Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 75 of 284
Found at i:25608174 original size:27 final size:26
Alignment explanation
Indices: 25608090--25608181 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 26
25608080 CGCCAATGGC
* * *
25608090 ATTGGTGGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAATGGTGCC--AACTG
25608117 ATTGGCGGCACCAATGGTGCCAA-TG
1 ATTGGCGGCACCAATGGTGCCAACTG
25608142 CCATTGGCGGCACCAATGGTGCCATACTG
1 --ATTGGCGGCACCAATGGTGCCA-ACTG
25608171 ATTGGCGGCAC
1 ATTGGCGGCAC
25608182 TATTCGTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
25 2 0.04
27 52 0.91
28 1 0.02
29 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.18
Consensus pattern (26 bp):
ATTGGCGGCACCAATGGTGCCAACTG
Found at i:25608346 original size:19 final size:21
Alignment explanation
Indices: 25608308--25608346 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
25608298 AATAATTGAT
*
25608308 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
25608329 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
25608347 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:25608425 original size:3 final size:3
Alignment explanation
Indices: 25608419--25608465 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
25608409 ATTATTATTA
25608419 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
25608466 AGTATTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:25608492 original size:19 final size:21
Alignment explanation
Indices: 25608468--25608512 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
25608458 TTGTTGTTAG
*
25608468 TATTAAGATGTTA-TTAAT-A
1 TATTAAGATGTAACTTAATAA
25608487 TATTAAGATGTAACTTAATAA
1 TATTAAGATGTAACTTAATAA
25608508 TATTA
1 TATTA
25608513 TTGTTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 5 0.22
21 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (21 bp):
TATTAAGATGTAACTTAATAA
Found at i:25611250 original size:33 final size:33
Alignment explanation
Indices: 25611207--25611274 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
25611197 ATTGTATCCA
25611207 AATTGCATCCAAATTGTATAC-AGATTAAGTTAT
1 AATTGCATCCAAATTGT-TACTAGATTAAGTTAT
* *
25611240 AATTGTATCCAAATTGTTTCTAGATTAAGTTAT
1 AATTGCATCCAAATTGTTACTAGATTAAGTTAT
25611273 AA
1 AA
25611275 AATACTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (33 bp):
AATTGCATCCAAATTGTTACTAGATTAAGTTAT
Found at i:25614302 original size:30 final size:31
Alignment explanation
Indices: 25614234--25614304 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
25614224 AAAAAAATTA
25614234 CTTT-CTTTT-TTCTTTTTTTTCCTTCCTTC
1 CTTTCCTTTTCTTCTTTTTTTTCCTTCCTTC
* *
25614263 C-CTCTTTTTCTTCTTTTTTTTCTCTT-C-TC
1 CTTTCCTTTTCTTCTTTTTTTTC-CTTCCTTC
25614292 CTTTCCTTTTCTT
1 CTTTCCTTTTCTT
25614305 TCCTTCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 1 0.03
29 8 0.24
30 22 0.65
31 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (31 bp):
CTTTCCTTTTCTTCTTTTTTTTCCTTCCTTC
Found at i:25614354 original size:4 final size:4
Alignment explanation
Indices: 25614299--25614425 Score: 77
Period size: 4 Copynumber: 31.0 Consensus size: 4
25614289 CTCCTTTCCT
* *
25614299 TTTC TTTC CTTC TTTC CTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * *
25614345 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
*
25614392 TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC
25614426 CCCCACCACC
Statistics
Matches: 98, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
3 13 0.13
4 62 0.63
5 16 0.16
6 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:25614367 original size:79 final size:77
Alignment explanation
Indices: 25614265--25614413 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 77
25614255 CTTCCTTCCC
*
25614265 TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCCTTCTTT-TTTCTTC
1 TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTT--TTCTTTCTTTCCTC
25614329 TCCTTTCCTTTTCT
64 TCCTTTCCTTTTCT
25614343 TCTTCTTTCTT-TCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
1 TCTT-TTTCTTCT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
25614407 TCCTTTC
64 TCCTTTC
25614414 TTTCTTTCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
77 6 0.09
78 18 0.27
79 43 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (77 bp):
TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
CTTTCCTTTTCT
Found at i:25614379 original size:40 final size:40
Alignment explanation
Indices: 25614265--25614413 Score: 172
Period size: 40 Copynumber: 3.8 Consensus size: 40
25614255 CTTCCTTCCC
25614265 TCTT-TTTC-TTCTTTTTTTTCTCTTCTCCTTTCCTTTTC-
1 TCTTCTTTCTTTC-TTTTTTTCTCTTCTCCTTTCCTTTTCT
*
25614303 T-TTCCTTCTTTCCTTCTTTTT-TCTTCTCCTTTCCTTTTCT
1 TCTTCTTTCTTT-CTT-TTTTTCTCTTCTCCTTTCCTTTTCT
25614343 TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTC-T
*
25614384 TCCTTC-TT-TTTCTTTCTTTC-C-TCTCCTTTC
1 T-CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
25614414 TTTCTTTCTT
Statistics
Matches: 99, Mismatches: 3, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
37 2 0.02
38 13 0.13
39 28 0.28
40 39 0.39
41 13 0.13
42 4 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (40 bp):
TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT
Found at i:25614392 original size:18 final size:18
Alignment explanation
Indices: 25614245--25614426 Score: 89
Period size: 18 Copynumber: 10.1 Consensus size: 18
25614235 TTTCTTTTTT
* *
25614245 CTTTTTTTTCCTTCCTTCC
1 CTTTTCTTTCCTT-CTTTC
*
25614264 CTCTT-TTT-CTTCTTT-
1 CTTTTCTTTCCTTCTTTC
* *
25614279 TTTTTCTCTT-CTCCTTTC
1 CTTTTCT-TTCCTTCTTTC
25614297 CTTTTCTTTCCTTCTTTC
1 CTTTTCTTTCCTTCTTTC
* *
25614315 CTTCTTTTTTCTTCTCCTTTC
1 CTT-TTCTTTC--CTTCTTTC
*
25614336 CTTTTCTTCTTCTTTCTTT-
1 CTTTTC-T-TTCCTTCTTTC
25614355 CTTTT-TTTCTCTTCTCCTTTC
1 CTTTTCTTTC-C-T-T-CTTTC
25614376 CTTTTCTTTCCTTCTTT-
1 CTTTTCTTTCCTTCTTTC
*
25614393 TTCTTTCTTTCC-TC--TC
1 CT-TTTCTTTCCTTCTTTC
*
25614409 C-TTTCTTTCTTTCTTTC
1 CTTTTCTTTCCTTCTTTC
25614426 C
1 C
25614427 CCCACCACCG
Statistics
Matches: 127, Mismatches: 16, Indels: 42
0.69 0.09 0.23
Matches are distributed among these distances:
14 8 0.06
15 6 0.05
16 7 0.06
17 20 0.16
18 33 0.26
19 17 0.13
20 12 0.09
21 17 0.13
22 7 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTCTTTCCTTCTTTC
Found at i:25614590 original size:29 final size:28
Alignment explanation
Indices: 25614555--25614612 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
25614545 GGTTTTTTTG
25614555 ATATATTTTAGTAAATAAAAAAAAATTAT
1 ATATATTTTAGTAAAT-AAAAAAAATTAT
*
25614584 ATATATTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTAGTAAATAAAAAAAATTAT
25614612 A
1 A
25614613 ACATTTTGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
ATATATTTTAGTAAATAAAAAAAATTAT
Found at i:25614618 original size:27 final size:29
Alignment explanation
Indices: 25614559--25614624 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
25614549 TTTTTGATAT
* *
25614559 ATTTTAGTAAATAAAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAAAATTATATAC
25614588 ATTTTGGTAAAT-AAAAAAAATTATA-AC
1 ATTTTGGTAAATAAAAAAAAATTATATAC
25614615 ATTTTGGTAA
1 ATTTTGGTAA
25614625 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 11 0.31
28 13 0.37
29 11 0.31
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (29 bp):
ATTTTGGTAAATAAAAAAAAATTATATAC
Found at i:25618087 original size:23 final size:22
Alignment explanation
Indices: 25618044--25618101 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25618034 AAAGGGTATC
* *
25618044 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25618065 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
25618088 TGCATATCATATCT
1 TACAAATCATATCT
25618102 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25619758 original size:17 final size:17
Alignment explanation
Indices: 25619738--25619773 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25619728 AAAAAAGAAG
*
25619738 AAGAAGAAGATGAGGAA
1 AAGAAGAAGAAGAGGAA
*
25619755 AAGAAGGAGAAGAGGAA
1 AAGAAGAAGAAGAGGAA
25619772 AA
1 AA
25619774 ATGAATACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (17 bp):
AAGAAGAAGAAGAGGAA
Found at i:25620417 original size:23 final size:24
Alignment explanation
Indices: 25620378--25620423 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
25620368 AAAGAAAGAA
*
25620378 ACATTTGTATTTCTCAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
25620402 ACATTTGT-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
25620424 TATGTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:25621690 original size:26 final size:25
Alignment explanation
Indices: 25621643--25621691 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25621633 ACATGCATAT
**
25621643 TATTAAAAAATAGTCATTGCATGCA
1 TATTAAAAAATAGTCACAGCATGCA
*
25621668 TATTCAAAAATAGTCAACAGCATG
1 TATTAAAAAATAGTC-ACAGCATG
25621692 TGACCATCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
TATTAAAAAATAGTCACAGCATGCA
Found at i:25621869 original size:76 final size:77
Alignment explanation
Indices: 25621662--25621988 Score: 444
Period size: 76 Copynumber: 4.2 Consensus size: 77
25621652 ATAGTCATTG
* * * * * **
25621662 CATGCATATTCAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACACACCT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
* *
25621727 AAAAAATAGTCACTG
66 TAAAAA-A--CACTA
* * * *
25621742 CATGCATATTAAAAAATAGTCAATAGCATATAACCATCCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACAGACAAA
25621806 TTAAAAAACACTA
65 TTAAAAAACACTA
25621819 CATGCATATTAAAAAATAGTCAA-AACATGTAACCAACCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACAGACAAA
25621882 TTAAAAAACACTA
65 TTAAAAAACACTA
* *
25621895 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACATAGACATAT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
25621960 TAAAAAAACACTA
66 T-AAAAAACACTA
25621973 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
25621989 CATTCACTAA
Statistics
Matches: 229, Mismatches: 14, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
76 73 0.32
77 65 0.28
78 28 0.12
79 2 0.01
80 61 0.27
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (77 bp):
CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
TAAAAAACACTA
Found at i:25621944 original size:153 final size:157
Alignment explanation
Indices: 25621662--25621988 Score: 450
Period size: 153 Copynumber: 2.1 Consensus size: 157
25621652 ATAGTCATTG
* * * * **
25621662 CATGCATATTCAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACACACCT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACACACAAAT
* * * *
25621727 AAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAATAGCATATAACCATCCCCACCAACAAT
66 AAAAAATAG-CACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAAT
25621792 CAT-CAACAGACAAATT-AAAAAACACTA
130 CATAC-ACAGACAAATTAAAAAAACACTA
*
25621819 CATGCATATTAAAAAATAGTCAA-AACATGTAACCAACCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACACACAAA
* *
25621882 TTAAAAA-A-CACTACATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAAT
65 TAAAAAATAGCACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAAT
* *
25621945 CATACATAGACATATTAAAAAAACACTA
130 CATACACAGACAAATTAAAAAAACACTA
25621973 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
25621989 CATTCACTAA
Statistics
Matches: 152, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
153 62 0.41
154 28 0.18
155 2 0.01
156 38 0.25
157 22 0.14
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (157 bp):
CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACACACAAAT
AAAAAATAGCACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAATC
ATACACAGACAAATTAAAAAAACACTA
Found at i:25624033 original size:41 final size:41
Alignment explanation
Indices: 25623988--25624171 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
25623978 GGCTATGTGC
25623988 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
*
25624029 CTAGCAGGCTTAATACC-AGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGA-TGAAATATTTCAGACTTTACGT
*
25624070 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
*
25624111 CTAGCAGGCTTAATGCCTG-TGAAATATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTACGT
*
25624152 CTAGCAGGCTTAATGTCGAT
1 CTAGCAGGCTTAATGCCGAT
25624172 ATTCTGAATC
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
40 2 0.01
41 131 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
Found at i:25624197 original size:123 final size:120
Alignment explanation
Indices: 25623988--25624215 Score: 275
Period size: 123 Copynumber: 1.9 Consensus size: 120
25623978 GGCTATGTGC
25623988 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAAT---AGTGAAA
* * * *
25624053 TATTTCAGACTTTACGTCTAGCAGGCTTA-ATGCCGGTGAAATATTTCAGACTTTACGT
63 TATTTCAGACTTCAAGCCTAGCAGGC-TACATGCCGATGAAATATTTCAGACTTTACGT
* *
25624111 CTAGCAGGCTTAATGCCTG-TGAAATATTTCAGACTTTATGTCTAGCAGGCTTAAT-GTCGATAT
1 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATAGT-GAAAT
*
25624174 -TCTGAATCAGTCTTCAAGCCTAGCAGGCTACATGCCGATGAA
64 AT-T---TCAGACTTCAAGCCTAGCAGGCTACATGCCGATGAA
25624216 TCATTTTAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
119 3 0.03
120 5 0.05
122 2 0.02
123 80 0.88
124 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (120 bp):
CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATAGTGAAATAT
TTCAGACTTCAAGCCTAGCAGGCTACATGCCGATGAAATATTTCAGACTTTACGT
Found at i:25624209 original size:82 final size:82
Alignment explanation
Indices: 25623988--25624202 Score: 254
Period size: 82 Copynumber: 2.6 Consensus size: 82
25623978 GGCTATGTGC
* * * * *
25623988 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
25624053 TATTTCAGACTTTACGT
66 TATTTCAGACTTTACGT
* * * * * *
25624070 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
*
25624135 TATTTCAGACTTTATGT
66 TATTTCAGACTTTACGT
* * * *
25624152 CTAGCAGGCTTAATGTCGAT--ATTCTGAATCAGTCTTCAAGCCTAGCAGGCT
1 CTAGCAGGCTTAATGCCGATGAAATAT--ATCAGACTTCAAGCCTAGCAGGCT
25624203 ACATGCCGAT
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.03
82 115 0.97
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (82 bp):
CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
TATTTCAGACTTTACGT
Found at i:25625459 original size:493 final size:494
Alignment explanation
Indices: 25624716--25625706 Score: 1957
Period size: 493 Copynumber: 2.0 Consensus size: 494
25624706 TGACATATGA
25624716 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
1 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
25624781 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
66 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
25624846 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
131 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
25624911 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
196 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
25624976 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
261 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
25625041 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
326 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
25625106 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGC-TTTTTTT
391 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
25625170 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
456 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
*
25625209 ATTTAGCCTATAAATAGGTTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
1 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
25625274 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
66 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
*
25625339 GTTTTATCTCCATCTTTTATACTCTTCGCTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
131 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
25625404 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
196 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
25625469 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
261 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
25625534 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
326 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
25625599 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
391 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
25625664 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
456 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
25625703 ATTT
1 ATTT
25625707 TGAAGCGTTA
Statistics
Matches: 495, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
493 445 0.90
494 50 0.10
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (494 bp):
ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
Found at i:25628555 original size:24 final size:24
Alignment explanation
Indices: 25628523--25628590 Score: 136
Period size: 24 Copynumber: 2.8 Consensus size: 24
25628513 AATAATGGCA
25628523 GATACAAACAATAAACATCAGTTT
1 GATACAAACAATAAACATCAGTTT
25628547 GATACAAACAATAAACATCAGTTT
1 GATACAAACAATAAACATCAGTTT
25628571 GATACAAACAATAAACATCA
1 GATACAAACAATAAACATCA
25628591 TGCATATGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (24 bp):
GATACAAACAATAAACATCAGTTT
Found at i:25628726 original size:28 final size:27
Alignment explanation
Indices: 25628667--25628752 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 27
25628657 ACATTAATAA
* *
25628667 TAAATAAAACCAAAATTGAAATAATGC
1 TAAATAAAACCAAAATCGAAATAATCC
*
25628694 TAAATCAAAATCAAAATCGAAATAA-CC
1 TAAAT-AAAACCAAAATCGAAATAATCC
* * * *
25628721 TAAA-ATAACCCTAAATCAAAATAACCC
1 TAAATA-AAACCAAAATCGAAATAATCC
25628748 TAAAT
1 TAAAT
25628753 CCAAAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 14 0.29
27 16 0.33
28 17 0.35
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.21
Consensus pattern (27 bp):
TAAATAAAACCAAAATCGAAATAATCC
Found at i:25628741 original size:16 final size:17
Alignment explanation
Indices: 25628722--25628758 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
25628712 GAAATAACCT
25628722 AAAATAACCCTAAAT-C
1 AAAATAACCCTAAATCC
25628738 AAAATAACCCTAAATCC
1 AAAATAACCCTAAATCC
25628755 AAAA
1 AAAA
25628759 AATAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAACCCTAAATCC
Found at i:25629184 original size:21 final size:21
Alignment explanation
Indices: 25629158--25629198 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25629148 CAACGTGACA
25629158 AGTTAACTGGCCACAGCAGCT
1 AGTTAACTGGCCACAGCAGCT
* *
25629179 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACAGCAGC
25629199 GGTCCCGTTA
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:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTTAACTGGCCACAGCAGCT
Found at i:25634562 original size:3 final size:3
Alignment explanation
Indices: 25634554--25634605 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
25634544 CTCTTAATTT
**
25634554 TAA TAA TAA GGA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25634600 TAA TAA
1 TAA TAA
25634606 AGACGTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:25641126 original size:113 final size:111
Alignment explanation
Indices: 25640924--25641138 Score: 304
Period size: 113 Copynumber: 1.9 Consensus size: 111
25640914 AATAATAAAC
* * *
25640924 CGCCACGTCATTTAACTTTTAGATATATTTTTAATTGTTGGGGATAAACCTATATAAACAACGAA
1 CGCCACGTCATTTAACTTTAAAATATATTTTTAATTGTTGGGGATAAACCCATATAAACAACGAA
* *
25640989 CAAGAAAAGTAAAGAGGATTGAACACACAAATTTTACGTAAAAAAT
66 CAAGAAAAGTAAAGAAGATCGAACACACAAATTTTACGTAAAAAAT
* * * * * *
25641035 CGCCATGTCATTTAACCTTTAAAAGTATTTTTTTGATTGTTGGGGTTCAACCCGTATAAACAACG
1 CGCCACGTCATTTAA-CTTTAAAA-TATATTTTTAATTGTTGGGGATAAACCCATATAAACAACG
*
25641100 AACAAGAAAAGTAAAGAATATCGAACACACAAATTTTAC
64 AACAAGAAAAGTAAAGAAGATCGAACACACAAATTTTAC
25641139 ATGAAAAACT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
111 14 0.16
112 6 0.07
113 70 0.78
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (111 bp):
CGCCACGTCATTTAACTTTAAAATATATTTTTAATTGTTGGGGATAAACCCATATAAACAACGAA
CAAGAAAAGTAAAGAAGATCGAACACACAAATTTTACGTAAAAAAT
Found at i:25641559 original size:6 final size:6
Alignment explanation
Indices: 25641548--25641577 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
25641538 ATCAAAGTGG
25641548 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
25641578 ATTATTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:25642531 original size:14 final size:14
Alignment explanation
Indices: 25642493--25642532 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25642483 ACAAAAAAGT
*
25642493 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
25642507 AAATCATTTTACGG
1 AAAACATTTTACAG
25642521 AAAACATTTTAC
1 AAAACATTTTAC
25642533 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:25645000 original size:8 final size:9
Alignment explanation
Indices: 25644982--25645008 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25644972 TATTTCTCTC
25644982 TTTATTTTT
1 TTTATTTTT
25644991 TTTATTTTT
1 TTTATTTTT
25645000 TTTATTTTT
1 TTTATTTTT
25645009 CTTTTCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:25647395 original size:43 final size:43
Alignment explanation
Indices: 25647342--25647423 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
25647332 CGCTTTAGTG
**
25647342 GAAGCGCCGCTAAAGACCCTGATCTTTAGCGACGTTTTTGGGA
1 GAAGCGCCGCTAAAGACCAAGATCTTTAGCGACGTTTTTGGGA
* * * *
25647385 GAAGCGCCGCTATAGATCAAGGTCTTTAGCGGCGTTTTT
1 GAAGCGCCGCTAAAGACCAAGATCTTTAGCGACGTTTTT
25647424 TTCTCAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGACCAAGATCTTTAGCGACGTTTTTGGGA
Found at i:25647475 original size:43 final size:43
Alignment explanation
Indices: 25647428--25647701 Score: 214
Period size: 43 Copynumber: 6.3 Consensus size: 43
25647418 GTTTTTTTCT
* *
25647428 CAAACGCC-GTAATAGACCCTGATCTATAGCGGTGCTTTGACCA
1 CAAACGCCAGTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * ** * * **
25647471 CAAACGCCACTAAATAAACTAATCTTTAGCGACGCTTTCCCCTA
1 CAAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACC-A
* * * *
25647515 -AAACGCC-GCAATAGACCCTGATCTATAGCGGTGCTTCGACCA
1 CAAACGCCAGTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * * **
25647557 CAAAATGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 C-AAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * **
25647601 CAAACGCCATTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 CAAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
*
25647644 CAAACGCC-GCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCA
1 CAAACGCCAG-TAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * *
25647687 AAAACGACACTAAAG
1 CAAACGCCAGTAAAG
25647702 GCCAACACCT
Statistics
Matches: 174, Mismatches: 49, Indels: 16
0.73 0.21 0.07
Matches are distributed among these distances:
42 3 0.02
43 135 0.78
44 34 0.20
45 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
CAAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
Found at i:25647497 original size:86 final size:86
Alignment explanation
Indices: 25647407--25647681 Score: 327
Period size: 86 Copynumber: 3.2 Consensus size: 86
25647397 TAGATCAAGG
* ***
25647407 TCTTTAGCGGCGTTTTTTTCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
* *
25647472 AAACGCCACTAAATAAACTAA
66 AAACGCCACTAAAGAACCTAA
* * * *
25647493 TCTTTAGCGACGCTTTCCCCTAAAACGCCGCAATAGACCCTGATCTATAGCGGTGCTTCGACCAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
*
25647558 AAAATGCCACTAAAGAACCTAA
66 -AAACGCCACTAAAGAACCTAA
* * * * * * **
25647580 TCTTTAGCGGCGCTTTCCCCACAAACGCCATTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCA
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCC-GTAATAGACCCTGATCTATAGCGGTGCTTTGACCA
* * *
25647644 CAAACGCCGCTAAAGACCCTTA
65 CAAACGCCACTAAAGAACCTAA
25647666 TCTTTAGCGGCGCTTT
1 TCTTTAGCGGCGCTTT
25647682 GACCAAAAAC
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
86 90 0.56
87 68 0.43
88 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTTCCCCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
AAACGCCACTAAAGAACCTAA
Found at i:25647692 original size:86 final size:86
Alignment explanation
Indices: 25647567--25647726 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 86
25647557 CAAAATGCCA
* * * * ** *
25647567 CTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCATTAAAGACCATGATCTTTAGTG
1 CTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGACACTAAAGACCAACACCTTTAGTG
25647632 GCGCTTTTTCCACAAACGCCG
66 GCGCTTTTTCCACAAACGCCG
* * * *
25647653 CTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGACACTAAAGGCCAACACCTTTAGTG
1 CTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGACACTAAAGACCAACACCTTTAGTG
*
25647718 GCGTTTTTT
66 GCGCTTTTT
25647727 TTAAAAAACG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
CTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGACACTAAAGACCAACACCTTTAGTG
GCGCTTTTTCCACAAACGCCG
Found at i:25647900 original size:21 final size:21
Alignment explanation
Indices: 25647874--25647955 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
25647864 ATATCAATAG
* *
25647874 CTCGCTGCAGCCTCTGTTTCC
1 CTCGCTGTAGCCTCTGCTTCC
*
25647895 CTCGCTTTAGCCTCTGCTTCC
1 CTCGCTGTAGCCTCTGCTTCC
* * *
25647916 CTCGCTGTAGCCTGTACTTCT
1 CTCGCTGTAGCCTCTGCTTCC
* **
25647937 CTAGCTGCCGCCTCTGCTT
1 CTCGCTGTAGCCTCTGCTT
25647956 TTCTTGCTGC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.06, C:0.40, G:0.18, T:0.35
Consensus pattern (21 bp):
CTCGCTGTAGCCTCTGCTTCC
Found at i:25648040 original size:66 final size:66
Alignment explanation
Indices: 25647947--25648112 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
25647937 CTAGCTGCCG
* * * *
25647947 CCTCTGCTTTTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCATT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-ATT
25648010 GAA
64 GAA
* * *
25648013 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
25648078 A
66 A
* * * *
25648079 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
25648113 TTGTGTAATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
A
Found at i:25650556 original size:9 final size:9
Alignment explanation
Indices: 25650539--25650796 Score: 110
Period size: 9 Copynumber: 30.2 Consensus size: 9
25650529 TAAGTATAAT
*
25650539 TAAGCTATG
1 TAAGTTATG
25650548 TAAGTTATG
1 TAAGTTATG
25650557 T-A-TTATG
1 TAAGTTATG
25650564 TAAGTTAT-
1 TAAGTTATG
*
25650572 TTA-TTATG
1 TAAGTTATG
* *
25650580 AAAATTATG
1 TAAGTTATG
*
25650589 TAAGTTGTG
1 TAAGTTATG
25650598 T-A-TTATG
1 TAAGTTATG
*
25650605 -AA--AAT-
1 TAAGTTATG
* *
25650610 TATGCTATG
1 TAAGTTATG
*
25650619 TAAGTTATA
1 TAAGTTATG
* *
25650628 TAAGTCATA
1 TAAGTTATG
25650637 TAAGTTATG
1 TAAGTTATG
25650646 T-A-TTATG
1 TAAGTTATG
25650653 TAAGTTATG
1 TAAGTTATG
25650662 TAAGTTAT-
1 TAAGTTATG
*
25650670 TTA-TTATG
1 TAAGTTATG
* * *
25650678 CAAATTAAG
1 TAAGTTATG
25650687 TAAGTTATG
1 TAAGTTATG
25650696 TAAGTTATG
1 TAAGTTATG
*
25650705 TATA-ATAT-
1 TA-AGTTATG
25650713 TAA-TTAAT-
1 TAAGTT-ATG
25650721 TAAGTTATG
1 TAAGTTATG
*
25650730 TAATTTATG
1 TAAGTTATG
*
25650739 TATAATATTAATG
1 --TAA-GTT-ATG
25650752 TAAGTTATG
1 TAAGTTATG
*
25650761 TATA-ATAT-
1 TA-AGTTATG
25650769 TAA-TTAAT-
1 TAAGTT-ATG
25650777 TAAGTTATG
1 TAAGTTATG
*
25650786 TAATTTATG
1 TAAGTTATG
25650795 TA
1 TA
25650797 TAATATCACA
Statistics
Matches: 192, Mismatches: 32, Indels: 50
0.70 0.12 0.18
Matches are distributed among these distances:
6 3 0.02
7 29 0.15
8 31 0.16
9 114 0.59
10 4 0.02
11 6 0.03
12 2 0.01
13 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:25650565 original size:16 final size:16
Alignment explanation
Indices: 25650544--25650663 Score: 87
Period size: 16 Copynumber: 7.9 Consensus size: 16
25650534 ATAATTAAGC
25650544 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
25650560 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
25650576 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
25650585 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
25650601 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
25650615 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
25650633 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
25650649 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
25650664 AGTTATTTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 10 0.13
15 2 0.03
16 45 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:25650586 original size:25 final size:25
Alignment explanation
Indices: 25650558--25650694 Score: 127
Period size: 25 Copynumber: 5.6 Consensus size: 25
25650548 TAAGTTATGT
25650558 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
25650583 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* * *
25650608 ATTATGCTATGTAAGTTA-TAT--AA
1 ATTATG-TAAGTTATTTATTATGAAA
* * * * *
25650631 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
25650656 GTTATGTAAGTTATTTATTATGCAA
1 ATTATGTAAGTTATTTATTATGAAA
*
25650681 ATTAAGTAAGTTAT
1 ATTATGTAAGTTAT
25650695 GTAAGTTATG
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
22 7 0.08
23 8 0.09
25 67 0.76
26 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:25650725 original size:25 final size:25
Alignment explanation
Indices: 25650696--25650787 Score: 112
Period size: 25 Copynumber: 3.4 Consensus size: 25
25650686 GTAAGTTATG
25650696 TAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTATAATATTAATTAAT
* *
25650721 TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGT-A--TA-ATATTA-ATTAAT
25650751 GTAAGTTATGTATAATATTAATTAAT
1 -TAAGTTATGTATAATATTAATTAAT
25650777 TAAGTTATGTA
1 TAAGTTATGTA
25650788 ATTTATGTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 21 0.37
26 7 0.12
27 4 0.07
28 4 0.07
29 4 0.07
30 7 0.12
31 10 0.18
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (25 bp):
TAAGTTATGTATAATATTAATTAAT
Found at i:25650746 original size:34 final size:34
Alignment explanation
Indices: 25650647--25650762 Score: 139
Period size: 34 Copynumber: 3.5 Consensus size: 34
25650637 TAAGTTATGT
* * * ***
25650647 ATTATGTAAGTTATGTAAGTTATTTATTATGCAA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
25650681 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
* *
25650715 ATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
25650749 A-T--GTAAGTTATGTA
1 ATTAAGTAAGTTATGTA
25650763 TAATATTAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
31 11 0.15
33 1 0.01
34 61 0.84
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.47
Consensus pattern (34 bp):
ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
Found at i:25650759 original size:22 final size:22
Alignment explanation
Indices: 25650727--25650772 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
25650717 TAATTAAGTT
*
25650727 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
25650749 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
25650771 AT
1 AT
25650773 TAATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:25650766 original size:56 final size:56
Alignment explanation
Indices: 25650693--25650802 Score: 220
Period size: 56 Copynumber: 2.0 Consensus size: 56
25650683 TAAGTAAGTT
25650693 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
25650749 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
25650803 CACATCACTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:25650885 original size:13 final size:15
Alignment explanation
Indices: 25650866--25650906 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
25650856 CATATAAGTT
25650866 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
25650880 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
25650894 TTATGTAAGTTAT
1 -TATGTAAGTTAT
25650907 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:25650901 original size:16 final size:16
Alignment explanation
Indices: 25650865--25650943 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
25650855 ACATATAAGT
25650865 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
25650880 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
25650894 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
25650912 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
25650928 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
25650944 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:25653089 original size:122 final size:122
Alignment explanation
Indices: 25652949--25653192 Score: 479
Period size: 122 Copynumber: 2.0 Consensus size: 122
25652939 CCTAAAACCC
25652949 CAAAAATTTAATAAAAAAAGAACAGAAACGGCTTACCTATTCAATCGACAAATCTCGCAGCTGTG
1 CAAAAATTTAATAAAAAAAGAACAGAAACGGCTTACCTATTCAATCGACAAATCTCGCAGCTGTG
25653014 CCCACCGTCTTTCAAGATCGACTCCGACCACCTTTCTTCCCTTTCTATTTTTCGTGA
66 CCCACCGTCTTTCAAGATCGACTCCGACCACCTTTCTTCCCTTTCTATTTTTCGTGA
*
25653071 CAAAAATTTAATCAAAAAAGAACAGAAACGGCTTACCTATTCAATCGACAAATCTCGCAGCTGTG
1 CAAAAATTTAATAAAAAAAGAACAGAAACGGCTTACCTATTCAATCGACAAATCTCGCAGCTGTG
25653136 CCCACCGTCTTTCAAGATCGACTCCGACCACCTTTCTTCCCTTTCTATTTTTCGTGA
66 CCCACCGTCTTTCAAGATCGACTCCGACCACCTTTCTTCCCTTTCTATTTTTCGTGA
25653193 TAAGTTTTTA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (122 bp):
CAAAAATTTAATAAAAAAAGAACAGAAACGGCTTACCTATTCAATCGACAAATCTCGCAGCTGTG
CCCACCGTCTTTCAAGATCGACTCCGACCACCTTTCTTCCCTTTCTATTTTTCGTGA
Found at i:25653675 original size:8 final size:10
Alignment explanation
Indices: 25653652--25653688 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
25653642 TAATAACTAT
25653652 ATATATATCC
1 ATATATATCC
*
25653662 ATATATATTC
1 ATATATATCC
25653672 ATATATATCC
1 ATATATATCC
25653682 ATATATA
1 ATATATA
25653689 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:25654445 original size:15 final size:15
Alignment explanation
Indices: 25654410--25654448 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
25654400 AATAAAAAAC
*
25654410 AATTTTTTATTATAA
1 AATTTTGTATTATAA
25654425 AA-TTTGTATTATAA
1 AATTTTGTATTATAA
25654439 AATTTTGTAT
1 AATTTTGTAT
25654449 AGAAAATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (15 bp):
AATTTTGTATTATAA
Found at i:25654454 original size:14 final size:15
Alignment explanation
Indices: 25654410--25654455 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
25654400 AATAAAAAAC
* *
25654410 AATTTTTTATTATAA
1 AATTTTGTATTAGAA
*
25654425 AA-TTTGTATTATAA
1 AATTTTGTATTAGAA
25654439 AATTTTGTA-TAGAA
1 AATTTTGTATTAGAA
25654453 AAT
1 AAT
25654456 GCATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
AATTTTGTATTAGAA
Found at i:25654812 original size:23 final size:23
Alignment explanation
Indices: 25654781--25654826 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25654771 CTATAAAACG
25654781 CCACAATAGAATCTGATTCCCTA
1 CCACAATAGAATCTGATTCCCTA
*
25654804 CCACGATAGAATCTGATTCCCTA
1 CCACAATAGAATCTGATTCCCTA
25654827 ATTCACGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (23 bp):
CCACAATAGAATCTGATTCCCTA
Found at i:25655472 original size:14 final size:14
Alignment explanation
Indices: 25655453--25655520 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
25655443 ATGACCGTTG
25655453 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
25655467 AAACCCCTAAACCTCC
1 AAA-CCCTAAATCT-C
*
25655483 AACCCCTAAAT-T-
1 AAACCCTAAATCTC
* *
25655495 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
25655508 AAACCTTAAATCT
1 AAACCCTAAATCT
25655521 ATACCCAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 16 0.38
16 3 0.07
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:25655476 original size:15 final size:15
Alignment explanation
Indices: 25655456--25655493 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25655446 ACCGTTGAAA
25655456 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
25655471 CCCTAAACCTCCAAC
1 CCCTAAATCTCAAAC
25655486 CCCTAAAT
1 CCCTAAAT
25655494 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:25656175 original size:81 final size:82
Alignment explanation
Indices: 25656047--25656284 Score: 300
Period size: 81 Copynumber: 2.9 Consensus size: 82
25656037 CTAAAGGTAG
* * * *
25656047 CATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGTCAGAGTATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGACA-AAAACGCCGCTAAAGGACAGAGAATTAGTGGCGCTCAGATAAAAA
25656112 CGCCACTAAAAACACGAA
65 CGCCACTAAAAACACGAA
* * * * *
25656130 CTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACGGAGAATTAGTGGCGCTCAGACAATAAC
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGACAGAGAATTAGTGGCGCTCAGATAAAAAC
** * *
25656194 GCCACTAATGATACGAG
66 GCCACTAAAAACACGAA
*
25656211 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGA-ACATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGACAGAGA-ATTAGTGGCGCTCAGATAAAAA
* *
25656275 CACCGCTAAA
65 CGCCACTAAA
25656285 GATCGGAGAA
Statistics
Matches: 132, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
81 70 0.53
82 47 0.36
83 15 0.11
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGACAGAGAATTAGTGGCGCTCAGATAAAAAC
GCCACTAAAAACACGAA
Found at i:25656267 original size:82 final size:81
Alignment explanation
Indices: 25656045--25656327 Score: 320
Period size: 82 Copynumber: 3.5 Consensus size: 81
25656035 CGCTAAAGGT
* * *
25656045 AGCATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGTCAGAGTATTAGTGGCGCTCAGATAAA
1 AGCATTAGCGGCGCTTAGATA-AAAACGCCGCTAAAGGACAGA-AATTAGTGGCGCTCAGATAAA
* *
25656110 AACGCCACTAAAAACACG
64 AACGCCACTAAAGATACG
* * * * * *
25656128 AACTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACGGAGAATTAGTGGCGCTCAGACAATA
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAGA-AATTAGTGGCGCTCAGATAAAA
*
25656192 ACGCCACTAATGATACG
65 ACGCCACTAAAGATACG
* *
25656209 AGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATAAAA
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAGAA-ATTAGTGGCGCTCAGATAAAA
* *
25656274 ACACCGCTAAAGAT-CGG
65 ACGCCACTAAAGATAC-G
* * *
25656291 AGAATTAGTGGCGC-TAAAGTAAAAACGCCGCTAAAGG
1 AGCATTAGCGGCGCTTAGA-TAAAAACGCCGCTAAAGG
25656328 TTTAAAAATC
Statistics
Matches: 170, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
81 74 0.44
82 80 0.47
83 16 0.09
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (81 bp):
AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAGAAATTAGTGGCGCTCAGATAAAAA
CGCCACTAAAGATACG
Found at i:25656285 original size:41 final size:41
Alignment explanation
Indices: 25656010--25656327 Score: 226
Period size: 41 Copynumber: 7.8 Consensus size: 41
25656000 TTTTGTTACT
* *
25656010 ATTAGCGGCGCTTCGGA-AAAAACGCCGCTAAAGG-TAG--C
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGACAGAAC
* * * **
25656048 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGTCAGAGT
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGGACAGAAC
* * *
25656090 ATTAGTGGCGCTCAGATAAAAACGCCACTAAA-AACACGAAC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAAC
* * * *
25656131 TTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACGGAGA-
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGA-AC
* * * * * * *
25656171 ATTAGTGGCGCTCAGACAATAACGCCACT-AATGATACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAAC
* * *
25656212 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAAC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAAC
* * *
25656253 ATTAGTGGCGCTCAGATAAAAACACCGCTAAA-GATCGGAGA-
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGA-CAGA-AC
* *
25656294 ATTAGTGGCGCT-AAAGTAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGA-TAAAAACGCCGCTAAAGG
25656328 TTTAAAAATC
Statistics
Matches: 220, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
37 2 0.01
38 12 0.05
39 16 0.07
40 39 0.18
41 130 0.59
42 21 0.10
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAAC
Found at i:25661514 original size:23 final size:26
Alignment explanation
Indices: 25661452--25661513 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
25661442 AATAAAAAAA
25661452 ATTAAAATATTATAATTTTTTTATTT
1 ATTAAAATATTATAATTTTTTTATTT
25661478 ATTAAAATATTATAATTTTTTTATTT
1 ATTAAAATATTATAATTTTTTTATTT
*
25661504 ATCAAAATAT
1 ATTAAAATAT
25661514 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTAAAATATTATAATTTTTTTATTT
Found at i:25661588 original size:27 final size:27
Alignment explanation
Indices: 25661557--25661615 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
25661547 CACCCTGGTC
*
25661557 GTGCCAAGGTGATTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
*
25661584 TTGCCAAAGTGATTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
25661611 GTGCC
1 GTGCC
25661616 TTTTTGGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.34, T:0.17
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:25661939 original size:19 final size:18
Alignment explanation
Indices: 25661897--25661939 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
25661887 ATTATTATTG
25661897 TTAGT-ATTAAGATGTTA
1 TTAGTAATTAAGATGTTA
25661914 TTAAGTAATTAAGATGTTA
1 TT-AGTAATTAAGATGTTA
25661933 CTTAGTA
1 -TTAGTA
25661940 GTATTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.09
18 3 0.13
19 16 0.70
20 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (18 bp):
TTAGTAATTAAGATGTTA
Found at i:25662888 original size:17 final size:18
Alignment explanation
Indices: 25662859--25662897 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
25662849 GATATGGTTA
25662859 GTGGTGAAAAAGAAGGTG
1 GTGGTGAAAAAGAAGGTG
25662877 GTGGTG-AAAAGAAGGTG
1 GTGGTGAAAAAGAAGGTG
25662894 GTGG
1 GTGG
25662898 CGATCATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.49, T:0.18
Consensus pattern (18 bp):
GTGGTGAAAAAGAAGGTG
Found at i:25667981 original size:29 final size:28
Alignment explanation
Indices: 25667937--25668075 Score: 75
Period size: 28 Copynumber: 5.1 Consensus size: 28
25667927 TAAAATTTAC
25667937 CTTTTTTTCTTCCTTC-CCTCTT-CTTCTT
1 CTTTTTTTCTTCCTTCTCCT-TTCCTT-TT
*
25667965 CTTTTTTTTTTCTCTTCTCCTTTCCTTTT
1 CTTTTTTTCTTC-CTTCTCCTTTCCTTTT
**
25667994 CTTTCCTTCTT--TT-T-CTTT-CTTTT
1 CTTTTTTTCTTCCTTCTCCTTTCCTTTT
* * * *
25668017 -TTCTTCTCCTTTCC-TCTTC-TTCTTCTTT
1 CTT-TTTTTC-TTCCTTCTCCTTTCCT-TTT
*
25668045 CTTTTTTT-TCCCTTCTCCTTTCCTTTT
1 CTTTTTTTCTTCCTTCTCCTTTCCTTTT
25668072 CTTT
1 CTTT
25668076 CCTTCTTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
22 2 0.02
23 9 0.11
24 6 0.07
25 2 0.02
26 8 0.09
27 13 0.15
28 21 0.25
29 18 0.21
30 6 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTTTTTCTTCCTTCTCCTTTCCTTTT
Found at i:25668012 original size:4 final size:4
Alignment explanation
Indices: 25667991--25668136 Score: 87
Period size: 4 Copynumber: 37.0 Consensus size: 4
25667981 CTCCTTTCCT
*
25667991 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* * * *
25668036 -TTC -TTC TTTC TTT- TTT- TTCC CTTC -TCC TTTCC TTTTC TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C -TTTC TTTC TTTC
* *
25668081 -TT- TTTC TTTC TTTCC TCTCC TTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
25668129 TTTC TTTC
1 TTTC TTTC
25668137 CCTCTCCTTC
Statistics
Matches: 118, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
3 24 0.20
4 73 0.62
5 12 0.10
6 9 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:25668078 original size:78 final size:79
Alignment explanation
Indices: 25667938--25668145 Score: 277
Period size: 78 Copynumber: 2.7 Consensus size: 79
25667928 AAAATTTACC
* *
25667938 TTTTT-TTCTTCCTTCCCTCTTCTTCTTC-TT-TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTTTTCTTCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
25668000 TTCTTTTTCTTTCT
66 TTCTTTTTCTTTCT
25668014 TTTTTCTTC-TCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
1 TTTTTCTTCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
25668078 TTCTTTTTCTTTCT
66 TTCTTTTTCTTTCT
** *
25668092 TTCCTCTCCTTCCTTT-CT-TTCTTTCTTTCTTTCTTTCTTTCTTTCCC-TCTCCTT
1 TTTTTCTTCTTCCTTTCCTCTTC-TTC-TTCTTTC-TT-TTT-TTTCCCTTCTCCTT
25668146 CTCCCCCCAA
Statistics
Matches: 118, Mismatches: 5, Indels: 13
0.87 0.04 0.10
Matches are distributed among these distances:
76 23 0.19
77 8 0.07
78 56 0.47
79 13 0.11
80 2 0.02
81 10 0.08
82 6 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (79 bp):
TTTTTCTTCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
TTCTTTTTCTTTCT
Found at i:25668218 original size:27 final size:27
Alignment explanation
Indices: 25668180--25668231 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
25668170 TATTATAACA
**
25668180 TTGGTGCCGCCAATGTCTTTGGCACCT
1 TTGGTGCCGCCAATCACTTTGGCACCT
25668207 TTGGTGCCGCCAATCACTTTGGCAC
1 TTGGTGCCGCCAATCACTTTGGCAC
25668232 AACCAGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGTGCCGCCAATCACTTTGGCACCT
Found at i:25668327 original size:26 final size:27
Alignment explanation
Indices: 25668295--25668354 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
25668285 TGTTTTTGGT
25668295 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
* *
25668321 TTATTTTGGTAATTAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
25668348 ATATTTT
1 ATATTTT
25668355 AATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:25671979 original size:161 final size:160
Alignment explanation
Indices: 25671747--25672066 Score: 496
Period size: 161 Copynumber: 2.0 Consensus size: 160
25671737 GGGTGGTCAA
** *
25671747 AATGAAAGTGTAATTATAATGTGGAGTGTATAATTAACCTTCGTTAGAGATATAATAGTTGAATG
1 AATGAAAGTGTAAAAATAATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGTTGAATG
* ** * *
25671812 ATTAAAATGAAAGCGCCTTAAAAGTTGGGTGACGAAATTACAAGAATTTTATTTTGAGTGGCCAA
66 ATTAAAATGAAAGCACAGTAAAAGTTGGGTGACGAAATTACAAGAATTTGATTTTGAGTGACCAA
25671877 AATGAAAGTACACTAAAAGTGATGTGACCAC
131 AATGAAAGTACACTAAAAGTGAT-TGACCAC
* * * *
25671908 AATGAAAGTGTAAAAATGATGTGGAGTGTACAGTTAACTTTTGTTAGAGATATAATAGTTGAATG
1 AATGAAAGTGTAAAAATAATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGTTGAATG
* *
25671973 ATTAAAATGAAAGCATAGTAAAAGTTGGGTGACGAAATTGCAAGAATTTGATTTTGAGTGACCAA
66 ATTAAAATGAAAGCACAGTAAAAGTTGGGTGACGAAATTACAAGAATTTGATTTTGAGTGACCAA
*
25672038 AATGAAAGTGCACTAAAAGTGATTGACCA
131 AATGAAAGTACACTAAAAGTGATTGACCA
25672067 GATGGGTAGT
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
160 6 0.04
161 138 0.96
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (160 bp):
AATGAAAGTGTAAAAATAATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGTTGAATG
ATTAAAATGAAAGCACAGTAAAAGTTGGGTGACGAAATTACAAGAATTTGATTTTGAGTGACCAA
AATGAAAGTACACTAAAAGTGATTGACCAC
Found at i:25687492 original size:13 final size:13
Alignment explanation
Indices: 25687476--25687501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25687466 TTTTTTAACA
25687476 TTATTTAATTTTT
1 TTATTTAATTTTT
25687489 TTATTTAATTTTT
1 TTATTTAATTTTT
25687502 ATAACTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTAATTTTT
Found at i:25688165 original size:54 final size:55
Alignment explanation
Indices: 25688107--25688225 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 55
25688097 AAACGGCCCA
25688107 CTTCCATAAATAATTTCAGAAATGA-ACCTTTATTGATACTAAACCCTATTTAAG
1 CTTCCATAAATAATTTCAGAAATGACACCTTTATTGATACTAAACCCTATTTAAG
*
25688161 CTTCCATAAATAATTTCAGAAATGAGCCTCCTTTATTGATACTAAACCCTATTTAAG
1 CTTCCATAAATAATTTCAGAAATGA--CACCTTTATTGATACTAAACCCTATTTAAG
25688218 CTTCCATA
1 CTTCCATA
25688226 CATGTAATTC
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
54 25 0.41
57 36 0.59
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (55 bp):
CTTCCATAAATAATTTCAGAAATGACACCTTTATTGATACTAAACCCTATTTAAG
Found at i:25692426 original size:16 final size:16
Alignment explanation
Indices: 25692402--25692439 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
25692392 ATAACTATAC
* *
25692402 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
25692418 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
25692434 TGTAAT
1 TGTAAT
25692440 AGTAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:25692474 original size:45 final size:44
Alignment explanation
Indices: 25692418--25692515 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
25692408 GGATTAGAGG
* *
25692418 TGTAATGGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGATTGAA
1 TGTAATAGAATAGAGGCGTAATAGT-AATC-ATGTGTTTGATTGAA
* *
25692463 TGTAATAGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGTAATCATGTGTTTGATTGAA
*
25692507 TCTAATAGA
1 TGTAATAGA
25692516 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGTAATCATGTGTTTGATTGAA
Found at i:25692694 original size:18 final size:17
Alignment explanation
Indices: 25692673--25692707 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25692663 TTATTATTAA
*
25692673 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25692691 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25692708 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25692761 original size:157 final size:157
Alignment explanation
Indices: 25692560--25692876 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
25692550 TAGAATACCC
*
25692560 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
25692625 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
25692690 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
25692717 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
25692782 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
25692847 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
25692874 TTA
1 TTA
25692877 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:25692847 original size:16 final size:16
Alignment explanation
Indices: 25692810--25692851 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25692800 TTAATCATAT
*
25692810 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25692826 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25692841 TTAAAATATAT
1 TTAAAATATAT
25692852 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25692858 original size:14 final size:15
Alignment explanation
Indices: 25692819--25692860 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25692809 TTTAAACATA
*
25692819 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25692834 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25692848 A-TATAATTTAATA
1 ATTATAATTAAATA
25692861 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25692978 original size:14 final size:15
Alignment explanation
Indices: 25692929--25692980 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25692919 GTAAAATATA
25692929 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25692944 TATTAAATATATTAT
1 AATTAAATATATTAT
25692959 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25692972 AATTTAATA
1 AATTAAATA
25692981 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25693091 original size:120 final size:120
Alignment explanation
Indices: 25692813--25693075 Score: 526
Period size: 120 Copynumber: 2.2 Consensus size: 120
25692803 ATCATATTTA
25692813 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25692878 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
25692933 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25692998 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
25693053 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
25693076 AACTTGAAAA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 143 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:25698694 original size:72 final size:72
Alignment explanation
Indices: 25698606--25698748 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
25698596 GGTCAATTTC
*
25698606 GGGTAGGGAGGGAGGGTAAAACAGAGACTTGGGAAGGGAAGCCGGATGTAATGGGTAATCGTGGA
1 GGGTAGGGAGGAAGGGTAAAACAGAGACTTGGGAAGGGAAGCCGGATGTAATGGGTAATCGTGGA
25698671 TTTGGGT
66 TTTGGGT
*
25698678 GGGTAGGGAGGAAGGGTAAAACAGAGACTTGGGAAGGGAAGTCGGATGTAATGGGTAATCGTGGA
1 GGGTAGGGAGGAAGGGTAAAACAGAGACTTGGGAAGGGAAGCCGGATGTAATGGGTAATCGTGGA
25698743 TTTGGG
66 TTTGGG
25698749 AAGGGAATAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.29, C:0.06, G:0.45, T:0.20
Consensus pattern (72 bp):
GGGTAGGGAGGAAGGGTAAAACAGAGACTTGGGAAGGGAAGCCGGATGTAATGGGTAATCGTGGA
TTTGGGT
Found at i:25698749 original size:38 final size:37
Alignment explanation
Indices: 25698634--25698755 Score: 119
Period size: 38 Copynumber: 3.3 Consensus size: 37
25698624 AAACAGAGAC
25698634 TTGGGAAGGGAAGCCGGATGTAATGGGTAATCGTGGAT
1 TTGGGAAGGGAAG-CGGATGTAATGGGTAATCGTGGAT
* * * * * *
25698672 TTGGG-TGGGTAG-GGA-GGAA-GGGTAAAACAG-AGAC
1 TTGGGAAGGGAAGCGGATGTAATGGGT-AATC-GTGGAT
25698706 TTGGGAAGGGAAGTCGGATGTAATGGGTAATCGTGGAT
1 TTGGGAAGGGAAG-CGGATGTAATGGGTAATCGTGGAT
25698744 TTGGGAAGGGAA
1 TTGGGAAGGGAA
25698756 TAGAGAAGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
33 4 0.06
34 13 0.20
35 9 0.14
37 9 0.14
38 25 0.39
39 4 0.06
ACGTcount: A:0.29, C:0.06, G:0.44, T:0.21
Consensus pattern (37 bp):
TTGGGAAGGGAAGCGGATGTAATGGGTAATCGTGGAT
Found at i:25701317 original size:59 final size:57
Alignment explanation
Indices: 25701239--25701397 Score: 146
Period size: 59 Copynumber: 2.8 Consensus size: 57
25701229 TTCAAAGTCC
* * * * *
25701239 AAAAATATTTTTTGGGTGCTGAGACACTAATGGCCGGCA-CCTCTATACCCGATTTTTTA
1 AAAAAAATTATTTGAGTGCTGAGACACTAATGGCCGGCACCCT-TATACCAGA--TTTGA
* * *
25701298 AAAAAAATTGTTTGAGTGCT-AGGACACTAATGGTCGGCACCCTTGTACCAGATTTGA
1 AAAAAAATTATTTGAGTGCTGA-GACACTAATGGCCGGCACCCTTATACCAGATTTGA
* * *
25701355 AAAAAAA--ACTTGAGTGCTGGGACACTAATGGCCGACACACCTT
1 AAAAAAATTATTTGAGTGCTGAGACACTAATGGCCGGCAC-CCTT
25701398 TACTATATAA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
55 25 0.30
56 4 0.05
57 11 0.13
58 1 0.01
59 40 0.48
60 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (57 bp):
AAAAAAATTATTTGAGTGCTGAGACACTAATGGCCGGCACCCTTATACCAGATTTGA
Found at i:25705575 original size:43 final size:43
Alignment explanation
Indices: 25705509--25705637 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
25705499 AACTAATACA
** ** * *
25705509 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACAGATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAAACACAAATCG
* *
25705552 ATGCCACTGTCCCAGACAG-GGTCTTACACATAAACACAAATTG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACATAAACACAAATCG
* * * *
25705595 ATGCCAATGTCCCAGACGTGATCTTATACGTAAACACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAAACACAAATCG
25705638 GAAATCCTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACATAAACACAAATCG
Found at i:25712319 original size:26 final size:26
Alignment explanation
Indices: 25712283--25712332 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
25712273 AAGAAGAAAA
25712283 AGAAAATCGTGCCAAGCGGCAGACAG
1 AGAAAATCGTGCCAAGCGGCAGACAG
25712309 AGAAAATCGTGCCAAGCGGCAGAC
1 AGAAAATCGTGCCAAGCGGCAGAC
25712333 TTATATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.30, T:0.08
Consensus pattern (26 bp):
AGAAAATCGTGCCAAGCGGCAGACAG
Found at i:25715218 original size:31 final size:29
Alignment explanation
Indices: 25715144--25715201 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25715134 GAATTGGATC
* *
25715144 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATC-AAAGTTCATGTATAAAATTACACA
*
25715174 AAATCAAAGTTCATGTATACAATTACAC
1 AAATCAAAGTTCATGTATAAAATTACAC
25715202 TTTAAATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTACACA
Found at i:25715428 original size:21 final size:21
Alignment explanation
Indices: 25715402--25715456 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
25715392 AACAGCGGTG
*
25715402 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
25715423 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
25715444 GCGGTGAGATTAG
1 GCGGTGAGATTAG
25715457 AAATAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:25720758 original size:819 final size:819
Alignment explanation
Indices: 25719171--25721082 Score: 3716
Period size: 819 Copynumber: 2.3 Consensus size: 819
25719161 AAGTTTGAAA
* *
25719171 AAAACTTTATGAGATATTTTGGTTATTTTTAGCTTTTATTTTTGCATTTTTGAGATAATTTTCTC
1 AAAACTTTATAAGATATTTTGGTTATTTTTAGCTTTCATTTTTGCATTTTTGAGATAATTTTCTC
25719236 TAGTTTTCATCATTGGTGTCACTAAAAATTATCTTTACTGTCATAGTCTACAATTTGAGTGTCTT
66 TAGTTTTCATCATTGGTGTCACTAAAAATTATCTTTACTGTCATAGTCTACAATTTGAGTGTCTT
*
25719301 TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTCTTTACAGTAATATTCCACTTA
131 TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTTTTTACAGTAATATTCCACTTA
25719366 TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTCTTTAGCAATAAGTCTTAAA
196 TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTCTTTAGCAATAAGTCTTAAA
25719431 TCATTACACTAAGTCTTCTCACGTCTCTGCTTAACTGATTTGAGTGCTCCTTTAGAGGATTTATG
261 TCATTACACTAAGTCTTCTCACGTCTCTGCTTAACTGATTTGAGTGCTCCTTTAGAGGATTTATG
25719496 GATGAATTTTTGATGATTGCTTATTATCTTTGCTAAACATAGGTGCTTGGTTCATGGTTGGATAG
326 GATGAATTTTTGATGATTGCTTATTATCTTTGCTAAACATAGGTGCTTGGTTCATGGTTGGATAG
25719561 TGGGACTTTCGATTTTATTTATACCTTCGGGATTATTTGATGATTTCATGTGGTATTGTCTATTA
391 TGGGACTTTCGATTTTATTTATACCTTCGGGATTATTTGATGATTTCATGTGGTATTGTCTATTA
*
25719626 ATTTTATTCAATTAAAGCCACTTTAAAATTTGTTTTAGTTCTTGATTAATTTCATGAGCTGCATT
456 ATTTTATTCAATTAAAGCCACTTTAAAATTTGTTTTAGTTCCTGATTAATTTCATGAGCTGCATT
25719691 TATTAATGTATCTGTAAGTGTGTTGTTAAATATTTATTTGTAAATTTGCTGAATTAAGCATAATT
521 TATTAATGTATCTGTAAGTGTGTTGTTAAATATTTATTTGTAAATTTGCTGAATTAAGCATAATT
25719756 TTTAGTATTTTCTAACTGCTGAATTTTTAGTATTTGGTGTGGAATTTCATAGAATTGGTTGTTAT
586 TTTAGTATTTTCTAACTGCTGAATTTTTAGTATTTGGTGTGGAATTTCATAGAATTGGTTGTTAT
25719821 AGTGTATTTTAATTAAAGGAATGTTTAAACTCACGTCCCATACTCTGTTTGCTGAGCATAGCTGG
651 AGTGTATTTTAATTAAAGGAATGTTTAAACTCACGTCCCATACTCTGTTTGCTGAGCATAGCTGG
*
25719886 GTTTATTGGATTTTTAGTATTTTCTAACTGCTGACATGCTATTGATGGAGGAAGTAGAGGACCTA
716 GTTTATTGGATTTTTAGTATTTTCTAACTGCTGACATGCTATTGATGGAGGAAGGAGAGGACCTA
25719951 TGTAGAAAGACAATAATTACCGAACTATATAGCTCACCG
781 TGTAGAAAGACAATAATTACCGAACTATATAGCTCACCG
*
25719990 AAAATTTTATAAGATATTTTGGTTATTTTTAGCTTTCATTTTTGCATTTTTGAGATAATTTTCTC
1 AAAACTTTATAAGATATTTTGGTTATTTTTAGCTTTCATTTTTGCATTTTTGAGATAATTTTCTC
25720055 TAGTTTTCATCATTGGTGTCACTAAAAATTATCTTTACTGTCATAGTCTACAATTTGAGTGTCTT
66 TAGTTTTCATCATTGGTGTCACTAAAAATTATCTTTACTGTCATAGTCTACAATTTGAGTGTCTT
25720120 TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTTTTTACAGTAATATTCCACTTA
131 TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTTTTTACAGTAATATTCCACTTA
25720185 TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTCTTTAGCAATAAGTCTTAAA
196 TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTCTTTAGCAATAAGTCTTAAA
25720250 TCATTACACTAAGTCTTCTCACGTCTCTGCTTAACTGATTTGAGTGCTCCTTTAGAGGATTTATG
261 TCATTACACTAAGTCTTCTCACGTCTCTGCTTAACTGATTTGAGTGCTCCTTTAGAGGATTTATG
25720315 GATGAATTTTTGATGATTGCTTATTATCTTTGCTAAACATAGGTGCTTGGTTCATGGTTGGATAG
326 GATGAATTTTTGATGATTGCTTATTATCTTTGCTAAACATAGGTGCTTGGTTCATGGTTGGATAG
25720380 TGGGACTTTCGATTTTATTTATACCTTCGGGATTATTTGATGATTTCATGTGGTATTGTCTATTA
391 TGGGACTTTCGATTTTATTTATACCTTCGGGATTATTTGATGATTTCATGTGGTATTGTCTATTA
25720445 ATTTTATTCAATTAAAGCCACTTTAAAATTTGTTTTAGTTCCTGATTAATTTCATGAGCTGCATT
456 ATTTTATTCAATTAAAGCCACTTTAAAATTTGTTTTAGTTCCTGATTAATTTCATGAGCTGCATT
25720510 TATTAATGTATCTGTAAGTGTGTTGTTAAATATTTATTTGTAAATTTGCTGAATTAAGCATAATT
521 TATTAATGTATCTGTAAGTGTGTTGTTAAATATTTATTTGTAAATTTGCTGAATTAAGCATAATT
25720575 TTTAGTATTTTCTAACTGCTGAATTTTTAGTATTTGGTGTGGAATTTCATAGAATTGGTTGTTAT
586 TTTAGTATTTTCTAACTGCTGAATTTTTAGTATTTGGTGTGGAATTTCATAGAATTGGTTGTTAT
25720640 AGTGTATTTTAATTAAAGGAATGTTTAAACTCACGTCCCATACTCTGTTTGCTGAGCATAGCTGG
651 AGTGTATTTTAATTAAAGGAATGTTTAAACTCACGTCCCATACTCTGTTTGCTGAGCATAGCTGG
25720705 GTTTATTGGATTTTTAGTATTTTCTAACTGCTGACATGCTATTGATGGAGGAAGGAGAGGACCTA
716 GTTTATTGGATTTTTAGTATTTTCTAACTGCTGACATGCTATTGATGGAGGAAGGAGAGGACCTA
25720770 TGTAGAAAGACAATAATTACCGAACTATATAGCTCACCG
781 TGTAGAAAGACAATAATTACCGAACTATATAGCTCACCG
25720809 AAAACTTTATAAGATATTTTGGTTATTTTTAGCTTTCATTTTTGCATTTTTGAGATAATTTTCTC
1 AAAACTTTATAAGATATTTTGGTTATTTTTAGCTTTCATTTTTGCATTTTTGAGATAATTTTCTC
* * * *
25720874 CAGTTTTCATCATTGGTCTCACTAAAAATTATTTTTACTGTCATGGTCTACAATTTGAGTGTCTT
66 TAGTTTTCATCATTGGTGTCACTAAAAATTATCTTTACTGTCATAGTCTACAATTTGAGTGTCTT
25720939 TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTTTTTACAGTAATATTCCACTTA
131 TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTTTTTACAGTAATATTCCACTTA
*
25721004 TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTCTTTTAACAATAAGTCTTAA
196 TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTC-TTTAGCAATAAGTCTTAA
25721069 ATCATTACACTAAG
260 ATCATTACACTAAG
25721083 GGAATATTGG
Statistics
Matches: 1080, Mismatches: 12, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
819 1049 0.97
820 31 0.03
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (819 bp):
AAAACTTTATAAGATATTTTGGTTATTTTTAGCTTTCATTTTTGCATTTTTGAGATAATTTTCTC
TAGTTTTCATCATTGGTGTCACTAAAAATTATCTTTACTGTCATAGTCTACAATTTGAGTGTCTT
TAGTTCTTCTCTTCTTCCAGGGAAAATTTGTTTAGTGTCTATTTTTTACAGTAATATTCCACTTA
TTATATAAAAGCAGTGGTGATTAATTTCATTGGAAATGTATAACTCTTTAGCAATAAGTCTTAAA
TCATTACACTAAGTCTTCTCACGTCTCTGCTTAACTGATTTGAGTGCTCCTTTAGAGGATTTATG
GATGAATTTTTGATGATTGCTTATTATCTTTGCTAAACATAGGTGCTTGGTTCATGGTTGGATAG
TGGGACTTTCGATTTTATTTATACCTTCGGGATTATTTGATGATTTCATGTGGTATTGTCTATTA
ATTTTATTCAATTAAAGCCACTTTAAAATTTGTTTTAGTTCCTGATTAATTTCATGAGCTGCATT
TATTAATGTATCTGTAAGTGTGTTGTTAAATATTTATTTGTAAATTTGCTGAATTAAGCATAATT
TTTAGTATTTTCTAACTGCTGAATTTTTAGTATTTGGTGTGGAATTTCATAGAATTGGTTGTTAT
AGTGTATTTTAATTAAAGGAATGTTTAAACTCACGTCCCATACTCTGTTTGCTGAGCATAGCTGG
GTTTATTGGATTTTTAGTATTTTCTAACTGCTGACATGCTATTGATGGAGGAAGGAGAGGACCTA
TGTAGAAAGACAATAATTACCGAACTATATAGCTCACCG
Found at i:25723846 original size:21 final size:20
Alignment explanation
Indices: 25723822--25723884 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
25723812 GAACAAAGTA
*
25723822 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
25723843 AAAAATGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
25723864 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
25723883 AA
1 AA
25723885 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.27, T:0.05
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:25725832 original size:42 final size:42
Alignment explanation
Indices: 25725753--25726106 Score: 466
Period size: 42 Copynumber: 8.4 Consensus size: 42
25725743 ACATCGCTAA
* *
25725753 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
25725797 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTGAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
25725839 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
25725881 CTTTAGCGGCGCTTAGAAAAAAAACGTCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
* *
25725924 CTCTAGCGGCGCTTAG-AAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
25725965 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* ** * *
25726007 CTGTAGCGGCGCTTTAGAGGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
25726050 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
25726092 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
25726107 TTTCACAAAC
Statistics
Matches: 280, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
41 40 0.14
42 153 0.55
43 74 0.26
44 13 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:25726119 original size:85 final size:85
Alignment explanation
Indices: 25725774--25726105 Score: 349
Period size: 85 Copynumber: 3.9 Consensus size: 85
25725764 CTTACATAAA
* * * *
25725774 AAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTGAAGATCATGT
1 AAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
* **
25725838 TCTTTAGCGGCGC-TTAGAAA
65 TCTGTAGCGGCGCTTTAGAGC
* * * *
25725858 AAAACGCCACT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGTCGCTAAAGATCATG
1 AAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATG
* *
25725922 TTCTCTAGCGGCGC-TTAGA-A
64 TTCTGTAGCGGCGCTTTAGAGC
* * * *
25725942 AAAATGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
*
25726006 TCTGTAGCGGCGCTTTAGAGG
65 TCTGTAGCGGCGCTTTAGAGC
**
25726027 AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGT
1 AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-T
*
25726089 GTTCTTTAGCGGCGCTT
63 GTTCTGTAGCGGCGCTT
25726106 ATTTCACAAA
Statistics
Matches: 225, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
83 36 0.16
84 84 0.37
85 101 0.45
86 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (85 bp):
AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
CTGTAGCGGCGCTTTAGAGC
Found at i:25726147 original size:44 final size:44
Alignment explanation
Indices: 25726093--25726210 Score: 209
Period size: 44 Copynumber: 2.7 Consensus size: 44
25726083 AGTAGTGTTC
25726093 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
1 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
25726137 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
1 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
* * *
25726181 TTTAGCGGCGCTTTTTTAAAAAACGCCACT
1 TTTAGCGGCGCTTATTTCACAAACGCCACT
25726211 AATTTTGGGA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (44 bp):
TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
Found at i:25731825 original size:9 final size:9
Alignment explanation
Indices: 25731800--25731938 Score: 107
Period size: 9 Copynumber: 15.9 Consensus size: 9
25731790 GATTTAGGAA
25731800 TAAGTTATG
1 TAAGTTATG
25731809 T-A-TTATG
1 TAAGTTATG
25731816 TAAGTTATG
1 TAAGTTATG
25731825 TAAGTTATG
1 TAAGTTATG
*
25731834 TAAGTTGTG
1 TAAGTTATG
*
25731843 TAAGTTGTG
1 TAAGTTATG
*
25731852 TAAGTTGTG
1 TAAGTTATG
25731861 T-A-TTATG
1 TAAGTTATG
* *
25731868 AAACTTATG
1 TAAGTTATG
*
25731877 TACGTTATG
1 TAAGTTATG
*
25731886 T--CTTATG
1 TAAGTTATG
25731893 TAAGTTATG
1 TAAGTTATG
25731902 TATTA-TTATG
1 TA--AGTTATG
25731912 TAGAG-TATG
1 TA-AGTTATG
25731921 TATTA-TTATG
1 TA--AGTTATG
25731931 TAAGTTAT
1 TAAGTTAT
25731939 TATGTAAGTA
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
7 16 0.15
8 5 0.05
9 72 0.67
10 14 0.13
11 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:25731829 original size:25 final size:25
Alignment explanation
Indices: 25731800--25731903 Score: 127
Period size: 25 Copynumber: 4.1 Consensus size: 25
25731790 GATTTAGGAA
25731800 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
25731825 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
25731852 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
25731877 TACGTTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
25731902 TA
1 TA
25731904 TTATTATGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 42 0.65
26 2 0.03
27 21 0.32
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:25731853 original size:27 final size:26
Alignment explanation
Indices: 25731800--25731938 Score: 117
Period size: 25 Copynumber: 5.3 Consensus size: 26
25731790 GATTTAGGAA
25731800 TAAGTTATGT-ATTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
25731825 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGTAA-TTATGTAAGTTATG
* * *
25731852 TAAGTTGTGT-ATTATGAAACTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
25731877 TACGTTATGT-CTTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
*
25731902 TATTA-TTATGTAGAGTATGTATTA-TTATG
1 TA--AGTTATGTA-ATTATGTA--AGTTATG
25731931 TAAGTTAT
1 TAAGTTAT
25731939 TATGTAAGTA
Statistics
Matches: 90, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
25 42 0.47
26 8 0.09
27 22 0.24
28 10 0.11
29 7 0.08
30 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (26 bp):
TAAGTTATGTAATTATGTAAGTTATG
Found at i:25731890 original size:16 final size:16
Alignment explanation
Indices: 25731871--25731907 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25731861 TATTATGAAA
*
25731871 CTTATGTACGTTATGT
1 CTTATGTAAGTTATGT
25731887 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
*
25731903 ATTAT
1 CTTAT
25731908 TATGTAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:25731912 original size:19 final size:19
Alignment explanation
Indices: 25731888--25731938 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
25731878 ACGTTATGTC
25731888 TTATGTAAGTTATGTATTA
1 TTATGTAAGTTATGTATTA
25731907 TTATGTAGAG-TATGTATTA
1 TTATGTA-AGTTATGTATTA
25731926 TTATGTAAGTTAT
1 TTATGTAAGTTAT
25731939 TATGTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAAGTTATGTATTA
Found at i:25732082 original size:15 final size:12
Alignment explanation
Indices: 25731923--25732084 Score: 88
Period size: 12 Copynumber: 13.8 Consensus size: 12
25731913 AGAGTATGTA
25731923 TTATTATGTAAG
1 TTATTATGTAAG
25731935 TTATTATGTAAG
1 TTATTATGTAAG
** *
25731947 -TAGGGATGTAGG
1 TTA-TTATGTAAG
*
25731959 ATATTATGTAAG
1 TTATTATGTAAG
25731971 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
25731980 TTTTTGTTTTTG
1 TTATTATGTAAG
*
25731992 TGTATTATGTAAC
1 T-TATTATGTAAG
* *
25732005 TTATTTAATTTATGG
1 TTA-TT-ATGTA-AG
* *
25732020 ATGTTATGT-A-
1 TTATTATGTAAG
25732030 TTATTATGT-A-
1 TTATTATGTAAG
25732040 TTATTATGTAAG
1 TTATTATGTAAG
25732052 TTATTATGTAAG
1 TTATTATGTAAG
25732064 TTATTATGTAAG
1 TTATTATGTAAG
*
25732076 TCATTATGT
1 TTATTATGT
25732085 TGGTTATGTA
Statistics
Matches: 113, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
9 9 0.08
10 17 0.15
11 3 0.03
12 64 0.57
13 13 0.12
14 6 0.05
15 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:25732244 original size:19 final size:19
Alignment explanation
Indices: 25732220--25732257 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25732210 ATGTATCAAT
25732220 TTTTAAAAATATATATAAA
1 TTTTAAAAATATATATAAA
*
25732239 TTTTAAATATATATATAAA
1 TTTTAAAAATATATATAAA
25732258 CTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATATATATAAA
Found at i:25732289 original size:9 final size:9
Alignment explanation
Indices: 25732275--25732355 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
25732265 TAAATATTAA
25732275 TAAGTTATG
1 TAAGTTATG
25732284 TAAGTTATG
1 TAAGTTATG
* *
25732293 TATTA-TAAATT
1 TA--AGT-TATG
*
25732304 TAAGTTGTG
1 TAAGTTATG
25732313 TAAGTTATG
1 TAAGTTATG
25732322 -AA-TTATG
1 TAAGTTATG
*
25732329 TAAGATATG
1 TAAGTTATG
* *
25732338 TAAATTACG
1 TAAGTTATG
*
25732347 TAAGATATG
1 TAAGTTATG
25732356 AAATTTGAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.08
9 37 0.70
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:25732349 original size:18 final size:17
Alignment explanation
Indices: 25732312--25732360 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
25732302 TTTAAGTTGT
* *
25732312 GTAAGTTATG-AATTAT
1 GTAAGATATGAAATTAC
25732328 GTAAGATATGTAAATTAC
1 GTAAGATATG-AAATTAC
25732346 GTAAGATATGAAATT
1 GTAAGATATGAAATT
25732361 TGAACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 15 0.52
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (17 bp):
GTAAGATATGAAATTAC
Found at i:25732426 original size:35 final size:34
Alignment explanation
Indices: 25732368--25732459 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 34
25732358 ATTTGAACTT
* * *
25732368 TTAAAAAAAAT-TAATATCTAAAAATATTCGTGA
1 TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
25732401 TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
1 TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
*
25732435 TTAAAATAAAATAAAAAATTTAAAA
1 TTAAAA-AAAATAAAATATTTAAAA
25732460 TATAACTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 11 0.21
34 25 0.47
35 17 0.32
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (34 bp):
TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
Found at i:25733168 original size:37 final size:37
Alignment explanation
Indices: 25733113--25733197 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
25733103 AGATTTCTAC
*
25733113 AAAACAGTAACAGACCAGTATGCCTAAAAAATGCAGG
1 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
*
25733150 AAAATAGTAACAGACCAGTATGCCAAAAAAATGCAGG
1 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
25733187 AAAACAGTAAC
1 AAAACAGTAAC
25733198 CCATCGACAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.52, C:0.18, G:0.18, T:0.13
Consensus pattern (37 bp):
AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
Found at i:25734956 original size:7 final size:7
Alignment explanation
Indices: 25734944--25734992 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
25734934 TTAAGCAGTC
25734944 TAAACCT
1 TAAACCT
*
25734951 TAAACCC
1 TAAACCT
*
25734958 TAAACTT
1 TAAACCT
25734965 TAAACCT
1 TAAACCT
*
25734972 CAAACTCT
1 TAAAC-CT
*
25734980 TAAACCC
1 TAAACCT
25734987 TAAACC
1 TAAACC
25734993 CAAAACACCA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:25734962 original size:14 final size:14
Alignment explanation
Indices: 25734943--25734992 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
25734933 TTTAAGCAGT
25734943 CTAAACCTTAAACC
1 CTAAACCTTAAACC
*
25734957 CTAAACTTTAAA-C
1 CTAAACCTTAAACC
25734970 CTCAAACTCTTAAACC
1 CT-AAAC-CTTAAACC
25734986 CTAAACC
1 CTAAACC
25734993 CAAAACACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 3 0.10
14 16 0.52
15 9 0.29
16 3 0.10
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:25735642 original size:88 final size:88
Alignment explanation
Indices: 25735484--25735646 Score: 281
Period size: 88 Copynumber: 1.9 Consensus size: 88
25735474 AAGCGCAGCT
* *
25735484 AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAATTCCAGTATACGTCAAGATCTAAA
1 AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAACTCCAGTATACATCAAGATCTAAA
25735549 CGCAGCGTTTAAGAAGTGCCGCA
66 CGCAGCGTTTAAGAAGTGCCGCA
* *
25735572 AATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAACTCCAGTATACATCAAGATTTAAA
1 AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAACTCCAGTATACATCAAGATCTAAA
*
25735637 TGCAGCGTTT
66 CGCAGCGTTT
25735647 GCTAATAGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (88 bp):
AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAACTCCAGTATACATCAAGATCTAAA
CGCAGCGTTTAAGAAGTGCCGCA
Found at i:25738001 original size:41 final size:41
Alignment explanation
Indices: 25737944--25738075 Score: 167
Period size: 41 Copynumber: 3.2 Consensus size: 41
25737934 TTCATGTGCT
*
25737944 GCTAATGCTCAGATCTTTAGGGGCGTTTTTGAAAAAGCGCC
1 GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
* * * *
25737985 GCTAATGCTCAGATCTTTAGTGGCGATTTTGGAAAAGCACC
1 GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
** * * *
25738026 GCTAATGCTC-GGGCTTTAGCAGCGTTTTTTAAGAAGCGCC
1 GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
25738066 GCTAATGCTC
1 GCTAATGCTC
25738076 GGGGATTTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 31 0.40
41 47 0.60
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
Found at i:25738068 original size:40 final size:39
Alignment explanation
Indices: 25737966--25738078 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
25737956 ATCTTTAGGG
** **
25737966 GCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATCTTTAGTG
1 GCGTTTTTG-AAAAGCGCCGCTAATGCTC-GGGCTTTAGCA
* *
25738007 GCGATTTTGGAAAAGCACCGCTAATGCTCGGGCTTTAGCA
1 GCG-TTTTTGAAAAGCGCCGCTAATGCTCGGGCTTTAGCA
*
25738047 GCGTTTTTTAAGAAGCGCCGCTAATGCTCGGG
1 GCGTTTTTGAA-AAGCGCCGCTAATGCTCGGG
25738079 GATTTAACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 6 0.10
40 29 0.48
41 21 0.34
42 5 0.08
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
GCGTTTTTGAAAAGCGCCGCTAATGCTCGGGCTTTAGCA
Found at i:25738517 original size:14 final size:15
Alignment explanation
Indices: 25738491--25738520 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25738481 GGTTTATAGG
25738491 TTATGGAATTAGGGA
1 TTATGGAATTAGGGA
25738506 TTATGG-ATTAGGGA
1 TTATGGAATTAGGGA
25738520 T
1 T
25738521 CCTGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (15 bp):
TTATGGAATTAGGGA
Found at i:25738700 original size:6 final size:6
Alignment explanation
Indices: 25738669--25738711 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
25738659 ATAATGTTTA
*
25738669 AGGGTT AGGGATT CAGGG-T CGGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGG-TT -AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
25738712 TATGATTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 23 0.72
7 2 0.06
8 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.49, T:0.30
Consensus pattern (6 bp):
AGGGTT
Found at i:25739220 original size:17 final size:16
Alignment explanation
Indices: 25739187--25739220 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25739177 ATATTAGATT
*
25739187 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
25739203 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
25739220 T
1 T
25739221 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:25742089 original size:41 final size:41
Alignment explanation
Indices: 25741996--25742273 Score: 250
Period size: 41 Copynumber: 6.8 Consensus size: 41
25741986 TTTGTACCTT
* * * *
25741996 TCGGGGCTTTAGAGGCATTTTTAAAAAAAGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT-CAAAAAGCGCCGCTAATGC
** ** * * *
25742038 TTAGATCTTTAGCGGCATTTTTGAAAAATCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
* * * *
25742079 TCGGGGCTTTAGCGACGTTTTTCAAGAAGCGTCGCTAATGG
1 TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
* *
25742120 TCGGGGCTTTAGTGGCGTTTTTCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
* * * * * * * * *
25742161 TCGTGCCTTTAACGGTGTATTTCAAGATGCGACACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
* * *
25742202 TCGGGGCTTTACCGGCGTTTTCCAAAAAGCGCCGCTAATGA
1 TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
* * * *
25742243 TCGGGGCTTTACCGACATTTTCCAAAAAGCG
1 TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCG
25742274 TTTTTGAAAA
Statistics
Matches: 191, Mismatches: 45, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
41 174 0.91
42 17 0.09
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
Found at i:25742728 original size:14 final size:15
Alignment explanation
Indices: 25742702--25742731 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25742692 GGTTTATAGG
25742702 TTATGGAATTAGGGA
1 TTATGGAATTAGGGA
25742717 TTATGG-ATTAGGGA
1 TTATGGAATTAGGGA
25742731 T
1 T
25742732 CCTGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (15 bp):
TTATGGAATTAGGGA
Found at i:25742911 original size:6 final size:6
Alignment explanation
Indices: 25742880--25742922 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
25742870 ATAATGTTTA
*
25742880 AGGGTT AGGGATT CAGGG-T CGGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGG-TT -AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
25742923 TATGATTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 23 0.72
7 2 0.06
8 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.49, T:0.30
Consensus pattern (6 bp):
AGGGTT
Found at i:25743431 original size:17 final size:16
Alignment explanation
Indices: 25743398--25743431 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25743388 ATATTAGATT
*
25743398 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
25743414 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
25743431 T
1 T
25743432 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:25747404 original size:43 final size:43
Alignment explanation
Indices: 25747309--25747405 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
25747299 GTTATGTTTT
* *
25747309 TAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * *
25747352 TTGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCGTGGTCTA
*
25747395 TAGCAGCGTTT
1 TAGCGGCGTTT
25747406 TTTGCGGCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCGTGGTCTA
Found at i:25748567 original size:116 final size:117
Alignment explanation
Indices: 25748320--25748572 Score: 363
Period size: 120 Copynumber: 2.1 Consensus size: 117
25748310 NNNNNNNNNN
* * *
25748320 TGTACTGGGTCCCAGCCATTGACAGGCTAGCACCCAAAAATTTTTTTTTTTTATTTTTTTTCGTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA-TTTTTTTTTTTATTTTTTTTCGTA
25748385 TTTTTTATCTGATTCTGACACGAAAAAAAATAAAAAATATTTTTTCTTTGTACTG
65 TTTTTTATCTGATTCTGACACGAAAAAAAATAAAAAATA--TTTTCTTTGTACTG
25748440 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAA-TTTTTTTTTTATTTTTTTTCGTAT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTTATTTTTTTTCGTAT
*
25748503 TTTTATATCTGATTCTGACATGAAAAAATAAAATAAAAAA-A-TTT-TTTGTACTG
66 TTTT-TATCTGATTCTGACACG--AAAA-AAAATAAAAAATATTTTCTTTGTACTG
*
25748556 TGTACTGGGTGCTGGCC
1 TGTACTGGGTGCCGGCC
25748573 TGTCAAAAAT
Statistics
Matches: 124, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
116 25 0.20
117 31 0.25
118 16 0.13
119 4 0.03
120 37 0.30
121 11 0.09
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (117 bp):
TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTTATTTTTTTTCGTAT
TTTTTATCTGATTCTGACACGAAAAAAAATAAAAAATATTTTCTTTGTACTG
Found at i:25756138 original size:13 final size:13
Alignment explanation
Indices: 25756120--25756144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25756110 TTTTATTTGT
25756120 TTATTCCCACCGA
1 TTATTCCCACCGA
25756133 TTATTCCCACCG
1 TTATTCCCACCG
25756145 GCCGAATGTT
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:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:25757960 original size:29 final size:29
Alignment explanation
Indices: 25757922--25758048 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
25757912 GGACTATATA
25757922 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
25757951 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
* * * *
25757980 ACATC-AAAATGAAATTAAAATA-TTAAAATTTATAT
1 A-ATCGATAATG--ATTGAAATACAT-CAA---A-AT
25758015 AAATCGATAATGATTGAAATACATCAAAAT
1 -AATCGATAATGATTGAAATACATCAAAAT
25758045 AATC
1 AATC
25758049 TAAAAATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 22
0.72 0.07 0.20
Matches are distributed among these distances:
29 39 0.49
30 6 0.08
31 11 0.14
34 11 0.14
35 6 0.08
36 6 0.08
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (29 bp):
AATCGATAATGATTGAAATACATCAAAAT
Found at i:25760349 original size:49 final size:49
Alignment explanation
Indices: 25760292--25760395 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
25760282 TCATGTGTTA
* * ** * *
25760292 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
25760341 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
25760390 TAATTT
1 TAATTT
25760396 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:25761894 original size:26 final size:28
Alignment explanation
Indices: 25761752--25761903 Score: 88
Period size: 28 Copynumber: 5.6 Consensus size: 28
25761742 TAATACAGTA
25761752 TATTA-TAAATTATATTTAA-TAATAAT
1 TATTATTAAATTATATTTAATTAATAAT
* *
25761778 TA-T-TTAAATTATATTTTA-TAGT-AT
1 TATTATTAAATTATATTTAATTAATAAT
* * * * *
25761802 TATATATTATGATTTTAGTAAATTCAT-AT
1 TAT-TATTA-AATTATATTTAATTAATAAT
* ** * * * *
25761831 AAGAATAAGAATTTTATTTAATTATTTAT
1 TATTATTA-AATTATATTTAATTAATAAT
25761860 TATTATTAAATTATATTTAA-TAATAAT
1 TATTATTAAATTATATTTAATTAATAAT
25761887 TATT-TTAAATTATATTT
1 TATTATTAAATTATATTT
25761904 TAGTATTATA
Statistics
Matches: 93, Mismatches: 26, Indels: 14
0.70 0.20 0.11
Matches are distributed among these distances:
24 4 0.04
25 17 0.18
26 16 0.17
27 12 0.13
28 33 0.35
29 11 0.12
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
TATTATTAAATTATATTTAATTAATAAT
Found at i:25761903 original size:54 final size:54
Alignment explanation
Indices: 25761840--25762035 Score: 144
Period size: 57 Copynumber: 3.4 Consensus size: 54
25761830 TAAGAATAAG
* * * *
25761840 AATTTTATTTAATTATTTATTATTATTAAATTATATTTAATAATAATTATTTTA
1 AATTATATTAAATTATATATTATTATTAAATTATATTTAATAACAATTATTTTA
* * ** *
25761894 AATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTTATATAAGAA-TATTTATTAA
1 AATTATA--TTA-AATTATATATTATTATTAAATTA-T--ATTTA-ATAACAATTA-TT-TT-A
* * *
25761957 CAATTTTATTAAATTATATATT-TTATTAAATTATATTTTATAACAATTATGTTA
1 -AATTATATTAAATTATATATTATTATTAAATTATATTTAATAACAATTATTTTA
* *
25762011 AAATATGATTAAATTATTTATTATT
1 AATTAT-ATTAAATTATATATTATT
25762036 TATATTAATA
Statistics
Matches: 109, Mismatches: 19, Indels: 27
0.70 0.12 0.17
Matches are distributed among these distances:
53 4 0.04
54 21 0.19
55 4 0.04
56 9 0.08
57 24 0.22
58 1 0.01
59 1 0.01
60 15 0.14
61 18 0.17
62 5 0.05
63 1 0.01
64 6 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (54 bp):
AATTATATTAAATTATATATTATTATTAAATTATATTTAATAACAATTATTTTA
Found at i:25761973 original size:108 final size:106
Alignment explanation
Indices: 25761752--25761967 Score: 291
Period size: 109 Copynumber: 2.0 Consensus size: 106
25761742 TAATACAGTA
25761752 TATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATT
1 TATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATT
* *
25761816 TTAGTAAATTCATATAAGAATAAGAATTTTATTTAATTATTTAT
66 TTAGTAAATTCATATAAGAAT---AATTTTATTAAAATATTTAT
25761860 TATTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGAT
1 TATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-
*
25761923 TTTATTAGTAAATTTATATAAGAAT-A-TTTATTAACAAT-TTTAT
64 -TT-TTAGTAAATTCATATAAGAATAATTTTATTAA-AATATTTAT
25761966 TA
1 TA
25761968 AATTATATAT
Statistics
Matches: 99, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
106 14 0.14
107 3 0.03
108 23 0.23
109 26 0.26
110 13 0.13
111 20 0.20
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (106 bp):
TATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATT
TTAGTAAATTCATATAAGAATAATTTTATTAAAATATTTAT
Found at i:25761997 original size:15 final size:17
Alignment explanation
Indices: 25761959--25761992 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25761949 TTTATTAACA
25761959 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25761976 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25761993 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Done.