Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 287 of 335
Found at i:86584588 original size:25 final size:24
Alignment explanation
Indices: 86584518--86584598 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
86584508 AAGCTCTGGA
* *
86584518 GAGCCAATAACGGAAAGC-TCATAC
1 GAGCCAATATCAGAAAGCTTCA-AC
* *
86584542 GAGCCAATATCGGAAAGGTTCAAGC
1 GAGCCAATATCAGAAAGCTTCAA-C
*
86584567 GAGCCAATATCA-AGAAGCTTCAAA
1 GAGCCAATATCAGA-AAGCTTCAAC
86584591 GAGCCAAT
1 GAGCCAAT
86584599 TAATCAGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 26 0.53
25 23 0.47
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (24 bp):
GAGCCAATATCAGAAAGCTTCAAC
Found at i:86584646 original size:27 final size:27
Alignment explanation
Indices: 86584567--86584649 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
86584557 AGGTTCAAGC
*
86584567 GAGCCAA-T-ATCAAGAAGCTTC-AAA
1 GAGCCAATTAATCAGGAAGCTTCAAAA
86584591 GAGCCAATTAATCAGGAAGC-TCATGAAA
1 GAGCCAATTAATCAGGAAGCTTCA--AAA
*
86584619 GAGCC-TTTAATCAGGAAGCTTCAAAA
1 GAGCCAATTAATCAGGAAGCTTCAAAA
86584645 -AGCCA
1 GAGCCA
86584650 TATATTGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
24 7 0.14
25 7 0.14
26 12 0.24
27 13 0.26
28 11 0.22
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
GAGCCAATTAATCAGGAAGCTTCAAAA
Found at i:86588389 original size:17 final size:17
Alignment explanation
Indices: 86588355--86588397 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
86588345 TTAATTCAAT
86588355 TAAATAAAACATTAAAAA
1 TAAA-AAAACATTAAAAA
*
86588373 TAAAAAAATATTTAAAAA
1 TAAAAAAACA-TTAAAAA
86588391 -AAAAAAA
1 TAAAAAAA
86588398 AGTTTAAGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAAAACATTAAAAA
Found at i:86588624 original size:19 final size:20
Alignment explanation
Indices: 86588600--86588643 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
86588590 AAATTATTAG
* * *
86588600 ATTTTTTTATGTTTTTAT-A
1 ATTTTTATAAGTTTATATCA
86588619 ATTTTTATAAGTTTATATCA
1 ATTTTTATAAGTTTATATCA
86588639 ATTTT
1 ATTTT
86588644 AATATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTTATAAGTTTATATCA
Found at i:86588625 original size:17 final size:18
Alignment explanation
Indices: 86588521--86588711 Score: 97
Period size: 17 Copynumber: 10.2 Consensus size: 18
86588511 TTATGATTTT
86588521 TTTTTATAATTTTTATTAA
1 TTTTTATAATTTTTA-TAA
* *
86588540 GTTTTTATAAAATTTTAAATA
1 -TTTTTAT-AATTTTTATA-A
*
86588561 TGTTTTATTAATTTTATAAAA
1 T-TTTTA-TAATTTT-TATAA
* * *
86588582 TTCTTCATAAATTATTA-GA
1 TT-TTTAT-AATTTTTATAA
* *
86588601 TTTTTTTATGTTTTTATAA
1 TTTTTATA-ATTTTTATAA
*
86588620 TTTTTATAAGTTTATATCAA
1 TTTTTATAA-TTTTTAT-AA
*
86588640 TTTTAAT-ATTTTT-TAA
1 TTTTTATAATTTTTATAA
* *
86588656 GTTTAATAATTTTTAT-A
1 TTTTTATAATTTTTATAA
* *
86588673 TTTTTATAAATTTTA-AT
1 TTTTTATAATTTTTATAA
86588690 TTTTTAT-ATTTTTATGAA
1 TTTTTATAATTTTTAT-AA
86588708 TTTT
1 TTTT
86588712 AAATCTTTGT
Statistics
Matches: 132, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
16 14 0.11
17 28 0.21
18 18 0.14
19 18 0.14
20 21 0.16
21 28 0.21
22 5 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:86588659 original size:27 final size:26
Alignment explanation
Indices: 86588619--86588713 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 26
86588609 TGTTTTTATA
86588619 ATTTTTATAAGTTTATATCAATTTTAAT
1 ATTTTTATAAGTTTA-AT-AATTTTAAT
*
86588647 ATTTTT-TAAGTTTAATAATTTTTAT
1 ATTTTTATAAGTTTAATAATTTTAAT
* *
86588672 ATTTTTATAAATTT--TAATTTTTTAT
1 ATTTTTATAAGTTTAATAA-TTTTAAT
*
86588697 ATTTTTATGAATTTTAA
1 ATTTTTAT-AAGTTTAA
86588714 ATCTTTGTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.05
25 29 0.49
26 13 0.22
27 8 0.14
28 6 0.10
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (26 bp):
ATTTTTATAAGTTTAATAATTTTAAT
Found at i:86588670 original size:10 final size:9
Alignment explanation
Indices: 86588521--86588711 Score: 97
Period size: 10 Copynumber: 20.4 Consensus size: 9
86588511 TTATGATTTT
86588521 TTTTTATAA
1 TTTTTATAA
86588530 TTTTTATTAA
1 TTTTTA-TAA
86588540 GTTTTTATAAA
1 -TTTTTAT-AA
* *
86588551 ATTTTAAATA
1 TTTTTATA-A
86588561 TGTTTTATTAA
1 T-TTTTA-TAA
*
86588572 TTTTATAAAA
1 TTTT-TATAA
*
86588582 TTCTTCATAAA
1 TT-TTTAT-AA
* *
86588593 TTATTA-GA
1 TTTTTATAA
* *
86588601 TTTTTTTATG
1 TTTTTATA-A
86588611 TTTTTATAA
1 TTTTTATAA
86588620 TTTTTATAA
1 TTTTTATAA
*
86588629 GTTTATATCAA
1 -TTTTTAT-AA
*
86588640 TTTTAAT-A
1 TTTTTATAA
86588648 TTTTT-TAA
1 TTTTTATAA
* *
86588656 GTTTAATAA
1 TTTTTATAA
86588665 TTTTTAT-A
1 TTTTTATAA
86588673 TTTTTATAA
1 TTTTTATAA
* *
86588682 ATTTTA-AT
1 TTTTTATAA
86588690 TTTTTAT-A
1 TTTTTATAA
86588698 TTTTTATGAA
1 TTTTTAT-AA
86588708 TTTT
1 TTTT
86588712 AAATCTTTGT
Statistics
Matches: 135, Mismatches: 28, Indels: 37
0.68 0.14 0.19
Matches are distributed among these distances:
7 1 0.01
8 35 0.26
9 30 0.22
10 43 0.32
11 25 0.19
12 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:86590272 original size:30 final size:31
Alignment explanation
Indices: 86590211--86590290 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
86590201 AATTTTTATC
** *
86590211 TTTATAATTTTTAAAACATTAAATAATATTT
1 TTTATAATTTAAAAAACATAAAATAATATTT
* *
86590242 TTTATAATTTAAAAAACAAAAATATAATTTTAT
1 TTTATAATTTAAAAAACATAAA-ATAATATT-T
86590275 CTTTATTAATTTAAAA
1 -TTTA-TAATTTAAAA
86590291 TTTTAAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 18 0.45
32 7 0.17
33 1 0.03
34 4 0.10
35 10 0.25
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTATAATTTAAAAAACATAAAATAATATTT
Found at i:86594589 original size:31 final size:31
Alignment explanation
Indices: 86594551--86594611 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
86594541 ATCTAACTTG
86594551 AATTTAATT-TAAATAATAATTTTAAAATTTA
1 AATTTAATTATAAA-AATAATTTTAAAATTTA
* *
86594582 AATTTAATTATAAAAATATTTTTAATATTT
1 AATTTAATTATAAAAATAATTTTAAAATTT
86594612 TATTACTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTTAATTATAAAAATAATTTTAAAATTTA
Found at i:86594595 original size:19 final size:20
Alignment explanation
Indices: 86594556--86594596 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
86594546 ACTTGAATTT
*
86594556 AATTTAAATAATAATTTTAA
1 AATTTAAATAATAATTATAA
*
86594576 AATTTAAAT-TTAATTATAA
1 AATTTAAATAATAATTATAA
86594595 AA
1 AA
86594597 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAAATAATAATTATAA
Found at i:86594597 original size:20 final size:20
Alignment explanation
Indices: 86594556--86594598 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
86594546 ACTTGAATTT
*
86594556 AATTTAAATAATAATTTTAA
1 AATTTAAATAATAATTTAAA
*
86594576 AATTTAAAT-TTAATTATAAA
1 AATTTAAATAATAATT-TAAA
86594596 AAT
1 AAT
86594599 ATTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAAATAATAATTTAAA
Found at i:86594956 original size:31 final size:31
Alignment explanation
Indices: 86594915--86594975 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
86594905 AATTTGGTCT
86594915 TTGAACTATTCAAAAGTTCTCATTTAAGTCA
1 TTGAACTATTCAAAAGTTCTCATTTAAGTCA
* * * *
86594946 TTGAATTATTCAATAGTTTTTATTTAAGTC
1 TTGAACTATTCAAAAGTTCTCATTTAAGTC
86594976 GTTGGGTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (31 bp):
TTGAACTATTCAAAAGTTCTCATTTAAGTCA
Found at i:86595376 original size:2 final size:2
Alignment explanation
Indices: 86595369--86595410 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
86595359 TGATATAGTT
86595369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86595411 ATAAGGCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86603059 original size:82 final size:81
Alignment explanation
Indices: 86602907--86603138 Score: 216
Period size: 82 Copynumber: 2.8 Consensus size: 81
86602897 GCCTACATAA
* * * *
86602907 TCTGCCACATGGCCTACCATATGGTCATGTGACCACACGGTCTACCACATAGCCTACTACATGTT
1 TCTGCCACATGGACTACCATATGGTCATGTGACCACACGGTCTACCACACAACCTACCACATGTT
86602972 CGTATGACCCACGCGG
66 CGTATGACCCACGCGG
* * **
86602988 TCTGTCACATGGATTACCATATGGTTTTGTGACCGACACGGTCTACCACACAACCTACCACATAG
1 TCTGCCACATGGACTACCATATGGTCATGTGACC-ACACGGTCTACCACACAACCTACCACAT-G
* * *
86603053 TT-GTATGACCTACACGA
64 TTCGTATGACCCACGCGG
* * * * * * * * * *
86603070 TCTGCTACACGGCCTACCACACT-GTCGTATGACCCACACAGTCTGCCACACATCCTACCATATG
1 TCTGCCACATGGACTACCATA-TGGTCATGTGA-CCACACGGTCTACCACACAACCTACCACATG
*
86603134 GTCGT
64 TTCGT
86603139 GTAATCCGCA
Statistics
Matches: 121, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
81 31 0.26
82 84 0.69
83 6 0.05
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (81 bp):
TCTGCCACATGGACTACCATATGGTCATGTGACCACACGGTCTACCACACAACCTACCACATGTT
CGTATGACCCACGCGG
Found at i:86603138 original size:41 final size:41
Alignment explanation
Indices: 86602907--86603240 Score: 179
Period size: 41 Copynumber: 8.2 Consensus size: 41
86602897 GCCTACATAA
** * *
86602907 TCTGCCACATGGCCTACCATATGGTCATGTGA-CCACACGG
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
* * * * * * * *
86602947 TCTACCACATAGCCTACTACATGTTCGTATGACCCACGCGG
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
* ** ** ** * *
86602988 TCTGTCACATGGATTACCATATGGTTTTGTGACCGACACGG
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
* * * * * * *
86603029 TCTACCACACAACCTACCACATAGTTGTATGACCTACAC-G
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
* * * *
86603069 ATCTGCTACACGGCCTACCACACT-GTCGTATGACCCACACAG
1 -TCTGCCACACAGCCTACCATA-TGGTCGTGTGACCCACACAG
* * * *
86603111 TCTGCCACACATCCTACCATATGGTCGTGTAATCCGCACAG
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
* * * * *
86603152 TCTGTCACACGGCCTGCCATACGGTCGTGTGACCTACACAG
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
* * ** * * * **
86603193 CCTGTCACATGGCCTACCACACGATCGTGTGACCCACATGG
1 TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
86603234 TCTGCCA
1 TCTGCCA
86603241 TATGGCCAGT
Statistics
Matches: 223, Mismatches: 66, Indels: 9
0.75 0.22 0.03
Matches are distributed among these distances:
40 27 0.12
41 194 0.87
42 2 0.01
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (41 bp):
TCTGCCACACAGCCTACCATATGGTCGTGTGACCCACACAG
Found at i:86604378 original size:20 final size:20
Alignment explanation
Indices: 86604353--86604393 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
86604343 GCGTTACAAC
*
86604353 TCTTAGTTCACTAACCTAAT
1 TCTTAGTTCACTAACCCAAT
86604373 TCTTAGTTCACTAACCCAAT
1 TCTTAGTTCACTAACCCAAT
86604393 T
1 T
86604394 TCTACTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (20 bp):
TCTTAGTTCACTAACCCAAT
Found at i:86606141 original size:2 final size:2
Alignment explanation
Indices: 86606134--86606175 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
86606124 TTGTCTTTCT
86606134 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86606175 T
1 T
86606176 TGTATTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86623949 original size:113 final size:114
Alignment explanation
Indices: 86623721--86623947 Score: 273
Period size: 114 Copynumber: 2.0 Consensus size: 114
86623711 TAAAAAAAAA
* * ** *
86623721 TTGGTTCTGGCCTTCTTATGGCCGGCACCAGGTAAGAAAAAAATTTTAAATTCTTTTAGGTGCTG
1 TTGGTTCTAGCCTTCTAATGGCCAACACCAAGTAAGAAAAAAATTTTAAATTCTTTTAGGTGCTG
* * * *
86623786 GCCTTTTAATAACTAGCACCAGATTACCAGTATTTAAAAAAAATTATTT
66 GCCTTCTAATAACGAGCACCAGAGTAACAGTATTTAAAAAAAATTATTT
* * * *
86623835 TTGGTTCTAGCCTTCTAATGGTCAACACCAAGTACGAAAAAAA-TTTAAATTTTTTTAGGTGCTT
1 TTGGTTCTAGCCTTCTAATGGCCAACACCAAGTAAGAAAAAAATTTTAAATTCTTTTAGGTGCTG
** *
86623899 GCCTTCTAATGGCCGA-CACCA-AGTAACAGTATTT-AAAAAAATTCTTT
66 GCCTTCTAAT-AACGAGCACCAGAGTAACAGTATTTAAAAAAAATTATTT
86623946 TT
1 TT
86623948 TTTTTTTTTG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
111 14 0.15
112 11 0.11
113 33 0.34
114 38 0.40
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (114 bp):
TTGGTTCTAGCCTTCTAATGGCCAACACCAAGTAAGAAAAAAATTTTAAATTCTTTTAGGTGCTG
GCCTTCTAATAACGAGCACCAGAGTAACAGTATTTAAAAAAAATTATTT
Found at i:86624245 original size:165 final size:164
Alignment explanation
Indices: 86623728--86624304 Score: 515
Period size: 165 Copynumber: 3.4 Consensus size: 164
86623718 AAATTGGTTC
* * * * *
86623728 TGGCCTTCTTATGGCCGGCACCAGGTAAGAAAAAAATTTTAAATTCTTTTAGGTGCTGGCCTTTT
1 TGGCCTTCTAATGGCCGGCACCAGATACGAAAAAAATTTTAAATTTTTTTAGGTGCTGGCCTTCT
** * *
86623793 AATAACT-AGCACCAGATTACCAGTATTTAAAAAAAATTATTTTTGGTTCTAGCCTTCTAATGGT
66 AATGGCTGA-CACCAGACTACCAGTATTTAAAAAAAA--A----TGGTTCTGGCCTTCTAATGGT
* *
86623857 CAACACCAAGTACGAAAA-AAATTTAAATTTTTTTAGGTGCT
124 CAACACCAGGTACGAAAATAAATTTAATTTTTTTTAGGTG-T
* *** ** *
86623898 T-GCCTTCTAATGGCCGACACCA-AGTAACAGTATTTAAAAAAATTCTTTTTTTTTTTTTTGTTC
1 TGGCCTTCTAATGGCCGGCACCAGA-T-AC-G-----AAAAAAATT-TTAAATTTTTTTAGGTGC
*
86623961 TGGCCTTCTAATGGCCTG-CACTAGACTACCAGTATTTAAAAAAAAAATGGTTCTGGCCTTCTAA
57 TGGCCTTCTAATGG-CTGACACCAGACTACCAGTATTT-AAAAAAAAATGGTTCTGGCCTTCTAA
* ** * * * **
86624025 TGGTCAGCATTAGGTACCAATATTTAATTTTTTTTTTTTTTA-GT-T
120 TGGTCAACACCAGGTACGAA-A-ATAAATTTAATTTTTTTTAGGTGT
* * *
86624070 ATGACCTTCTAATGGCTGGCACCAGATACGAAAAAAAAGTTTAAATTTTTTTAGGTGCTGGCCTT
1 -TGGCCTTCTAATGGCCGGCACCAGATACG-AAAAAAATTTTAAATTTTTTTAGGTGCTGGCCTT
* * *
86624135 CTAATGGCTGACACCAAACTACCAGTATTT-AAAAAAAATGGTTTTGGCCTTCTAATGGCCAACA
64 CTAATGGCTGACACCAGACTACCAGTATTTAAAAAAAAATGGTTCTGGCCTTCTAATGGTCAACA
*
86624199 CCAGGTACGAAAATAAAGTTCAATTTTTTTTAGGTGT
129 CCAGGTACGAAAATAAA-TTTAATTTTTTTTAGGTGT
* * * * * *
86624236 TGGCCTTCTAAAGGCCGGCACTAGGTACGAAAAAAA-TTCAATTTTTTTTAAGTGCTGGCCTTCT
1 TGGCCTTCTAATGGCCGGCACCAGATACGAAAAAAATTTTAAATTTTTTTAGGTGCTGGCCTTCT
86624300 AATGG
66 AATGG
86624305 ATTTTTTTTT
Statistics
Matches: 326, Mismatches: 59, Indels: 51
0.75 0.14 0.12
Matches are distributed among these distances:
163 33 0.10
164 19 0.06
165 65 0.20
166 4 0.01
167 43 0.13
168 8 0.02
169 20 0.06
170 2 0.01
171 1 0.00
172 33 0.10
173 4 0.01
174 21 0.06
175 14 0.04
176 10 0.03
177 39 0.12
178 10 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (164 bp):
TGGCCTTCTAATGGCCGGCACCAGATACGAAAAAAATTTTAAATTTTTTTAGGTGCTGGCCTTCT
AATGGCTGACACCAGACTACCAGTATTTAAAAAAAAATGGTTCTGGCCTTCTAATGGTCAACACC
AGGTACGAAAATAAATTTAATTTTTTTTAGGTGT
Found at i:86624301 original size:55 final size:57
Alignment explanation
Indices: 86624179--86624301 Score: 178
Period size: 57 Copynumber: 2.2 Consensus size: 57
86624169 AAAATGGTTT
* * *
86624179 TGGCCTTCTAATGGCCAACACCAGGTACGAAAATAAAGTTCAATTTTTTTTAGGTGT
1 TGGCCTTCTAAAGGCCAACACCAGGTACGAAAATAAAGTTCAATTTTTTTTAAGTGC
** *
86624236 TGGCCTTCTAAAGGCCGGCACTAGGTACGAAAA-AAA-TTCAATTTTTTTTAAGTGC
1 TGGCCTTCTAAAGGCCAACACCAGGTACGAAAATAAAGTTCAATTTTTTTTAAGTGC
86624291 TGGCCTTCTAA
1 TGGCCTTCTAA
86624302 TGGATTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 28 0.47
56 3 0.05
57 29 0.48
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (57 bp):
TGGCCTTCTAAAGGCCAACACCAGGTACGAAAATAAAGTTCAATTTTTTTTAAGTGC
Found at i:86624522 original size:109 final size:110
Alignment explanation
Indices: 86624351--86624618 Score: 339
Period size: 110 Copynumber: 2.4 Consensus size: 110
86624341 GTCAGCACCT
* *
86624351 AAAAAAATTTGAATTTTTTTGTACCAGGTGCCGGCCATTAGAAGGCCA-ATAAT-TTTTTTTTTT
1 AAAAAAATTTGAATTTTTTTGTACCTGGTGCCGGCCATTAGAAGGCCAGATAATAATTTTTTTTT
* *
86624414 GTAAATATTGGT-ACTTGGTGCAGGCCATTAGAAGGCCAACAGCTA
66 GTAAATACTGGTAAC-TGGTGCAGACCATTAGAAGGCCAACAGCTA
* * *
86624459 AAAAAAATTTGAATTTTTTTCGTACTTGGTGCCGGCCATTAGAAGACCAGA-ACTAATTTTTTTT
1 AAAAAAATTTGAATTTTTTT-GTACCTGGTGCCGGCCATTAGAAGGCCAGATAATAATTTTTTTT
* * * **
86624523 TTTAAATACTGGTAGACTGGTGCTGACCATTAGAAGGCTAACATTTA
65 TGTAAATACTGGTA-ACTGGTGCAGACCATTAGAAGGCCAACAGCTA
* *
86624570 AAAAAAA-TTGAATTTTTTTTGTACCTGGTGCCAGCCATTACAAGGCCAG
1 AAAAAAATTTGAA-TTTTTTTGTACCTGGTGCCGGCCATTAGAAGGCCAG
86624619 CACCTAAAAG
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
108 20 0.14
109 27 0.20
110 50 0.36
111 39 0.28
112 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (110 bp):
AAAAAAATTTGAATTTTTTTGTACCTGGTGCCGGCCATTAGAAGGCCAGATAATAATTTTTTTTT
GTAAATACTGGTAACTGGTGCAGACCATTAGAAGGCCAACAGCTA
Found at i:86624577 original size:111 final size:110
Alignment explanation
Indices: 86624351--86624618 Score: 350
Period size: 111 Copynumber: 2.4 Consensus size: 110
86624341 GTCAGCACCT
*
86624351 AAAAAAATTTGAATTTTTTTGTACCAGGTGCCGGCCATTAGAAGGCC--AATAATTTTTTTTTTT
1 AAAAAAATTTGAATTTTTTTGTACCTGGTGCCGGCCATTAGAAGGCCAGAATAATTTTTTTTTTT
* *
86624414 GTAAATATTGGTACTTGGTGCAGGCCATTAGAAGGCCAACAGCTA
66 GTAAATACTGGTACTTGGTGCAGACCATTAGAAGGCCAACAGCTA
* *
86624459 AAAAAAATTTGAATTTTTTTCGTACTTGGTGCCGGCCATTAGAAGACCAGAACTAA-TTTTTTTT
1 AAAAAAATTTGAATTTTTTT-GTACCTGGTGCCGGCCATTAGAAGGCCAGAA-TAATTTTTTTTT
* * **
86624523 TT-TAAATACTGGTAGAC-TGGTGCTGACCATTAGAAGGCTAACATTTA
64 TTGTAAATACTGGT--ACTTGGTGCAGACCATTAGAAGGCCAACAGCTA
* *
86624570 AAAAAAA-TTGAATTTTTTTTGTACCTGGTGCCAGCCATTACAAGGCCAG
1 AAAAAAATTTGAA-TTTTTTTGTACCTGGTGCCGGCCATTAGAAGGCCAG
86624619 CACCTAAAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
108 20 0.14
109 24 0.17
110 40 0.29
111 51 0.36
112 5 0.04
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (110 bp):
AAAAAAATTTGAATTTTTTTGTACCTGGTGCCGGCCATTAGAAGGCCAGAATAATTTTTTTTTTT
GTAAATACTGGTACTTGGTGCAGACCATTAGAAGGCCAACAGCTA
Found at i:86624583 original size:110 final size:109
Alignment explanation
Indices: 86624318--86624618 Score: 344
Period size: 111 Copynumber: 2.8 Consensus size: 109
86624308 TTTTTTTTCA
* * * * * * *
86624318 TACTTGGTGCCAG-CAAGTAGAAGGTCAGCACCTAAAAAAATTTGAATTTTTTTGTACCAGGTGC
1 TACTTGGTG-CAGACCATTAGAAGGCCAACAGCTAAAAAAAATTGAATTTTTTTGTACCTGGTGC
*
86624382 CGGCCATTAGAAGGCC--AATAATTTTTTTTTTTGTAAATATTGG
65 CGGCCATTAGAAGGCCAGAATAATTTTTTTTTTTGTAAATACTGG
* *
86624425 TACTTGGTGCAGGCCATTAGAAGGCCAACAGCTAAAAAAAATTTGAATTTTTTTCGTACTTGGTG
1 TACTTGGTGCAGACCATTAGAAGGCCAACAGCTAAAAAAAA-TTGAATTTTTTT-GTACCTGGTG
*
86624490 CCGGCCATTAGAAGACCAGAACTAA-TTTTTTTTTT-TAAATACTGG
64 CCGGCCATTAGAAGGCCAGAA-TAATTTTTTTTTTTGTAAATACTGG
* * **
86624535 TAGAC-TGGTGCTGACCATTAGAAGGCTAACATTTAAAAAAAATTGAATTTTTTTTGTACCTGGT
1 T--ACTTGGTGCAGACCATTAGAAGGCCAACAGCTAAAAAAAATTGAA-TTTTTTTGTACCTGGT
* *
86624599 GCCAGCCATTACAAGGCCAG
63 GCCGGCCATTAGAAGGCCAG
86624619 CACCTAAAAG
Statistics
Matches: 166, Mismatches: 19, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
106 3 0.02
107 31 0.19
108 12 0.07
109 24 0.14
110 40 0.24
111 51 0.31
112 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (109 bp):
TACTTGGTGCAGACCATTAGAAGGCCAACAGCTAAAAAAAATTGAATTTTTTTGTACCTGGTGCC
GGCCATTAGAAGGCCAGAATAATTTTTTTTTTTGTAAATACTGG
Found at i:86624608 original size:55 final size:56
Alignment explanation
Indices: 86624549--86624673 Score: 137
Period size: 56 Copynumber: 2.2 Consensus size: 56
86624539 CTGGTGCTGA
* ** *
86624549 CCATTAGAAGGCTAACATTTAAAAAAAATT-GAATTTTTTT-TGTACCTGGTGCCAG
1 CCATTAGAAGGCCAACACCT-AAAAAAATTAAAATTTTTTTCTGTACCTGGTGCCAG
* * * * *
86624604 CCATTACAAGGCCAGCACCTAAAAGAATTAAAATTTTTTTCTGTACTTGGTGTCAG
1 CCATTAGAAGGCCAACACCTAAAAAAATTAAAATTTTTTTCTGTACCTGGTGCCAG
*
86624660 CCATTAGAATGCCA
1 CCATTAGAAGGCCA
86624674 GAATCAAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
54 8 0.14
55 24 0.42
56 25 0.44
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (56 bp):
CCATTAGAAGGCCAACACCTAAAAAAATTAAAATTTTTTTCTGTACCTGGTGCCAG
Found at i:86624723 original size:166 final size:166
Alignment explanation
Indices: 86624424--86624726 Score: 400
Period size: 166 Copynumber: 1.8 Consensus size: 166
86624414 GTAAATATTG
* * * **
86624424 GTACTTGGTGCAGGCCATTAGAAGGCCAACAGCTAAAAAAAATTTGAATTTTTTTCGTACTTGGT
1 GTACCTGGTGCAGGCCATTACAAGGCCAACACCTAAAAAAAATTAAAATTTTTTTCGTACTTGGT
* * * *
86624489 GCCGGCCATTAGAAGACCAGAACTAATTTTTTTTTTTAAATACTGGTAGACTGGTGCTGACCATT
66 GCCAGCCATTAGAAGACCAGAACTAAATTTTTTTTTTAAATACTGGTAGACCGGTGCAGACCATT
86624554 AGAAGGCTAACATTTAAAAAAAATTGAATTTTTTTT
131 AGAAGGCTAACATTTAAAAAAAATTGAATTTTTTTT
* *
86624590 GTACCTGGTGCCA-GCCATTACAAGGCCAGCACCT-AAAAGAATTAAAATTTTTTTCTGTACTTG
1 GTACCTGGTG-CAGGCCATTACAAGGCCAACACCTAAAAAAAATTAAAATTTTTTTC-GTACTTG
* *
86624653 GTGTCAGCCATTAGAATG-CCAGAA-TCAAATTTTTTTTTTAAATACTGGTAGTCCGGTGCCAG-
64 GTGCCAGCCATTAGAA-GACCAGAACT-AAATTTTTTTTTTAAATACTGGTAGACCGGTG-CAGA
*
86624715 CTATTAGAAGGC
126 CCATTAGAAGGC
86624727 CAGAATTAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
165 19 0.16
166 94 0.80
167 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (166 bp):
GTACCTGGTGCAGGCCATTACAAGGCCAACACCTAAAAAAAATTAAAATTTTTTTCGTACTTGGT
GCCAGCCATTAGAAGACCAGAACTAAATTTTTTTTTTAAATACTGGTAGACCGGTGCAGACCATT
AGAAGGCTAACATTTAAAAAAAATTGAATTTTTTTT
Found at i:86627022 original size:20 final size:19
Alignment explanation
Indices: 86626997--86627076 Score: 79
Period size: 20 Copynumber: 4.1 Consensus size: 19
86626987 CATATCAATA
* *
86626997 TTTACCAAGATTTTTAAGG
1 TTTACCAAAATTTCTAAGG
86627016 TTTTACCAAAATTTCTAAGG
1 -TTTACCAAAATTTCTAAGG
* * *
86627036 TTTACCACAATATCTATGG
1 TTTACCAAAATTTCTAAGG
* *
86627055 ATTTATCAAAATTTATAAGG
1 -TTTACCAAAATTTCTAAGG
86627075 TT
1 TT
86627077 CTGCCATAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 18 0.37
20 31 0.63
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTACCAAAATTTCTAAGG
Found at i:86627128 original size:20 final size:20
Alignment explanation
Indices: 86627096--86627149 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
86627086 TGGTAAATTT
* *
86627096 CAAAAATTATAAGGATTTAC
1 CAAAAATTTTAAGGAGTTAC
* * *
86627116 TAAAATTTTTAAGGCGTTAC
1 CAAAAATTTTAAGGAGTTAC
86627136 CAAAAATTTTAAGG
1 CAAAAATTTTAAGG
86627150 TAATACCAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (20 bp):
CAAAAATTTTAAGGAGTTAC
Found at i:86627289 original size:38 final size:37
Alignment explanation
Indices: 86627247--86627320 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 37
86627237 TCTAGACTCG
86627247 ATCAACTCAACATTTTGGCCAATAAAAAAAAATCTAAA
1 ATCAACTCAACATTTTGGCCAAT-AAAAAAAATCTAAA
*
86627285 ATCAACTCAACATTTTGGCCAATCAAAAAAATCTAA
1 ATCAACTCAACATTTTGGCCAATAAAAAAAATCTAA
86627321 GGACTTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 12 0.34
38 23 0.66
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.24
Consensus pattern (37 bp):
ATCAACTCAACATTTTGGCCAATAAAAAAAATCTAAA
Found at i:86627421 original size:40 final size:39
Alignment explanation
Indices: 86627377--86627514 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 39
86627367 TTAGATATTT
86627377 AAATTTTGTTAAAT-CTATAAATATTTTGATATAACTTTAG
1 AAATTTTG-TAAATCCT-TAAATATTTTGATATAACTTTAG
* ** * *
86627417 AAATTTGGGTAAATCCTTAGGTATTTTGGTATAACGTTAG
1 AAATTT-TGTAAATCCTTAAATATTTTGATATAACTTTAG
86627457 AAAGTTTTGTAAATCCTCGT-AA-ATTTTGATA-AATCTTTAG
1 AAA-TTTTGTAAATCCT--TAAATATTTTGATATAA-CTTTAG
*
86627497 AAATTTTAGAAAATCCTT
1 AAATTTT-GTAAATCCTT
86627515 GGAAATTTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
38 1 0.01
39 6 0.08
40 66 0.82
41 6 0.08
42 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (39 bp):
AAATTTTGTAAATCCTTAAATATTTTGATATAACTTTAG
Found at i:86627422 original size:20 final size:19
Alignment explanation
Indices: 86627377--86627503 Score: 53
Period size: 20 Copynumber: 6.4 Consensus size: 19
86627367 TTAGATATTT
* *
86627377 AAATTTTGTTAAATCTATA-
1 AAATTTTGATAAA-CTTTAG
86627396 AATATTTTGATATAACTTTAG
1 AA-ATTTTGATA-AACTTTAG
* * *
86627417 AAATTTGGGTAAATCCTTAG
1 AAATTTTGATAAA-CTTTAG
** * *
86627437 GTATTTTGGTATAACGTTAG
1 AAATTTTGATA-AACTTTAG
* *
86627457 AAAGTTTTG-TAAA-TCCTCG
1 AAA-TTTTGATAAACT-TTAG
86627476 TAAATTTTGATAAATCTTTAG
1 -AAATTTTGATAAA-CTTTAG
86627497 AAATTTT
1 AAATTTT
86627504 AGAAAATCCT
Statistics
Matches: 81, Mismatches: 16, Indels: 21
0.69 0.14 0.18
Matches are distributed among these distances:
19 13 0.16
20 54 0.67
21 13 0.16
22 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (19 bp):
AAATTTTGATAAACTTTAG
Found at i:86627510 original size:20 final size:21
Alignment explanation
Indices: 86627453--86627525 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
86627443 TGGTATAACG
86627453 TTAGAAAGTTTT-G-TAAATCC
1 TTAGAAA-TTTTAGATAAATCC
* *
86627473 -TCGTAAATTTT-GATAAATCT
1 TTAG-AAATTTTAGATAAATCC
86627493 TTAGAAATTTTAGA-AAATCC
1 TTAGAAATTTTAGATAAATCC
*
86627513 TTGGAAATTTTAG
1 TTAGAAATTTTAG
86627526 CATGCCAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.16
20 33 0.75
21 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (21 bp):
TTAGAAATTTTAGATAAATCC
Found at i:86627521 original size:40 final size:39
Alignment explanation
Indices: 86627399--86627523 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 39
86627389 ATCTATAAAT
* *
86627399 ATTTTGATATAACTTTAGAAATTTGGGTAAATCCTTAGG-T
1 ATTTTGATATAACTTTAGAAATTT-TGTAAATCCTT-GGAA
* * * *
86627439 ATTTTGGTATAACGTTAGAAAGTTTTGTAAATCCTCGTAA
1 ATTTTGATATAACTTTAGAAA-TTTTGTAAATCCTTGGAA
*
86627479 ATTTTGATA-AATCTTTAGAAATTTTAGAAAATCCTTGGAA
1 ATTTTGATATAA-CTTTAGAAATTTT-GTAAATCCTTGGAA
86627519 ATTTT
1 ATTTT
86627524 AGCATGCCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 7 0.10
40 60 0.86
41 3 0.04
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (39 bp):
ATTTTGATATAACTTTAGAAATTTTGTAAATCCTTGGAA
Found at i:86627636 original size:20 final size:21
Alignment explanation
Indices: 86627576--86627710 Score: 91
Period size: 20 Copynumber: 6.6 Consensus size: 21
86627566 GAAATCTTTT
* *
86627576 GAAATTTTAGTAAAAACCCTTA
1 GAAATTTTAGT-ATAATCCTTA
* * *
86627598 GATATATTAATA-AATCCTTA
1 GAAATTTTAGTATAATCCTTA
86627618 GAAATTTTAGTATAA-CCTTA
1 GAAATTTTAGTATAATCCTTA
* *
86627638 AAAATTCTAGTA-AATCCTTA
1 GAAATTTTAGTATAATCCTTA
* * *
86627658 CATATTTTGGTATAA-CCTTA
1 GAAATTTTAGTATAATCCTTA
* * * * *
86627678 TAAACTTCAATAAAAT-CTTA
1 GAAATTTTAGTATAATCCTTA
86627698 GAAATTTTAGTAT
1 GAAATTTTAGTAT
86627711 GCCAAAATGT
Statistics
Matches: 84, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.02
20 69 0.82
21 5 0.06
22 8 0.10
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
GAAATTTTAGTATAATCCTTA
Found at i:86627652 original size:40 final size:40
Alignment explanation
Indices: 86627606--86627710 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
86627596 TAGATATATT
86627606 AATAAATCCTTAGAAATTTTAGTATAACCTTA-AAAATTC
1 AATAAATCCTTAGAAATTTTAGTATAACCTTATAAAATTC
* * * * *
86627645 TAGTAAATCCTTACATATTTTGGTATAACCTTATAAACTTC
1 -AATAAATCCTTAGAAATTTTAGTATAACCTTATAAAATTC
86627686 AATAAAAT-CTTAGAAATTTTAGTAT
1 AAT-AAATCCTTAGAAATTTTAGTAT
86627711 GCCAAAATGT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 44 0.81
41 10 0.19
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (40 bp):
AATAAATCCTTAGAAATTTTAGTATAACCTTATAAAATTC
Found at i:86634354 original size:15 final size:16
Alignment explanation
Indices: 86634323--86634355 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
86634313 ATTTTCTGAA
*
86634323 ATTTTTAACATTTTAT
1 ATTTTTAACATTATAT
86634339 ATTTTTAACA-TATAT
1 ATTTTTAACATTATAT
86634354 AT
1 AT
86634356 GCATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTTAACATTATAT
Found at i:86636440 original size:8 final size:8
Alignment explanation
Indices: 86636427--86636451 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
86636417 AGTGCGACCA
86636427 CCACTTTT
1 CCACTTTT
86636435 CCACTTTT
1 CCACTTTT
86636443 CCACTTTT
1 CCACTTTT
86636451 C
1 C
86636452 TTATCTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (8 bp):
CCACTTTT
Found at i:86644116 original size:26 final size:26
Alignment explanation
Indices: 86644087--86644146 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
86644077 TCCCTTTGAA
* * *
86644087 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
86644113 TCATCCTCAATATCTCGCACACTAAGTG
1 TCAT--TCAATATCTCGCACACTAAGTG
*
86644141 CCATTC
1 TCATTC
86644147 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.21
28 22 0.79
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:86644125 original size:28 final size:28
Alignment explanation
Indices: 86644094--86644172 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
86644084 GAATCATTCG
* *
86644094 ATATTTTGCACACTAAGTGTCATCCTCA
1 ATATTTCGCACACTAAGTGCCATCCTCA
* *
86644122 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATCCTCA
* * *
86644150 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
86644173 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATCCTCA
Found at i:86646356 original size:13 final size:13
Alignment explanation
Indices: 86646340--86646364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86646330 TATCCATTTT
86646340 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
86646353 AAAAAAAAAAAA
1 AAAAAAAAAAAA
86646365 AACATCTATT
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:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:86646360 original size:15 final size:15
Alignment explanation
Indices: 86646340--86646368 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
86646330 TATCCATTTT
86646340 AAAAAAAAAAAACAA
1 AAAAAAAAAAAACAA
86646355 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
86646369 TCTATTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAACAA
Found at i:86648862 original size:29 final size:30
Alignment explanation
Indices: 86648809--86648888 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 30
86648799 ATTTTAAAAC
86648809 TATATATGAACTTTTG-TTTAATATGC-AATT
1 TATATATGAAC-TTTGATTT-ATATGCAAATT
86648839 ATATATATGAACTTTGATTT-TATGCAAATT
1 -TATATATGAACTTTGATTTATATGCAAATT
* *
86648869 TATACATGAAATTTTGATTT
1 TATATATG-AACTTTGATTT
86648889 GATCAAGTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 12 0.27
30 18 0.41
31 14 0.32
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (30 bp):
TATATATGAACTTTGATTTATATGCAAATT
Found at i:86648872 original size:31 final size:30
Alignment explanation
Indices: 86648809--86648884 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 30
86648799 ATTTTAAAAC
86648809 TATATATGAACTTTTGTTTAATATGCAATTA
1 TATATATGAACTTTTGTTT-ATATGCAATTA
86648840 TATATATGAAC-TTTGATTT-TATGCAAATT-
1 TATATATGAACTTTTG-TTTATATGC-AATTA
* *
86648869 TATACATGAAATTTTG
1 TATATATGAACTTTTG
86648885 ATTTGATCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 14 0.35
30 12 0.30
31 14 0.35
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (30 bp):
TATATATGAACTTTTGTTTATATGCAATTA
Found at i:86648991 original size:31 final size:31
Alignment explanation
Indices: 86648956--86649016 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
86648946 TATATGTTGA
* *
86648956 TTGAATCAAAATTAAAATTTCATGCATATAT
1 TTGAACCAAAATCAAAATTTCATGCATATAT
* *
86648987 TTGAACCACAATCAAAGTTTCATGCATATA
1 TTGAACCAAAATCAAAATTTCATGCATATA
86649017 ATTGCATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (31 bp):
TTGAACCAAAATCAAAATTTCATGCATATAT
Found at i:86649430 original size:2 final size:2
Alignment explanation
Indices: 86649423--86649452 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
86649413 CAATCCCTTT
86649423 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
86649453 TTCATGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86650268 original size:21 final size:23
Alignment explanation
Indices: 86650223--86650275 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
86650213 AAATAAAATT
*
86650223 TAAAAATATATATTAGAATTAAA
1 TAAAAATAAATATTAGAATTAAA
*
86650246 TAAAAATAAAT-TTTGAA-TAAA
1 TAAAAATAAATATTAGAATTAAA
86650267 T-AAAATAAA
1 TAAAAATAAA
86650276 AATATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 5 0.18
22 5 0.18
23 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAAAATAAATATTAGAATTAAA
Found at i:86650283 original size:21 final size:21
Alignment explanation
Indices: 86650242--86650287 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
86650232 ATATTAGAAT
* *
86650242 TAAATAAAAATAAATTTTGAA
1 TAAATAAAAATAAAATATGAA
86650263 TAAAT-AAAATAAAAATATGAA
1 TAAATAAAAAT-AAAATATGAA
86650284 -AAAT
1 TAAAT
86650288 TTTAAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAATAAAAATAAAATATGAA
Found at i:86650486 original size:18 final size:17
Alignment explanation
Indices: 86650465--86650499 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
86650455 AAAATAAATT
86650465 ATAAACAATAAATTAAAA
1 ATAAACAATAAA-TAAAA
86650483 ATAAACAATAAATAAAA
1 ATAAACAATAAATAAAA
86650500 TTGCCATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
ATAAACAATAAATAAAA
Found at i:86658362 original size:24 final size:24
Alignment explanation
Indices: 86658335--86658424 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 24
86658325 CTAACAACAT
*
86658335 GGGAGGAATGCCTTACAACAATAG
1 GGGAGGAATGCCTTCCAACAATAG
* **
86658359 GGGAGGTATGCCAGCCAACAATATGGG
1 GGGAGGAATGCCTTCCAACAATA---G
*
86658386 GGGAGGAATGCCTCCTCCTAACAATAT
1 GGGAGGAATGCCT--TCC-AACAATAG
86658413 GGGAGGAATGCC
1 GGGAGGAATGCC
86658425 GCCGCGGAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 19 0.37
27 24 0.46
29 2 0.04
30 7 0.13
ACGTcount: A:0.31, C:0.20, G:0.32, T:0.17
Consensus pattern (24 bp):
GGGAGGAATGCCTTCCAACAATAG
Found at i:86658416 original size:27 final size:27
Alignment explanation
Indices: 86658386--86658592 Score: 234
Period size: 27 Copynumber: 7.4 Consensus size: 27
86658376 ACAATATGGG
* *
86658386 GGGAGGAATGCCTCCTCCTAACAATAT
1 GGGAGGAATGCCGCCTCCTAACAACAT
* **
86658413 GGGAGGAATGCCGCCGCGGAACAACAT
1 GGGAGGAATGCCGCCTCCTAACAACAT
*
86658440 GGGAGGAGGAATGCCGCCTCCTAACAATAT
1 --G-GGAGGAATGCCGCCTCCTAACAACAT
* * **
86658470 GGGAGGAATGCCACCGCGGAACAACAT
1 GGGAGGAATGCCGCCTCCTAACAACAT
* *
86658497 GGGAGGAGGAATGCCGCCTTCTAACAATAT
1 --G-GGAGGAATGCCGCCTCCTAACAACAT
86658527 GGGAGGAATGCCGCCTCCTAACAACAT
1 GGGAGGAATGCCGCCTCCTAACAACAT
86658554 GGGAGGAATGCCGCCTCCTAACAACAT
1 GGGAGGAATGCCGCCTCCTAACAACAT
* *
86658581 GGGTGGGATGCC
1 GGGAGGAATGCC
86658593 ACCAGGTCCA
Statistics
Matches: 150, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
27 104 0.69
28 2 0.01
29 2 0.01
30 42 0.28
ACGTcount: A:0.29, C:0.25, G:0.31, T:0.15
Consensus pattern (27 bp):
GGGAGGAATGCCGCCTCCTAACAACAT
Found at i:86658460 original size:57 final size:57
Alignment explanation
Indices: 86658375--86658592 Score: 316
Period size: 57 Copynumber: 3.9 Consensus size: 57
86658365 TATGCCAGCC
* * *
86658375 AACAATATGGGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCCGCCGCGG
1 AACAACATGGGAGGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCGCCGCGG
*
86658432 AACAACATGGGAGGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCACCGCGG
1 AACAACATGGGAGGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCGCCGCGG
* * **
86658489 AACAACATGGGAGGAGGAATGCCGCCTTCTAACAATATGGGAGGAATGCCGCCTCCT
1 AACAACATGGGAGGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCGCCGCGG
* * *
86658546 AACAACAT--G-GGAGGAATGCCGCCTCCTAACAACATGGGTGGGATGCC
1 AACAACATGGGAGGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCC
86658593 ACCAGGTCCA
Statistics
Matches: 148, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
54 34 0.23
55 1 0.01
57 113 0.76
ACGTcount: A:0.30, C:0.24, G:0.31, T:0.15
Consensus pattern (57 bp):
AACAACATGGGAGGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCGCCGCGG
Found at i:86658478 original size:84 final size:81
Alignment explanation
Indices: 86658386--86658592 Score: 236
Period size: 84 Copynumber: 2.5 Consensus size: 81
86658376 ACAATATGGG
* *
86658386 GGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCCGCC-GCGGAACAACATGGGAGGAGGA
1 GGGAGGAATGCCACCTCCTAACAACATGGGAGGAATGCCGCCTGC-GAACAACAT--G-GGAGGA
*
86658450 ATGCCGCCTCCTAACAATAT
62 ATGCCGCCTCCTAACAACAT
* ** * * *
86658470 GGGAGGAATGCCACCGCGGAACAACATGGGAGGAGGAATGCCGCCTTCTAACAATATGGGAGGAA
1 GGGAGGAATGCCACCTCCTAACAACAT--G-GGAGGAATGCCGCCTGCGAACAACATGGGAGGAA
86658535 TGCCGCCTCCTAACAACAT
63 TGCCGCCTCCTAACAACAT
* * *
86658554 GGGAGGAATGCCGCCTCCTAACAACATGGGTGGGATGCC
1 GGGAGGAATGCCACCTCCTAACAACATGGGAGGAATGCC
86658593 ACCAGGTCCA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
81 9 0.09
82 1 0.01
84 70 0.67
85 1 0.01
86 1 0.01
87 21 0.20
88 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.31, T:0.15
Consensus pattern (81 bp):
GGGAGGAATGCCACCTCCTAACAACATGGGAGGAATGCCGCCTGCGAACAACATGGGAGGAATGC
CGCCTCCTAACAACAT
Found at i:86661600 original size:12 final size:12
Alignment explanation
Indices: 86661583--86661615 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
86661573 CGATCAGTCA
86661583 ATATTAATTTTT
1 ATATTAATTTTT
86661595 ATATT-ATTTTT
1 ATATTAATTTTT
86661606 ATA-TAATTTT
1 ATATTAATTTT
86661616 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:86667758 original size:15 final size:15
Alignment explanation
Indices: 86667738--86667785 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
86667728 TTGTCTCAAA
86667738 TTATATTTTAATTAT
1 TTATATTTTAATTAT
86667753 TTATATTTTAA--AT
1 TTATATTTTAATTAT
* *
86667766 GTTATGTTTTAGTTAT
1 -TTATATTTTAATTAT
86667782 TTAT
1 TTAT
86667786 GTTATTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:86668105 original size:15 final size:15
Alignment explanation
Indices: 86668071--86668111 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
86668061 CGTAAGTGAA
*
86668071 TAAAATATAAA-ATT
1 TAAAATATAAATAAT
*
86668085 TTAAATATAAATAAT
1 TAAAATATAAATAAT
86668100 TAAAATATAAAT
1 TAAAATATAAAT
86668112 TGAGACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATATAAATAAT
Found at i:86669435 original size:16 final size:16
Alignment explanation
Indices: 86669414--86669444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86669404 TTTTTGATCC
*
86669414 TTTCTTGATAAAGTGA
1 TTTCTTAATAAAGTGA
86669430 TTTCTTAATAAAGTG
1 TTTCTTAATAAAGTG
86669445 GAAGACAATG
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:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (16 bp):
TTTCTTAATAAAGTGA
Found at i:86672584 original size:46 final size:46
Alignment explanation
Indices: 86672524--86672735 Score: 282
Period size: 46 Copynumber: 4.6 Consensus size: 46
86672514 TTTGACGTGA
* * * * * *
86672524 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * * *
86672570 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTTATGTCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
86672616 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86672662 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86672708 TGCCATGGTATCTTTCAACCATGGTCTT
1 TGCCATGGTATCTTTCAACCATGGTCTT
86672736 GCCATGGTAT
Statistics
Matches: 148, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 3 0.02
46 145 0.98
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:86672729 original size:16 final size:16
Alignment explanation
Indices: 86672710--86672759 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
86672700 TATCAGGTTG
86672710 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
86672726 CCATGG--TC-TT--G
1 CCATGGTATCTTTCAA
86672737 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
86672753 CCATGGT
1 CCATGGT
86672760 CTTACACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 6 0.22
13 4 0.15
14 4 0.15
16 13 0.48
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:86672740 original size:27 final size:27
Alignment explanation
Indices: 86672707--86672762 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
86672697 TCATATCAGG
86672707 TTGCCATGGTATCTTTCAACCATGGTC
1 TTGCCATGGTATCTTTCAACCATGGTC
86672734 TTGCCATGGTATCTTTCAACCATGGTC
1 TTGCCATGGTATCTTTCAACCATGGTC
86672761 TT
1 TT
86672763 ACACACAGGT
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:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (27 bp):
TTGCCATGGTATCTTTCAACCATGGTC
Found at i:86672785 original size:38 final size:38
Alignment explanation
Indices: 86672734--86672973 Score: 336
Period size: 38 Copynumber: 5.9 Consensus size: 38
86672724 AACCATGGTC
86672734 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
86672772 TTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGG
1 TTGCCATGGTATCTTTCAACCATGGTC-TT-ACA---C--A-CAGG
86672818 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
86672856 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGG
86672902 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
86672940 TTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACA
86672974 TTTCATATCA
Statistics
Matches: 186, Mismatches: 0, Indels: 32
0.85 0.00 0.15
Matches are distributed among these distances:
38 98 0.53
39 4 0.02
40 6 0.03
41 2 0.01
43 2 0.01
44 6 0.03
45 4 0.02
46 64 0.34
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (38 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
Found at i:86672820 original size:46 final size:46
Alignment explanation
Indices: 86672768--86672984 Score: 304
Period size: 46 Copynumber: 5.1 Consensus size: 46
86672758 GTCTTACACA
86672768 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
86672814 CAGGTTGCCATGGTATCTTTCAACCATGGTC-TT-ACA---C--A-
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
*
86672852 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
86672898 CAGGTTGCCATGGTATCTTTCAACCATGGTC-TT-ACA---C--A-
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
*
86672936 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
86672982 CAG
1 CAG
86672985 AGAGCACACT
Statistics
Matches: 152, Mismatches: 3, Indels: 32
0.81 0.02 0.17
Matches are distributed among these distances:
38 62 0.41
39 4 0.03
40 6 0.04
41 2 0.01
43 2 0.01
44 6 0.04
45 5 0.03
46 65 0.43
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (46 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATAT
Found at i:86672831 original size:84 final size:84
Alignment explanation
Indices: 86672734--86672984 Score: 493
Period size: 84 Copynumber: 3.0 Consensus size: 84
86672724 AACCATGGTC
86672734 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
*
86672799 TTTCACATTTCATATCAGG
66 TTACACATTTCATATCAGG
86672818 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
86672883 TTACACATTTCATATCAGG
66 TTACACATTTCATATCAGG
86672902 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
86672967 TTACACATTTCATATCAG
66 TTACACATTTCATATCAG
86672985 AGAGCACACT
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 166 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (84 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCAGG
Found at i:86672917 original size:195 final size:197
Alignment explanation
Indices: 86672568--86672930 Score: 597
Period size: 195 Copynumber: 1.8 Consensus size: 197
86672558 TTTCTGTCAT
* * * *
86672568 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTTATGTCAAGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAAGTTGCCATGGTATCTTTCA
86672633 ACCATGGTCTTACACATCTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 ACCATGGTCTTACACA--TC----TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
86672698 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCCATGGTATCTTTCAACCATGGTCTT
125 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCCATGGTATCTTTCAACCATGGTCTT
86672763 ACACACAG
190 ACACACAG
*
86672771 GTTGCCATGGTATCTTTCAACCATGGTCTT-TCACATTTCATATCAGGTTGCCATGGTATCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAT-ACATTTCATATCAAGTTGCCATGGTATCTTTC
86672835 AACCATGGTCTTACACA-C-AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
65 AACCATGGTCTTACACATCTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
86672898 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT
130 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT
86672931 ACACACAGGT
Statistics
Matches: 154, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
195 78 0.51
200 1 0.01
202 1 0.01
203 74 0.48
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (197 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAAGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATCTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
AGGTTGCCATGGTATCTTTCAACCATGGTCTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
AG
Found at i:86683051 original size:69 final size:69
Alignment explanation
Indices: 86682912--86683095 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
86682902 AAACTGTAAT
* * * * * **
86682912 CTCTAACACAATTAGTGAGAACAAAG-TCCCCAACTGTCATATTAAGGCTCGCAAGTGAAGAGTT
1 CTCTAACACAGTTAGTGAGAGCAAAGCT-CTCAGCTGTCATATTAAGACTCGCAAGTGAAGAGCC
**
86682976 GTAGC
65 ACAGC
* * *
86682981 CTCTAACATAGTTAGTGAGAGCAAAGCTCTCAGCTGTCATATTAAGACTTGTAAGTGAAGAGCCA
1 CTCTAACACAGTTAGTGAGAGCAAAGCTCTCAGCTGTCATATTAAGACTCGCAAGTGAAGAGCCA
86683046 CAGC
66 CAGC
* * * *
86683050 CTTTAACACAGTTAGCGAGAGCAAAACTCTCAGCTGCCATATTAAG
1 CTCTAACACAGTTAGTGAGAGCAAAGCTCTCAGCTGTCATATTAAG
86683096 GTTTGCAGAT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
69 96 0.99
70 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (69 bp):
CTCTAACACAGTTAGTGAGAGCAAAGCTCTCAGCTGTCATATTAAGACTCGCAAGTGAAGAGCCA
CAGC
Found at i:86683109 original size:69 final size:69
Alignment explanation
Indices: 86682978--86683135 Score: 183
Period size: 69 Copynumber: 2.3 Consensus size: 69
86682968 GAAGAGTTGT
* * * * * *
86682978 AGCCTCTAACATAGTTAGTGAGAGCAAAGCTCTCAGCTGTCATATTAAGACTTGTAAGTGAAGAG
1 AGCCTCTAACACAGTTAGCGAGAGCAAAACTCTCAGCTGCCATATTAAGACTTGCAAGTGAAGAA
86683043 CCAC
66 CCAC
* **
86683047 AGCCTTTAACACAGTTAGCGAGAGCAAAACTCTCAGCTGCCATATTAAGGTTTGC-AGATGAAGA
1 AGCCTCTAACACAGTTAGCGAGAGCAAAACTCTCAGCTGCCATATTAAGACTTGCAAG-TGAAGA
86683111 ACCAC
65 ACCAC
* * * *
86683116 AACCTCCAAAACTGTTAGCG
1 AGCCTCTAACACAGTTAGCG
86683136 CAGGCCCAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
68 2 0.03
69 72 0.97
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (69 bp):
AGCCTCTAACACAGTTAGCGAGAGCAAAACTCTCAGCTGCCATATTAAGACTTGCAAGTGAAGAA
CCAC
Found at i:86686287 original size:16 final size:16
Alignment explanation
Indices: 86686266--86686304 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
86686256 AAGCCACAAC
86686266 TAATTAACAA-TAAAAA
1 TAATTAA-AATTAAAAA
*
86686282 TAATTAAAATTAAAAG
1 TAATTAAAATTAAAAA
86686298 TAATTAA
1 TAATTAA
86686305 TTATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATTAAAATTAAAAA
Found at i:86686399 original size:15 final size:15
Alignment explanation
Indices: 86686379--86686408 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
86686369 AATGGGTGAA
86686379 AATAGCTGTTAAAGT
1 AATAGCTGTTAAAGT
86686394 AATAGCTGTTAAAGT
1 AATAGCTGTTAAAGT
86686409 GACTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
AATAGCTGTTAAAGT
Found at i:86694564 original size:27 final size:28
Alignment explanation
Indices: 86694527--86694666 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
86694517 AGCACGGCTG
* *
86694527 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
86694553 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
86694581 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
86694608 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
86694635 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
86694662 CCAGA
1 CCAGA
86694667 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:86696296 original size:26 final size:26
Alignment explanation
Indices: 86696260--86696444 Score: 270
Period size: 26 Copynumber: 7.2 Consensus size: 26
86696250 CATGAAATTC
86696260 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
86696286 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
86696312 TTATCATGGAACATTTACC-AACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
86696337 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
86696363 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
86696389 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
86696415 TTATCATG-GA-ATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
86696439 TTATCA
1 TTATCA
86696445 ATTTGTATCA
Statistics
Matches: 147, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
24 20 0.14
25 23 0.16
26 103 0.70
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:86696392 original size:77 final size:78
Alignment explanation
Indices: 86696260--86696444 Score: 295
Period size: 77 Copynumber: 2.4 Consensus size: 78
86696250 CATGAAATTC
* *
86696260 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAGCATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
86696325 TTTACC-AACCTA
66 TTTACCTAACCTA
* *
86696337 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAGCATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
86696402 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
86696415 TTATCATG--GAATTTACCTAACCTATTATCA
1 TTATCATGAAGCATTTACCTAACCCATTATCA
86696445 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
76 20 0.20
77 67 0.66
78 14 0.14
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAGCATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:86700435 original size:27 final size:28
Alignment explanation
Indices: 86700398--86700537 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
86700388 AGCATGGCTG
** *
86700398 CCAGA-ACAGATA-ATGTAACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
86700424 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
86700452 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
86700479 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
86700506 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
86700533 CCAGA
1 CCAGA
86700538 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.80
28 16 0.15
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:86702188 original size:26 final size:26
Alignment explanation
Indices: 86702152--86702339 Score: 308
Period size: 26 Copynumber: 7.2 Consensus size: 26
86702142 CATGAAATTC
*
86702152 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGGAACATTTACCTAACCT-A
* *
86702178 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
86702204 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
86702230 TTATCAT-GAAGCATTTACCTAACCCA
1 TTATCATGGAA-CATTTACCTAACCTA
86702256 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
86702282 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
86702308 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
86702334 TTATCA
1 TTATCA
86702340 ATTTGTATCA
Statistics
Matches: 154, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
25 3 0.02
26 147 0.95
27 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:86709899 original size:21 final size:21
Alignment explanation
Indices: 86709873--86709914 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
86709863 TTGGGAGTCT
86709873 TCTGGCATCTCTGAGGTGAAA
1 TCTGGCATCTCTGAGGTGAAA
86709894 TCTGGCATCTCTGAGGTGAAA
1 TCTGGCATCTCTGAGGTGAAA
86709915 AATGAAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TCTGGCATCTCTGAGGTGAAA
Found at i:86711958 original size:8 final size:8
Alignment explanation
Indices: 86711945--86711975 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
86711935 ATAAAAAAAA
86711945 CCCTAAAT
1 CCCTAAAT
86711953 CCCTAAAT
1 CCCTAAAT
86711961 CCCTAAAT
1 CCCTAAAT
86711969 CCCTAAA
1 CCCTAAA
86711976 CCCCCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (8 bp):
CCCTAAAT
Found at i:86711984 original size:16 final size:16
Alignment explanation
Indices: 86711949--86711984 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
86711939 AAAAAACCCT
* *
86711949 AAATCCCTAAATCCCT
1 AAATCCCTAAACCCCC
86711965 AAATCCCTAAACCCCC
1 AAATCCCTAAACCCCC
86711981 AAAT
1 AAAT
86711985 TCAAAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATCCCTAAACCCCC
Found at i:86712199 original size:32 final size:32
Alignment explanation
Indices: 86712130--86712201 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
86712120 AATATTCTTG
*
86712130 AAATCCCTAAAACTTTTACGAATCAAAATGTT
1 AAATCCCTAAAACTTTTACGAATCAAAATGTA
* * *
86712162 GAATCCCTAAAACTTTTAGGAAT-GAAATCGTA
1 AAATCCCTAAAACTTTTACGAATCAAAAT-GTA
86712194 AAATCCCT
1 AAATCCCT
86712202 TAGAACCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (32 bp):
AAATCCCTAAAACTTTTACGAATCAAAATGTA
Found at i:86714299 original size:12 final size:12
Alignment explanation
Indices: 86714282--86714324 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
86714272 CAATGTGATA
86714282 ATATTCATGCAG
1 ATATTCATGCAG
86714294 ATATTCAT-CTAG
1 ATATTCATGC-AG
86714306 -TATTCATGCAG
1 ATATTCATGCAG
86714317 ATATTCAT
1 ATATTCAT
86714325 CTAGTTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (12 bp):
ATATTCATGCAG
Found at i:86714313 original size:23 final size:23
Alignment explanation
Indices: 86714283--86714329 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
86714273 AATGTGATAA
86714283 TATTCATGCAGATATTCATCTAG
1 TATTCATGCAGATATTCATCTAG
86714306 TATTCATGCAGATATTCATCTAG
1 TATTCATGCAGATATTCATCTAG
86714329 T
1 T
86714330 TGAAGCCCTA
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:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (23 bp):
TATTCATGCAGATATTCATCTAG
Found at i:86715647 original size:21 final size:21
Alignment explanation
Indices: 86715604--86715647 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
86715594 TACACTATAT
* ** *
86715604 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
86715625 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
86715646 TT
1 TT
86715648 AACAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:86716068 original size:17 final size:17
Alignment explanation
Indices: 86716046--86716123 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 17
86716036 TAGTATAGTG
86716046 AAATATTAAAAATAAGT
1 AAATATTAAAAATAAGT
*
86716063 AAATATTTAAAA-AAG-
1 AAATATTAAAAATAAGT
**
86716078 --AT-TTATCAATACAGT
1 AAATATTAAAAATA-AGT
86716093 AAAATATTAAAAATAAGT
1 -AAATATTAAAAATAAGT
86716111 AAATATTTAAAAA
1 AAATA-TTAAAAA
86716124 ATATTTATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
12 4 0.09
13 3 0.06
14 2 0.04
16 3 0.06
17 16 0.34
18 12 0.26
19 7 0.15
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (17 bp):
AAATATTAAAAATAAGT
Found at i:86716074 original size:18 final size:18
Alignment explanation
Indices: 86716046--86716123 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 18
86716036 TAGTATAGTG
86716046 AAATA-TTAAAAATAAGT
1 AAATATTTAAAAATAAGT
86716063 AAATATTT-AAAA-AAG-
1 AAATATTTAAAAATAAGT
**
86716078 ----ATTTATCAATACAGT
1 AAATATTTAAAAATA-AGT
86716093 AAA-ATATTAAAAATAAGT
1 AAATAT-TTAAAAATAAGT
86716111 AAATATTTAAAAA
1 AAATATTTAAAAA
86716124 ATATTTATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 19
0.67 0.06 0.27
Matches are distributed among these distances:
11 4 0.09
12 2 0.04
13 1 0.02
14 2 0.04
16 3 0.06
17 9 0.19
18 17 0.36
19 9 0.19
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATATTTAAAAATAAGT
Found at i:86719801 original size:21 final size:21
Alignment explanation
Indices: 86719775--86719815 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
86719765 GTTGGGACAA
86719775 ATCTGGAATCTCTAAGGTGAG
1 ATCTGGAATCTCTAAGGTGAG
* *
86719796 ATCTGGCATCTCTGAGGTGA
1 ATCTGGAATCTCTAAGGTGA
86719816 AAAATGAAGT
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:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
ATCTGGAATCTCTAAGGTGAG
Found at i:86724482 original size:10 final size:9
Alignment explanation
Indices: 86724457--86724570 Score: 85
Period size: 9 Copynumber: 12.3 Consensus size: 9
86724447 AAAAATAAGG
86724457 AATATTATA
1 AATATTATA
86724466 AATATTATTA
1 AATATTA-TA
*
86724476 AACATTATA
1 AATATTATA
86724485 AATATTATAA
1 AATATTAT-A
86724495 ATATATTATGA
1 A-ATATTAT-A
*
86724506 AA-AATATGA
1 AATATTAT-A
86724515 AATATTATA
1 AATATTATA
*
86724524 AA-AATATA
1 AATATTATA
86724532 AA-ATTATTA
1 AATATTA-TA
*
86724541 AAAAGTTATA
1 AATA-TTATA
86724551 AA-ATTATA
1 AATATTATA
86724559 AA-ATTATGA
1 AATATTAT-A
86724568 AAT
1 AAT
86724571 TCTTTTGTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
8 22 0.25
9 35 0.39
10 20 0.22
11 12 0.13
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.38
Consensus pattern (9 bp):
AATATTATA
Found at i:86724503 original size:30 final size:29
Alignment explanation
Indices: 86724447--86724570 Score: 93
Period size: 30 Copynumber: 4.4 Consensus size: 29
86724437 TAAATCTATT
* * *
86724447 AAAAATAAGGAATATTAT-AAATATTATT
1 AAAAATATGAAATATTATAAAATATTATG
*
86724475 AAACATTAT-AAATATTATAAATATATTATG
1 AAA-AATATGAAATATTATAAA-ATATTATG
86724505 AAAAATATGAAATATTATAAAA-A-TAT-
1 AAAAATATGAAATATTATAAAATATTATG
* * *
86724531 AAAATTATTAAAAAGTTAT-AAA-ATTAT-
1 AAAAATATGAAATA-TTATAAAATATTATG
*
86724558 AAAATTATGAAAT
1 AAAAATATGAAAT
86724571 TCTTTTGTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
26 15 0.19
27 21 0.26
28 12 0.15
29 10 0.12
30 22 0.28
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATATGAAATATTATAAAATATTATG
Found at i:86724521 original size:19 final size:17
Alignment explanation
Indices: 86724457--86724561 Score: 79
Period size: 19 Copynumber: 5.7 Consensus size: 17
86724447 AAAAATAAGG
*
86724457 AATATTATAAATATTATTA
1 AATATTATAAA-AATA-TA
* *
86724476 AACATTATAAATATTATAA
1 AATATTATAAA-AATAT-A
86724495 ATATATTATGAAAAATATGA
1 A-ATATTAT-AAAAATAT-A
86724515 AATATTATAAAAATATA
1 AATATTATAAAAATATA
86724532 AA-ATTATTAAAAAGTTATA
1 AATATTA-TAAAAA--TATA
86724551 AA-ATTATAAAA
1 AATATTATAAAA
86724562 TTATGAAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.05
17 9 0.12
18 14 0.18
19 34 0.45
20 12 0.16
21 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (17 bp):
AATATTATAAAAATATA
Found at i:86725385 original size:121 final size:121
Alignment explanation
Indices: 86725171--86725405 Score: 407
Period size: 121 Copynumber: 1.9 Consensus size: 121
86725161 TTATTCAAAT
*
86725171 CTATTAAAGTTTTCAAATGTTGCCATTATTGAAACTTGAAACTTTTGGTACTAACTTGTTAGATT
1 CTATTAAAGTTTTCAAATGTTGCCATTATTGAAACTTGAAACTTTTGGTACTAAATTGTTAGATT
*
86725236 TTAAGCTTAGATATGAAAAATGACTAGTTTGTAAAGTAAAATTTGTTAGTTTAAAA
66 TTAAGCTTAGATATGAAAAAGGACTAGTTTGTAAAGTAAAATTTGTTAGTTTAAAA
* * *
86725292 CTATTAAAGTTTTCAAATGTTTCCATTATTGAATCTTGAATCTTTTGGTACTAAATTGTTAGATT
1 CTATTAAAGTTTTCAAATGTTGCCATTATTGAAACTTGAAACTTTTGGTACTAAATTGTTAGATT
* *
86725357 TTAATCTTAGATATGAAAAAGGACTAGTTTGTAAATTAAAATTTGTTAG
66 TTAAGCTTAGATATGAAAAAGGACTAGTTTGTAAAGTAAAATTTGTTAG
86725406 GGACTAATGT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 107 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (121 bp):
CTATTAAAGTTTTCAAATGTTGCCATTATTGAAACTTGAAACTTTTGGTACTAAATTGTTAGATT
TTAAGCTTAGATATGAAAAAGGACTAGTTTGTAAAGTAAAATTTGTTAGTTTAAAA
Found at i:86737212 original size:42 final size:42
Alignment explanation
Indices: 86737165--86737299 Score: 252
Period size: 42 Copynumber: 3.2 Consensus size: 42
86737155 TCATGTGGCA
*
86737165 AGGCCGTGTGCCTCACATGATTGAGACACACGCCCGTGTCTC
1 AGGCCGTGTGCCTCACACGATTGAGACACACGCCCGTGTCTC
*
86737207 AGGCCGTGTGCCTCACACGATTGAGACACACGCCCATGTCTC
1 AGGCCGTGTGCCTCACACGATTGAGACACACGCCCGTGTCTC
86737249 AGGCCGTGTGCCTCACACGATTGAGACACACGCCCGTGTCTC
1 AGGCCGTGTGCCTCACACGATTGAGACACACGCCCGTGTCTC
86737291 AGGCCGTGT
1 AGGCCGTGT
86737300 AACTTTCGAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (42 bp):
AGGCCGTGTGCCTCACACGATTGAGACACACGCCCGTGTCTC
Found at i:86739158 original size:12 final size:12
Alignment explanation
Indices: 86739141--86739167 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
86739131 GAAAATAGGG
86739141 TTTTAGCGGCGT
1 TTTTAGCGGCGT
86739153 TTTTAGCGGCGT
1 TTTTAGCGGCGT
86739165 TTT
1 TTT
86739168 ATCAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:86739290 original size:41 final size:41
Alignment explanation
Indices: 86739191--86739438 Score: 265
Period size: 41 Copynumber: 6.1 Consensus size: 41
86739181 GCAAAAATTG
*
86739191 TAAAACAC-AGAGCAATAGCGGCG-TTTTTGT-AAACGCCGT
1 TAAAA-ACTAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
* *
86739230 TAAAAA-TAGAGCAATAGCGGCGCTTTTGGTAAAACGTCGC
1 TAAAAACTAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
* * * *
86739270 TAAAAATTGGAGCAATAGCGGCGCTTTTGGTAAAATGCCGC
1 TAAAAACTAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
* * * *
86739311 TAAAAGTCT-GAGCATTAGCGGCGTTTTTTGTAAAATGCCGC
1 TAAAA-ACTAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
* * ** *
86739352 TAAAAACCAGAGCATTAGTTGCGTTTTTTGTAAAACGCCGC
1 TAAAAACTAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
* *
86739393 TAAAAAC-CGAAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
1 TAAAAACTAG-AGCAATAGCGGCGCTTTTTGTAAAACGCCGC
86739434 TAAAA
1 TAAAA
86739439 GTCATATAAC
Statistics
Matches: 182, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 16 0.09
39 11 0.06
40 15 0.08
41 139 0.76
42 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (41 bp):
TAAAAACTAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
Found at i:86739398 original size:123 final size:120
Alignment explanation
Indices: 86739200--86739441 Score: 313
Period size: 123 Copynumber: 2.0 Consensus size: 120
86739190 GTAAAACACA
* *
86739200 GAGCAATAGCGGCGTTTTTGTAAACGCCGTTAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAAC
1 GAGCAATAGCGGCGTTTTTGTAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAAC
* ** * *
86739265 GTCGCTAAAAATTGGAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCT
66 GCCGCTAAAAACCGAAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCT
* * * ** * *
86739320 GAGCATTAGCGGCGTTTTTTGTAAAATGCCGCTAAAAACCAGAGCATTAGTTGCGTTTTTTGTAA
1 GAGCAATAGCGGCG-TTTTTGT-AAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGTAA
* *
86739385 AACGCCGCTAAAAACCGAAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGTC
63 AACGCCGCTAAAAACCGAAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
86739442 ATATAACCCC
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
120 13 0.13
121 7 0.07
122 13 0.13
123 70 0.68
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (120 bp):
GAGCAATAGCGGCGTTTTTGTAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAAC
GCCGCTAAAAACCGAAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCT
Found at i:86740191 original size:17 final size:17
Alignment explanation
Indices: 86740165--86740208 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
86740155 AATCTATTTA
* *
86740165 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
86740182 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
86740198 TTAAAAAATTT
1 TTAAAAAATTT
86740209 TCAAGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:86740206 original size:26 final size:26
Alignment explanation
Indices: 86740177--86740226 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
86740167 AAATAATTTC
86740177 AAATTTTAAAGAATTAAAATTTTAAA
1 AAATTTTAAAGAATTAAAATTTTAAA
* * *
86740203 AAATTTTCAAGATTTCAAATTTTA
1 AAATTTTAAAGAATTAAAATTTTA
86740227 TGTAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTTTAAAGAATTAAAATTTTAAA
Found at i:86746441 original size:43 final size:42
Alignment explanation
Indices: 86746393--86746533 Score: 201
Period size: 43 Copynumber: 3.3 Consensus size: 42
86746383 GATCATTATT
86746393 TTTAGCGGCGTTTGCTAAAAAAAAGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGC-AAAAAAAAGCCGCTAAAGGTCATGGTC
** *
86746436 TTTAGCGGCGTTTGCGAAAAAAGTGCCGCTAAAGGTCACGGTC
1 TTTAGCGGCGTTTGC-AAAAAAAAGCCGCTAAAGGTCATGGTC
* * *
86746479 TTTAGCGGCGTTTTCAAAAAAAGCGCCTCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCAAAAAAA-AGCCGCTAAAGGTCATGGTC
86746522 TTTAGCGGCGTT
1 TTTAGCGGCGTT
86746534 GCATATAGCG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 6 0.07
43 82 0.93
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGCAAAAAAAAGCCGCTAAAGGTCATGGTC
Found at i:86748960 original size:26 final size:26
Alignment explanation
Indices: 86748930--86749063 Score: 250
Period size: 26 Copynumber: 5.2 Consensus size: 26
86748920 TGAAATGCCC
86748930 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86748956 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86748982 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
86749008 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
86749034 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86749060 ATCA
1 ATCA
86749064 ATTTGTACCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:86753776 original size:11 final size:11
Alignment explanation
Indices: 86753762--86753790 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
86753752 ATTTACCTGA
86753762 TATTTTTATTT
1 TATTTTTATTT
86753773 TATTTTTATTT
1 TATTTTTATTT
86753784 TATTTTT
1 TATTTTT
86753791 TATATTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:86754907 original size:21 final size:22
Alignment explanation
Indices: 86754858--86754907 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
86754848 ATGCAATAAC
*
86754858 CAAAAAAATTATAATAAAAAAA
1 CAAATAAATTATAATAAAAAAA
* *
86754880 TAAATAAATTA-AATAATAAAA
1 CAAATAAATTATAATAAAAAAA
*
86754901 CATATAA
1 CAAATAA
86754908 TATATCAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (22 bp):
CAAATAAATTATAATAAAAAAA
Found at i:86754909 original size:24 final size:22
Alignment explanation
Indices: 86754863--86754909 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
86754853 ATAACCAAAA
86754863 AAATTATAATAAAAAAATAAAT
1 AAATTATAATAAAAAAATAAAT
86754885 AAATTA-AATAATAAAACATATAAT
1 AAATTATAATAA-AAAA-ATA-AAT
86754909 A
1 A
86754910 TATCAACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.23
22 10 0.45
23 3 0.14
24 4 0.18
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATTATAATAAAAAAATAAAT
Found at i:86755054 original size:19 final size:18
Alignment explanation
Indices: 86755030--86755098 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
86755020 AGCATATAAA
*
86755030 AAATAATATACATTAATTT
1 AAATAATATA-ATTAATAT
86755049 AAATAA-ATAATATATATAT
1 AAATAATATAAT-TA-ATAT
*
86755068 AAATTAAAAATAGATTAATAT
1 AAA-T-AATATA-ATTAATAT
86755089 AAATAATATA
1 AAATAATATA
86755099 TGTAAGAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
17 2 0.05
18 5 0.12
19 17 0.40
20 2 0.05
21 9 0.21
22 5 0.12
23 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (18 bp):
AAATAATATAATTAATAT
Found at i:86755072 original size:25 final size:22
Alignment explanation
Indices: 86755026--86755077 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
86755016 AGTAAGCATA
86755026 TAAAAAATAATATACATTAATT
1 TAAAAAATAATATACATTAATT
* *
86755048 TAAATAAATAATATATATATAAAT
1 TAAA-AAATAATATACAT-TAATT
86755072 TAAAAA
1 TAAAAA
86755078 TAGATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 4 0.15
23 14 0.54
24 8 0.31
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAAATAATATACATTAATT
Found at i:86756839 original size:16 final size:17
Alignment explanation
Indices: 86756809--86756841 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
86756799 TTCGCCTTTG
86756809 TGTTTATTCATTTTAAT
1 TGTTTATTCATTTTAAT
86756826 TGTTTATT-ATTTTAAT
1 TGTTTATTCATTTTAAT
86756842 GTATTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (17 bp):
TGTTTATTCATTTTAAT
Found at i:86756871 original size:3 final size:3
Alignment explanation
Indices: 86756863--86756904 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
86756853 TTTAGATTTC
86756863 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
86756905 GTCATTATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:86762653 original size:2 final size:2
Alignment explanation
Indices: 86762646--86762670 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86762636 TTTTACTGTG
86762646 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
86762671 TCATTCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86764844 original size:18 final size:18
Alignment explanation
Indices: 86764821--86764908 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
86764811 CGTTTACGGT
86764821 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
* *
86764839 ACTATTCACGTATATAGT
1 ACTATTCACGTATACAGC
86764857 ACTATTCACGTATAC-GC
1 ACTATTCACGTATACAGC
* * * *
86764874 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
86764892 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
86764909 TAGTTGGGAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 14 0.24
18 44 0.76
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:86764894 original size:35 final size:36
Alignment explanation
Indices: 86764815--86764908 Score: 136
Period size: 35 Copynumber: 2.6 Consensus size: 36
86764805 TACGACCGTT
*
86764815 TACGGTACTATTCACGTATACAGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGAA
** *
86764851 TATAGTACTATTCACGTATAC-GCACTATTTACGAA
1 TACGGTACTATTCACGTATACAGCACTATTCACGAA
*
86764886 TACGGTACTGTTCACGTATACAG
1 TACGGTACTATTCACGTATACAG
86764909 TAGTTGGGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 30 0.60
36 20 0.40
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGCACTATTCACGAA
Found at i:86772309 original size:88 final size:88
Alignment explanation
Indices: 86772142--86772373 Score: 276
Period size: 88 Copynumber: 2.6 Consensus size: 88
86772132 CTTAAGGGTG
* * *
86772142 CAAAAAGCCCTCAAACTTTTACAAAAAGAGTAATTAAGCCATTGCTTTTTTTTTCACTCATTTGG
1 CAAAAAGCCCTCAAACTTTTAAAAAAAGAGTAATTAAGCCATTGCTTTTTTTTTCACTCAATTGA
*
86772207 GTACTTGAAGTTTCAAAATACAT
66 GTACTTGAACTTTCAAAATACAT
*
86772230 -AAAAGGCCCTCAAACCTTTTCAAAAAAAGA-T-ATTAAGCCCA-TGCTTTTTTTTTACACTCAA
1 CAAAAAGCCCTCAAA-CTTTT-AAAAAAAGAGTAATTAAG-CCATTGCTTTTTTTTT-CACTCAA
86772291 TTGAGTACTTGAACTTTCAAAATACAT
62 TTGAGTACTTGAACTTTCAAAATACAT
* * * *
86772318 CAAAAACACCCTCAAACTTTTTAAAGAACAAAAGCAATTAAGCCCTTG-TTTTTTTT
1 CAAAAA-GCCCTCAAAC-TTTTAAA-AA-AAGAGTAATTAAGCCATTGCTTTTTTTT
86772374 AAAAAATAGA
Statistics
Matches: 122, Mismatches: 10, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
87 31 0.25
88 40 0.33
89 16 0.13
90 14 0.11
91 3 0.02
92 10 0.08
93 8 0.07
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (88 bp):
CAAAAAGCCCTCAAACTTTTAAAAAAAGAGTAATTAAGCCATTGCTTTTTTTTTCACTCAATTGA
GTACTTGAACTTTCAAAATACAT
Found at i:86775393 original size:17 final size:18
Alignment explanation
Indices: 86775373--86775406 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
86775363 AAGTGACTTG
86775373 AAATTGCA-AAATTAAAT
1 AAATTGCATAAATTAAAT
86775390 AAATTGCATAAATTAAA
1 AAATTGCATAAATTAAA
86775407 AAGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATTGCATAAATTAAAT
Found at i:86776196 original size:14 final size:13
Alignment explanation
Indices: 86776179--86776216 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
86776169 AAAATTAAAT
86776179 CTAAATAATTATCC
1 CTAAATAATTAT-C
86776193 CT-AATAATTATC
1 CTAAATAATTATC
86776205 CTAATATAATTA
1 CTAA-ATAATTA
86776217 AACATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 10 0.45
14 9 0.41
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:86777725 original size:28 final size:26
Alignment explanation
Indices: 86777670--86777756 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
86777660 AGCATGGCTG
* *
86777670 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
86777696 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* * *
86777724 CCAAAACAGATATATGTGGTATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
86777751 CCAGAA
1 CCAGAA
86777757 TTCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
26 5 0.10
27 31 0.60
28 16 0.31
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:86779404 original size:26 final size:26
Alignment explanation
Indices: 86779368--86779477 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
86779358 CATGAAATTC
86779368 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
86779394 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
86779420 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
86779446 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
86779472 TTATCA
1 TTATCA
86779478 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86784351 original size:12 final size:12
Alignment explanation
Indices: 86784334--86784364 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86784324 AGTACTACCT
86784334 CGGCCTCGACCA
1 CGGCCTCGACCA
86784346 CGGCCTCGACCA
1 CGGCCTCGACCA
*
86784358 CGACCTC
1 CGGCCTC
86784365 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.23, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:86785877 original size:28 final size:26
Alignment explanation
Indices: 86785822--86785909 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
86785812 AGCATGGCTG
* *
86785822 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
86785848 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
86785876 CCAGAACAGATATATGTGGTATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
86785903 CCAGAAC
1 CCAGAAC
86785910 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.09
27 33 0.60
28 17 0.31
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:86787554 original size:26 final size:26
Alignment explanation
Indices: 86787518--86787627 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
86787508 CATGAAATTC
86787518 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
86787544 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
86787570 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
86787596 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
86787622 TTATCA
1 TTATCA
86787628 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86788017 original size:10 final size:10
Alignment explanation
Indices: 86787987--86788038 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
86787977 TGCATATTTA
*
86787987 TTTATTTATT
1 TTTATTTCTT
*
86787997 TTT-TCTCTT
1 TTTATTTCTT
*
86788006 TTT-TCTCTT
1 TTTATTTCTT
86788015 TTTATTTCTT
1 TTTATTTCTT
86788025 TTTATTTCTT
1 TTTATTTCTT
86788035 TTTA
1 TTTA
86788039 CTTTAATTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
9 16 0.42
10 22 0.58
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTCTT
Found at i:86788200 original size:96 final size:98
Alignment explanation
Indices: 86788060--86788247 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 98
86788050 ACTTTATTTA
* * *
86788060 TTTACTTTTTCTTAAGGAAAATATTGAACCTTTTGACGTGAAGAGAGATGACAACCAAGCACCCC
1 TTTACTTTTTCCTAAGGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCC
86788125 ACCCCGGTTACTCAGCCCAACACATTCCTAATT
66 ACCCCGGTTACTCAGCCCAACACATTCCTAATT
* * * *
86788158 TTTA-TTTTTCCTAA-GAACATATCGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGCACCTC
1 TTTACTTTTTCCTAAGGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCC
* *
86788221 ACCTCGGTTACTCAGCCCAACGCATTC
66 ACCCCGGTTACTCAGCCCAACACATTC
86788248 TTAGAAATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 68 0.84
97 9 0.11
98 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (98 bp):
TTTACTTTTTCCTAAGGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCC
ACCCCGGTTACTCAGCCCAACACATTCCTAATT
Found at i:86789067 original size:5 final size:5
Alignment explanation
Indices: 86789053--86789095 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
86789043 AATAATAAAT
*
86789053 AATAA GATAA AAT-A AATAAA AATAAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AA
86789096 ATTAGGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 20 0.59
6 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:86789072 original size:21 final size:21
Alignment explanation
Indices: 86789042--86789097 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
86789032 TAATACCTGA
86789042 AAATAATAAATAATAAGATAAAAT
1 AAATAA-AAATAA-AA-ATAAAAT
86789066 AAATAAAAATAAAAATAAAAT
1 AAATAAAAATAAAAATAAAAT
86789087 AAAATAAAAAT
1 -AAATAAAAAT
86789098 TAGGTTGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.23
22 12 0.39
23 6 0.19
24 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAAT
Found at i:86789082 original size:16 final size:16
Alignment explanation
Indices: 86789046--86789097 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
86789036 ACCTGAAAAT
86789046 AATAAATAATAAGAT-AA
1 AATAAATAA-AA-ATAAA
86789063 AATAAATAAAAATAAA
1 AATAAATAAAAATAAA
86789079 AATAAA-ATAAAATAAA
1 AATAAATA-AAAATAAA
86789095 AAT
1 AAT
86789098 TAGGTTGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.09
16 21 0.64
17 9 0.27
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (16 bp):
AATAAATAAAAATAAA
Found at i:86790884 original size:35 final size:35
Alignment explanation
Indices: 86790838--86790909 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
86790828 ACATAATTTC
86790838 AAAGGGGTAGTTCCAATCTGGTGCTTACACTATAG
1 AAAGGGGTAGTTCCAATCTGGTGCTTACACTATAG
86790873 AAAGGGGTAGTTCCAATCTGGTGCTTACACTATAG
1 AAAGGGGTAGTTCCAATCTGGTGCTTACACTATAG
86790908 AA
1 AA
86790910 GGTAAAAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (35 bp):
AAAGGGGTAGTTCCAATCTGGTGCTTACACTATAG
Found at i:86794360 original size:14 final size:13
Alignment explanation
Indices: 86794343--86794380 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
86794333 AAAATTAAAT
86794343 CTAAATAATTATCC
1 CTAAATAATTAT-C
86794357 CT-AATAATTATC
1 CTAAATAATTATC
86794369 CTAATATAATTA
1 CTAA-ATAATTA
86794381 AACATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 10 0.45
14 9 0.41
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:86808972 original size:58 final size:58
Alignment explanation
Indices: 86808882--86808997 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
86808872 AATGCAACCA
86808882 ATCACATCTCGCCTTTTGTTTCCAAATGAGCTATTCATGGTGAAAGACACTTTCTAAT
1 ATCACATCTCGCCTTTTGTTTCCAAATGAGCTATTCATGGTGAAAGACACTTTCTAAT
86808940 ATCACATCTCGCCTTTTGTTTCCAAATGAGCTATTCATGGTGAAAGACACTTTCTAAT
1 ATCACATCTCGCCTTTTGTTTCCAAATGAGCTATTCATGGTGAAAGACACTTTCTAAT
86808998 TCTTCACGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (58 bp):
ATCACATCTCGCCTTTTGTTTCCAAATGAGCTATTCATGGTGAAAGACACTTTCTAAT
Found at i:86814500 original size:45 final size:44
Alignment explanation
Indices: 86814417--86814546 Score: 116
Period size: 44 Copynumber: 2.9 Consensus size: 44
86814407 TTTTAATTTT
* * * * * * *
86814417 TAGCTTAAATCTGTTCCACTGCAACTCTAGGAAAATAAGATCCAC
1 TAGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGAT-CAA
* * * *
86814462 TATCTTCAACCTGCTCCACTGCAACTTTAGGGGGATAAGGTTAA
1 TAGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGATCAA
* * * *
86814506 TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TAGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGAT
86814547 TCACCATGGT
Statistics
Matches: 67, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 35 0.52
45 32 0.48
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
TAGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGATCAA
Done.