Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 51 of 141
Found at i:15361456 original size:66 final size:65
Alignment explanation
Indices: 15361349--15361519 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
15361339 GAGCAAATTA
* * * *
15361349 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
15361413 G
65 G
* *
15361414 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
15361479 G
65 G
* * ** *
15361480 CAGCAGCTTAAAGCAGATGCGGCAGTAAGAGAAGCGGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
15361520 CGGCAGCTAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.29, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:15361514 original size:21 final size:21
Alignment explanation
Indices: 15361490--15361560 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
15361480 CAGCAGCTTA
*
15361490 AAGCAGATGCGGCAG-TAAGAG
1 AAGCAGAGGCGGCAGCT-AGAG
*
15361511 AAGCGGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCTAGAG
* * * * *
15361532 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCTAGAG
15361553 AAGCAGAG
1 AAGCAGAG
15361561 CAGCGTCAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.42, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCTAGAG
Found at i:15362003 original size:43 final size:42
Alignment explanation
Indices: 15361863--15362028 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 42
15361853 ATCTGCCAAA
15361863 TTTAGTGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 TTTAGTGGCG-TTTTGGGGAAAGCGCCGCTAAAGATTAGGTTC
* * *
15361906 TTTAGTGGCGTTTTGTGGTCG-AAGCGCCGCTATAGATCAGGGTC
1 TTTAGTGGCGTTTTG-GG--GAAAGCGCCGCTAAAGATTAGGTTC
* *
15361950 TATT-GCGGCGTTTTAGGGGAAAGCGCCACTAAAGATTAGGTTC
1 T-TTAGTGGCGTTTT-GGGGAAAGCGCCGCTAAAGATTAGGTTC
** * *
15361993 TTTAGTGGCGTTTGTGGTCAAAGCGTCGCTATAGAT
1 TTTAGTGGCGTTT-TGGGGAAAGCGCCGCTAAAGAT
15362029 CAGGGTCTAT
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 8 0.08
43 56 0.55
44 33 0.33
45 4 0.04
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (42 bp):
TTTAGTGGCGTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTC
Found at i:15362046 original size:43 final size:43
Alignment explanation
Indices: 15361882--15362049 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
15361872 GTTTTTGGGG
* * * *
15361882 AAAGCGCCGCTAAAGATTAGGTTCT-TTAGTGGCGTTTTGTGGTC
1 AAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCG-TTTGTGGTC
* **
15361926 GAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTT-TAGGGG
1 AAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGT-GGTC
* * * * *
15361969 AAAGCGCCACTAAAGATTAGGTTCT-TTAGTGGCGTTTGTGGTC
1 AAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGTGGTC
* *
15362012 AAAGCGTCGCTATAGATCAGGGTCTATTCCGGCGTTTG
1 AAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTG
15362050 AGAAAAAATG
Statistics
Matches: 97, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
42 3 0.03
43 63 0.65
44 29 0.30
45 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (43 bp):
AAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGTGGTC
Found at i:15362297 original size:22 final size:22
Alignment explanation
Indices: 15362269--15362311 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15362259 CTGCGGCGCT
*
15362269 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
15362291 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
15362312 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:15364094 original size:17 final size:18
Alignment explanation
Indices: 15364058--15364095 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
15364048 GGGATTAGAA
*
15364058 TTAAGTTGAGAAAATTAT
1 TTAAGTTGAGAAAATAAT
*
15364076 TTAA-TTGAGAAACTAAT
1 TTAAGTTGAGAAAATAAT
15364093 TTA
1 TTA
15364096 GTTAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (18 bp):
TTAAGTTGAGAAAATAAT
Found at i:15369733 original size:13 final size:13
Alignment explanation
Indices: 15369715--15369834 Score: 98
Period size: 13 Copynumber: 9.2 Consensus size: 13
15369705 CATATCTATA
*
15369715 TTCATATAAATAT
1 TTCATATAAACAT
*
15369728 TTCATATAAACAC
1 TTCATATAAACAT
* *
15369741 TTCATATCAACGT
1 TTCATATAAACAT
*
15369754 TTCATAT-ATCTAT
1 TTCATATAAAC-AT
15369767 TTCGATATAAACAT
1 TTC-ATATAAACAT
*
15369781 TTCATATAACCAT
1 TTCATATAAACAT
* *
15369794 TTCATCTAAATAT
1 TTCATATAAACAT
* * *
15369807 TTCATTTTACCAT
1 TTCATATAAACAT
* *
15369820 TTCATTTACACAT
1 TTCATATAAACAT
15369833 TT
1 TT
15369835 AACACATAAT
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
12 2 0.02
13 72 0.85
14 9 0.11
15 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:15369797 original size:40 final size:39
Alignment explanation
Indices: 15369715--15369811 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 39
15369705 CATATCTATA
*
15369715 TTCATATAAATATTTCATATAAACACTTCATATCAACGT
1 TTCATATAAATATTTCATATAAACACTTCATATCAACAT
** *
15369754 TTCATATATCTATTTCGATATAAACATTTCATAT-AACCAT
1 TTCATATAAATATTTC-ATATAAACACTTCATATCAA-CAT
*
15369794 TTCATCTAAATATTTCAT
1 TTCATATAAATATTTCAT
15369812 TTTACCATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
39 18 0.37
40 31 0.63
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (39 bp):
TTCATATAAATATTTCATATAAACACTTCATATCAACAT
Found at i:15369810 original size:53 final size:53
Alignment explanation
Indices: 15369700--15369811 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
15369690 AAATGTCCCT
* * * *
15369700 TTTCACATATCTATATTCATATAAATATTTCATATAAACACTTCATATCAACG
1 TTTCATATATCTATATTCATATAAACATTTCATATAAACACTTCATATAAACA
* * * *
15369753 TTTCATATATCTAT-TTCGATATAAACATTTCATATAACCATTTCATCTAAATA
1 TTTCATATATCTATATTC-ATATAAACATTTCATATAAACACTTCATATAAACA
15369806 TTTCAT
1 TTTCAT
15369812 TTTACCATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
52 3 0.06
53 47 0.94
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.43
Consensus pattern (53 bp):
TTTCATATATCTATATTCATATAAACATTTCATATAAACACTTCATATAAACA
Found at i:15377684 original size:40 final size:41
Alignment explanation
Indices: 15377624--15378024 Score: 519
Period size: 40 Copynumber: 9.9 Consensus size: 41
15377614 TTCTTACCTT
* *
15377624 TGGGGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGC
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
15377664 TGGGGTCTTTAACGGTGTTTTTGGAAAAGCGCCGCTAATTC
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
15377705 TGGGGTCTTTAGCGGTGTTTTT-GAAAAGCGCCACTAATGT
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
15377745 TGTGGTCTTTAGCGGCGTTTTTGGAAAAACACCGCTAATG-
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
15377785 TTGGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATG-
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
15377825 TTGGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGC
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
15377866 TAGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAGTTC
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
15377907 TGGGGTCTTTAGTGGCGTTTTTGGAAAAGCGCCG-TAATGC
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
15377947 TGAGGTATTTAGCGGCG-TTTT-GAGAAAGAGCCGCTAATGC
1 TGGGGTCTTTAGCGGCGTTTTTGGA-AAAGCGCCGCTAATGC
* * *
15377987 TGGGGACTTTAGCGGCGTTTTTAGAAAAGTGCCGCTAA
1 TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
15378025 AAATATTTTG
Statistics
Matches: 319, Mismatches: 35, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 12 0.04
40 167 0.52
41 136 0.43
42 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (41 bp):
TGGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:15377765 original size:81 final size:81
Alignment explanation
Indices: 15377624--15378024 Score: 515
Period size: 81 Copynumber: 5.0 Consensus size: 81
15377614 TTCTTACCTT
* * * * *
15377624 TGGGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTGGGGTCTTTAACGGTGTTTTTGGA
1 TGGGGTCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGTTGGGGTCTTTAGCGGCGTTTTTGGA
*
15377689 AAAGCGCCGCTAATTC
66 AAAGCGCCGCTAATGC
* * *
15377705 TGGGGTCTTTAGCGGTGTTTTTGAAAAGCGCCACTAATGTTGTGGTCTTTAGCGGCGTTTTTGGA
1 TGGGGTCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGTTGGGGTCTTTAGCGGCGTTTTTGGA
* *
15377770 AAAACACCGCTAATG-
66 AAAGCGCCGCTAATGC
* *
15377785 TTGGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGTT-GGGTCTTTAGCGGCGTTTTTGG
1 TGGGGTCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGTTGGGGTCTTTAGCGGCGTTTTTGG
*
15377849 GAAAGCGCCGCTAATGC
65 AAAAGCGCCGCTAATGC
* * *
15377866 TAGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAGT-TCTGGGGTCTTTAGTGGCGTTTTTG
1 TGGGGTCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGT-TGGGGTCTTTAGCGGCGTTTTTG
15377930 GAAAAGCGCCG-TAATGC
64 GAAAAGCGCCGCTAATGC
* * * * * *
15377947 TGAGGTATTTAGCGGCG-TTTTGAGAAAGAGCCGCTAATGCTGGGGACTTTAGCGGCGTTTTTAG
1 TGGGGTCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGTTGGGGTCTTTAGCGGCGTTTTTGG
*
15378011 AAAAGTGCCGCTAA
65 AAAAGCGCCGCTAA
15378025 AAATATTTTG
Statistics
Matches: 279, Mismatches: 34, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
79 2 0.01
80 101 0.36
81 146 0.52
82 30 0.11
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (81 bp):
TGGGGTCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGTTGGGGTCTTTAGCGGCGTTTTTGGA
AAAGCGCCGCTAATGC
Found at i:15377854 original size:121 final size:120
Alignment explanation
Indices: 15377630--15378024 Score: 462
Period size: 121 Copynumber: 3.3 Consensus size: 120
15377620 CCTTTGGGGG
* * *
15377630 CTTTAGCGGCGTTTTT--AAAAAGCGCCGCTAATGCTGGGGTCTTTAACGGTGTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAA-CGCCGCTAATG-TTGGGTCTTTAGCGGCGTTTTTGGAAAAG
* * *
15377693 CGCCGCTAAT-TCTGGGGTCTTTAGCGGTGTTTTT-GAAAAGCGCCACTAATGTTGTGGT
64 CGCCGCTAATGT-T-GGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGTTG-GGT
* *
15377751 CTTTAGCGGCGTTTTTGGAAAAACACCGCTAATGTTGGGTCTTTAGCGGCGTTTTTGGGAAAGCG
1 CTTTAGCGGCGTTTTTGGAAAAACGCCGCTAATGTTGGGTCTTTAGCGGCGTTTTTGGAAAAGCG
*
15377816 CCGCTAATGTTGGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTAGGGT
66 CCGCTAATGTTGGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATG-TTGGGT
* * *
15377872 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAGT-TCTGGGGTCTTTAGTGGCGTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAACGCCGCTAATGT-T-GGGTCTTTAGCGGCGTTTTTGGAAAAG
* * * * * *
15377936 CGCCG-TAATGCTGAGGTATTTAGCGGCG-TTTTGAGAAAGAGCCGCTAATGCTGGGGA
64 CGCCGCTAATGTTG-GGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATG-TTGGGT
* **
15377993 CTTTAGCGGCGTTTTTAGAAAAGTGCCGCTAA
1 CTTTAGCGGCGTTTTTGGAAAAACGCCGCTAA
15378025 AAATATTTTG
Statistics
Matches: 243, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
120 20 0.08
121 162 0.67
122 56 0.23
123 5 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (120 bp):
CTTTAGCGGCGTTTTTGGAAAAACGCCGCTAATGTTGGGTCTTTAGCGGCGTTTTTGGAAAAGCG
CCGCTAATGTTGGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGTTGGGT
Found at i:15378238 original size:25 final size:27
Alignment explanation
Indices: 15378183--15378238 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
15378173 AATCCCTAAT
* * *
15378183 CTTCAGACTTTTCTTCACTCCCGTTTT
1 CTTCAGACTTTTCATCACTCCCGCTTC
15378210 CTTCAGACTTTTCAT-A-TCCCGCTTC
1 CTTCAGACTTTTCATCACTCCCGCTTC
15378235 CTTC
1 CTTC
15378239 TCATTATCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
26 1 0.04
27 14 0.54
ACGTcount: A:0.12, C:0.36, G:0.07, T:0.45
Consensus pattern (27 bp):
CTTCAGACTTTTCATCACTCCCGCTTC
Found at i:15381549 original size:18 final size:18
Alignment explanation
Indices: 15381526--15381585 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
15381516 ATGTAATTCT
15381526 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
15381544 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
15381561 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
15381579 AATGTAA
1 AATGTAA
15381586 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:15381943 original size:22 final size:22
Alignment explanation
Indices: 15381915--15381956 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15381905 GGCGCTTCTC
*
15381915 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
15381937 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
15381957 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:15393240 original size:34 final size:34
Alignment explanation
Indices: 15393197--15393267 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
15393187 GTTTATTCCC
15393197 TTAGTTTTTATTACTGTGTCAAAGGAGTGGCGAA
1 TTAGTTTTTATTACTGTGTCAAAGGAGTGGCGAA
**
15393231 TTAGTTTTTATTACTGTGTCGGAGGAGTGGCGAA
1 TTAGTTTTTATTACTGTGTCAAAGGAGTGGCGAA
15393265 TTA
1 TTA
15393268 TGGAGACCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.39
Consensus pattern (34 bp):
TTAGTTTTTATTACTGTGTCAAAGGAGTGGCGAA
Found at i:15404525 original size:44 final size:43
Alignment explanation
Indices: 15404476--15404790 Score: 162
Period size: 44 Copynumber: 7.2 Consensus size: 43
15404466 GATAGCAGAT
*
15404476 CTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGTA-TGACAGTGAAGCAGATTGAAGACACAAGC
* * * * * *
15404520 CTTGCCTCCCTCG-ATTG-TAGTGGAGCAGGTTGAAGATAGC-AGAT
1 CTTGCCTTCCT-GTA-TGACAGTGAAGCAGATTGAAGACA-CAAG-C
* *
15404564 CTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGTA-TGACAGTGAAGCAGATTGAAGACACAAGC
* * * * *
15404608 CTTGCCTCCCTCAGT-TG-TAGTGAAGCAGGTTGAAGATAGC-AGAT
1 CTTGCCTTCCT--GTATGACAGTGAAGCAGATTGAAGACA-CAAG-C
* * *
15404652 CTTGCCTTCCTGCATCGACGGCGAAGCAGATTGAAGACACAAGC
1 CTTGCCTTCCTGTAT-GACAGTGAAGCAGATTGAAGACACAAGC
* * * * * * *
15404696 CTTGCCTCCCTCGGT-TG-TAGTGGAGCAGGTTAAAGATAGC-AGAT
1 CTTGCCTTCCT--GTATGACAGTGAAGCAGATTGAAGACA-CAAG-C
** * * *
15404740 CTTGTATTCCTGCATCGACAGTGAAGCAGATCGAAGGCACAAGC
1 CTTGCCTTCCTGTAT-GACAGTGAAGCAGATTGAAGACACAAGC
15404784 CTTGCCT
1 CTTGCCT
15404791 CCCTCGGTTG
Statistics
Matches: 193, Mismatches: 56, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
42 2 0.01
43 56 0.29
44 78 0.40
45 54 0.28
46 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGTATGACAGTGAAGCAGATTGAAGACACAAGC
Found at i:15404611 original size:88 final size:88
Alignment explanation
Indices: 15404462--15404951 Score: 702
Period size: 88 Copynumber: 5.6 Consensus size: 88
15404452 AACAGATCAG
*
15404462 TGAAGATAGCAGATCTTGCCTTCCTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
15404526 TCCCTCGATTGTAGTGGAGCAGGT
65 TCCCTCGATTGTAGTGGAGCAGGT
* *
15404550 TGAAGATAGCAGATCTTGCCTTCTTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
*
15404614 TCCCTC-AGTTGTAGTGAAGCAGGT
65 TCCCTCGA-TTGTAGTGGAGCAGGT
* * *
15404638 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
15404703 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGATTGTAGTGGAGCAGGT
* ** *
15404726 TAAAGATAGCAGATCTTGTATTCCTGCATCGACAGTGAAGCAGATCGAAGGCACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
15404791 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGATTGTAGTGGAGCAGGT
** * * *
15404814 TGAAGATAGCAGATCTTGCCTTCCTGCATCGAC-GACAAAGTAAATCAAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAG-TGAAGCAGATCGAAGACACAAGCCTTGCC
15404878 TCCCTC-AGTTGTAGTGGAGCAGGT
65 TCCCTCGA-TTGTAGTGGAGCAGGT
* * * *
15404902 TGAAGACAGCAGGTCTTGCCTTCCTACATCGACAGTGAAGCATATCGAAG
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
15404952 CCAATGGTAC
Statistics
Matches: 362, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
87 2 0.01
88 358 0.99
89 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGATTGTAGTGGAGCAGGT
Found at i:15406733 original size:12 final size:12
Alignment explanation
Indices: 15406718--15406748 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15406708 ATGTTTTATC
15406718 TATATATATAAA
1 TATATATATAAA
*
15406730 TATATATATACA
1 TATATATATAAA
15406742 TATATAT
1 TATATAT
15406749 TCAGGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATAAA
Found at i:15414967 original size:52 final size:51
Alignment explanation
Indices: 15414869--15414972 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 51
15414859 TTCTATACAC
* *
15414869 TAGGTTATATTTTTTATTATTATTTAAGATTTCAAATATTAGTTTTTAAATT
1 TAGGTTATATTTTTTATTATTAATTAAGATTT-AAATATTAATTTTTAAATT
15414921 TAGGTTATAATTTTTTA-TATTGAATT-AGATGTT-AATATTATATTTTTAAATT
1 TAGGTTAT-ATTTTTTATTATT-AATTAAGAT-TTAAATATTA-ATTTTTAAATT
15414973 AAATCTTAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
51 7 0.15
52 26 0.57
53 13 0.28
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.57
Consensus pattern (51 bp):
TAGGTTATATTTTTTATTATTAATTAAGATTTAAATATTAATTTTTAAATT
Found at i:15430511 original size:21 final size:21
Alignment explanation
Indices: 15430475--15430517 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15430465 ACTTTTTTAA
**
15430475 AAGTTAAAAGTTAAAAACATT
1 AAGTTAAAAGGCAAAAACATT
*
15430496 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAAACATT
15430517 A
1 A
15430518 TATTGTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAAACATT
Found at i:15441916 original size:175 final size:175
Alignment explanation
Indices: 15441554--15441971 Score: 545
Period size: 175 Copynumber: 2.4 Consensus size: 175
15441544 TATAATAATT
* ** * * * * * *
15441554 GTCAAATTTCAGTTTCGGTCTTTATATTACACTCAAATTTGAGATTTCATATTTATATATAATTT
1 GTCAAATTTTAGTTTTAGTCATTATATTACACTCAAATTTGAAATTTTATCTCTATATTTAATTT
* *
15441619 TTAACATAATTTGGTACATCGAGTGACACATTCTGCTATTCTCTCTCTCCCTTATAAGATGATGG
66 TTAACATAATTTGGTACATCCAATGACACATTCTGCTATTCTCTCTCT-CC-TATAAGATGATGG
* ** *
15441684 TACAATTTTAATTTTGATCCCTTTATTTTCTTTATTATAAAACTATA
129 TACAATTTCAATTTTGATCCCTTTACGTTCTTTATTATAAAACAATA
* * *
15441731 GTCAAATTTTAGTTTTAGTTATTATACTACATTCAAATTTGAAATTTTATCTCTATATTTAATTT
1 GTCAAATTTTAGTTTTAGTCATTATATTACACTCAAATTTGAAATTTTATCTCTATATTTAATTT
* * *
15441796 TTAACATAATTTGGTACCTCAAACAAT-ACACATTTTTCTATTCTCTCTCT-C-ATAAGATGATG
66 TTAACATAATTTGGTACATC---CAATGACACATTCTGCTATTCTCTCTCTCCTATAAGATGATG
* *
15441858 GTATAATTTCAATTTTGATCCCTTTACGTTCTTTATTATAAAACAATG
128 GTACAATTTCAATTTTGATCCCTTTACGTTCTTTATTATAAAACAATA
* *
15441906 GTCCAATTTTAGTTTTAGTCATTATATTACACTCAAATTTGAAATTTTATCACTATATTTAATTT
1 GTCAAATTTTAGTTTTAGTCATTATATTACACTCAAATTTGAAATTTTATCTCTATATTTAATTT
15441971 T
66 T
15441972 GACCAAATTT
Statistics
Matches: 210, Mismatches: 28, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
175 114 0.54
177 73 0.35
179 21 0.10
180 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (175 bp):
GTCAAATTTTAGTTTTAGTCATTATATTACACTCAAATTTGAAATTTTATCTCTATATTTAATTT
TTAACATAATTTGGTACATCCAATGACACATTCTGCTATTCTCTCTCTCCTATAAGATGATGGTA
CAATTTCAATTTTGATCCCTTTACGTTCTTTATTATAAAACAATA
Found at i:15443398 original size:21 final size:21
Alignment explanation
Indices: 15443373--15443412 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15443363 TAATATATTT
* *
15443373 TAAATGTTATTGTAAATTATA
1 TAAATATTATTATAAATTATA
15443394 TAAATATTATTATAAATTA
1 TAAATATTATTATAAATTA
15443413 ATATCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TAAATATTATTATAAATTATA
Found at i:15447354 original size:32 final size:32
Alignment explanation
Indices: 15447312--15447373 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
15447302 GTGCTCAACT
*
15447312 GTAGGTTCGATATCATACACATCCTTCATCGC
1 GTAGGGTCGATATCATACACATCCTTCATCGC
15447344 GTAGGGTCGATATCATACACATCCTTCATC
1 GTAGGGTCGATATCATACACATCCTTCATC
15447374 CTAGAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (32 bp):
GTAGGGTCGATATCATACACATCCTTCATCGC
Found at i:15449237 original size:29 final size:29
Alignment explanation
Indices: 15449164--15449229 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
15449154 AAAAATTGAG
* *
15449164 GGAATAGGCCAGTTTTTGGTATATTTATC
1 GGAATAGGCTAGTTTTTGGCATATTTATC
*
15449193 GGAATAGGCTAGTTTTTGGCATATTTATT
1 GGAATAGGCTAGTTTTTGGCATATTTATC
15449222 GGAATAGG
1 GGAATAGG
15449230 TTGATTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (29 bp):
GGAATAGGCTAGTTTTTGGCATATTTATC
Found at i:15451745 original size:6 final size:6
Alignment explanation
Indices: 15451735--15451779 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
15451725 TTTATCTTTG
* *
15451735 TCTTCA TCTTCA -CCTCGA TCCTCA TCTTCA TCTTCA TCTTCA TCT
1 TCTTCA TCTTCA TCTTC-A TCTTCA TCTTCA TCTTCA TCTTCA TCT
15451780 CCTTCCTCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 3 0.09
6 28 0.80
7 4 0.11
ACGTcount: A:0.16, C:0.38, G:0.02, T:0.44
Consensus pattern (6 bp):
TCTTCA
Found at i:15452237 original size:23 final size:23
Alignment explanation
Indices: 15452192--15452237 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15452182 GGACTCGATG
*
15452192 ATGAACCCGTCTTAACACTTATT
1 ATGAACCCGTCTTAACACCTATT
**
15452215 ATGAACCCGTCTTCGCACCTATT
1 ATGAACCCGTCTTAACACCTATT
15452238 CCAGACCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (23 bp):
ATGAACCCGTCTTAACACCTATT
Found at i:15454102 original size:16 final size:16
Alignment explanation
Indices: 15454081--15454137 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
15454071 TTTGGTTCGC
*
15454081 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
15454097 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
15454113 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
15454129 TGTAATGGA
1 TGTAATGGA
15454138 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:15454403 original size:18 final size:17
Alignment explanation
Indices: 15454382--15454416 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15454372 TTATTATTAA
*
15454382 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15454400 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15454417 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:15454424 original size:79 final size:79
Alignment explanation
Indices: 15454341--15454584 Score: 220
Period size: 79 Copynumber: 3.1 Consensus size: 79
15454331 TTATTATCAA
15454341 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
15454406 TTTAATAAAATTCT
66 TTTAATAAAATTCT
* * * * **** * * *
15454420 TAATAATTAGCA-TAAAT-TTGTTTTGGTA-AATTATTATT--GT-TATTGTT-ATTTAAAT-TT
1 TAATAAATA--ATTTAATCATATTTAAACATAATTATTATTAAATATATT-TTAATTAAAATATA
* * *
15454477 TAA--TAAGATTAATATCAA
63 TAATTTAATA-AAAT-TC-T
*
15454495 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
15454560 TTTAATAAAATTCT
66 TTTAATAAAATTCT
*
15454574 TAATAATTAAT
1 TAATAAATAAT
15454585 ATTCTTATAT
Statistics
Matches: 119, Mismatches: 30, Indels: 32
0.66 0.17 0.18
Matches are distributed among these distances:
72 4 0.03
73 4 0.03
74 10 0.08
75 24 0.20
76 13 0.11
78 12 0.10
79 34 0.29
80 10 0.08
81 4 0.03
82 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (79 bp):
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCT
Found at i:15454553 original size:16 final size:16
Alignment explanation
Indices: 15454516--15454557 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15454506 TTAATCATAT
*
15454516 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
15454532 TT-AAATATATTATAA
1 TTAAAATATATTATAA
15454547 TTAAAATATAT
1 TTAAAATATAT
15454558 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:15454555 original size:154 final size:156
Alignment explanation
Indices: 15454269--15454582 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
15454259 TAGAATACCC
15454269 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
15454334 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
15454399 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
15454426 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
15454489 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
15454554 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
15454580 TTA
1 TTA
15454583 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 93 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:15454564 original size:14 final size:15
Alignment explanation
Indices: 15454525--15454566 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15454515 TTTAAACATA
*
15454525 ATTATTATTAAATAT
1 ATTATAATTAAATAT
15454540 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
15454554 A-TATAATTTAATA
1 ATTATAATTAAATA
15454567 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:15454643 original size:120 final size:121
Alignment explanation
Indices: 15454514--15454811 Score: 512
Period size: 120 Copynumber: 2.5 Consensus size: 121
15454504 ATTTAATCAT
*
15454514 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
15454579 ATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGA-AA
15454636 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
15454699 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGAAA
* * *
15454755 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
15454812 TAAAATAATT
Statistics
Matches: 169, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 3 0.02
120 161 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGAAA
Found at i:15454684 original size:14 final size:15
Alignment explanation
Indices: 15454635--15454686 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15454625 ATAAAATATA
15454635 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15454650 TATTAAATATATTAT
1 AATTAAATATATTAT
15454665 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
15454678 AATTTAATA
1 AATTAAATA
15454687 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:15454921 original size:101 final size:94
Alignment explanation
Indices: 15454754--15455036 Score: 283
Period size: 93 Copynumber: 3.0 Consensus size: 94
15454744 TATAAAAGAA
* * * * *
15454754 AATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAAAA
1 AATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT-TAA
* * *
15454817 TAATTATAACTAATAAATTATATTTTATGAATTTGTAT
64 TAATTA-AA--AAT---TT-TATTATATGAATTTATAC
* *
15454855 AATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAAT
*
15454919 AA-TAAAAATTTTCTTATATGAATTTATAC
65 AATTAAAAATTTTATTATATGAATTTATAC
* *
15454948 AATTTAAAATAATTAATATTAAATATAA-TTATATAGTGATATATAATTTCATAAAATTCTTAAT
1 AATTTAAAATAATTAATATTAAATATAATTTA-ATAATAATATATAATTTCATAAAATTCTTAAT
* *
15455012 AA-T-AAAATGTTCTTATATGAATTTA
65 AATTAAAAATTTTATTATATGAATTTA
15455037 CTAAAATCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
92 24 0.15
93 69 0.43
94 5 0.03
97 3 0.02
99 2 0.01
100 8 0.05
101 49 0.30
102 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (94 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
ATTAAAAATTTTATTATATGAATTTATAC
Found at i:15454968 original size:93 final size:92
Alignment explanation
Indices: 15454842--15455036 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
15454832 AATTATATTT
* * *
15454842 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATT-TAATAATAATATATAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTAT-ATAATAATATATAATTTCA
* *
15454906 TAAAATTCTTGATAATAAAAATTTTCTTA
65 TAAAATTCTTAATAAT-AAAATGTTCTTA
* *
15454935 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTATATAGTGATATATAATTTCA
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTATATAATAATATATAATTTCA
15454999 TAAAATTCTTAATAATAAAATGTTCTTA
65 TAAAATTCTTAATAATAAAATGTTCTTA
15455027 TATGAATTTA
1 TATGAATTTA
15455037 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:15456831 original size:24 final size:24
Alignment explanation
Indices: 15456804--15456854 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
15456794 TGGGAAAAAC
15456804 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
15456828 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
15456852 ATT
1 ATT
15456855 TAAAACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:15458006 original size:18 final size:18
Alignment explanation
Indices: 15457983--15458025 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15457973 TAATAGGTTT
15457983 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
15458001 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
15458019 TTAATTA
1 TTAATTA
15458026 CACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:15458684 original size:20 final size:20
Alignment explanation
Indices: 15458661--15458699 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15458651 TACTTTTAAT
15458661 TAAT-TTTTATAATTAATAAA
1 TAATCTTTT-TAATTAATAAA
15458681 TAATCTTTTTAATTAATAA
1 TAATCTTTTTAATTAATAA
15458700 CTCTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATCTTTTTAATTAATAAA
Found at i:15458698 original size:16 final size:17
Alignment explanation
Indices: 15458673--15458706 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15458663 ATTTTTATAA
15458673 TTAATAAATAA-TCTTT
1 TTAATAAATAACTCTTT
*
15458689 TTAATTAATAACTCTTT
1 TTAATAAATAACTCTTT
15458706 T
1 T
15458707 ATTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATAAATAACTCTTT
Found at i:15460906 original size:29 final size:29
Alignment explanation
Indices: 15460873--15460937 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
15460863 GGGTAGATTG
*
15460873 AAAGATTGAAGATTTGAAGTTGGCTGGAT
1 AAAGATTGAAGATTTGAAATTGGCTGGAT
15460902 AAAGATTGAAGATTTGAAATTGGCTGGAT
1 AAAGATTGAAGATTTGAAATTGGCTGGAT
15460931 AAAGATT
1 AAAGATT
15460938 AAATTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGATTTGAAATTGGCTGGAT
Found at i:15461961 original size:19 final size:18
Alignment explanation
Indices: 15461926--15461968 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
15461916 TTTCTTTTAA
15461926 AAAATTATTACAAAATTCT
1 AAAATTATTACAAAATT-T
*
15461945 AAAATTATTA-ATTAATTT
1 AAAATTATTACA-AAATTT
15461963 AAAATT
1 AAAATT
15461969 TAAATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTATTACAAAATTT
Found at i:15464993 original size:5 final size:5
Alignment explanation
Indices: 15464983--15465011 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15464973 GGTAGAATAA
15464983 GTTTG GTTTG GTTTG GTTTG GTTTG GTTT
1 GTTTG GTTTG GTTTG GTTTG GTTTG GTTT
15465012 ATGTGCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (5 bp):
GTTTG
Found at i:15472402 original size:13 final size:14
Alignment explanation
Indices: 15472372--15472405 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15472362 GTGCGTCTGC
15472372 TTCTTTCCTTCTTT
1 TTCTTTCCTTCTTT
*
15472386 TTCTTTCGTTC-TT
1 TTCTTTCCTTCTTT
15472399 TTCTTTC
1 TTCTTTC
15472406 TAATTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (14 bp):
TTCTTTCCTTCTTT
Found at i:15473149 original size:30 final size:30
Alignment explanation
Indices: 15473114--15473170 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
15473104 GGGATGGGAG
* *
15473114 GGGAGTAAAAGTTTTAGGGGGAAAGTAGGA
1 GGGAGTAAAAGTATTAGGAGGAAAGTAGGA
15473144 GGGAGTAAAAGTATTAGGAGGAAAGTA
1 GGGAGTAAAAGTATTAGGAGGAAAGTA
15473171 AAAAGGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.19
Consensus pattern (30 bp):
GGGAGTAAAAGTATTAGGAGGAAAGTAGGA
Found at i:15473602 original size:71 final size:71
Alignment explanation
Indices: 15473482--15473617 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
15473472 TTTGTATGTG
* * *
15473482 TATTTGAAATAATTATTTAATTTTATAATATTAAAGTTTACTATATCCACAGTGCAGGTGAAAAA
1 TATTTGAAATAATTAGTTAATTTTATAATATTAAAATTTACTATATCCACAATGCAGGTGAAAAA
15473547 TAATGA
66 TAATGA
* * *
15473553 TATTTGAAATAATTAGTTGATTTTATAATATTAAAATTTA-TCATCTCCACAATGTAGGTGAAAA
1 TATTTGAAATAATTAGTTAATTTTATAATATTAAAATTTACT-ATATCCACAATGCAGGTGAAAA
15473617 A
65 A
15473618 AAAATATTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 57 0.98
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (71 bp):
TATTTGAAATAATTAGTTAATTTTATAATATTAAAATTTACTATATCCACAATGCAGGTGAAAAA
TAATGA
Found at i:15473918 original size:10 final size:10
Alignment explanation
Indices: 15473899--15473927 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15473889 TGTCTTTCGC
15473899 AAAA-AAAAA
1 AAAAGAAAAA
15473908 AAAAGAAAAA
1 AAAAGAAAAA
15473918 AAAAGAAAAA
1 AAAAGAAAAA
15473928 GGAAATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:15473921 original size:17 final size:17
Alignment explanation
Indices: 15473899--15473932 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15473889 TGTCTTTCGC
15473899 AAAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAGAAA
* *
15473916 AAAAAAGAAAAAGGAAA
1 AAAAAAAAAAAAAGAAA
15473933 TTGTAATAAG
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAA
Found at i:15475373 original size:30 final size:31
Alignment explanation
Indices: 15475331--15475402 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
15475321 TGGCGGAACT
15475331 TTAAA-AAGAAAAACTTAACA-A-TTCAATGAC
1 TTAAATAA-AAAAACTTAA-ATAGTTCAATGAC
* *
15475361 TTAAATAAAAAAATTTAAATAGTTCGATGAC
1 TTAAATAAAAAAACTTAAATAGTTCAATGAC
*
15475392 TTAAATGAAAA
1 TTAAATAAAAA
15475403 TTTTCGAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.03
30 15 0.42
31 20 0.56
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (31 bp):
TTAAATAAAAAAACTTAAATAGTTCAATGAC
Found at i:15479033 original size:32 final size:32
Alignment explanation
Indices: 15478997--15479057 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
15478987 ACTTAAAAGC
*
15478997 AAAAAAAGTTAAATAAGGGCTTCAAAAATTTT
1 AAAAAAAGTTAAACAAGGGCTTCAAAAATTTT
* * *
15479029 AAAAAAAGTTGAACATGGGCTTTAAAAAT
1 AAAAAAAGTTAAACAAGGGCTTCAAAAAT
15479058 AAATACTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (32 bp):
AAAAAAAGTTAAACAAGGGCTTCAAAAATTTT
Found at i:15479133 original size:29 final size:28
Alignment explanation
Indices: 15479108--15479275 Score: 147
Period size: 29 Copynumber: 5.7 Consensus size: 28
15479098 TAAAAAAAGT
*
15479108 AGTGAAATAAGGACTTAAAAGCAAAAATA
1 AGTGAAATAAGGGCTTAAAAGCAAAAA-A
* * ***
15479137 AGTTAAATTAGGGCTTTAAAAATTAAAAA
1 AGTGAAATAAGGGC-TTAAAAGCAAAAAA
*
15479166 AGTGAAATAAGGACTTAAAAGCAAAAAA
1 AGTGAAATAAGGGCTTAAAAGCAAAAAA
* **
15479194 AGGTTAAATAAGGGCTTCAAAAATAAAAAA
1 A-GTGAAATAAGGGCTT-AAAAGCAAAAAA
* *
15479224 ATTGAAATAAGGGCTTAAAAGAAAAAAAATA
1 AGTGAAATAAGGGCTTAAAAG--CAAAAA-A
*
15479255 AGTGAAACAAGGGCTTCAAAA
1 AGTGAAATAAGGGCTT-AAAA
15479276 ATAAATGAAA
Statistics
Matches: 110, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.15
29 49 0.45
30 26 0.24
31 15 0.14
32 4 0.04
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (28 bp):
AGTGAAATAAGGGCTTAAAAGCAAAAAA
Found at i:15479134 original size:58 final size:57
Alignment explanation
Indices: 15479062--15479252 Score: 164
Period size: 58 Copynumber: 3.3 Consensus size: 57
15479052 AAAAATAAAT
*
15479062 ACTTAAAA-CTAAAAAAAAAGTT-AA-T-GCATTAAAAGTTAAAAAAAGTAGTGAAATAAGG
1 ACTTAAAAGC-AAAAAAAAAGTTAAATTGGCATTAAAAATT--AAAAA--AGTGAAATAAGG
* *
15479120 ACTTAAAAGC-AAAAATAAGTTAAATTAGGGCTTTAAAAATTAAAAAAGTGAAATAAGG
1 ACTTAAAAGCAAAAAAAAAGTTAAATT--GGCATTAAAAATTAAAAAAGTGAAATAAGG
* * * *
15479178 ACTTAAAAGC-AAAAAAAGGTTAAATAAGGGC-TTCAAAAATAAAAAAATTGAAATAAGG
1 ACTTAAAAGCAAAAAAAAAGTTAAAT--TGGCATT-AAAAATTAAAAAAGTGAAATAAGG
*
15479236 GCTTAAAAG-AAAAAAAA
1 ACTTAAAAGCAAAAAAAA
15479253 TAAGTGAAAC
Statistics
Matches: 114, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
57 12 0.11
58 85 0.75
59 2 0.02
60 5 0.04
62 10 0.09
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (57 bp):
ACTTAAAAGCAAAAAAAAAGTTAAATTGGCATTAAAAATTAAAAAAGTGAAATAAGG
Found at i:15480884 original size:33 final size:33
Alignment explanation
Indices: 15480842--15480907 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
15480832 AACAGTTGGC
15480842 TATCAAAGGAGGTATATCATGTTTTTAAATCCA
1 TATCAAAGGAGGTATATCATGTTTTTAAATCCA
*
15480875 TATCAAAGGAGGTATCTCATGTTTTTAAATCCA
1 TATCAAAGGAGGTATATCATGTTTTTAAATCCA
15480908 AACTCTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (33 bp):
TATCAAAGGAGGTATATCATGTTTTTAAATCCA
Found at i:15483531 original size:19 final size:19
Alignment explanation
Indices: 15483504--15483542 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15483494 GATCCCCAAA
*
15483504 CAAATTGGCACACCATGCT
1 CAAACTGGCACACCATGCT
15483523 CAAACTGGCACACCATGCT
1 CAAACTGGCACACCATGCT
15483542 C
1 C
15483543 TAAATTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.36, G:0.15, T:0.18
Consensus pattern (19 bp):
CAAACTGGCACACCATGCT
Found at i:15492618 original size:92 final size:91
Alignment explanation
Indices: 15492461--15492669 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
15492451 TTGATTTTAG
* * *
15492461 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
15492526 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
15492553 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
15492617 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
15492645 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15492670 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:15492632 original size:24 final size:25
Alignment explanation
Indices: 15492597--15492644 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15492587 TTATGAAATT
15492597 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
15492621 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
15492645 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:15492809 original size:66 final size:62
Alignment explanation
Indices: 15492723--15492935 Score: 174
Period size: 66 Copynumber: 3.4 Consensus size: 62
15492713 AAATATATTT
*
15492723 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TT-AAAATTT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
15492788 G
62 G
* * * * **
15492789 AATATTAATTATTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTTTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
15492843 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TAAAATT-T-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
15492908 G
62 G
*
15492909 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAA-AATTTTTTTAA
15492936 ATTATATATT
Statistics
Matches: 112, Mismatches: 20, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.12
55 7 0.06
56 5 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 4 0.04
64 11 0.10
65 13 0.12
66 25 0.22
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTAAAATTTTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:15492823 original size:120 final size:120
Alignment explanation
Indices: 15492685--15492977 Score: 509
Period size: 120 Copynumber: 2.4 Consensus size: 120
15492675 AATTATTTTA
* * * *
15492685 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
15492748 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15492805 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
15492870 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15492925 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
15492978 TAAATATGAT
Statistics
Matches: 166, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
119 5 0.03
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15492845 original size:15 final size:15
Alignment explanation
Indices: 15492810--15492861 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15492800 TTAAGAATTT
*
15492810 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15492824 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15492838 TATTTAATAATAAT-
1 TATTTAATTATAATA
15492852 TATGTTAATT
1 TAT-TTAATT
15492862 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15492960 original size:16 final size:16
Alignment explanation
Indices: 15492939--15492980 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15492929 TTATTAAATT
*
15492939 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15492955 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15492970 AT-TATGTTTAA
1 ATATAT-TTTAA
15492981 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15492965 original size:15 final size:15
Alignment explanation
Indices: 15492930--15492971 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15492920 TTAAGAATTT
*
15492930 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15492944 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15492958 TATTTAATAATAAT
1 TATTTAATTATAAT
15492972 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15493092 original size:157 final size:157
Alignment explanation
Indices: 15492914--15493230 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
15492904 ATAAGAATAT
*
15492914 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
15492979 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15493044 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
15493071 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
15493136 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15493201 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
15493228 TAA
1 TAA
15493231 GGGTATTCTA
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:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:15493111 original size:18 final size:17
Alignment explanation
Indices: 15493083--15493117 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15493073 ATTATTAAGA
*
15493083 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15493100 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15493118 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15493151 original size:75 final size:75
Alignment explanation
Indices: 15492915--15493153 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
15492905 TAAGAATATT
*
15492915 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
15492980 AATATGATTA
66 AATATGATTA
* ** * * * * *
15492990 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
15493052 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
15493072 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
15493137 AATATGATTA
66 AATATGATTA
15493147 AATTATT
1 AATTATT
15493154 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:15497066 original size:2 final size:2
Alignment explanation
Indices: 15497059--15497085 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15497049 TTTGTAATCT
15497059 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15497086 TAAAATCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15497178 original size:16 final size:16
Alignment explanation
Indices: 15497141--15497179 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15497131 GTAATGCATG
15497141 TTTTATGTAATTAATT
1 TTTTATGTAATTAATT
15497157 TATTTA-GTAATTAAGTT
1 T-TTTATGTAATTAA-TT
15497174 TTTTAT
1 TTTTAT
15497180 TAAAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTATGTAATTAATT
Found at i:15498547 original size:20 final size:20
Alignment explanation
Indices: 15498522--15498561 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15498512 AATATTTTCT
*
15498522 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
15498542 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
15498562 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:15498564 original size:34 final size:35
Alignment explanation
Indices: 15498510--15498576 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
15498500 CAAACACCAG
* *
15498510 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
15498545 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
15498577 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:15514030 original size:34 final size:33
Alignment explanation
Indices: 15513981--15514064 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 33
15513971 TAAAAAAATT
*
15513981 TTAAATTAGGTTTTAGGGGTTTTAA-ATAAATAAA
1 TTAAATTAGG-TTTAGAGGTTTTAAGA-AAATAAA
* *
15514015 TTAAATTAGAGTTTAGAGTTTTTAAGAAAATTAA
1 TTAAATTAG-GTTTAGAGGTTTTAAGAAAATAAA
15514049 TTAAATTAGGGTTTAG
1 TTAAATTA-GGTTTAG
15514065 TTTTAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (33 bp):
TTAAATTAGGTTTAGAGGTTTTAAGAAAATAAA
Found at i:15514291 original size:126 final size:125
Alignment explanation
Indices: 15514152--15514525 Score: 543
Period size: 126 Copynumber: 3.0 Consensus size: 125
15514142 TTGTTTTAGG
* * *
15514152 AAAATTAATTTTGAGAAGACGGTTCTGAA-AAGATAATGTGAAAAACGCTTCAAGCAGGATGCAC
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * *
15514216 TGTCAGCAAAATTACTGAAAAGAGCTCCCACGTGGATGCTCTTTTTCTACCGTAGTTCCTAA
65 TGTCAGCAAAATTA-TGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTAA
* * * *
15514278 AAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * * * *
15514343 GTCAGCAAAACTGATGAAAAAAGCTCCCATGTGGACGCTCTTTTTTTATAGTAGTTACTGA
66 GTCAGCAAAA-TTATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTAA
* *
15514404 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGTACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
15514469 GTCAGCAAAATTAATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 GTCAGCAAAATT-ATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
15514526 TTGTTTGACC
Statistics
Matches: 218, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
125 1 0.00
126 213 0.98
127 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (125 bp):
AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
GTCAGCAAAATTATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTAA
Found at i:15518072 original size:18 final size:18
Alignment explanation
Indices: 15518051--15518087 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15518041 AAGGAAACAT
*
15518051 ATAAGGGTTAGGATACAC
1 ATAAGGGATAGGATACAC
15518069 ATAAGGGATAGGATACAC
1 ATAAGGGATAGGATACAC
15518087 A
1 A
15518088 CCTGGCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (18 bp):
ATAAGGGATAGGATACAC
Found at i:15519404 original size:11 final size:11
Alignment explanation
Indices: 15519386--15519417 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15519376 GAAAAAAACA
15519386 CGGCAAAACGT
1 CGGCAAAACGT
*
15519397 CGGTAAAACGT
1 CGGCAAAACGT
15519408 CGGCAAAACG
1 CGGCAAAACG
15519418 CTTCCATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (11 bp):
CGGCAAAACGT
Found at i:15520383 original size:14 final size:14
Alignment explanation
Indices: 15520347--15520380 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
15520337 TCATCATTTG
15520347 CCTATAACCAAAAC
1 CCTATAACCAAAAC
15520361 CCTATAACCAAAAC
1 CCTATAACCAAAAC
15520375 CC-ATAA
1 CCTATAA
15520381 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:15521769 original size:11 final size:11
Alignment explanation
Indices: 15521751--15521782 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15521741 GAAAAAAACA
15521751 CGGCAAAACGT
1 CGGCAAAACGT
*
15521762 CGGTAAAACGT
1 CGGCAAAACGT
15521773 CGGCAAAACG
1 CGGCAAAACG
15521783 CTTCCATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (11 bp):
CGGCAAAACGT
Found at i:15522748 original size:14 final size:14
Alignment explanation
Indices: 15522712--15522745 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
15522702 TCATCATTTG
15522712 CCTATAACCAAAAC
1 CCTATAACCAAAAC
15522726 CCTATAACCAAAAC
1 CCTATAACCAAAAC
15522740 CC-ATAA
1 CCTATAA
15522746 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:15525561 original size:18 final size:17
Alignment explanation
Indices: 15525540--15525588 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
15525530 ATTTAAAAAA
15525540 TATAAATTTTTTAATTT
1 TATAAATTTTTTAATTT
*
15525557 CTATAAATATTTTGAATTT
1 -TATAAAT-TTTTTAATTT
*
15525576 TAAAAATTATTTT
1 TATAAATT-TTTT
15525589 GAAACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 16 0.62
19 9 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
TATAAATTTTTTAATTT
Found at i:15525574 original size:19 final size:18
Alignment explanation
Indices: 15525540--15525591 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
15525530 ATTTAAAAAA
*
15525540 TATAAAT-TTTTTAATTT
1 TATAAATATTTTGAATTT
15525557 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
15525576 TAAAAATTATTTTGAA
1 TATAAA-TATTTTGAA
15525592 ACTTTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:15528066 original size:8 final size:7
Alignment explanation
Indices: 15528050--15528123 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
15528040 TAAAATTCTG
15528050 AAATTGA
1 AAATTGA
*
15528057 AAATTGG
1 AAATTGA
*
15528064 AAAGTGA
1 AAATTGA
15528071 AAATT-A
1 AAATTGA
15528077 AAATT-A
1 AAATTGA
15528083 AAATTTGA
1 AAA-TTGA
*
15528091 AGATTGA
1 AAATTGA
*
15528098 AGATTGA
1 AAATTGA
15528105 AAATAT-A
1 AAAT-TGA
15528112 AAATTAGA
1 AAATT-GA
15528120 AAAT
1 AAAT
15528124 GGGGATTGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
6 11 0.20
7 36 0.64
8 9 0.16
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (7 bp):
AAATTGA
Found at i:15528115 original size:41 final size:41
Alignment explanation
Indices: 15528038--15528117 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
15528028 ATAATTGAAG
*
15528038 ATTAAAATTCTGAAATTGAAAATTGGAAAGTGAAAATTAAA
1 ATTAAAATTCTGAAATTGAAAATTGGAAAATGAAAATTAAA
* *
15528079 ATTAAAATT-TGAAGATTGAAGATT-GAAAATATAAAATTA
1 ATTAAAATTCTGAA-ATTGAAAATTGGAAAAT-GAAAATTA
15528118 GAAAATGGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 9 0.26
41 25 0.74
ACGTcount: A:0.54, C:0.01, G:0.14, T:0.31
Consensus pattern (41 bp):
ATTAAAATTCTGAAATTGAAAATTGGAAAATGAAAATTAAA
Found at i:15528275 original size:15 final size:15
Alignment explanation
Indices: 15528255--15528289 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15528245 CCCTAGTAGT
*
15528255 CGTTGGAAAAGTTAC
1 CGTTGGAAAAGTGAC
*
15528270 CGTTGGAATAGTGAC
1 CGTTGGAAAAGTGAC
15528285 CGTTG
1 CGTTG
15528290 AAAGGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (15 bp):
CGTTGGAAAAGTGAC
Found at i:15530579 original size:21 final size:21
Alignment explanation
Indices: 15530545--15530585 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15530535 CATATTTGAA
* *
15530545 CAACTAGAGGTAATGCTAGAT
1 CAACTAGAGCTAATGATAGAT
*
15530566 CAACTAGCGCTAATGATAGA
1 CAACTAGAGCTAATGATAGA
15530586 GTTACTCCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
CAACTAGAGCTAATGATAGAT
Found at i:15536432 original size:27 final size:27
Alignment explanation
Indices: 15536400--15536451 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15536390 ACAAGTGAGG
15536400 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* ** *
15536427 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
15536452 AAAGGAAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:15549030 original size:16 final size:16
Alignment explanation
Indices: 15549011--15549042 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15549001 GAAATTTCAA
*
15549011 ATATATACATACATAG
1 ATATATAAATACATAG
15549027 ATATATAAATACATAG
1 ATATATAAATACATAG
15549043 CAGTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
ATATATAAATACATAG
Found at i:15555922 original size:39 final size:38
Alignment explanation
Indices: 15555840--15555922 Score: 87
Period size: 38 Copynumber: 2.1 Consensus size: 38
15555830 GGTTTTTTAT
* * *
15555840 TTTATTTTTTAGTTTCCATTATTCAATATATTTGGTTTT
1 TTTA-TTTTTAGTTTACATTATTCAATATATTTGGTCTC
* *
15555879 TTTATTTTTATTTTACATTATTCAAATATGATTTTG-CTC
1 TTTATTTTTAGTTTACATTATTC-AATAT-ATTTGGTCTC
15555918 TTTAT
1 TTTAT
15555923 CTTATTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
38 17 0.46
39 15 0.41
40 5 0.14
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.63
Consensus pattern (38 bp):
TTTATTTTTAGTTTACATTATTCAATATATTTGGTCTC
Found at i:15559951 original size:108 final size:108
Alignment explanation
Indices: 15559762--15559978 Score: 380
Period size: 108 Copynumber: 2.0 Consensus size: 108
15559752 AATATAACTT
* *
15559762 ATTTTAAATACGGAATGACATTTTCGTAGTTTTTCTAAGTAGGGATGACAATGGAGCGGGACGAG
1 ATTTTAAATACGGAATGACATTTTCATAGTTTTTCTAAGTAGGGATGACAATGGAACGGGACGAG
**
15559827 GTGGGGTGAATATTGCTAAATCCATCACCGTTCCATAGTCGGC
66 GTGGGGTGAATATTGCTAAATCCATCACCACTCCATAGTCGGC
**
15559870 ATTTTAAATACGGAATGACATTTTCATAGTTTTTCTAAGTAGGGATGGGAATGGAACGGGACGAG
1 ATTTTAAATACGGAATGACATTTTCATAGTTTTTCTAAGTAGGGATGACAATGGAACGGGACGAG
15559935 GTGGGGTGAATATTGCTAAATCCATCACCACTCCATAGTCGGC
66 GTGGGGTGAATATTGCTAAATCCATCACCACTCCATAGTCGGC
15559978 A
1 A
15559979 CGCTTTACTC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (108 bp):
ATTTTAAATACGGAATGACATTTTCATAGTTTTTCTAAGTAGGGATGACAATGGAACGGGACGAG
GTGGGGTGAATATTGCTAAATCCATCACCACTCCATAGTCGGC
Found at i:15561275 original size:27 final size:27
Alignment explanation
Indices: 15561245--15561299 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15561235 GGTGTTGTTA
15561245 TCAATACTAAGTTGATGTCGAGTTAAT
1 TCAATACTAAGTTGATGTCGAGTTAAT
15561272 TCAATACTAAGTTGATGTCGAGTTAAT
1 TCAATACTAAGTTGATGTCGAGTTAAT
15561299 T
1 T
15561300 TGTGGCACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
TCAATACTAAGTTGATGTCGAGTTAAT
Found at i:15562666 original size:12 final size:12
Alignment explanation
Indices: 15562649--15562673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15562639 GGTGTTCATT
15562649 CGGTTAACCGAC
1 CGGTTAACCGAC
15562661 CGGTTAACCGAC
1 CGGTTAACCGAC
15562673 C
1 C
15562674 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:15562848 original size:9 final size:9
Alignment explanation
Indices: 15562834--15562903 Score: 95
Period size: 9 Copynumber: 7.8 Consensus size: 9
15562824 TTTGGTTAAA
15562834 AATTACCCG
1 AATTACCCG
*
15562843 AATTACCTG
1 AATTACCCG
15562852 AATTACCCG
1 AATTACCCG
15562861 AATTACCCG
1 AATTACCCG
*
15562870 AATTAACCG
1 AATTACCCG
* *
15562879 AATTAACTG
1 AATTACCCG
*
15562888 AATTAACCG
1 AATTACCCG
15562897 AATTACC
1 AATTACC
15562904 GAAAAATACC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:15563391 original size:56 final size:56
Alignment explanation
Indices: 15563303--15563481 Score: 225
Period size: 56 Copynumber: 3.2 Consensus size: 56
15563293 ATCCGTAAGG
*
15563303 ACTATCTTATATGTAGAAGTCTGCCAAGACTATCTTATATGTGAAAGTTCATCAGA
1 ACTATCTTATATGTAGAAGTCTGTCAAGACTATCTTATATGTGAAAGTTCATCAGA
* * * * * *
15563359 ACTATCTTATATGT-GAAAGTTTGTCAAAACTATCTTATATGTGGAAGTCCATTAAA
1 ACTATCTTATATGTAG-AAGTCTGTCAAGACTATCTTATATGTGAAAGTTCATCAGA
** **
15563415 ACTATCTTATATGTAGAAGTCCATCAAGACTATCTTATATGTGAAAGTTTTTCAGA
1 ACTATCTTATATGTAGAAGTCTGTCAAGACTATCTTATATGTGAAAGTTCATCAGA
* *
15563471 AATATATTATA
1 ACTATCTTATA
15563482 AGTGGAAATT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
55 1 0.01
56 100 0.98
57 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (56 bp):
ACTATCTTATATGTAGAAGTCTGTCAAGACTATCTTATATGTGAAAGTTCATCAGA
Found at i:15563447 original size:84 final size:85
Alignment explanation
Indices: 15563303--15563488 Score: 236
Period size: 84 Copynumber: 2.2 Consensus size: 85
15563293 ATCCGTAAGG
* ** * *
15563303 ACTATCTTATATGTAGAAGTCTGCCAAGACTATCTTATATGTGAAAGTTCATCAGAACTATCTTA
1 ACTATCTTATATGTGGAAGTCCACCAAAACTATCTTATATGTGAAAGTCCATCAGAACTATCTTA
15563368 TATGTGAAAGTTTGTCA-AA
66 TATGTGAAAGTTTGTCAGAA
**
15563387 ACTATCTTATATGTGGAAGTCCATTAAAACTATCTTATATGT-AGAAGTCCATCA-AGACTATCT
1 ACTATCTTATATGTGGAAGTCCACCAAAACTATCTTATATGTGA-AAGTCCATCAGA-ACTATCT
*
15563450 TATATGTGAAAGTTTTTCAGAA
64 TATATGTGAAAGTTTGTCAGAA
* *
15563472 A-TATATTATAAGTGGAA
1 ACTATCTTATATGTGGAA
15563489 ATTTGTCAAG
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
83 2 0.02
84 84 0.94
85 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (85 bp):
ACTATCTTATATGTGGAAGTCCACCAAAACTATCTTATATGTGAAAGTCCATCAGAACTATCTTA
TATGTGAAAGTTTGTCAGAA
Found at i:15563462 original size:28 final size:28
Alignment explanation
Indices: 15563302--15563462 Score: 175
Period size: 28 Copynumber: 5.8 Consensus size: 28
15563292 TATCCGTAAG
***
15563302 GACTATCTTATATGT-AGAAGTCTGCCAA
1 GACTATCTTATATGTGA-AAGTCCATCAA
*
15563330 GACTATCTTATATGTGAAAGTTCATC-A
1 GACTATCTTATATGTGAAAGTCCATCAA
***
15563357 GAACTATCTTATATGTGAAAGTTTGTCAA
1 G-ACTATCTTATATGTGAAAGTCCATCAA
* * *
15563386 AACTATCTTATATGTGGAAGTCCATTAA
1 GACTATCTTATATGTGAAAGTCCATCAA
*
15563414 AACTATCTTATATGT-AGAAGTCCATCAA
1 GACTATCTTATATGTGA-AAGTCCATCAA
15563442 GACTATCTTATATGTGAAAGT
1 GACTATCTTATATGTGAAAGT
15563463 TTTTCAGAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.02
28 108 0.96
29 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (28 bp):
GACTATCTTATATGTGAAAGTCCATCAA
Found at i:15563480 original size:28 final size:27
Alignment explanation
Indices: 15563333--15563481 Score: 138
Period size: 28 Copynumber: 5.3 Consensus size: 27
15563323 CTGCCAAGAC
*
15563333 TATCTTATATGTGAAAGTTCATCAGAAC
1 TATCTTATATGTGAAAGTTCATCA-AAA
**
15563361 TATCTTATATGTGAAAGTTTGTCAAAA
1 TATCTTATATGTGAAAGTTCATCAAAA
* * *
15563388 CTATCTTATATGTGGAAGTCCATTAAAA
1 -TATCTTATATGTGAAAGTTCATCAAAA
* *
15563416 CTATCTTATATGT-AGAAGTCCATCAAGAC
1 -TATCTTATATGTGA-AAGTTCATCAA-AA
**
15563445 TATCTTATATGTGAAAGTTTTTCAGAAA
1 TATCTTATATGTGAAAGTTCATCA-AAA
*
15563473 TATATTATA
1 TATCTTATA
15563482 AGTGGAAATT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.02
28 95 0.95
29 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (27 bp):
TATCTTATATGTGAAAGTTCATCAAAA
Found at i:15563498 original size:56 final size:55
Alignment explanation
Indices: 15563305--15563503 Score: 179
Period size: 56 Copynumber: 3.5 Consensus size: 55
15563295 CCGTAAGGAC
* * * *
15563305 TATCTTATATGTAGAAGTCTGCCAAGACTATCTTATATGTGAAAGTTCA-TCAGAAC
1 TATCTTATATGT-GAAATTTGTCAAGACTATCTTATATGTGAAAGTT-ATTCAGAAA
* * *
15563361 TATCTTATATGTGAAAGTTTGTCAAAACTATCTTATATGTGGAAGTCCATT-A-AAA
1 TATCTTATATGTGAAA-TTTGTCAAGACTATCTTATATGTGAAAGT-TATTCAGAAA
* *** *
15563416 CTATCTTATATGTAGAAGTCCATCAAGACTATCTTATATGTGAAAGTTTTTCAGAAA
1 -TATCTTATATGT-GAAATTTGTCAAGACTATCTTATATGTGAAAGTTATTCAGAAA
* * *
15563473 TATATTATAAGTGGAAATTTGTCAAGGCTAT
1 TATCTTATATGT-GAAATTTGTCAAGACTAT
15563504 TTTACAAATA
Statistics
Matches: 113, Mismatches: 23, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
55 7 0.06
56 99 0.88
57 7 0.06
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (55 bp):
TATCTTATATGTGAAATTTGTCAAGACTATCTTATATGTGAAAGTTATTCAGAAA
Found at i:15575311 original size:36 final size:37
Alignment explanation
Indices: 15575182--15575600 Score: 420
Period size: 36 Copynumber: 11.4 Consensus size: 37
15575172 AAAAAAACTT
* * *
15575182 ATTCAGTATAATCATTAGATAATGCTCGTTTGAGCAAGC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-A-C
* * *
15575221 ATTCAGTATAATCAGTGGATATTGCTCATTTGAGCAAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-AC
*
15575259 TATTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
1 -ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* *
15575297 -TTCAGTAGAATCAGTAGACATTGCTCATTTGAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * * * *
15575333 ATTCAATAGGATCGGTAGATATTGCTTG-TTGAACAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * * *
15575369 TTTTAGTAGAATTAGTAGATATTGCTCATTTGAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* *
15575406 TTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * *
15575443 ATTCAGTAGGATCAGTAAATATTGCTCG-CTGAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* *
15575479 ATTTAGTA-AGATCAATAGATATTGCTCG-TTGAGCAC
1 ATTCAGTAGA-ATCAGTAGATATTGCTCGTTTGAGCAC
* ** * *
15575515 TTTTTGTAAAATCAGTAGATATTGCTCGTTTAAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * * * *
15575552 TTTTAGTAGAATCAGTAGATATTGGTC-ATTGAGTAC
1 ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
*
15575588 -TTTAGTAGAATCA
1 ATTCAGTAGAATCA
15575601 ATATTCCATT
Statistics
Matches: 323, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
35 13 0.04
36 126 0.39
37 117 0.36
38 3 0.01
39 64 0.20
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (37 bp):
ATTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
Found at i:15575386 original size:73 final size:74
Alignment explanation
Indices: 15575186--15575600 Score: 441
Period size: 73 Copynumber: 5.6 Consensus size: 74
15575176 AAACTTATTC
* * * * * *
15575186 AGTATAATCATTAGATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAGTGGATATTGCTCATT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGC-A-CTTTCAGTAGAATCAGTAGATATTGCTCATT
15575251 TGAGCAACTATTT
64 TGAGC-AC-ATTT
*
15575264 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCATTTG
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCATTTG
*
15575328 AGCACATTC
66 AGCACATTT
* * * * * * *
15575337 AATAGGATCGGTAGATATTGCTTG-TTGAACACTTTTAGTAGAATTAGTAGATATTGCTCATTTG
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCATTTG
15575401 AGCAC-TTT
66 AGCACATTT
* * * * **
15575409 CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGGATCAGTAAATATTGCTC-GCT
1 -AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCATTT
15575473 GAGCACATTT
65 GAGCACATTT
* ** * *
15575483 AGTA-AGATCAATAGATATTGCTCG-TTGAGCACTTTTTGTAAAATCAGTAGATATTGCTCGTTT
1 AGTAGA-ATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCATTT
* *
15575546 AAGCACTTTT
65 GAGCACATTT
* * *
15575556 AGTAGAATCAGTAGATATTGGTC-ATTGAGTACTTT-AGTAGAATCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCA
15575601 ATATTCCATT
Statistics
Matches: 283, Mismatches: 46, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
72 47 0.17
73 140 0.49
74 35 0.12
75 31 0.11
76 1 0.00
77 1 0.00
78 28 0.10
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (74 bp):
AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCATTTG
AGCACATTT
Found at i:15575504 original size:146 final size:146
Alignment explanation
Indices: 15575225--15575600 Score: 486
Period size: 146 Copynumber: 2.6 Consensus size: 146
15575215 GCAAGCATTC
* *
15575225 AGTATAATCAGTGGATATTGCTCATTTGAGCAACTATTTAGTAGAATCAGTAGATATTGCTCGTT
1 AGTAAAATCAGTAGATATTGCTCATTTGAGC-ACT-TTTAGTAGAATCAGTAGATATTGCTCGTT
* ** * **
15575290 TGAGCACTTCAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAATAGGATCGGTAGATAT
64 TGAGCACTTCAGTAGAATCAGTAAACATTGCTCAGCTGAGCACATTCAATAAGATCAATAGATAT
*
15575355 TGCTTGTTGAACACTTTT
129 TGCTCGTTGAACACTTTT
* * * *
15575373 AGTAGAATTAGTAGATATTGCTCATTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCGTTTG
1 AGTAAAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTG
* * * *
15575438 AGCACATTCAGTAGGATCAGTAAATATTGCTC-GCTGAGCACATTTAGTAAGATCAATAGATATT
66 AGCAC-TTCAGTAGAATCAGTAAACATTGCTCAGCTGAGCACATTCAATAAGATCAATAGATATT
*
15575502 GCTCGTTGAGCACTTTT
130 GCTCGTTGAACACTTTT
* * * * *
15575519 TGTAAAATCAGTAGATATTGCTCGTTTAAGCACTTTTAGTAGAATCAGTAGATATTGGTC-ATTG
1 AGTAAAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTG
* *
15575583 AGTACTTTAGTAGAATCA
66 AGCACTTCAGTAGAATCA
15575601 ATATTCCATT
Statistics
Matches: 198, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
144 11 0.06
145 7 0.04
146 126 0.64
147 26 0.13
148 28 0.14
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (146 bp):
AGTAAAATCAGTAGATATTGCTCATTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTG
AGCACTTCAGTAGAATCAGTAAACATTGCTCAGCTGAGCACATTCAATAAGATCAATAGATATTG
CTCGTTGAACACTTTT
Found at i:15577885 original size:188 final size:188
Alignment explanation
Indices: 15577568--15577927 Score: 684
Period size: 188 Copynumber: 1.9 Consensus size: 188
15577558 AAAAGACCTT
15577568 TTCAAGCTGATGATAAGTGGCACTGCAAGAATATTTTCATTGCGAGAAGAATAACTTACTTTAGC
1 TTCAAGCTGATGATAAGTGGCACTGCAAGAATATTTTCATTGCGAGAAGAATAACTTACTTTAGC
* *
15577633 AAATAATCTAAATGAGTTCGTAATCCTGTAAAAGAATCAAAGTGAACATTTGATTCAAATATATA
66 AAATAATCTAAATGAGTTCGTAACCCTGTAAAAGAATCAAAGTGAACATCTGATTCAAATATATA
15577698 GAAGGATTATTATGTCGTCTACAATTTCAATTAGGAAGATGAACATTGTTTGTCTAAG
131 GAAGGATTATTATGTCGTCTACAATTTCAATTAGGAAGATGAACATTGTTTGTCTAAG
15577756 TTCAAGCTGATGATAAGTGGCACTGCAAGAATATTTTCATTGCGAGAAGAATAACTTACTTTAGC
1 TTCAAGCTGATGATAAGTGGCACTGCAAGAATATTTTCATTGCGAGAAGAATAACTTACTTTAGC
15577821 AAATAATCTAAATGAGTTCGTAACCCTGTAAAAGAATCAAAGTGAACATCTGATTCAAATATATA
66 AAATAATCTAAATGAGTTCGTAACCCTGTAAAAGAATCAAAGTGAACATCTGATTCAAATATATA
* *
15577886 GAAGGATTATTATGTCTTCTACAATTTCGATTAGGAAGATGA
131 GAAGGATTATTATGTCGTCTACAATTTCAATTAGGAAGATGA
15577928 CTAGTCTTGG
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 168 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (188 bp):
TTCAAGCTGATGATAAGTGGCACTGCAAGAATATTTTCATTGCGAGAAGAATAACTTACTTTAGC
AAATAATCTAAATGAGTTCGTAACCCTGTAAAAGAATCAAAGTGAACATCTGATTCAAATATATA
GAAGGATTATTATGTCGTCTACAATTTCAATTAGGAAGATGAACATTGTTTGTCTAAG
Found at i:15580192 original size:47 final size:47
Alignment explanation
Indices: 15580134--15580232 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
15580124 ATTTGCAGTT
* * * *
15580134 TATCTGTGATTTTGGTGGCTTGTCCACGATTTTGATTATTGGTAGTA
1 TATCTGCGATTTTGGTGGCTTGTCCACAATTTTGACTATTGATAGTA
*
15580181 TATCTGCGATTTTGGTGGCTTGTCCACAATTTTGACTATTGATAGTT
1 TATCTGCGATTTTGGTGGCTTGTCCACAATTTTGACTATTGATAGTA
15580228 TATCT
1 TATCT
15580233 AAATTACTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.18, C:0.13, G:0.22, T:0.46
Consensus pattern (47 bp):
TATCTGCGATTTTGGTGGCTTGTCCACAATTTTGACTATTGATAGTA
Found at i:15580784 original size:37 final size:36
Alignment explanation
Indices: 15580743--15580814 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
15580733 ATAAATTTTC
* *
15580743 TAAA-TAGTTTTATGAAAATCTGCTGCAAAGTTCTTTA
1 TAAATTAGTTTTAT--AAATATACTGCAAAGTTCTTTA
* *
15580780 TAAATTATTTTTATAACTATACTGCAAAGTTCTTT
1 TAAATTAGTTTTATAAATATACTGCAAAGTTCTTT
15580815 GTTTTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 18 0.60
37 4 0.13
38 8 0.27
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (36 bp):
TAAATTAGTTTTATAAATATACTGCAAAGTTCTTTA
Found at i:15582034 original size:27 final size:26
Alignment explanation
Indices: 15582001--15582053 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
15581991 TAGTATTTTA
15582001 GTAATTTAATATTAATATGAGATATTT
1 GTAATTTAATATTAATAT-AGATATTT
* *
15582028 GTAATTTAATATTTATCTAGATATTT
1 GTAATTTAATATTAATATAGATATTT
15582054 ATCTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (26 bp):
GTAATTTAATATTAATATAGATATTT
Found at i:15582081 original size:29 final size:30
Alignment explanation
Indices: 15582048--15582108 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
15582038 ATTTATCTAG
15582048 ATATTTATCTTAATAAAATGATTAATT-TA
1 ATATTTATCTTAATAAAATGATTAATTATA
15582077 ATATTTATCTTAATAAAATGATTAATTATA
1 ATATTTATCTTAATAAAATGATTAATTATA
15582107 AT
1 AT
15582109 CTAGTCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (30 bp):
ATATTTATCTTAATAAAATGATTAATTATA
Found at i:15591721 original size:20 final size:18
Alignment explanation
Indices: 15591696--15591766 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 18
15591686 TGGAATTTGG
15591696 TATCGATACCATTTTAAAAA
1 TATCGATA-C-TTTTAAAAA
15591716 TATCGATACTTTTATAAAA
1 TATCGATACTTTTA-AAAA
*
15591735 TAATTGATACTTGTCTAAAAA
1 T-ATCGATACTT-T-TAAAAA
15591756 TATCGATACTT
1 TATCGATACTT
15591767 ATTGGGTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
18 5 0.11
19 6 0.13
20 26 0.58
21 6 0.13
22 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (18 bp):
TATCGATACTTTTAAAAA
Found at i:15595771 original size:31 final size:31
Alignment explanation
Indices: 15595728--15595807 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
15595718 GTGTGAGCCA
*
15595728 CATGGGCGTGTGGGCCCACACGGGCAAATGT
1 CATGGGCATGTGGGCCCACACGGGCAAATGT
*
15595759 CATGGGCATGTGGGCCCACACGGGGAAATGT
1 CATGGGCATGTGGGCCCACACGGGCAAATGT
*
15595790 CATGGGCTTGTGGGCCCA
1 CATGGGCATGTGGGCCCA
15595808 TTTTCACTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.17
Consensus pattern (31 bp):
CATGGGCATGTGGGCCCACACGGGCAAATGT
Found at i:15607526 original size:12 final size:11
Alignment explanation
Indices: 15607504--15607533 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
15607494 TAAAATTAGT
15607504 TAAATAATAAA
1 TAAATAATAAA
15607515 TAAATGAATAAA
1 TAAAT-AATAAA
15607527 TAAATAA
1 TAAATAA
15607534 AAAGGATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:15610744 original size:50 final size:48
Alignment explanation
Indices: 15610655--15610792 Score: 161
Period size: 50 Copynumber: 2.8 Consensus size: 48
15610645 AGGTAGGCAA
*
15610655 CTTTTTTTTGCGCTTTTTTTGCTTTTTGCT-TTTTTTTTGCGCTTTTTACT
1 CTTTTTTTTGCG--TTTTTTGCTTTTT-TTGTTTTTTTTGCGCTTTTTACT
15610705 CTCTCTTTTTTGCGTTTTTTGCTTTTTTTGTTTTTTTTGCGCTTTTTACT
1 CT-T-TTTTTTGCGTTTTTTGCTTTTTTTGTTTTTTTTGCGCTTTTTACT
** * * * *
15610755 CTTTTTTGCGCTTTTTTTGTTTTTTTTGCTGTTTTTGC
1 CTTTTTTTTGCGTTTTTTGCTTTTTTTGTTTTTTTTGC
15610793 TGTTTTTGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
48 29 0.37
49 2 0.03
50 37 0.47
51 1 0.01
52 9 0.12
ACGTcount: A:0.01, C:0.15, G:0.13, T:0.70
Consensus pattern (48 bp):
CTTTTTTTTGCGTTTTTTGCTTTTTTTGTTTTTTTTGCGCTTTTTACT
Found at i:15610799 original size:39 final size:37
Alignment explanation
Indices: 15610711--15610799 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 37
15610701 TACTCTCTCT
15610711 TTTTTGC-GTTTTTTGCTTTTTTTGTTTTTTTTGCGC
1 TTTTTGCTGTTTTTTGCTTTTTTTGTTTTTTTTGCGC
* *
15610747 TTTTTACTCTTTTTTGCGCTTTTTTTGTTTTTTTTGCTG-
1 TTTTTGCTGTTTTTT--GCTTTTTTTGTTTTTTTTGC-GC
15610786 TTTTTGCTGTTTTT
1 TTTTTGCTGTTTTT
15610800 GTTTTTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 6 0.13
37 6 0.13
39 32 0.71
40 1 0.02
ACGTcount: A:0.01, C:0.11, G:0.15, T:0.73
Consensus pattern (37 bp):
TTTTTGCTGTTTTTTGCTTTTTTTGTTTTTTTTGCGC
Found at i:15610800 original size:9 final size:9
Alignment explanation
Indices: 15610710--15610805 Score: 86
Period size: 9 Copynumber: 10.4 Consensus size: 9
15610700 TTACTCTCTC
*
15610710 TTTTTTGCG
1 TTTTTTGCT
15610719 TTTTTTGCT
1 TTTTTTGCT
*
15610728 TTTTTTGTT
1 TTTTTTGCT
*
15610737 TTTTTTGCG
1 TTTTTTGCT
* *
15610746 CTTTTTACT
1 TTTTTTGCT
15610755 CTTTTTTGCGCT
1 -TTTTTT--GCT
*
15610767 TTTTTTGTT
1 TTTTTTGCT
15610776 TTTTTTGCT
1 TTTTTTGCT
*
15610785 GTTTTTGCT
1 TTTTTTGCT
*
15610794 GTTTTTG-T
1 TTTTTTGCT
15610802 TTTT
1 TTTT
15610806 ATTTAAAGAA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
8 4 0.06
9 54 0.76
10 5 0.07
11 6 0.08
12 2 0.03
ACGTcount: A:0.01, C:0.10, G:0.15, T:0.74
Consensus pattern (9 bp):
TTTTTTGCT
Found at i:15611045 original size:12 final size:11
Alignment explanation
Indices: 15611023--15611052 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
15611013 TAAAATTAGT
15611023 TAAATAATAAA
1 TAAATAATAAA
15611034 TAAATGAATAAA
1 TAAAT-AATAAA
15611046 TAAATAA
1 TAAATAA
15611053 AAAGGATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:15611450 original size:31 final size:31
Alignment explanation
Indices: 15611357--15611452 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
15611347 GGCAAATTAC
*
15611357 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15611388 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
15611420 AAGGGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15611451 AA
1 AA
15611453 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:15621108 original size:40 final size:39
Alignment explanation
Indices: 15621064--15621168 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
15621054 AGTGACCATA
*
15621064 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
15621104 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
15621142 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
15621169 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:15621125 original size:39 final size:40
Alignment explanation
Indices: 15621024--15621187 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
15621014 TTGAATGATG
* *
15621024 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
15621064 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
15621103 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
15621143 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
15621183 TCCGG
1 TCCGG
15621188 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:15621187 original size:79 final size:80
Alignment explanation
Indices: 15621024--15621174 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
15621014 TTGAATGATG
*
15621024 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
15621089 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
15621104 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
15621166 TTGAACGAG
64 TTGAACGAG
15621175 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:15636237 original size:3 final size:3
Alignment explanation
Indices: 15636229--15636284 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
15636219 ACAGGGTAAA
* * *
15636229 GAT GAT GAT GAT GACT -CT GAT GAT GAT CAA GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
15636274 GAC GAT GAT GA
1 GAT GAT GAT GA
15636285 CGACGACGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:15639983 original size:207 final size:209
Alignment explanation
Indices: 15639624--15640030 Score: 649
Period size: 207 Copynumber: 1.9 Consensus size: 209
15639614 TACATAGCAA
* * * *
15639624 CAATATTTACCTTAGTAGCATCATCCATGATGTTTCTGGCATGGAAGTAGGCTCTATTCCCCACA
1 CAATATTTACCTTAGTAACATCATCCATGATGCTTCTAGCATGGAAGTAGGCTCCATTCCCCAC-
* *
15639689 ATAAGTTGTCCACATCTTTTGCGGACCTCGTCCCATCAAACTCTTTTAGCTTCGGGACATTTATC
65 A-AAGTTGTCAACATCTTTTGCGGACCTCGTCCCATCAAACTCTTTTAGCTTCGGGACATCTATC
* *
15639754 TTAGGCATGAGTGTTGTAGTCAACATCCCATTACCTAAAGCAGTTTTATAGATAGCAAACTCCCT
129 TTAAGCATGAGTGTTGTAGTCAACATCCCATTACCTAAAGCAGCTTTATAGATAGCAAACTCCCT
15639819 ATTGAGCTGATAGTAG
194 ATTGAGCTGATAGTAG
*
15639835 CAATATTTACCTTAGTAACATCATCCATGATGCTTCTAGCATGGAAGTATTGCTCCATT-CCC-C
1 CAATATTTACCTTAGTAACATCATCCATGATGCTTCTAGCATGGAAGTA-GGCTCCATTCCCCAC
* * * *
15639898 -AAGTTGTCAATATCTTTTGCTGACCTCGTCCCATCAAACTTTTTTGGCTTCGGGACATCTATCT
65 AAAGTTGTCAACATCTTTTGCGGACCTCGTCCCATCAAACTCTTTTAGCTTCGGGACATCTATCT
15639962 TAAGCATGAGTGTTGTAGTCAACATCCCATTACCTAAAGCAGCTTTATAGATAGCAAACTCCCTA
130 TAAGCATGAGTGTTGTAGTCAACATCCCATTACCTAAAGCAGCTTTATAGATAGCAAACTCCCTA
15640027 TTGA
195 TTGA
15640031 CCTGCACAAT
Statistics
Matches: 182, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
207 125 0.69
210 1 0.01
211 49 0.27
212 7 0.04
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (209 bp):
CAATATTTACCTTAGTAACATCATCCATGATGCTTCTAGCATGGAAGTAGGCTCCATTCCCCACA
AAGTTGTCAACATCTTTTGCGGACCTCGTCCCATCAAACTCTTTTAGCTTCGGGACATCTATCTT
AAGCATGAGTGTTGTAGTCAACATCCCATTACCTAAAGCAGCTTTATAGATAGCAAACTCCCTAT
TGAGCTGATAGTAG
Found at i:15641723 original size:17 final size:17
Alignment explanation
Indices: 15641701--15641741 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
15641691 AACCTATGTG
* *
15641701 GCCCAAACCCAACTGAA
1 GCCCAAACCAAACAGAA
15641718 GCCCAAACCAAACAGAA
1 GCCCAAACCAAACAGAA
15641735 GCCCAAA
1 GCCCAAA
15641742 GCAGATTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.39, G:0.12, T:0.02
Consensus pattern (17 bp):
GCCCAAACCAAACAGAA
Found at i:15650056 original size:25 final size:25
Alignment explanation
Indices: 15650028--15650088 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
15650018 GCAAGTTGCA
* *
15650028 AGCTCAGCAAGATGT-CAAAGCTGCG
1 AGCTCAGCAAGAAGTGC-AAGCTACG
* * *
15650053 AGCTTAGCGAGAAGTGCAAGCTATG
1 AGCTCAGCAAGAAGTGCAAGCTACG
15650078 AGCTCAGCAAG
1 AGCTCAGCAAG
15650089 TGGTGCGAGC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16
Consensus pattern (25 bp):
AGCTCAGCAAGAAGTGCAAGCTACG
Found at i:15650100 original size:18 final size:18
Alignment explanation
Indices: 15650077--15650116 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15650067 TGCAAGCTAT
**
15650077 GAGCTCAGCAAGTGGTGC
1 GAGCTCAGCAAAAGGTGC
*
15650095 GAGCTCATCAAAAGGTGC
1 GAGCTCAGCAAAAGGTGC
15650113 GAGC
1 GAGC
15650117 CTTGTATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.35, T:0.15
Consensus pattern (18 bp):
GAGCTCAGCAAAAGGTGC
Found at i:15650383 original size:44 final size:44
Alignment explanation
Indices: 15650300--15650384 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
15650290 ATTGCAAGCC
*
15650300 GAAGTGGCAGACAGTCTAAATGCAAACCTGAATGTGTGCAAACT
1 GAAGTGGCAGACAGTCTAAATGCAAACCTGAATGGGTGCAAACT
* * * * * *
15650344 GAAGTGGCGGACGGTCTAAATGTAAGCTTGAGTGGGTGCAA
1 GAAGTGGCAGACAGTCTAAATGCAAACCTGAATGGGTGCAA
15650385 GCCAAAATGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (44 bp):
GAAGTGGCAGACAGTCTAAATGCAAACCTGAATGGGTGCAAACT
Found at i:15658557 original size:22 final size:22
Alignment explanation
Indices: 15658529--15658572 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15658519 CTACCATCAT
*
15658529 GGCTTCCGACAGCTTTTGGACA
1 GGCTTCCAACAGCTTTTGGACA
15658551 GGCTTCCAACAGCTTTTGGACA
1 GGCTTCCAACAGCTTTTGGACA
15658573 CCTCTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (22 bp):
GGCTTCCAACAGCTTTTGGACA
Done.