Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 92 of 189
Found at i:25502839 original size:16 final size:16
Alignment explanation
Indices: 25502818--25502864 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
25502808 TATTAATACC
*
25502818 ATTATTATTTTATTTA
1 ATTATTATTTTATCTA
*
25502834 ATTATT-TTATTAACTA
1 ATTATTATT-TTATCTA
25502850 ATTAATTATTTTATC
1 ATT-ATTATTTTATC
25502865 CTATTTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 14 0.56
17 7 0.28
18 2 0.08
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTATTTTATCTA
Found at i:25509456 original size:23 final size:23
Alignment explanation
Indices: 25509429--25509573 Score: 236
Period size: 23 Copynumber: 6.3 Consensus size: 23
25509419 AGTGTTATTG
*
25509429 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25509452 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25509475 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25509498 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25509521 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25509544 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25509567 ATCAGTG
1 ATCAGTG
25509574 TTGCACTTAT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 113 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25509516 original size:69 final size:69
Alignment explanation
Indices: 25509429--25509573 Score: 272
Period size: 69 Copynumber: 2.1 Consensus size: 69
25509419 AGTGTTATTG
*
25509429 ATCAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCT
25509494 ACAT
66 ACAT
*
25509498 TTCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCT
25509563 ACAT
66 ACAT
25509567 ATCAGTG
1 ATCAGTG
25509574 TTGCACTTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (69 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCT
ACAT
Found at i:25516145 original size:2 final size:2
Alignment explanation
Indices: 25516138--25516168 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25516128 AAATAGCAAT
25516138 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25516169 ATGTCGGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25521210 original size:20 final size:19
Alignment explanation
Indices: 25521172--25521210 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25521162 CTCTCTTTTT
* *
25521172 TAAAATAGGATGGTTTTAC
1 TAAAAAAGGATGGTCTTAC
25521191 TAAAAAAGGATCGGTCTTAC
1 TAAAAAAGGAT-GGTCTTAC
25521211 ATATAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
TAAAAAAGGATGGTCTTAC
Found at i:25521316 original size:20 final size:21
Alignment explanation
Indices: 25521291--25521331 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
25521281 TTACGTATAC
*
25521291 GTAAATATTTTTTTA-TAAAA
1 GTAAATATTTTATTATTAAAA
*
25521311 GTAAATCTTTTATTATTAAAA
1 GTAAATATTTTATTATTAAAA
25521332 TATTCCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
GTAAATATTTTATTATTAAAA
Found at i:25539160 original size:14 final size:13
Alignment explanation
Indices: 25539143--25539176 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
25539133 AAAAAAAAGG
25539143 AAAAAAATTCGAAA
1 AAAAAAATTC-AAA
*
25539157 AAAAAATTTCAAA
1 AAAAAAATTCAAA
25539170 AAAAAAA
1 AAAAAAA
25539177 GTTTGTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:25539256 original size:18 final size:17
Alignment explanation
Indices: 25539233--25539289 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 17
25539223 AAAAAAGAAG
*
25539233 AAAAAAAATTCGAAATT
1 AAAAAAAAATCGAAATT
*
25539250 AAAAAAAAA--G-AA-G
1 AAAAAAAAATCGAAATT
25539263 AAAAAAAAATCGAAATT
1 AAAAAAAAATCGAAATT
25539280 GAAAAAAAAA
1 -AAAAAAAAA
25539290 AGAGTGATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.28
14 2 0.06
15 2 0.06
16 2 0.06
17 8 0.25
18 9 0.28
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAAAAATCGAAATT
Found at i:25539257 original size:30 final size:31
Alignment explanation
Indices: 25539221--25539289 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 31
25539211 GTATTGAAGG
*
25539221 AAAAAAAAGAAGAAAAAAAATTCGAAATT-A
1 AAAAAAAAGAAGAAAAAAAAATCGAAATTGA
25539251 AAAAAAAAGAAGAAAAAAAAATCGAAATTGA
1 AAAAAAAAGAAGAAAAAAAAATCGAAATTGA
25539282 AAAAAAAA
1 AAAAAAAA
25539290 AGAGTGATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (31 bp):
AAAAAAAAGAAGAAAAAAAAATCGAAATTGA
Found at i:25540164 original size:15 final size:16
Alignment explanation
Indices: 25540144--25540175 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
25540134 AGAAAATGAA
25540144 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
25540159 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
25540175 A
1 A
25540176 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:25540308 original size:21 final size:18
Alignment explanation
Indices: 25540284--25540328 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
25540274 ATGAGAGTAC
25540284 AAAAGAAATGAGTGATGTGA
1 AAAAGAAA-GAG-GATGTGA
*
25540304 TAAAAGAAAGAGGATTTGA
1 -AAAAGAAAGAGGATGTGA
25540323 AAAAGA
1 AAAAGA
25540329 GTTTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.18
Consensus pattern (18 bp):
AAAAGAAAGAGGATGTGA
Found at i:25552655 original size:36 final size:36
Alignment explanation
Indices: 25552608--25552677 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
25552598 ACGATATGAG
25552608 CCAAATTAATGGTTAATGCTAACAGTTTAACACGAT
1 CCAAATTAATGGTTAATGCTAACAGTTTAACACGAT
25552644 CCAAATTAATGGTTAATGCTAACAGTTTAACACG
1 CCAAATTAATGGTTAATGCTAACAGTTTAACACG
25552678 TTCATCATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (36 bp):
CCAAATTAATGGTTAATGCTAACAGTTTAACACGAT
Found at i:25556668 original size:18 final size:19
Alignment explanation
Indices: 25556631--25556668 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
25556621 CGTTTGATTT
*
25556631 AATTTTGTAGGTCCATTGG
1 AATTTTGTACGTCCATTGG
*
25556650 AATTTTG-ACGTCGATTGG
1 AATTTTGTACGTCCATTGG
25556668 A
1 A
25556669 TCAGCTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (19 bp):
AATTTTGTACGTCCATTGG
Found at i:25557813 original size:20 final size:21
Alignment explanation
Indices: 25557769--25557814 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
25557759 CCCTTAAATT
* *
25557769 ATTTTATTTATAATATTATTC
1 ATTTTACTTATAAAATTATTC
25557790 -TTTTACTTATAAAATTA-TC
1 ATTTTACTTATAAAATTATTC
25557809 ATTTTA
1 ATTTTA
25557815 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTACTTATAAAATTATTC
Found at i:25557922 original size:11 final size:10
Alignment explanation
Indices: 25557880--25557918 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
25557870 ATATTATTTT
25557880 AATTTTTATG
1 AATTTTTATG
* *
25557890 TATTTTTATA
1 AATTTTTATG
*
25557900 AAATTTTATG
1 AATTTTTATG
25557910 AATTTTTAT
1 AATTTTTAT
25557919 TGAAAAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (10 bp):
AATTTTTATG
Found at i:25559445 original size:9 final size:9
Alignment explanation
Indices: 25559433--25559458 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25559423 ATCATCATCC
25559433 TCATCGTCG
1 TCATCGTCG
25559442 TCATCGTCG
1 TCATCGTCG
25559451 TCATCGTC
1 TCATCGTC
25559459 CTTTTTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.19, T:0.35
Consensus pattern (9 bp):
TCATCGTCG
Found at i:25561913 original size:16 final size:16
Alignment explanation
Indices: 25561892--25561934 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
25561882 GAACTCTTTA
25561892 ATTAACTTGTTGTTAT
1 ATTAACTTGTTGTTAT
**
25561908 ATTAACTTACTGTTAT
1 ATTAACTTGTTGTTAT
*
25561924 ATTAATTTGTT
1 ATTAACTTGTT
25561935 ATAAATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (16 bp):
ATTAACTTGTTGTTAT
Found at i:25565781 original size:16 final size:16
Alignment explanation
Indices: 25565751--25565784 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25565741 ATTCAGCCTC
**
25565751 TCATTTCCTTTTCATT
1 TCATTTCCTCCTCATT
25565767 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
25565783 TC
1 TC
25565785 CTCTCTGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:25568945 original size:20 final size:20
Alignment explanation
Indices: 25568920--25568957 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25568910 AAACACCAGG
25568920 AAAGTAAATCATTTTCCAAA
1 AAAGTAAATCATTTTCCAAA
25568940 AAAGTAAATCATTTTCCA
1 AAAGTAAATCATTTTCCA
25568958 GAAATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAGTAAATCATTTTCCAAA
Found at i:25568964 original size:14 final size:14
Alignment explanation
Indices: 25568945--25569023 Score: 59
Period size: 14 Copynumber: 5.3 Consensus size: 14
25568935 CCAAAAAAGT
25568945 AAATCATTTTCCAG
1 AAATCATTTTCCAG
* *
25568959 AAATCATTTTTCGG
1 AAATCATTTTCCAG
* *
25568973 AAAACATTTTACTGACAA
1 AAATCATTTT-C---CAG
* *
25568991 ACAAACATTTTCTAG
1 A-AATCATTTTCCAG
25569006 AAATCATTTTCCAG
1 AAATCATTTTCCAG
25569020 AAAT
1 AAAT
25569024 GTAAATTTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
14 36 0.72
15 2 0.04
18 3 0.06
19 9 0.18
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.34
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:25572250 original size:50 final size:50
Alignment explanation
Indices: 25572182--25572281 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
25572172 ATGGAAAGAA
25572182 AGTTTTGAATACTAAACCAAAAAGCATAATCAGATGCATATACAGAAACC
1 AGTTTTGAATACTAAACCAAAAAGCATAATCAGATGCATATACAGAAACC
25572232 AGTTTTGAATACTAAACCAAAAAGCATAATCAGATGCATATACAGAAACC
1 AGTTTTGAATACTAAACCAAAAAGCATAATCAGATGCATATACAGAAACC
25572282 CCAAGAGATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (50 bp):
AGTTTTGAATACTAAACCAAAAAGCATAATCAGATGCATATACAGAAACC
Found at i:25575722 original size:32 final size:32
Alignment explanation
Indices: 25575684--25575745 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
25575674 CCTATTTTTT
**
25575684 AAATAAATACCAAAAATTTATTTTAAAAATTA
1 AAATAAATACCAAAAAAGTATTTTAAAAATTA
**
25575716 AAATAAATATTAAAAAAGTATTTTAAAAAT
1 AAATAAATACCAAAAAAGTATTTTAAAAAT
25575746 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (32 bp):
AAATAAATACCAAAAAAGTATTTTAAAAATTA
Found at i:25575776 original size:40 final size:41
Alignment explanation
Indices: 25575702--25575803 Score: 161
Period size: 40 Copynumber: 2.5 Consensus size: 41
25575692 ACCAAAAATT
*
25575702 TATTTTAAAAATTAAAATAAATATTAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAATATAAAAAAAGTATTTTAAAAA
25575745 TATTTTAAAATTAAAAAAAT-TAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATATAAAAAAAGTATTTTAAAAA
*
25575785 AATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
25575804 AGTATTTTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 37 0.65
41 4 0.07
42 10 0.18
43 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATATAAAAAAAGTATTTTAAAAA
Found at i:25575787 original size:32 final size:29
Alignment explanation
Indices: 25575740--25575833 Score: 122
Period size: 32 Copynumber: 3.2 Consensus size: 29
25575730 AAAGTATTTT
25575740 AAAAA-TATTTTAAAATTAAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAA
25575768 AAAAAGTATTTTAAAA--AAATTTTAAAATTAAA
1 AAAAAGTATTTTAAAATTAAA----AAAATT-AA
25575800 AAAAAGTATTTTAAAATTAAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAA
25575829 AAAAA
1 AAAAA
25575834 TAAAAATATT
Statistics
Matches: 58, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
27 3 0.05
28 5 0.09
29 17 0.29
30 6 0.10
31 6 0.10
32 18 0.31
34 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAAATTAA
Found at i:25575804 original size:21 final size:21
Alignment explanation
Indices: 25575780--25575824 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25575770 AAAGTATTTT
25575780 AAAAAAATTTTAAAATTAAAA
1 AAAAAAATTTTAAAATTAAAA
**
25575801 AAAAGTATTTTAAAATTAAAA
1 AAAAAAATTTTAAAATTAAAA
25575822 AAA
1 AAA
25575825 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAAATTTTAAAATTAAAA
Found at i:25579831 original size:41 final size:41
Alignment explanation
Indices: 25579786--25579891 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
25579776 ACTGGCAATT
* *
25579786 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
25579827 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGTCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
25579868 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
25579892 TTATCTCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:25585201 original size:16 final size:16
Alignment explanation
Indices: 25585176--25585211 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
25585166 TTGGTTTGCT
25585176 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
*
25585192 TAATGTAATAGAGTTG
1 TAATGGAATAGAGTTG
25585208 TAAT
1 TAAT
25585212 CAGTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:25585459 original size:62 final size:59
Alignment explanation
Indices: 25585336--25585474 Score: 181
Period size: 59 Copynumber: 2.3 Consensus size: 59
25585326 TTGTTATTAA
* *
25585336 ATTTTAATAGAATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATAAT
* * *
25585395 ATTTTAATATAATTATTATTAGATATAATTTAATAA-AAATGAAAAATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAATAAAT----AATAAATAATTTAATAAT
25585457 ATTTTTAATATAATTATT
1 A-TTTTAATATAATTATT
25585475 TTTATAGTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
58 4 0.06
59 33 0.47
62 17 0.24
63 16 0.23
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (59 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATAAT
Found at i:25585495 original size:10 final size:10
Alignment explanation
Indices: 25585476--25585561 Score: 51
Period size: 10 Copynumber: 9.0 Consensus size: 10
25585466 ATAATTATTT
*
25585476 TTATAGTAAA
1 TTATATTAAA
25585486 TTATATTAAA
1 TTATATTAAA
*
25585496 ATAT-TTAAA
1 TTATATTAAA
25585505 --ATATT---
1 TTATATTAAA
25585510 TTATATTAAA
1 TTATATTAAA
25585520 TTATATTTTGAAA
1 TTATA--TT-AAA
* **
25585533 TTA-AATATT
1 TTATATTAAA
25585542 TTATATTAAA
1 TTATATTAAA
25585552 TTATATTAAA
1 TTATATTAAA
25585562 ATATTTCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
7 7 0.12
8 2 0.03
9 9 0.16
10 31 0.53
12 3 0.05
13 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
TTATATTAAA
Found at i:25585499 original size:32 final size:31
Alignment explanation
Indices: 25585463--25585565 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 31
25585453 TAATATTTTT
*
25585463 AATATAATTATTTTTATAGTAAATTATATTAA
1 AATATAA-TATTTTTATATTAAATTATATTAA
* *
25585495 AATATTTAAAATATTTTATATTAAATTATATTTTGA
1 AATA--TAATAT-TTTTATATTAAATTATA--TTAA
25585531 AAT-TAA-ATATTTTATATTAAATTATATTAA
1 AATATAATAT-TTTTATATTAAATTATATTAA
25585561 AATAT
1 AATAT
25585566 TTCAAATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
30 6 0.10
31 1 0.02
32 24 0.39
33 5 0.08
34 19 0.31
36 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
AATATAATATTTTTATATTAAATTATATTAA
Found at i:25585513 original size:34 final size:33
Alignment explanation
Indices: 25585474--25585579 Score: 144
Period size: 34 Copynumber: 3.2 Consensus size: 33
25585464 ATATAATTAT
*
25585474 TTTTATAGTAAATTATATTAAAATATTTAAAATA
1 TTTTATATTAAATTATATTAAAATATTT-AAATA
**
25585508 TTTTATATTAAATTATATTTTGAA-A-TTAAATA
1 TTTTATATTAAATTATA-TTAAAATATTTAAATA
25585540 TTTTATATTAAATTATATTAAAATATTTCAAATA
1 TTTTATATTAAATTATATTAAAATATTT-AAATA
25585574 TTTTAT
1 TTTTAT
25585580 TTTTATATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
31 4 0.06
32 23 0.37
33 4 0.06
34 28 0.44
35 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (33 bp):
TTTTATATTAAATTATATTAAAATATTTAAATA
Found at i:25605715 original size:28 final size:26
Alignment explanation
Indices: 25605678--25605738 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 26
25605668 ACCAAAAATT
25605678 TATTTTAAAAATAAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAAA
25605704 GTATTTTAAAAATAAAAAATAAAAAAA
1 -TATTTTAAAAATAAAAAATAAAAAAA
25605731 TATATTTA
1 TAT-TTTA
25605739 TTATATATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 3 0.09
27 30 0.91
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
TATTTTAAAAATAAAAAATAAAAAAA
Found at i:25605977 original size:16 final size:16
Alignment explanation
Indices: 25605956--25605986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25605946 CGCTGTATTA
25605956 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATG
*
25605972 GAATAGAGGTGTAAT
1 GAATAGAGGCGTAAT
25605987 AGCAAATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:25606237 original size:16 final size:16
Alignment explanation
Indices: 25606200--25606241 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25606190 TTAATCATAT
*
25606200 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25606216 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25606231 TTAAAATATAT
1 TTAAAATATAT
25606242 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25606248 original size:14 final size:15
Alignment explanation
Indices: 25606209--25606250 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25606199 TTTAAACATA
*
25606209 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25606224 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25606238 A-TATAATTTAATA
1 ATTATAATTAAATA
25606251 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25606474 original size:18 final size:17
Alignment explanation
Indices: 25606453--25606487 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25606443 TTATTATTAA
*
25606453 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25606471 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25606488 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25606504 original size:16 final size:15
Alignment explanation
Indices: 25606479--25606508 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25606469 ATATATAATT
25606479 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
25606494 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
25606509 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:25606540 original size:120 final size:121
Alignment explanation
Indices: 25606198--25606606 Score: 628
Period size: 120 Copynumber: 3.5 Consensus size: 121
25606188 ATTTAATCAT
*
25606198 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
25606263 ATCAATATTCTTATATGAAATTACTCAAATCATAACATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
25606319 ATTT-AACATAATTATTATTAAATATA--TT-A-T--AAT-TAAAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
25606376 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
25606432 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
25606496 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
25606552 ATTTGAAA-A-AATTAATATT-AA-ATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
25606607 TAAAATAATT
Statistics
Matches: 266, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
113 101 0.38
114 3 0.01
115 2 0.01
116 2 0.01
117 2 0.01
118 34 0.13
119 5 0.02
120 110 0.41
121 5 0.02
122 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:25606654 original size:47 final size:46
Alignment explanation
Indices: 25606588--25606846 Score: 166
Period size: 47 Copynumber: 5.7 Consensus size: 46
25606578 TTAATTAAAA
*
25606588 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * * *
25606635 TATATGAATTTGTATAATTTAAAATAATTGT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
** * * *
25606680 TA-AT-AATAACATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
25606726 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
25606771 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
25606817 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
25606847 ATATTAAATA
Statistics
Matches: 163, Mismatches: 26, Indels: 47
0.69 0.11 0.20
Matches are distributed among these distances:
43 6 0.04
44 44 0.27
45 19 0.12
46 17 0.10
47 67 0.41
48 10 0.06
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:25606697 original size:44 final size:43
Alignment explanation
Indices: 25606647--25606869 Score: 134
Period size: 44 Copynumber: 5.0 Consensus size: 43
25606637 TATGAATTTG
*
25606647 TATAATTTAAAATAATTGTTATTAAATATAATTTAATAATAACA
1 TATAATTTAAAATAATTGTTATTAAATATAATTTAATAAT-ATA
* * * *
25606691 TATAATTTCATAA-AATTCGTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATT-GT--TATTAAATATAAT-TTA-AT-AATATA
**
25606738 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTGTTATTAAATATAATTTAATAAT-ATA
* * * *
25606782 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTGTT-AT--TAAATATAAT-TTA-AT-AATATA
* **
25606829 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
1 TATAATTTAAAATAATTGTTATTAAATATAATTTAATAATA
25606870 AAATGTTCTT
Statistics
Matches: 136, Mismatches: 22, Indels: 43
0.68 0.11 0.21
Matches are distributed among these distances:
43 6 0.04
44 43 0.32
45 20 0.15
46 18 0.13
47 43 0.32
48 6 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (43 bp):
TATAATTTAAAATAATTGTTATTAAATATAATTTAATAATATA
Found at i:25606719 original size:91 final size:91
Alignment explanation
Indices: 25606622--25606870 Score: 435
Period size: 91 Copynumber: 2.7 Consensus size: 91
25606612 TAATTATAAC
* **
25606622 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTGTTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
25606687 AACATATAATTTCATAAAATTCGTGA
66 AACATATAATTTCATAAAATTCGTGA
25606713 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
25606778 GATATATAATTTCATAAAATTCTTGA
66 AACATATAATTTCATAAAATTCGTGA
*
25606804 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
25606869 AA
66 AA
25606871 AATGTTCTTA
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 150 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AACATATAATTTCATAAAATTCGTGA
Found at i:25606866 original size:17 final size:15
Alignment explanation
Indices: 25606835--25606873 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
25606825 TTTATACAAT
25606835 TTAAAATAATTAATA
1 TTAAAATAATTAATA
25606850 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
25606867 ATAAAAT
1 TTAAAAT
25606874 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:25630024 original size:21 final size:21
Alignment explanation
Indices: 25629998--25630038 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25629988 ATCTGCTCAA
* *
25629998 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
25630019 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
25630039 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:25634565 original size:30 final size:30
Alignment explanation
Indices: 25634531--25634590 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
25634521 TAACTCATAA
25634531 CACTAATTTCATTGTAAATTTGATAATGAG
1 CACTAATTTCATTGTAAATTTGATAATGAG
25634561 CACTAATTTCATTGTAAATTTGATAATGAG
1 CACTAATTTCATTGTAAATTTGATAATGAG
25634591 TACGGGAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (30 bp):
CACTAATTTCATTGTAAATTTGATAATGAG
Found at i:25634814 original size:16 final size:16
Alignment explanation
Indices: 25634793--25634844 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
25634783 TTTGGTTCGC
25634793 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
25634809 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
25634824 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
25634841 TGTA
1 TGTA
25634845 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:25635168 original size:157 final size:157
Alignment explanation
Indices: 25634974--25635283 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
25634964 CCCTTAGCAT
*
25634974 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
25635039 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
25635104 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
25635131 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
25635196 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
25635261 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
25635284 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:25635280 original size:82 final size:81
Alignment explanation
Indices: 25635037--25635286 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
25635027 TATTATTATC
* * *
25635037 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
25635102 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
25635119 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
25635173 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
25635194 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
25635259 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
25635276 AATAATTAATA
1 AATAATAAATA
25635287 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:25644623 original size:6 final size:6
Alignment explanation
Indices: 25644612--25644636 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25644602 GATTTTTTTC
25644612 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
25644637 CTTGGAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:25644659 original size:50 final size:51
Alignment explanation
Indices: 25644561--25644660 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 51
25644551 CTCCAAAATG
* * *
25644561 AAAATGAAAATGGAGAAATAGAATCATTTGGAAATGAATGTGATTTTTTTC
1 AAAATGAAAATGGAGAAATAAAATCACTTGGAAATGAATCTGATTTTTTTC
* *
25644612 AAAATGAAAAT-GA-AAATGAAAATGACTTGGAAATGAATCT-ATGTTTTTC
1 AAAATGAAAATGGAGAAAT-AAAATCACTTGGAAATGAATCTGATTTTTTTC
25644661 GAATTAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
49 12 0.28
50 20 0.47
51 11 0.26
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATAAAATCACTTGGAAATGAATCTGATTTTTTTC
Found at i:25647808 original size:10 final size:10
Alignment explanation
Indices: 25647735--25647863 Score: 58
Period size: 10 Copynumber: 12.9 Consensus size: 10
25647725 GATGACATCA
25647735 TAAAAATCT-T
1 TAAAAAT-TAT
25647745 TAAAAAGTTA-
1 TAAAAA-TTAT
25647755 TAAAAATGATAT
1 TAAAAAT--TAT
* *
25647767 TAAAAA-AAC
1 TAAAAATTAT
*
25647776 TAGAAATTAAT
1 TAAAAATT-AT
*
25647787 T-AAATTTA-
1 TAAAAATTAT
25647795 TAAAAATTAT
1 TAAAAATTAT
*
25647805 TAAAAAATA-
1 TAAAAATTAT
*
25647814 TAAAAA-TAG
1 TAAAAATTAT
25647823 TAAACAA-TAT
1 TAAA-AATTAT
*
25647833 TAAAAATTGAA
1 TAAAAATT-AT
*
25647844 AAAAAATTATT
1 TAAAAATTA-T
25647855 TAAAAATTA
1 TAAAAATTA
25647864 ACAAATTATA
Statistics
Matches: 91, Mismatches: 14, Indels: 27
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.03
9 26 0.29
10 35 0.38
11 21 0.23
12 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:25647815 original size:19 final size:19
Alignment explanation
Indices: 25647734--25647840 Score: 69
Period size: 19 Copynumber: 5.5 Consensus size: 19
25647724 TGATGACATC
*
25647734 ATAAAAATCT-TTAAAAAGTT
1 ATAAAAAT-TATTAAAAA-AT
25647754 ATAAAAATGATATTAAAAAA-
1 ATAAAAAT--TATTAAAAAAT
* **
25647774 ACTAGAAATTAATT-AAATTT
1 A-TAAAAATT-ATTAAAAAAT
25647794 ATAAAAATTATTAAAAAAT
1 ATAAAAATTATTAAAAAAT
* *
25647813 ATAAAAA-TAGTAAACAAT
1 ATAAAAATTATTAAAAAAT
25647831 ATTAAAAATT
1 A-TAAAAATT
25647841 GAAAAAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
18 13 0.19
19 28 0.41
20 14 0.20
21 7 0.10
22 7 0.10
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (19 bp):
ATAAAAATTATTAAAAAAT
Found at i:25647818 original size:18 final size:19
Alignment explanation
Indices: 25647795--25647852 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
25647785 ATTAAATTTA
*
25647795 TAAAAATTATTAAAAAATA-
1 TAAAAA-TAGTAAAAAATAT
*
25647814 TAAAAATAGTAAACAATAT
1 TAAAAATAGTAAAAAATAT
* *
25647833 TAAAAATTG-AAAAAAAAT
1 TAAAAATAGTAAAAAATAT
25647851 TA
1 TA
25647853 TTTAAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 19 0.58
19 14 0.42
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAAAATAGTAAAAAATAT
Found at i:25647861 original size:49 final size:51
Alignment explanation
Indices: 25647796--25647901 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 51
25647786 TTAAATTTAT
*
25647796 AAAAATTATTAAAAAATATAA-AAA-TAGTAAACAATA-T-TAAAAATTGAAA
1 AAAAATTATTAAAAAAT-TAACAAATTA-TAAAAAATACTATAAAAATTGAAA
*
25647845 AAAAATTATTTAAAAATTAACAAATTATAAAAAATACTATAAAAATTGAAA
1 AAAAATTATTAAAAAATTAACAAATTATAAAAAATACTATAAAAATTGAAA
25647896 AGAAAA
1 A-AAAA
25647902 AAAAAACTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
48 3 0.06
49 27 0.54
50 3 0.06
51 13 0.26
52 4 0.08
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (51 bp):
AAAAATTATTAAAAAATTAACAAATTATAAAAAATACTATAAAAATTGAAA
Found at i:25647863 original size:29 final size:29
Alignment explanation
Indices: 25647831--25647905 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
25647821 AGTAAACAAT
*
25647831 ATTAAAAATTGAAAAAAAATTA-TTTAAAA
1 ATTAAAAATTGAAAAAAAA-TACTATAAAA
*
25647860 ATTAACAAATT-ATAAAAAATACTATAAAA
1 ATTAA-AAATTGAAAAAAAATACTATAAAA
*
25647889 ATTGAAAA--GAAAAAAAA
1 ATTAAAAATTGAAAAAAAA
25647906 AACTTTGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 7 0.18
28 5 0.13
29 22 0.56
30 5 0.13
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (29 bp):
ATTAAAAATTGAAAAAAAATACTATAAAA
Found at i:25661988 original size:21 final size:20
Alignment explanation
Indices: 25661964--25662021 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 20
25661954 GCTATTACGG
25661964 TTAAATTATTGTCAAAAATAA
1 TTAAATTATTGT-AAAAATAA
*
25661985 TTAAA-TATTAT-AAAATAA
1 TTAAATTATTGTAAAAATAA
25662003 TTAAATTA-TGTTAAAAATA
1 TTAAATTATTG-TAAAAATA
25662022 TGAACATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
20 11 0.34
21 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (20 bp):
TTAAATTATTGTAAAAATAA
Found at i:25667886 original size:154 final size:154
Alignment explanation
Indices: 25667624--25667907 Score: 435
Period size: 154 Copynumber: 1.8 Consensus size: 154
25667614 AGTTTTCTTA
* * * *
25667624 AAAACCAAAGCTTTATTTCGAAATAATTGAAAAAAGATCAAACCTTTGTTTTAAAATTTTAAACT
1 AAAACCAAAGCTTTATTTCGAAATAATTGAAAAAAGATCAAAACTTTATTTTAAAAATTTAAAAT
* * *
25667689 TTTCCTTTAAAATGACTAAAAAAATATTATTATTTTTTAAAATCTAAACTTTCTCCTTTTTTTAA
66 TTTCCTGTAAAATGACTAAAAAAATATTATTATTTTTAAAAATCTAAACTTCCTCCTTTTTTTAA
25667754 TTATAAAAAATCACTATTTTTTTT
131 TTATAAAAAATCACTATTTTTTTT
* * * *
25667778 AAAATCAAAGCTTTATTTCGAAATAGTTG-AAAAATATCAAAATTTTATTTTAAAAATTTAAAAT
1 AAAACCAAAGCTTTATTTCGAAATAATTGAAAAAAGATCAAAACTTTATTTTAAAAATTTAAAAT
* *
25667842 TTTCCTGTAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAACTTCCTCTTTTTTTTA
66 TTTCCTGTAAAATGACTAAAAAA-ATATTATTATTTTTAAAAATCTAAACTTCCTCCTTTTTTTA
25667907 A
130 A
25667908 AAAAAAAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
153 51 0.44
154 65 0.56
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (154 bp):
AAAACCAAAGCTTTATTTCGAAATAATTGAAAAAAGATCAAAACTTTATTTTAAAAATTTAAAAT
TTTCCTGTAAAATGACTAAAAAAATATTATTATTTTTAAAAATCTAAACTTCCTCCTTTTTTTAA
TTATAAAAAATCACTATTTTTTTT
Found at i:25674546 original size:21 final size:21
Alignment explanation
Indices: 25674505--25674547 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
25674495 TTATTACAAT
* *
25674505 TAACATTATTTTAATATAAAA
1 TAACATTAATTTAATAGAAAA
25674526 TAACATATAATTTAA-AGAAAA
1 TAACAT-TAATTTAATAGAAAA
25674547 T
1 T
25674548 TCCTTCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TAACATTAATTTAATAGAAAA
Found at i:25694454 original size:21 final size:20
Alignment explanation
Indices: 25694409--25694454 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
25694399 TTGTTGGAAT
25694409 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
25694428 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
25694449 GGTTGA
1 GGTTGA
25694455 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:25701804 original size:6 final size:6
Alignment explanation
Indices: 25701785--25701818 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
25701775 TAAGACTAAG
*
25701785 AAAATA AGAAATA AACATA AAAATA AAAATA AAA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA AAA
25701819 CAAATGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:25702793 original size:9 final size:9
Alignment explanation
Indices: 25702779--25702803 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25702769 TGATAGAGAA
25702779 AAACCATAT
1 AAACCATAT
25702788 AAACCATAT
1 AAACCATAT
25702797 AAACCAT
1 AAACCAT
25702804 TAATTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (9 bp):
AAACCATAT
Found at i:25705629 original size:20 final size:19
Alignment explanation
Indices: 25705606--25705654 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
25705596 CAGGCGCACC
25705606 AAAGTGCAATCAGGAGCAT
1 AAAGTGCAATCAGGAGCAT
*
25705625 GAAAGTGCAATCAGGGGCAT
1 -AAAGTGCAATCAGGAGCAT
25705645 AGAAGTGCAA
1 A-AAGTGCAA
25705655 ATAGGGGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.41, C:0.14, G:0.31, T:0.14
Consensus pattern (19 bp):
AAAGTGCAATCAGGAGCAT
Found at i:25705660 original size:20 final size:20
Alignment explanation
Indices: 25705627--25705780 Score: 82
Period size: 20 Copynumber: 7.7 Consensus size: 20
25705617 AGGAGCATGA
*
25705627 AAGTGC-AATCAGGGGCATAG
1 AAGTGCAAAT-AGGGGCACAG
* *
25705647 AAGTGCAAATAGGGGTACCG
1 AAGTGCAAATAGGGGCACAG
* *
25705667 AAGTACAAATAGGGGCACAT
1 AAGTGCAAATAGGGGCACAG
* * *
25705687 ATGTGC-ATTCAGGGGTACCA-
1 AAGTGCAAAT-AGGGGCA-CAG
* * *
25705707 AACTACAAACAGGGGCACAG
1 AAGTGCAAATAGGGGCACAG
* * * *
25705727 ATGTGC-ATTCAGGGGTACTG
1 AAGTGCAAAT-AGGGGCACAG
*
25705747 AAGTACAAATAGGGGCACAG
1 AAGTGCAAATAGGGGCACAG
* *
25705767 ATGTGCAAACAGGG
1 AAGTGCAAATAGGG
25705781 TCACTTCTTC
Statistics
Matches: 95, Mismatches: 32, Indels: 14
0.67 0.23 0.10
Matches are distributed among these distances:
19 5 0.05
20 82 0.86
21 8 0.08
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.16
Consensus pattern (20 bp):
AAGTGCAAATAGGGGCACAG
Found at i:25705681 original size:40 final size:40
Alignment explanation
Indices: 25705637--25705780 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
25705627 AAGTGCAATC
* *
25705637 AGGGGCATAGAAGTGCAAAT-AGGGGTACCGAAGTACAAAT
1 AGGGGCACAGATGTGC-AATCAGGGGTACCGAAGTACAAAT
* * * * *
25705677 AGGGGCACATATGTGCATTCAGGGGTACCAAACTACAAAC
1 AGGGGCACAGATGTGCAATCAGGGGTACCGAAGTACAAAT
* *
25705717 AGGGGCACAGATGTGCATTCAGGGGTACTGAAGTACAAAT
1 AGGGGCACAGATGTGCAATCAGGGGTACCGAAGTACAAAT
*
25705757 AGGGGCACAGATGTGCAAACAGGG
1 AGGGGCACAGATGTGCAATCAGGG
25705781 TCACTTCTTC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 87 0.98
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.16
Consensus pattern (40 bp):
AGGGGCACAGATGTGCAATCAGGGGTACCGAAGTACAAAT
Found at i:25712293 original size:18 final size:18
Alignment explanation
Indices: 25712250--25712293 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
25712240 ACCCAATCCA
* *
25712250 AACCCAAGTATTCAACCC
1 AACCCAATTACTCAACCC
25712268 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
25712286 AACCCAAT
1 AACCCAAT
25712294 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:25712410 original size:9 final size:9
Alignment explanation
Indices: 25712396--25712453 Score: 107
Period size: 9 Copynumber: 6.4 Consensus size: 9
25712386 ATAGTGATTC
25712396 AATTCGGTT
1 AATTCGGTT
25712405 AATTCGGTT
1 AATTCGGTT
*
25712414 AATTCGGAT
1 AATTCGGTT
25712423 AATTCGGTT
1 AATTCGGTT
25712432 AATTCGGTT
1 AATTCGGTT
25712441 AATTCGGTT
1 AATTCGGTT
25712450 AATT
1 AATT
25712454 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:25719308 original size:3 final size:3
Alignment explanation
Indices: 25719300--25719328 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25719290 CTTCATATCA
25719300 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25719329 CAAAGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25727110 original size:23 final size:23
Alignment explanation
Indices: 25727075--25727119 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25727065 TCTTATTTAA
**
25727075 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
25727098 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
25727120 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:25730985 original size:92 final size:92
Alignment explanation
Indices: 25730821--25731014 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
25730811 TTGATTTTAG
* * *
25730821 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
25730886 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATTATTTTAAATTATA
* *
25730913 TAAATTCATATCAGAA-AATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
25730976 ATATGTAATAATTATTATTTTAAATTATA
64 ATATGTAATAATTATTATTTTAAATTATA
*
25731005 AAAATTCATA
1 TAAATTCATA
25731015 AAATATAATT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
90 1 0.01
91 29 0.32
92 58 0.64
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:25730992 original size:24 final size:25
Alignment explanation
Indices: 25730957--25731004 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
25730947 TTATGAAATT
25730957 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
25730981 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
25731005 AAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:25731159 original size:66 final size:63
Alignment explanation
Indices: 25731075--25731293 Score: 181
Period size: 66 Copynumber: 3.5 Consensus size: 63
25731065 TTTAATTAAA
* *
25731075 ATATATGATATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTACGATTTGAGTAAAT
1 ATATAAGA-ATATTAATTATTT-AAATTTT-ATTTAAAGTATCATATATTA-GATTTGAGTAAAT
25731140 TC
62 TC
* * *
25731142 ATATAAGAATATTAATTATTAAGAATTTTA-TTAAATTAT-ATATTTTA-A-TT-A-T-AA-T-
1 ATATAAGAATATTAATTATTTA-AATTTTATTTAAAGTATCATATATTAGATTTGAGTAAATTC
** * *
25731197 ATAT-TTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATAAGAATATTAATTAT-TTAAATTT-TA-TTTAAAGTATCATATATTA-GATTTGAGTAAAT
25731260 TC
62 TC
*
25731262 ATATAAGAATATTAATTATTAAGAATTTTATT
1 ATATAAGAATATTAATTATTTA-AATTTTATT
25731294 AAATTATATA
Statistics
Matches: 119, Mismatches: 16, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.11
55 5 0.04
56 8 0.07
57 9 0.08
58 1 0.01
59 2 0.02
60 4 0.03
61 2 0.02
62 1 0.01
63 9 0.08
64 8 0.07
65 9 0.08
66 31 0.26
67 12 0.10
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (63 bp):
ATATAAGAATATTAATTATTTAAATTTTATTTAAAGTATCATATATTAGATTTGAGTAAATTC
Found at i:25731175 original size:120 final size:120
Alignment explanation
Indices: 25731045--25731337 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
25731035 AATTATTTTA
* * *
25731045 AATTTTATTAAATCATATATTTTAATTAAAATATATGAT-ATATTAATTAT-TTCAAATTT-TCA
1 AATTTTATTAAATTATATATTTTAATTATAATATAT-ATAATAATAATTATGTT--AATTTAT-A
*
25731107 -TTTATAGTATCATATATTACGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62 TTTTACAGTATCATATATTACGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
25731165 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATATAATAATAATTATGTTAATTTATATTTT
*
25731230 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTACGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
25731285 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATATAATAATAATTATGTT
25731338 TAAATATGAT
Statistics
Matches: 163, Mismatches: 6, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
119 7 0.04
120 154 0.94
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATATAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTACGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:25731205 original size:15 final size:15
Alignment explanation
Indices: 25731170--25731221 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25731160 TTAAGAATTT
*
25731170 TATTAAATTAT-ATA
1 TATTTAATTATAATA
25731184 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
25731198 TATTTAATAATAAT-
1 TATTTAATTATAATA
25731212 TATGTTAATT
1 TAT-TTAATT
25731222 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:25731320 original size:16 final size:16
Alignment explanation
Indices: 25731299--25731340 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25731289 TTATTAAATT
*
25731299 ATATATTTTAATTATA
1 ATATATTTTAATAATA
25731315 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
25731330 AT-TATGTTTAA
1 ATATAT-TTTAA
25731341 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:25731325 original size:15 final size:15
Alignment explanation
Indices: 25731290--25731331 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25731280 TTAAGAATTT
*
25731290 TATTAAATTAT-ATA
1 TATTTAATTATAATA
25731304 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
25731318 TATTTAATAATAAT
1 TATTTAATTATAAT
25731332 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:25731452 original size:157 final size:157
Alignment explanation
Indices: 25731274--25731590 Score: 582
Period size: 157 Copynumber: 2.0 Consensus size: 157
25731264 ATAAGAATAT
25731274 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTA-AAGTATATTTAATAATAATTATGTT
* *
25731338 TAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
*
25731403 ATAATAATTTACCAAAACAAATTTCTGC
130 ATAATAATTTACCAAAACAAATTTATGC
25731431 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAGTATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAGTATATTTAATAATAATTATGTTT
25731496 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
25731561 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
25731588 TAA
1 TAA
25731591 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
156 2 0.01
157 153 0.99
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAGTATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:25731463 original size:17 final size:18
Alignment explanation
Indices: 25731443--25731477 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25731433 ATTATTAAGA
*
25731443 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAGTATAT
25731460 ATTTTAATTAAAGTATAT
1 ATTTTAATTAAAGTATAT
25731478 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAGTATAT
Found at i:25731734 original size:16 final size:16
Alignment explanation
Indices: 25731713--25731748 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25731703 GATTTGATAT
25731713 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25731729 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25731745 TACA
1 TACA
25731749 GCGAACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25735276 original size:13 final size:13
Alignment explanation
Indices: 25735260--25735299 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
25735250 ATTTGTTTAA
* *
25735260 CATTTCACGTCTT
1 CATTTCAAGTATT
25735273 CATTTCAAGTATT
1 CATTTCAAGTATT
*
25735286 CATTTCAATTATT
1 CATTTCAAGTATT
25735299 C
1 C
25735300 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (13 bp):
CATTTCAAGTATT
Found at i:25740553 original size:56 final size:56
Alignment explanation
Indices: 25740467--25740642 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
25740457 ACAAGGGATG
25740467 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25740523 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
25740579 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25740635 ATGGGCAA
1 ATGGGCAA
25740643 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:25741909 original size:79 final size:81
Alignment explanation
Indices: 25741770--25741954 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
25741760 TCGAATGATG
* * *
25741770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATT
25741834 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
25741849 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCA
*
25741911 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
25741929 ACCGGGCTATGACCCGAAGGAATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
25741955 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATT
TGTGCGAGATACTATA
Found at i:25741961 original size:40 final size:39
Alignment explanation
Indices: 25741770--25741954 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
25741760 TCGAATGATG
* * * *
25741770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
25741810 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
25741850 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25741889 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
25741930 -CCGGGCTATGACCCGAAGGAATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
25741955 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.29
40 78 0.64
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25741976 original size:79 final size:79
Alignment explanation
Indices: 25741826--25741977 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
25741816 CTAAGATCCG
* * **
25741826 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAGTTACTAAATC
25741891 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
25741905 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGAATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGAATTTGAACGAGTTA-CTAA
25741968 ATCC-GGTTAA
63 ATCCGGGTTAA
25741978 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.59
80 24 0.38
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:25748887 original size:98 final size:98
Alignment explanation
Indices: 25748763--25748959 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
25748753 TTAAAAATAA
* * *
25748763 TAAAGGAAATATTCCGAGTTTAGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
25748828 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
25748861 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
25748926 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
25748959 T
1 T
25748960 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:25752939 original size:21 final size:21
Alignment explanation
Indices: 25752913--25752974 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
25752903 GGATCCAATG
25752913 TTCGAAGATCTATCTCTTAGC
1 TTCGAAGATCTATCTCTTAGC
* **
25752934 TTCGAA-ATAC-ACCTCGAATG-
1 TTCGAAGAT-CTATCTCTTA-GC
25752954 TTCGAAGATCTATCTCTTAGC
1 TTCGAAGATCTATCTCTTAGC
25752975 ATTGAAATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (21 bp):
TTCGAAGATCTATCTCTTAGC
Found at i:25752966 original size:41 final size:41
Alignment explanation
Indices: 25752909--25752993 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
25752899 GATGGGATCC
25752909 AATGTTCGAAGATCTATCTCTTAGC-TTCGAAATACACCTCG
1 AATGTTCGAAGATCTATCTCTTAGCATT-GAAATACACCTCG
25752950 AATGTTCGAAGATCTATCTCTTAGCATTGAAATACACCTCG
1 AATGTTCGAAGATCTATCTCTTAGCATTGAAATACACCTCG
25752991 AAT
1 AAT
25752994 CACTCAACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 41 0.95
42 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (41 bp):
AATGTTCGAAGATCTATCTCTTAGCATTGAAATACACCTCG
Found at i:25754135 original size:20 final size:19
Alignment explanation
Indices: 25754110--25754148 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
25754100 CTAGAAAGAT
25754110 AAATAAAAACTCTTGCAAAA
1 AAATAAAAACTCTT-CAAAA
* *
25754130 AAATAAGACCTCTTCAAAA
1 AAATAAAAACTCTTCAAAA
25754149 TAAGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATAAAAACTCTTCAAAA
Found at i:25755471 original size:27 final size:29
Alignment explanation
Indices: 25755419--25755490 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 29
25755409 TATAAAAAAA
*
25755419 ATTTACCAAAAT-TTTATAACTTTTTTTT
1 ATTTACCAAAATATATATAACTTTTTTTT
25755447 ATTTACCAAAATATATAT-AC-TTTTTTT
1 ATTTACCAAAATATATATAACTTTTTTTT
*
25755474 ATTTACCGAAATATATA
1 ATTTACCAAAATATATA
25755491 AAAAAAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.56
28 14 0.34
29 4 0.10
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (29 bp):
ATTTACCAAAATATATATAACTTTTTTTT
Found at i:25755585 original size:27 final size:27
Alignment explanation
Indices: 25755555--25755621 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
25755545 CGCCAATGGT
25755555 ATTGGCGGCACCAAAGGTACCAAAACC
1 ATTGGCGGCACCAAAGGTACCAAAACC
* * *
25755582 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTACCAAAACC
25755609 ATTGGCGGCACCA
1 ATTGGCGGCACCA
25755622 GTTAATAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTACCAAAACC
Found at i:25755672 original size:4 final size:4
Alignment explanation
Indices: 25755663--25755820 Score: 110
Period size: 4 Copynumber: 37.0 Consensus size: 4
25755653 GAAAGAGAGG
* *
25755663 GAAA GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA GAAA AAGAA GAAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GA-AA G-AAA
*
25755715 GAAAA GGAAA G-GA GAAGA GAAA GAAA GAAA GAAA G-AA G-AA G-AA GAAAA
1 G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA
*
25755763 GGAAAA GAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAAA GGAAA
1 -G-AAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA
25755812 GAGAA GAAA
1 GA-AA GAAA
25755821 AAAAAGAAGA
Statistics
Matches: 131, Mismatches: 8, Indels: 30
0.78 0.05 0.18
Matches are distributed among these distances:
3 14 0.11
4 66 0.50
5 42 0.32
6 9 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:25755675 original size:18 final size:17
Alignment explanation
Indices: 25755652--25755820 Score: 88
Period size: 18 Copynumber: 9.8 Consensus size: 17
25755642 TGGTGGGGGC
25755652 AGAAAGAGAGG---GAA
1 AGAAAGAGAGGAAAGAA
*
25755666 AGAAAGA-AAGAAAGAA
1 AGAAAGAGAGGAAAGAA
25755682 AGAAAGGAGAGGAAAGAA
1 AGAAA-GAGAGGAAAGAA
* *
25755700 AGAAAAAGAAGAAAAGAAA
1 AGAAAGAG-AGGAAAG-AA
25755719 AGGAAAGGAGAAGAGAAAGAA
1 A-GAAA-GAG-AG-GAAAGAA
* *
25755740 AGAAAGAAAGAAGAAG-A
1 AGAAAGAGAGGA-AAGAA
*
25755757 AGAAA-AG-GAAAAGAAA
1 AGAAAGAGAGGAAAG-AA
*
25755773 AGAGAAGA-A-AAAAGAA
1 AGA-AAGAGAGGAAAGAA
25755789 AGAAAGA-AGGAAAGAAA
1 AGAAAGAGAGGAAAG-AA
*
25755806 AGGAAAGAGAAGAAA
1 A-GAAAGAGAGGAAA
25755821 AAAAAGAAGA
Statistics
Matches: 124, Mismatches: 11, Indels: 35
0.73 0.06 0.21
Matches are distributed among these distances:
13 2 0.02
14 10 0.08
15 8 0.06
16 22 0.18
17 21 0.17
18 31 0.25
19 10 0.08
20 8 0.06
21 8 0.06
22 4 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGAAAGAGAGGAAAGAA
Found at i:25755745 original size:48 final size:49
Alignment explanation
Indices: 25755668--25755858 Score: 164
Period size: 48 Copynumber: 3.9 Consensus size: 49
25755658 AGAGGGAAAG
*
25755668 AAAG-AAAGA-AAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGAAGAAAA-GA
1 AAAGAAAAGAGAAGAAA-AAA-GA-AAGAAAGAAAGAAAAAGAAGAAAAGGA
* * *
25755717 AAAGGAAAGGAGAAG-AGAAAGAAAGAAAGAAAGAAGAAGAAGAAAAGGA
1 AAA-GAAAAGAGAAGAAAAAAGAAAGAAAGAAAGAAAAAGAAGAAAAGGA
* *
25755766 AAAGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAA-AAGGAAA-GA
1 AAAGAAAAGAGAAGAAAAAAGAAAGAAAGAAAGAAA-AAGAAGAAAAGGA
* * ** * *
25755814 GAAGAAAA-AAAAGAAGAAAAGAGGGAAGGAAGGAAAAA-AAGAAAA
1 AAAGAAAAGAGAAGAA-AAAAGAAAGAAAGAAAGAAAAAGAAGAAAA
25755859 AAAAGTAATT
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
47 14 0.12
48 58 0.48
49 34 0.28
50 6 0.05
51 5 0.04
52 3 0.03
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (49 bp):
AAAGAAAAGAGAAGAAAAAAGAAAGAAAGAAAGAAAAAGAAGAAAAGGA
Found at i:25755746 original size:38 final size:36
Alignment explanation
Indices: 25755662--25755834 Score: 153
Period size: 38 Copynumber: 4.7 Consensus size: 36
25755652 AGAAAGAGAG
*
25755662 GGAAAGAAAGAAAGAAAGAAAG-AAAGGAGAGG-AAA
1 GGAAAGAAAGAAAGAAA-AAAGAAAAGGAAAGGAAAA
*
25755697 -GAAAG-AA-AAAGAAGAAAAGAAAAGGAAAGGAGAA
1 GGAAAGAAAGAAAGAA-AAAAGAAAAGGAAAGGAAAA
* *
25755731 GAGAAAGAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAA
1 G-GAAAGAAAGAAAGAAAAAAGAA-AAGGAAAGGAAAA
*
25755769 GAAAAGAGAAGAAA-AAAGAAAGAAAGAAGGAAA-GAAAA
1 GGAAAGA-AAGAAAGAAA-AAAG-AA-AAGGAAAGGAAAA
*
25755807 GGAAAGAGAAGAAAAAAAAGAAGAAAAG
1 GGAAAGA-AAGAAAGAAAA-AAGAAAAG
25755835 AGGGAAGGAA
Statistics
Matches: 116, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
32 10 0.09
33 12 0.10
34 7 0.06
36 5 0.04
37 19 0.16
38 48 0.41
39 15 0.13
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (36 bp):
GGAAAGAAAGAAAGAAAAAAGAAAAGGAAAGGAAAA
Found at i:25755847 original size:38 final size:38
Alignment explanation
Indices: 25755683--25755863 Score: 144
Period size: 40 Copynumber: 4.7 Consensus size: 38
25755673 AAGAAAGAAA
* *
25755683 GAAAGGAGAGGAAAGAAAGAAAAAGAAGAA-AAGAAAAG
1 GAAAGGA-AGGAAAGAAAGAAAAAAAAGAAGAAGAAGAG
*
25755721 GAAAGGAGAAGAGAAAGAAAG-AAAGAAAGAAGAAGAAGA-
1 GAAA-G-GAAG-GAAAGAAAGAAAAAAAAGAAGAAGAAGAG
* *
25755760 -AAAGGAAAAGAAA-AGAGAAGAAAAAAG-A-AAGAAAGAAG
1 GAAAGG-AAGGAAAGAAAGAA-AAAAAAGAAGAAG-AAG-AG
*
25755798 GAAAGAAAAGGAAAGAGAAGAAAAAAAAGAAGAA-AAGAG
1 GAAAG-GAAGGAAAGA-AAGAAAAAAAAGAAGAAGAAGAG
* *
25755837 GGAAGGAAGGAAAAAAAGAAAAAAAAG
1 GAAAGGAAGGAAAGAAAGAAAAAAAAG
25755864 TAATTTTATT
Statistics
Matches: 115, Mismatches: 12, Indels: 33
0.72 0.08 0.21
Matches are distributed among these distances:
35 6 0.05
36 10 0.09
37 22 0.19
38 15 0.13
39 27 0.23
40 28 0.24
41 5 0.04
42 2 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (38 bp):
GAAAGGAAGGAAAGAAAGAAAAAAAAGAAGAAGAAGAG
Found at i:25757014 original size:161 final size:160
Alignment explanation
Indices: 25756683--25757252 Score: 499
Period size: 160 Copynumber: 3.6 Consensus size: 160
25756673 TTCAAATATG
* * * * * * *
25756683 ATGCACTGAAATAATGTAAAATTATAAAAGACTA-AGT-TTATGATATTTT-TTTAATGTAAT-A
1 ATGCACTGAAATAATATAAAATAATAAAATACGAGAATAATAT-AT-TTTTATTTAAAGTAATAA
* * ***
25756744 AAATGCGGAGAAAAAAATACGAA-CAAATGGCAGAAGTAAGAGTGTATTACTAACTTTTATAAAA
64 AAAT-C-GAGAAAATAATAC-AAGCAAAGGGCAGAAGTAAGAGTGTATTACTAACTCAAATAAAA
* * * *
25756808 TTCAGAAATAATTAATACAAAATATTTCAAAGAAA
126 TTCAAAAACAACTAATACAAAATATTTCAAACAAA
* *
25756843 ATGTACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAA
1 ATGCACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAA
* * ** *
25756908 ATCGAGAAAATAATACAAGCAAAGGGCATG-GGTAAGGGT-TATTTTTTACAC-CAAAT-TAATT
66 ATCGAGAAAATAATACAAGCAAAGGGCA-GAAGTAAGAGTGTA-TTACTA-ACTCAAATAAAATT
* * **
25756969 TAAATAACACACTAGAGTA-ATAA-ATTTCAAACATT
128 CAAA-AACA-ACTA-A-TACAAAATATTTCAAACAAA
* * *
25757004 ATGCACTGAAATAATGTAAAATTATAAAATTA-GA-AAT--TATGATATTT-TTTAAAGTAAT-A
1 ATGCACTGAAATAATATAAAATAATAAAA-TACGAGAATAATAT-ATTTTTATTTAAAGTAATAA
* * * ***
25757063 AAATGCGGAGAAAAAAATACAAACAAATGGCAGAAGTAAGAGTGTATTACTAACTTTTATAAAAT
64 AAAT-C-GAGAAAATAATACAAGCAAAGGGCAGAAGTAAGAGTGTATTACTAACTCAAATAAAAT
* * *
25757128 TCAAAAATAATTAATACAAAATATTTCAAAGAAA
127 TCAAAAACAACTAATACAAAATATTTCAAACAAA
* *
25757162 ATGTACTGAAATAATATAAAATAATAAAATACAAGAATAATATATTTTTATTTAAAGTAATAAAA
1 ATGCACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAA
*
25757227 ATCGAGAAAATAATACGAGCAAAGGG
66 ATCGAGAAAATAATACAAGCAAAGGG
25757253 TTAAATAACA
Statistics
Matches: 323, Mismatches: 59, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
156 2 0.01
157 11 0.03
158 57 0.18
159 56 0.17
160 104 0.32
161 72 0.22
162 19 0.06
163 2 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (160 bp):
ATGCACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAA
ATCGAGAAAATAATACAAGCAAAGGGCAGAAGTAAGAGTGTATTACTAACTCAAATAAAATTCAA
AAACAACTAATACAAAATATTTCAAACAAA
Found at i:25757233 original size:319 final size:321
Alignment explanation
Indices: 25756652--25757252 Score: 1055
Period size: 319 Copynumber: 1.9 Consensus size: 321
25756642 TATTCCCCCT
* *
25756652 TAACACACTAAATTAATAAATTTCAAATATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
1 TAACACACTAAAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
** * *
25756717 AGTTTATGATATTTTTTTAATGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTA
66 AAATTATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAACAAATGGCAGAAGTA
*
25756782 AGAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGT
131 AGAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATGT
*
25756847 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
196 ACTGAAATAATATAAAACAATAAAATACAAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
25756912 AGAAAATAATACAAGCAAAGGGCATGGGTAAGGGTTATTTTTTACACCAAATTAATTTAAA
261 AGAAAATAATACAAGCAAAGGGCATGGGTAAGGGTTATTTTTTACACCAAATTAATTTAAA
* * *
25756973 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTAT-AAA-ATTA
1 TAACACACTAAAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
25757036 GAAATTATGATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAACAAATGGCAGAAGT
66 -AAATTATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAACAAATGGCAGAAGT
25757100 AAGAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATG
130 AAGAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATG
*
25757165 TACTGAAATAATATAAAATAATAAAATACAAGAATAATATATTTTTATTTAAAGTAATAAAAATC
195 TACTGAAATAATATAAAACAATAAAATACAAGAATAATATATTTTTATTTAAAGTAATAAAAATC
*
25757230 GAGAAAATAATACGAGCAAAGGG
260 GAGAAAATAATACAAGCAAAGGG
25757253 TTAAATAACA
Statistics
Matches: 266, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
319 202 0.76
320 12 0.05
321 52 0.20
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (321 bp):
TAACACACTAAAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
AAATTATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAACAAATGGCAGAAGTA
AGAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATGT
ACTGAAATAATATAAAACAATAAAATACAAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
AGAAAATAATACAAGCAAAGGGCATGGGTAAGGGTTATTTTTTACACCAAATTAATTTAAA
Found at i:25762690 original size:17 final size:18
Alignment explanation
Indices: 25762654--25762692 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
25762644 TTACTAAGTT
25762654 ACATCTTAATACATTAATA
1 ACATCTTAATACA-TAATA
25762673 ACATCTTAATAC-TAATA
1 ACATCTTAATACATAATA
25762690 ACA
1 ACA
25762693 ATAACAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (18 bp):
ACATCTTAATACATAATA
Found at i:25762799 original size:19 final size:21
Alignment explanation
Indices: 25762775--25762813 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25762765 ACTAAAATAA
*
25762775 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
25762794 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
25762814 ATCAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:25762877 original size:10 final size:11
Alignment explanation
Indices: 25762837--25762876 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
25762827 AAAAATATAC
25762837 CTTCTTTTTCT
1 CTTCTTTTTCT
*
25762848 ATTCTTTTTCT
1 CTTCTTTTTCT
25762859 C-TCTTTTTCT
1 CTTCTTTTTCT
25762869 CTTCTTTT
1 CTTCTTTT
25762877 CCGTAACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:25763047 original size:14 final size:14
Alignment explanation
Indices: 25763012--25763038 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25763002 CACATCGGTT
25763012 AGATTTTTTTTTGC
1 AGATTTTTTTTTGC
25763026 AGATTTTTTTTTG
1 AGATTTTTTTTTG
25763039 ATATATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.67
Consensus pattern (14 bp):
AGATTTTTTTTTGC
Found at i:25763080 original size:28 final size:28
Alignment explanation
Indices: 25763039--25763101 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
25763029 TTTTTTTTTG
* *
25763039 ATATATTTTGGTAAATAAAAAAATT-TA
1 ATATTTTTTAGTAAATAAAAAAATTATA
25763066 TATATTTTTTAGTAAATAAAAAAATTATA
1 -ATATTTTTTAGTAAATAAAAAAATTATA
25763095 ATATTTT
1 ATATTTT
25763102 GATAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (28 bp):
ATATTTTTTAGTAAATAAAAAAATTATA
Found at i:25769354 original size:13 final size:13
Alignment explanation
Indices: 25769336--25769378 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
25769326 AAATTTGAAT
25769336 TATTTAGTGATAA
1 TATTTAGTGATAA
25769349 TATTTAG-GAT--
1 TATTTAGTGATAA
25769359 TATTTAGTGATAA
1 TATTTAGTGATAA
25769372 TATTTAG
1 TATTTAG
25769379 GAAAAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:25769360 original size:23 final size:23
Alignment explanation
Indices: 25769334--25769380 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25769324 TAAAATTTGA
25769334 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
25769357 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
25769380 A
1 A
25769381 AAAACCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:25775073 original size:42 final size:41
Alignment explanation
Indices: 25774973--25775223 Score: 265
Period size: 42 Copynumber: 6.0 Consensus size: 41
25774963 GCGCTTACAG
* *
25774973 AAAAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGC-TA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * *
25775013 CAAAAAAGCACCGCTAAAGATCATGTCCTTTAGCGGCGCTTA
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
25775055 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * *
25775097 AACAAAAATGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGG
1 AA-AAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT-A
* * *
25775140 TAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCACTTTCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TT-A
** * *
25775183 CTACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTTA
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTA
25775224 CTTCACAAAC
Statistics
Matches: 176, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
41 41 0.23
42 97 0.55
43 38 0.22
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:25775217 original size:85 final size:82
Alignment explanation
Indices: 25774973--25775223 Score: 292
Period size: 84 Copynumber: 3.0 Consensus size: 82
25774963 GCGCTTACAG
* * * *
25774973 AAAAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGC--TACAAAAAAGCACCGCT-AAAGATC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTAC-AAAAA-CGCCGCTAAAAG-TA
*
25775035 ATGTCCTTTAGCGGCGCTTA
63 ATGTTCTTTAGCGGCGCTTA
* *
25775055 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAACAAAAATGCCGCTAAAAGTAA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-TACAAAAACGCCGCTAAAAGTAA
* *
25775120 TGTTCTATAGCGGCGCTTGG
64 TGTTCTTTAGCGGCGCTT-A
* * * *
25775140 TAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCACTTTCACTACAAACGCCGCTAAAAGTAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT-AC-AAAAACGCCGCTAAAAGTAA
25775205 TGTTCTTTAGCGGCGCTTA
64 TGTTCTTTAGCGGCGCTTA
25775224 CTTCACAAAC
Statistics
Matches: 144, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
82 6 0.04
83 30 0.21
84 57 0.40
85 49 0.34
86 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (82 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACAAAAACGCCGCTAAAAGTAATG
TTCTTTAGCGGCGCTTA
Found at i:25775668 original size:12 final size:12
Alignment explanation
Indices: 25775651--25775678 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25775641 TTTTGAACCT
25775651 CTGCTTCTCTCG
1 CTGCTTCTCTCG
25775663 CTGCTTCTCTCG
1 CTGCTTCTCTCG
25775675 CTGC
1 CTGC
25775679 AGCCTCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:25775687 original size:21 final size:21
Alignment explanation
Indices: 25775663--25775732 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
25775653 GCTTCTCTCG
25775663 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
**
25775684 CTGCTTCTCTCATTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
25775705 TTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
25775726 CTGCTTC
1 CTGCTTC
25775733 CTTTGCTGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.06, C:0.41, G:0.17, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:25775733 original size:21 final size:21
Alignment explanation
Indices: 25775663--25775752 Score: 99
Period size: 21 Copynumber: 4.3 Consensus size: 21
25775653 GCTTCTCTCG
*
25775663 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* **
25775684 CTGCTTCTCTCATTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
*
25775705 TTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* * **
25775726 CTGCTTCCTTTGCTGCCCCCT
1 CTGCTTCCCTCGCTGCAGCCT
25775747 CTGCTT
1 CTGCTT
25775753 TAAGTTGTAG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.37
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:25778427 original size:6 final size:6
Alignment explanation
Indices: 25778418--25778449 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25778408 AGCAGAGAGC
*
25778418 GACGGT GACGGT GACGGT GACGAT GACGGT GA
1 GACGGT GACGGT GACGGT GACGGT GACGGT GA
25778450 TGCAGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.47, T:0.16
Consensus pattern (6 bp):
GACGGT
Found at i:25779767 original size:7 final size:7
Alignment explanation
Indices: 25779752--25779836 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 7
25779742 ACTAAAGCGG
25779752 CCTAAAC
1 CCTAAAC
*
25779759 CCCAAAC
1 CCTAAAC
*
25779766 CCCAAAC
1 CCTAAAC
*
25779773 CTTAAAC
1 CCTAAAC
25779780 CCTAAAC
1 CCTAAAC
*
25779787 TTCTAAAC
1 -CCTAAAC
25779795 CCTAAAC
1 CCTAAAC
*
25779802 CCAAAAC
1 CCTAAAC
*
25779809 ACC-AAAA
1 -CCTAAAC
* *
25779816 CCTACAT
1 CCTAAAC
*
25779823 CATAAAC
1 CCTAAAC
25779830 CCTAAAC
1 CCTAAAC
25779837 TCAAAACTCT
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
6 2 0.03
7 51 0.84
8 8 0.13
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:25780100 original size:16 final size:17
Alignment explanation
Indices: 25780081--25780115 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25780071 CAAATATGAC
25780081 AAACTA-AATATATAAT
1 AAACTACAATATATAAT
*
25780097 AAACTACATTATATAAT
1 AAACTACAATATATAAT
25780114 AA
1 AA
25780116 CCTAGCGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
AAACTACAATATATAAT
Found at i:25780445 original size:114 final size:114
Alignment explanation
Indices: 25780245--25780904 Score: 815
Period size: 114 Copynumber: 5.8 Consensus size: 114
25780235 GCGGCACTTG
* * * *
25780245 TATGCATTAGCAGCGTTTTCCCATAAGTGCCACTAATTCTAATGTACCTCAAGACCAAACTCTGC
1 TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
* * * *
25780310 ATTTTGGTTAAGATATTTTGCGACGC-TTCGAATGACGCGCCGCTAATAC
66 GTTTTGGTTAAGATATGTTGCGACGCTTTTG-ACGACGCGCCGCTAATAC
* **
25780359 TATGCATTAGCGGCGTTTTCGAATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
1 TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
*
25780424 GTTTTGGTTAAGATATGTTGCGACGCTTTTGACGACGCGCTGCTAATAC
66 GTTTTGGTTAAGATATGTTGCGACGCTTTTGACGACGCGCCGCTAATAC
* * * * *
25780473 TATGCTTTAGCGGTGTTTTCCAATAAACACCACTAATTCTAGTATACCTCAAGACCAAACTCTGC
1 TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
* * *
25780538 GTTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACACGCCACTAATAC
66 GTTTTGGTTAAGATATGTTGCGACGCTTTTGACGACGCGCCGCTAATAC
* * *
25780587 TATGCGTTAGCGGCGTTTTCCCATAAGCGCTACTAATTCTAATATACCTTAAGACCAAACTCTGC
1 TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
* * * * * * **
25780652 GTTTTGGTTAATATATTTTGAGGCGCTTTTCACAAATCGCCGCTAATAC
66 GTTTTGGTTAAGATATGTTGCGACGCTTTTGACGACGCGCCGCTAATAC
* ** * * *
25780701 T-TGCTTTAGCGGAGTTTTTTCATATGCGCCACTAATTCTAATATACATAAAGACCAAACTCTGC
1 TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
* * * * *
25780765 ATTTTGGTTAAGATATGTTGCGGCGCGTTTGGCGA-TCGCCGCTAATAC
66 GTTTTGGTTAAGATATGTTGCGACGCTTTTGACGACGCGCCGCTAATAC
* * * * * * *
25780813 T-TTCTTTAGCGGTGTTTTCCTATAATCGCCACTAATTCTAATATACATCTAGACCAAAACGCTG
1 TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACC-AAACTCTG
* *
25780877 CGTTTTGGTTAAGAGATTTTGCGACGCT
65 CGTTTTGGTTAAGATATGTTGCGACGCT
25780905 AATGATGTTC
Statistics
Matches: 477, Mismatches: 67, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
112 59 0.12
113 112 0.23
114 303 0.64
115 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (114 bp):
TATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGC
GTTTTGGTTAAGATATGTTGCGACGCTTTTGACGACGCGCCGCTAATAC
Found at i:25781003 original size:40 final size:40
Alignment explanation
Indices: 25780956--25781049 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
25780946 TATGTTTGAC
* *
25780956 TTTTAGCGGCGTTTTCTGAGGAT-CGCCGCTAATGCTAGAT
1 TTTTAGCGGCGTTTTATG-CGATGCGCCGCTAATGCTAGAT
** *
25780996 TTTTAGCGGCGTTTTATGCTTTGCGCCGCTAATGCTTGAT
1 TTTTAGCGGCGTTTTATGCGATGCGCCGCTAATGCTAGAT
25781036 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
25781050 GTCATCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTATGCGATGCGCCGCTAATGCTAGAT
Found at i:25781319 original size:5 final size:5
Alignment explanation
Indices: 25781309--25781339 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
25781299 AAACTAAGTG
25781309 AAATA AAATA AAATA AAATA AAAT- AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
25781340 GCATTTGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:25781329 original size:15 final size:14
Alignment explanation
Indices: 25781294--25781339 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
25781284 AATTGAAAAC
* *
25781294 AAAATAAACTAAGT
1 AAAATAAAATAAAT
*
25781308 GAAATAAAATAAAAT
1 AAAATAAAAT-AAAT
25781323 AAAATAAAATAAAT
1 AAAATAAAATAAAT
25781337 AAA
1 AAA
25781340 GCATTTGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:25781881 original size:31 final size:31
Alignment explanation
Indices: 25781845--25781905 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
25781835 GATTTCTATC
25781845 GGTAAGTGACATGCTTTACCAAAAACTAATT
1 GGTAAGTGACATGCTTTACCAAAAACTAATT
*
25781876 GGTAAGTTACATGCTTTACCAAAAACTAAT
1 GGTAAGTGACATGCTTTACCAAAAACTAAT
25781906 CAGTAAAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (31 bp):
GGTAAGTGACATGCTTTACCAAAAACTAATT
Found at i:25790544 original size:70 final size:70
Alignment explanation
Indices: 25790431--25790570 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
25790421 AAAACAAGGC
*
25790431 CGAACCAACTTGTTCTTTTTCTTTATTTTTCTTTTGTATTTTCGACAAAGATGATGAAATTTTTG
1 CGAACCAACTTGTTCTTTTTCTTTATTTTTCTTTTGTATTTTCGACAAAGATAATGAAATTTTTG
25790496 CATGT
66 CATGT
* * *
25790501 CGAACCAACTTGTTCTTTTTCTTTATTTTTCTTTTGTATTTTCGGCAAAGATAATGAACTTTTTT
1 CGAACCAACTTGTTCTTTTTCTTTATTTTTCTTTTGTATTTTCGACAAAGATAATGAAATTTTTG
25790566 CATGT
66 CATGT
25790571 TTTATGTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (70 bp):
CGAACCAACTTGTTCTTTTTCTTTATTTTTCTTTTGTATTTTCGACAAAGATAATGAAATTTTTG
CATGT
Found at i:25805754 original size:19 final size:19
Alignment explanation
Indices: 25805730--25805766 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25805720 GCATGACCTC
*
25805730 TATATGCCCCTGAACGATG
1 TATATGCACCTGAACGATG
*
25805749 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
25805767 AATATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:25807810 original size:18 final size:17
Alignment explanation
Indices: 25807784--25807818 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25807774 AATATTAAGA
*
25807784 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25807801 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25807819 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25807830 original size:120 final size:120
Alignment explanation
Indices: 25807677--25807960 Score: 437
Period size: 120 Copynumber: 2.4 Consensus size: 120
25807667 TAATTGAAAA
* * *
25807677 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* * *
25807741 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAAAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
25807796 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
25807861 TTATGATTTCAGTAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
*
25807916 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
25807961 ATGATTAAAT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 14 0.09
120 130 0.87
121 5 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:25807932 original size:18 final size:17
Alignment explanation
Indices: 25807904--25807938 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25807894 ATTATTAAGA
*
25807904 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25807921 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25807939 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.