Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 121 of 196
Found at i:36540956 original size:44 final size:44
Alignment explanation
Indices: 36540864--36540956 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
36540854 CTGAAGTTGT
*** * * *
36540864 AGTGGAGCAGATTGAAGTGACAAACCCTATACCTCTGAAGTTGT
1 AGTGGAGCAGATTGAAACAACAAACCCTATACCTCTGAAATAGC
* *
36540908 AGTGGAGTAGATTGAAACAACAAATCCTATACCTCTGAAATAGC
1 AGTGGAGCAGATTGAAACAACAAACCCTATACCTCTGAAATAGC
36540952 AGTGG
1 AGTGG
36540957 GTTGGAATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAACAACAAACCCTATACCTCTGAAATAGC
Found at i:36542430 original size:11 final size:10
Alignment explanation
Indices: 36542395--36542433 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
36542385 TCATTGAGCA
36542395 TTTATTTATTT
1 TTTA-TTATTT
36542406 TTT-TTATTT
1 TTTATTATTT
36542415 TTTATTATTT
1 TTTATTATTT
36542425 TATTATTAT
1 T-TTATTAT
36542434 CTATTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
11 10 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTATTT
Found at i:36544659 original size:47 final size:47
Alignment explanation
Indices: 36544596--36544942 Score: 586
Period size: 47 Copynumber: 7.4 Consensus size: 47
36544586 CCCTTCGGGA
* *
36544596 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
36544643 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36544690 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36544737 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36544784 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36544831 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36544878 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36544925 CTTATCACATATACACAC
1 CTTATCACATATATACAC
36544943 CTTGTACACC
Statistics
Matches: 281, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 281 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:36544840 original size:22 final size:22
Alignment explanation
Indices: 36544812--36544887 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
36544802 TTTCACATTC
36544812 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
36544834 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
36544858 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
36544881 ATCACAT
1 ATCACAT
36544888 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:36549563 original size:26 final size:26
Alignment explanation
Indices: 36549525--36549575 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
36549515 TGGGGACTTT
36549525 TACCCACACAAGTCCACGTCTACCCC
1 TACCCACACAAGTCCACGTCTACCCC
* * *
36549551 TACCCATATAAGTCCACTTCTACCC
1 TACCCACACAAGTCCACGTCTACCC
36549576 ATACATCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.45, G:0.06, T:0.22
Consensus pattern (26 bp):
TACCCACACAAGTCCACGTCTACCCC
Found at i:36551275 original size:8 final size:9
Alignment explanation
Indices: 36551255--36551279 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36551245 ATTAAGTTAA
36551255 TTTTAAAGT
1 TTTTAAAGT
36551264 TTTTAAAGT
1 TTTTAAAGT
36551273 TTTTAAA
1 TTTTAAA
36551280 TTTATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
TTTTAAAGT
Found at i:36553810 original size:25 final size:25
Alignment explanation
Indices: 36553751--36553840 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
36553741 TATATATAAG
* *
36553751 AATGAAT-AAATTTTCTACAAAAAAA
1 AATGAATAAAATTGTATAC-AAAAAA
* * * *
36553776 AACGAGTAAACTTGTATGCAAAAAA
1 AATGAATAAAATTGTATACAAAAAA
* *
36553801 AATGAATAAAATTGTCTACAAAACA
1 AATGAATAAAATTGTATACAAAAAA
*
36553826 AATGAATAAATTTGT
1 AATGAATAAAATTGT
36553841 TAACGAGGTT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 44 0.86
26 7 0.14
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (25 bp):
AATGAATAAAATTGTATACAAAAAA
Found at i:36563507 original size:41 final size:41
Alignment explanation
Indices: 36563462--36563539 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
36563452 AGGCTGCACT
** *
36563462 GAAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTGAGC
1 GAAGCACATAAGAACTAAACAGAAACCCATAAGGGTTGAGC
* * * *
36563503 GAAGCTCATAGGAACTGAACAGAAACCCATTAGGGTT
1 GAAGCACATAAGAACTAAACAGAAACCCATAAGGGTT
36563540 AACCATAAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (41 bp):
GAAGCACATAAGAACTAAACAGAAACCCATAAGGGTTGAGC
Found at i:36563672 original size:23 final size:24
Alignment explanation
Indices: 36563646--36563758 Score: 140
Period size: 23 Copynumber: 4.7 Consensus size: 24
36563636 AAAATTTACT
36563646 GTCAATTCATCCTTTACA-TTTCC
1 GTCAATTCATCCTTTACATTTTCC
36563669 GTCAATTCATCCTTTACAATTTTTCC
1 GTCAATTCATCCTTTAC-A-TTTTCC
* * * *
36563695 GTTAGTTCTTCTTTTACATTTTCC
1 GTCAATTCATCCTTTACATTTTCC
* *
36563719 GTTAATTAATCCTTTACATTTT-C
1 GTCAATTCATCCTTTACATTTTCC
36563742 GTCAATTCATCCTTTAC
1 GTCAATTCATCCTTTAC
36563759 CAAGAATGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
23 33 0.43
24 25 0.32
25 1 0.01
26 18 0.23
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.49
Consensus pattern (24 bp):
GTCAATTCATCCTTTACATTTTCC
Found at i:36564618 original size:18 final size:17
Alignment explanation
Indices: 36564576--36564618 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
36564566 AACCATTAAA
36564576 TCCAATTTTTATCTATT
1 TCCAATTTTTATCTATT
* *
36564593 T-TAATTTTTATTTCATT
1 TCCAATTTTTATCT-ATT
36564610 TCCAATTTT
1 TCCAATTTT
36564619 ACCCTTAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
TCCAATTTTTATCTATT
Found at i:36570689 original size:24 final size:24
Alignment explanation
Indices: 36570641--36570686 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
36570631 TTTTGAGATA
* *
36570641 TTTATAAAATATATTTTCCAAAAT
1 TTTATAAAATATATATTCAAAAAT
36570665 TTTAT-AAATATATATTCAAAAA
1 TTTATAAAATATATATTCAAAAA
36570687 ATTCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTATAAAATATATATTCAAAAAT
Found at i:36572569 original size:28 final size:29
Alignment explanation
Indices: 36572532--36572590 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
36572522 TAATTAGTCA
36572532 TATAATAAATAATTAAT-T-ATTTATATTT
1 TATAATAAAT-ATTAATATAATTTATATTT
*
36572560 TATAATAAATATTAATATAATTTTTATTT
1 TATAATAAATATTAATATAATTTATATTT
36572589 TA
1 TA
36572591 AAAATTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 11 0.39
29 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TATAATAAATATTAATATAATTTATATTT
Found at i:36572626 original size:20 final size:18
Alignment explanation
Indices: 36572603--36572645 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
36572593 AATTAATTTT
36572603 AATATTTCAATATTATTAAA
1 AATATTT-AATATT-TTAAA
*
36572623 AATAATTTAATATTTTAAT
1 AAT-ATTTAATATTTTAAA
36572642 AATA
1 AATA
36572646 AATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 7 0.33
20 9 0.43
21 4 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATTTAATATTTTAAA
Found at i:36572642 original size:28 final size:29
Alignment explanation
Indices: 36572584--36572642 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
36572574 ATATAATTTT
36572584 TATTTTAAAAATTAATTTTAATATTTCAA
1 TATTTTAAAAATTAATTTTAATATTTCAA
*
36572613 TATTATTAAAAA-TAA-TTTAATATTTTAA
1 TATT-TTAAAAATTAATTTTAATATTTCAA
36572641 TA
1 TA
36572643 ATAAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 14 0.50
29 7 0.25
30 7 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TATTTTAAAAATTAATTTTAATATTTCAA
Found at i:36572651 original size:15 final size:15
Alignment explanation
Indices: 36572631--36572687 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
36572621 AAAATAATTT
36572631 AATATTTTAATAATA
1 AATATTTTAATAATA
*
36572646 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
36572665 AATATATTAATAATA
1 AATATTTTAATAATA
*
36572680 AATGTTTT
1 AATATTTT
36572688 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36575347 original size:29 final size:31
Alignment explanation
Indices: 36575301--36575364 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
36575291 AACGATTAAA
**
36575301 TCCCCAGAAACTGGTAAAA-TTGTTATAAGG
1 TCCCCAGAAACTAATAAAATTTGTTATAAGG
36575331 TCCCCA-AAACTAATAAAATTTGTTATAAGG
1 TCCCCAGAAACTAATAAAATTTGTTATAAGG
36575361 TCCC
1 TCCC
36575365 TTTAGAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (31 bp):
TCCCCAGAAACTAATAAAATTTGTTATAAGG
Found at i:36590464 original size:11 final size:11
Alignment explanation
Indices: 36590450--36590479 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
36590440 AAAATAGTAA
36590450 ATAAATAATAT
1 ATAAATAATAT
36590461 ATAAATAATAT
1 ATAAATAATAT
36590472 ATAAATAA
1 ATAAATAA
36590480 ATGAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:36591455 original size:15 final size:14
Alignment explanation
Indices: 36591414--36591457 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
36591404 CAGATTACAA
*
36591414 TATTTTTTTTTGTCC
1 TATTTTTTTTTGT-T
*
36591429 TATTGTTTTTTGTT
1 TATTTTTTTTTGTT
36591443 TATTTTTTCTTTGTT
1 TATTTTTT-TTTGTT
36591458 GTCCCCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.77
Consensus pattern (14 bp):
TATTTTTTTTTGTT
Found at i:36591742 original size:22 final size:23
Alignment explanation
Indices: 36591703--36591760 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
36591693 TAAATGGACT
**
36591703 TTTGATATTTGGACTTATTTATTTA
1 TTTG-TATTTGGTTTTATTTA-TTA
36591728 TTT-T-TTTGGTTTTATTTATTA
1 TTTGTATTTGGTTTTATTTATTA
36591749 TTTGTATTTGGT
1 TTTGTATTTGGT
36591761 CTTGGGCCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 6 0.21
22 13 0.45
23 7 0.24
25 3 0.10
ACGTcount: A:0.17, C:0.02, G:0.14, T:0.67
Consensus pattern (23 bp):
TTTGTATTTGGTTTTATTTATTA
Found at i:36592175 original size:44 final size:44
Alignment explanation
Indices: 36592047--36592861 Score: 397
Period size: 44 Copynumber: 17.9 Consensus size: 44
36592037 GATTCATCGT
* * ** **
36592047 TTTAA-CTCGCTCCACTGCAACTTTAGGGAGATAGGATTAATAAC
1 TTTAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
* * * *
36592091 TTCAATCTACTCCACTGCAACTTCAGGAAGATAAGGTTTGTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
* *
36592135 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCCCGTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-G---G-C
* * * *
36592184 TTCAATCCGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCCCGTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-G---G-C
* *
36592233 TTCAATCTGCTCCACTGCAACTTCGGGGAGATAA-AGTTTGTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTGGC
* *
36592277 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-G---G-C
* * ***
36592326 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--TGTGGC
* * * * * *
36592372 TTTAACCTGTTCCACTGTAACTTCAAGGAGAAAAGGTTTGTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
* * **
36592416 TTTAATCTGCTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTGTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-G---G-C
* * * ***
36592465 TTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTGGCTTATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TGGC
* ** * * *
36592511 TTTAACCTATTCCACTGCAACTTTAGGGAGATAA-AGTT-T-GA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
* * * * * **
36592552 TATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGGC
* * * * * **
36592597 TTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
* * **
36592641 TTTAACCTACTCCACTATAACTTCAGGGAGAT-A-ATGTT-T-GC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGTGGC
* * ** ** * **
36592682 TATGATCTGCTCTGCTGCAACTTCAAAGAGATAAGATCTGCAATTTATAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTGGC
* * * * * * * **
36592733 TTCAATCTGTTCTATTTCAACTTCAGGGAAATAAGATTCGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGGC
* * * * * * ***
36592778 TTCAGTCTGCTCCACTGCAACTTCATGGAGATAATACTAGTAAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
* *
36592822 TTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
36592862 CTAGGATCTT
Statistics
Matches: 588, Mismatches: 144, Indels: 78
0.73 0.18 0.10
Matches are distributed among these distances:
41 49 0.08
42 5 0.01
43 3 0.01
44 208 0.35
45 72 0.12
46 62 0.11
48 5 0.01
49 154 0.26
50 4 0.01
51 26 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC
Found at i:36592205 original size:49 final size:49
Alignment explanation
Indices: 36592090--36592502 Score: 360
Period size: 49 Copynumber: 8.8 Consensus size: 49
36592080 GGATTAATAA
* * *
36592090 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGGTTTGT-G---G-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
* * *
36592134 CTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCCCGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
* * *
36592183 CTTCAATCCGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCCCGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
*
36592232 CTTCAATCTGCTCCACTGCAACTTCGGGGAGATAA-AGTTTGT-G---G-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCCCGT
* * * *
36592276 CTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
****
36592325 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-A-TTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
* * * * * * * *
36592371 TTTTAACCTGTTCCACTGTAACTTCAAGGAGAAAAGGTTTGT-G---G-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
* * * ** **
36592415 CTTTAATCTGCTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
* * *
36592464 CTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
36592503 GGCTTATTTT
Statistics
Matches: 304, Mismatches: 45, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
44 108 0.36
45 5 0.02
46 31 0.10
47 4 0.01
48 8 0.03
49 148 0.49
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (49 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGT
Found at i:36592216 original size:93 final size:96
Alignment explanation
Indices: 36592094--36592502 Score: 382
Period size: 93 Copynumber: 4.4 Consensus size: 96
36592084 TAATAACTTC
* * * * *
36592094 AATCTACTCCACTGCAACTTCAGGAAGATAAGGTTTGT-G-G-CTTTAATCTACTCCACTGCAAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCGTCTTCAATCTGCTCCACTGCAAC
** *
36592156 TTCAGAGAGATAAGATTTGTAGCCCGTCTTC
66 TTCAGAGAGATAAGATTTGTAGCTTGTCTTT
* * *
36592187 AATCCGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTGCTCCACTGCA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAG--CGTCTTCAATCTGCTCCACTGCA
* *
36592252 ACTTCGGGGAGATAA-AGTTTGT-G---G-CTTT
64 ACTTCAGAGAGATAAGA-TTTGTAGCTTGTCTTT
* *
36592280 AATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGTCTTCAATCTGCTCCACTGCA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-C-GTCTTCAATCTGCTCCACTGCA
* * * *
36592345 ACTTCAGGGAGATAAGA-TTG-A-TTTATTTTT
64 ACTTCAGAGAGATAAGATTTGTAGCTTGTCTTT
* * * * * * * * *
36592375 AACCTGTTCCACTGTAACTTCAAGGAGAAAAGGTTTGT-G-G-CTTTAATCTGCTCTATTGCAAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCGTCTTCAATCTGCTCCACTGCAAC
36592437 TTCA-ATGAGATAAGATTTGTAGCTTGTCTTT
66 TTCAGA-GAGATAAGATTTGTAGCTTGTCTTT
* *
36592468 AATCTGTTCCACTGCAACTTCAAGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
36592503 GGCTTATTTT
Statistics
Matches: 263, Mismatches: 36, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
90 32 0.12
91 4 0.02
92 6 0.02
93 143 0.54
94 4 0.02
95 35 0.13
97 3 0.01
98 36 0.14
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (96 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCGTCTTCAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGATTTGTAGCTTGTCTTT
Found at i:36592402 original size:46 final size:46
Alignment explanation
Indices: 36592276--36592544 Score: 184
Period size: 49 Copynumber: 5.8 Consensus size: 46
36592266 AAGTTTGTGG
* * * * * * *
36592276 CTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGA-TTG-A-CTTAT
* * * * *
36592325 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTAT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACTTAT
* * * * **
36592371 TTTTAACCTGTTCCACTGTAACTTCAAGGAGAAAAGGTT---TGTGG
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACT-TAT
* * * * * *
36592415 CTTTAATCTGCTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTGT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGA-TTG-A-CTTAT
* *
36592464 CTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTGGCTTAT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACTTAT
* * * *
36592510 TTTTAACCTATTCCACTGCAACTTTAGGGAGATAA
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAA
36592545 AGTTTGATAT
Statistics
Matches: 176, Mismatches: 37, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
43 1 0.01
44 29 0.16
45 2 0.01
46 67 0.38
47 1 0.01
48 6 0.03
49 69 0.39
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (46 bp):
CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACTTAT
Found at i:36592455 original size:139 final size:138
Alignment explanation
Indices: 36592055--36592718 Score: 590
Period size: 139 Copynumber: 4.9 Consensus size: 138
36592045 GTTTTAACTC
* * * * * *
36592055 GCTCCACTGCAACTTTAGGGAGATAGGA-TT-A-ATAACTTCAATCTACTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGACTTATCTTTAACCTACTCCACTGCAACTTCAG
* * * * *
36592117 GAAGATAAGGTTTGTGGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCCCG
66 GGAGA-AAAGTTTGTGGCTTTAATCTGCTCTACTGCAACTTCA-AGAGATAAGATTTGTAGCCTG
*
36592182 TCTTCAATCC
129 TCTTCAATCT
* * * *** * * *
36592192 GCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTGCTCCACTGCAACTTC
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTG-A-CTTATCTTTAACCTACTCCACTGCAACTTC
* * * * *
36592257 GGGGAGATAAAGTTTGTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCC
64 AGGGAGA-AAAGTTTGTGGCTTTAATCTGCTCTACTGCAACTTCA-AGAGATAAGATTTGTAGCC
36592322 TGTCTTCAATCT
127 TGTCTTCAATCT
* * ** * *
36592334 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGATTTATTTTTAACCTGTTCCACTGTAACTTCAA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGACTTATCTTTAACCTACTCCACTGCAACTTCAG
* *
36592398 GGAGAAAAGGTTTGTGGCTTTAATCTGCTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTG
66 GGAGAAAA-GTTTGTGGCTTTAATCTGCTCTACTGCAACTTCAA-GAGATAAGATTTGTAGCCTG
*
36592463 TCTTTAATCT
129 TCTTCAATCT
* * * * * *
36592473 GTTCCACTGCAACTTCAAGGAGATAAGA-TTGGCTTATTTTTAACCTATTCCACTGCAACTTTAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGACTTATCTTTAACCTACTCCACTGCAACTTCAG
* * * * *
36592537 GGAGATAAAG-TT-T-GATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA--T-TCG-CTA
66 GGAGA-AAAGTTTGTGGCTTTAATCTGCTCTACTGCAACTTCA-AGAGATAAGATTTGTAGCCTG
*
36592595 TCTTCAGTCT
129 TCTTCAATCT
* * * **
36592605 GCTCCACTGTAACTTTAGGGAGATAAGACTTG---TAACTTTAACCTACTCCACTATAACTTCAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGACTTATCTTTAACCTACTCCACTGCAACTTCAG
* * * *
36592667 GGAGATAA-TGTT-T-GCTATGATCTGCTCTGCTGCAACTTCAAAGAGATAAGAT
66 GGAGAAAAGT-TTGTGGCTTTAATCTGCTCTACTGCAACTTC-AAGAGATAAGAT
36592719 CTGCAATTTA
Statistics
Matches: 447, Mismatches: 66, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
129 2 0.00
130 66 0.15
131 1 0.00
132 33 0.07
133 5 0.01
134 1 0.00
136 32 0.07
137 28 0.06
138 7 0.02
139 146 0.33
140 5 0.01
141 3 0.01
142 118 0.26
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (138 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGACTTATCTTTAACCTACTCCACTGCAACTTCAG
GGAGAAAAGTTTGTGGCTTTAATCTGCTCTACTGCAACTTCAAGAGATAAGATTTGTAGCCTGTC
TTCAATCT
Found at i:36592583 original size:87 final size:86
Alignment explanation
Indices: 36592469--36592630 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 86
36592459 CTTGTCTTTA
* * * * *
36592469 ATCTGTTCCACTGCAACTTCAAGGAGATAAGATTGGCTTATTTTTAACCTATTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGC-TATCTTCAACCTACTCCACTGCAACTT
36592534 TAGGGAGATAAAGTTTGATATG
65 TAGGGAGATAAAGTTTGATATG
* ** * *
36592556 ATCTGCTCTACTGCAACTTC-AGAGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTT
1 ATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTCGCTATCTTCAACCTACTCCACTGCAACTT
36592620 TAGGGAGATAA
65 TAGGGAGATAA
36592631 GACTTGTAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 33 0.52
87 31 0.48
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (86 bp):
ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATCTTCAACCTACTCCACTGCAACTTT
AGGGAGATAAAGTTTGATATG
Found at i:36593789 original size:6 final size:6
Alignment explanation
Indices: 36593778--36593832 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
36593768 TTGGCCTCTC
36593778 CTTTTT CTTTTT CTTCTTTT CCTTTTT C-TTTT CTTTTT CTCTTTT -TTTTT
1 CTTTTT CTTTTT C-T-TTTT -CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT
36593828 -TTTTT
1 CTTTTT
36593833 TGAAATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
5 14 0.32
6 15 0.34
7 9 0.20
8 5 0.11
9 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:36593801 original size:21 final size:21
Alignment explanation
Indices: 36593774--36593833 Score: 76
Period size: 19 Copynumber: 3.0 Consensus size: 21
36593764 TACCTTGGCC
36593774 TCTCCTTTTTCTTTTTCTTCTT
1 TCTCCTTTTTCTTTTTCTT-TT
36593796 T-TCCTTTTTC-TTTTCTTTT
1 TCTCCTTTTTCTTTTTCTTTT
36593815 TCT-CTTTTT-TTTTT-TTTT
1 TCTCCTTTTTCTTTTTCTTTT
36593833 T
1 T
36593834 GAAATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.14
19 13 0.36
20 8 0.22
21 9 0.25
22 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TCTCCTTTTTCTTTTTCTTTT
Found at i:36593802 original size:15 final size:15
Alignment explanation
Indices: 36593778--36593807 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36593768 TTGGCCTCTC
*
36593778 CTTTTTCTTTTTCTT
1 CTTTTCCTTTTTCTT
36593793 CTTTTCCTTTTTCTT
1 CTTTTCCTTTTTCTT
36593808 TTCTTTTTCT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTCCTTTTTCTT
Found at i:36593808 original size:12 final size:11
Alignment explanation
Indices: 36593778--36593830 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
36593768 TTGGCCTCTC
36593778 CTTTTTC-TTT
1 CTTTTTCTTTT
*
36593788 -TTCTTCTTTT
1 CTTTTTCTTTT
36593798 CCTTTTTCTTTT
1 -CTTTTTCTTTT
36593810 CTTTTTCTCTTT
1 CTTTTTCT-TTT
36593822 -TTTTT-TTTT
1 CTTTTTCTTTT
36593831 TTTGAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 8 0.22
10 4 0.11
11 13 0.35
12 12 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:36596166 original size:10 final size:10
Alignment explanation
Indices: 36596153--36596177 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36596143 AAATATGTAA
36596153 ATATATATGT
1 ATATATATGT
36596163 ATATATATGT
1 ATATATATGT
36596173 ATATA
1 ATATA
36596178 AAAATATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
ATATATATGT
Found at i:36596384 original size:3 final size:3
Alignment explanation
Indices: 36596376--36596438 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
36596366 TAAATGAGTA
*
36596376 AAT AAT AAT AAT AAT AAT ACA- AA- AAT AAT AAT -AT GAT -AT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
36596418 AAT -AT AAT AAT GAAT AGAT AA
1 AAT AAT AAT AAT -AAT A-AT AA
36596439 GTATAAAAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
2 9 0.17
3 37 0.70
4 7 0.13
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:36596424 original size:8 final size:8
Alignment explanation
Indices: 36596377--36596428 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
36596367 AAATGAGTAA
36596377 ATAATAAT
1 ATAATAAT
36596385 AATAATAAT
1 -ATAATAAT
* *
36596394 ACAAAAAT
1 ATAATAAT
36596402 AATAATATGAT
1 -ATAATA--AT
36596413 ATAATAAT
1 ATAATAAT
36596421 ATAATAAT
1 ATAATAAT
36596429 GAATAGATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
8 16 0.44
9 12 0.33
10 6 0.17
11 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
ATAATAAT
Found at i:36598753 original size:404 final size:404
Alignment explanation
Indices: 36598004--36598802 Score: 1375
Period size: 404 Copynumber: 2.0 Consensus size: 404
36597994 TTATTGTATG
*
36598004 CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTGATTCTAGTTCAATT
1 CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTAATTCTAGTTCAATT
* * *
36598069 CCATTAGAACAACTTTACTAGAAAACAAGTTTTTTTACATAAAGCGGGTACATATACGGTATCAC
66 CCATTAGAAAAACTTTACTAGAAAACAAGTTTCTTTACATAAAGCGGGTACATATACGGCATCAC
*
36598134 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCCGACTCTG
131 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCCGACTCTA
* * *
36598199 ATTCATCTTTCAAGCTTTGAACGGCTGGGGTCTGCAAGTGGTCAGCTACTTCTCGTACTCAAACC
196 ATTCATATTTCAAGCTTTGAACGGCTGGGGTCTGCAAGTGGTCAGCCACTTATCGTACTCAAACC
* * *
36598264 AAAGCTTTGCTCATGACGTGGTCCATATCTCTAACCTTCCTCTCTCATAGGCTGTCACCTTTCGC
261 AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTTCCTCTCTCACAGGCTGTCACCTTTCAC
36598329 TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTGTCTTTCGCTTTATCAAGAAACCCAT
326 TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTGTCTTTCGCTTTATCAAGAAACCCAT
36598394 TTTCCATTACATAT
391 TTTCCATTACATAT
*
36598408 CAATGAAATGTAATGTTAATGAATGGAAAAGATGCATGCAAAAAGGCGTTAATTCTAGTTCAATT
1 CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTAATTCTAGTTCAATT
* * * *
36598473 CCATTAGAAAAATTTTACTAGAAAACAAGTTTCTTTAGATAAAGCGGTTACATATACGGCATCGC
66 CCATTAGAAAAACTTTACTAGAAAACAAGTTTCTTTACATAAAGCGGGTACATATACGGCATCAC
* *
36598538 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATTCTTAGCCTTGATCCGACTCTA
131 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCCGACTCTA
** *
36598603 ATTCATATTTCTGGCTTTGAACGGCTGGGGTCTGCAAGTGGTCAGCCACTTATCGTACTCGAACC
196 ATTCATATTTCAAGCTTTGAACGGCTGGGGTCTGCAAGTGGTCAGCCACTTATCGTACTCAAACC
*
36598668 AAAGCTTCGCTCATGACGTGGTCTATATCTCTAA-CTTGCCTCTCTCACAGGCTGTCACCTTTCA
261 AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTT-CCTCTCTCACAGGCTGTCACCTTTCA
*
36598732 CTTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTGTCTTTCGCTTTATCAAGAAATCCA
325 CTTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTGTCTTTCGCTTTATCAAGAAACCCA
36598797 TTTTCC
390 TTTTCC
36598803 CTGACAAGCT
Statistics
Matches: 371, Mismatches: 23, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
403 3 0.01
404 368 0.99
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (404 bp):
CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTAATTCTAGTTCAATT
CCATTAGAAAAACTTTACTAGAAAACAAGTTTCTTTACATAAAGCGGGTACATATACGGCATCAC
CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCCGACTCTA
ATTCATATTTCAAGCTTTGAACGGCTGGGGTCTGCAAGTGGTCAGCCACTTATCGTACTCAAACC
AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTTCCTCTCTCACAGGCTGTCACCTTTCAC
TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTGTCTTTCGCTTTATCAAGAAACCCAT
TTTCCATTACATAT
Found at i:36603504 original size:29 final size:31
Alignment explanation
Indices: 36603448--36603506 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
36603438 AATTTCATAT
* *
36603448 CTTAATGTGAGAACAATTGTCAAGTTTAAGC
1 CTTAATATGAGAACAATTGTCAAATTTAAGC
36603479 CTTAATATGAG-AC-ATTGTCAAATTTAAG
1 CTTAATATGAGAACAATTGTCAAATTTAAG
36603507 GATTAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.54
30 2 0.08
31 10 0.38
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (31 bp):
CTTAATATGAGAACAATTGTCAAATTTAAGC
Found at i:36606701 original size:31 final size:31
Alignment explanation
Indices: 36606638--36606705 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
36606628 TTAACAGCCT
* *
36606638 AGTGATTTAAATAAAAACTTTTGAGTAATTC
1 AGTGACTTAAATAAAAACTTTTGAATAATTC
* *
36606669 AGTGACTTAAATGAAAACTTTCT-AATAGTTC
1 AGTGACTTAAATAAAAACTTT-TGAATAATTC
36606700 AGTGAC
1 AGTGAC
36606706 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAATTC
Found at i:36608980 original size:46 final size:47
Alignment explanation
Indices: 36608912--36609011 Score: 193
Period size: 46 Copynumber: 2.1 Consensus size: 47
36608902 ACTTTCATAC
36608912 CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
1 CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
36608959 CAAGCT-AGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
1 CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
36609005 CAAGCTG
1 CAAGCTG
36609012 TCTTCATCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 46 0.88
47 6 0.12
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (47 bp):
CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
Found at i:36610757 original size:41 final size:42
Alignment explanation
Indices: 36610706--36610908 Score: 205
Period size: 42 Copynumber: 4.8 Consensus size: 42
36610696 CAAACAAAAA
*
36610706 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTT-TAAG
1 CGCCGCTAAAGGACATGTTCTTTAGCGGCGTTTTTTTATAAG
* *
36610747 CGCCTCTAAA-GAGCATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGGA-CATGTTCTTTAGCGGCGTTTTTTTATAAG
* * * *
36610789 CGACGCTAAAGAACATGTTCTTTAGTGGCG-ATTTTTATTAAG
1 CGCCGCTAAAGGACATGTTCTTTAGCGGCGTTTTTTTA-TAAG
* * * * * * *
36610831 CACCGCTAAAGAACATGATCCTTAGCGGTGCTTTTTTTACAAA
1 CGCCGCTAAAGGACATGTTCTTTAGCGGCG-TTTTTTTATAAG
* * *
36610874 CGCCGCTAAAAGAAATGTTCTTTAGCGGCGCTTTT
1 CGCCGCTAAAGGACATGTTCTTTAGCGGCGTTTTT
36610909 ATACAAAAAC
Statistics
Matches: 131, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
40 1 0.01
41 38 0.29
42 60 0.46
43 26 0.20
44 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGGACATGTTCTTTAGCGGCGTTTTTTTATAAG
Found at i:36610858 original size:84 final size:84
Alignment explanation
Indices: 36610703--36610910 Score: 242
Period size: 84 Copynumber: 2.5 Consensus size: 84
36610693 TTACAAACAA
* ** * * * * * *
36610703 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTTTAAGCGCCTCTAAAGAGCATGTTCT
1 AAACGACGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATTAAGCACCGCTAAAGAACATGATCC
36610768 TTAGCGGCG-TTTTTTT-C
66 TTAGCGGCGCTTTTTTTAC
* *
36610785 TAAGCGACGCTAAAGAACATGTTCTTTAGTGGCGATTTTTATTAAGCACCGCTAAAGAACATGAT
1 -AAACGACGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTATTAAGCACCGCTAAAGAACATGAT
*
36610850 CCTTAGCGGTGCTTTTTTTAC
64 CCTTAGCGGCGCTTTTTTTAC
* *
36610871 AAACGCCGCTAAAAGAA-ATGTTCTTTAGCGGCGCTTTTAT
1 AAACGACGCT-AAAGAACATGTTCTTTAGCGGCGTTTTTAT
36610911 ACAAAAACGC
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
83 28 0.27
84 40 0.38
85 30 0.29
86 7 0.07
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (84 bp):
AAACGACGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATTAAGCACCGCTAAAGAACATGATCC
TTAGCGGCGCTTTTTTTAC
Found at i:36611313 original size:21 final size:21
Alignment explanation
Indices: 36611289--36611339 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
36611279 TTCTTTTGAA
36611289 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
36611310 CCTCTGCTTCTCTCGTTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
36611331 CCTCTGCTT
1 CCTCTGCTT
36611340 TAAGTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.43, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:36611392 original size:87 final size:87
Alignment explanation
Indices: 36611224--36611383 Score: 266
Period size: 87 Copynumber: 1.8 Consensus size: 87
36611214 TTCTACTCTG
*
36611224 CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
** *
36611289 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* *
36611311 CTCTGCTTCTCTCGTTGCCGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
36611376 CCTCAACT
66 CCTCAACT
36611384 GTGGTCGCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.12, C:0.29, G:0.17, T:0.41
Consensus pattern (87 bp):
CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:36616436 original size:26 final size:26
Alignment explanation
Indices: 36616404--36616461 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
36616394 TTAAAACGCC
36616404 AGTTATAACCATAAATGAGTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
* *
36616430 ATTTATAACCATAAATGATTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
36616456 AGTTAT
1 AGTTAT
36616462 GTAAGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (26 bp):
AGTTATAACCATAAATGAGTTATGTA
Found at i:36616463 original size:9 final size:9
Alignment explanation
Indices: 36616449--36616744 Score: 243
Period size: 9 Copynumber: 33.4 Consensus size: 9
36616439 CATAAATGAT
36616449 TTATGTAAG
1 TTATGTAAG
36616458 TTATGTAAG
1 TTATGTAAG
* *
36616467 TTATTTAGG
1 TTATGTAAG
**
36616476 CAATGT-A-
1 TTATGTAAG
*
36616483 TTATGTAAA
1 TTATGTAAG
*
36616492 TAATGTAAG
1 TTATGTAAG
*
36616501 TTA-GGAATG
1 TTATGTAA-G
36616510 TTATGT-A-
1 TTATGTAAG
36616517 TTATGTAAG
1 TTATGTAAG
*
36616526 TTATTTAAG
1 TTATGTAAG
36616535 TTATGTAAG
1 TTATGTAAG
* *
36616544 TTATTTAAT
1 TTATGTAAG
36616553 TTATGTAAG
1 TTATGTAAG
36616562 TTATGTAAG
1 TTATGTAAG
* *
36616571 TTATTTAGG
1 TTATGTAAG
**
36616580 CAATGT-A-
1 TTATGTAAG
*
36616587 TTATGTAAA
1 TTATGTAAG
*
36616596 TAATGTAAG
1 TTATGTAAG
*
36616605 TTA-GGAAGG
1 TTATGTAA-G
36616614 TTATGT-A-
1 TTATGTAAG
36616621 TTATGTAAG
1 TTATGTAAG
*
36616630 TTATTTAATAAG
1 TTA--T-GTAAG
36616642 TTATGTAAG
1 TTATGTAAG
* *
36616651 TTATTTAAT
1 TTATGTAAG
36616660 TTATGTAAG
1 TTATGTAAG
36616669 TTATGTAAG
1 TTATGTAAG
* *
36616678 TTATTTAAT
1 TTATGTAAG
*
36616687 TTATGTAAC
1 TTATGTAAG
36616696 TTATGTAAG
1 TTATGTAAG
36616705 TTATGTAAG
1 TTATGTAAG
* *
36616714 TTATTTAAT
1 TTATGTAAG
*
36616723 TTATGTAAC
1 TTATGTAAG
36616732 TTATGTAAG
1 TTATGTAAG
36616741 TTAT
1 TTAT
36616745 TTAGGCAATG
Statistics
Matches: 224, Mismatches: 48, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
7 20 0.09
8 10 0.04
9 183 0.82
10 3 0.01
11 1 0.00
12 7 0.03
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36616498 original size:34 final size:34
Alignment explanation
Indices: 36616449--36616777 Score: 197
Period size: 34 Copynumber: 9.6 Consensus size: 34
36616439 CATAAATGAT
*
36616449 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * * * * **
36616483 TTATGTAAATAATGTAAGTTAGGAATGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * ** *
36616517 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGT-A
*
36616552 TTTATGTAAGTTATGTAAGTTATTTAGGCAATGTA
1 -TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * * * **
36616587 TTATGTAAATAATGTAAGTTAGGAAGGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * ** *
36616621 TTATGTAAGTTATTTAATAAGTTATGTAAGTTATTTAA
1 TTATGTAAGTTA--T-GTAAGTTATGTAGGCAATGT-A
*
36616659 TTTATGTAAGTTATGTAAGTTAT-T---TAA--T-
1 -TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * ** *
36616687 TTATGTAACTTATGTAAGTTATGTAAGTTATTTAA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGT-A
* *
36616722 TTTATGTAACTTATGTAAGTTATTTAGGCAATGTA
1 -TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * *
36616757 CTATGTTAGTTAT-TATGTTAT
1 TTATGTAAGTTATGTAAGTTAT
36616778 TATATAAGTT
Statistics
Matches: 231, Mismatches: 48, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
27 21 0.09
28 1 0.00
30 1 0.00
31 2 0.01
32 2 0.01
33 8 0.03
34 99 0.43
35 4 0.02
36 64 0.28
37 16 0.07
38 1 0.00
39 12 0.05
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
Found at i:36616755 original size:27 final size:27
Alignment explanation
Indices: 36616698--36616770 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
36616688 TATGTAACTT
* ***
36616698 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAACTTATGTAAGTTATTTAAGCA
*
36616725 ATGTAACTTATGTAAGTTATTTAGGCA
1 ATGTAACTTATGTAAGTTATTTAAGCA
*
36616752 ATGT-AC-TATGTTAGTTATT
1 ATGTAACTTATGTAAGTTATT
36616771 ATGTTATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.30
26 2 0.05
27 26 0.65
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (27 bp):
ATGTAACTTATGTAAGTTATTTAAGCA
Found at i:36616796 original size:29 final size:29
Alignment explanation
Indices: 36616764--36616870 Score: 90
Period size: 29 Copynumber: 3.5 Consensus size: 29
36616754 GTACTATGTT
36616764 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
* * * **
36616793 AGTTACATTATATGTGTTCATAT-ATTGTATGTT
1 AGTT--ATTATGT-TATT-ATATAAGT-TATGCA
*
36616826 AGTTATTATGTTATTATATAAGTTATACA
1 AGTTATTATGTTATTATATAAGTTATGCA
*
36616855 AGTTATATAAGTTATT
1 AGTTAT-TATGTTATT
36616871 TAAGTTGTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
29 17 0.29
30 13 0.22
31 12 0.20
32 5 0.08
33 12 0.20
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.50
Consensus pattern (29 bp):
AGTTATTATGTTATTATATAAGTTATGCA
Found at i:36616899 original size:16 final size:16
Alignment explanation
Indices: 36616878--36616922 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
36616868 ATTTAAGTTG
36616878 TGTAAGTGT-TGTATTA
1 TGTAAGT-TATGTATTA
36616894 TGTAAGTTATGTATTA
1 TGTAAGTTATGTATTA
*
36616910 TGTAAGATATGTA
1 TGTAAGTTATGTA
36616923 AGTTGTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 1 0.04
16 26 0.96
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (16 bp):
TGTAAGTTATGTATTA
Found at i:36616903 original size:9 final size:9
Alignment explanation
Indices: 36616839--36616969 Score: 73
Period size: 9 Copynumber: 15.4 Consensus size: 9
36616829 TATTATGTTA
*
36616839 TTATATAAG
1 TTATGTAAG
**
36616848 TTATACAAG
1 TTATGTAAG
*
36616857 TTATATAAG
1 TTATGTAAG
*
36616866 TTATTTAAG
1 TTATGTAAG
*
36616875 TTGTGTAAG
1 TTATGTAAG
36616884 TGT-TGT-A-
1 T-TATGTAAG
36616891 TTATGTAAG
1 TTATGTAAG
36616900 TTATGT-A-
1 TTATGTAAG
36616907 TTATGTAAG
1 TTATGTAAG
*
36616916 ATATGTAAG
1 TTATGTAAG
**
36616925 -T-TGTATT
1 TTATGTAAG
*
36616932 TTATGTAAA
1 TTATGTAAG
* *
36616941 TTCTAT-A-
1 TTATGTAAG
*
36616948 TTATGTATG
1 TTATGTAAG
36616957 TTATGTAAG
1 TTATGTAAG
36616966 TTAT
1 TTAT
36616970 TATGCAAGAT
Statistics
Matches: 96, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
6 1 0.01
7 18 0.19
8 7 0.07
9 69 0.72
10 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36616925 original size:41 final size:42
Alignment explanation
Indices: 36616878--36616966 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
36616868 ATTTAAGTTG
* *
36616878 TGTAAGTGTTGTA-TTATGTAAGTTATGTATTATGTAAGATA
1 TGTAAGTGTTGTATTTATGTAAATTATATATTATGTAAGATA
* * *
36616919 TGTAA--GTTGTATTTTATGTAAATTCTATATTATGTATGTTA
1 TGTAAGTGTTGTA-TTTATGTAAATTATATATTATGTAAGATA
36616960 TGTAAGT
1 TGTAAGT
36616967 TATTATGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
39 6 0.15
41 33 0.85
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.49
Consensus pattern (42 bp):
TGTAAGTGTTGTATTTATGTAAATTATATATTATGTAAGATA
Found at i:36616935 original size:25 final size:25
Alignment explanation
Indices: 36616892--36616939 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36616882 AGTGTTGTAT
*
36616892 TATGTAAGTTATGTATTATGTAAGA
1 TATGTAAGTTATATATTATGTAAGA
* *
36616917 TATGTAAGTTGTATTTTATGTAA
1 TATGTAAGTTATATATTATGTAA
36616940 ATTCTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (25 bp):
TATGTAAGTTATATATTATGTAAGA
Found at i:36617282 original size:24 final size:25
Alignment explanation
Indices: 36617248--36617294 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
36617238 TTGCTGCATT
36617248 ATAATTTAAAAAAT-TAAATTAATAC
1 ATAATTTAAAAAATAT-AATTAATAC
36617273 ATAA-TTAAAAAATATAATTAAT
1 ATAATTTAAAAAATATAATTAAT
36617295 CCCTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATTTAAAAAATATAATTAATAC
Found at i:36618573 original size:191 final size:191
Alignment explanation
Indices: 36618249--36618629 Score: 629
Period size: 191 Copynumber: 2.0 Consensus size: 191
36618239 GAAGCAACAC
36618249 GGAATTTAAAAAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATG
1 GGAATTTAAAAAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATG
* * * *
36618314 AACAGCTATATACGTATTCAACGGAAAAATTAGGGATTTGGAAAGATTTTTACTAGTCAGCCCAG
66 AACAGCCATATACGGAGTCAACGGAAAAATTAGAGATTTGGAAAGATTTTTACTAGTCAGCCCAG
* * *
36618379 ACGAGAAGCAACATTCGATCGAGAAGAGGGGAAATTGTCGTTGAAGGGGTGAAAGGTCTAT
131 ACGAGAAGCAACATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTAT
* * *
36618440 GGAATTTAAAGAGAAAGGAAAAACAAAGCGGGCATTAGAGAAAGAAAAAATCGAACAGAAAAATG
1 GGAATTTAAAAAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATG
*
36618505 AACAGCCATATACGGAGTCAAC-GAAGAAATTAGAGATTTGGAAAGTTTTTTACTAGTCAGCCCA
66 AACAGCCATATACGGAGTCAACGGAA-AAATTAGAGATTTGGAAAGATTTTTACTAGTCAGCCCA
* *
36618569 GACGAGAAGCGATATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTA
130 GACGAGAAGCAACATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTA
36618630 GGGATTTGCA
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
190 3 0.02
191 173 0.98
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (191 bp):
GGAATTTAAAAAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATG
AACAGCCATATACGGAGTCAACGGAAAAATTAGAGATTTGGAAAGATTTTTACTAGTCAGCCCAG
ACGAGAAGCAACATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTAT
Found at i:36619226 original size:14 final size:15
Alignment explanation
Indices: 36619204--36619237 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
36619194 TAGCCCTAAC
36619204 CCCTAAACCCA-AAT
1 CCCTAAACCCATAAT
*
36619218 CCCTGAACCCATAAT
1 CCCTAAACCCATAAT
36619233 CCCTA
1 CCCTA
36619238 GTCCACAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.35, C:0.44, G:0.03, T:0.18
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:36619313 original size:21 final size:21
Alignment explanation
Indices: 36619289--36619332 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36619279 AACCCCTATC
* *
36619289 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
36619310 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
36619331 CC
1 CC
36619333 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:36620280 original size:114 final size:112
Alignment explanation
Indices: 36620072--36620703 Score: 623
Period size: 114 Copynumber: 5.7 Consensus size: 112
36620062 TTTCGGTTTA
* * * * * *
36620072 AAACGATACGTTTTGGTTAAGATTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTACT
1 AAACGATGCGTTTTGGTT-A-ATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCT
* *
36620137 TTCGCGGCG--TTTCACTCTAGCGCCACTAATTCTAAAATACCTCAAGACC
64 TTAGCGGCGTTTTTCA-T-AAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * **
36620186 AAAAGATGCGTTTTGGTTAATATTTTTTACGGCGCCTTTCATAATGTGCCGGTAGTTCTGTGCTT
1 AAACGATGCGTTTTGGTTAATA-TTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
* *
36620251 TAGCGGCGTTTGTTCATAAGCGCCACTAATTCTAATATACCTCAATACC
65 TAGCGGCGTTT-TTCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
36620300 AAACGCTGTGTTTTGGTAAAGATATTTTACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
1 AAACGATGCGTTTTGGTTAATAT-TTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
*
36620365 TAGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
65 TAGCGGCGTTTT-TCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * *
36620414 AAACGATACGTTTTTGTTAATATTTTTGCTGCGCTTTTTATATTGTGCCGCTAATGATGTTCGTT
1 AAACGATGCGTTTTGGTTAATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTTT
*
36620479 AGCGGCGTTTCATT-ATAAGCGCCGCTAATTCTAAAATACCTCAAGACC
66 AGCGGCGTTT--TTCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * *
36620527 AAACAATGCGCTTTT-GTTAATATATTTGCGGCGCTTTTTATAA--T---GC-----A---GCAT
1 AAACGATGCG-TTTTGGTTAATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
*
36620578 TAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACC
65 TAGCGGCGTTTTT-CATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * ** * * *
36620627 AAACGCTGCGTTTTGGTTAAGATATTCTGCGGCGCTTTTTGCATTGCGCCGCTAATTATGTGCTT
1 AAACGATGCGTTTTGGTTAATAT-TTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
36620692 TAGCGGCGTTTT
65 TAGCGGCGTTTT
36620704 ACGAAGATCG
Statistics
Matches: 428, Mismatches: 64, Indels: 52
0.79 0.12 0.10
Matches are distributed among these distances:
98 2 0.00
99 4 0.01
100 60 0.14
101 15 0.04
103 1 0.00
106 2 0.00
108 2 0.00
111 2 0.00
112 2 0.00
113 154 0.36
114 177 0.41
115 3 0.01
116 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (112 bp):
AAACGATGCGTTTTGGTTAATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTTT
AGCGGCGTTTTTCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
Found at i:36620483 original size:227 final size:227
Alignment explanation
Indices: 36620080--36620702 Score: 706
Period size: 227 Copynumber: 2.8 Consensus size: 227
36620070 TAAAACGATA
* * * *
36620080 CGTTTTGGTTAAGATTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTACTTTCGCGGC
1 CGTTTTGGTTAAGA-TATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGC
* * * *
36620145 GTTTCACTCT-AGCGCCACTAATTCTAAAATACCTCAAGACCAAAAGATGCGTTTTGGTTAATAT
65 GTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATA-
* * * * * * * *
36620209 TTTTTACGGCGCCTTTCATAATGTGCCGGTAGTTCTGTGCTTTAGCGGCGTTT-GTTCATAAGCG
129 TTTTTGCGGCGCTTTTTATATTGTGCCGCTAATTATGTGCTTTAGCGGCGTTTCATT-ATAAGCG
* * **
36620273 CCACTAATTCTAATATACCTCAATACCAAACGCTG
193 CCACTAATTCTAAAATACCTCAAGACCAAACAATG
* * *
36620308 TGTTTTGGTAAAGATATTTTACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCG
1 CGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCG
* *
36620373 TTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATACGTTTTTGTTAATATT
66 TTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATATT
* * * * *
36620438 TTTGCTGCGCTTTTTATATTGTGCCGCTAATGATGTTCGTTAGCGGCGTTTCATTATAAGCGCCG
131 TTTGCGGCGCTTTTTATATTGTGCCGCTAATTATGTGCTTTAGCGGCGTTTCATTATAAGCGCCA
36620503 CTAATTCTAAAATACCTCAAGACCAAACAATG
196 CTAATTCTAAAATACCTCAAGACCAAACAATG
* *
36620535 CGCTTTT-GTTAATATA-TTTGCGGCGCTTTTTATAAT-----GC-----A---GCATTAGCGGC
1 CG-TTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGC
* * * *
36620585 GTTTT-TCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGA
65 GTTTTAT-TATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATA
* ** *
36620649 TATTCTGCGGCGCTTTTTGCATTGCGCCGCTAATTATGTGCTTTAGCGGCGTTT
129 T-TTTTGCGGCGCTTTTTATATTGTGCCGCTAATTATGTGCTTTAGCGGCGTTT
36620703 TACGAAGATC
Statistics
Matches: 341, Mismatches: 49, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
212 1 0.00
213 67 0.20
214 44 0.13
216 1 0.00
221 2 0.01
226 19 0.06
227 139 0.41
228 68 0.20
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (227 bp):
CGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCG
TTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATATT
TTTGCGGCGCTTTTTATATTGTGCCGCTAATTATGTGCTTTAGCGGCGTTTCATTATAAGCGCCA
CTAATTCTAAAATACCTCAAGACCAAACAATG
Found at i:36620494 original size:113 final size:113
Alignment explanation
Indices: 36620072--36620572 Score: 612
Period size: 113 Copynumber: 4.4 Consensus size: 113
36620062 TTTCGGTTTA
* * * *
36620072 AAACGATACGTTTTGGTTAAGATTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTACT
1 AAACGATGCGTTTTGGTT-A-ATATTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCT
* * *
36620137 TTCGCGGCGTTTCACTCT-AGCGCCACTAATTCTAAAATACCTCAAGACC
64 TTAGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * * **
36620186 AAAAGATGCGTTTTGGTTAATATTTTTTACGGCGCCTTTCATAATGTGCCGGTAGTTCTGTGCTT
1 AAACGATGCGTTTTGGTTAATA-TTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
* * *
36620251 TAGCGGCGTTT-GTTCATAAGCGCCACTAATTCTAATATACCTCAATACC
65 TAGCGGCGTTTCATT-ATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
36620300 AAACGCTGTGTTTTGGTAAAGATATTTTACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
1 AAACGATGCGTTTTGGTTAATAT-TTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
*
36620365 TAGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
65 TAGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * *
36620414 AAACGATACGTTTTTGTTAATATTTTTGCTGCGCTTTTTATATTGTGCCGCTAATGATGTTCGTT
1 AAACGATGCGTTTTGGTTAATATTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTT
*
36620479 AGCGGCGTTTCATTATAAGCGCCGCTAATTCTAAAATACCTCAAGACC
66 AGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* *
36620527 AAACAATGCGCTTTT-GTTAATATATTTGCGGCGCTTTTTATAATGC
1 AAACGATGCG-TTTTGGTTAATATTTTTGCGGCGCTTTTTATAATGC
36620573 AGCATTAGCG
Statistics
Matches: 327, Mismatches: 54, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
112 3 0.01
113 162 0.50
114 160 0.49
115 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (113 bp):
AAACGATGCGTTTTGGTTAATATTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTT
AGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
Found at i:36620652 original size:100 final size:100
Alignment explanation
Indices: 36620477--36620666 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 100
36620467 ATGATGTTCG
*
36620477 TTAGCGGCGTTTCATTATAAGCGCCGCTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTTT
1 TTAGCGGCGTTT-ATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTTT
*
36620542 GTTAATATATT-TGCGGCGCTTTTTATAATGCAGCA
65 GTTAAGATATTCTGCGGCGCTTTTTATAATGCAGCA
* **
36620577 TTAGCGGCGTTT-TTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG-TTT
1 TTAGCGGCGTTTATT--ATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTT
36620640 TGGTTAAGATATTCTGCGGCGCTTTTT
64 T-GTTAAGATATTCTGCGGCGCTTTTT
36620667 GCATTGCGCC
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
98 2 0.02
99 4 0.05
100 62 0.77
101 13 0.16
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (100 bp):
TTAGCGGCGTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTTTG
TTAAGATATTCTGCGGCGCTTTTTATAATGCAGCA
Found at i:36627681 original size:12 final size:12
Alignment explanation
Indices: 36627664--36627688 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36627654 CAGAGTCTAT
36627664 TAACAATATTTA
1 TAACAATATTTA
36627676 TAACAATATTTA
1 TAACAATATTTA
36627688 T
1 T
36627689 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:36630399 original size:15 final size:15
Alignment explanation
Indices: 36630379--36630416 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
36630369 AGGATTTGGT
36630379 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
36630394 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
*
36630409 TTATTTAT
1 TTGTTTAT
36630417 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTGTTTATTTTATTA
Found at i:36630466 original size:11 final size:11
Alignment explanation
Indices: 36630445--36630500 Score: 78
Period size: 11 Copynumber: 5.1 Consensus size: 11
36630435 ATATATAAAA
36630445 ATTAA-AATAT
1 ATTAATAATAT
36630455 ATTAATAATAT
1 ATTAATAATAT
*
36630466 ATAAATAATAT
1 ATTAATAATAT
*
36630477 TTTAATAATATT
1 ATTAATAATA-T
36630489 ATTAATAATAT
1 ATTAATAATAT
36630500 A
1 A
36630501 GAAAGAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
10 5 0.12
11 25 0.62
12 10 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAATAATAT
Found at i:36635606 original size:98 final size:98
Alignment explanation
Indices: 36635489--36635675 Score: 311
Period size: 98 Copynumber: 1.9 Consensus size: 98
36635479 CATGAAGGGA
*
36635489 ATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
1 ATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
*
36635554 TGGATAAGTGGATATTCTTTTAAATTAAAGGAC
66 TGGATAAGTGGATACTCTTTTAAATTAAAGGAC
* * *
36635587 ATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAATGTATTGGGTGTGGTTTCTTAAATCT
1 ATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
* *
36635652 TGGATGAGTGGATGCTCTTTTAAA
66 TGGATAAGTGGATACTCTTTTAAA
36635676 ATTTTTATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.38
Consensus pattern (98 bp):
ATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
TGGATAAGTGGATACTCTTTTAAATTAAAGGAC
Found at i:36647076 original size:44 final size:43
Alignment explanation
Indices: 36646996--36647730 Score: 270
Period size: 44 Copynumber: 16.7 Consensus size: 43
36646986 AAACACCAAG
* * * ** *
36646996 TCTTATCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTGTAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGAAGA
* *
36647040 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA-A
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TG-AAGA
* * **
36647084 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG-
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATGAAGA
* * * * * *
36647128 CCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGAAGA
* **
36647172 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGAAG-A
* * **
36647216 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG-
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATGAAGA
* * * * * *
36647260 CCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGAAGA
* **
36647304 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGAAG-A
* * **
36647348 TCTTATCTTTCC-AAG-A-TAGTTGGAAGCAGATTTAAGCCACCAAG-
1 TCTTATC-TCCCTAAGCAGTAG-TGG-AGCAGATTGAAG--ATGAAGA
* * * * * *
36647392 CCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGAAGA
* * * * **
36647436 TCTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGAAG-A
* * * **
36647480 TCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGTTTTAAGCCACCAAG-
1 TCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATTGAAG--ATGAAGA
* * * * * * *
36647524 CCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGAAGA
* * * **
36647568 TCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGAAG-A
* * **
36647612 TCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGATTTAAGCCACCAAG-
1 TCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATTGAAG--ATGAAGA
* * * * * * * * *
36647656 CCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGAAGA
36647700 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
36647731 CAAAGAAAGC
Statistics
Matches: 490, Mismatches: 145, Indels: 112
0.66 0.19 0.15
Matches are distributed among these distances:
42 28 0.06
43 50 0.10
44 357 0.73
45 27 0.06
46 28 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGAAGA
Found at i:36647226 original size:132 final size:132
Alignment explanation
Indices: 36646989--36647751 Score: 1310
Period size: 132 Copynumber: 5.8 Consensus size: 132
36646979 ACTGGTGAAA
* * * *
36646989 CACCAAGTCTTATCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
*
36647054 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
36647119 GC
131 GC
36647121 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
*
36647186 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
36647251 GC
131 GC
36647253 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
* *
36647318 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTTGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
36647383 GC
131 GC
*
36647385 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
* * *
36647450 GTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGTTTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
36647515 GC
131 GC
*
36647517 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
* *
36647582 GCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
36647647 GC
131 GC
* * ** *
36647649 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
* ** *
36647714 GCAGTAGTGGAGCAGATCAAAGAAAGCAAATCTTATCT
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
36647752 CCCTGAATTT
Statistics
Matches: 604, Mismatches: 27, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 604 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:36647835 original size:396 final size:396
Alignment explanation
Indices: 36646989--36647840 Score: 1245
Period size: 396 Copynumber: 2.2 Consensus size: 396
36646979 ACTGGTGAAA
* * * * **
36646989 CACCAAGTCTTATCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTGAACAGCAGTGGAGAAGGTTGAAGAATCAAGATCTTATCTCCCTAA
*
36647054 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
36647119 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
* * *
36647184 AAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTT
* **
36647249 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCC
261 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAATTGAAGATTGAAGATCTTATCTCC
* ** * * * *
36647314 CTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTTGGAAGCAGAT
326 CTAAGCAGTAGTGGAGCAGATCAAAGAAAGCAAATCTTATCTTCCCAAGACAGTTGGAAGCAAAT
*
36647379 TTAAGC
391 TAAAGC
* * * * *
36647385 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCTTAA
1 CACCAAGCCTTATCTCCCTGAACAGCAGTGGAGAAGGTTGAAGAATCAAGATCTTATCTCCCTAA
* * *
36647450 GTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGTTTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
*
36647515 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
36647580 AAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTT
196 AAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTT
* *
36647645 AAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCC
261 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAATTGAAGATTGAAGATCTTATCTCC
*
36647710 CTAAGCAGTAGTGGAGCAGATCAAAGAAAGCAAATCTTATC-TCCCTGAATTTACAG-TGG-AGC
326 CTAAGCAGTAGTGGAGCAGATCAAAGAAAGCAAATCTTATCTTCCC--AA--GACAGTTGGAAGC
36647772 AAATTAAAGC
387 AAATTAAAGC
* *
36647782 CTA-CAATCC-TATCTCCCT-AACATTGCAGTGG-GATGGATT-AA-AATCACAGATCTTATCTC
1 C-ACCAAGCCTTATCTCCCTGAACA--GCAGTGGAGAAGG-TTGAAGAATCA-AGATCTTATCTC
36647841 TCTGAAGTTG
Statistics
Matches: 414, Mismatches: 33, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
395 9 0.02
396 370 0.89
397 28 0.07
398 4 0.01
399 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (396 bp):
CACCAAGCCTTATCTCCCTGAACAGCAGTGGAGAAGGTTGAAGAATCAAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
GCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
AAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTT
AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAATTGAAGATTGAAGATCTTATCTCC
CTAAGCAGTAGTGGAGCAGATCAAAGAAAGCAAATCTTATCTTCCCAAGACAGTTGGAAGCAAAT
TAAAGC
Found at i:36650090 original size:21 final size:22
Alignment explanation
Indices: 36650066--36650116 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
36650056 CAATTAAACT
* *
36650066 TAAAAAATTTAATT-TCAAAAA
1 TAAAAAACTAAATTCTCAAAAA
*
36650087 TAAAAATACTAAATTCTTAAAAA
1 TAAAAA-ACTAAATTCTCAAAAA
36650110 TAAAAAA
1 TAAAAAA
36650117 AATTGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAACTAAATTCTCAAAAA
Found at i:36660579 original size:17 final size:18
Alignment explanation
Indices: 36660546--36660581 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36660536 TAATGAATAC
*
36660546 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
36660564 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
36660581 A
1 A
36660582 AAATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:36661758 original size:16 final size:16
Alignment explanation
Indices: 36661739--36661789 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
36661729 TTTAAAATGG
36661739 ATTATTTTTATTTTTT
1 ATTATTTTTATTTTTT
*
36661755 ATTATTATTATTTTTT
1 ATTATTTTTATTTTTT
*
36661771 A-TATTTTTGTTTATTT
1 ATTATTTTTATTT-TTT
36661787 ATT
1 ATT
36661790 TTCGATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.30
16 20 0.67
17 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
ATTATTTTTATTTTTT
Found at i:36662231 original size:111 final size:111
Alignment explanation
Indices: 36662032--36662254 Score: 329
Period size: 111 Copynumber: 2.0 Consensus size: 111
36662022 GCTTCCCTAC
* * * *
36662032 TCTTGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTATTGCTTAGGGAGATAAGATCTGTGA
1 TCTTGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTACTGCTTAGGGAGACAAGATCTATAA
*
36662097 TTTCCAACCTATTCCACTACTGACTAGGGAGATAGGACTTGTGGCT
66 TTTCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCT
* * * * **
36662143 TCTTGAAGATAAGATTCGCTGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTATAA
1 TCTTGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTACTGCTTAGGGAGACAAGATCTATAA
* *
36662208 TTTCCAACCTATTCTACTGCTGACCAGGGAGATAGGACTTGTGGCT
66 TTTCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCT
36662254 T
1 T
36662255 AAATTTGCTT
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (111 bp):
TCTTGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTACTGCTTAGGGAGACAAGATCTATAA
TTTCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCT
Found at i:36662376 original size:128 final size:128
Alignment explanation
Indices: 36662143--36662886 Score: 986
Period size: 128 Copynumber: 5.8 Consensus size: 128
36662133 ACTTGTGGCT
* * * *
36662143 TCTTGAAGATAAGATTCGCTGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTATAA
1 TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
* * *
36662208 TTTCCAACCTATTCTACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATTTGCTTCCCTAC
66 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
* *
36662271 TCTTGAAGATAAGATTCGCCGTATTTGATTTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
1 TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
**
36662336 TTTTCAACCTATTCCACTGCTGACCAGGGAGATATAACTTGTGGCTTAAATCTGCTTCCCTAC
66 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
* *
36662399 TCTTGAAGATAAGATTAGCCGTATTCGATCTGCTCCGCTACTGCTTATGGAGACAAGATCTGTAA
1 TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
36662464 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
66 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
* * * *
36662527 TCTTGAAGATAAGATTCGTCGTATTCGATCTGCTCCACTACTACTTAGGGAGACAATATCTGTAA
1 TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
*
36662592 TTTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
66 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
* * * *
36662655 TCTTGAAGATAAGATTCACCGTATTCGATCTGCTTCGCTACTGCTTAGGGAGATAAGATCTGAAA
1 TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
* * * * * * * * * **
36662720 TCTTCAATCTATTCCACTACTGCCCAGAGAGATA-GACTTACTGGCTTCAATGTACTCTACTGTA
66 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCT-T-CCCT-
36662784 ACC
127 A-C
* ** * * * * * ** * * *
36662787 ACAGGGAGGTAAAATCCACAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
* * **
36662852 TCTTCAATCTATTCCACTGCCAACCAGGGAGATAG
66 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAG
36662887 AATTACTGGC
Statistics
Matches: 548, Mismatches: 62, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
127 5 0.01
128 457 0.83
129 1 0.00
130 2 0.00
131 1 0.00
132 82 0.15
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (128 bp):
TCTTGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTAC
Found at i:36662740 original size:44 final size:44
Alignment explanation
Indices: 36662692--36662869 Score: 107
Period size: 44 Copynumber: 4.0 Consensus size: 44
36662682 ATCTGCTTCG
* *
36662692 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCA
1 CTACTGCTCAGGGAGATAAGATCTGAAATCTTCAATCTACTCCA
* * * * * *
36662736 CTACTGCCCAGAGAGAT-AGA-CT-TACTGGCTTCAATGTACTCTA
1 CTACTGCTCAGGGAGATAAGATCTGAAAT--CTTCAATCTACTCCA
* * * * * *
36662779 CTGTAAC--CACAGGGAGGTAAAATC-CACAATCTTCGATCTGCTCCA
1 C--T-ACTGCTCAGGGAGATAAGATCTGA-AATCTTCAATCTACTCCA
* * *
36662824 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCA
1 CTACTGCTCAGGGAGATAAGATCTGAAATCTTCAATCTACTCCA
36662868 CT
1 CT
36662870 GCCAACCAGG
Statistics
Matches: 95, Mismatches: 27, Indels: 24
0.65 0.18 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 17 0.18
44 52 0.55
45 15 0.16
46 3 0.03
47 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
CTACTGCTCAGGGAGATAAGATCTGAAATCTTCAATCTACTCCA
Found at i:36662840 original size:132 final size:132
Alignment explanation
Indices: 36662550--36663286 Score: 1006
Period size: 132 Copynumber: 5.6 Consensus size: 132
36662540 ATTCGTCGTA
* * * * *
36662550 TTCGATCTGCTCCACTACTACTTAGGGAGACAATATCTGTAAT-TTCCAACCTATTCCACTGCTG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CAATCTATTCCACTGCTA
* * * * * * ** * * * *
36662614 ACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCC-C--T-A-CTCTTGAAGATAAGATTCA
65 ACCAGGGAGATA-GAATTACTGGCTTCAATGTAC-TCCACTGTAACCACAGGGAGGTAAAATCCA
* *
36662673 CCGTA
128 CCATC
* * * * **
36662678 TTCGATCTGCTTCGCTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
* * * *
36662743 CCAGAGAGATAGACTTACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCCACAA
66 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCA
36662808 TC
131 TC
*
36662810 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
*
36662875 CCAGGGAGATAGAATTACTGGCTTCAATGTACACCACTGTAACCACAGGGAGGTAAAATCCACCA
66 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCA
36662940 TC
131 TC
*
36662942 TTCGATCTGCTCCACTACTGCTTAGGGACATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
36663007 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCA
66 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCA
36663072 TC
131 TC
* * * *
36663074 TTCGATCTGCTCAACTACTTCTTAGGGACATAAGATCTGTAATCTTCAATCTATTCCACTGCCAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
36663139 CCAGGGAGAT-GAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACC
66 CCAGGGAGATAG-AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACC
36663203 ATC
130 ATC
* * *
36663206 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTTAATCTATTCCACTGCT-G
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
*
36663270 CCTAGGGAGGTAGAATT
66 CC-AGGGAGATAGAATT
36663287 CAAAATTCTC
Statistics
Matches: 548, Mismatches: 51, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
127 7 0.01
128 75 0.14
129 2 0.00
130 1 0.00
131 4 0.01
132 458 0.84
133 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAA
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCA
TC
Found at i:36663013 original size:44 final size:45
Alignment explanation
Indices: 36662833--36663145 Score: 103
Period size: 44 Copynumber: 7.1 Consensus size: 45
36662823 ACTACTGCTT
* * *
36662833 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAC-C
1 AGGGACATAAGATCTGTAATCTTCAATCTACTCCACTGCTAACAC
* * * * *
36662877 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACACCACTG-TAACCAC
1 AGGGACATAAGATCTGTAAT--CTTCAATCTACTCCACTGCTAA-CAC
** * **** * * * * **
36662921 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACT-GCTT
1 AGGGACATAAGATCTGTAATCTTCAATCTACTCCACTGCTAACAC
*
36662965 AGGGACATAAGATCTGTAATCTTCAATCTATTCCACTGCTAAC-C
1 AGGGACATAAGATCTGTAATCTTCAATCTACTCCACTGCTAACAC
* * * *
36663009 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCAC
1 AGGGACATAAGATCTGTAAT--CTTCAATCTACTCCACTGCTAA-CAC
** * **** * * * * * **
36663053 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCAACTACT-TCTT
1 AGGGACATAAGATCTGTAATCTTCAATCTACTCCACTGCTAACAC
* *
36663097 AGGGACATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAC-C
1 AGGGACATAAGATCTGTAATCTTCAATCTACTCCACTGCTAACAC
36663141 AGGGA
1 AGGGA
36663146 GATGAAATTA
Statistics
Matches: 182, Mismatches: 69, Indels: 36
0.63 0.24 0.13
Matches are distributed among these distances:
41 6 0.03
42 7 0.04
43 39 0.21
44 94 0.52
45 32 0.18
46 2 0.01
47 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (45 bp):
AGGGACATAAGATCTGTAATCTTCAATCTACTCCACTGCTAACAC
Found at i:36663043 original size:43 final size:44
Alignment explanation
Indices: 36662853--36663051 Score: 117
Period size: 44 Copynumber: 4.6 Consensus size: 44
36662843 GATCTGTAAT
* *
36662853 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACTGCTAACCAGGGAGATAGAATCTACTGG
* * * * * ***
36662896 CTTCAATGTACACCACTG-TAACCACAGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCACTGCTAA-C-CAGGGAGATAGAATCTACTGG
* * * * * * *
36662941 CTTCGATCTGCTCCACTACT-GCTTAGGGACATA-AGATCTGTAAT--
1 CTTCAATCTACTCCACTGCTAAC-CAGGGAGATAGA-ATC--TACTGG
*
36662985 CTTCAATCTATTCCACTGCTAACCAGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACTGCTAACCAGGGAGATAGAATCTACTGG
*
36663028 CTTCAATGTACTCCACTG-TAACCA
1 CTTCAATCTACTCCACTGCTAACCA
36663052 CAGGGAGGTA
Statistics
Matches: 112, Mismatches: 33, Indels: 23
0.67 0.20 0.14
Matches are distributed among these distances:
41 3 0.03
42 8 0.07
43 33 0.29
44 49 0.44
45 17 0.15
46 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCTAACCAGGGAGATAGAATCTACTGG
Found at i:36663286 original size:396 final size:392
Alignment explanation
Indices: 36662164--36663267 Score: 1020
Period size: 384 Copynumber: 2.8 Consensus size: 392
36662154 AGATTCGCTG
** * * * *
36662164 TCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCTACTGCT
1 TCTTCGATCTGCTCCACTACTACTTAGGGACACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * * * * * ** * * * *
36662229 GACCAGGGAGATAGGACTTGTGGCTTAAATTTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTA
66 AACCAGGGAGATAGGAATTCTGGCTTAAATCTACTTCCCTACACAGGAAGATAAAATCCACCATA
* * * * * * * * * * **
36662294 TTTGATTTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTATTCCACTGCTGA
131 TTCGATCTGCTTCACTACTGCTTAGGGACATAAGATCTGAAATCTTCAATCTATTCCACTACCAA
* * * * * * * ** * * * *
36662359 CCAGGGAGATATAACTT-GTGGCTTAAATCTGCTTCC-C--T-A-CTCTTGAAGATAAGAT-TAG
196 CCAGAGAGATAGAA-TTACTGGCTTCAATGTAC-TCCACTGTAACCACAGGGAGGTAAAATCCA-
** * * * * * *
36662417 CCGTATTCGATCTGCTCCGCTACTGCTTATGGAGACAAGATCTGTAATTTTCAACCTATTCCACT
258 CAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACT
** * * * * * * * ** * * *
36662482 GCTGACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCC-C--T-A-CTCTTGAAGATAAGA
323 GCCAACCAGGGAGATA-GAATTACTGGCTTCAATGTAC-ACCACTGTAACCACAGGGAGGTAAAA
* ** *
36662541 TTCGTCG
386 TCCACCA
* * *
36662548 TATTCGATCTGCTCCACTACTACTTAGGGAGACAATATCTGTAATTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTACTTAGGGACACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * * * * ** * * *
36662613 GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCACCGTA
66 AACCAGGGAGATAGGAATTCTGGCTTAAATCTACTTCCCTACACAGGAAGATAAAATCCACCATA
* * ***
36662678 TTCGATCTGCTTCGCTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGC
131 TTCGATCTGCTTCACTACTGCTTAGGGACATAAGATCTGAAATCTTCAATCTATTCCACTACCAA
* *
36662743 CCAGAGAGATAGACTTACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCCACAA
196 CCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACAA
36662808 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
261 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
36662873 AACCAGGGAGATAGAATTACTGGCTTCAATGTACACCACTGTAACCACAGGGAGGTAAAATCCAC
326 AACCAGGGAGATAGAATTACTGGCTTCAATGTACACCACTGTAACCACAGGGAGGTAAAATCCAC
36662938 CA
391 CA
* * *
36662940 TCTTCGATCTGCTCCACTACTGCTTAGGGACATAAGATCTGTAATCTT-CAATCTATTCCACTGC
1 TCTTCGATCTGCTCCACTACTACTTAGGGACACAAGATCTGTAAT-TTCCAACCTATTCCACTGC
* * * *
36663004 TAACCAGGGAGATA-GAATTACTGGCTTCAATGTAC-TCCACTGTAACCACAGGGAGGTAAAATC
65 TAACCAGGGAGATAGGAATT-CTGGCTTAAATCTACTTCC-C--T-A-CACAGGAAGATAAAATC
* * *
36663067 CACCATCTTCGATCTGC-TCAACTACTTCTTAGGGACATAAGATCTGTAATCTTCAATCTATTCC
124 CACCATATTCGATCTGCTTC-ACTACTGCTTAGGGACATAAGATCTGAAATCTTCAATCTATTCC
* *
36663131 ACTGCCAACCAGGGAGAT-GAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAA
188 ACTACCAACCAGAGAGATAG-AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAA
* * *
36663195 AATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTTAATCTAT
252 AATCCACAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
36663260 TCCACTGC
317 TCCACTGC
36663268 TGCCTAGGGA
Statistics
Matches: 604, Mismatches: 94, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
383 4 0.01
384 200 0.33
386 1 0.00
387 7 0.01
388 93 0.15
389 1 0.00
390 1 0.00
391 8 0.01
392 92 0.15
393 2 0.00
394 1 0.00
395 4 0.01
396 190 0.31
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (392 bp):
TCTTCGATCTGCTCCACTACTACTTAGGGACACAAGATCTGTAATTTCCAACCTATTCCACTGCT
AACCAGGGAGATAGGAATTCTGGCTTAAATCTACTTCCCTACACAGGAAGATAAAATCCACCATA
TTCGATCTGCTTCACTACTGCTTAGGGACATAAGATCTGAAATCTTCAATCTATTCCACTACCAA
CCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACAA
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
AACCAGGGAGATAGAATTACTGGCTTCAATGTACACCACTGTAACCACAGGGAGGTAAAATCCAC
CA
Found at i:36663548 original size:87 final size:89
Alignment explanation
Indices: 36663332--36663593 Score: 343
Period size: 88 Copynumber: 3.0 Consensus size: 89
36663322 GATAGGACTG
** * * *
36663332 GTATCTTCGATCTGCTTCGCTGTTGATGCAGGAAGGCTAGATTTGCTATTTTTAACCTGCTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATTTTTATCCTGCTCCAC
36663397 TGCAACCGAGGGAGGCAAGGC-TA
66 TGCAACCGAGGGAGGCAAGGCTTA
* * * * * *
36663420 GTATCTTCGATCTGCTTTGCTGTCAATGTAGGAAGGTAAGATCTACTATCTTTATCCCGCTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATTTTTATCCTGCTCCAC
* * *
36663485 TGTAACCAAGGGAGGCAAGGCTTT
66 TGCAACCGAGGGAGGCAAGGCTTA
*
36663509 GT-T-TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATTTTTAAT-CTGCTCCA
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATTTTT-ATCCTGCTCCA
*
36663571 CTGCAACTGAGGGAGGCAAGGCT
65 CTGCAACCGAGGGAGGCAAGGCT
36663594 GGTGATTTCA
Statistics
Matches: 148, Mismatches: 24, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
87 69 0.47
88 76 0.51
89 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (89 bp):
GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATTTTTATCCTGCTCCAC
TGCAACCGAGGGAGGCAAGGCTTA
Found at i:36664823 original size:7 final size:7
Alignment explanation
Indices: 36664813--36664860 Score: 78
Period size: 7 Copynumber: 6.7 Consensus size: 7
36664803 CTATTTTTAC
36664813 TTTTTCA
1 TTTTTCA
36664820 TTTTTCA
1 TTTTTCA
36664827 TTTTTCA
1 TTTTTCA
*
36664834 TTTTTAA
1 TTTTTCA
36664841 TTTTTCA
1 TTTTTCA
36664848 TTTTTCA
1 TTTTTCA
36664855 TATTTT
1 T-TTTT
36664861 TTTTCAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 34 0.89
8 4 0.11
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:36664824 original size:14 final size:14
Alignment explanation
Indices: 36664805--36664852 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
36664795 TAGCCTCTCT
36664805 ATTTTTACTTTTTC
1 ATTTTTACTTTTTC
36664819 ATTTTT-CATTTTTC
1 ATTTTTAC-TTTTTC
*
36664833 ATTTTTAATTTTTC
1 ATTTTTACTTTTTC
36664847 ATTTTT
1 ATTTTT
36664853 CATATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 1 0.03
14 30 0.97
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTACTTTTTC
Found at i:36664829 original size:21 final size:21
Alignment explanation
Indices: 36664805--36664860 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
36664795 TAGCCTCTCT
*
36664805 ATTTTT-ACTTTTTCATTTTTC
1 ATTTTTCA-TTTTTAATTTTTC
36664826 ATTTTTCATTTTTAATTTTTC
1 ATTTTTCATTTTTAATTTTTC
36664847 ATTTTTCATATTTT
1 ATTTTTCAT-TTTT
36664861 TTTTCAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTCATTTTTAATTTTTC
Found at i:36670702 original size:17 final size:18
Alignment explanation
Indices: 36670669--36670704 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36670659 TAATGAATAC
*
36670669 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
36670687 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
36670704 A
1 A
36670705 AAATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:36677100 original size:23 final size:22
Alignment explanation
Indices: 36677057--36677100 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
36677047 TTTCAAGTCA
36677057 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
36677080 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
36677101 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:36677225 original size:23 final size:23
Alignment explanation
Indices: 36677199--36677274 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
36677189 ATAAGTGCCA
*
36677199 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
36677222 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
36677245 CACTGATATGTAGTTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
36677268 GACTGAT
1 CACTGAT
36677275 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:36682219 original size:94 final size:93
Alignment explanation
Indices: 36681971--36682231 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 93
36681961 CAATCAAGAG
* * **
36681971 AGTTCGCTAGGACATTAAACATAGGGTTACATGTGTAAGACCTTAGTTCAGCTATAAAAACATGT
1 AGTTCGCCAGGACATTAAACATAGGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACATGT
* * * *
36682036 GGAGTCCATCGGGATAGTAAACCCGGGGT
66 AGAATCCA-CGGGATAGTAAACACAGGGT
* ** * *
36682065 AGTTCGCCAGGACATTAAACATAGGGTTACTTGTGTAACGCCTTA-TCTCAACTATGGCAACATG
1 AGTTCGCCAGGACATTAAACATAGGGTTACATGTGTAAAACCTTAGT-TCAGCTATAGCAACATG
*
36682129 TAGAATCTGCA-GTGATAGTAAACACAGGGT
65 TAGAATC--CACGGGATAGTAAACACAGGGT
* * *
36682159 AG-TCTGCCAGGACATTAAACA-AGGGGTTACATGTGTAAAACCATAGTTCGGTTATAGCAACAT
1 AGTTC-GCCAGGACATTAAACATA-GGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACAT
36682222 GT-GAAGTCCA
64 GTAGAA-TCCA
36682232 TAGATCAGTA
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
92 2 0.01
93 7 0.05
94 127 0.91
95 1 0.01
96 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (93 bp):
AGTTCGCCAGGACATTAAACATAGGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACATGT
AGAATCCACGGGATAGTAAACACAGGGT
Found at i:36686537 original size:41 final size:41
Alignment explanation
Indices: 36686492--36686621 Score: 188
Period size: 41 Copynumber: 3.1 Consensus size: 41
36686482 ATCAGCACTT
* *
36686492 AGCCTGCTAGACATATAGTCTGAAATGTTTCACAGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACAGGCATTA
* *
36686533 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAA-TGTTTCACAGGCATTA
* *
36686575 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACAGGCATTA
*
36686616 AACCTG
1 AGCCTG
36686622 ATAGGCACTG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 41 0.51
42 39 0.49
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACAGGCATTA
Found at i:36686578 original size:42 final size:42
Alignment explanation
Indices: 36686492--36686600 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
36686482 ATCAGCACTT
* * *
36686492 AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACAGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACAGGCATTA
*
36686533 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACAGGCATTA
36686575 AGCCTGCTAGACGTAAAGTCTGAAAT
1 AGCCTGCTAGACGTAAAGTCTGAAAT
36686601 GTTTCACTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 23 0.37
42 40 0.63
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACAGGCATTA
Found at i:36694269 original size:30 final size:30
Alignment explanation
Indices: 36694218--36694275 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
36694208 AGACTTTATC
* * *
36694218 ACTTTTTGAATTTATCAATTTTAGTCCTAT
1 ACTTTTTCAATTTATAAATTTTAATCCTAT
36694248 ACTTTTTCAATTT-TAATATTTTAATCCT
1 ACTTTTTCAATTTATAA-ATTTTAATCCT
36694276 GACCCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.55
Consensus pattern (30 bp):
ACTTTTTCAATTTATAAATTTTAATCCTAT
Found at i:36697129 original size:4 final size:4
Alignment explanation
Indices: 36697120--36697151 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
36697110 CCAAGGTACT
*
36697120 CATA CATA CATA CATA CATA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
36697152 TATGAGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:36701335 original size:6 final size:6
Alignment explanation
Indices: 36701326--36701354 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36701316 ATGGTAATGG
36701326 TTTGGT TTTGGT TTTGGT TTTGGT TTTGG
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGG
36701355 ACAGCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (6 bp):
TTTGGT
Found at i:36705961 original size:9 final size:10
Alignment explanation
Indices: 36705946--36706003 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 10
36705936 TTATATACTT
*
36705946 TTTTTTTGAA
1 TTTTTTAGAA
36705956 TTTTTTAGAA
1 TTTTTTAGAA
36705966 -TTTTTA-AA
1 TTTTTTAGAA
* *
36705974 ATTTATA-AA
1 TTTTTTAGAA
* *
36705983 ATTTTTAGAT
1 TTTTTTAGAA
36705993 TTTTTTAGAA
1 TTTTTTAGAA
36706003 T
1 T
36706004 ATATAAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 19 0.47
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:36705998 original size:28 final size:27
Alignment explanation
Indices: 36705957--36706010 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
36705947 TTTTTTGAAT
*
36705957 TTTTTAGAATTTTTAAAATTTATAAAA
1 TTTTTAGAATTTTTAAAATATATAAAA
* *
36705984 TTTTTAGATTTTTTTAGAATATATAAA
1 TTTTTAGA-ATTTTTAAAATATATAAA
36706011 CATTGAGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (27 bp):
TTTTTAGAATTTTTAAAATATATAAAA
Found at i:36710858 original size:9 final size:9
Alignment explanation
Indices: 36710841--36710877 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36710831 TGAGTTTTTG
36710841 AATTCGAAT
1 AATTCGAAT
*
36710850 AACTCGAAT
1 AATTCGAAT
36710859 AATTCGAAT
1 AATTCGAAT
36710868 AATTCGAAT
1 AATTCGAAT
36710877 A
1 A
36710878 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36715120 original size:31 final size:30
Alignment explanation
Indices: 36715024--36715121 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
36715014 GTAGGAAGTT
* * *
36715024 TGAAGATCAAATTGATTGAATTTGTAAGTA
1 TGAAGATCAAATTGATTGAATATATAAATA
* * * *
36715054 TGAAGGGTTAAATTTATTGAATTATTTAAA-A
1 TGAA-GATCAAATTGATTGAA-TATATAAATA
*
36715085 TGAAGATCAAATTGATAGAATATATAAATA
1 TGAAGATCAAATTGATTGAATATATAAATA
36715115 TTGAAGA
1 -TGAAGA
36715122 CTAAATGTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
29 7 0.13
30 17 0.32
31 24 0.45
32 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (30 bp):
TGAAGATCAAATTGATTGAATATATAAATA
Found at i:36717176 original size:34 final size:35
Alignment explanation
Indices: 36717088--36717196 Score: 116
Period size: 35 Copynumber: 3.1 Consensus size: 35
36717078 ATATCGTCAA
* **
36717088 TTTATTCGACTAGCGCTGGGCACAACTTTCGTCAG
1 TTTATTCGACTAGCGCTGGGCACAACATTCGTTGG
* *
36717123 TTTA-TCTGATTAGTGCTGGGCAC-ACATTCGTTGG
1 TTTATTC-GACTAGCGCTGGGCACAACATTCGTTGG
* *
36717157 TTTATTCGACTAGCACTGGGCGCGAACA-TCGTTGG
1 TTTATTCGACTAGCGCTGGGCAC-AACATTCGTTGG
36717192 TTTAT
1 TTTAT
36717197 CCAACTAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
34 26 0.43
35 32 0.52
36 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (35 bp):
TTTATTCGACTAGCGCTGGGCACAACATTCGTTGG
Found at i:36725248 original size:17 final size:18
Alignment explanation
Indices: 36725207--36725241 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36725197 CTTAAACATA
36725207 TACATC-AACCAATTCAT
1 TACATCAAACCAATTCAT
*
36725224 TACATCAAACCGATTCAT
1 TACATCAAACCAATTCAT
36725242 ATATCAAGCA
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:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TACATCAAACCAATTCAT
Found at i:36728886 original size:25 final size:24
Alignment explanation
Indices: 36728848--36728895 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
36728838 ATCCAAGCAA
36728848 TATAACGAGAAGCTCACAAAGAGCT
1 TATAACGAGAAGCTC-CAAAGAGCT
* * *
36728873 TATAACGGGTAGCTCCGAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
36728896 AATTAATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCT
Found at i:36734847 original size:20 final size:19
Alignment explanation
Indices: 36734813--36734850 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
36734803 AATCAAAGAA
36734813 GGTTTCTAAGAAAATTTGG
1 GGTTTCTAAGAAAATTTGG
*
36734832 GGTTTTTAATGAAAATTTG
1 GGTTTCTAA-GAAAATTTG
36734851 AGAGGCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.42
Consensus pattern (19 bp):
GGTTTCTAAGAAAATTTGG
Found at i:36737095 original size:22 final size:23
Alignment explanation
Indices: 36737046--36737096 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
36737036 AAAAAATCTA
* *
36737046 CTATTTTTTTGTTGTTTTAATGC
1 CTATTTTCTTGTTGTTTTAATCC
*
36737069 C-ATTTTCTTGTTGTTTT-CTCC
1 CTATTTTCTTGTTGTTTTAATCC
36737090 CTATTTT
1 CTATTTT
36737097 GCTACCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 20 0.83
23 1 0.04
ACGTcount: A:0.10, C:0.16, G:0.10, T:0.65
Consensus pattern (23 bp):
CTATTTTCTTGTTGTTTTAATCC
Found at i:36737487 original size:8 final size:8
Alignment explanation
Indices: 36737474--36737498 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36737464 TATTTTTATT
36737474 AATTTTAA
1 AATTTTAA
36737482 AATTTTAA
1 AATTTTAA
36737490 AATTTTAA
1 AATTTTAA
36737498 A
1 A
36737499 GAGTCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:36745759 original size:29 final size:27
Alignment explanation
Indices: 36745695--36745761 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
36745685 GAGTTTCACG
*
36745695 TGTATAATTACATCAAATTAAAGTTTA
1 TGTATAATTACATCAAATTAAAGTTCA
* *
36745722 TGTACATAATTGCACATTACATTAAAGTTCA
1 TGT--ATAATT--ACATCAAATTAAAGTTCA
36745753 TGTATAATT
1 TGTATAATT
36745762 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
29 12 0.36
31 18 0.55
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTACATCAAATTAAAGTTCA
Found at i:36747521 original size:23 final size:23
Alignment explanation
Indices: 36747495--36747570 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
36747485 ATAAGTGCCA
36747495 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36747518 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36747541 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36747564 CACTGAT
1 CACTGAT
36747571 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36747822 original size:18 final size:17
Alignment explanation
Indices: 36747796--36747834 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36747786 ATTTTCCTTC
36747796 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
36747813 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
36747831 CACA
1 CACA
36747835 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:36754870 original size:23 final size:23
Alignment explanation
Indices: 36754844--36754919 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
36754834 ATAAGTGCCA
36754844 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36754867 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36754890 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36754913 CACTGAT
1 CACTGAT
36754920 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36757750 original size:11 final size:11
Alignment explanation
Indices: 36757734--36757759 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36757724 TATGTGTTCC
36757734 ATTTATTTTTA
1 ATTTATTTTTA
36757745 ATTTATTTTTA
1 ATTTATTTTTA
36757756 ATTT
1 ATTT
36757760 TTAAATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:36759281 original size:13 final size:12
Alignment explanation
Indices: 36759262--36759294 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
36759252 AAGGTACTGT
36759262 TTTTTTTTTTTC
1 TTTTTTTTTTTC
36759274 TATTTTTTTTTTC
1 T-TTTTTTTTTTC
36759287 TTTTTTTT
1 TTTTTTTT
36759295 GTTAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:36762972 original size:15 final size:15
Alignment explanation
Indices: 36762946--36762984 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
36762936 GATATAAGCT
36762946 TGATTGAAAAACTTGA
1 TGATT-AAAAACTTGA
36762962 TGATTAAAAACTTGA
1 TGATTAAAAACTTGA
36762977 TGATTAAA
1 TGATTAAA
36762985 TGAACAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (15 bp):
TGATTAAAAACTTGA
Found at i:36774997 original size:32 final size:30
Alignment explanation
Indices: 36774938--36774998 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36774928 GAAATTTTTC
* * *
36774938 AAAAAAAATTGAATAATCTAATTAAAATTA
1 AAAAAAAATTGAAAAAGCTAATGAAAATTA
36774968 AAAAAAAATTGTAAAAAGCATAATGAAAATT
1 AAAAAAAATTG-AAAAAGC-TAATGAAAATT
36774999 TTCCAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.42
31 5 0.19
32 10 0.38
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (30 bp):
AAAAAAAATTGAAAAAGCTAATGAAAATTA
Found at i:36801449 original size:23 final size:22
Alignment explanation
Indices: 36801397--36801449 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
36801387 TCCTTGTCTT
*
36801397 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
36801419 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
36801442 TTTCTTTT
1 TTTCTTTT
36801450 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36809870 original size:3 final size:3
Alignment explanation
Indices: 36809824--36809852 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36809814 ACTTTATCCC
36809824 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36809853 TGAGTGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36822431 original size:12 final size:12
Alignment explanation
Indices: 36822414--36822453 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
36822404 CAAGTTTTTC
36822414 ATTTTAATATAT
1 ATTTTAATATAT
36822426 ATTTTAATATAT
1 ATTTTAATATAT
*
36822438 GTTTTAA-ATAT
1 ATTTTAATATAT
36822449 -TTTTA
1 ATTTTA
36822454 TATTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
ATTTTAATATAT
Found at i:36832895 original size:10 final size:10
Alignment explanation
Indices: 36832876--36832922 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
36832866 TTTTTATTTT
36832876 AAAAAA-AGA
1 AAAAAATAGA
36832885 AAAAAATAGA
1 AAAAAATAGA
**
36832895 AAAAAAGTTTA
1 AAAAAA-TAGA
36832906 AAAAAATAGA
1 AAAAAATAGA
36832916 AAGAAAA
1 AA-AAAA
36832923 AGTTTAGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 6 0.19
10 13 0.42
11 12 0.39
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:36832908 original size:21 final size:23
Alignment explanation
Indices: 36832884--36832928 Score: 76
Period size: 21 Copynumber: 2.0 Consensus size: 23
36832874 TTAAAAAAAG
36832884 AAAAAAATAG-AA-AAAAAGTTT
1 AAAAAAATAGAAAGAAAAAGTTT
36832905 AAAAAAATAGAAAGAAAAAGTTT
1 AAAAAAATAGAAAGAAAAAGTTT
36832928 A
1 A
36832929 GATCTTTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAAAATAGAAAGAAAAAGTTT
Found at i:36833904 original size:21 final size:22
Alignment explanation
Indices: 36833879--36833945 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
36833869 ATTTTATGTA
36833879 ATTATATTATTATCATAC-ATT
1 ATTATATTATTATCATACTATT
*
36833900 TTTATATTATT-TC--ACTATT
1 ATTATATTATTATCATACTATT
*
36833919 ATTATCATTATTATCATA-TAGT
1 ATTAT-ATTATTATCATACTATT
36833941 ATTAT
1 ATTAT
36833946 TAATTGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 8 0.21
21 12 0.32
22 8 0.21
23 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTATATTATTATCATACTATT
Found at i:36833921 original size:3 final size:3
Alignment explanation
Indices: 36833915--36833994 Score: 70
Period size: 3 Copynumber: 25.3 Consensus size: 3
36833905 ATTATTTCAC
* * * *
36833915 TAT TAT TAT CAT TAT TAT CAT ATAG TAT TAT TAAT TGAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT T-AT TAT TAT TAT
* *
36833963 TAT TAT TAT TGT TAT TAT TATT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
36833995 GTATTCACTA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
3 53 0.87
4 8 0.13
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:36840279 original size:44 final size:44
Alignment explanation
Indices: 36840216--36840330 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
36840206 TACAATGGTG
36840216 AATCTTAT-CTCCTTGAAGTTGCAGTGGAACAAGA-TGAAGCTACA
1 AATCTTATAC-CCTTGAAGTTGCAGTGGAAC-AGATTGAAGCTACA
** *
36840260 AATCTTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACA
1 AATCTTATACCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACA
* * * * *
36840304 ATTCCTATACCCCTAAAGTTGTAGTGG
1 AATCTTATACCCTTGAAGTTGCAGTGG
36840331 GTAGGAATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 58 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATACCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACA
Found at i:36840331 original size:44 final size:44
Alignment explanation
Indices: 36840249--36840341 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
36840239 GTGGAACAAG
* * * *
36840249 ATGAAGCTACAAATCTTATACCCTTGAAGTTGCAGTGGGTCGGA
1 ATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTAGGA
* * *
36840293 TTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTAGGA
1 ATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTAGGA
36840337 ATGAA
1 ATGAA
36840342 AATACAATGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
ATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTAGGA
Found at i:36840348 original size:138 final size:138
Alignment explanation
Indices: 36840134--36840442 Score: 383
Period size: 138 Copynumber: 2.2 Consensus size: 138
36840124 TTTCGGTCTT
* *** * * *
36840134 CCTGAAGTTGTAGTGAAACGGA-TGAAGCTACAATTCCTATACCCTTGAAGTTACCGTGGGTCAG
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTACAGTGGGTCAG
* * * * *
36840198 AATAAAATTACAATGGTGAATCTTATCTCCTTGAAGTTGCAGTGGAACAAGA-TGAAGCTACAAA
66 AATAAAATTACAATGGTGAATCTTATCTACTTGAAATTACAGTAGAACAA-ACTAAAGCTACAAA
*
36840262 TCTTATACC
130 TCCTATACC
* **
36840271 CTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGT-AG
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTACAGTGGGTCA-
*
36840335 GAATGAAAA-TACAATGGTGAATCTTATCTACTTGAAATTACAGTAGAGCAAACTAAAGCTACAA
65 GAAT-AAAATTACAATGGTGAATCTTATCTACTTGAAATTACAGTAGAACAAACTAAAGCTACAA
36840399 ATCCTATACC
129 ATCCTATACC
* * *
36840409 CCTGAAGTTGTAGTGGGTCAGATTGAAACTACAA
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAA
36840443 ATGACAAATC
Statistics
Matches: 147, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
137 19 0.13
138 124 0.84
139 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (138 bp):
CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTACAGTGGGTCAG
AATAAAATTACAATGGTGAATCTTATCTACTTGAAATTACAGTAGAACAAACTAAAGCTACAAAT
CCTATACC
Found at i:36840358 original size:94 final size:93
Alignment explanation
Indices: 36840257--36840751 Score: 478
Period size: 94 Copynumber: 5.3 Consensus size: 93
36840247 AGATGAAGCT
* * * * *
36840257 ACAAATCTTATAC-CCTTGAAGTTGCAGTGGGTC-GGATTGAAGCTACAATTCCTATACCCCTAA
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGGG-CAAGA-TAAAGCTACAAATCCTATACCCCTGA
* *
36840320 AGTTGTAGTGGGT-AGGAATGAAAATACAATG
63 AGTTGCAGTGGGTCA-GAATGAAACTACAATG
*** * * * * *
36840351 GTGAATCTTATCTACTTGAAATTACAGTAGAGCAA-ACTAAAGCTACAAATCCTATACCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGT-GGGCAAGA-TAAAGCTACAAATCCTATACCCCTGAA
* *
36840415 GTTGTAGTGGGTCAGATTGAAACTACAAATG
64 GTTGCAGTGGGTCAGAATGAAACTAC-AATG
* * * *
36840446 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTACAAGTCCTATACCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGG-GCAAGATAAAGCTACAAATCCTATACCCCTGAAG
* *
36840511 TTACAATGGGTC-GAATTGAAACTACAATG
65 TTGCAGTGGGTCAGAA-TGAAACTACAATG
* * *
36840540 GCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGT-GGGCAAGATAAAGCTACAAATCCTATACCCCTGAAG
* * *
36840605 TTGCAGTTGGTCAGATTGAAACTATAATG
65 TTGCAGTGGGTCAGAATGAAACTACAATG
** * * * * *
36840634 ATGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATAAAGCTACAAATTCTATGCCTCTGAAC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGG-GCAAGATAAAGCTACAAATCCTATACCCCTGAAG
** * **
36840699 TTGCAGTGGGTTGGAATAAAACTACAACA
65 TTGCAGTGGGTCAGAATGAAACTACAATG
*
36840728 ACAAATCTTATCTCCTTGAAGTTG
1 ACAAATCTTATCTCCCTGAAGTTG
36840752 AAATAGAGCA
Statistics
Matches: 330, Mismatches: 60, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
93 2 0.01
94 248 0.75
95 79 0.24
96 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (93 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGGCAAGATAAAGCTACAAATCCTATACCCCTGAAGT
TGCAGTGGGTCAGAATGAAACTACAATG
Found at i:36840489 original size:189 final size:187
Alignment explanation
Indices: 36840294--36840765 Score: 553
Period size: 189 Copynumber: 2.5 Consensus size: 187
36840284 TGGGTCGGAT
* * **
36840294 TGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTAGGAATGAAAATACAATGGTGAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGT-GGAATGAAAATACAATGGCAAATCT
* *
36840359 TATCTACTTGAAA-TTACAGTAGAGCAA-ACTAAAGCTACAAATCCTATACCCCTGAAGTTGTAG
65 TATCTACCT-AAAGTTACAGTAGAGCAAGA-TAAAGCTACAAATCCTATACCCCTGAAGTTGCAG
36840422 TGGGTCAGATTGAAACTACAAATGACAAATCTTATCTCCCT-AAAGTTACAGTGGAGCAAGA
128 TGGGTCAGATTGAAACTA-AAATGACAAATCTTATCTCCCTGAAA-TTACAGTGGAGCAAGA
* * * * *
36840483 TGAAGCTACAAGTCCTATACCCCTGAAGTTACAATGGGTCGAATTGAAACTACAATGGCAAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTGGAA-TGAAAATACAATGGCAAATCT
* * *
36840548 TATCTCCCTAAAGTTGCAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTT
65 TATCTACCTAAAGTTACAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTG
* ** *
36840613 GGTCAGATTGAAACTATAATGATGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGA
130 GGTCAGATTGAAACTAAAATGACAAATCTTATCTCCCTGAAATTACAGTGGAGCAAGA
* * * * ***
36840671 TAAAGCTACAAATT-CTATGCCTCTGAACTTGCAGTGGGTTGGAAT-AAAACTACAACAACAAAT
1 TGAAGCTAC-AATTCCTATACCCCTGAAGTTGCAGTGGG-TGGAATGAAAA-TACAATGGCAAAT
* *
36840734 CTTATCT-CCTTGAAGTTGA-AATAGAGCAAGAT
63 CTTATCTACC-TAAAGTT-ACAGTAGAGCAAGAT
36840766 GAAACTTTGA
Statistics
Matches: 241, Mismatches: 33, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
187 5 0.02
188 103 0.43
189 132 0.55
190 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (187 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTGGAATGAAAATACAATGGCAAATCTT
ATCTACCTAAAGTTACAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGG
GTCAGATTGAAACTAAAATGACAAATCTTATCTCCCTGAAATTACAGTGGAGCAAGA
Found at i:36841366 original size:29 final size:31
Alignment explanation
Indices: 36841304--36841369 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
36841294 AAGAACAGAG
*
36841304 AGCAGAGAACAGCAGAAACACAAAAGTAGAAA
1 AGCA-AGAACAGCAGAAACACAAAAGGAGAAA
*
36841336 AGCAAGAATAGCAGAAACA-AAAAGGAG-AA
1 AGCAAGAACAGCAGAAACACAAAAGGAGAAA
36841365 AGCAA
1 AGCAA
36841370 AAAAAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 7 0.22
30 7 0.22
31 14 0.44
32 4 0.12
ACGTcount: A:0.61, C:0.14, G:0.23, T:0.03
Consensus pattern (31 bp):
AGCAAGAACAGCAGAAACACAAAAGGAGAAA
Found at i:36841932 original size:13 final size:13
Alignment explanation
Indices: 36841901--36841929 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36841891 TTGAAACAGG
36841901 TTTTAAAATGATT
1 TTTTAAAATGATT
36841914 TTTTAAAAT-ATT
1 TTTTAAAATGATT
36841926 TTTT
1 TTTT
36841930 TAACTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TTTTAAAATGATT
Found at i:36856869 original size:3 final size:3
Alignment explanation
Indices: 36856785--36856849 Score: 76
Period size: 3 Copynumber: 20.7 Consensus size: 3
36856775 TTAATAAACG
* *
36856785 AAT AAT AAT AAT AAAT AGAT AAAT AAG AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
36856833 AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AA
36856850 CCGTATTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
3 45 0.85
4 7 0.13
5 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Done.