Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 261 of 318
Found at i:82584662 original size:37 final size:37
Alignment explanation
Indices: 82584621--82584703 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
82584611 AATTAGGTAA
* *
82584621 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAGAATCAGAATCAAGTAACAGAATCAAAAT
* *
82584658 CAGAACCAGAATCAGAATTAAGTAACAGAATCAAAAT
1 CAGAATCAGAATCAGAATCAAGTAACAGAATCAAAAT
* *
82584695 TAGTATCAG
1 CAGAATCAG
82584704 GTAATAGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAAGTAACAGAATCAAAAT
Found at i:82584695 original size:19 final size:19
Alignment explanation
Indices: 82584642--82584696 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
82584632 TCAGTATCAG
*
82584642 GTAACAGAATCAAAA-TCA
1 GTAACAGAATCAAAATTAA
*
82584660 G-AACCAGAATCAGAATTAA
1 GTAA-CAGAATCAAAATTAA
82584679 GTAACAGAATCAAAATTA
1 GTAACAGAATCAAAATTA
82584697 GTATCAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 2 0.06
18 11 0.35
19 16 0.52
20 2 0.06
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.18
Consensus pattern (19 bp):
GTAACAGAATCAAAATTAA
Found at i:82584998 original size:27 final size:26
Alignment explanation
Indices: 82584950--82585001 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
82584940 GCAAGGCTGC
*
82584950 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
82584976 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
82585002 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:82585259 original size:27 final size:27
Alignment explanation
Indices: 82585229--82585517 Score: 353
Period size: 27 Copynumber: 10.7 Consensus size: 27
82585219 AACACCCTAG
*
82585229 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
82585256 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
** * *
82585283 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTATAAATCGA
* *
82585310 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
** *
82585337 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
* * *
82585364 GGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTATAAATCGA
*
82585391 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
*
82585418 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
** * *
82585445 GGGTAAAAAAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTATAAATCGA
** * * *
82585472 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTTTATAAATCGA
*
82585499 GGGTAAAACGATAATTTTA
1 GGGTAAAACGGTAATTTTA
82585518 CAAACCAGGG
Statistics
Matches: 228, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 228 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTATAAATCGA
Found at i:82585530 original size:81 final size:81
Alignment explanation
Indices: 82585229--82585517 Score: 418
Period size: 81 Copynumber: 3.6 Consensus size: 81
82585219 AACACCCTAG
* *
82585229 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAG
82585294 TAATTTTGTAAATTGA
66 TAATTTTGTAAATTGA
* * * * *
82585310 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAA-TAGTAATTCTATAAATCGAGGGTAAAATG
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGA-TAATTTTATAAATCGAGGGTAAAATA
82585374 GTAATTTTGTAAATTGA
65 GTAATTTTGTAAATTGA
* * * *
82585391 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAAAG
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAG
* *
82585456 TAATTCTGTAAATCGA
66 TAATTTTGTAAATTGA
* * *
82585472 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTA
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTA
82585518 CAAACCAGGG
Statistics
Matches: 184, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
81 184 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAG
TAATTTTGTAAATTGA
Found at i:82589074 original size:10 final size:10
Alignment explanation
Indices: 82589059--82589103 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
82589049 TTGTACTCCT
82589059 TACCAAATCA
1 TACCAAATCA
82589069 TACCAAATCA
1 TACCAAATCA
82589079 TAAGCCAAACTCA
1 T-A-CCAAA-TCA
*
82589092 TACCAAAACA
1 TACCAAATCA
82589102 TA
1 TA
82589104 TGATTTATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 15 0.48
11 6 0.19
12 6 0.19
13 4 0.13
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18
Consensus pattern (10 bp):
TACCAAATCA
Found at i:82589093 original size:23 final size:22
Alignment explanation
Indices: 82589061--82589103 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
82589051 GTACTCCTTA
*
82589061 CCAAATCATACCAAATCATAAG
1 CCAAATCATACCAAAACATAAG
82589083 CCAAACTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
82589104 TGATTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:82597533 original size:2 final size:2
Alignment explanation
Indices: 82597526--82597556 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82597516 CCCATGTTAA
82597526 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
82597557 AGGAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:82600795 original size:17 final size:17
Alignment explanation
Indices: 82600773--82600807 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
82600763 AATAAGGAAA
*
82600773 GTAATCTTAGAAGATTT
1 GTAATCTGAGAAGATTT
*
82600790 GTAATCTGATAAGATTT
1 GTAATCTGAGAAGATTT
82600807 G
1 G
82600808 ATTTTGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (17 bp):
GTAATCTGAGAAGATTT
Found at i:82609567 original size:35 final size:35
Alignment explanation
Indices: 82609528--82609597 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
82609518 TCTGTTGCTA
82609528 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
1 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
82609563 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
1 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
82609598 AATAATAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
Found at i:82611157 original size:37 final size:37
Alignment explanation
Indices: 82611089--82611161 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
82611079 TAAAAAACAT
* *
82611089 TTTAATATAATTATATTAAGAATGTTATTAAATTATA
1 TTTAATATAATTATATTAAGAATATGATTAAATTATA
*
82611126 TTTAATAATAATTATATTAA-AATATGGTTAAATTAT
1 TTTAAT-ATAATTATATTAAGAATATGATTAAATTAT
82611162 TTATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 19 0.59
38 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (37 bp):
TTTAATATAATTATATTAAGAATATGATTAAATTATA
Found at i:82611377 original size:46 final size:46
Alignment explanation
Indices: 82611293--82611430 Score: 228
Period size: 46 Copynumber: 3.0 Consensus size: 46
82611283 ATATCTATTC
* *
82611293 CATTCAACCAAACATAAT-AA-TACT-ATTACAGTTCTATTCCATTA
1 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
82611337 CATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATTA
82611383 CATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATTA
82611429 CA
1 CA
82611431 GTCTTATTCC
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
43 2 0.02
44 16 0.18
45 4 0.04
46 67 0.75
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (46 bp):
CATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATTA
Found at i:82611430 original size:16 final size:16
Alignment explanation
Indices: 82611409--82611448 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
82611399 TGAATTACTG
82611409 ATTACAG-CTCTATTCC
1 ATTACAGTCT-TATTCC
82611425 ATTACAGTCTTATTCC
1 ATTACAGTCTTATTCC
*
82611441 ATTCCAGT
1 ATTACAGT
82611449 GAACCAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTCTTATTCC
Found at i:82611667 original size:29 final size:30
Alignment explanation
Indices: 82611605--82611668 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
82611595 TAAAATAAAT
*
82611605 AAAAACTATTGAAATTTAAAAAGAAAAACT
1 AAAAACTATTGAAATTTAAAAAGAAAAACG
*
82611635 AAAAA-TATTTAAA-TTATAAAAGATAAAA-G
1 AAAAACTATTGAAATTTA-AAAAGA-AAAACG
82611664 AAAAA
1 AAAAA
82611669 AACTTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.10
29 18 0.60
30 9 0.30
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAAACTATTGAAATTTAAAAAGAAAAACG
Found at i:82615533 original size:93 final size:93
Alignment explanation
Indices: 82615420--82615591 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
82615410 CGCCCATAAG
* *
82615420 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82615485 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
82615513 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82615578 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
82615592 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:82615588 original size:46 final size:46
Alignment explanation
Indices: 82615413--82615588 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
82615403 TGTAACCCGC
* * * *
82615413 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
82615459 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
82615509 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
82615552 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
82615589 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:82615607 original size:46 final size:46
Alignment explanation
Indices: 82615462--82615600 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
82615452 TTCGCATCCA
82615462 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
82615510 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
82615555 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
82615601 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:82620084 original size:11 final size:11
Alignment explanation
Indices: 82620068--82620099 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
82620058 AGAATATTTA
*
82620068 CAAAGTTTCTC
1 CAAAGTCTCTC
82620079 CAAAGTCTCTC
1 CAAAGTCTCTC
82620090 CAAAGTCTCT
1 CAAAGTCTCT
82620100 ATTTATAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (11 bp):
CAAAGTCTCTC
Found at i:82630001 original size:28 final size:29
Alignment explanation
Indices: 82629952--82630016 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
82629942 AAGTCTACAT
* *
82629952 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATGTGGCCCACTAGGCCCAAATC
* *
82629980 TCATTCATGTGGCCCATTAGGCCCAAATC
1 ACATTCATGTGGCCCACTAGGCCCAAATC
82630009 ACATTCAT
1 ACATTCAT
82630017 AGTCATGCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATGTGGCCCACTAGGCCCAAATC
Found at i:82632867 original size:42 final size:43
Alignment explanation
Indices: 82632794--82632896 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
82632784 ACATGTTATA
* * * *
82632794 CTTTAGTTTATCTGATGATACACTGTTTGTG-CAGTATAATTC
1 CTTTAGTTTATCCGATGACACACTGTGTGTGCCAATATAATTC
* * *
82632836 CTTT-GATTTATTCGATGACACATTGTGTGTGCCAATATAATTG
1 CTTTAG-TTTATCCGATGACACACTGTGTGTGCCAATATAATTC
82632879 CTTTAGTTTATCCGATGA
1 CTTTAGTTTATCCGATGA
82632897 TGCACTACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.02
42 24 0.48
43 24 0.48
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (43 bp):
CTTTAGTTTATCCGATGACACACTGTGTGTGCCAATATAATTC
Found at i:82632889 original size:43 final size:42
Alignment explanation
Indices: 82632794--82632896 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
82632784 ACATGTTATA
* * *
82632794 CTTTAGTTTA-TCTGATGATACACTGTTTGTGCAGTATAATTC
1 CTTTAGTTTATTC-GATGACACACTGTGTGTGCAATATAATTC
* *
82632836 CTTT-GATTTATTCGATGACACATTGTGTGTGCCAATATAATTG
1 CTTTAG-TTTATTCGATGACACACTGTGTGTG-CAATATAATTC
*
82632879 CTTTAGTTTATCCGATGA
1 CTTTAGTTTATTCGATGA
82632897 TGCACTACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 23 0.45
43 26 0.51
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (42 bp):
CTTTAGTTTATTCGATGACACACTGTGTGTGCAATATAATTC
Found at i:82647502 original size:15 final size:15
Alignment explanation
Indices: 82647482--82647511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82647472 ATAATCCTAA
*
82647482 TAATTATCTTAATAT
1 TAATTATCCTAATAT
82647497 TAATTATCCTAATAT
1 TAATTATCCTAATAT
82647512 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:82649592 original size:268 final size:265
Alignment explanation
Indices: 82649016--82649689 Score: 726
Period size: 268 Copynumber: 2.5 Consensus size: 265
82649006 CATAGCTTCG
** ** * * * * *
82649016 ACATAGCTAGCGGACCTACGCTCTTAGTTGATGTCATAAAGGTTTATCAGTTTAAGATTGCAACA
1 ACATAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGTTTTGTCGGTTTAAGATTACAACC
* * * * *
82649081 TCCAAAGCAA-TTGCAAACCTATGCTTCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCGC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGC
* ** * * * *
82649145 AGCTCCGACACAGCTAGCAGGCCTACGCTCCTAGTTGATGTCATAAAGGTTTGTTGGTTTAAGAT
131 AGCT----C-CAGCTAGCAGGCCTACGCTCCCAACTAATGTCATAAAGGCTTATCGGTTTAAGAT
* * * * * * **
82649210 CGTAACCTATAAAGCTAGCAGACCTAGCTCTCAGCTAACATTACAAGAGCTCATGGAGTTAAGCT
191 CGCAACCTACAAAGCTAGCAGACCTAGCTCCCAACTAACATTACAAGAACCCATAAAGTTAAGCT
* *
82649275 CCCAGGTCCG
256 CCCAGCTCCA
* * * * *
82649285 ACATAGCTAACGAACCTAGGCTCCCAACTGATGTCATAAAATTTTGTCGGTTTAAGATTATAACC
1 ACATAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGTTTTGTCGGTTTAAGATTACAACC
* *
82649350 TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTATAATAGCTCGCAGAGTTAAGCTCAC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGC
*
82649415 AGCTCCAGCTAG-TGGACCTA-GCTCCCAACTAATGTCATAAAGGCTTATCGGTTTAAGATCGCA
131 AGCTCCAGCTAGCAGG-CCTACGCTCCCAACTAATGTCATAAAGGCTTATCGGTTTAAGATCGCA
* * * *
82649478 ATCTCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAACCCGTAAAGTTAAGCT
195 ACCTACAAAG---CTAGCAGACCTA-GCTCCCAACTAACATTACAAGAACCCATAAAGTTAAGCT
**
82649543 TGCAGCTCCA
256 CCCAGCTCCA
* * * ** *
82649553 ACATAGTTAGTGGACCTACGCTCCCAACTGATGTCATAAAGTTTTGTTGGTAAAAGATCACAACC
1 ACATAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGTTTTGTCGGTTTAAGATTACAACC
* * *
82649618 TCTAAAGCAACTAG-AGAACCTACGCTCCCAATTGACATTATAAGAGCTCACAAAGTTAAGCTCG
66 TCCAAAGCAACTAGCAG-ACCTACGCTCCCAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCG
*
82649682 CAGATCCA
130 CAGCTCCA
82649690 ACACAGCTAA
Statistics
Matches: 336, Mismatches: 62, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
264 44 0.13
265 11 0.03
266 1 0.00
267 14 0.04
268 154 0.46
269 61 0.18
270 51 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (265 bp):
ACATAGCTAGCGGACCTACGCTCCCAACTGATGTCATAAAGTTTTGTCGGTTTAAGATTACAACC
TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGC
AGCTCCAGCTAGCAGGCCTACGCTCCCAACTAATGTCATAAAGGCTTATCGGTTTAAGATCGCAA
CCTACAAAGCTAGCAGACCTAGCTCCCAACTAACATTACAAGAACCCATAAAGTTAAGCTCCCAG
CTCCA
Found at i:82649642 original size:137 final size:137
Alignment explanation
Indices: 82649016--82649698 Score: 600
Period size: 137 Copynumber: 5.1 Consensus size: 137
82649006 CATAGCTTCG
* ** ** * * ** *
82649016 ACATAGCTAGCGGACCTACGCTCTTAGTTGATGTCATAAAGGTTTATCAGTTTAAGATTGCAACA
1 ACATAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAACC
* * * * * * * * *
82649081 TCCAAAGCAA-TTGCAAACCTATGCTTCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCGC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAGCTCACAAAGTTAAGCTCGC
*
82649145 AGCTCCG
131 AGCTCCA
* * * ** * **
82649152 ACACAGCTAGCAGG-CCTACGCTCCTAGTTGATGTCATAAAGGTTTGTTGGTTTAAGATCGTAAC
1 ACATAGCTAG-TGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAAC
** * * * *** *
82649216 CTATAAAG---CTAGCAGACCTA-GCTCTCAGCTAACATTACAAGAGCTCATGGAGTTAAGCTCC
65 CTCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAGCTCACAAAGTTAAGCTCG
* *
82649277 CAGGTCCG
130 CAGCTCCA
** * * ** * *
82649285 ACATAGCTAACGAACCTAGGCTCCCAACTGATGTCATAAAATTTTGTCGGTTTAAGATTATAACC
1 ACATAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAACC
* * * * * *
82649350 TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTATAATAGCTCGCAGAGTTAAGCTCAC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAGCTCACAAAGTTAAGCTCGC
82649415 AGCT-C-
131 AGCTCCA
* * * * *
82649420 -C--AGCTAGTGGACCTA-GCTCCCAACTAATGTCATAAAGGCTTATCGGTTTAAGATCGCAATC
1 ACATAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAACC
* * ** *
82649481 TCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAACCCGTAAAGTTAAGCTTGC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAGCTCACAAAGTTAAGCTCGC
82649546 AGCTCCA
131 AGCTCCA
* * * **
82649553 ACATAGTTAGTGGACCTACGCTCCCAACTGATGTCATAAAGTTTTGTTGGTAAAAGATCACAACC
1 ACATAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAACC
* * *
82649618 TCTAAAGCAACTAG-AGAACCTACGCTCCCAATTGACATTATAAGAGCTCACAAAGTTAAGCTCG
66 TCCAAAGCAACTAGCAG-ACCTACGCTCCCAACTAACATTATAAGAGCTCACAAAGTTAAGCTCG
*
82649682 CAGATCCA
130 CAGCTCCA
*
82649690 ACACAGCTA
1 ACATAGCTA
82649699 AAAAGGCTAT
Statistics
Matches: 442, Mismatches: 91, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
131 97 0.22
132 13 0.03
133 94 0.21
134 11 0.02
136 86 0.19
137 141 0.32
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
ACATAGCTAGTGGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAACC
TCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGAGCTCACAAAGTTAAGCTCGC
AGCTCCA
Found at i:82654043 original size:41 final size:43
Alignment explanation
Indices: 82653922--82654043 Score: 108
Period size: 43 Copynumber: 2.9 Consensus size: 43
82653912 GTACCGTACC
* * * *
82653922 AATGC-CATATCCTAGATATGGTCTTACATGTAATCTCGTATC
1 AATGCTCATATCCCAGATATGGTCTTACACGTAATCTCATATA
* * * * * *
82653964 GATGCTGATAGCCCAGCTATAGTCTTACAC-AAAGTCTCATATA
1 AATGCTCATATCCCAGATATGGTCTTACACGTAA-TCTCATATA
*
82654007 AATTC-CA-ATCCCAGATATGGTCTTACACGTAATCTCA
1 AATGCTCATATCCCAGATATGGTCTTACACGTAATCTCA
82654044 GTAACACTAA
Statistics
Matches: 60, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
41 23 0.38
42 9 0.15
43 28 0.47
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (43 bp):
AATGCTCATATCCCAGATATGGTCTTACACGTAATCTCATATA
Found at i:82655514 original size:13 final size:13
Alignment explanation
Indices: 82655496--82655532 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
82655486 ATATGTATTC
82655496 ATTTATTTATAAT
1 ATTTATTTATAAT
82655509 ATTTATTTATAAT
1 ATTTATTTATAAT
*
82655522 TTTATATTTAT
1 ATT-TATTTAT
82655533 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTATTTATAAT
Found at i:82655525 original size:21 final size:19
Alignment explanation
Indices: 82655501--82655556 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
82655491 TATTCATTTA
82655501 TTTATAATATTTATTTATAAT
1 TTTATAATATTTATTTAT--T
*
82655522 TTTATATTTATTT-TTTATT
1 TTTATA-ATATTTATTTATT
82655541 TTTA-AATATTTTATTT
1 TTTATAATA-TTTATTT
82655557 TAGATATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 2 0.07
18 4 0.13
19 8 0.27
21 11 0.37
22 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATAATATTTATTTATT
Found at i:82655541 original size:18 final size:19
Alignment explanation
Indices: 82655497--82655557 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
82655487 TATGTATTCA
82655497 TTTATTTATAATATTTATTT
1 TTTATTT-TAATATTTATTT
* *
82655517 ATAATTTT-ATATTTATTT
1 TTTATTTTAATATTTATTT
82655535 TTTATTTTTAAATATTTTATTT
1 TTTA-TTTT-AATA-TTTATTT
82655557 T
1 T
82655558 AGATATTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 5 0.15
21 3 0.09
22 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTTAATATTTATTT
Found at i:82655557 original size:21 final size:19
Alignment explanation
Indices: 82655497--82655557 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
82655487 TATGTATTCA
*
82655497 TTTATTTATAATATTTATT
1 TTTATTTTTAATATTTATT
* *
82655516 TATAATTTT-ATATTTATTT
1 TTTATTTTTAATATTTA-TT
82655535 TTTATTTTTAAATATTTTATT
1 TTTATTTTT-AATA-TTTATT
82655556 TT
1 TT
82655558 AGATATTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 7 0.21
19 15 0.45
21 7 0.21
22 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTTTAATATTTATT
Found at i:82656247 original size:24 final size:27
Alignment explanation
Indices: 82656220--82656273 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 27
82656210 TAATGAGAAT
82656220 CATTAATATCT-TAAGT-TTTTT-TTA
1 CATTAATATCTATAAGTATTTTTGTTA
* *
82656244 CATTATTATTTATAAGTATTTTTGTTA
1 CATTAATATCTATAAGTATTTTTGTTA
82656271 CAT
1 CAT
82656274 AAAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 5 0.20
26 5 0.20
27 6 0.24
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (27 bp):
CATTAATATCTATAAGTATTTTTGTTA
Found at i:82658561 original size:22 final size:24
Alignment explanation
Indices: 82658536--82658594 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
82658526 TCATTCAATC
82658536 ATATGTATTTAAA-AT-TG-TTTTT
1 ATATGTA-TTAAATATATGATTTTT
* *
82658558 ATATGGATTAAATTTATGATTTTT
1 ATATGTATTAAATATATGATTTTT
*
82658582 ATATGTAATAAAT
1 ATATGTATTAAAT
82658595 GTAAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 7 0.23
23 2 0.07
24 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
ATATGTATTAAATATATGATTTTT
Found at i:82661940 original size:43 final size:43
Alignment explanation
Indices: 82661785--82661941 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
82661775 TGTGTTTTCG
* * *
82661785 TGTAAGACCACATCTAGGATGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* ** * *
82661829 TATAAGACCACGCCTGGGACGTTGGCATC-ATATTTGATTTCG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACA
***
82661871 TGTAAGACCTTGTCTAGGGTA-G-TGGCATCGATATTTGATTACA
1 TGTAAGACCACATCT-GGG-ACGTTGGCATCGATATTTGATTACA
*
82661914 TGTAAGACTACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
82661942 TGTATGAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 37 0.42
44 25 0.28
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:82664134 original size:19 final size:19
Alignment explanation
Indices: 82664086--82664137 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
82664076 TATGCGCTTA
* *
82664086 TGTGCCAAGATACACCTTG
1 TGTGCCAGGATGCACCTTG
*
82664105 TGTGCCGGGATGCACCTTG
1 TGTGCCAGGATGCACCTTG
**
82664124 TGTGTTAGGATGCA
1 TGTGCCAGGATGCA
82664138 TTTCGTGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (19 bp):
TGTGCCAGGATGCACCTTG
Found at i:82664651 original size:2 final size:2
Alignment explanation
Indices: 82664644--82664669 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82664634 GGGTTGGTTC
82664644 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
82664670 CTTATTGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82664880 original size:275 final size:275
Alignment explanation
Indices: 82664389--82664926 Score: 1040
Period size: 275 Copynumber: 2.0 Consensus size: 275
82664379 ATAAAGAAAC
82664389 ATATATCTTATTGTGCAAATAAACTGAAAACGAGCCCTAAGGGCTAGAACGAGTATTAATAAGTC
1 ATATATCTTATTGTGCAAATAAACTGAAAACGAGCCCTAAGGGCTAGAACGAGTATTAATAAGTC
82664454 AATAGACTCCAAAAAAAGATTGAATGGTAAGTAAAAAAGGAAAATGATATGGTTTGATCAAGGAA
66 AATAGACTCCAAAAAAAGATTGAATGGTAAGTAAAAAAGGAAAATGATATGGTTTGATCAAGGAA
*
82664519 TTTTGATGATTTAATATCAATGATAAGTATGTATAGATGTTGAATTCATGTTTGATAATGAATGC
131 TTTTGATGATTTAATATCAATGATAAGTATGTATAAATGTTGAATTCATGTTTGATAATGAATGC
*
82664584 CAAATAGCTTATTTATAGAAAAATGAGTAAATGAATTTAATTTGTTAAAGGGGTTGGTTCATATA
196 CAAATAGCTTATTTATAGAAAAATGAGTAAATGAATTTAATTGGTTAAAGGGGTTGGTTCATATA
82664649 TATATATATATATAT
261 TATATATATATATAT
*
82664664 ATATATCTTATTGTGCAAATAAACTGAAAACGAGCCCTAGGGGCTAGAACGAGTATTAATAAGTC
1 ATATATCTTATTGTGCAAATAAACTGAAAACGAGCCCTAAGGGCTAGAACGAGTATTAATAAGTC
82664729 AATAGACTCCAAAAAAAGATTGAATGGTAAGTAAAAAAGGAAAATGATATGGTTTGATCAAGGAA
66 AATAGACTCCAAAAAAAGATTGAATGGTAAGTAAAAAAGGAAAATGATATGGTTTGATCAAGGAA
*
82664794 TTTTGATGATTTAATATCAATGATAAGTATGTATAAATGTTGAATTTATGTTTGATAATGAATGC
131 TTTTGATGATTTAATATCAATGATAAGTATGTATAAATGTTGAATTCATGTTTGATAATGAATGC
82664859 CAAATAGCTTATTTATAGAAAAATGAGTAAATGAATTTAATTGGTTAAAGGGGTTGGTTCATATA
196 CAAATAGCTTATTTATAGAAAAATGAGTAAATGAATTTAATTGGTTAAAGGGGTTGGTTCATATA
82664924 TAT
261 TAT
82664927 CTACAGCGAA
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
275 259 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (275 bp):
ATATATCTTATTGTGCAAATAAACTGAAAACGAGCCCTAAGGGCTAGAACGAGTATTAATAAGTC
AATAGACTCCAAAAAAAGATTGAATGGTAAGTAAAAAAGGAAAATGATATGGTTTGATCAAGGAA
TTTTGATGATTTAATATCAATGATAAGTATGTATAAATGTTGAATTCATGTTTGATAATGAATGC
CAAATAGCTTATTTATAGAAAAATGAGTAAATGAATTTAATTGGTTAAAGGGGTTGGTTCATATA
TATATATATATATAT
Found at i:82665320 original size:6 final size:6
Alignment explanation
Indices: 82665311--82665337 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
82665301 CCTCTTTTTC
82665311 TTTGTA TTTGTA TTTGTA TTTGTA TTT
1 TTTGTA TTTGTA TTTGTA TTTGTA TTT
82665338 TCTTTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTGTA
Found at i:82669653 original size:38 final size:38
Alignment explanation
Indices: 82669522--82669686 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 38
82669512 AAATTGAATG
* * *
82669522 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGATT
* *
82669561 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT---T
82669601 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATT
* * *
82669639 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTG--CGAGATT
82669679 ATATCCGG
1 ATATCCGG
82669687 TTATATTCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
37 1 0.01
38 28 0.26
39 18 0.17
40 58 0.55
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATT
Found at i:82669654 original size:78 final size:78
Alignment explanation
Indices: 82669522--82669670 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
82669512 AAATTGAATG
*
82669522 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGC-GGAAATTATATCCGGGCTAAGACCCGAAGGCAA
82669587 TTGTGCTAGTGGCT
65 TTGTGCTAGTGGCT
* * * *
82669601 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
82669664 TTTGTGC
64 ATTGTGC
82669671 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 34 0.55
79 17 0.27
80 11 0.18
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCT
Found at i:82677601 original size:40 final size:40
Alignment explanation
Indices: 82677516--82677666 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
82677506 AAATTGAATA
* * * *
82677516 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
82677556 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
82677597 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
82677636 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
82677667 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:82677680 original size:40 final size:40
Alignment explanation
Indices: 82677553--82677682 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
82677543 ATGCTGGAAA
* * *
82677553 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
82677593 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
82677633 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
82677673 TTATATCCGG
1 TTATATCCGG
82677683 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:82677681 original size:80 final size:80
Alignment explanation
Indices: 82677514--82677682 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 80
82677504 AGAAATTGAA
* *
82677514 TATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGC
82677579 AATTGTGCTAGTGGC
66 AATTGTGCTAGTGGC
* * * * *
82677594 TACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAG
1 TATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAG
* *
82677657 GCATTTGTGC-ACGTGGT
64 GCAATTGTGCTA-GTGGC
82677674 TATATCCGG
1 TATATCCGG
82677683 TTATATTCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 71 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
TATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGC
AATTGTGCTAGTGGC
Found at i:82688450 original size:2 final size:2
Alignment explanation
Indices: 82688443--82688473 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
82688433 TCGATCGGAG
*
82688443 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82688474 GAGTACGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:82688598 original size:29 final size:29
Alignment explanation
Indices: 82688566--82688638 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
82688556 CTTCGAGCTC
*
82688566 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
82688595 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
82688624 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
82688639 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:82696565 original size:29 final size:29
Alignment explanation
Indices: 82696533--82696605 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
82696523 CTTCGAGCTC
*
82696533 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
82696562 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
82696591 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
82696606 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:82704425 original size:16 final size:18
Alignment explanation
Indices: 82704404--82704436 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
82704394 TGTTTTTGTA
82704404 TGAATG-ATAT-TATTAT
1 TGAATGAATATCTATTAT
82704420 TGAATGAATATCTATTA
1 TGAATGAATATCTATTA
82704437 ATGTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (18 bp):
TGAATGAATATCTATTAT
Found at i:82705420 original size:23 final size:24
Alignment explanation
Indices: 82705389--82705440 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
82705379 CTGACCTCTA
*
82705389 TATTTAAATGATAAAATAAT-TTT
1 TATTAAAATGATAAAATAATATTT
* *
82705412 TATTAAAATTATAAAATTATATTT
1 TATTAAAATGATAAAATAATATTT
82705436 TATTA
1 TATTA
82705441 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTAAAATGATAAAATAATATTT
Found at i:82707138 original size:3 final size:3
Alignment explanation
Indices: 82707130--82707196 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
82707120 TGAGTGAGAG
82707130 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82707178 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
82707197 GAGATCAGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82715541 original size:22 final size:22
Alignment explanation
Indices: 82715514--82715560 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
82715504 TAGTGTATCC
82715514 AAAACATTAGGAAACAATAATA
1 AAAACATTAGGAAACAATAATA
82715536 AAAACATTAGGAAACAATAATA
1 AAAACATTAGGAAACAATAATA
82715558 AAA
1 AAA
82715561 TAGAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAACATTAGGAAACAATAATA
Found at i:82723791 original size:42 final size:42
Alignment explanation
Indices: 82723721--82723843 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
82723711 TCGGCCCCGG
* * * * *
82723721 TATGTGATTTCATGTAAGGCCATATCTGGGATATGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
*
82723763 TATGAGATTTCGTGTAAGACCAGGTCTGGGACATGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
* * **
82723805 TTTGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCAT
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
82723844 CGGCACTGAC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
Found at i:82732220 original size:30 final size:28
Alignment explanation
Indices: 82732155--82732227 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
82732145 TATAGTGAAT
*
82732155 CCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
82732183 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
82732213 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
82732228 CAATCTTGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 19 0.51
30 18 0.49
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:82738512 original size:35 final size:35
Alignment explanation
Indices: 82738436--82738527 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
82738426 GGTGATGTCG
* * *
82738436 GGATTACCAGTCCAGGCTAAATTGAGCTCGGATCT
1 GGATTACCAGTCCAGGCTAAATTCAGATCGAATCT
* *
82738471 GAATTACCAGTCCAGGCTAAATTCAGATCCTAATC-
1 GGATTACCAGTCCAGGCTAAATTCAGAT-CGAATCT
* *
82738506 GGATTACCCGTCCGGGCTAAAT
1 GGATTACCAGTCCAGGCTAAAT
82738528 CCATAATGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 44 0.92
36 4 0.08
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (35 bp):
GGATTACCAGTCCAGGCTAAATTCAGATCGAATCT
Found at i:82749212 original size:14 final size:14
Alignment explanation
Indices: 82749181--82749221 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
82749171 ATGAGTCTTC
82749181 AAAAATAAATAGAAAT
1 AAAAATAAA-A-AAAT
*
82749197 AAAAGTAAAAAAAT
1 AAAAATAAAAAAAT
82749211 AAAAATAAAAA
1 AAAAATAAAAA
82749222 GAGTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 14 0.61
15 1 0.04
16 8 0.35
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:82749216 original size:20 final size:21
Alignment explanation
Indices: 82749182--82749220 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
82749172 TGAGTCTTCA
*
82749182 AAAATAAATAGAAATAAAAGT
1 AAAATAAATAAAAATAAAAGT
82749203 AAAA-AAATAAAAATAAAA
1 AAAATAAATAAAAATAAAA
82749221 AGAGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATAAATAAAAATAAAAGT
Found at i:82753620 original size:28 final size:28
Alignment explanation
Indices: 82753551--82753651 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
82753541 GACAAGATTG
* * * *
82753551 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
82753581 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
82753609 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
82753638 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
82753652 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:82761537 original size:28 final size:29
Alignment explanation
Indices: 82761502--82761573 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
82761492 TAAAATGTAC
*
82761502 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
82761530 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
82761559 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
82761574 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 19 0.46
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:82781303 original size:30 final size:30
Alignment explanation
Indices: 82781269--82781329 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82781259 TCCTTAACTC
82781269 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82781299 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82781329 A
1 A
82781330 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82785749 original size:30 final size:30
Alignment explanation
Indices: 82785715--82785775 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82785705 TCCTTAACTC
82785715 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82785745 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82785775 A
1 A
82785776 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82790201 original size:30 final size:30
Alignment explanation
Indices: 82790167--82790227 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82790157 TCCTTAACTC
82790167 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82790197 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82790227 A
1 A
82790228 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82792732 original size:15 final size:14
Alignment explanation
Indices: 82792696--82792739 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 14
82792686 CTTTGATTAA
82792696 TTAACTTTCTTCTC
1 TTAACTTTCTTCTC
82792710 TCCCTAACTCTTCTTCTC
1 T---TAACT-TTCTTCTC
82792728 TTAACTTTCTTC
1 TTAACTTTCTTC
82792740 ACCTTGCCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
17 5 0.19
18 9 0.35
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAACTTTCTTCTC
Found at i:82793906 original size:27 final size:26
Alignment explanation
Indices: 82793862--82793913 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
82793852 CCCCAAAATT
*
82793862 GTTAAATGACTGTAATGCCCTTATGA
1 GTTAAATGACTATAATGCCCTTATGA
*
82793888 GTTAAAGTGACTATTATGCCCTTATG
1 GTTAAA-TGACTATAATGCCCTTATG
82793914 GGATGTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (26 bp):
GTTAAATGACTATAATGCCCTTATGA
Found at i:82796194 original size:43 final size:43
Alignment explanation
Indices: 82796024--82796195 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
82796014 CATAGGATTC
* * *
82796024 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCATGTCTGGGACGTTGGCAT
* *
82796067 TGAT-TTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * *
82796111 CG-TATATGATTTCGTGTAAGACCTTGTTTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGAC-GTTGGCAT
* *
82796153 CGATATTTGATTACATGTAAGACCATGTCTGTGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
82796196 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
42 32 0.30
43 41 0.39
44 29 0.28
45 3 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:82801065 original size:29 final size:26
Alignment explanation
Indices: 82801026--82801108 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 26
82801016 AATTTACACT
82801026 ACAAGGGTATTTCAGTAATTTTACAAA
1 ACAAGGGTATTTC-GTAATTTTACAAA
* * **
82801053 ATCGAGGGGTATTTTGGTAATTTTACACT
1 A-C-AAGGGTA-TTTCGTAATTTTACAAA
82801082 ACAAGGGTATTTCGATAATTTTACAAA
1 ACAAGGGTATTTCG-TAATTTTACAAA
82801109 CTGAGGTCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
26 4 0.09
27 17 0.39
28 2 0.05
29 18 0.41
30 3 0.07
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (26 bp):
ACAAGGGTATTTCGTAATTTTACAAA
Found at i:82801103 original size:27 final size:27
Alignment explanation
Indices: 82800989--82801106 Score: 107
Period size: 27 Copynumber: 4.3 Consensus size: 27
82800979 AAAAACAATC
* *
82800989 ATTTTACCCTAC-AGAGGTATTTTCATTA
1 ATTTTACACTACAAG-GGTA-TTTCAGTA
82801017 A-TTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
** * **
82801043 ATTTTACAAAATCGAGGGGTATTTTGGTA
1 ATTTTACACTA-C-AAGGGTATTTCAGTA
82801072 ATTTTACACTACAAGGGTATTTC-GATA
1 ATTTTACACTACAAGGGTATTTCAG-TA
82801099 ATTTTACA
1 ATTTTACA
82801107 AACTGAGGTC
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
26 9 0.12
27 39 0.53
28 5 0.07
29 21 0.28
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:82806339 original size:42 final size:43
Alignment explanation
Indices: 82806255--82806395 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
82806245 ACCACATCTA
* * * * *
82806255 GGACGTTGGCATTGATTTGTGATTTACATGTGAGACCATGTCTG
1 GGACATTGGCATCGATATATGATTT-CATGTAAGACCATGTCTG
*
82806299 GGACATTGGCATCG-TATATGATTTCATGTAAGACCTTGTCTG
1 GGACATTGGCATCGATATATGATTTCATGTAAGACCATGTCTG
* * * *
82806341 GGACAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTG
1 GGACATTGGCATCGATATATGATTTCATGTAAGACCATGTCTG
*
82806384 GGACGTTGGCAT
1 GGACATTGGCAT
82806396 TGTACGAGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 29 0.35
43 42 0.51
44 12 0.14
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
GGACATTGGCATCGATATATGATTTCATGTAAGACCATGTCTG
Found at i:82808217 original size:40 final size:40
Alignment explanation
Indices: 82808162--82808329 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
82808152 TGAATGATAC
* *
82808162 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
82808202 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
82808242 CCGGGCTAAGACCCGATGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
82808282 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
82808322 CC-GGCTAA
1 CCGGGCTAA
82808330 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:82815445 original size:40 final size:40
Alignment explanation
Indices: 82815390--82815557 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
82815380 TGAATGATAC
* *
82815390 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
82815430 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
82815470 CCGGGCTAAGACCCGATGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
82815510 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
82815550 CC-GGCTAA
1 CCGGGCTAA
82815558 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:82819964 original size:26 final size:25
Alignment explanation
Indices: 82819900--82819967 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
82819890 ATTTATGGAC
*
82819900 ATAAAAT-AAGTGAATTTTAATTTT
1 ATAAAATAAAGTTAATTTTAATTTT
* *
82819924 TTAAAATCAAGGTTAATTTAGTAA-TTT
1 ATAAAAT-AAAGTTAATTT--TAATTTT
82819951 ATAAAATAAAGTTAATT
1 ATAAAATAAAGTTAATT
82819968 AAATAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.17
26 17 0.49
27 9 0.26
28 3 0.09
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (25 bp):
ATAAAATAAAGTTAATTTTAATTTT
Found at i:82823331 original size:99 final size:98
Alignment explanation
Indices: 82823160--82823355 Score: 347
Period size: 99 Copynumber: 2.0 Consensus size: 98
82823150 AGGAATTACT
* *
82823160 TATAATCACCAAAGCAAGCTAATCACCCATGTCTTCGTTTAACTGAGTTTAGAAATTAGTTTTTC
1 TATAATCACCAAAGCAAGCTAATCACCCATGTCTTCATTTAACTGAGATTAGAAATTAGTTTTTC
*
82823225 AAAGTCCCTTTTTATTTATGCAGTTTTTAATTTG
66 AAAGTCCC-TTTTATTTATACAGTTTTTAATTTG
*
82823259 TATAATCACCAAAGCAAGCTAATCACCCATGTCTTCATTTAATTGAGATTAGAAATTAGTTTTTC
1 TATAATCACCAAAGCAAGCTAATCACCCATGTCTTCATTTAACTGAGATTAGAAATTAGTTTTTC
82823324 AAAGTCCCTTTTATTTATACAGTTTTTAATTT
66 AAAGTCCCTTTTATTTATACAGTTTTTAATTT
82823356 TCTTTATGAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 23 0.25
99 70 0.75
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (98 bp):
TATAATCACCAAAGCAAGCTAATCACCCATGTCTTCATTTAACTGAGATTAGAAATTAGTTTTTC
AAAGTCCCTTTTATTTATACAGTTTTTAATTTG
Found at i:82825573 original size:27 final size:27
Alignment explanation
Indices: 82825543--82825609 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
82825533 TATACCTAGA
* *
82825543 CCCTAATTTGATGAAATGACTATTTTT
1 CCCTAATGTGATAAAATGACTATTTTT
* * *
82825570 CCCTTATGTGGTAAAATGACTATTTTGC
1 CCCTAATGTGATAAAATGACTATTTT-T
82825598 CCCT-ATGTGATA
1 CCCTAATGTGATA
82825610 TATGTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (27 bp):
CCCTAATGTGATAAAATGACTATTTTT
Found at i:82826763 original size:14 final size:14
Alignment explanation
Indices: 82826726--82826767 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
82826716 TATAGATACG
82826726 ATTTGTACTAATTT
1 ATTTGTACTAATTT
*
82826740 AGTT-TACTAATTGT
1 ATTTGTACTAATT-T
82826754 -TTTGTACTAATTT
1 ATTTGTACTAATTT
82826767 A
1 A
82826768 GTTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.55
Consensus pattern (14 bp):
ATTTGTACTAATTT
Found at i:82831607 original size:35 final size:35
Alignment explanation
Indices: 82831561--82831631 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
82831551 AGCTACGAGA
82831561 TAAATTGGCTAGGTCACATGGGTGGTACTAAGTGT
1 TAAATTGGCTAGGTCACATGGGTGGTACTAAGTGT
82831596 TAAATTGGCTAGGTCACATGGGTGGTACTAAGTGT
1 TAAATTGGCTAGGTCACATGGGTGGTACTAAGTGT
82831631 T
1 T
82831632 CACCATGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.32
Consensus pattern (35 bp):
TAAATTGGCTAGGTCACATGGGTGGTACTAAGTGT
Found at i:82832445 original size:17 final size:17
Alignment explanation
Indices: 82832423--82832457 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
82832413 TCAATCAAAG
82832423 TGGAGTAAATATTGAAA
1 TGGAGTAAATATTGAAA
82832440 TGGAGTAAATATTGAAA
1 TGGAGTAAATATTGAAA
82832457 T
1 T
82832458 TAAAAGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (17 bp):
TGGAGTAAATATTGAAA
Found at i:82845031 original size:53 final size:53
Alignment explanation
Indices: 82844945--82845129 Score: 151
Period size: 54 Copynumber: 3.5 Consensus size: 53
82844935 AAGACCCCCG
* *
82844945 ATTTGTAAAATTACTAAAATACCTCTAGGTTGTAAAATTAAT-GAAATACCCTA
1 ATTTGTAAAATTACCAAAATACCTCTAAGTTGTAAAATT-ATCGAAATACCCTA
* * *
82844998 ATTTGTGAAATTACCAAAATACC-CTCAATTTGTAAAATTATCGAAATACCCTCG
1 ATTTGTAAAATTACCAAAATACCTCT-AAGTTGTAAAATTATCGAAATACCCT-A
* *** ** * * * *
82845052 ACTTGTAAAATTATTGAAATACC-CCCAGTTTGTAAAATCACCGAAATACTCTT
1 ATTTGTAAAATTACCAAAATACCTCTAAG-TTGTAAAATTATCGAAATACCCTA
* *
82845105 ATAGTGTAAAATTACCGAAATACCT
1 AT-TTGTAAAATTACCAAAATACCT
82845130 GTGTAGGGTA
Statistics
Matches: 105, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
52 4 0.04
53 44 0.42
54 57 0.54
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
ATTTGTAAAATTACCAAAATACCTCTAAGTTGTAAAATTATCGAAATACCCTA
Found at i:82845086 original size:54 final size:54
Alignment explanation
Indices: 82844938--82845100 Score: 177
Period size: 54 Copynumber: 3.0 Consensus size: 54
82844928 GGTCGTTAAG
* * * *
82844938 ACCCCCGATTTGTAAAATTACTAAAATACCTCTAGGTTGTAAAATTAAT-GAAAT
1 ACCCTCGATTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATT-ATCGAAAT
* * * * *
82844992 ACCCT-AATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAAAT
1 ACCCTCGATTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTATCGAAAT
* * * * *
82845045 ACCCTCGACTTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATCACCGAAAT
1 ACCCTCGATTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTATCGAAAT
82845099 AC
1 AC
82845101 TCTTATAGTG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.48
54 44 0.50
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
ACCCTCGATTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTATCGAAAT
Found at i:82845097 original size:27 final size:27
Alignment explanation
Indices: 82844938--82845128 Score: 120
Period size: 27 Copynumber: 7.1 Consensus size: 27
82844928 GGTCGTTAAG
**
82844938 ACCCCC-GATTTGTAAAATTACTAAAAT
1 ACCCCCAG-TTTGTAAAATTACCGAAAT
* * * **
82844965 ACCTCTAGGTTGTAAAATTAATGAAAT
1 ACCCCCAGTTTGTAAAATTACCGAAAT
* * * *
82844992 A-CCCTAATTTGTGAAATTACCAAAAT
1 ACCCCCAGTTTGTAAAATTACCGAAAT
* * *
82845018 ACCCTCAATTTGTAAAATTATCGAAAT
1 ACCCCCAGTTTGTAAAATTACCGAAAT
* * **
82845045 ACCCTC-GACTTGTAAAATTATTGAAAT
1 ACCCCCAG-TTTGTAAAATTACCGAAAT
*
82845072 ACCCCCAGTTTGTAAAATCACCGAAAT
1 ACCCCCAGTTTGTAAAATTACCGAAAT
* ** *
82845099 ACTCTTA-TAGTGTAAAATTACCGAAAT
1 ACCCCCAGT-TTGTAAAATTACCGAAAT
82845126 ACC
1 ACC
82845129 TGTGTAGGGT
Statistics
Matches: 128, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
26 20 0.16
27 106 0.83
28 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
ACCCCCAGTTTGTAAAATTACCGAAAT
Found at i:82845126 original size:81 final size:81
Alignment explanation
Indices: 82844948--82845128 Score: 197
Period size: 81 Copynumber: 2.2 Consensus size: 81
82844938 ACCCCCGATT
** * * * * *
82844948 TGTAAAATTACTAAAATA-CCTCTAGGTTGTAAAATTAATGAAATACCCTAATTTGTGAAATTAC
1 TGTAAAATTACCGAAATACCCTCGAGCTTGTAAAATTAATGAAATACCCCAATTTGTAAAATCAC
*
82845012 CAAAATACCCTCAATT
66 CAAAATACCCTCAATG
* * *
82845028 TGTAAAATTATCGAAATACCCTCGA-CTTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATCA
1 TGTAAAATTACCGAAATACCCTCGAGCTTGTAAAATTAATGAAATA-CCCCAATTTGTAAAATCA
* * *
82845092 CCGAAATACTCT-TATAG
65 CCAAAATACCCTCAAT-G
82845109 TGTAAAATTACCGAAATACC
1 TGTAAAATTACCGAAATACC
82845129 TGTGTAGGGT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
80 35 0.42
81 48 0.58
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (81 bp):
TGTAAAATTACCGAAATACCCTCGAGCTTGTAAAATTAATGAAATACCCCAATTTGTAAAATCAC
CAAAATACCCTCAATG
Found at i:82845140 original size:27 final size:27
Alignment explanation
Indices: 82845083--82845143 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
82845073 CCCCCAGTTT
*
82845083 GTAAAATCACCGAAATACTCTTATAGT
1 GTAAAATCACCGAAATACTCTTATAGG
* *
82845110 GTAAAATTACCGAAATAC-CTGTGTAGG
1 GTAAAATCACCGAAATACTCT-TATAGG
82845137 GTAAAAT
1 GTAAAAT
82845144 GACTGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (27 bp):
GTAAAATCACCGAAATACTCTTATAGG
Found at i:82845495 original size:22 final size:22
Alignment explanation
Indices: 82845442--82845506 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 22
82845432 TGTCGCTTAA
*
82845442 TTGATTATGGCTCTGTGCCAAC
1 TTGAATATGGCTCTGTGCCAAC
* * * *
82845464 CTAAAAATGGCTCTGTGCCATC
1 TTGAATATGGCTCTGTGCCAAC
* * *
82845486 TTGACTATGGCTTTATGCCAA
1 TTGAATATGGCTCTGTGCCAA
82845507 ACATATTTAC
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
TTGAATATGGCTCTGTGCCAAC
Found at i:82845641 original size:32 final size:32
Alignment explanation
Indices: 82845605--82845674 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
82845595 ACCGTCGCTA
*
82845605 ATGGCTATGTGCCAAACATAATACAGTTACTG
1 ATGGCTATGTGCCAAACATAATACAGCTACTG
* ** *
82845637 ATGGCTTTGTGCCAATTATAATACTGCTACTG
1 ATGGCTATGTGCCAAACATAATACAGCTACTG
*
82845669 AAGGCT
1 ATGGCT
82845675 TAGAGCTGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (32 bp):
ATGGCTATGTGCCAAACATAATACAGCTACTG
Found at i:82847675 original size:94 final size:96
Alignment explanation
Indices: 82847378--82847697 Score: 338
Period size: 94 Copynumber: 3.4 Consensus size: 96
82847368 AGGGTATAAT
* * * *
82847378 GCCGATGCCATGTCCCGGACATGGTTTTACACTGGCTCATCCATCAA-GTCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCATCAATGCCAATGCCATGTCCCA
* * *
82847442 GACATGGTCTTACACTGACTATCGA-AATCGAA
65 GACATGGTCTTACACTGAATCTC-ATAATCGTA
** *
82847474 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAAATCCGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-C--ATCAATGCCAATGCCATGTCC
* * *
82847539 CAGACATAGTCTTACACT-AA-CACAT-CTCGTA
63 CAGACATGGTCTTACACTGAATCTCATAATCGTA
* *
82847570 GCCGATG-CATGTCCTAGACAT-GTTTTACACTAGCTCTCGTC-TCAATGCCAATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--CATCAATGCCAATGCCATGTCCC
* *
82847632 AGACATGGTCTTACATTGAATCTCATAAT-GTG
64 AGACATGGTCTTACACTGAATCTCATAATCGTA
*
82847664 GCCGATG-CATGTCCCAGACA-AGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
82847698 ACGCAAATAA
Statistics
Matches: 188, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
92 33 0.18
93 2 0.01
94 53 0.28
95 17 0.09
96 48 0.26
97 1 0.01
98 4 0.02
99 30 0.16
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATCAATGCCAATGCCATGTCCCAG
ACATGGTCTTACACTGAATCTCATAATCGTA
Found at i:82872738 original size:36 final size:37
Alignment explanation
Indices: 82872681--82872757 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 37
82872671 ATCCATCAAG
82872681 TCGATGACATGTCCCAAACATGGTCTTACACTAACTA
1 TCGATGACATGTCCCAAACATGGTCTTACACTAACTA
* *
82872718 TCGA-GACATGTCCCAGACATGGTCTTACACTGACTA
1 TCGATGACATGTCCCAAACATGGTCTTACACTAACTA
82872754 TCGA
1 TCGA
82872758 AATCGAGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (37 bp):
TCGATGACATGTCCCAAACATGGTCTTACACTAACTA
Found at i:82872783 original size:49 final size:50
Alignment explanation
Indices: 82872727--82872850 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 50
82872717 ATCGAGACAT
82872727 GTCCCAGACATGGTCTTACACTGACTATCGA-A-A-TCGAGGCCGACGCCAC
1 GTCCCAGACATGGTCTTACACTGACTATC-ACATATTCG-GGCCGACGCCAC
* * * * *
82872776 GTCCCAGACATTGTCTTACACT-AGCTCTCACATATTCGTGCCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGA-CTATCACATATTCGGGCCGACGCCAC
82872826 GTCCCAGACATGGTCTTACACTGAC
1 GTCCCAGACATGGTCTTACACTGAC
82872851 ACATCTCGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
48 2 0.03
49 26 0.41
50 32 0.50
51 4 0.06
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACACTGACTATCACATATTCGGGCCGACGCCAC
Found at i:82872901 original size:46 final size:46
Alignment explanation
Indices: 82872776--82873034 Score: 196
Period size: 46 Copynumber: 5.5 Consensus size: 46
82872766 CCGACGCCAC
*
82872776 GTCCCAGACATTGTCTTACACTAGCTCTCACATATTCGT-GCCGATGCCAT
1 GTCCCAGACA-TGTCTTACACTAGCT-T-ACAT-CTCGTAGCCGATG-CAT
82872826 GTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTAGCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTAG-CTTACATCTCGTAGCCGATGCAT
*
82872871 GTCCCAGACATGTCTTACATTAGCTTACATCTCG-AGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-GCCGATGCAT
* ** * * *
82872917 G-CCCTATACATGTCTTACACTAGCTCT-TGTCTC-AATGCCAAGGCCAT
1 GTCCC-AGACATGTCTTACACTAGCT-TACATCTCGTA-GCCGATG-CAT
* * * * *
82872964 GTCCCAGACATGGTCTTACACTGGCTCTA-ATAAT-ATGGACGATGCAT
1 GTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGTAGCCGATGCAT
82873011 GTCCCAGACATGTCTTACACTAGC
1 GTCCCAGACATGTCTTACACTAGC
82873035 ACACAAAAAA
Statistics
Matches: 174, Mismatches: 19, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
44 10 0.06
45 23 0.13
46 70 0.40
47 24 0.14
48 23 0.13
49 3 0.02
50 21 0.12
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGCCGATGCAT
Found at i:82875421 original size:34 final size:34
Alignment explanation
Indices: 82875365--82875485 Score: 172
Period size: 34 Copynumber: 3.6 Consensus size: 34
82875355 TTAGGGCCTT
82875365 AGCCCATTTCAGT-ACAGTAGCAGTCTGGGCTTG
1 AGCCCATTTCAGTAACAGTAGCAGTCTGGGCTTG
* * *
82875398 AGCCCATTTCAATAACAGTAGCAGTTTGGGCCTG
1 AGCCCATTTCAGTAACAGTAGCAGTCTGGGCTTG
* * * *
82875432 AGCCCATTTTAGTAATAGTATCAATCTGGGCTTG
1 AGCCCATTTCAGTAACAGTAGCAGTCTGGGCTTG
82875466 AGCCCATTTCAGTAACAGTA
1 AGCCCATTTCAGTAACAGTA
82875486 CAATATGAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 12 0.16
34 63 0.84
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
AGCCCATTTCAGTAACAGTAGCAGTCTGGGCTTG
Found at i:82875470 original size:68 final size:67
Alignment explanation
Indices: 82875353--82875485 Score: 194
Period size: 68 Copynumber: 2.0 Consensus size: 67
82875343 TTATAGTTTT
* *
82875353 AGTTAGGGCCTTAGCCCATTTCAGTACAGTAGCAGTCTGGGCTTGAGCCCATTTCAATAACAGTA
1 AGTTAGGGCCTGAGCCCATTTCAGTACAGTAGCAATCTGGGCTTGAGCCCATTTCAATAACAGTA
82875418 GC
66 GC
* * * * *
82875420 AGTTTGGGCCTGAGCCCATTTTAGTAATAGTATCAATCTGGGCTTGAGCCCATTTCAGTAACAGT
1 AGTTAGGGCCTGAGCCCATTTCAGT-ACAGTAGCAATCTGGGCTTGAGCCCATTTCAATAACAGT
82875485 A
65 A
82875486 CAATATGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
67 22 0.38
68 36 0.62
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (67 bp):
AGTTAGGGCCTGAGCCCATTTCAGTACAGTAGCAATCTGGGCTTGAGCCCATTTCAATAACAGTA
GC
Found at i:82877871 original size:49 final size:47
Alignment explanation
Indices: 82877811--82877921 Score: 150
Period size: 49 Copynumber: 2.3 Consensus size: 47
82877801 GTATGAGATA
* *
82877811 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAA--GTG
* * *
82877860 TATATATGTGATAAGGCCTAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTG
*
82877907 TATAAATGTGATAAG
1 TATATATGTGATAAG
82877922 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 17 0.30
49 39 0.70
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTG
Found at i:82879701 original size:27 final size:27
Alignment explanation
Indices: 82879662--82879790 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 27
82879652 CATCACGTAG
* * *
82879662 GGGCAAAACAGTCATCTTACCACCTAA
1 GGGCAAAATAGTCATTTTACCACATAA
* *
82879689 GGGCAAATTAGTCATTTTACCATATAA
1 GGGCAAAATAGTCATTTTACCACATAA
* *
82879716 GGGAAAAAGT-GTCATTTTACCACATGA
1 GGGCAAAA-TAGTCATTTTACCACATAA
* * *
82879743 GGGCAAAATAGTTAGTTTATCACATAA
1 GGGCAAAATAGTCATTTTACCACATAA
*
82879770 GGGTAAAATAGTCATTTTACC
1 GGGCAAAATAGTCATTTTACC
82879791 TTACAGGGGT
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 80 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCACATAA
Found at i:82882140 original size:47 final size:47
Alignment explanation
Indices: 82882065--82882156 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
82882055 TCCGAGTAAG
* * *
82882065 ACCATTGCATCAATATATATGTGCGAGTAAGACCACATTTAATACAA
1 ACCATGGCATCAATATATATATGCGAGTAAGACCACATCTAATACAA
* * * *
82882112 ACCATGGCATCGATATATGTATGGGAGTAAGACCACGTCTAATAC
1 ACCATGGCATCAATATATATATGCGAGTAAGACCACATCTAATAC
82882157 GTTGGCATCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (47 bp):
ACCATGGCATCAATATATATATGCGAGTAAGACCACATCTAATACAA
Found at i:82882220 original size:55 final size:55
Alignment explanation
Indices: 82882121--82882255 Score: 216
Period size: 55 Copynumber: 2.4 Consensus size: 55
82882111 AACCATGGCA
*
82882121 TCGATATATGTATGGGAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTATGCGAGTAAGA-CACGTCTAATACGTTGGCATCGATATGTGATT
* * *
82882177 TCGATATATGTGTGCGAGTAAGACACGTTTAATACGTTGGCATCGATATGTGGTT
1 TCGATATATGTATGCGAGTAAGACACGTCTAATACGTTGGCATCGATATGTGATT
*
82882232 CCGATATATGTATGCGAGTAAGAC
1 TCGATATATGTATGCGAGTAAGAC
82882256 CCTATCTGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 52 0.71
56 21 0.29
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (55 bp):
TCGATATATGTATGCGAGTAAGACACGTCTAATACGTTGGCATCGATATGTGATT
Found at i:82883952 original size:21 final size:21
Alignment explanation
Indices: 82883912--82883952 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
82883902 TTTAGTATTT
*
82883912 TAATTTGTTTTGTTTGATGTA
1 TAATTTGTTTTGTATGATGTA
82883933 TAATTTGTTTTGATAT-ATGT
1 TAATTTGTTTTG-TATGATGT
82883953 TGGACTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.00, G:0.17, T:0.61
Consensus pattern (21 bp):
TAATTTGTTTTGTATGATGTA
Found at i:82886588 original size:29 final size:29
Alignment explanation
Indices: 82886555--82886637 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
82886545 GTGTCGAGAT
82886555 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
82886584 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
82886613 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
82886638 AAAAAAATAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:82903065 original size:28 final size:27
Alignment explanation
Indices: 82903002--82903071 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
82902992 ATAGTGAGTC
82903002 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
82903029 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
82903057 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82903072 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:82910829 original size:28 final size:27
Alignment explanation
Indices: 82910766--82910835 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
82910756 ATAGTGAGTC
82910766 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
82910793 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
82910821 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82910836 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:82911906 original size:18 final size:18
Alignment explanation
Indices: 82911860--82911909 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
82911850 TGAACATTTT
*
82911860 TTTTTCTTTGTTTTCATC
1 TTTTTCTTTTTTTTCATC
* ** *
82911878 ATAATCCTTTTTTTCATC
1 TTTTTCTTTTTTTTCATC
82911896 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
82911910 TTCCATTTCA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTCTTTTTTTTCATC
Found at i:82915693 original size:43 final size:42
Alignment explanation
Indices: 82915646--82915768 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
82915636 AGACGTGGTG
*
82915646 TTACATGTAATCAAATATCGATGCCATTGTCCGAGACAGGGTC
1 TTACATGTAATCAAATATCGATGCCA-TGTCCCAGACAGGGTC
* *
82915689 TTACATGAAATCAAATA-CGATGCCGATGTCCCAGACATGGTC
1 TTACATGTAATCAAATATCGATGCC-ATGTCCCAGACAGGGTC
*
82915731 TTACATGTTAATCTCAA-ATCGATGCCAATGTCCCAGAC
1 TTACATG-TAATC-AAATATCGATGCC-ATGTCCCAGAC
82915769 GTGGCTTACA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
42 28 0.40
43 22 0.31
44 20 0.29
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
TTACATGTAATCAAATATCGATGCCATGTCCCAGACAGGGTC
Found at i:82925424 original size:27 final size:26
Alignment explanation
Indices: 82925384--82925496 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
82925374 AGGAAGCGTC
*
82925384 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
82925411 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
82925438 CTGGTGGCTCTGCGACGATCATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
82925466 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
82925492 CTGGT
1 CTGGT
82925497 AGCCACGCTG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.67
28 16 0.22
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:82925488 original size:54 final size:54
Alignment explanation
Indices: 82925384--82925496 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
82925374 AGGAAGCGTC
* *
82925384 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
82925438 CTGGTGGCTCTGCGACGATCATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATCATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
82925492 CTGGT
1 CTGGT
82925497 AGCCACGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:82927316 original size:42 final size:42
Alignment explanation
Indices: 82927249--82927370 Score: 133
Period size: 44 Copynumber: 2.9 Consensus size: 42
82927239 TCAAATATCG
* *
82927249 ATGCCACCGTCCCAGTCA-GGTTCTTACACGAAA-TCAAATACA
1 ATGCCAACGTCCCAGACACGG-TCTTACACGAAACTCAAAT-CA
* *
82927291 ATGCCGATGTCCCAGACACGGTCTTACACGTAAATCTCAAATCA
1 ATGCCAACGTCCCAGACACGGTCTTACACG-AAA-CTCAAATCA
* *
82927335 ATGCCAACGTCCAAGACGCGGTCTTACACG-AACTCA
1 ATGCCAACGTCCCAGACACGGTCTTACACGAAACTCA
82927371 CATATCGAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 4 0.06
42 25 0.37
43 5 0.07
44 28 0.41
45 6 0.09
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACACGGTCTTACACGAAACTCAAATCA
Found at i:82938986 original size:85 final size:85
Alignment explanation
Indices: 82938834--82938991 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
82938824 TGTAGGGCTC
* * * * *
82938834 ACACGCCCGTGTGACCTTAGGACACGCCCGTGCTGGAGGTGATGTTCGACCCCATGTAACTCTCT
1 ACACACCCATGTGACCCTAGGACACACCCGTGCTAGAGGTGATGTTCGACCCCATGTAACTCTCT
82938899 GACTTGTGGCACAGCCTTGG
66 GACTTGTGGCACAGCCTTGG
* * *
82938919 ACACACCCATGTGACCCTAGGACATACCCGTGCTAGAGGATG-TGTTTGACCCCATGTAGCTCTC
1 ACACACCCATGTGACCCTAGGACACACCCGTGCTAGAGG-TGATGTTCGACCCCATGTAACTCTC
82938983 TGACTTGTG
65 TGACTTGTG
82938992 CATACAGTCG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 62 0.97
86 2 0.03
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.25
Consensus pattern (85 bp):
ACACACCCATGTGACCCTAGGACACACCCGTGCTAGAGGTGATGTTCGACCCCATGTAACTCTCT
GACTTGTGGCACAGCCTTGG
Found at i:82943243 original size:21 final size:22
Alignment explanation
Indices: 82943191--82943243 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
82943181 AAATAAAGTC
*
82943191 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
82943212 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
82943234 CATGTATCAT
1 CATGTATCAT
82943244 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:82956253 original size:39 final size:39
Alignment explanation
Indices: 82956205--82956328 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
82956195 CGAAGTTCGA
*
82956205 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
* *
82956244 ATATAATTCCCGCATATAGCCTACGGACCTTCAGTCCAG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
*
82956283 ATATAATTCCCGCATATAGCCTATGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
82956322 ATATAAT
1 ATATAAT
82956329 CACCATATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:82964722 original size:38 final size:39
Alignment explanation
Indices: 82964631--82964796 Score: 226
Period size: 39 Copynumber: 4.3 Consensus size: 39
82964621 GACTATTAGC
* * ** * **
82964631 CCGGATATAATTCCAGCACATAGCCGGCGAACCCGAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
* * * *
82964670 TCGAATATGATTCCCGCATATAGCCTACAGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
82964709 CC-GATATAATTCCCGCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
82964747 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
82964786 CCGGATATAAT
1 CCGGATATAAT
82964797 CACCATATAT
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 35 0.32
39 76 0.68
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
Found at i:82964731 original size:77 final size:78
Alignment explanation
Indices: 82964631--82964796 Score: 226
Period size: 77 Copynumber: 2.1 Consensus size: 78
82964621 GACTATTAGC
* * *
82964631 CCGGATATAATTCCAGCACATAGCCGGCGAACCCGAAGTTCGAATATGATTCCCGCATATAGCCT
1 CCGGATATAATTCCAGCACATAGCCGACGAACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
82964696 ACAGACCTTAAGT
66 ACAGACCTTAAGT
* * * * ** *
82964709 CC-GATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAATTCCCGCATATAGCCT
1 CCGGATATAATTCCAGCACATAGCCGACGAACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
*
82964773 ACGGACCTTAAGT
66 ACAGACCTTAAGT
82964786 CCGGATATAAT
1 CCGGATATAAT
82964797 CACCATATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
77 66 0.87
78 10 0.13
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCGACGAACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
ACAGACCTTAAGT
Found at i:82973048 original size:3 final size:3
Alignment explanation
Indices: 82973040--82973067 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
82973030 TATCTTGAAT
82973040 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
82973068 GGTTTAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:82974950 original size:3 final size:3
Alignment explanation
Indices: 82974942--82975000 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
82974932 TGAAATATGT
82974942 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82974990 ATA ATA ATA AT
1 ATA ATA ATA AT
82975001 GTAACAAATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:82975065 original size:20 final size:17
Alignment explanation
Indices: 82974950--82975073 Score: 76
Period size: 18 Copynumber: 6.9 Consensus size: 17
82974940 GTATAATAAT
82974950 AATAATAATAATAATAAT-
1 AATAAT-ATAATAA-AATA
82974968 AATAATAATAATAATAAT-
1 AATAAT-ATAATAA-AATA
**
82974986 AATAATAATAATAATGTA
1 AATAAT-ATAATAAAATA
** *
82975004 ACA-AATATTTTACATATA
1 A-ATAATATAATA-AAATA
82975022 AA-AATATAATAAAATA
1 AATAATATAATAAAATA
82975038 AATAATATAATAAGAATA
1 AATAATATAATAA-AATA
*
82975056 TATAACATATAATAAAAT
1 AAT-A-ATATAATAAAAT
82975074 TTATATATAT
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.07
17 23 0.26
18 47 0.52
19 5 0.06
20 9 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AATAATATAATAAAATA
Found at i:82976543 original size:16 final size:15
Alignment explanation
Indices: 82976521--82976558 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
82976511 TATTTATGTG
*
82976521 ATATATATTTGAATA
1 ATATATATATGAATA
82976536 AT-TATATAATGAATA
1 ATATATAT-ATGAATA
82976551 ATATATAT
1 ATATATAT
82976559 GCAAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 10 0.50
16 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
ATATATATATGAATA
Found at i:82977504 original size:87 final size:86
Alignment explanation
Indices: 82977396--82977558 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 86
82977386 GTACATGCTA
* *
82977396 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTATTGAGATGGACT
1 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTAATGAGATAGACT
82977461 TGATGAATTCATTGATATGTG
66 TGATGAATTCATTGATATGTG
* * *
82977482 AGGTTAAGTTTCTTACTTTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCCTAATGAGATAGAC
1 AGGTTAAG-TTCTTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTAATGAGATAGAC
82977547 TTGATGAATTCA
65 TTGATGAATTCA
82977559 CAGAATTTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
86 8 0.11
87 63 0.89
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (86 bp):
AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTAATGAGATAGACT
TGATGAATTCATTGATATGTG
Found at i:82979319 original size:18 final size:17
Alignment explanation
Indices: 82979288--82979321 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
82979278 TATTTTTATA
*
82979288 TTTATATTTTTAATTTG
1 TTTATATTTATAATTTG
82979305 TTTATGATTTATAATTT
1 TTTAT-ATTTATAATTT
82979322 CTTTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTATATTTATAATTTG
Found at i:82979543 original size:15 final size:16
Alignment explanation
Indices: 82979522--82979574 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
82979512 CAGATGAGTG
*
82979522 ACTAAAATATTTAATT
1 ACTAAAATATTTAATA
* * *
82979538 TC-AAAAAATTAAATA
1 ACTAAAATATTTAATA
82979553 ACTAAAATATTTAATA
1 ACTAAAATATTTAATA
*
82979569 ATTAAA
1 ACTAAA
82979575 TAACCAAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
ACTAAAATATTTAATA
Found at i:82985205 original size:26 final size:26
Alignment explanation
Indices: 82985169--82985278 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
82985159 TGATACAAAT
82985169 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
82985195 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
82985221 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
82985247 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
82985273 CGATAA
1 TGATAA
82985279 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:82986950 original size:28 final size:26
Alignment explanation
Indices: 82986885--82986969 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
82986875 AGGAAGCGTC
*
82986885 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGTCACAT-TATCTGTT
82986912 CTGGTGGCTCTGTCACGATTATCTGTAT
1 CTGGTGGCTCTGTCAC-ATTATCTGT-T
* *
82986940 CTGGTGACTCTGTTACATTATCTGTT
1 CTGGTGGCTCTGTCACATTATCTGTT
82986966 CTGG
1 CTGG
82986970 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGTCACATTATCTGTT
Found at i:82991810 original size:44 final size:42
Alignment explanation
Indices: 82991755--82991907 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
82991745 ATCTGAGATA
* * * * *
82991755 TCGTATAAGACCGTATCTGGGACACAGGCCTCG-ATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATCT--GATT
*
82991798 TACGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCGTATCTGATT
* * *
82991841 TCGTGTAAGACCCTGTCTGGGACAGAGGCATTG-ATACTGAGTT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGTAT-CTGA-TT
* * * *
82991884 ACATGTAAGACCACGTCCGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
82991908 TCAGCATTGT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.02
42 33 0.36
43 27 0.29
44 27 0.29
45 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATCTGATT
Found at i:82995738 original size:29 final size:31
Alignment explanation
Indices: 82995684--82995742 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
82995674 TTAAATTTAA
*
82995684 TATCTCCACATTTATCTATTAGAATAAATAC
1 TATCTCCACATTTATCTATCAGAATAAATAC
82995715 TATCT-CA-ATTTCATCTATCA-AATAAATA
1 TATCTCCACATTT-ATCTATCAGAATAAATA
82995743 GATACACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
30 9 0.35
31 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.39
Consensus pattern (31 bp):
TATCTCCACATTTATCTATCAGAATAAATAC
Found at i:82999951 original size:17 final size:17
Alignment explanation
Indices: 82999929--82999962 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
82999919 TTAGATGTTG
82999929 ATTTCTCGTATTTTATT
1 ATTTCTCGTATTTTATT
82999946 ATTTCTCGTATTTTATT
1 ATTTCTCGTATTTTATT
82999963 TTTAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTCTCGTATTTTATT
Found at i:83001025 original size:15 final size:15
Alignment explanation
Indices: 83001007--83001051 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
83000997 TAAGTATAAG
*
83001007 ATATTTAATTATATA
1 ATATATAATTATATA
83001022 ATATATAA-TA-ATA
1 ATATATAATTATATA
*
83001035 ATA-ATAATAATATA
1 ATATATAATTATATA
83001049 ATA
1 ATA
83001052 GTTAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.15
13 7 0.27
14 8 0.31
15 7 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATATAATTATATA
Found at i:83001034 original size:3 final size:3
Alignment explanation
Indices: 83001019--83001051 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
83001009 ATTTAATTAT
83001019 ATA ATA TATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
83001052 GTTAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:83001967 original size:6 final size:6
Alignment explanation
Indices: 83001951--83002012 Score: 79
Period size: 6 Copynumber: 10.2 Consensus size: 6
83001941 ATGAGGTACT
* * *
83001951 CTGTGTA CTGCTA CTGCTA CTGTTA CTGTTA CTGTTA CTGTTA CTATTA
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA
*
83002000 CTATTA CTGTTA C
1 CTGTTA CTGTTA C
83002013 GATGTATTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 48 0.94
7 3 0.06
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
CTGTTA
Found at i:83008485 original size:18 final size:17
Alignment explanation
Indices: 83008464--83008497 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
83008454 TATAATAGTT
83008464 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
83008482 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
83008498 GAACAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:83008512 original size:21 final size:19
Alignment explanation
Indices: 83008487--83008540 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
83008477 GAAACAAAAT
83008487 AGAAAAAGAAAGAACAGAGAA
1 AGAAAAAGAAAGAA-AG-GAA
* *
83008508 TGAAAACGAAATAGAAAGGAA
1 AGAAAAAG-AA-AGAAAGGAA
83008529 AGAAAAAGAAAG
1 AGAAAAAGAAAG
83008541 GAAAAATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 15 0.56
22 4 0.15
23 4 0.15
ACGTcount: A:0.69, C:0.04, G:0.24, T:0.04
Consensus pattern (19 bp):
AGAAAAAGAAAGAAAGGAA
Done.