Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 271 of 290
Found at i:87006975 original size:17 final size:19
Alignment explanation
Indices: 87006905--87006976 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 19
87006895 TCTAAAATTG
*
87006905 CATATCATATCTAAGATT-
1 CATATCATATCGAAGATTA
* *
87006923 -GTATCATATCTAAGATTA
1 CATATCATATCGAAGATTA
* *
87006941 CATATCATATCTAAGATTG
1 CATATCATATCGAAGATTA
87006960 CATATCAT-T-GAAGATTA
1 CATATCATATCGAAGATTA
87006977 TATTTCTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 22 0.47
18 1 0.02
19 24 0.51
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
CATATCATATCGAAGATTA
Found at i:87009158 original size:11 final size:12
Alignment explanation
Indices: 87009144--87009172 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
87009134 TCTAAATTAC
87009144 ATTTCTTTC-AA
1 ATTTCTTTCTAA
87009155 ATTTCTTTCTAA
1 ATTTCTTTCTAA
87009167 ATTTCT
1 ATTTCT
87009173 CAAAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTTTCTAA
Found at i:87011700 original size:13 final size:13
Alignment explanation
Indices: 87011682--87011745 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
87011672 AGTTTGGTAA
87011682 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
87011695 TGCTTTTGGAAAG
1 TGCTTTTGAAAAG
*
87011708 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
87011721 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
*
87011734 TACTTTTGAAAA
1 TGCTTTTGAAAA
87011746 ATTTAGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 5 0.12
13 33 0.79
14 4 0.10
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:87011998 original size:20 final size:21
Alignment explanation
Indices: 87011970--87012020 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
87011960 GTAAAATTTA
87011970 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATATAAA-TATAATT
*
87011992 -TTAAATATTTAAATATAATT
1 ATTAAATATATAAATATAATT
87012012 ATTAAATAT
1 ATTAAATAT
87012021 TTGTAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATATAAATATAATT
Found at i:87012018 original size:21 final size:21
Alignment explanation
Indices: 87011970--87012022 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
87011960 GTAAAATTTA
*
87011970 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
87011992 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
87012012 ATTAAATATTT
1 ATTAAATATTT
87012023 GTAATTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:87012029 original size:14 final size:13
Alignment explanation
Indices: 87012012--87012082 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 13
87012002 AAATATAATT
87012012 ATTAAATATTTGTA
1 ATTAAATATTT-TA
*
87012026 ATT-AGTATTTTA
1 ATTAAATATTTTA
87012038 A--AAATATTTT-
1 ATTAAATATTTTA
87012048 -TTAAATATTTGTA
1 ATTAAATATTT-TA
*
87012061 ATT-AGTATTTTA
1 ATTAAATATTTTA
87012073 A--AAATATTTT
1 ATTAAATATTTT
87012083 TTATTTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
11 22 0.48
12 7 0.15
13 12 0.26
14 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (13 bp):
ATTAAATATTTTA
Found at i:87012079 original size:35 final size:35
Alignment explanation
Indices: 87011999--87012085 Score: 147
Period size: 35 Copynumber: 2.5 Consensus size: 35
87011989 ATTTTAAATA
* * *
87011999 TTTAAATATAATTATTAAATATTTGTAATTAGTAT
1 TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
87012034 TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
1 TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
87012069 TTTAAAAATATTTTTTA
1 TTTAAAAATATTTTTTA
87012086 TTTTTAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (35 bp):
TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
Found at i:87012343 original size:19 final size:18
Alignment explanation
Indices: 87012308--87012342 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
87012298 ATTTTTTTTC
87012308 CAAAAATACTTTTAAAAT
1 CAAAAATACTTTTAAAAT
87012326 CAAAAATACTTTTAAAA
1 CAAAAATACTTTTAAAA
87012343 AGCAATACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
CAAAAATACTTTTAAAAT
Found at i:87020009 original size:37 final size:40
Alignment explanation
Indices: 87019913--87020052 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
87019903 AACACACTAG
**
87019913 TTTGGCACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGTCTCATCGGATAAACCGAAGTAATAA
* *
87019953 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGGCACCCAGTGTCTCATCGGATAAACCGAAGTAATAA
* * * ** *
87019991 -TTGGCACCCAGTGCCTCATCGAATTAATCTAAAGTAGTAA
1 TTTGGCACCCAGTGTCTCATCGGA-TAAACCGAAGTAATAA
* * *
87020031 ATTGACACACAGTGTCTCATCG
1 TTTGGCACCCAGTGTCTCATCG
87020053 ACTCGAAGTC
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 19 0.23
38 10 0.12
39 1 0.01
40 33 0.41
41 18 0.22
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
TTTGGCACCCAGTGTCTCATCGGATAAACCGAAGTAATAA
Found at i:87024630 original size:43 final size:43
Alignment explanation
Indices: 87024583--87024703 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
87024573 TATCACATTT
* *
87024583 CGATGTCACTGTCCCACACAAGGTCTTACACG-AAGCCG-ATTAA
1 CGATGTCACTGTCCCATACAAGGTCTTACACGTAA-CCGCAAT-A
* * *
87024626 CGATGCCGA-TGTCCTATACAAGGTCTTACACGTAATCGCAATA
1 CGATGTC-ACTGTCCCATACAAGGTCTTACACGTAACCGCAATA
* * *
87024669 CAATGTCACTGTCCCATACAGGGTCTTACATGTAA
1 CGATGTCACTGTCCCATACAAGGTCTTACACGTAA
87024704 TCACATCTCG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.02
43 58 0.91
44 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CGATGTCACTGTCCCATACAAGGTCTTACACGTAACCGCAATA
Found at i:87043934 original size:8 final size:8
Alignment explanation
Indices: 87043921--87043953 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
87043911 TGCCTGTGAA
87043921 AATAAAAT
1 AATAAAAT
87043929 AATAAAAT
1 AATAAAAT
87043937 AATAAAAT
1 AATAAAAT
87043945 AA-AAAAT
1 AATAAAAT
87043952 AA
1 AA
87043954 AAATAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AATAAAAT
Found at i:87043935 original size:13 final size:13
Alignment explanation
Indices: 87043919--87043960 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
87043909 CATGCCTGTG
87043919 AAAATAA-AATAAT
1 AAAATAATAA-AAT
87043932 AAAATAATAAAAT
1 AAAATAATAAAAT
87043945 AAAA-AATAAAAAT
1 AAAATAAT-AAAAT
87043958 AAA
1 AAA
87043961 GAACACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.11
13 22 0.81
14 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:87049053 original size:19 final size:19
Alignment explanation
Indices: 87049011--87049047 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
87049001 CAAAATACAT
87049011 TATTTCAAAAGACAAGCAA
1 TATTTCAAAAGACAAGCAA
*
87049030 TATTTCAAAGGACAAGCA
1 TATTTCAAAAGACAAGCA
87049048 TCATTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (19 bp):
TATTTCAAAAGACAAGCAA
Found at i:87049549 original size:20 final size:20
Alignment explanation
Indices: 87049524--87049564 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87049514 ATGGCAGGAT
*
87049524 TTGTCCCATCATAGACATCC
1 TTGTCCCATCATAAACATCC
*
87049544 TTGTCCCGTCATAAACATCC
1 TTGTCCCATCATAAACATCC
87049564 T
1 T
87049565 CACACATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGTCCCATCATAAACATCC
Found at i:87050253 original size:27 final size:31
Alignment explanation
Indices: 87050221--87050277 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 31
87050211 AAAATTGTAT
87050221 AATTTTAATTA-TA-T-TTAT-TTTATTAAA
1 AATTTTAATTATTAGTCTTATATTTATTAAA
*
87050248 AATTTTCATTATTAGTCTTATATTTATTAA
1 AATTTTAATTATTAGTCTTATATTTATTAA
87050278 CCCTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 2 0.08
29 1 0.04
30 4 0.16
31 8 0.32
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (31 bp):
AATTTTAATTATTAGTCTTATATTTATTAAA
Found at i:87051981 original size:26 final size:27
Alignment explanation
Indices: 87051952--87052002 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
87051942 AGGACTTGAG
*
87051952 TTTTTAAATTTATATT-T-GTTTTTTGT
1 TTTTTAAACTTA-ATTATAGTTTTTTGT
87051978 TTTTTAAACTTAATTATAGTTTTTT
1 TTTTTAAACTTAATTATAGTTTTTT
87052003 TATCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 12 0.55
27 7 0.32
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (27 bp):
TTTTTAAACTTAATTATAGTTTTTTGT
Found at i:87062914 original size:18 final size:19
Alignment explanation
Indices: 87062891--87062926 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
87062881 GAGAATAGAA
87062891 GAGAAGAAAG-AAAGAAAG
1 GAGAAGAAAGAAAAGAAAG
87062909 GAGAAGAAAGAAAAGAAA
1 GAGAAGAAAGAAAAGAAA
87062927 AGATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
GAGAAGAAAGAAAAGAAAG
Found at i:87065722 original size:25 final size:25
Alignment explanation
Indices: 87065689--87065737 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
87065679 AATGTGAAAG
*
87065689 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
87065714 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCG
87065738 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:87065760 original size:101 final size:101
Alignment explanation
Indices: 87065613--87065830 Score: 343
Period size: 101 Copynumber: 2.2 Consensus size: 101
87065603 TGTATATAAA
** * *
87065613 AGGGGTTGCTGTGTGCTGATTCCCGATTTATGGTGGTGCTATGTGCG-TGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTT
87065677 GAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCG
65 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
87065713 A-GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATT-CCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCATATCTT
87065777 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
64 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
87065815 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
87065831 GATATCCATT
Statistics
Matches: 108, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
99 17 0.16
100 8 0.07
101 42 0.39
102 27 0.25
103 14 0.13
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.32
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
AAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:87065886 original size:26 final size:26
Alignment explanation
Indices: 87065850--87065902 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
87065840 TGTATTGAAA
* *
87065850 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCG
87065876 AGGGGTTGCTAAGTGATGATTCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCG
87065902 A
1 A
87065903 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGATGATTCCCCG
Found at i:87070584 original size:131 final size:129
Alignment explanation
Indices: 87070284--87070591 Score: 321
Period size: 129 Copynumber: 2.4 Consensus size: 129
87070274 TATTCGATTG
* * * * *
87070284 TTTTGGACAAATGAAAAAGCGCAACCCAGCACGATAGGGCTCGATTCTCAAATCGCCAAATATCA
1 TTTTGAACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCA
** * * *
87070349 AACATCGCCTTCATTTTGAAAGATCTTAGAAAATGTGAGTGAAATTCGAAGGGATCTTCAATTA
66 AACATCGCCTTCATTTTGAAAGATCTTAGAAAACATGAGTGAAATTCAAAGGAATCTTCAATCA
* * * **
87070413 TTTTGAACCAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATTG
1 TTTTGAACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCA
* * * * * ** * *
87070478 AACATCGTCTTCGTTTTTAAATATTTTTTATAAACATGAGTGAGAATAT-AAAGGAATGTTCGAT
66 AACATCGCCTTCATTTTGAAAGATCTTAGA-AAACATGAGTGA-AAT-TCAAAGGAATCTTCAAT
*
87070542 CG
128 CA
* * * *
87070544 TTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCT
1 TTTTGAACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCT
87070592 TGAATTGTCA
Statistics
Matches: 148, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
129 82 0.55
130 10 0.07
131 55 0.37
132 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (129 bp):
TTTTGAACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCA
AACATCGCCTTCATTTTGAAAGATCTTAGAAAACATGAGTGAAATTCAAAGGAATCTTCAATCA
Found at i:87071699 original size:22 final size:23
Alignment explanation
Indices: 87071671--87071737 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 23
87071661 AAGAAAATAA
87071671 AATTTAAAGTAAATAAT-AAAAC
1 AATTTAAAGTAAATAATAAAAAC
*
87071693 AATTTAAAATGAATAATACATAAAAAC
1 AATTT-AAA-GTA-AATA-ATAAAAAC
*
87071720 AAGTTTAAAATAAATAAT
1 AA-TTTAAAGTAAATAAT
87071738 GTATAAAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
22 5 0.14
23 3 0.08
24 4 0.11
25 8 0.22
26 3 0.08
27 10 0.28
28 3 0.08
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (23 bp):
AATTTAAAGTAAATAATAAAAAC
Found at i:87071743 original size:28 final size:27
Alignment explanation
Indices: 87071614--87071857 Score: 84
Period size: 26 Copynumber: 9.1 Consensus size: 27
87071604 TGGTATATAA
* *
87071614 AAAATAGATAATACATATAAA-AATTT
1 AAAATAAATAATACATAAAAACAATTT
* * * * **
87071640 GAAATTAATAATATATGAAAAAAGAAAAT
1 AAAATAAATAATACAT--AAAAACAATTT
87071669 AAAATTTAAAGTAAATA-AT-AAAACAATTT
1 AAAA--TAAA-T-AATACATAAAAACAATTT
*
87071698 AAAATGAATAATACATAAAAACAAGTTT
1 AAAATAAATAATACATAAAAACAA-TTT
** **
87071726 AAAATAAATAATGTATAAAGCAACCTAAACT
1 AAAATAAATAATACATAAA--AA-C-AATTT
**
87071757 AAAA-AAA-AA-ACATAAAAA-GGTTT
1 AAAATAAATAATACATAAAAACAATTT
* * *
87071780 CAAATAAAGAATGCATAAAAAC---TT
1 AAAATAAATAATACATAAAAACAATTT
* **
87071804 AAAATAAATAATAC-TAAAGA-AGCTT
1 AAAATAAATAATACATAAAAACAATTT
*
87071829 AAAATAAATAAATACA-AAAGA-AATTT
1 AAAATAAAT-AATACATAAAAACAATTT
87071855 AAA
1 AAA
87071858 GGTGAATAAC
Statistics
Matches: 163, Mismatches: 32, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
23 9 0.06
24 16 0.10
25 17 0.10
26 41 0.25
27 10 0.06
28 28 0.17
29 19 0.12
30 5 0.03
31 9 0.06
32 5 0.03
33 4 0.02
ACGTcount: A:0.63, C:0.06, G:0.07, T:0.24
Consensus pattern (27 bp):
AAAATAAATAATACATAAAAACAATTT
Found at i:87071832 original size:25 final size:26
Alignment explanation
Indices: 87071801--87071850 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
87071791 TGCATAAAAA
*
87071801 CTTAAAATAAAT-AATACTAAAGAAG
1 CTTAAAATAAATAAATACAAAAGAAG
87071826 CTTAAAATAAATAAATACAAAAGAA
1 CTTAAAATAAATAAATACAAAAGAA
87071851 ATTTAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (26 bp):
CTTAAAATAAATAAATACAAAAGAAG
Found at i:87072297 original size:43 final size:43
Alignment explanation
Indices: 87072237--87072325 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
87072227 CATAATATAA
*
87072237 AAAAAAACAAGCTTTGAATAAATGAATAATAAAATAGTTTCCT
1 AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCT
87072280 AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCT
1 AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCT
87072323 AAA
1 AAA
87072326 GAATGAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (43 bp):
AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCT
Found at i:87073263 original size:19 final size:19
Alignment explanation
Indices: 87073228--87073265 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
87073218 GCCGAAAGTA
*
87073228 AAAATAAAAAAGGAAAAAT
1 AAAATAAAAAAGAAAAAAT
87073247 AAAATAAAAATA-AAAAAAT
1 AAAATAAAAA-AGAAAAAAT
87073266 GCTCTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAAGAAAAAAT
Found at i:87076623 original size:5 final size:5
Alignment explanation
Indices: 87076615--87076670 Score: 69
Period size: 5 Copynumber: 10.6 Consensus size: 5
87076605 TACTTTATGT
87076615 TATTA TATTA TATTATA TATTA TATTA TATTA TATTA TA-TA TATATA
1 TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA TATTA TAT-TA
87076662 TATATA TAT
1 TAT-TA TAT
87076671 AATAAAGAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.09
5 26 0.55
6 13 0.28
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:87076657 original size:2 final size:2
Alignment explanation
Indices: 87076618--87076671 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
87076608 TTTATGTTAT
87076618 TA TA T- TA TA T- TA TA TA T- TA TA T- TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87076654 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
87076672 ATAAAGAAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
1 6 0.13
2 40 0.87
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:87076671 original size:10 final size:10
Alignment explanation
Indices: 87076618--87076671 Score: 66
Period size: 9 Copynumber: 6.0 Consensus size: 10
87076608 TTTATGTTAT
87076618 TATAT-TATA
1 TATATATATA
87076627 T-TATATAT-
1 TATATATATA
87076635 TATAT-TATA
1 TATATATATA
87076644 T-TATAT-TA
1 TATATATATA
87076652 TATATATATA
1 TATATATATA
87076662 TATATATATA
1 TATATATATA
87076672 ATAAAGAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
8 13 0.33
9 14 0.36
10 12 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATATA
Found at i:87077865 original size:15 final size:15
Alignment explanation
Indices: 87077845--87077901 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
87077835 CGATGAATTT
87077845 ATTGAAATTATATTG
1 ATTGAAATTATATTG
*
87077860 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
* *
87077875 ATTGAATTTATAGTG
1 ATTGAAATTATATTG
87077890 ATTG-AATTATAT
1 ATTGAAATTATAT
87077902 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:87078311 original size:23 final size:22
Alignment explanation
Indices: 87078284--87078344 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
87078274 CAGGCATTTA
*
87078284 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
87078307 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
87078328 TGTGTCGTA-TCAGGCAC
1 TGTGTCGTATTCAGGCAC
87078345 TTTATGTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 28 0.76
23 9 0.24
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.33
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:87078321 original size:21 final size:21
Alignment explanation
Indices: 87078297--87078344 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
87078287 GTCGTATTTT
87078297 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
87078318 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
87078339 AGGCAC
1 AGGCAC
87078345 TTTATGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTATC
Found at i:87078356 original size:21 final size:21
Alignment explanation
Indices: 87078283--87078358 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
87078273 TCAGGCATTT
*
87078283 ATGTGTCGTATTTTAGGCACCTC
1 ATGTGTCGTA--TCAGGCACCTC
*
87078306 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTATCAGGCACCTC
* * *
87078327 GTGTGTCGTATCAGGCACTTT
1 ATGTGTCGTATCAGGCACCTC
*
87078348 ATGTATCGTAT
1 ATGTGTCGTAT
87078359 ACTGATCAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 38 0.81
23 9 0.19
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (21 bp):
ATGTGTCGTATCAGGCACCTC
Found at i:87082130 original size:10 final size:11
Alignment explanation
Indices: 87082115--87082159 Score: 67
Period size: 10 Copynumber: 4.2 Consensus size: 11
87082105 TTATGTTTTA
87082115 ATTATAT-TAT
1 ATTATATATAT
87082125 ATTATAT-TAT
1 ATTATATATAT
87082135 ATTATATATAT
1 ATTATATATAT
87082146 ATATATATATAT
1 AT-TATATATAT
87082158 AT
1 AT
87082160 AAACTAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 17 0.52
11 5 0.15
12 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATATATAT
Found at i:87082144 original size:2 final size:2
Alignment explanation
Indices: 87082117--87082160 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
87082107 ATGTTTTAAT
87082117 TA TA T- TA TA T- TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87082155 TA TA TA
1 TA TA TA
87082161 AACTAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:87083358 original size:15 final size:15
Alignment explanation
Indices: 87083338--87083394 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
87083328 CGATGAATTT
87083338 ATTGAAATTATATTG
1 ATTGAAATTATATTG
*
87083353 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
*
87083368 ATTGAATTTATATTG
1 ATTGAAATTATATTG
87083383 ATTG-AATTATAT
1 ATTGAAATTATAT
87083395 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 7 0.18
15 31 0.82
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:87083804 original size:23 final size:22
Alignment explanation
Indices: 87083777--87083831 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
87083767 CAGGTACTTT
87083777 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGTATTT-AGGCACCTC
* * *
87083800 GTGTGTCGT-TTTAGGCACTTT
1 ATGTGTCGTATTTAGGCACCTC
87083821 ATGTGTCGTAT
1 ATGTGTCGTAT
87083832 ACTGATCAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.56
22 4 0.15
23 8 0.30
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (22 bp):
ATGTGTCGTATTTAGGCACCTC
Found at i:87083825 original size:21 final size:23
Alignment explanation
Indices: 87083766--87083831 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
87083756 GCTTTATCGA
*
87083766 TCAGGTACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
87083789 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
87083811 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
87083832 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 15 0.43
22 4 0.11
23 16 0.46
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:87085150 original size:18 final size:18
Alignment explanation
Indices: 87085127--87085163 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
87085117 ATCAATTAAT
87085127 AACAAGTTAAATTTTATC
1 AACAAGTTAAATTTTATC
87085145 AACAAGTTAAATTTTATC
1 AACAAGTTAAATTTTATC
87085163 A
1 A
87085164 CCTATTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (18 bp):
AACAAGTTAAATTTTATC
Found at i:87086788 original size:25 final size:25
Alignment explanation
Indices: 87086766--87086836 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 25
87086756 GGCCATTTGT
87086766 TTTTTTATTTTATTTTCGTATTTTA
1 TTTTTTATTTTATTTTCGTATTTTA
87086791 TTTTTTAAAATATTCTATTTTCGTATTTTA
1 TTTTTT---AT-TT-TATTTTCGTATTTTA
*
87086821 TTTTTTATATTATTTT
1 TTTTTTATTTTATTTT
87086837 AGTACATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 12 0.30
26 1 0.03
27 2 0.05
28 2 0.05
29 2 0.05
30 21 0.52
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTTTATTTTATTTTCGTATTTTA
Found at i:87086810 original size:30 final size:30
Alignment explanation
Indices: 87086771--87086827 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
87086761 TTTGTTTTTT
*
87086771 TATTTTATTTTCGTATTTTATTTTTTAAAA
1 TATTCTATTTTCGTATTTTATTTTTTAAAA
87086801 TATTCTATTTTCGTATTTTATTTTTTA
1 TATTCTATTTTCGTATTTTATTTTTTA
87086828 TATTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (30 bp):
TATTCTATTTTCGTATTTTATTTTTTAAAA
Found at i:87086853 original size:150 final size:148
Alignment explanation
Indices: 87086332--87087145 Score: 1143
Period size: 154 Copynumber: 5.5 Consensus size: 148
87086322 TATTTTGGTA
* * *
87086332 TTTATTTTATTTACGGATTTTATTTATTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
87086397 TTTAGTAC-TAATGTTTCAAATATATTATTTTAGTATTTTTTTATATTGATTTAGTAAAAAACTC
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTTATATTAATTTAGTAAAAAACTC
* *
87086461 TGATTTTGGCC----CTTT
130 TGGTTTTGGCCTTTGTTTT
* *
87086476 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAGTA
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
87086541 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATTTAGTAAAAAACT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTTATATTAATTTAGTAAAAAACT
*
87086606 CTGGTTTTGGCCTTT-TGTT
129 CTGGTTTTGGCCTTTGTTTT
**
87086625 TTTA--TTA--TT--TATTTTATTTTTTAAAATATGTTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
87086684 TTTAGTACATAATGTTTCAAATGTATTAATTTAGTGTTTTTTTATATTAATTTAGTACAAAACTC
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTTATATTAATTTAGTAAAAAACTC
87086749 TGGTTTTGGCCATTTGTTTT
130 TGGTTTTGGCC-TTTGTTTT
*
87086769 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATTCTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
87086834 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAAACTCT
*
87086899 GATTTTGGCCCTTTGTTTT
131 GGTTTTGG-CCTTTGTTTT
* * * *
87086918 TATTATTTATTCTATTTTCGGATTTTATTTTTTAAAATATCCTATTTTCTTATTTTA-TTTGTAT
1 T-TTA--T-TT-TATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
** * *
87086982 ATTATTTTAGTATGTAATGTTTTCAAATGTATAATTTTAGTTTTTTTTATATTAATTTAGTAAAG
61 ATTATTTTAGTACATAATG-TTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAA
87087047 AACTCTGGTTTTGGCCCTTTGTTCTT
125 AACTCTGGTTTTGG-CCTTTGTT-TT
* *
87087073 ATTTTTTTTATTTTCGTATTTTATTTTTTTAAAATAAACTATTTTCGTATTTTA-TTTTTATATT
1 -TTTATTTTATTTTCGTATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
87087137 ATTTTAGTA
64 ATTTTAGTA
87087146 AAAAACCCGC
Statistics
Matches: 608, Mismatches: 39, Indels: 38
0.89 0.06 0.06
Matches are distributed among these distances:
142 85 0.14
143 37 0.06
144 56 0.09
145 22 0.04
146 67 0.11
147 3 0.00
148 2 0.00
149 50 0.08
150 87 0.14
151 14 0.02
152 48 0.08
153 26 0.04
154 106 0.17
155 4 0.01
156 1 0.00
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.59
Consensus pattern (148 bp):
TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAAACTCT
GGTTTTGGCCTTTGTTTT
Found at i:87087608 original size:27 final size:27
Alignment explanation
Indices: 87087578--87087633 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
87087568 TAATAATAAC
87087578 AATTAA-AA-TAAATAATTTATTTCCTTA
1 AATTAACAACTAAA-AA-TTATTTCCTTA
87087605 AATTAACAACTAAAAATTATTTCCTTA
1 AATTAACAACTAAAAATTATTTCCTTA
87087632 AA
1 AA
87087634 AAAATTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 19 0.70
28 4 0.15
29 4 0.15
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (27 bp):
AATTAACAACTAAAAATTATTTCCTTA
Found at i:87087684 original size:20 final size:19
Alignment explanation
Indices: 87087661--87087704 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
87087651 CTTCCCTCCC
87087661 TCTTCTTCTCCTTCTCTTTT
1 TCTTCTTCTCCTTCT-TTTT
* **
87087681 TCTTTTTCTTTTTCTTTTT
1 TCTTCTTCTCCTTCTTTTT
87087700 TCTTC
1 TCTTC
87087705 CGTCACCGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCTTCTCCTTCTTTTT
Found at i:87087692 original size:5 final size:6
Alignment explanation
Indices: 87087675--87087699 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87087665 CTTCTCCTTC
87087675 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
87087700 TCTTCCGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:87088441 original size:15 final size:17
Alignment explanation
Indices: 87088423--87088457 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
87088413 GTTTTTTAGG
87088423 TTTTAGAGTT-AGGTTT
1 TTTTAGAGTTAAGGTTT
87088439 TTTTA-AGTTAAGGTTT
1 TTTTAGAGTTAAGGTTT
87088455 TTT
1 TTT
87088458 AGGGTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (17 bp):
TTTTAGAGTTAAGGTTT
Found at i:87088620 original size:38 final size:39
Alignment explanation
Indices: 87088543--87088621 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
87088533 TAAATTATAG
*
87088543 TTTAGAGTATTAGGGTTAATTGATTAAATTAGGGATTAA
1 TTTAGAGTATTAGGGTTAATTGATTAAATTAAGGATTAA
*
87088582 TTTAGGGT-TTAGGGTTAATTGATTAAATTTAAGG-TTAA
1 TTTAGAGTATTAGGGTTAATTGATTAAA-TTAAGGATTAA
87088620 TT
1 TT
87088622 GATACATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 25 0.68
39 12 0.32
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (39 bp):
TTTAGAGTATTAGGGTTAATTGATTAAATTAAGGATTAA
Found at i:87089393 original size:127 final size:127
Alignment explanation
Indices: 87089180--87089418 Score: 336
Period size: 127 Copynumber: 1.9 Consensus size: 127
87089170 CGAGCAGATG
* * * * **
87089180 TTTCTGAACAAATATTGTTGAATAACGCTTCAAGCAAGATGCATTGTCAACAAAATTTCTGGAAA
1 TTTCTGAACAAATAGTATTGAATAACGCTTCAAACAAGATGCACTGTCAACAAAATTTCTAAAAA
87089245 AAGCTCCCACATGGACACTCTTTTGCTACAGCAGTTCGTAGAAAAATAATTTTGAGTAGACA
66 AAGCTCCCACATGGACACTCTTTTGCTACAGCAGTTCGTAGAAAAATAATTTTGAGTAGACA
* * * *
87089307 TTTCTGAACAAATAGTATTGAA-AATGCTTCAAACAGGATGCACTGTCAGCAAAATTTTTTAAAA
1 TTTCTGAACAAATAGTATTGAATAACGCTTCAAACAAGATGCACTGTCAACAAAA-TTTCTAAAA
* * * *
87089371 AAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAAT
65 AAAGCTCCCACATGGACACTCTTTTGCTACAGCAGTTCGTAGAAAAAT
87089419 GAGGCTATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 27 0.28
127 70 0.72
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (127 bp):
TTTCTGAACAAATAGTATTGAATAACGCTTCAAACAAGATGCACTGTCAACAAAATTTCTAAAAA
AAGCTCCCACATGGACACTCTTTTGCTACAGCAGTTCGTAGAAAAATAATTTTGAGTAGACA
Found at i:87093547 original size:7 final size:7
Alignment explanation
Indices: 87093537--87093579 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
87093527 CATAATACAT
*
87093537 AATACTG
1 AATACTA
87093544 AATACTA
1 AATACTA
87093551 AATACTA
1 AATACTA
87093558 AATACTA
1 AATACTA
*
87093565 AATACAA
1 AATACTA
87093572 AATGACTA
1 AAT-ACTA
87093580 TTTTATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 29 0.91
8 3 0.09
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:87093548 original size:21 final size:22
Alignment explanation
Indices: 87093530--87093574 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
87093520 TTATATACAT
*
87093530 AATACAT-AATACTGAATACTA
1 AATACATAAATACTAAATACTA
*
87093551 AATAC-TAAATACTAAATACAA
1 AATACATAAATACTAAATACTA
87093572 AAT
1 AAT
87093575 GACTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (22 bp):
AATACATAAATACTAAATACTA
Found at i:87094613 original size:48 final size:46
Alignment explanation
Indices: 87094538--87094671 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 46
87094528 ATGCAAACAT
* * * *
87094538 CATAAAGGAAAAAAAATAAAACAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
87094585 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTT
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
*
87094633 CATAAATTAAAAAAATATCAAATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
87094672 AATTATCACT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 11 0.14
48 57 0.75
49 8 0.11
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:87096270 original size:69 final size:69
Alignment explanation
Indices: 87096142--87096349 Score: 272
Period size: 69 Copynumber: 3.0 Consensus size: 69
87096132 TGTATCATCT
* * * * * *
87096142 TACAATTAAATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATATAAAAAGTGAC
1 TACAATTACATATAAAAAGTTATATTAGTCCACCACCACACCCATTTACACATAAAAAAAGTGAC
87096207 AACC
66 AACC
* * * * * * *
87096211 TATAATTACATATAAAAAGTGATATTAGTCCATCACCATACCCATTTACTCATAGAAAAAGTGTC
1 TACAATTACATATAAAAAGTTATATTAGTCCACCACCACACCCATTTACACATAAAAAAAGTGAC
87096276 AACC
66 AACC
* *
87096280 TACAATTACATATAAAAAGTTATATTAGTTCACCACCACACGCATTTACACATAAAACAAAGTGA
1 TACAATTACATATAAAAAGTTATATTAGTCCACCACCACACCCATTTACACATAAAA-AAAGTGA
87096345 CAACC
65 CAACC
87096350 CTTTATGGCA
Statistics
Matches: 117, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
69 106 0.91
70 11 0.09
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (69 bp):
TACAATTACATATAAAAAGTTATATTAGTCCACCACCACACCCATTTACACATAAAAAAAGTGAC
AACC
Found at i:87096371 original size:70 final size:68
Alignment explanation
Indices: 87096145--87096389 Score: 251
Period size: 69 Copynumber: 3.5 Consensus size: 68
87096135 ATCATCTTAC
* * * *
87096145 AATTAAATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATATAAAAAGTGACAAC
1 AATTACATACAAAAAGTTATATTAGTCCACCACCACA-CCATTTACACATAAAAAAAGTGACAAC
87096210 CTAT
65 CTAT
* * * * * * *
87096214 AATTACATATAAAAAGTGATATTAGTCCATCACCATACCCATTTACTCATAGAAAAAGTGTCAAC
1 AATTACATACAAAAAGTTATATTAGTCCACCACCACA-CCATTTACACATAAAAAAAGTGACAAC
*
87096279 CTAC
65 CTAT
* *
87096283 AATTACATATAAAAAGTTATATTAGTTCACCACCACACGCATTTACACATAAAACAAAGTGACAA
1 AATTACATACAAAAAGTTATATTAGTCCACCACCACAC-CATTTACACATAAAA-AAAGTGACAA
87096348 CCCT-T
64 -CCTAT
* ** * *
87096353 TATGGCACACAAAAAGTTACATTCA-TCCACCACCACA
1 AATTACATACAAAAAGTTATATT-AGTCCACCACCACA
87096390 GCCACTTCTT
Statistics
Matches: 145, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
68 1 0.01
69 103 0.71
70 37 0.26
71 4 0.03
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (68 bp):
AATTACATACAAAAAGTTATATTAGTCCACCACCACACCATTTACACATAAAAAAAGTGACAACC
TAT
Found at i:87103165 original size:27 final size:28
Alignment explanation
Indices: 87103115--87103169 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
87103105 ATTCAACTGC
*
87103115 AACTAAATAGGAAATTTCTGGAAAAAAA
1 AACTAAATAGGAAATTTCTAGAAAAAAA
87103143 AACT-AATAGGAAATTAT-TAGAAAAAAA
1 AACTAAATAGGAAATT-TCTAGAAAAAAA
87103170 TAAAAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.13, T:0.22
Consensus pattern (28 bp):
AACTAAATAGGAAATTTCTAGAAAAAAA
Found at i:87113530 original size:58 final size:60
Alignment explanation
Indices: 87113427--87113542 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 60
87113417 TTGTTATTAA
*
87113427 ATTTTAATAATAATATTATTAAATATTATTTAATAAAAACAATAATACATAATTTAATCCT
1 ATTTTAATAATAATATTATTAAATATTAATT-ATAAAAACAATAATACATAATTTAATCCT
* * * *
87113488 ATTTTAATAA-ATTTATTATTAAATA-TAATT-TAACAATAATAATACATGATTTAAT
1 ATTTTAATAATA-ATATTATTAAATATTAATTATAAAAACAATAATACATAATTTAAT
87113543 AATATGAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
58 22 0.45
60 5 0.10
61 22 0.45
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (60 bp):
ATTTTAATAATAATATTATTAAATATTAATTATAAAAACAATAATACATAATTTAATCCT
Found at i:87113554 original size:13 final size:13
Alignment explanation
Indices: 87113533--87113569 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
87113523 ATAATAATAC
*
87113533 ATGATTTAATAAT
1 ATGAATTAATAAT
87113546 ATGAATTAAT-AT
1 ATGAATTAATAAT
87113558 ATGAATTAATAA
1 ATGAATTAATAA
87113570 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (13 bp):
ATGAATTAATAAT
Found at i:87113559 original size:12 final size:12
Alignment explanation
Indices: 87113527--87113568 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
87113517 TTAACAATAA
* *
87113527 TAATACATGATT
1 TAATATATGAAT
87113539 TAATAATATGAAT
1 TAAT-ATATGAAT
87113552 TAATATATGAAT
1 TAATATATGAAT
87113564 TAATA
1 TAATA
87113569 AAAATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (12 bp):
TAATATATGAAT
Found at i:87113577 original size:21 final size:21
Alignment explanation
Indices: 87113525--87113602 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 21
87113515 ATTTAACAAT
* *
87113525 AATAATACATGATTTAATAATA
1 AATAATATATGAATTAATAA-A
87113547 TGAATTAATATATGAATTAATAAA
1 --AA-TAATATATGAATTAATAAA
* *
87113571 AATAATATATAATATTACAAAAA
1 AATAATATATGA-ATTA-ATAAA
87113594 AATAATATA
1 AATAATATA
87113603 CAACCTACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 9 0.19
22 6 0.13
23 13 0.28
24 3 0.06
25 16 0.34
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (21 bp):
AATAATATATGAATTAATAAA
Found at i:87113594 original size:23 final size:21
Alignment explanation
Indices: 87113552--87113602 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
87113542 TAATATGAAT
* *
87113552 TAATATATGAATTAATAAAAA
1 TAATATATAAATTAAAAAAAA
87113573 TAATATATAATATTACAAAAAAA
1 TAATATATAA-ATTA-AAAAAAA
87113596 TAATATA
1 TAATATA
87113603 CAACCTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 4 0.15
23 13 0.50
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATATATAAATTAAAAAAAA
Found at i:87116567 original size:16 final size:16
Alignment explanation
Indices: 87116543--87116611 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
87116533 TGGTTGGCTG
* *
87116543 TAATGGAATAAGGTTA
1 TAATAGAATAAAGTTA
* *
87116559 TAATTGAATAAAGTTG
1 TAATAGAATAAAGTTA
* *
87116575 TAATAGAATAGAGCTA
1 TAATAGAATAAAGTTA
* *
87116591 TAATAGAATAGAGTTG
1 TAATAGAATAAAGTTA
87116607 TAATA
1 TAATA
87116612 AGTAATTCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.32
Consensus pattern (16 bp):
TAATAGAATAAAGTTA
Found at i:87116813 original size:14 final size:14
Alignment explanation
Indices: 87116777--87116817 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
87116767 GTTATTAAAT
*
87116777 TTTAAT-AAAATTA
1 TTTAATAAAAATAA
*
87116790 -TTATTAAAAATAA
1 TTTAATAAAAATAA
87116803 TTTAATAAAAATAA
1 TTTAATAAAAATAA
87116817 T
1 T
87116818 AAATAGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:87116875 original size:17 final size:17
Alignment explanation
Indices: 87116853--87116885 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87116843 AATTATTATT
87116853 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
87116870 AAATATAATTTAATAA
1 AAATATAATTTAATAA
87116886 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:87121659 original size:30 final size:31
Alignment explanation
Indices: 87121623--87121691 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
87121613 GATTTCATTT
*
87121623 CAGTCACTCAAC-TTTTAAAAAA-TAACAAAA
1 CAGTCACT-AACATTATAAAAAAGTAACAAAA
**
87121653 CAGTCACTAACATTATAAAAAAGTGGCAAAA
1 CAGTCACTAACATTATAAAAAAGTAACAAAA
87121684 CAGTCACT
1 CAGTCACT
87121692 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 17 0.50
31 14 0.41
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACATTATAAAAAAGTAACAAAA
Found at i:87122628 original size:29 final size:30
Alignment explanation
Indices: 87122569--87122626 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
87122559 TCCGAGCCTT
*
87122569 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
87122599 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
87122627 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:87123077 original size:50 final size:50
Alignment explanation
Indices: 87122964--87123203 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
87122954 ATTTGGGTAA
* * *
87122964 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
87123020 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
87123070 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
87123120 AGAGGTCCC-T-TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
87123168 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
87123204 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
47 1 0.01
48 34 0.20
49 6 0.04
50 57 0.34
51 23 0.14
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:87126849 original size:26 final size:26
Alignment explanation
Indices: 87126820--87126872 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
87126810 TCAAACATGC
87126820 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
87126846 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
87126872 A
1 A
87126873 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:87128199 original size:26 final size:26
Alignment explanation
Indices: 87128169--87128328 Score: 221
Period size: 26 Copynumber: 6.2 Consensus size: 26
87128159 TGAAATTCCC
* *
87128169 ATCATGGAACATCTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87128195 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * * *
87128221 ATCATGAAATATTTACTTAATCCGTT
1 ATCATGGAACATTTACCTAACCCATT
87128247 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
87128273 ATCATGGAATATTTACTTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87128299 ATCATGGAACATTTACCCAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87128325 ATCA
1 ATCA
87128329 ATTTGTACCA
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 115 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87128249 original size:52 final size:52
Alignment explanation
Indices: 87128190--87128328 Score: 251
Period size: 52 Copynumber: 2.7 Consensus size: 52
87128180 TCTATCTAAC
87128190 CCATTATCATGGAACATTTACCTAACCCATTATCATGAAATATTTACTTAAT
1 CCATTATCATGGAACATTTACCTAACCCATTATCATGAAATATTTACTTAAT
* *
87128242 CCGTTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACTTAAT
1 CCATTATCATGGAACATTTACCTAACCCATTATCATGAAATATTTACTTAAT
*
87128294 CCATTATCATGGAACATTTACCCAACCCATTATCA
1 CCATTATCATGGAACATTTACCTAACCCATTATCA
87128329 ATTTGTACCA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 83 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (52 bp):
CCATTATCATGGAACATTTACCTAACCCATTATCATGAAATATTTACTTAAT
Found at i:87133799 original size:24 final size:25
Alignment explanation
Indices: 87133763--87133810 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
87133753 TCAAACATGC
87133763 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
87133788 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
87133811 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:87135327 original size:26 final size:26
Alignment explanation
Indices: 87135297--87135404 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
87135287 TGAAATTCCC
*
87135297 ATCATGGAACATCTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87135323 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
87135349 ATTATGGAATATTTACTTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87135375 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87135401 ATCA
1 ATCA
87135405 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87139723 original size:19 final size:20
Alignment explanation
Indices: 87139701--87139740 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
87139691 ATTTTAATAT
*
87139701 ATGTATATCA-TTTTACCAC
1 ATGTATATCACTATTACCAC
*
87139720 ATGTATTTCACTATTACCAC
1 ATGTATATCACTATTACCAC
87139740 A
1 A
87139741 CACTTGTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (20 bp):
ATGTATATCACTATTACCAC
Found at i:87144413 original size:15 final size:15
Alignment explanation
Indices: 87144371--87144413 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
87144361 AAGCATATTT
87144371 TATATTTTTAAATATA
1 TATATTTTT-AATATA
* *
87144387 TATAATTCTAATATA
1 TATATTTTTAATATA
87144402 TATATTTTTAAT
1 TATATTTTTAAT
87144414 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTTTTAATATA
Found at i:87146320 original size:11 final size:11
Alignment explanation
Indices: 87146304--87146328 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87146294 AATTACAGTA
87146304 AAAAAAAAAAG
1 AAAAAAAAAAG
87146315 AAAAAAAAAAG
1 AAAAAAAAAAG
87146326 AAA
1 AAA
87146329 GACAGTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:87151960 original size:39 final size:39
Alignment explanation
Indices: 87151874--87152041 Score: 223
Period size: 39 Copynumber: 4.3 Consensus size: 39
87151864 GGGACTTTAA
* * * *
87151874 GCCCGGATATAATACTC-GCAC-AAGGCCTGCGGGACTTTA
1 GCCCGGATATAACAC-CAGCACGAATGCCTTCGGGAC-TTG
**
87151913 GCCCGGATATAACATTAGCACGAATGCCTTCGGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
*
87151952 GCCTGGATATAACACCAGCACGAATGCCTTCGGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
*
87151991 GCCTGGATATAACACCAGCACGAATGCCTTCGGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
*
87152030 GCCCGAATATAA
1 GCCCGGATATAA
87152042 TTCTCCATTA
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 104 0.90
40 12 0.10
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (39 bp):
GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
Found at i:87154066 original size:26 final size:26
Alignment explanation
Indices: 87154037--87154091 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
87154027 TCAACTTCTC
87154037 TTTTAAGTTTATAAA-TTCTCTTTGAG
1 TTTTAAGTTTATAAATTTCTC-TTGAG
** *
87154063 TTTTATTTTTATGAATTTCTCTTGAG
1 TTTTAAGTTTATAAATTTCTCTTGAG
87154089 TTT
1 TTT
87154092 CTTTCAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (26 bp):
TTTTAAGTTTATAAATTTCTCTTGAG
Found at i:87154628 original size:51 final size:50
Alignment explanation
Indices: 87154573--87154701 Score: 161
Period size: 51 Copynumber: 2.6 Consensus size: 50
87154563 CAAAACACCA
87154573 TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATA-ACACT
1 TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATATA-A-T
* * * *
87154624 TTTGTGAACAAGCCACCATTGAATTGCAGATATACTACCACTGATATAAT
1 TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATATAAT
* * * *
87154674 TTTATGGACATGCCACCACTAATTTGCA
1 TTTGTGAACAAGCCACCACTGATTTGCA
87154702 GATATATTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 23 0.34
51 43 0.64
52 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (50 bp):
TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATATAAT
Found at i:87154702 original size:50 final size:51
Alignment explanation
Indices: 87154577--87154716 Score: 160
Period size: 51 Copynumber: 2.8 Consensus size: 51
87154567 ACACCATTTG
* * * *
87154577 TGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATAACACTTTTG
1 TGAACAAGCCACCACTAATTTGCAGATATACTACCACTGATAACACTTTTA
*
87154628 TGAACAAGCCACCATTGAA-TTGCAGATATACTACCACTGATATA-A-TTTTA
1 TGAACAAGCCACCACT-AATTTGCAGATATACTACCACTGATA-ACACTTTTA
* * * *
87154678 TGGACATGCCACCACTAATTTGCAGATATATTGCCACTG
1 TGAACAAGCCACCACTAATTTGCAGATATACTACCACTG
87154717 CTTCCACCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
49 2 0.03
50 35 0.46
51 37 0.49
52 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (51 bp):
TGAACAAGCCACCACTAATTTGCAGATATACTACCACTGATAACACTTTTA
Found at i:87163529 original size:8 final size:9
Alignment explanation
Indices: 87163514--87163539 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
87163504 CAACTCATAG
87163514 ATTTTTTTT
1 ATTTTTTTT
87163523 ATTTTTTTT
1 ATTTTTTTT
87163532 ATTTTTTT
1 ATTTTTTT
87163540 CGTATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:87163545 original size:20 final size:19
Alignment explanation
Indices: 87163514--87163552 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 19
87163504 CAACTCATAG
87163514 ATTTTTTTTATTTT-TTTT
1 ATTTTTTTTATTTTCTTTT
87163532 ATTTTTTTCGTATTTTCTTTT
1 ATTTTTTT--TATTTTCTTTT
87163553 TCTTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (19 bp):
ATTTTTTTTATTTTCTTTT
Found at i:87163961 original size:12 final size:13
Alignment explanation
Indices: 87163926--87163954 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87163916 ATAAAACAAT
87163926 TAAAATAAATAAC
1 TAAAATAAATAAC
87163939 TAAAATAAATAA-
1 TAAAATAAATAAC
87163951 TAAA
1 TAAA
87163955 TCAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAC
Found at i:87174375 original size:35 final size:35
Alignment explanation
Indices: 87174301--87174379 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
87174291 TTTTAAATTA
87174301 AATTTTTT-ATATTTTTATACTTTTTAAATAATTCT
1 AATTTTTTAATATTTTTATACTTTTTAAAT-ATTCT
* * *
87174336 -ATTTTTTAATATTTTTATAATTTTTTGAAT-TTTT
1 AATTTTTTAATATTTTTAT-ACTTTTTAAATATTCT
87174370 AATTTTTTAA
1 AATTTTTTAA
87174380 AAAAATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
34 10 0.26
35 19 0.50
36 9 0.24
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (35 bp):
AATTTTTTAATATTTTTATACTTTTTAAATATTCT
Found at i:87174901 original size:16 final size:17
Alignment explanation
Indices: 87174871--87174903 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87174861 TAACTAATTA
*
87174871 AAATTTAATTAATTTTC
1 AAATTAAATTAATTTTC
87174888 AAATTAAATT-ATTTTC
1 AAATTAAATTAATTTTC
87174904 TCAATCCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTAAATTAATTTTC
Found at i:87175435 original size:17 final size:17
Alignment explanation
Indices: 87175402--87175435 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87175392 AATAATTAAA
*
87175402 AAAAATATTTCACATAT
1 AAAAATATTTCAAATAT
*
87175419 AAAAATATTTGAAATAT
1 AAAAATATTTCAAATAT
87175436 CATACTCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAAATATTTCAAATAT
Found at i:87176442 original size:3 final size:3
Alignment explanation
Indices: 87176434--87176459 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
87176424 TCTTAATTAA
87176434 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
87176460 ACATCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:87189474 original size:47 final size:47
Alignment explanation
Indices: 87189405--87189500 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
87189395 AATACACCCA
87189405 TTAGAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTTACG
1 TTAGAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTTACG
87189452 TTAGAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTTACG
1 TTAGAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTTACG
87189499 TT
1 TT
87189501 TTGAGGGTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (47 bp):
TTAGAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTTACG
Found at i:87199201 original size:16 final size:17
Alignment explanation
Indices: 87199177--87199209 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
87199167 TTATTAAGAT
87199177 TTTATAATATTAATTAA
1 TTTATAATATTAATTAA
*
87199194 TTTA-AATATTATTTAA
1 TTTATAATATTAATTAA
87199210 ATGTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATAATATTAATTAA
Found at i:87201186 original size:73 final size:73
Alignment explanation
Indices: 87201067--87201203 Score: 238
Period size: 73 Copynumber: 1.9 Consensus size: 73
87201057 CTCGTAACTA
* * *
87201067 TGTTGGTGGAGAGGTGGAGAATGGGATGCACACATTCTACCTTCCATGCGGTGAGTGTACTATCT
1 TGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTACCTTCCATGCAGTGAGTGTACTATCT
87201132 CATAAGCG
66 CATAAGCG
*
87201140 TGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTATCTTCCATGCAGTGAGTGTACTATC
1 TGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTACCTTCCATGCAGTGAGTGTACTATC
87201204 ACTCTGGATG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (73 bp):
TGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTACCTTCCATGCAGTGAGTGTACTATCT
CATAAGCG
Found at i:87203260 original size:22 final size:23
Alignment explanation
Indices: 87203235--87203280 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
87203225 CAACCAAACC
87203235 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
87203257 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
87203280 A
1 A
87203281 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:87203286 original size:23 final size:23
Alignment explanation
Indices: 87203242--87203286 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87203232 ACCAATTCAA
*
87203242 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
87203265 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
87203287 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:87209245 original size:28 final size:28
Alignment explanation
Indices: 87209213--87209279 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
87209203 TGTGAATCTT
*** *
87209213 GCACTAAGTGTACGAATTTCGTTATTGA
1 GCACTAAGTGTACGAATTTAAATATCGA
* *
87209241 GCACTAAGTGTGCGAGTTTAAATATCGA
1 GCACTAAGTGTACGAATTTAAATATCGA
87209269 GCACTAAGTGT
1 GCACTAAGTGT
87209280 GCAAACTCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTACGAATTTAAATATCGA
Found at i:87213431 original size:24 final size:25
Alignment explanation
Indices: 87213391--87213451 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
87213381 GACGCGACTC
*
87213391 TTTTTTTA-TATTAAAAT-ATAT-T
1 TTTTTTTATTTTTAAAATAATATAT
*
87213413 ATTTTTTTATTTTTTAAATAATATAT
1 -TTTTTTTATTTTTAAAATAATATAT
87213439 TATTTTTTATTTT
1 T-TTTTTTATTTT
87213452 CGGATCAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 8 0.25
24 7 0.22
25 5 0.16
26 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTTTATTTTTAAAATAATATAT
Found at i:87213521 original size:27 final size:27
Alignment explanation
Indices: 87213486--87213552 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
87213476 ATACGAATAC
* *
87213486 GTTGCGCCTATCTCTGAGGCACGACTA
1 GTTGAGCCTATCTCAGAGGCACGACTA
* *
87213513 GTTGAGCCTTTCTCAGAGGCGCGACTA
1 GTTGAGCCTATCTCAGAGGCACGACTA
* *
87213540 ATTGTGCCTATCT
1 GTTGAGCCTATCT
87213553 TGGAGCCGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (27 bp):
GTTGAGCCTATCTCAGAGGCACGACTA
Found at i:87213956 original size:19 final size:20
Alignment explanation
Indices: 87213932--87213977 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
87213922 CATCCCAACA
*
87213932 CCAGAAAAGTAAATTA-TTT
1 CCAGAAAAGTAAATCATTTT
87213951 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
87213971 CCAGAAA
1 CCAGAAA
87213978 TTATTTTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:87214161 original size:60 final size:60
Alignment explanation
Indices: 87214068--87214180 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
87214058 ATACTAAACT
* * * * *
87214068 AAACGCAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
87214128 AAACACAAAAATTAATAACATAATTCTAAATTACTAACAAATTAATTTTAAAA
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAA
87214181 ATATTATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:87214989 original size:28 final size:28
Alignment explanation
Indices: 87214957--87215022 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
87214947 TTTAAATATT
*
87214957 TTTAATAAAAATAAAAAATA-ATATTTTA
1 TTTAA-AAAAACAAAAAATATATATTTTA
* *
87214985 TTTAAAAAACCCAAAAATATATATTTTAA
1 TTTAAAAAAACAAAAAATATATATTTT-A
*
87215014 TATAAAAAA
1 TTTAAAAAA
87215023 GAGTCGCGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 11 0.34
28 12 0.38
29 9 0.28
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTAAAAAAACAAAAAATATATATTTTA
Found at i:87216119 original size:21 final size:20
Alignment explanation
Indices: 87216095--87216133 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87216085 ATCTCACTCG
* *
87216095 ATTTGACTCGACTCGAATTTT
1 ATTTCACTCAACTC-AATTTT
87216116 ATTTCACTCAACTCAATT
1 ATTTCACTCAACTCAATT
87216134 CGAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (20 bp):
ATTTCACTCAACTCAATTTT
Found at i:87217816 original size:14 final size:14
Alignment explanation
Indices: 87217797--87217825 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87217787 CTTTCGAGAG
87217797 TAAGAACAACTAAC
1 TAAGAACAACTAAC
87217811 TAAGAACAACTAAC
1 TAAGAACAACTAAC
87217825 T
1 T
87217826 CCAGGTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (14 bp):
TAAGAACAACTAAC
Found at i:87218872 original size:21 final size:21
Alignment explanation
Indices: 87218848--87218887 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
87218838 AAGGTTGAAA
*
87218848 CTAGCCTTGATGGGTTAGATG
1 CTAGCCTTAATGGGTTAGATG
**
87218869 CTAGGGTTAATGGGTTAGA
1 CTAGCCTTAATGGGTTAGA
87218888 GTCTGGGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.33
Consensus pattern (21 bp):
CTAGCCTTAATGGGTTAGATG
Found at i:87227637 original size:18 final size:17
Alignment explanation
Indices: 87227614--87227647 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
87227604 AGTAAGGTGG
87227614 GAAAAAAATTAGAAAGAT
1 GAAAAAAA-TAGAAAGAT
87227632 GAAAAAAATAGAAAGA
1 GAAAAAAATAGAAAGA
87227648 AAGATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (17 bp):
GAAAAAAATAGAAAGAT
Found at i:87242138 original size:17 final size:17
Alignment explanation
Indices: 87242113--87242149 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
87242103 ACCACACGAC
*
87242113 TGTGCCACATGCCCATG
1 TGTGCCACATGACCATG
*
87242130 TGTGGCACATGACCATG
1 TGTGCCACATGACCATG
87242147 TGT
1 TGT
87242150 CAAACAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (17 bp):
TGTGCCACATGACCATG
Found at i:87243628 original size:16 final size:16
Alignment explanation
Indices: 87243607--87243637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87243597 TCATTATTAT
*
87243607 GTCTTTTGTATTTTAG
1 GTCTTTTATATTTTAG
87243623 GTCTTTTATATTTTA
1 GTCTTTTATATTTTA
87243638 CATGCATAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.13, T:0.65
Consensus pattern (16 bp):
GTCTTTTATATTTTAG
Found at i:87246906 original size:20 final size:20
Alignment explanation
Indices: 87246805--87246906 Score: 91
Period size: 20 Copynumber: 5.1 Consensus size: 20
87246795 ATAATGTTAT
**
87246805 ACAGAGGCACCGTAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
*
87246825 AC-GTAGGCA-CAATTGTGCAA
1 ACAG-AGGCACCAA-AGTGCAA
* **
87246845 TCAGAGGCTTCAAAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
* * *
87246865 ATAGAGACACCAAAGTGTAA
1 ACAGAGGCACCAAAGTGCAA
87246885 ACAGAGGCACCAAAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
87246905 AC
1 AC
87246907 CCGTACAAGC
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
19 2 0.03
20 57 0.90
21 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.14
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTGCAA
Found at i:87247390 original size:12 final size:12
Alignment explanation
Indices: 87247373--87247399 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87247363 ATCTCATTTG
87247373 TATTTCCATGCA
1 TATTTCCATGCA
87247385 TATTTCCATGCA
1 TATTTCCATGCA
87247397 TAT
1 TAT
87247400 GACCCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (12 bp):
TATTTCCATGCA
Found at i:87248880 original size:39 final size:39
Alignment explanation
Indices: 87248826--87248902 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
87248816 TATTAACTTC
87248826 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGAA
1 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGAA
87248865 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGA
1 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGA
87248903 GAAGATCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (39 bp):
AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGAA
Found at i:87250333 original size:19 final size:19
Alignment explanation
Indices: 87250305--87250353 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
87250295 ATAAGAAAGA
*
87250305 AATAATACTAATA-TCAAAT
1 AATAAAACTAATACT-AAAT
*
87250324 AATAAAACTATTACTAAAT
1 AATAAAACTAATACTAAAT
87250343 -ATAAAA-TAATA
1 AATAAAACTAATA
87250354 ATATAATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 15 0.58
20 1 0.04
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAAAACTAATACTAAAT
Found at i:87252543 original size:30 final size:30
Alignment explanation
Indices: 87252498--87252571 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
87252488 AAATTTTAAA
* ** *
87252498 TTAATAATTATAAAATTGTGCTTTAATCTT
1 TTAAAAATTATAAAATTGTAATTTAATCGT
* *
87252528 TTAAAAATAATAAAATTTTAATTTAATCGT
1 TTAAAAATTATAAAATTGTAATTTAATCGT
87252558 TTAAAAATTATAAA
1 TTAAAAATTATAAA
87252572 TATATAAGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (30 bp):
TTAAAAATTATAAAATTGTAATTTAATCGT
Found at i:87253923 original size:16 final size:18
Alignment explanation
Indices: 87253890--87253923 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
87253880 TATTAATAGG
87253890 GTGAATTTTGTGTTAATT
1 GTGAATTTTGTGTTAATT
87253908 GTGAA-TTTGT-TTAATT
1 GTGAATTTTGTGTTAATT
87253924 TACATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (18 bp):
GTGAATTTTGTGTTAATT
Found at i:87257936 original size:18 final size:18
Alignment explanation
Indices: 87257913--87257951 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
87257903 GTGCTTGTCG
87257913 CCAGCGTCTTCCCCTTTT
1 CCAGCGTCTTCCCCTTTT
87257931 CCAGCGTCTTCCCCTTTT
1 CCAGCGTCTTCCCCTTTT
87257949 CCA
1 CCA
87257952 CCTCTTCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.08, C:0.46, G:0.10, T:0.36
Consensus pattern (18 bp):
CCAGCGTCTTCCCCTTTT
Found at i:87257959 original size:17 final size:18
Alignment explanation
Indices: 87257913--87257959 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
87257903 GTGCTTGTCG
*
87257913 CCAGCGTCTTCCCCTTTT
1 CCAGCCTCTTCCCCTTTT
*
87257931 CCAGCGTCTTCCCCTTTT
1 CCAGCCTCTTCCCCTTTT
87257949 CCA-CCTCTTCC
1 CCAGCCTCTTCC
87257960 TCAAGACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.06, C:0.49, G:0.09, T:0.36
Consensus pattern (18 bp):
CCAGCCTCTTCCCCTTTT
Found at i:87262190 original size:57 final size:57
Alignment explanation
Indices: 87262085--87262193 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
87262075 CCCAAATATG
* * * **
87262085 TTTTTTTTTGTCAACCAACTATGAAAAGTTACAAAATGGTCATTCAACTATTAGTAA
1 TTTTTTTTAGTCAACCAACTACGAAAAGTTACAAAATAGTCACCCAACTATTAGTAA
**
87262142 TTTTTTTTAGTC-ACTCAACTACGAAAAGTTACAAAATAGTTGCCCAACTATT
1 TTTTTTTTAGTCAAC-CAACTACGAAAAGTTACAAAATAGTCACCCAACTATT
87262194 CAATTTTGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 2 0.05
57 42 0.95
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (57 bp):
TTTTTTTTAGTCAACCAACTACGAAAAGTTACAAAATAGTCACCCAACTATTAGTAA
Found at i:87262389 original size:19 final size:19
Alignment explanation
Indices: 87262354--87262390 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
87262344 ACCAATCTGA
**
87262354 TTAAAAAATTATTAAAAAT
1 TTAAAAAATTAAAAAAAAT
87262373 TTAAAAAATTAAAAAAAA
1 TTAAAAAATTAAAAAAAA
87262391 ACTTCGGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAAAAAATTAAAAAAAAT
Found at i:87263604 original size:31 final size:32
Alignment explanation
Indices: 87263536--87263604 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
87263526 GTTAATTTTA
*
87263536 ATTTTTTTAATATTATTTAATATTTTTATTTC
1 ATTTTTTTAATATTAATTAATATTTTTATTTC
*
87263568 ATTTTTGTAAT-TTAATTAATA-TTTTATTAT-
1 ATTTTTTTAATATTAATTAATATTTTTATT-TC
87263598 ATTTTTT
1 ATTTTTT
87263605 ATAACAGTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 13 0.39
31 10 0.30
32 10 0.30
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (32 bp):
ATTTTTTTAATATTAATTAATATTTTTATTTC
Found at i:87265600 original size:59 final size:59
Alignment explanation
Indices: 87265513--87265738 Score: 273
Period size: 59 Copynumber: 3.8 Consensus size: 59
87265503 ATTTATTTGT
* * * * *
87265513 TTTTTAATATATTTGTACAAATTATTTTTATATTGTTTCGTTTAATAAAAGAG-A-TTT
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
*
87265570 TTTTAAAAATATTTTTGTACAAATTATTTTTA-AGTTGTTTCATTTAATAAAACAGAAGTTC
1 TTTT--GAATATTTTTGTACAAATTATTTTTATA-TTGTTTCATTTAATAAAACAGAAGTTC
* * *
87265631 TTTTGAATATTTTTGTA-AAACTTATATTTGTATTGTTTCATTTAATAAAACAGAAGGTC
1 TTTTGAATATTTTTGTACAAA-TTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
* *
87265690 TTTTGAATATTTTTGTACAAATTATTTTT-TCATTATTTTATTTAATAAA
1 TTTTGAATATTTTTGTACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
87265739 TTAGGAGTTA
Statistics
Matches: 148, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.03
58 5 0.03
59 128 0.86
60 5 0.03
61 6 0.04
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
Found at i:87271153 original size:4 final size:4
Alignment explanation
Indices: 87271139--87271181 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
87271129 GATTATTATA
* *
87271139 TATG AATG TATG TATG TATG TATG TATG TATG TATG GATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
87271182 ATTTGAAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:87272568 original size:22 final size:22
Alignment explanation
Indices: 87272543--87272586 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
87272533 TATACTAAAA
87272543 GTAAAAGAAAATTTAAGCATAT
1 GTAAAAGAAAATTTAAGCATAT
87272565 GTAAAAGAAAATTTAAGCATAT
1 GTAAAAGAAAATTTAAGCATAT
87272587 TCTAACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (22 bp):
GTAAAAGAAAATTTAAGCATAT
Found at i:87279882 original size:26 final size:26
Alignment explanation
Indices: 87279852--87279921 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 26
87279842 ATACATATTT
*
87279852 AATTATTTATATTTAGTAATATAATA
1 AATTATTTATATTTAGTAAAATAATA
*
87279878 AATTATTCATATAATTTATTAAAATAATA
1 AATTATT--TAT-ATTTAGTAAAATAATA
87279907 AATTATTTAATATTT
1 AATTATTT-ATATTT
87279922 TAATTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 7 0.18
27 5 0.13
28 5 0.13
29 21 0.55
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
AATTATTTATATTTAGTAAAATAATA
Found at i:87279891 original size:16 final size:16
Alignment explanation
Indices: 87279868--87279919 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 16
87279858 TTATATTTAG
87279868 TAATATAATAAATTAT
1 TAATATAATAAATTAT
*
87279884 TCATATAAT---TTAT
1 TAATATAATAAATTAT
*
87279897 TAAAATAATAAATTATT
1 TAATATAATAAATTA-T
87279914 TAATAT
1 TAATAT
87279920 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
13 11 0.39
16 11 0.39
17 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAATAAATTAT
Found at i:87279945 original size:13 final size:13
Alignment explanation
Indices: 87279928--87279970 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
87279918 ATTTTAATTT
87279928 TATTTTAATAATAA
1 TATTTTAA-AATAA
87279942 -ATTTTAAAATAA
1 TATTTTAAAATAA
*
87279954 TAATTTAAAATAA
1 TATTTTAAAATAA
87279967 TATT
1 TATT
87279971 CTTCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:87280023 original size:15 final size:15
Alignment explanation
Indices: 87280003--87280056 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
87279993 TCAATATTAC
87280003 TATTTTAATAATAAA
1 TATTTTAATAATAAA
* *
87280018 TATTTTATTACAATTATA
1 TATTTTA--ATAA-TAAA
*
87280036 TATATTAATAATAAA
1 TATTTTAATAATAAA
87280051 TATTTT
1 TATTTT
87280057 GTAGTATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 15 0.50
16 3 0.10
17 3 0.10
18 9 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:87280537 original size:14 final size:14
Alignment explanation
Indices: 87280515--87280544 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87280505 TCAAGAAAAT
87280515 AAGTCATTTTCCAG
1 AAGTCATTTTCCAG
*
87280529 AAGTTATTTTCCAG
1 AAGTCATTTTCCAG
87280543 AA
1 AA
87280545 ACCATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (14 bp):
AAGTCATTTTCCAG
Done.