Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold176
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: 918983
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.33
Warning! 19517 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:642995 original size:160 final size:160
Alignment explanation
Indices: 642808--643309 Score: 817
Period size: 160 Copynumber: 3.1 Consensus size: 160
642798 TGGAATGTAG
* * *
642808 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGAAGCACTTTAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTTAACATATCAATTA
* *
642873 ACAACATTTATACACATCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
* *
642938 TTTGCAGCACTTAAACACTTCAATTTACAG
131 TTTGCAGCACTTAAACACTTCAATTTATAA
* * *
642968 CACTTAAACACTTCAATTTATAGCATTTAAAAACTTAAATTTGCAGCAGTTTAAACATATC-ATT
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTT-AACATATCAATT
* * *
643032 AACAACATTTATACACCTCAATTACAACGATAAAACATCTTAATTTCCAGCAACTAAACAATTCA
65 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCA
643097 ATTTGCAGCACTTAAACACTTCAATTTATAA
130 ATTTGCAGCACTTAAACACTTCAATTTATAA
* * *
643128 TATTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTTAACATATCAATTA
*
643193 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
643258 TTTGCAGCACTTAAACACTTCAATTTATAA
131 TTTGCAGCACTTAAACACTTCAATTTATAA
* *
643288 TATTTAAACACTTCAATTTACA
1 CACTTAAACACTTCAATTTACA
643310 AACCCACCAT
Statistics
Matches: 317, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
159 8 0.03
160 301 0.95
161 8 0.03
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (160 bp):
CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTTAACATATCAATTA
ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
TTTGCAGCACTTAAACACTTCAATTTATAA
Found at i:643228 original size:137 final size:137
Alignment explanation
Indices: 642814--643310 Score: 367
Period size: 137 Copynumber: 3.6 Consensus size: 137
642804 GTAGCACTTT
* * *
642814 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGA-AGCACTTT-AACA-TATCAATTAACA
1 AACAATTCAATTTACAGCACTTAAACACTTCAATTT-ATAGCA-TTTAAACACT-TCAATTTACA
* * * * * * * * *
642876 ACATTTATACACATCAA-TTACAGCGA-TAAAACATC-TCAATTTCCAACAACT-AAACACTTCA
63 GCATTTAAACACTTAAATTTACAAC-ACTTAAACA-CATCAA-TTACAACGA-TAAAACACCTCA
*
642937 ATTTGCAGC-ACTTA
124 ATTTACAGCAAC-TA
* * * *
642951 AACACTTCAATTTACAGCACTTAAACACTTCAATTTATAGCATTTAAAAACTTAAATTTGCAGCA
1 AACAATTCAATTTACAGCACTTAAACACTTCAATTTATAGCATTTAAACACTTCAATTTACAGCA
* * * * * * * *
643016 GTTTAAACA--TATCATTAACAACATTTATACACCTCAATTACAACGATAAAACATCTTAATTTC
66 -TTTAAACACTTA-AATTTACAACACTTAAACACATCAATTACAACGATAAAACACCTCAATTTA
643079 CAGCAACTA
129 CAGCAACTA
* **
643088 AACAATTCAATTTGCAGCACTTAAACACTTCAATTTATAATATTTAAACACTTCAATTTACAGCA
1 AACAATTCAATTTACAGCACTTAAACACTTCAATTTATAGCATTTAAACACTTCAATTTACAGCA
* * * * *
643153 TTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAAC-ATTTATACACCTCAA-TTA
66 TTTAAACACTTAAATTTACAACACTTAAACACATCAATT-ACAACGA-TAAAACACCTCAATTTA
*
643216 CAGCGA-TA
129 CAGCAACTA
* * ** * *
643224 AA-ACATCTCAATTTCCAGCAAC-TAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTATA
1 AACA-AT-TCAATTTACAGC-ACTTAAACACTTCAATTTATAGCATTTAAACACTTCAATTTACA
** *
643287 ATATTTAAACACTTCAATTTACAA
63 GCATTTAAACACTTAAATTTACAA
643311 ACCCACCATC
Statistics
Matches: 290, Mismatches: 53, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
135 1 0.00
136 20 0.07
137 227 0.78
138 42 0.14
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.32
Consensus pattern (137 bp):
AACAATTCAATTTACAGCACTTAAACACTTCAATTTATAGCATTTAAACACTTCAATTTACAGCA
TTTAAACACTTAAATTTACAACACTTAAACACATCAATTACAACGATAAAACACCTCAATTTACA
GCAACTA
Found at i:643261 original size:91 final size:91
Alignment explanation
Indices: 643140--643305 Score: 226
Period size: 91 Copynumber: 1.8 Consensus size: 91
643130 TTTAAACACT
** *
643140 TCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTAT
1 TCAATTTACAGCAACTAAACACTTAAATTTGCAGCACTTAAACACT-TCAATTAACAACATTTAA
643204 ACACCTCAATTACAGCGATAAAACATC
65 ACACCTCAATTACAGCGATAAAACATC
* * * * * *
643231 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTATAATATTTAAA
1 TCAATTTACAGCAACTAAACACTTAAATTTGCAGCACTTAAACACTTCAATTAACAACATTTAAA
*
643296 CACTTCAATT
66 CACCTCAATT
643306 TACAAACCCA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
91 63 0.98
92 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.33
Consensus pattern (91 bp):
TCAATTTACAGCAACTAAACACTTAAATTTGCAGCACTTAAACACTTCAATTAACAACATTTAAA
CACCTCAATTACAGCGATAAAACATC
Found at i:647987 original size:41 final size:40
Alignment explanation
Indices: 647942--648185 Score: 276
Period size: 41 Copynumber: 6.0 Consensus size: 40
647932 TCAATTCGGG
*
647942 ATTAGCGGCGCTTTTTCAAAAGCAACACTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAAC-ACACTAAAGACCCGAGC
* * *
647983 ATTAGTGGTGCTTTTTCAAAAACGTCACTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAAC-ACACTAAAGACCCGAGC
*
648024 ATTAGCGGCGCTTTTTCAAAAATGC-CGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAA--CACACTAAAGACCCGAGC
* **
648065 ATTAGCGGTGCTTTTTCAAAAACAC-CGTGAAAGAATCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACACAC-T-AAAGACCCGAGC
* * *
648106 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGACC
1 ATTAGCGGCGCTTTTTCAAAAAC-ACACTAAAGACCCGAGC
* * *
648147 AATAGCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCCGA
1 ATTAGCGGCGCTTTTTCAAAAACACA-CTAAAGACCCGA
648186 AAGGTCAAAA
Statistics
Matches: 175, Mismatches: 20, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 166 0.95
42 2 0.01
43 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTTCAAAAACACACTAAAGACCCGAGC
Found at i:648079 original size:82 final size:80
Alignment explanation
Indices: 647942--648185 Score: 321
Period size: 82 Copynumber: 3.0 Consensus size: 80
647932 TCAATTCGGG
* *
647942 ATTAGCGGCGCTTTTTC-AAAAGCAACACTAAAGACCCGAGCATTAGTGGTGCTTTTTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAAGC--CGCTAAAGACCCGAGCATTAGCGGTGCTTTTTCAAAAAC
648006 GTCACTAAAGACCCGAGC
64 G-CACTAAAGACCCGAGC
*
648024 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCGAGCATTAGCGGTGCTTTTTCAAAAACA
1 ATTAGCGGCGCTTTTTCAAAAA-GCCGCTAAAGACCCGAGCATTAGCGGTGCTTTTTCAAAAACG
**
648089 C-CGTGAAAGAATCGAGC
65 CAC-T-AAAGACCCGAGC
* * *
648106 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGACCAATAGCGGCGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAA-GCCGCTAAAGACCCGAGCATTAGCGGTGCTTTTTCAAAAACG
*
648171 CAGCTAAAGCCCCGA
65 CA-CTAAAGACCCGA
648186 AAGGTCAAAA
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
80 1 0.01
81 2 0.01
82 132 0.92
83 5 0.03
84 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (80 bp):
ATTAGCGGCGCTTTTTCAAAAAGCCGCTAAAGACCCGAGCATTAGCGGTGCTTTTTCAAAAACGC
ACTAAAGACCCGAGC
Found at i:648161 original size:123 final size:123
Alignment explanation
Indices: 647942--648185 Score: 339
Period size: 123 Copynumber: 2.0 Consensus size: 123
647932 TCAATTCGGG
* * * *
647942 ATTAGCGGCGCTTTTTCAAAAGCAACACTAAAGACCCGAGCATTAGTGGTGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACAACACTAAAGAACCGAGCATTAGCGGCGCTTTTTCAAAAACG
* * * * *
648007 TCACTAAAGACCCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCGAGC
66 CCACTAAAGACCCGACCAATAGCGGCGCTTTTTCAAAAACGCAGCTAAAGACCCGAGC
* *
648065 ATTAGCGGTGCTTTTTCAAAAAC-AC-CGTGAAAGAATCGAGCATTAGCGGCGCTTTTTCAAAAA
1 ATTAGCGGCGCTTTTTCAAAAACAACAC-T-AAAGAACCGAGCATTAGCGGCGCTTTTTCAAAAA
* *
648128 CGCCGCTAAAGACCCGACCAATAGCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCCGA
64 CGCCACTAAAGACCCGACCAATAGCGGCGCTTTTTCAAAAACGCAGCTAAAGACCCGA
648186 AAGGTCAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
121 1 0.01
122 3 0.03
123 102 0.96
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (123 bp):
ATTAGCGGCGCTTTTTCAAAAACAACACTAAAGAACCGAGCATTAGCGGCGCTTTTTCAAAAACG
CCACTAAAGACCCGACCAATAGCGGCGCTTTTTCAAAAACGCAGCTAAAGACCCGAGC
Found at i:651969 original size:41 final size:41
Alignment explanation
Indices: 651912--652216 Score: 302
Period size: 41 Copynumber: 7.5 Consensus size: 41
651902 TGTAAACGGA
* *
651912 GGCACGTATGTGCAATTTAAGGGTACC-ACAGTACAAATAGG
1 GGCACGTAAGTGCAATTTAAGGGTACCGA-AGTACAAACAGG
*
651953 GGCACGCAAGTGCAATTT-AGGAGTACCGAAGTAC-AACA-G
1 GGCACGTAAGTGCAATTTAAGG-GTACCGAAGTACAAACAGG
* * * *
651992 GGCATGCAAGTGCAATTCAAGGGTACCGAAGTA-AAATAGG
1 GGCACGTAAGTGCAATTTAAGGGTACCGAAGTACAAACAGG
* * * *
652032 GGCACATAAGTGTAATTTACGGGTACCGTAGTACAAA-AGGG
1 GGCACGTAAGTGCAATTTAAGGGTACCGAAGTACAAACA-GG
* * * * *
652073 GGCACGTAACTGTAATTCT-AGGGTATCGAATTACAAACAGA
1 GGCACGTAAGTGCAATT-TAAGGGTACCGAAGTACAAACAGG
* * *
652114 GGCACATAAGTGCAATTTAGGGGTACCGAAGTACAAACATG
1 GGCACGTAAGTGCAATTTAAGGGTACCGAAGTACAAACAGG
* * * *
652155 GGCACGTAAATGCAATTCAGGGGTACCGAAGTAC-AATAGG
1 GGCACGTAAGTGCAATTTAAGGGTACCGAAGTACAAACAGG
*
652195 GGCACGTAAGTGCAATTCAAGG
1 GGCACGTAAGTGCAATTTAAGG
652217 TATAATTAAG
Statistics
Matches: 219, Mismatches: 35, Indels: 21
0.80 0.13 0.08
Matches are distributed among these distances:
39 31 0.14
40 62 0.28
41 123 0.56
42 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (41 bp):
GGCACGTAAGTGCAATTTAAGGGTACCGAAGTACAAACAGG
Found at i:664088 original size:48 final size:48
Alignment explanation
Indices: 664030--664121 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
664020 TAAAGTTTTA
* * *
664030 AAAACAAAAACAACAGCAGAAATGGAAACTTACCAACAACACATATCC
1 AAAACAAAAACAACAACAAAAATGGAAACTTACCAACAAAACATATCC
*
664078 AAAAGAAAAACAACAACAAAAATGGAAACTTACCAACAAAACAT
1 AAAACAAAAACAACAACAAAAATGGAAACTTACCAACAAAACAT
664122 CTCCGCTCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.10
Consensus pattern (48 bp):
AAAACAAAAACAACAACAAAAATGGAAACTTACCAACAAAACATATCC
Found at i:675513 original size:25 final size:26
Alignment explanation
Indices: 675464--675530 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
675454 AATCTACCTT
*
675464 ATCTGGTGGTTTGAACCACGTATATCTG
1 ATCTGGTGGCTTG-ACCACG-ATATCTG
*
675492 TTCTGGTGGCTTGACCAC-ATATCTG
1 ATCTGGTGGCTTGACCACGATATCTG
* *
675517 ATCTAGTAGCTTGA
1 ATCTGGTGGCTTGA
675531 TTGTATTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 18 0.53
27 5 0.15
28 11 0.32
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (26 bp):
ATCTGGTGGCTTGACCACGATATCTG
Found at i:684251 original size:17 final size:16
Alignment explanation
Indices: 684220--684253 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
684210 AAATATTGTG
684220 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
684236 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
684253 A
1 A
684254 CACCATCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:696570 original size:26 final size:26
Alignment explanation
Indices: 696531--696633 Score: 107
Period size: 26 Copynumber: 4.0 Consensus size: 26
696521 CAACTAATAT
* * *
696531 CGCAACAAAACTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
696557 CGTAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * * * *
696583 TGCAACAGAGCTGCCAGTATCAATAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
696609 CGCAGTAAAGCTGCCAATAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
696634 TTTGTGGCAA
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:696610 original size:52 final size:52
Alignment explanation
Indices: 696532--696633 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
696522 AACTAATATC
* * *
696532 GCAACAAAACTGCCAGTAATAGTAACGTAGCAAAGCTGCCAGTAACAGTAAT
1 GCAACAAAACTGCCAGTAATAATAACGCAGCAAAGCTGCCAATAACAGTAAT
* * *
696584 GCAACAGAGCTGCCAGT-ATCAATAACGCAGTAAAGCTGCCAATAACAGTA
1 GCAACAAAACTGCCAGTAAT-AATAACGCAGCAAAGCTGCCAATAACAGTA
696634 TTTGTGGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (52 bp):
GCAACAAAACTGCCAGTAATAATAACGCAGCAAAGCTGCCAATAACAGTAAT
Found at i:696876 original size:27 final size:27
Alignment explanation
Indices: 696843--697114 Score: 267
Period size: 27 Copynumber: 10.1 Consensus size: 27
696833 TACACTATAG
*
696843 GGGTATTTCT-ATAATTTTACCCATCAA
1 GGGTATTT-TGATAATTTTACCCATCGA
* * *
696870 GGTTATTTTAATAATTTTAACCATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* * *
696897 GGGTATTTTGGTCATTTTACCCATCAA
1 GGGTATTTTGATAATTTTACCCATCGA
* * *
696924 GGGTATTTTGGTAATTTTACCAATCGG
1 GGGTATTTTGATAATTTTACCCATCGA
* *
696951 GGGTATTTCGATAATTTTACCTATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* *
696978 GGGTATTTTGGTAATTTTACCTATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
** * * *
697005 TAGTATTTCGGTAGTTTTACCCATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* * * *
697032 GGGTGTTTTGTTCATTTTACCTATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* * *
697059 TGGTAGTTTGGTAATTTTACCCATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* * *
697086 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTTGATAATTTTACCCATCGA
697113 GG
1 GG
697115 CTAATTTAGT
Statistics
Matches: 202, Mismatches: 42, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 1 0.00
27 201 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACCCATCGA
Found at i:696914 original size:54 final size:54
Alignment explanation
Indices: 696829--697114 Score: 310
Period size: 54 Copynumber: 5.3 Consensus size: 54
696819 TATAACAGTC
* ** * * **
696829 ATTTTACACTATAG-GGGTATTTCTATAATTTTACCCATCAAGGTTATTTTAATA
1 ATTTTAC-CTATCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTA
* * *
696883 ATTTTAACC-ATCGAGGGTATTTTGGTCATTTTACCCATCAAGGGTATTTTGGTA
1 ATTTT-ACCTATCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTA
* * * *
696937 ATTTTACCAATCGGGGGTATTTCGATAATTTTACCTATCGAGGGTATTTTGGTA
1 ATTTTACCTATCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTA
** * * * *
696991 ATTTTACCTATCGATAGTATTTCGGTAGTTTTACCCATCGAGGGTGTTTTGTTC
1 ATTTTACCTATCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTA
* *
697045 ATTTTACCTATCGATGGTAGTTT-GGTAATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCTATCGAGGGTA-TTTCGGTAATTTTACCCATCGAGGGTATTTTGGTA
697099 ATTTTACCCT-TCGAGG
1 ATTTTA-CCTATCGAGG
697115 CTAATTTAGT
Statistics
Matches: 196, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 6 0.03
54 182 0.93
55 8 0.04
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (54 bp):
ATTTTACCTATCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTA
Found at i:696958 original size:81 final size:81
Alignment explanation
Indices: 696843--697114 Score: 339
Period size: 81 Copynumber: 3.4 Consensus size: 81
696833 TACACTATAG
** * * *
696843 GGGTATTTCTATAATTTTACCCATCAAGGTTATTTTAATAATTTTAACC-ATCGAGGGTATTTTG
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGATAATTTT-ACCTATCGAGGGTATTTTG
* *
696907 GTCATTTTACCCATCAA
65 GTAATTTTACCCATCGA
* * * *
696924 GGGTATTTTGGTAATTTTACCAATCGGGGGTATTTCGATAATTTTACCTATCGAGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGATAATTTTACCTATCGAGGGTATTTTGG
*
696989 TAATTTTACCTATCGA
66 TAATTTTACCCATCGA
** * * * * * *
697005 TAGTATTTCGGTAGTTTTACCCATCGAGGGTGTTTTGTTCATTTTACCTATCGATGGTAGTTTGG
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGATAATTTTACCTATCGAGGGTATTTTGG
697070 TAATTTTACCCATCGA
66 TAATTTTACCCATCGA
*
697086 GGGTATTTCGGTAATTTTACCCTTCGAGG
1 GGGTATTTCGGTAATTTTACCCATCGAGG
697115 CTAATTTAGT
Statistics
Matches: 161, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 3 0.02
81 158 0.98
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGATAATTTTACCTATCGAGGGTATTTTGG
TAATTTTACCCATCGA
Found at i:697143 original size:53 final size:54
Alignment explanation
Indices: 697072--697209 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 54
697062 TAGTTTGGTA
* * * * *
697072 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCTTC-GAGGCTAATTTAGT-
1 ATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGAGG-TAATTCAGTC
* * *
697125 TTTTTATCCTTCGGGGGTAATTCGATCATTTTACCCTTCGGAGGTAATTCAGTC
1 ATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGAGGTAATTCAGTC
**
697179 ATTTTACCCTTTTGGGGTAATTCGGTCATTT
1 ATTTTACCCTTCGGGGGTAATTCGGTCATTT
697210 GTGGCCCATT
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
53 40 0.57
54 30 0.43
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGAGGTAATTCAGTC
Found at i:697163 original size:27 final size:27
Alignment explanation
Indices: 697072--697209 Score: 111
Period size: 27 Copynumber: 5.1 Consensus size: 27
697062 TAGTTTGGTA
* * * * *
697072 ATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGGGGGTAATTCGATC
* * *
697099 ATTTTACCCTTCGAGGCTAATT-TAGT-
1 ATTTTACCCTTCGGGGGTAATTCGA-TC
* *
697125 TTTTTATCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGGGGGTAATTCGATC
*
697152 ATTTTACCCTTCGGAGGTAATTC-AGTC
1 ATTTTACCCTTCGGGGGTAATTCGA-TC
** *
697179 ATTTTACCCTTTTGGGGTAATTCGGTC
1 ATTTTACCCTTCGGGGGTAATTCGATC
697206 ATTT
1 ATTT
697210 GTGGCCCATT
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
26 20 0.22
27 69 0.78
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTAATTCGATC
Found at i:709055 original size:50 final size:50
Alignment explanation
Indices: 708936--709176 Score: 320
Period size: 50 Copynumber: 4.8 Consensus size: 50
708926 GATAATAACA
* * ** * *
708936 TGCCAAAGCCATGTCCCAGACATGGTCTTACATCGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCAG
* * **
708987 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * *
709037 TGCCTACGCCATGACCCAGACATGGTCTTACATGGGAACTCTCATCGCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
709087 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGAACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
709137 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT
709177 TTTTTCCCAA
Statistics
Matches: 165, Mismatches: 25, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 133 0.81
51 32 0.19
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:711303 original size:27 final size:27
Alignment explanation
Indices: 711262--711645 Score: 328
Period size: 27 Copynumber: 14.2 Consensus size: 27
711252 GGCTTGGGCT
* *
711262 GTAAAATTACCGAAATACTCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
711289 GTAAAATTATAGAAATACCCCCAAAT-G
1 GTAAAATTATCGAAATACCCTC-GATGG
* ** * *
711316 GTAAAATTACCGAAATATACTCGACGA
1 GTAAAATTATCGAAATACCCTCGATGG
* * * *
711343 GTAAATTTACCGAAATACCCTCGACGA
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
711370 GTAAATTTACCAAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
711397 GTAAATTTATCGAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
711424 GTAAAATTATCGAAATACCCCTAGA-GG
1 GTAAAATTATCGAAATA-CCCTCGATGG
* * *
711451 GTAAAATTACCGAAATACCCTCTATAG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
711478 GTAAATTTA-CTAAAATACCCTCGATAG
1 GTAAAATTATC-GAAATACCCTCGATGG
* * *
711505 GTACAATTATTGAAATACCCTCAATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * * *
711532 GTAAATTTACCGAAATACCGT-TATTGG
1 GTAAAATTATCGAAATACCCTCGA-TGG
* * *
711559 GAAAAATTA-CTAAAATACCCCCGATGG
1 GTAAAATTATC-GAAATACCCTCGATGG
*
711586 GTAAAATTATCGAAATACCCCCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
711613 GTAAAATTACCGTAATACCCTCGTTAGG
1 GTAAAATTATCGAAATACCCTCGAT-GG
711641 GTAAA
1 GTAAA
711646 TGACTGCTAG
Statistics
Matches: 292, Mismatches: 54, Indels: 21
0.80 0.15 0.06
Matches are distributed among these distances:
26 9 0.03
27 266 0.91
28 17 0.06
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATGG
Found at i:711812 original size:27 final size:27
Alignment explanation
Indices: 711770--711823 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
711760 GAAGTCCTAA
711770 TACTAGTGGCTCTGCCACA-ACTACTGT
1 TACTAGTGGCTCTGCCACATA-TACTGT
* *
711797 TACTCGTGGCTTTGCCACATATACTGT
1 TACTAGTGGCTCTGCCACATATACTGT
711824 ACTGCAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (27 bp):
TACTAGTGGCTCTGCCACATATACTGT
Found at i:723186 original size:10 final size:10
Alignment explanation
Indices: 723173--723197 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
723163 AATAGAAGAA
723173 AAATACAAAT
1 AAATACAAAT
723183 AAATACAAAT
1 AAATACAAAT
723193 AAATA
1 AAATA
723198 TTTTAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATACAAAT
Found at i:731363 original size:27 final size:27
Alignment explanation
Indices: 731333--731393 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
731323 TCAATTCCTA
731333 GGGGTATAACAGTCAATTTACCCTATG
1 GGGGTATAACAGTCAATTTACCCTATG
**** *
731360 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATAACAGTCAATTTACCCTATG
*
731387 AGGGTAT
1 GGGGTAT
731394 TTCGGTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (27 bp):
GGGGTATAACAGTCAATTTACCCTATG
Found at i:731394 original size:27 final size:27
Alignment explanation
Indices: 731344--731407 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
731334 GGGTATAACA
* * *
731344 GTCAATTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
731371 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
731398 GTAATTTTAC
1 GTCATTTTAC
731408 TCTTCGAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:736410 original size:19 final size:18
Alignment explanation
Indices: 736364--736414 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
736354 TCTTTACATA
736364 TTTATTTCTTGTTTTCAAT
1 TTTATTT-TTGTTTTCAAT
* *
736383 TTTAGTTTTAGTTTTCATT
1 TTTA-TTTTTGTTTTCAAT
736402 TTTATTTTT-TTTT
1 TTTATTTTTGTTTT
736415 TGTTTGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 17 0.61
20 3 0.11
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTATTTTTGTTTTCAAT
Found at i:737666 original size:18 final size:18
Alignment explanation
Indices: 737636--737678 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
737626 ATTTTAAGTC
*
737636 ATTTGTTTATTTTTC-TT
1 ATTTATTTATTTTTCGTT
737653 ATTTATTTATTTTTCGTT
1 ATTTATTTATTTTTCGTT
737671 ATTTATTT
1 ATTTATTT
737679 TTATGTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTATTTATTTTTCGTT
Found at i:742645 original size:86 final size:86
Alignment explanation
Indices: 742543--742837 Score: 430
Period size: 86 Copynumber: 3.4 Consensus size: 86
742533 TTTTAGAAAT
* * * *
742543 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAAAAACGCTGCTATAGATCAGGAG
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGATCAGGAC
* *
742608 CTTTAGCGGTGCTTTTTCCAC
66 CTTTAGCGGCGCTTTTCCCAC
* * *
742629 AAACGCCGCTATAGATCAAGAGCTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGATCAGGAC
742694 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTTTTCCCAC
* * *
742715 AAACGCCGCTATAGATCAAGACCTTTAGCAGCGCTTTTCCCAAAAATGCCACTATA-ACTTAGGA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGA-TCAGGA
*
742779 CCTTTAGCGGCGCTTTTCCCAA
65 CCTTTAGCGGCGCTTTTCCCAC
* * *
742801 AAACACCGCTATAGCTCAAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT
742838 GATTACAAAC
Statistics
Matches: 188, Mismatches: 20, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
85 1 0.01
86 187 0.99
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGATCAGGAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:742854 original size:43 final size:43
Alignment explanation
Indices: 742543--742837 Score: 385
Period size: 43 Copynumber: 6.9 Consensus size: 43
742533 TTTTAGAAAT
* *
742543 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
742586 AAACGCTGCTATAGATCAGGAGCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
742629 AAACGCCGCTATAGATCAAGAGCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
742672 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
742715 AAACGCCGCTATAGATCAAGACCTTTAGCAGCGCTTTTCCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
742758 AAATGCCACTATA-ACTTAGGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTATAGA-TCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
742801 AAACACCGCTATAGCTCAAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT
742838 GATTACAAAC
Statistics
Matches: 221, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.00
43 220 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:742870 original size:86 final size:84
Alignment explanation
Indices: 742543--742876 Score: 289
Period size: 86 Copynumber: 3.9 Consensus size: 84
742533 TTTTAGAAAT
* * * * * * * *
742543 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAAAAACGCTGCTATAGAT-CAGGA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTT--TACAAATGCCGCTAAAAATAC-GGA
* * *
742607 GCTTTAGCGGTGCTTTTTCCAC
63 CCTTTAGCGGCGCTTTTCCCAC
* * * *
742629 AAACGCCGCTATAGATCAAGAGCTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGAT-CAGGA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTT--ACAAATGCCGCTAAAAATAC-GGA
742693 CCTTTAGCGGCGCTTTTCCCAC
63 CCTTTAGCGGCGCTTTTCCCAC
* * * **
742715 AAACGCCGCTATAGATCAAGACCTTTAGC-AGCGCTTTTCCCAAAAATGCCACTATAACTTA-GG
1 AAACGCCGCTATAGATCAAGACCTTTAGCGA-CGCTTTT--TACAAATGCCGCTA-AAAATACGG
*
742778 ACCTTTAGCGGCGCTTTTCCCAA
62 ACCTTTAGCGGCGCTTTTCCCAC
* * * * **
742801 AAACACCGCTATAGCTCAAGACCTTTAGCGACGCTTTGATTACAAACGCCGCTAAAAATACCGTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTT--TTACAAATGCCGCTAAAAATACGGAC
742866 CTTTAGCGGCG
64 CTTTAGCGGCG
742877 TTTATGGAAA
Statistics
Matches: 208, Mismatches: 29, Indels: 22
0.80 0.11 0.08
Matches are distributed among these distances:
85 4 0.02
86 200 0.96
87 3 0.01
88 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (84 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTACAAATGCCGCTAAAAATACGGACCT
TTAGCGGCGCTTTTCCCAC
Found at i:744555 original size:41 final size:41
Alignment explanation
Indices: 744488--744804 Score: 390
Period size: 41 Copynumber: 7.8 Consensus size: 41
744478 GAGTTTTCGA
*
744488 GGCTTTAGCGGCGTTTCTG-AGAAAGCGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAG-AAGCGCCGCTAATGCTCTG
*
744529 GGCTTTAGGGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
* *
744570 GGCTTTAGGGGCGTTTTTGAAGAAGCGCCACTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
* * * *
744611 TGCTTTAGCGACGTTTCTGAA-AAGGCGCTGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAGAA-GCGCCGCTAATGCTCTG
*
744652 GGCTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
* * * *
744693 GGCTTTAGCAGCGTTTTTTAAAAAGCGCTGCTAATGCTC-G
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
* * * *
744733 AGTCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTATTGCTCT-
1 -GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
*** *
744774 ATTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
744805 AAAAAATATT
Statistics
Matches: 243, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
40 31 0.13
41 208 0.86
42 4 0.02
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
Found at i:746153 original size:15 final size:14
Alignment explanation
Indices: 746127--746180 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
746117 ATTAATTATC
746127 ATTATAGTTTAGGG
1 ATTATAGTTTAGGG
746141 ATTATAGGTTTAGGG
1 ATTATA-GTTTAGGG
* *
746156 ATTATTGTTTATGG
1 ATTATAGTTTAGGG
* *
746170 TTTACAGTTTA
1 ATTATAGTTTA
746181 AGGGTTAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (14 bp):
ATTATAGTTTAGGG
Found at i:746192 original size:21 final size:22
Alignment explanation
Indices: 746162--746238 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
746152 AGGGATTATT
*
746162 GTTTATGGTTTACA-GTTTAAGG
1 GTTTAGGGTTTA-AGGTTTAAGG
*
746184 G-TTAGGGTTTAAGGTTTAGGG
1 GTTTAGGGTTTAAGGTTTAAGG
* *
746205 GTTTAGGATTT-AGTGGTT-AGTG
1 GTTTAGGGTTTAAG-GTTTAAG-G
746227 GTTTAGGGTTTA
1 GTTTAGGGTTTA
746239 TATTTCACGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 20 0.45
22 23 0.52
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.44
Consensus pattern (22 bp):
GTTTAGGGTTTAAGGTTTAAGG
Found at i:746193 original size:14 final size:15
Alignment explanation
Indices: 746176--746209 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
746166 ATGGTTTACA
746176 GTTTAAGGGTTA-GG
1 GTTTAAGGGTTAGGG
*
746190 GTTTAAGGTTTAGGG
1 GTTTAAGGGTTAGGG
746205 GTTTA
1 GTTTA
746210 GGATTTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:746208 original size:15 final size:15
Alignment explanation
Indices: 746176--746222 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
746166 ATGGTTTACA
*
746176 GTTTAAGGGTTA-GG
1 GTTTAAGGTTTAGGG
746190 GTTTAAGGTTTAGGG
1 GTTTAAGGTTTAGGG
*
746205 GTTT-AGGATTTAGTG
1 GTTTAAGG-TTTAGGG
746220 GTT
1 GTT
746223 AGTGGTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (15 bp):
GTTTAAGGTTTAGGG
Found at i:746533 original size:21 final size:22
Alignment explanation
Indices: 746509--746549 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
746499 GCCTTGTTTT
746509 CCTAA-ATTTCCCCCTAAAACC
1 CCTAATATTTCCCCCTAAAACC
* *
746530 CCTAATTTTTCCCTCTAAAA
1 CCTAATATTTCCCCCTAAAA
746550 TGGGTATCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (22 bp):
CCTAATATTTCCCCCTAAAACC
Found at i:746682 original size:24 final size:24
Alignment explanation
Indices: 746655--746703 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
746645 TCTCAACCAC
746655 CGTCTTTGTTTTTCTCTCGTTTAT
1 CGTCTTTGTTTTTCTCTCGTTTAT
746679 CGTCTTTGTTTTTCTCTCGTTTAT
1 CGTCTTTGTTTTTCTCTCGTTTAT
746703 C
1 C
746704 CGGTCGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.04, C:0.22, G:0.12, T:0.61
Consensus pattern (24 bp):
CGTCTTTGTTTTTCTCTCGTTTAT
Found at i:751150 original size:43 final size:43
Alignment explanation
Indices: 751047--751273 Score: 271
Period size: 43 Copynumber: 5.3 Consensus size: 43
751037 AAGATATATT
* *
751047 TTTAGCGGCGTTTGTGTGAAAATCGTCGCTAAAGGTCTAT--T-
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTC-ATGGTC
* *
751088 TTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAGCCATGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
* * * * *
751132 TTTAGCGGCGTTTCTGGGAGAAGCGTCGTTAAAGGTCATGATA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
* * *
751175 TTTAGCGGCGTTTGTGGTAAAAGCATCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
* * *
751218 TTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
*
751261 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
751274 ATTTTAAAAA
Statistics
Matches: 159, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 4 0.03
42 31 0.19
43 122 0.77
44 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
Found at i:751348 original size:22 final size:22
Alignment explanation
Indices: 751318--751360 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
751308 TAGCAGCGCT
* * *
751318 AAAATGCGCCGTTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
751340 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
751361 GTTTAGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.14
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:754173 original size:22 final size:24
Alignment explanation
Indices: 754136--754179 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
754126 AATAACTTAG
754136 GGAAATTTAGGGGAAACGAAGTTA
1 GGAAATTTAGGGGAAACGAAGTTA
*
754160 GGAAA-TT-GGGGAAATGAAGT
1 GGAAATTTAGGGGAAACGAAGT
754180 CGGGGAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.36, T:0.20
Consensus pattern (24 bp):
GGAAATTTAGGGGAAACGAAGTTA
Found at i:754839 original size:14 final size:14
Alignment explanation
Indices: 754801--754883 Score: 55
Period size: 14 Copynumber: 5.9 Consensus size: 14
754791 TCCAAAGAAC
*
754801 AAACT-TAAACACT
1 AAACTCTAAACCCT
*
754814 AAATTCTAAACCCT
1 AAACTCTAAACCCT
*
754828 AAACTCTTAACCCCT
1 AAACTC-TAAACCCT
*
754843 -ATCTTCTAAACCCT
1 AAAC-TCTAAACCCT
* *
754857 AAA-TCATAAAACAT
1 AAACTC-TAAACCCT
*
754871 AAACCCTAAACCC
1 AAACTCTAAACCC
754884 CTAACCCCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
13 6 0.12
14 35 0.67
15 11 0.21
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACTCTAAACCCT
Found at i:755021 original size:21 final size:21
Alignment explanation
Indices: 754997--755056 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
754987 CCTTAAGTCA
*
754997 CTAACTCTTAACCCCTAACCC
1 CTAACTCCTAACCCCTAACCC
* *
755018 CTAACCCCTAACCCCTAACCT
1 CTAACTCCTAACCCCTAACCC
* *
755039 CTAACTACTAAGCCCTAA
1 CTAACTCCTAACCCCTAA
755057 ACCTTATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.45, G:0.02, T:0.22
Consensus pattern (21 bp):
CTAACTCCTAACCCCTAACCC
Found at i:755049 original size:14 final size:14
Alignment explanation
Indices: 755005--755056 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
754995 CACTAACTCT
*
755005 TAACCCCTAACCCC
1 TAACCCCTAACCAC
*
755019 TAACCCCTAACCCC
1 TAACCCCTAACCAC
* *
755033 TAACCTCTAACTAC
1 TAACCCCTAACCAC
*
755047 TAAGCCCTAA
1 TAACCCCTAA
755057 ACCTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.19
Consensus pattern (14 bp):
TAACCCCTAACCAC
Found at i:755056 original size:7 final size:7
Alignment explanation
Indices: 755005--755043 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
754995 CACTAACTCT
755005 TAACCCC
1 TAACCCC
755012 TAACCCC
1 TAACCCC
755019 TAACCCC
1 TAACCCC
755026 TAACCCC
1 TAACCCC
*
755033 TAACCTC
1 TAACCCC
755040 TAAC
1 TAAC
755044 TACTAAGCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:755212 original size:86 final size:89
Alignment explanation
Indices: 755009--755200 Score: 257
Period size: 89 Copynumber: 2.2 Consensus size: 89
754999 AACTCTTAAC
* * ** *
755009 CCCTAACCCCTAACCCCTAACCCCTAA-CCTCTAACTACTAAGCCCTAAACCTTATTTAATATAT
1 CCCTAAACCCTAA-CCCTAA-CCCAAATCC-CTAACCCCTAACCCCTAAACCTTATTTAATATAT
755073 ACATTAAAAAACACTAATTAATCTAAA
63 ACATTAAAAAACACTAATTAATCTAAA
* *
755100 CGCTAAACCCTAACCCTAACCCAAATCCCTAACCCCTAACCCCTAAACTTTATTTAATATA-A-A
1 CCCTAAACCCTAACCCTAACCCAAATCCCTAACCCCTAACCCCTAAACCTTATTTAATATATACA
*
755163 TTAAAATA-ACTAATTAATCTAAA
66 TTAAAAAACACTAATTAATCTAAA
755186 CCCTAAACCCTAACC
1 CCCTAAACCCTAACC
755201 TGACATTAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
86 29 0.32
87 8 0.09
88 1 0.01
89 34 0.37
90 8 0.09
91 11 0.12
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.26
Consensus pattern (89 bp):
CCCTAAACCCTAACCCTAACCCAAATCCCTAACCCCTAACCCCTAAACCTTATTTAATATATACA
TTAAAAAACACTAATTAATCTAAA
Found at i:755375 original size:14 final size:14
Alignment explanation
Indices: 755356--755389 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
755346 CTAAATTAAT
755356 CATATACCCCAAAC
1 CATATACCCCAAAC
*
755370 CATATACCCTAAAC
1 CATATACCCCAAAC
755384 CATATA
1 CATATA
755390 AATTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (14 bp):
CATATACCCCAAAC
Found at i:755734 original size:41 final size:41
Alignment explanation
Indices: 755658--756058 Score: 384
Period size: 41 Copynumber: 9.8 Consensus size: 41
755648 AATTTTTTTT
755658 GCGGCGCCTT-TTCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCG-CTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * ** *
755699 ACGACGATTATTGGAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
755740 GTGGCGCTTTTTCAAAAACGCCGCTAAATCCCTTAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
755781 GCGGCGCTTTTTCAAAAACACCGCTAAA-TCCTCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGCCCT-GAGCATTA
755822 GCGGCGCTT-TTCCAAAAACGCCGCTAAAGCCCCT-AGCATTA
1 GCGGCGCTTATT-CAAAAACGCCGCTAAAG-CCCTGAGCATTA
* ** * * *
755863 GCGG-GTCATATTGGAAAACTCTGCTAAAGCCCCGAGCATTA
1 GCGGCG-CTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * ** * * *
755904 GTGGCACTTATTGGAAAACACCACTAAAGCTCTGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
755945 GCGGCGCTTTTTAAAAAACGCCGCTAAATGCCC-GAACATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAA-GCCCTGAGCATTA
* * * * *
755986 GTGGCGCTTTTTAAAAAACGCCGCTTAAGCCCCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
756027 GCGGCGCTT-TTCCAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTATT-CAAAAACGCCGCTAAAGCCC
756059 CAAAAGATCA
Statistics
Matches: 297, Mismatches: 51, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
40 17 0.06
41 272 0.92
42 5 0.02
43 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTATTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:755752 original size:82 final size:81
Alignment explanation
Indices: 755660--756058 Score: 426
Period size: 82 Copynumber: 4.9 Consensus size: 81
755650 TTTTTTTTGC
* * * * *
755660 GGCGCCTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAACGACGATTATTGGAAAACGCCGCTA
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTGAAAAACGCCGCTA
*
755725 AAGCTCTGAGCATTAGT
66 AAGC-CCGAGCATTAGT
* * * * *
755742 GGCGCTTTTTCAAAAACGCCGCTAAATCCCTTAGCATTAGCGGCGCTTTTTCAAAAACACCGCTA
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTGAAAAACGCCGCTA
* *
755807 AATCCTCGAGCATTAGC
66 AAGCC-CGAGCATTAGT
* * * * *
755824 GGCGCTTTTCCAAAAACGCCGCTAAAGCCCCT-AGCATTAGCGG-GTCATATTGGAAAACTCTGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAG-CCCTGAGCATTAGCGGCG-CTTATTGAAAAACGCCGC
755887 TAAAGCCCCGAGCATTAGT
64 TAAAG-CCCGAGCATTAGT
* * ** * * * * *
755906 GGCACTTATTGGAAAACACCACTAAAGCTCTGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTA
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTGAAAAACGCCGCTA
*
755971 AATGCCCGAACATTAGT
66 AA-GCCCGAGCATTAGT
* * * *
755988 GGCGCTTTTTAAAAAACGCCGCTTAAGCCCCGAGCATTAGCGGCGCTT-TTCCAAAAACGCCGCT
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATT-GAAAAACGCCGCT
756052 AAAGCCC
65 AAAGCCC
756059 CAAAAGATCA
Statistics
Matches: 261, Mismatches: 48, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
81 11 0.04
82 242 0.93
83 8 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (81 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTGAAAAACGCCGCTA
AAGCCCGAGCATTAGT
Found at i:759471 original size:11 final size:11
Alignment explanation
Indices: 759455--759481 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
759445 TGTAAACACA
759455 TAAAATAATTT
1 TAAAATAATTT
759466 TAAAATAATTT
1 TAAAATAATTT
759477 TAAAA
1 TAAAA
759482 CTTTGAATTT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAATAATTT
Found at i:761637 original size:6 final size:7
Alignment explanation
Indices: 761622--761647 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
761612 CAAAAAATTT
761622 AAATTAA
1 AAATTAA
761629 AAATTAA
1 AAATTAA
761636 AAATTAA
1 AAATTAA
761643 AAATT
1 AAATT
761648 GAATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:761656 original size:13 final size:13
Alignment explanation
Indices: 761614--761647 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
761604 AAATGCCTCA
*
761614 AAAAATTTAAATT
1 AAAAATTAAAATT
761627 AAAAATTAAAAATT
1 AAAAATT-AAAATT
761641 AAAAATT
1 AAAAATT
761648 GAATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:763419 original size:21 final size:20
Alignment explanation
Indices: 763378--763421 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
763368 ACCCCTGCAG
*
763378 TTTTGAAAATTTGCAATGTT
1 TTTTGAAAATTTACAATGTT
763398 TTTTGAAAAATTCTACAA-GTT
1 TTTTG-AAAATT-TACAATGTT
763419 TTT
1 TTT
763422 GATTTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 12 0.57
22 4 0.19
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTTGAAAATTTACAATGTT
Found at i:767371 original size:90 final size:90
Alignment explanation
Indices: 767201--767375 Score: 246
Period size: 89 Copynumber: 2.0 Consensus size: 90
767191 AGATGGCCGG
* * * * *
767201 CACCAGGTACAATTTTCTGTTCCCAAGGCACATTTTTTTTTACTTTGGGACACTGATGGCTGGCA
1 CACCAAGTACAATTTTCGGTTCCCAAGGCACATTTTTTATTACTTTGGAACACTAATGGCTGGCA
*
767266 CCAGTGTATTTAAAAAAAATTGGGA
66 ACAGTGTATTTAAAAAAAATTGGGA
* * *
767291 CACCAAGTACAATTTTCGGTTCCCAATGCATA-TTTTTATTATTTTGGAACACTAATGG-TCGGC
1 CACCAAGTACAATTTTCGGTTCCCAAGGCACATTTTTTATTACTTTGGAACACTAATGGCT-GGC
767354 AACAGTGTATTTAAAAAAAATT
65 AACAGTGTATTTAAAAAAAATT
767376 TTGGGTGCTG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 46 0.61
90 28 0.37
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (90 bp):
CACCAAGTACAATTTTCGGTTCCCAAGGCACATTTTTTATTACTTTGGAACACTAATGGCTGGCA
ACAGTGTATTTAAAAAAAATTGGGA
Found at i:768015 original size:22 final size:22
Alignment explanation
Indices: 767987--768029 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
767977 GAAACTACTA
767987 TTTAGAATAATTGTATTTTTTC
1 TTTAGAATAATTGTATTTTTTC
**
768009 TTTAGAATGTTTGTATTTTTT
1 TTTAGAATAATTGTATTTTTT
768030 TATATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTAGAATAATTGTATTTTTTC
Found at i:768462 original size:20 final size:20
Alignment explanation
Indices: 768424--768460 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
768414 TTAAAAAGAG
768424 AATAATTACAAAATAAAATA
1 AATAATTACAAAATAAAATA
*
768444 AATATTTAC-AAATAAAA
1 AATAATTACAAAATAAAA
768461 ATCAAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAATTACAAAATAAAATA
Found at i:770739 original size:15 final size:15
Alignment explanation
Indices: 770721--770752 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
770711 GTAAAAGCTG
770721 AAAACAATTAAATAA
1 AAAACAATTAAATAA
*
770736 AAAACAGTTAAATAA
1 AAAACAATTAAATAA
770751 AA
1 AA
770753 CAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAACAATTAAATAA
Found at i:772841 original size:6 final size:6
Alignment explanation
Indices: 772809--772860 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
772799 GTCTACATGC
772809 AAAAT- AAAAT- AAAATA GAAGGAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA -AA--AATA AAAATA AAAATA AAAATA AAAATA
772858 AAA
1 AAA
772861 TGTGTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.23
6 25 0.58
7 2 0.05
8 2 0.05
9 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:778862 original size:13 final size:14
Alignment explanation
Indices: 778844--778875 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
778834 AAGTAAAAGC
778844 TAAAAATAATTAAA
1 TAAAAATAATTAAA
*
778858 TAAAAATATTTAAA
1 TAAAAATAATTAAA
778872 TAAA
1 TAAA
778876 TCTGAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATAATTAAA
Found at i:781879 original size:6 final size:6
Alignment explanation
Indices: 781858--781942 Score: 90
Period size: 6 Copynumber: 14.8 Consensus size: 6
781848 TTTTTTTTTT
781858 CATTT- CATTT- CATTTC CATTTC CATTTC CAATTT- CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC C-ATTTC CATTTC CATTTC
* * **
781904 CATTTA CATTTC CAATT- CATTAA CATTTC CATTT- CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
781943 AAATTATATT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
5 22 0.32
6 43 0.62
7 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:781891 original size:29 final size:28
Alignment explanation
Indices: 781859--781942 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 28
781849 TTTTTTTTTC
781859 ATTTCATTTCATTTCCATTTCCATTTCCA
1 ATTTCATTTCATTTCCATTT-CATTTCCA
781888 ATTTCATTTCCATTTCCATTTACATTTCCA
1 ATTTCATTT-CATTTCCATTT-CATTTCCA
*
781918 A-TTCATTAACATTTCCATTTCATTT
1 ATTTCATT-TCATTTCCATTTCATTT
781943 AAATTATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
28 5 0.10
29 26 0.51
30 20 0.39
ACGTcount: A:0.24, C:0.25, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTCATTTCATTTCCATTTCATTTCCA
Found at i:781977 original size:20 final size:20
Alignment explanation
Indices: 781934--782009 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
781924 TAACATTTCC
781934 ATTT-CATTTAAA-TTATATT
1 ATTTCCATTTAAATTTA-ATT
*
781953 TTTTCCATTTAAATTTAATT
1 ATTTCCATTTAAATTTAATT
*
781973 ATTTCTCATTTCAATTGTTAATTT
1 ATTTC-CATTT-AAAT-TTAA-TT
*
781997 ATTTTCATTTAAA
1 ATTTCCATTTAAA
782010 CTTTCATTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.07
20 15 0.33
21 8 0.17
22 5 0.11
23 9 0.20
24 6 0.13
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (20 bp):
ATTTCCATTTAAATTTAATT
Found at i:782041 original size:19 final size:19
Alignment explanation
Indices: 782013--782051 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
782003 ATTTAAACTT
782013 TCATTCCATTTCATAATCA
1 TCATTCCATTTCATAATCA
* *
782032 TCATTTCATTTCATATTCA
1 TCATTCCATTTCATAATCA
782051 T
1 T
782052 TTAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (19 bp):
TCATTCCATTTCATAATCA
Found at i:782077 original size:14 final size:15
Alignment explanation
Indices: 782047--782092 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
782037 TCATTTCATA
782047 TTCATTTAACATTTTT
1 TTCATTTAA-ATTTTT
782063 TTCA-TT-AATTTTT
1 TTCATTTAAATTTTT
782076 TTCATTTAAATTTTT
1 TTCATTTAAATTTTT
782091 TT
1 TT
782093 TCCTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.36
14 3 0.11
15 11 0.39
16 4 0.14
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCATTTAAATTTTT
Found at i:782267 original size:21 final size:21
Alignment explanation
Indices: 782225--782267 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
782215 TATCAGGGTC
*
782225 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
782246 ATTTAAAATTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
782267 A
1 A
782268 AATATCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:782525 original size:21 final size:22
Alignment explanation
Indices: 782499--782725 Score: 117
Period size: 21 Copynumber: 9.6 Consensus size: 22
782489 AAATTATCTC
782499 TTTTTTTC-CATTTAAATTTAA
1 TTTTTTTCTCATTTAAATTTAA
*
782520 TTTTTTTCTCATTT-CATTTATA
1 TTTTTTTCTCATTTAAATTTA-A
* *
782542 TTATCTTTCTTCCCATATAAATTTAA
1 -T-T-TTT-TTCTCATTTAAATTTAA
*
782568 TTTTTTTTCTCATTT-CATTTAAA
1 -TTTTTTTCTCATTTAAATTT-AA
*
782591 TTATTTTTTTCCATTTAAATATT-A
1 TT-TTTTTCT-CATTTAAAT-TTAA
*
782615 TTTTTTCTCATTTCATTTAAA-TTACC
1 TTTTTT-TC---TCATTTAAATTTA-A
782641 TTTTTTTC-CATTTAAATTTAA
1 TTTTTTTCTCATTTAAATTTAA
* *
782662 ATTTTTTCTCATTT-CATTTAAA
1 TTTTTTTCTCATTTAAATTT-AA
* *
782684 TTATCTTTCTTTCCATCTTAATTTTAA
1 TT-T-TTT-TCT-CAT-TTAAATTTAA
782711 TTTTTTTTCTCATTT
1 -TTTTTTTCTCATTT
782726 CATTTAGATT
Statistics
Matches: 159, Mismatches: 19, Indels: 54
0.69 0.08 0.23
Matches are distributed among these distances:
21 32 0.20
22 23 0.14
23 23 0.14
24 21 0.13
25 12 0.08
26 32 0.20
27 11 0.07
28 5 0.03
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTTCTCATTTAAATTTAA
Found at i:782567 original size:48 final size:48
Alignment explanation
Indices: 782478--782731 Score: 345
Period size: 48 Copynumber: 5.2 Consensus size: 48
782468 TATTTCCATT
* *
782478 TCATTTCGTTTAAATTATCTCTTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTA--TCTTTCTTTCCATTTAAATTTAATTTTTTTC
* * *
782528 TCATTTCATTTATATTATCTTTCTTCCCATATAAATTTAATTTTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAA-TTTTTTTC
782577 TCATTTCATTTAAATTAT-TTT-TTTCCATTTAAATATT-A-TTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTTCCATTTAAAT-TTAATTTTTTTC
* * *
782622 TCATTTCATTTAAATTACCTTTTTTTCCATTTAAATTTAAATTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTTTTTC
*
782670 TCATTTCATTTAAATTATCTTTCTTTCCATCTTAATTTTAATTTTTTTTC
1 TCATTTCATTTAAATTATCTTTCTTTCCAT-TTAAATTTAA-TTTTTTTC
782720 TCATTTCATTTA
1 TCATTTCATTTA
782732 GATTTAAATT
Statistics
Matches: 183, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
45 24 0.13
46 5 0.03
47 26 0.14
48 60 0.33
49 34 0.19
50 34 0.19
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (48 bp):
TCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTTTTTC
Found at i:782645 original size:27 final size:25
Alignment explanation
Indices: 782602--782762 Score: 106
Period size: 27 Copynumber: 6.4 Consensus size: 25
782592 TATTTTTTTC
782602 CATTTAAA-TATTATTTTTTCTCATTT
1 CATTTAAATTA-T-TTTTTTCTCATTT
782628 CATTTAAATTACCTTTTTTTC-CATTT
1 CATTTAAATTA--TTTTTTTCTCATTT
*
782654 AAATTT-AA--A-TTTTTTCTCATTT
1 -CATTTAAATTATTTTTTTCTCATTT
782676 CATTTAAATTATCTTTCTTTC-CATCTT
1 CATTTAAATTAT-TTT-TTTCTCAT-TT
* *
782703 AATTTTAA-T-TTTTTTTCTCATTT
1 CATTTAAATTATTTTTTTCTCATTT
* * *
782726 CATTTAGATTTAAATTTTCTTCTCTTTT
1 CATTTA-AATT--ATTTTTTTCTCATTT
782754 CATTTAAAT
1 CATTTAAAT
782763 GATCTTTCGT
Statistics
Matches: 107, Mismatches: 11, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
21 11 0.10
22 7 0.07
23 10 0.09
24 9 0.08
25 2 0.02
26 22 0.21
27 27 0.25
28 19 0.18
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (25 bp):
CATTTAAATTATTTTTTTCTCATTT
Found at i:782794 original size:78 final size:77
Alignment explanation
Indices: 782507--782785 Score: 257
Period size: 78 Copynumber: 3.8 Consensus size: 77
782497 TCTTTTTTTC
* * * * *
782507 CATTTAAATTTAATTTTTTTCTCATTTCATTTATATTATCTTTC-TTCCCAT-ATAAATTTAATT
1 CATTTAAATTTAAATTTTTTCTCATTTCATTTAAATGATCTTTCGTT-CCATCTTAATTTTAATT
782570 TTTTTTCTCATTT
65 TTTTTTCTCATTT
** * *
782583 CATTTAAA-TT--ATTTTTT-TC----CATTTAAAT-AT-TATTTTTTCTCAT-TTCATTTAAAT
1 CATTTAAATTTAAATTTTTTCTCATTTCATTTAAATGATCT-TTCGTTC-CATCTTAATTTTAAT
** *
782637 TACCTTTT-T--TTC
64 T-TTTTTTCTCATTT
* *
782649 CATTTAAATTTAAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATCTTAATTTTAATTT
1 CATTTAAATTTAAATTTTTTCTCATTTCATTTAAATGATCTTTCGTTCCATCTTAATTTTAATTT
782714 TTTTTCTCATTT
66 TTTTTCTCATTT
* *
782726 CATTTAGATTTAAATTTTCTTCTCTTTTCATTTAAATGATCTTTCGTTCCATCTTAATTT
1 CATTTAAATTTAAATTTT-TTCTCATTTCATTTAAATGATCTTTCGTTCCATCTTAATTT
782786 ACGTTTTTTA
Statistics
Matches: 164, Mismatches: 20, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
66 11 0.07
67 7 0.04
68 22 0.13
69 11 0.07
70 2 0.01
72 2 0.01
73 6 0.04
74 16 0.10
75 21 0.13
76 9 0.05
77 19 0.12
78 38 0.23
ACGTcount: A:0.25, C:0.15, G:0.01, T:0.59
Consensus pattern (77 bp):
CATTTAAATTTAAATTTTTTCTCATTTCATTTAAATGATCTTTCGTTCCATCTTAATTTTAATTT
TTTTTCTCATTT
Found at i:786575 original size:91 final size:91
Alignment explanation
Indices: 786473--786679 Score: 414
Period size: 91 Copynumber: 2.3 Consensus size: 91
786463 AAAAAAACCC
786473 TAGTGCCGGCCATTGGGTTCCCAAACCCAAAAAAATCATTTTTTTAAAGCCTAACACAATCATCA
1 TAGTGCCGGCCATTGGGTTCCCAAACCCAAAAAAATCATTTTTTTAAAGCCTAACACAATCATCA
786538 GGTAATGATGGGGCCAAAACACTAGG
66 GGTAATGATGGGGCCAAAACACTAGG
786564 TAGTGCCGGCCATTGGGTTCCCAAACCCAAAAAAATCATTTTTTTAAAGCCTAACACAATCATCA
1 TAGTGCCGGCCATTGGGTTCCCAAACCCAAAAAAATCATTTTTTTAAAGCCTAACACAATCATCA
786629 GGTAATGATGGGGCCAAAACACTAGG
66 GGTAATGATGGGGCCAAAACACTAGG
786655 TAGTGCCGGCCATTGGGTTCCCAAA
1 TAGTGCCGGCCATTGGGTTCCCAAA
786680 ACTCAAATTT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (91 bp):
TAGTGCCGGCCATTGGGTTCCCAAACCCAAAAAAATCATTTTTTTAAAGCCTAACACAATCATCA
GGTAATGATGGGGCCAAAACACTAGG
Found at i:792229 original size:26 final size:26
Alignment explanation
Indices: 792190--792259 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
792180 ACATACCGAC
* * *
792190 TCACAACTCATGTGAGCAGGTCCATT
1 TCACAGCTCGTGTGAGCAGGCCCATT
*
792216 TCACAGCTCGTGTGAGTAGGCCCATT
1 TCACAGCTCGTGTGAGCAGGCCCATT
792242 TCACAGCTCGTGTGAGCA
1 TCACAGCTCGTGTGAGCA
792260 TTGATGTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCAGGCCCATT
Found at i:812240 original size:30 final size:30
Alignment explanation
Indices: 812204--812263 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
812194 AGGAGAGCTA
812204 GAGCTAGAGGCAGTGTTGGGTTCACATTGC
1 GAGCTAGAGGCAGTGTTGGGTTCACATTGC
*
812234 GAGCTAGAGGCGGTGTTGGGTTCACATTGC
1 GAGCTAGAGGCAGTGTTGGGTTCACATTGC
812264 TTAAGTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.17, G:0.38, T:0.27
Consensus pattern (30 bp):
GAGCTAGAGGCAGTGTTGGGTTCACATTGC
Found at i:813104 original size:42 final size:42
Alignment explanation
Indices: 813058--813163 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 42
813048 AGTAGGGTCA
*
813058 CACGCCCATGTGTCAGGCCGTGTAACTCTCGAAATAGCCCCG
1 CACGCCCATGTGTCAGGCCGTGTAACTCTCAAAATAGCCCCG
*
813100 CACGCCAATG-GTCCAGGCCGTGTAACTCTCAAAATAGCCCCG
1 CACGCCCATGTGT-CAGGCCGTGTAACTCTCAAAATAGCCCCG
* *
813142 CACACCCATGTGCCAGG-CGTGT
1 CACGCCCATGTGTCAGGCCGTGT
813164 GCTAGGCCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 7 0.12
42 49 0.86
43 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.24, T:0.18
Consensus pattern (42 bp):
CACGCCCATGTGTCAGGCCGTGTAACTCTCAAAATAGCCCCG
Found at i:820054 original size:23 final size:23
Alignment explanation
Indices: 820028--820076 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
820018 GTGTGGTAAT
820028 TATAAATACATGTGTAATAAATA
1 TATAAATACATGTGTAATAAATA
* * *
820051 TATATATACATTTGTAATTAATA
1 TATAAATACATGTGTAATAAATA
820074 TAT
1 TAT
820077 GTACATACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (23 bp):
TATAAATACATGTGTAATAAATA
Found at i:821295 original size:22 final size:23
Alignment explanation
Indices: 821260--821303 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
821250 GGATTTATAT
821260 TATTCTGGGTGTGTTAGGTTGGG
1 TATTCTGGGTGTGTTAGGTTGGG
*
821283 TATTCT-GGTGTGTTTGGTTGG
1 TATTCTGGGTGTGTTAGGTTGG
821304 ATCCGTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.07, C:0.05, G:0.41, T:0.48
Consensus pattern (23 bp):
TATTCTGGGTGTGTTAGGTTGGG
Found at i:824327 original size:36 final size:36
Alignment explanation
Indices: 824287--824357 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
824277 GAGTAAACTA
*
824287 ATAATTAAACCATAAAAAGCGACAAGTGTGTGGTAG
1 ATAATTAAACCAAAAAAAGCGACAAGTGTGTGGTAG
* *
824323 ATAATTAAACCAAAAAAAGTGGCAAGTGTGTGGTA
1 ATAATTAAACCAAAAAAAGCGACAAGTGTGTGGTA
824358 ATTATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (36 bp):
ATAATTAAACCAAAAAAAGCGACAAGTGTGTGGTAG
Found at i:829589 original size:465 final size:465
Alignment explanation
Indices: 828718--829639 Score: 1655
Period size: 465 Copynumber: 2.0 Consensus size: 465
828708 GTATGACATT
828718 TAAAGAACGGGTTAATCAGAACTTCTTTTGAATTGATTTATTTAGTGATTGGGATAATGTGAGAT
1 TAAAGAACGGGTTAATCAGAACTTCTTTTGAATTGATTTATTTAGTGATTGGGATAATGTGAGAT
* * *
828783 TATTGATGATTGTAGTAGTCAGCGGGATCGTATTGAAATTGCAAACAAATTTGGATGCAGCTCTA
66 TATTGATGATTGTAGTAGTCAGCGGGATCATATTGAAATTGCAAACAAATTTGAATGCAGCTATA
* *
828848 ATAGTTGGGTATCTTACAACGATCTCTTTTGGGTATTCTATATGGCTATTCTATATGTTATTTTA
131 ATAGTTCGATATCTTACAACGATCTCTTTTGGGTATTCTATATGGCTATTCTATATGTTATTTTA
828913 TCCTCAGAGGTATATGCAACTATTTATTTTCAGATATGATTTTTATCATATAGCAAGGTTGGCTA
196 TCCTCAGAGGTATATGCAACTATTTATTTTCAGATATGATTTTTATCATATAGCAAGGTTGGCTA
* *
828978 ATCATAATGTTAGACGAAATTATTATTAGTCTGGTTGATTCATGATCGGGGTTCTTCTATCTTTC
261 ATCATAATGTTAGACGAAATTATTATTAGTCTGGTTGATTCATGATCGGGATTCCTCTATCTTTC
* * *
829043 TTTGGTTTTCTAGTCCATTATGTTTGATAGAAGACTTCTTGATAAGACTTATGTGAAGTTATTTT
326 TTTGGTTTTCTAATCCATTATGTTTGATAGAAGACTTCATGATAAGACTGATGTGAAGTTATTTT
829108 CTATTTCTATTGGTTGAAGCTCTAAATTACACATATATGCTTTACATTGTCTTTATCACAACTAT
391 CTATTTCTATTGGTTGAAGCTCTAAATTACACATATATGCTTTACATTGTCTTTATCACAACTAT
829173 TTACATCGGC
456 TTACATCGGC
829183 TAAAGAACGGGTTAATCAGAACTTCTTTTGAATTGATTTATTTAGTGATTGGGATAATGTGAGAT
1 TAAAGAACGGGTTAATCAGAACTTCTTTTGAATTGATTTATTTAGTGATTGGGATAATGTGAGAT
* * * *
829248 TATTGATGATTGTAGTAGTTAGTGGGATCATATTGAAATTGCAAACATATTTGAATGCAGCTATT
66 TATTGATGATTGTAGTAGTCAGCGGGATCATATTGAAATTGCAAACAAATTTGAATGCAGCTATA
*
829313 ATAGTTCGATATCTTACAACGATCTCTTTTGGGTATTCTATATGGCTATTCTATATGTTCTTTTA
131 ATAGTTCGATATCTTACAACGATCTCTTTTGGGTATTCTATATGGCTATTCTATATGTTATTTTA
*
829378 TCCTTAGAGGTATATGCAACTATTTATTTTCAGATATGATTTTTATCATATAGCAAGGTTGGCTA
196 TCCTCAGAGGTATATGCAACTATTTATTTTCAGATATGATTTTTATCATATAGCAAGGTTGGCTA
** *
829443 ATCATAATGTTAGGTGGAATTATTATTAGTCTGGTTGATTCATGATCGGGATTCCTCTATCTTTC
261 ATCATAATGTTAGACGAAATTATTATTAGTCTGGTTGATTCATGATCGGGATTCCTCTATCTTTC
*
829508 TTTGGTTTTTTAATCCATTATGTTTGATAGAAGACTTCATGATAAGACTGATGTGAAGTTATTTT
326 TTTGGTTTTCTAATCCATTATGTTTGATAGAAGACTTCATGATAAGACTGATGTGAAGTTATTTT
*
829573 CTATTTCTATTGGTTGAAGCTCTAAATTACACGTATATGCTTTACATTGTCTTTATCACAACTAT
391 CTATTTCTATTGGTTGAAGCTCTAAATTACACATATATGCTTTACATTGTCTTTATCACAACTAT
829638 TT
456 TT
829640 CTAGTGCGTA
Statistics
Matches: 436, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
465 436 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (465 bp):
TAAAGAACGGGTTAATCAGAACTTCTTTTGAATTGATTTATTTAGTGATTGGGATAATGTGAGAT
TATTGATGATTGTAGTAGTCAGCGGGATCATATTGAAATTGCAAACAAATTTGAATGCAGCTATA
ATAGTTCGATATCTTACAACGATCTCTTTTGGGTATTCTATATGGCTATTCTATATGTTATTTTA
TCCTCAGAGGTATATGCAACTATTTATTTTCAGATATGATTTTTATCATATAGCAAGGTTGGCTA
ATCATAATGTTAGACGAAATTATTATTAGTCTGGTTGATTCATGATCGGGATTCCTCTATCTTTC
TTTGGTTTTCTAATCCATTATGTTTGATAGAAGACTTCATGATAAGACTGATGTGAAGTTATTTT
CTATTTCTATTGGTTGAAGCTCTAAATTACACATATATGCTTTACATTGTCTTTATCACAACTAT
TTACATCGGC
Found at i:838209 original size:45 final size:45
Alignment explanation
Indices: 838158--838244 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
838148 CCAACTACCT
838158 ACTCTTTTATATTATGGTATAATTACAATATTAGCCCATGAACCC
1 ACTCTTTTATATTATGGTATAATTACAATATTAGCCCATGAACCC
* * *
838203 ACTCTTTTATATTATGGTATATTTACCATATTAGTCCATGAA
1 ACTCTTTTATATTATGGTATAATTACAATATTAGCCCATGAA
838245 TTTACTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (45 bp):
ACTCTTTTATATTATGGTATAATTACAATATTAGCCCATGAACCC
Found at i:839773 original size:25 final size:26
Alignment explanation
Indices: 839745--839795 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
839735 AAAGTGGTTG
* * *
839745 AAAAAGTAGAGAAAAA-ATAAAATAT
1 AAAAAGAAAAGAAAAAGAAAAAATAT
839770 AAAAAGAAAAGAAAAAGAAAAAATAT
1 AAAAAGAAAAGAAAAAGAAAAAATAT
839796 TTTATGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (26 bp):
AAAAAGAAAAGAAAAAGAAAAAATAT
Found at i:849025 original size:44 final size:42
Alignment explanation
Indices: 848958--849126 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
848948 CTCCGATATG
* * *
848958 TGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGTATA
* *
848999 TGAGATTTACGTGTAAGACCATGTCTGAGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGATATTGGCATCGTATA
* * * *
849044 TGATTTCGTGTAAGACCTTGTTTGGGATAGTGACATCG-ATA
1 TGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGTATA
* * * * *
849085 GTTGATTACATGTAAGAGCACGTCTGGGACATTGGCATCGTA
1 --TGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGTA
849127 CGAGTTTTTT
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.04
42 26 0.26
43 39 0.39
44 29 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGTATA
Found at i:849055 original size:86 final size:84
Alignment explanation
Indices: 848958--849126 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 84
848948 CTCCGATATG
* * *
848958 TGATTTCGTGTAAGACCACGTCTGGGAT-GTTGGCATCGAT-TTGAGATTTACGTGTAAGACCAT
1 TGATTTCGTGTAAGACCACGTCTGGGATAG-TGACATCGATATT--GA-TTACATGTAAGACCAC
849021 GTCTGAGACATTGGCATCGTATA
62 GTCTGAGACATTGGCATCGTATA
** * *
849044 TGATTTCGTGTAAGACCTTGTTTGGGATAGTGACATCGATAGTTGATTACATGTAAGAGCACGTC
1 TGATTTCGTGTAAGACCACGTCTGGGATAGTGACATCGATA-TTGATTACATGTAAGACCACGTC
*
849109 TGGGACATTGGCATCGTA
65 TGAGACATTGGCATCGTA
849127 CGAGTTTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
85 33 0.46
86 36 0.50
87 1 0.01
88 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (84 bp):
TGATTTCGTGTAAGACCACGTCTGGGATAGTGACATCGATATTGATTACATGTAAGACCACGTCT
GAGACATTGGCATCGTATA
Found at i:850131 original size:26 final size:26
Alignment explanation
Indices: 850081--850131 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
850071 CCAATATCGT
* * *
850081 AGCATAGCTGCCAGTAATGATAATGC
1 AGCAGAGCTGCCAGTAATCAGAATGC
*
850107 AGCAGAGCTGCCAGTAGTCAGAATG
1 AGCAGAGCTGCCAGTAATCAGAATG
850132 GCTAAGAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (26 bp):
AGCAGAGCTGCCAGTAATCAGAATGC
Found at i:850242 original size:32 final size:32
Alignment explanation
Indices: 850194--850415 Score: 198
Period size: 32 Copynumber: 6.9 Consensus size: 32
850184 CCATAAGTAT
* * *
850194 AGTAATGTGATTGGCACAAAGCCATCAGTAGC
1 AGTAATATGATCGGCACAAAGCCATCAGTAAC
* *
850226 AGTAATATGATCGGCACACAA-CCATCAATAAT
1 AGTAATATGATCGGCACA-AAGCCATCAGTAAC
* * *
850258 GGTAACATGATCGGCACAAAGCCATCAGTAGC
1 AGTAATATGATCGGCACAAAGCCATCAGTAAC
* *
850290 AGTGATATGATCGACACACAA-CCATCAGTAAC
1 AGTAATATGATCGGCACA-AAGCCATCAGTAAC
* * *
850322 AGTGAA-ATGATCGACACATAGCCATCGGTAAC
1 AGT-AATATGATCGGCACAAAGCCATCAGTAAC
* * * * * *
850354 GGTAATATAATTGACACAAAGCCATTAGTAAT
1 AGTAATATGATCGGCACAAAGCCATCAGTAAC
* * *
850386 GGTACTATGATTGGCACAAAGCCATCAGTA
1 AGTAATATGATCGGCACAAAGCCATCAGTA
850416 GCATCGCAGC
Statistics
Matches: 155, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
31 5 0.03
32 145 0.94
33 5 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAAC
Found at i:850284 original size:64 final size:64
Alignment explanation
Indices: 850201--850418 Score: 253
Period size: 64 Copynumber: 3.4 Consensus size: 64
850191 TATAGTAATG
* * *
850201 TGATTGGCACAAAGCCATCAGTAGCAGTAATATGATCGGCACACAACCATCAATAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTAATATGATCGACACACAACCATCAGTAATGGTAACA
* **
850265 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAACAGTGAA-A
1 TGATCGGCACAAAGCCATCAGTAGCAGTAATATGATCGACACACAACCATCAGTAATGGT-AACA
* * * * * * * *
850329 TGATCGACACATAGCCATCGGTAACGGTAATATAATTGACACA-AAGCCATTAGTAATGGT-ACT
1 TGATCGGCACAAAGCCATCAGTAGCAGTAATATGATCGACACACAA-CCATCAGTAATGGTAAC-
850392 A
64 A
*
850393 TGATTGGCACAAAGCCATCAGTAGCA
1 TGATCGGCACAAAGCCATCAGTAGCA
850419 TCGCAGCAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 122 0.96
65 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTAATATGATCGACACACAACCATCAGTAATGGTAACA
Found at i:850447 original size:26 final size:26
Alignment explanation
Indices: 850418--850469 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
850408 CATCAGTAGC
*
850418 ATCGCAGCAAAGCTGCCAGCAATAGT
1 ATCGCAACAAAGCTGCCAGCAATAGT
*
850444 ATCGCAACAAAGCTGCCAGTAATAGT
1 ATCGCAACAAAGCTGCCAGCAATAGT
850470 GTCTGTTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGCAATAGT
Found at i:850489 original size:27 final size:27
Alignment explanation
Indices: 850459--850522 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
850449 AACAAAGCTG
850459 CCAGTAATAGTG-TCTGTTGCCA-AGCCA
1 CCAGTAATAGTGAT-TG-TGCCAGAGCCA
* *
850486 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAATAGTGATTGTGCCAGAGCCA
850513 CCAGT-ATAGT
1 CCAGTAATAGT
850523 ACTTCCTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 8 0.25
27 23 0.72
28 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (27 bp):
CCAGTAATAGTGATTGTGCCAGAGCCA
Found at i:851303 original size:27 final size:27
Alignment explanation
Indices: 850709--851302 Score: 551
Period size: 27 Copynumber: 22.1 Consensus size: 27
850699 CCACCAGGGC
*
850709 ATTATGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
850736 ATTATGGTAATTTTACCCTACA-GGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
850762 ATTACGGTCATTTTACCCTACAGAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
850789 ATTAGGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
** * * *
850816 ATTACTATCATTTTACCCTATAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
850843 ATTACGGTCATTTTATCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
850870 ATTACAGTTATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
850897 ATTACGGTCATTTTACTCTACAGGAGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
850924 ATTACGGTCATTTTACCCTAGAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
850951 ATTACGGTCATGTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
850978 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
851005 ATTACAGTTATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
851032 ATTACAGTCATTTTACACTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
851059 ATTACGGTCATTTTACCCTACA-GGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * **
851085 ATTACGATCATTTTACCTTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * **
851112 ATTTCGGT-ATTCTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
** ** *
851138 ATTTTGGTCATTTTACCCTATGGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
851165 ATTTCAGTCATTTTACCC-ATC-GAGGGT
1 ATTACGGTCATTTTACCCTA-CAG-GGGT
* *
851192 ATTTCGGTCATTTTACCC-ATC-GAGGGC
1 ATTACGGTCATTTTACCCTA-CAG-GGGT
**
851219 ATTTTGGTCATTTTACCC-ATC-GAGGGT
1 ATTACGGTCATTTTACCCTA-CAG-GGGT
* * **
851246 ATTTCGGTCATTTTATCC-ATCAAAGGT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
* * *
851273 ATTTCGGTCATTTTACCCTTCGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
851300 ATT
1 ATT
851303 TAGGTCCAGA
Statistics
Matches: 489, Mismatches: 71, Indels: 14
0.85 0.12 0.02
Matches are distributed among these distances:
26 71 0.15
27 418 0.85
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:858575 original size:17 final size:17
Alignment explanation
Indices: 858553--858588 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
858543 CATATATTTA
858553 TAGCTTCAAATTAATCT
1 TAGCTTCAAATTAATCT
858570 TAGCTTCAAATTAATCT
1 TAGCTTCAAATTAATCT
858587 TA
1 TA
858589 CCTTGTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGCTTCAAATTAATCT
Found at i:859408 original size:18 final size:18
Alignment explanation
Indices: 859381--859422 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
859371 GTAATTTTCC
*
859381 CTTTTCCTCGATTATTGT
1 CTTTTTCTCGATTATTGT
*
859399 CTTTTTCTCGATTGTTGT
1 CTTTTTCTCGATTATTGT
859417 CTTTTT
1 CTTTTT
859423 GGTTTGGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.19, G:0.12, T:0.62
Consensus pattern (18 bp):
CTTTTTCTCGATTATTGT
Found at i:861255 original size:25 final size:25
Alignment explanation
Indices: 861182--861276 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
861172 GGTTACTAAT
*
861182 TTCAGCTCGTATGAGCTTACCAATA
1 TTCAGCTCGTATGAGCTTACCATTA
* * *
861207 CTCAGGTCGTATGAGCTTATCATTA
1 TTCAGCTCGTATGAGCTTACCATTA
* *
861232 TTCAGCTCGGAGGAGCTTACCATT-
1 TTCAGCTCGTATGAGCTTACCATTA
* * *
861256 TACAACTCGTATGAGCATACC
1 TTCAGCTCGTATGAGCTTACC
861277 GAGTTTAGTA
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
24 16 0.29
25 40 0.71
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCATTA
Found at i:871953 original size:68 final size:68
Alignment explanation
Indices: 871844--871978 Score: 234
Period size: 68 Copynumber: 2.0 Consensus size: 68
871834 TCCTGAATTA
* *
871844 TTGTGGGAAAGGTAAAGGTAGAGATAAATTTGCTTGCGTTGACACCTTTGATTGCGTCAAAAGTT
1 TTGTGGGAAAGGTAAAGGTAGAGATAAATCTACTTGCGTTGACACCTTTGATTGCGTCAAAAGTT
871909 TCT
66 TCT
* *
871912 TTGTGGGAAAGGTAAAGGTAGAGATACATCTACTTGCGTTGACACCTTTGATTGTGTCAAAAGTT
1 TTGTGGGAAAGGTAAAGGTAGAGATAAATCTACTTGCGTTGACACCTTTGATTGCGTCAAAAGTT
871977 TC
66 TC
871979 AAAGGTTAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (68 bp):
TTGTGGGAAAGGTAAAGGTAGAGATAAATCTACTTGCGTTGACACCTTTGATTGCGTCAAAAGTT
TCT
Found at i:876544 original size:13 final size:13
Alignment explanation
Indices: 876526--876550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
876516 AAAAGTTGAA
876526 AAATACTTAAATC
1 AAATACTTAAATC
876539 AAATACTTAAAT
1 AAATACTTAAAT
876551 TCTTCGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATACTTAAATC
Found at i:888475 original size:21 final size:21
Alignment explanation
Indices: 888429--888477 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
888419 GATATATTGA
*
888429 GATTTATATTTTGTTATCTAT
1 GATTGATATTTTGTTATCTAT
* *
888450 G--TGATATTTTTTTATTTAT
1 GATTGATATTTTGTTATCTAT
888469 GATTGATAT
1 GATTGATAT
888478 GTTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 16 0.70
21 7 0.30
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.61
Consensus pattern (21 bp):
GATTGATATTTTGTTATCTAT
Found at i:893237 original size:25 final size:25
Alignment explanation
Indices: 893190--893260 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
893180 CGAACTGTGA
* *
893190 ATCAGTATGCTCACTCGATCTGTAG
1 ATCAGTATGCTCACACGAGCTGTAG
* *
893215 ATCAATATGCTCTCACGAGCTGTAG
1 ATCAGTATGCTCACACGAGCTGTAG
* *
893240 ATCGGTTTGCTCACACGAGCT
1 ATCAGTATGCTCACACGAGCT
893261 ATGGGTCGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (25 bp):
ATCAGTATGCTCACACGAGCTGTAG
Found at i:896628 original size:20 final size:20
Alignment explanation
Indices: 896590--896628 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
896580 AACATTCAAA
*
896590 ATACCATATTCACAACCAAG
1 ATACCATATACACAACCAAG
896610 ATACCATA-ACACAAGCCAA
1 ATACCATATACACAA-CCAA
896629 ACCATATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.31, G:0.05, T:0.15
Consensus pattern (20 bp):
ATACCATATACACAACCAAG
Found at i:899179 original size:27 final size:27
Alignment explanation
Indices: 899145--899200 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
899135 AATTAACTCG
899145 TAAACATTAAAATAATATTTACGAACT
1 TAAACATTAAAATAATATTTACGAACT
899172 TAAACATTAAAATAATATTTACGAACT
1 TAAACATTAAAATAATATTTACGAACT
899199 TA
1 TA
899201 CTCGTCGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (27 bp):
TAAACATTAAAATAATATTTACGAACT
Found at i:899802 original size:14 final size:14
Alignment explanation
Indices: 899783--899812 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
899773 AAGTTTAACA
899783 TTCGATTTTACTAG
1 TTCGATTTTACTAG
899797 TTCGATTTTACTAG
1 TTCGATTTTACTAG
899811 TT
1 TT
899813 TTGAATGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
TTCGATTTTACTAG
Found at i:901211 original size:8 final size:8
Alignment explanation
Indices: 901198--901227 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
901188 TAATGTCACT
901198 AATTCTGC
1 AATTCTGC
901206 AATTCTGC
1 AATTCTGC
901214 AATTCTGC
1 AATTCTGC
901222 AATTCT
1 AATTCT
901228 TTCTTGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (8 bp):
AATTCTGC
Found at i:903571 original size:24 final size:22
Alignment explanation
Indices: 903530--903574 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
903520 TGTGTATATT
903530 CTAAAATTATTAGTATTATTAC
1 CTAAAATTATTAGTATTATTAC
*
903552 CTAAAAGTTATGTTGTATTATTA
1 CTAAAA-TTAT-TAGTATTATTA
903575 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 10 0.50
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (22 bp):
CTAAAATTATTAGTATTATTAC
Found at i:907986 original size:13 final size:13
Alignment explanation
Indices: 907951--907979 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
907941 ATCCTTTAAA
907951 AAAAATC-AAATC
1 AAAAATCAAAATC
907963 AAAAATCAAAATC
1 AAAAATCAAAATC
907976 AAAA
1 AAAA
907980 TATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATCAAAATC
Found at i:908917 original size:7 final size:7
Alignment explanation
Indices: 908905--908945 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
908895 AAAAAGGGGG
908905 TGAAAAA
1 TGAAAAA
908912 TGAAAAA
1 TGAAAAA
908919 TGAAAAA
1 TGAAAAA
908926 TGAAAAA
1 TGAAAAA
908933 TG-AAAA
1 TGAAAAA
908939 TGAAAAA
1 TGAAAAA
908946 GTAAAATGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:908951 original size:13 final size:13
Alignment explanation
Indices: 908908--908953 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
908898 AAGGGGGTGA
*
908908 AAAATGAAAAATGA
1 AAAATGAAAAA-GT
908922 AAAATGAAAAA-T
1 AAAATGAAAAAGT
908934 GAAAATGAAAAAGT
1 -AAAATGAAAAAGT
908948 AAAATG
1 AAAATG
908954 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAAGT
Found at i:909485 original size:43 final size:43
Alignment explanation
Indices: 909441--909668 Score: 323
Period size: 43 Copynumber: 5.3 Consensus size: 43
909431 TTTTAGAAAA
* * * *
909441 AAACGCCGCTAAAGACTAAGACCTTTAGCGGTGC-TTTCCCAA
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
** * * *
909483 AAATACCGGTAAAGATCAGGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
909526 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
** *
909569 AAACATCGCTAAAGACCAGGACCATTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
*
909612 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTACCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTTCCCAC
909656 AAACGCCGCTAAA
1 AAACGCCGCTAAA
909669 AACATGACTT
Statistics
Matches: 163, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 27 0.17
43 115 0.71
44 21 0.13
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:909891 original size:18 final size:18
Alignment explanation
Indices: 909868--909927 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
909858 TTAAAACAAG
909868 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
909886 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
909903 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
909921 TTACATT
1 TTACATT
909928 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:914478 original size:41 final size:41
Alignment explanation
Indices: 914433--914748 Score: 463
Period size: 41 Copynumber: 7.7 Consensus size: 41
914423 AATATTTTTT
* * *
914433 GCGGCGCTTTTTTAAAAACGCCGCTAAAGACCCGAGAATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
* * * * *
914474 GCGGCGCTTTTTAAAAAACACCGCTAAAGACCAGATCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
* *
914515 GCGGCGCTTCTTCAAAAACACCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
914556 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
914597 GCGGCGCTTATTCAAAAGCGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
914638 GCGGCGCTTATTCAAAAGCGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
* * *
914679 GCGGCGCTTATTCAAAAGCGCCGCTAAAGACCCGAGAATTG
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
914720 GCGGCGCTTCA-TCAAAAACGTCGCTAAAG
1 GCGGCGCTT-ATTCAAAAACGCCGCTAAAG
914749 CCTCAAAACT
Statistics
Matches: 256, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
41 255 1.00
42 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
Found at i:914888 original size:40 final size:40
Alignment explanation
Indices: 914804--914919 Score: 137
Period size: 40 Copynumber: 3.0 Consensus size: 40
914794 GCACTTTTTG
*
914804 TAAAA-CGCCGCTAATGCTC-ATTTTTAGCGGTGTTTACC
1 TAAAAGCGCCGCTAATGCTCGATTTTTAGCGGTGTTTTCC
* * * *
914842 TGAAAGCGCCGCTAATACTCGATCTTTAGCGGTGTTTTCT
1 TAAAAGCGCCGCTAATGCTCGATTTTTAGCGGTGTTTTCC
* * * *
914882 TAAAAGCGTCGGTAATGCTTGATTTTTAGCGGCGTTTT
1 TAAAAGCGCCGCTAATGCTCGATTTTTAGCGGTGTTTT
914920 TTATCCAAAC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 47 0.73
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
TAAAAGCGCCGCTAATGCTCGATTTTTAGCGGTGTTTTCC
Found at i:916306 original size:128 final size:128
Alignment explanation
Indices: 915860--916315 Score: 743
Period size: 128 Copynumber: 3.6 Consensus size: 128
915850 AGTAGGGAAA
* * *
915860 CAGATCGAAGACGGCGAAACTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCTACAAGTCCTATG
1 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATG
* * *
915925 TCCCAGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAG
66 TCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAG
*
915988 CAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATG
1 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATG
*
916053 TCCCTAACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAG
66 TCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAG
*
916116 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAAATTTAAGCCACAAGTCCTATG
1 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATG
* * *
916181 TCCCTGGCCAGCAGTGGAATAAGTTGGAAATTGCAGATCTTGTCTCCCTAAGTAGTAGCGGAG
66 TCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAG
* * * *
916244 CAGATCGAAGACGACGAATCTTATCTTCAAGTGTAAGGAAGTAGATTGAAGCCGATAA-TCCTAT
1 CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC-ACAAGTCCTAT
*
916308 CTCCCTGA
65 GTCCCTGA
916316 AGTTGTAGTG
Statistics
Matches: 306, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
128 303 0.99
129 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (128 bp):
CAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATG
TCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAG
Found at i:916498 original size:44 final size:44
Alignment explanation
Indices: 916286--916766 Score: 222
Period size: 44 Copynumber: 11.1 Consensus size: 44
916276 GTAAGGAAGT
* * *
916286 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGA-C
1 AGATTGAAGACGATAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * *
916329 GGATTAAAGTA--ATAGATCTTATCTCTCTG-AGTTACAGTAGAGT
1 AGATTGAAG-ACGATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * ** * * * *
916372 GGATCGCAG-C-A-GGTCTTACCCCCCTGAAGTTACAGTGGGGC
1 AGATTGAAGACGATAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * *
916413 AGATCGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTGAAGACGA-TAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * *
916458 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGC
1 AGATTGAAGACGATAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
916502 GGATTAAAGTA--ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGT
1 AGATTGAAG-ACGATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * ** *
916546 GGATCGCA-TC-A-GGTCTTATATCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAGACGATAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** * * ** *
916587 AGACTG-AGAAAACAAGTCTTATCCCCCTGAAGTCACAGTGGGGC
1 AGATTGAAGACGATAA-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * *
916631 AGACTGAAAAAGCA-AATCTTATCTCCCT-AAGATTGCAGTGGAGA
1 AGATTGAAGACG-ATAATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * * * *
916675 AGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGAAGT
1 AGATTGAAGACGATAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
916719 GGATTAAAGTA--ATAGATCTTATCTCTCTGAAGTAGCAGTAGAGC
1 AGATTGAAG-ACGATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
916763 AGAT
1 AGAT
916767 CGCATCAGGT
Statistics
Matches: 324, Mismatches: 91, Indels: 45
0.70 0.20 0.10
Matches are distributed among these distances:
40 11 0.03
41 45 0.14
42 14 0.04
43 37 0.11
44 173 0.53
45 43 0.13
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTGAAGACGATAATCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:916617 original size:173 final size:172
Alignment explanation
Indices: 916286--916638 Score: 539
Period size: 173 Copynumber: 2.0 Consensus size: 172
916276 GTAAGGAAGT
916286 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGACGGATTAAAGTAATAGATCTTAT
1 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGACGGATTAAAGTAATAGATCTTAT
* *
916351 CTCTCTGAGTTACAGTAGAGTGGATCGCAGCAGGTCTTACCCCCCTGAAGTTACAGTGGGGCAGA
66 CTCTCTGAGTTACAGTAGAGTGGATCGCAGCAGGTCTTACACCCCTGAAGTTACAGTGGAGCAGA
** * *
916416 TCGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGC
131 TCGAAGAAAACAAATCTTATCCCCCTGAAGTCACAGTGGAGC
916458 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTA
1 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGA-CGGATTAAAGTAATAGATCTTA
* * * * *
916523 TCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATATCCCTGAAGTTGCAGTGGAGCA
65 TCTCTCTG-AGTTACAGTAGAGTGGATCGCAGCAGGTCTTACACCCCTGAAGTTACAGTGGAGCA
* *
916588 GA-CTG-AGAAAACAAGTCTTATCCCCCTGAAGTCACAGTGGGGC
129 GATC-GAAGAAAACAAATCTTATCCCCCTGAAGTCACAGTGGAGC
*
916631 AGACTGAA
1 AGATTGAA
916639 AAAGCAAATC
Statistics
Matches: 164, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
172 42 0.26
173 70 0.43
174 52 0.32
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (172 bp):
AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGACGGATTAAAGTAATAGATCTTAT
CTCTCTGAGTTACAGTAGAGTGGATCGCAGCAGGTCTTACACCCCTGAAGTTACAGTGGAGCAGA
TCGAAGAAAACAAATCTTATCCCCCTGAAGTCACAGTGGAGC
Found at i:916656 original size:173 final size:174
Alignment explanation
Indices: 916297--916722 Score: 517
Period size: 173 Copynumber: 2.5 Consensus size: 174
916287 GATTGAAGCC
916297 GATAATCCTATCTCCCTGAAGTTGTAGTGGA-CGGATTAAAGTAATAGATCTTATCTCTCTG-AG
1 GATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAG
* * * **
916360 TTACAGTAGAGTGGATCGCAGCAGGTCTTACCCCCCTGAAGTTACAGTGGGGCAGATCGAAGATG
66 TTGCAGTAGAGTGGATCGCAGCAGGTCTTACACCCCTGAAGTTACAGTGGAGCAGATCGAAGAAA
* * * ***
916425 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCC
131 ACAAATCTTATCCCCCTGAAGTCACAGTGGAGCAGACTGAAAAA
916469 GATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAG
1 GATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAG
* * * *
916534 TTGCAGTAGAGTGGATCGCATCAGGTCTTATATCCCTGAAGTTGCAGTGGAGCAGA-CTG-AGAA
66 TTGCAGTAGAGTGGATCGCAGCAGGTCTTACACCCCTGAAGTTACAGTGGAGCAGATC-GAAGAA
* *
916597 AACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAAAA
130 AACAAATCTTATCCCCCTGAAGTCACAGTGGAGCAGACTGAAAAA
* * ** * * * *
916642 GCA-AATCTTATCTCCCT-AAGATTGCAGTGGAGAAGATTGAAGTCGATA-ATCCTATCTCCCTG
1 G-ATAATCCTATCTCCCTGAAG-TTGTAGTGGAGCGGATTAAAGT-AATAGATCTTATCTCTCTG
*
916704 AAGTTGTAGT-GAAGTGGAT
63 AAGTTGCAGTAG-AGTGGAT
916723 TAAAGTAATA
Statistics
Matches: 221, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
172 35 0.16
173 130 0.59
174 56 0.25
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (174 bp):
GATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAG
TTGCAGTAGAGTGGATCGCAGCAGGTCTTACACCCCTGAAGTTACAGTGGAGCAGATCGAAGAAA
ACAAATCTTATCCCCCTGAAGTCACAGTGGAGCAGACTGAAAAA
Found at i:916673 original size:217 final size:218
Alignment explanation
Indices: 916384--916779 Score: 645
Period size: 217 Copynumber: 1.8 Consensus size: 218
916374 ATCGCAGCAG
* * *
916384 GTCTTACCCCCCTGAAGTTACAGTGGGGCAGATCGAAGATGACAAATCTTATCTCCCTGAAGTTA
1 GTCTTACCCCCCTGAAGTCACAGTGGGGCAGATCGAAAAAGACAAATCTTATCTCCCTGAAGTTA
* *
916449 CAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAA
66 CAGTGGAGAAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGAAGCGGATTAAAGTAA
* **
916514 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATATCCCTGAAGTTGC
131 TAGATCTTATCTCTCTGAAGTAGCAGTAGAGCAGATCGCATCAGGTCTTATATCCCTGAAGTTGC
916579 AGTGGAGCAGACTGAGAAAACAA
196 AGTGGAGCAGACTGAGAAAACAA
*
916602 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGA-CTGAAAAAG-CAAATCTTATCTCCCT-AAGAT
1 GTCTTACCCCCCTGAAGTCACAGTGGGGCAGATC-GAAAAAGACAAATCTTATCTCCCTGAAG-T
* * *
916664 TGCAGTGGAGAAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGAAGTGGATTAAAGT
64 TACAGTGGAGAAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGAAGCGGATTAAAGT
916729 AATAGATCTTATCTCTCTGAAGTAGCAGTAGAGCAGATCGCATCAGGTCTT
129 AATAGATCTTATCTCTCTGAAGTAGCAGTAGAGCAGATCGCATCAGGTCTT
916780 GCTGACTAGA
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
216 3 0.02
217 126 0.77
218 35 0.21
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (218 bp):
GTCTTACCCCCCTGAAGTCACAGTGGGGCAGATCGAAAAAGACAAATCTTATCTCCCTGAAGTTA
CAGTGGAGAAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGAAGCGGATTAAAGTAA
TAGATCTTATCTCTCTGAAGTAGCAGTAGAGCAGATCGCATCAGGTCTTATATCCCTGAAGTTGC
AGTGGAGCAGACTGAGAAAACAA
Found at i:918526 original size:24 final size:24
Alignment explanation
Indices: 918494--918563 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
918484 TTCATATTTT
*
918494 TAAAGTTATTGTGTATTATTATTC
1 TAAAATTATTGTGTATTATTATTC
* *
918518 TAAAATTATT-AGTATTATTA-CC
1 TAAAATTATTGTGTATTATTATTC
918540 TAAAAGTTA-TGTTGTATTATTATT
1 TAAAA-TTATTG-TGTATTATTATT
918564 TTTTTATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 7 0.19
23 12 0.32
24 18 0.49
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (24 bp):
TAAAATTATTGTGTATTATTATTC
Found at i:918536 original size:23 final size:25
Alignment explanation
Indices: 918495--918563 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 25
918485 TCATATTTTT
918495 AAAGTTATTGT-GTATTATTATTCTA
1 AAAGTTA-TGTAGTATTATTATTCTA
*
918520 AAA-TTAT-TAGTATTATTA-CCTA
1 AAAGTTATGTAGTATTATTATTCTA
*
918542 AAAGTTATGTTGTATTATTATT
1 AAAGTTATGTAGTATTATTATT
918564 TTTTTATTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 7 0.19
23 14 0.38
24 13 0.35
25 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (25 bp):
AAAGTTATGTAGTATTATTATTCTA
Done.