGAAAGTTTTAATTAGTACCTCAAGT
1 TTTTTGAAA-TTTTTATTAGTACCTAAAGT
*
81846160 TTTTTGAAAATTTTA
1 TTTTTGAAATTTTTA
81846175 ATTAAATCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 4 0.11
30 13 0.34
31 13 0.34
32 8 0.21
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTTGAAATTTTTATTAGTACCTAAAGT
Found at i:81853897 original size:58 final size:58
Alignment explanation
Indices: 81853791--81853903 Score: 131
Period size: 58 Copynumber: 1.9 Consensus size: 58
81853781 TAATATATCA
* **
81853791 TTTGGTACCTGAGTTTTGTTTCAATGTTTAATTAGGTACTCAAGTTTTTTTTGTCCTAG
1 TTTGGTACCTGAGTTTGGTTTCAATGTCCAATTAGGTACTCAAG-TTTTTTTGTCCTAG
* * * *
81853850 TTTGGTA-CTTAGTTTGGTTTCAATGTCCACTTTGGTACTTGAA-TTTTTTTGTCC
1 TTTGGTACCTGAGTTTGGTTTCAATGTCCAATTAGGTAC-TCAAGTTTTTTTGTCC
81853904 CAATTAAGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 11 0.24
58 25 0.54
59 10 0.22
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (58 bp):
TTTGGTACCTGAGTTTGGTTTCAATGTCCAATTAGGTACTCAAGTTTTTTTGTCCTAG
Found at i:81860931 original size:8 final size:8
Alignment explanation
Indices: 81860918--81860942 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
81860908 AATTATTTGT
81860918 TTTTTATA
1 TTTTTATA
81860926 TTTTTATA
1 TTTTTATA
81860934 TTTTTATA
1 TTTTTATA
81860942 T
1 T
81860943 ATTCGAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTATA
Found at i:81861313 original size:14 final size:14
Alignment explanation
Indices: 81861294--81861323 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
81861284 ACCATTGCAC
81861294 TATATCATAAGCAT
1 TATATCATAAGCAT
*
81861308 TATATCTTAAGCAT
1 TATATCATAAGCAT
81861322 TA
1 TA
81861324 GAGAGCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (14 bp):
TATATCATAAGCAT
Found at i:81869933 original size:40 final size:38
Alignment explanation
Indices: 81869851--81869930 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 38
81869841 ATTATACTTG
* *
81869851 AATTTAATTTAAATAATAAAAAATATTTTTAAAATTTA
1 AATTTAATTTAAATAATAAAAAATATTATTAAAATATA
* *
81869889 AATTTAATTATAAAATTATATAAAATATTAATTAAAATATA
1 AATTTAATT-T-AAATAATAAAAAATATT-ATTAAAATATA
81869930 A
1 A
81869931 TTTTTAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 9 0.26
39 1 0.03
40 15 0.43
41 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (38 bp):
AATTTAATTTAAATAATAAAAAATATTATTAAAATATA
Found at i:81870914 original size:10 final size:11
Alignment explanation
Indices: 81870876--81870913 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
81870866 GGCGAATCTA
81870876 AGGGGGCTGGC
1 AGGGGGCTGGC
81870887 AGGGGGCTGGC
1 AGGGGGCTGGC
*
81870898 AGGGGGCTGGT
1 AGGGGGCTGGC
81870909 AGGGG
1 AGGGG
81870914 CCTCGGCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.66, T:0.11
Consensus pattern (11 bp):
AGGGGGCTGGC
Found at i:81878019 original size:16 final size:17
Alignment explanation
Indices: 81877992--81878024 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
81877982 TTTTTATATT
81877992 ATCCAGCGTGTCATCTC
1 ATCCAGCGTGTCATCTC
81878009 ATCCA-CGTGTCATCTC
1 ATCCAGCGTGTCATCTC
81878025 TAAACCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.36, G:0.15, T:0.30
Consensus pattern (17 bp):
ATCCAGCGTGTCATCTC
Found at i:81885447 original size:21 final size:21
Alignment explanation
Indices: 81885423--81885465 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
81885413 GTTACTCTCC
81885423 GTTTAATTTAAATCCCTAATT
1 GTTTAATTTAAATCCCTAATT
81885444 GTTTAATTTAAATCCCTAATT
1 GTTTAATTTAAATCCCTAATT
81885465 G
1 G
81885466 AATACTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.47
Consensus pattern (21 bp):
GTTTAATTTAAATCCCTAATT
Found at i:81887071 original size:28 final size:29
Alignment explanation
Indices: 81887038--81887092 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
81887028 CGAACATGAA
81887038 TTAATATA-C-TATAATAAAAATATTTTTT
1 TTAATATATCATA-AATAAAAATATTTTTT
*
81887066 TTAATATATCATAAATTAAAATATTTT
1 TTAATATATCATAAATAAAAATATTTT
81887093 AATTTTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 14 0.58
30 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATATATCATAAATAAAAATATTTTTT
Found at i:81887276 original size:22 final size:22
Alignment explanation
Indices: 81887231--81887279 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
81887221 ATTATCTATA
*
81887231 ATATTACATTTATTTCTGTTAG
1 ATATTACATTTATTTCTGTAAG
*
81887253 ATATTACTTTTATTT-TGATAAG
1 ATATTACATTTATTTCTG-TAAG
81887275 ATATT
1 ATATT
81887280 TTATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
ATATTACATTTATTTCTGTAAG
Found at i:81887340 original size:34 final size:32
Alignment explanation
Indices: 81887277--81887341 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 32
81887267 TTGATAAGAT
* *
81887277 ATTTTATTAAAAAAGTTGATGATATATCTATG
1 ATTTTATTAAAAAAATTAATGATATATCTATG
81887309 ATTTTATTTAAAAAAAATTAATGA-ATAATCTAT
1 ATTTTA-TT-AAAAAAATTAATGATAT-ATCTAT
81887342 AAAATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 6 0.21
33 4 0.14
34 18 0.64
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (32 bp):
ATTTTATTAAAAAAATTAATGATATATCTATG
Found at i:81893322 original size:26 final size:26
Alignment explanation
Indices: 81893271--81893324 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
81893261 TACTAAAAAT
* *
81893271 TCAATTCAACTAGTTTATACTAATTC
1 TCAAATCAACTAGTTGATACTAATTC
*
81893297 TCAAATCAACTAGTTCGATA-TTATTC
1 TCAAATCAACTAGTT-GATACTAATTC
81893323 TC
1 TC
81893325 TAAACCATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (26 bp):
TCAAATCAACTAGTTGATACTAATTC
Done.