Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 219 of 230
Found at i:64955807 original size:109 final size:109
Alignment explanation
Indices: 64955663--64955880 Score: 364
Period size: 109 Copynumber: 2.0 Consensus size: 109
64955653 ATCGAAGATA
* * *
64955663 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
1 GCAGATCTTATCTTCCTGTATTTGGCAACGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
* *
64955728 ATTTGGCAGTGAAGTAGATCAAAGATAGTAGATCTTATCTTCCT
66 ATTTGGCAGTGAAGTACATCAAAGATAGCAGATCTTATCTTCCT
* *
64955772 GCAGATCTTATCTTCCTGTATTTGGCAACGGAGTAGATCGAAGATAACAGATCTTGTCTTCTTGT
1 GCAGATCTTATCTTCCTGTATTTGGCAACGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
*
64955837 ATTTGGCAGTGAAGTACATCGAAGATAGCAGATCTTATCTTCCT
66 ATTTGGCAGTGAAGTACATCAAAGATAGCAGATCTTATCTTCCT
64955881 ATATTTGGTA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 101 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (109 bp):
GCAGATCTTATCTTCCTGTATTTGGCAACGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
ATTTGGCAGTGAAGTACATCAAAGATAGCAGATCTTATCTTCCT
Found at i:64956369 original size:44 final size:44
Alignment explanation
Indices: 64956301--64956406 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
64956291 TCCTGTACTG
* *
64956301 GCAGTGAAGCAGATTGAAGATACAAACCTTATCTCCCCGAAGTT
1 GCAGTGGAGCAGATTGAAGATACAAACCTTATCTCCACGAAGTT
* ** *
64956345 GCAGTGGAGCAGGTTGAA-ATTACAAGTCTTATCTCCATGAAGTT
1 GCAGTGGAGCAGATTGAAGA-TACAAACCTTATCTCCACGAAGTT
**
64956389 GCAGTGGAGTGGATTGAA
1 GCAGTGGAGCAGATTGAA
64956407 TTTACTAGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (44 bp):
GCAGTGGAGCAGATTGAAGATACAAACCTTATCTCCACGAAGTT
Found at i:64956430 original size:44 final size:44
Alignment explanation
Indices: 64956339--64956438 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
64956329 TTATCTCCCC
**
64956339 GAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCAT
1 GAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCCAATCTCCAT
* * *
64956383 GAAGTTGCAGTGGAG-TGGATTGAATTTACTAGTCCAATCTTCC-T
1 GAAGTTGCAGTGGAGCAGG-TTGAAATTACAAGTCCAATC-TCCAT
*
64956427 GAAGTTACAGTG
1 GAAGTTGCAGTG
64956439 AAGCGAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 2 0.04
44 43 0.90
45 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (44 bp):
GAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCCAATCTCCAT
Found at i:64956643 original size:44 final size:43
Alignment explanation
Indices: 64956595--64956723 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 43
64956585 TGGAGCAGGT
* * *
64956595 TGAAGATATAAGTCCTATTTCCATGAAGTTGCAGTGGAGTAGAC
1 TGAAG-TATAAGTCCTATTTCCATAAAGTTGCAGTGGAGCAAAC
* * *
64956639 TGAAG-ATGAGT-CTCATTTCCTTAAAGTTGCAGAGGAGCAAAC
1 TGAAGTATAAGTCCT-ATTTCCATAAAGTTGCAGTGGAGCAAAC
* * *
64956681 TGAAGCTACTAA-TCCTATCTCCCTAAAGTTGTAGTGGAGCAAA
1 TGAAG-TA-TAAGTCCTATTTCCATAAAGTTGCAGTGGAGCAAA
64956724 TTAAAACGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.03
42 33 0.48
44 30 0.43
45 4 0.06
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
TGAAGTATAAGTCCTATTTCCATAAAGTTGCAGTGGAGCAAAC
Found at i:64958673 original size:58 final size:58
Alignment explanation
Indices: 64958525--64958674 Score: 140
Period size: 58 Copynumber: 2.5 Consensus size: 58
64958515 TAGGTTTAAT
* * * *
64958525 TATATATATATGTATACGTACATATATTTGATCTTATATATTTTATAATTTTTATATACATA
1 TATATATATATATATACGCACATAT-TTT--T-TTTTATATTTTATAATTTATATATACATA
* * * * * *
64958587 TATATATGTGTCTATATGCACATATTTTTTTTTATATTTTATAATTTATATATGCCTA
1 TATATATATATATATACGCACATATTTTTTTTTATATTTTATAATTTATATATACATA
* * *
64958645 TTTATATATATATCTACGTACAT-TTTTTTT
1 TATATATATATATATACGCACATATTTTTTT
64958675 AATACACACA
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
57 7 0.10
58 41 0.57
59 1 0.01
61 3 0.04
62 20 0.28
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (58 bp):
TATATATATATATATACGCACATATTTTTTTTTATATTTTATAATTTATATATACATA
Found at i:64958705 original size:16 final size:16
Alignment explanation
Indices: 64958684--64958723 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
64958674 TAATACACAC
64958684 ATATATATACACT-TTT
1 ATATATATACA-TGTTT
64958700 ATATATATACATGTTT
1 ATATATATACATGTTT
*
64958716 TTATATAT
1 ATATATAT
64958724 TTCCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATATATACATGTTT
Found at i:64958717 original size:18 final size:17
Alignment explanation
Indices: 64958684--64958746 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
64958674 TAATACACAC
*
64958684 ATATATATACA-CTTTT
1 ATATATATACATATTTT
*
64958700 ATATATATACATGTTTTT
1 ATATATATACAT-ATTTT
* *
64958718 ATATATTTCCATAATTTT
1 ATATATATACAT-ATTTT
*
64958736 ATGTATATACA
1 ATATATATACA
64958747 CATATATATG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
16 11 0.30
18 26 0.70
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.51
Consensus pattern (17 bp):
ATATATATACATATTTT
Found at i:64959612 original size:30 final size:30
Alignment explanation
Indices: 64959546--64959761 Score: 233
Period size: 29 Copynumber: 7.3 Consensus size: 30
64959536 AAAAAATAAA
* *
64959546 AAAATTACATTTTGCCCCCTAAACTTTTT-
1 AAAATTACATTTTGACCACTAAACTTTTTC
* * *
64959575 GAAATTACATTTTGACCATTAAAATTTTTC
1 AAAATTACATTTTGACCACTAAACTTTTTC
*
64959605 AAAATTACATTTTTACCACTAAACTTTTT-
1 AAAATTACATTTTGACCACTAAACTTTTTC
* * * *
64959634 GAAATTATATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCACTAAACTTTTTC
* *
64959664 AAAATTACATTTTTACCACTACACTTTTT-
1 AAAATTACATTTTGACCACTAAACTTTTTC
* * * *
64959693 GAAATTATATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCACTAAACTTTTTC
* *
64959723 AAAATTACATTTTGACC-CCAAAATTTTCTC
1 AAAATTACATTTTGACCACTAAACTTTT-TC
64959753 AAAATTACA
1 AAAATTACA
64959762 CTAGCCCCAG
Statistics
Matches: 152, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
29 78 0.51
30 74 0.49
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTGACCACTAAACTTTTTC
Found at i:64959617 original size:59 final size:59
Alignment explanation
Indices: 64959546--64959739 Score: 298
Period size: 59 Copynumber: 3.3 Consensus size: 59
64959536 AAAAAATAAA
* * * ** * *
64959546 AAAATTACATTTTGCCCCCTAAACTTTTTGAAATTACATTTTGACCATTAAAATTTTTC
1 AAAATTACATTTTGACCACTAAACTTTTTGAAATTATATTTTGACCCCTAAACTTTCTC
*
64959605 AAAATTACATTTTTACCACTAAACTTTTTGAAATTATATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCACTAAACTTTTTGAAATTATATTTTGACCCCTAAACTTTCTC
* *
64959664 AAAATTACATTTTTACCACTACACTTTTTGAAATTATATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCACTAAACTTTTTGAAATTATATTTTGACCCCTAAACTTTCTC
64959723 AAAATTACATTTTGACC
1 AAAATTACATTTTGACC
64959740 CCAAAATTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 125 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (59 bp):
AAAATTACATTTTGACCACTAAACTTTTTGAAATTATATTTTGACCCCTAAACTTTCTC
Found at i:64960631 original size:21 final size:20
Alignment explanation
Indices: 64960607--64960655 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
64960597 GTATTTACAT
*
64960607 TTTTAATTTAATTTAATTCAA
1 TTTTAATTTAATTTAAAT-AA
*
64960628 TTTTAATTTTATTTTAAATAA
1 TTTTAA-TTTAATTTAAATAA
64960649 TTTTAAT
1 TTTTAAT
64960656 AAATAAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAATTTAATTTAAATAA
Found at i:64960804 original size:21 final size:20
Alignment explanation
Indices: 64960768--64960806 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64960758 TGTAAATATT
*
64960768 CAAAAAATTTCGTGTTTTCA
1 CAAAAAATTTCATGTTTTCA
64960788 CAAAAAATTTCCATGTTTT
1 CAAAAAATTT-CATGTTTT
64960807 AAAATTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
CAAAAAATTTCATGTTTTCA
Found at i:64960873 original size:17 final size:17
Alignment explanation
Indices: 64960770--64961296 Score: 236
Period size: 18 Copynumber: 29.3 Consensus size: 17
64960760 TAAATATTCA
64960770 AAAAATTTCGTGTTTTCAC
1 AAAAATTTCGTGTTTT--C
*
64960789 AAAAAATTTCCATGTTTT-
1 -AAAAATTT-CGTGTTTTC
* **
64960807 AAAATTTTCGTGGCTTC
1 AAAAATTTCGTGTTTTC
*
64960824 AAAATAATTTTTCTCGTGTTTTA
1 -AAA-AA---TT-TCGTGTTTTC
64960847 AAAAATATTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
* *
64960865 AAAAAATTCCAT-TTTTC
1 -AAAAATTTCGTGTTTTC
*
64960882 AAAATTTTCCGTGTTTTC
1 AAAAATTT-CGTGTTTTC
* *
64960900 TAAAAATTCCCATG-TTTC
1 -AAAAATT-TCGTGTTTTC
* *
64960918 TAAAATTT-TTGTGTTTC
1 AAAAATTTCGTGT-TTTC
*
64960935 AAAAATTTTTGTGTTTT-
1 AAAAA-TTTCGTGTTTTC
* **
64960952 TAAAATTTTTTGAATTTTC
1 AAAAATTTCGTG--TTTTC
*
64960971 AACAATTCTCGTG-TTTC
1 AAAAATT-TCGTGTTTTC
*
64960988 ACAAATTTTCGTGTTTT-
1 A-AAAATTTCGTGTTTTC
** *
64961005 AAAAATTTTTTATGTTTTAAA
1 AAAAA--TTTCGTGTTTT--C
64961026 AAAAATTCTCGTG-TTTC
1 AAAAATT-TCGTGTTTTC
*
64961043 AAAAATTGTCGTGTTTTA
1 AAAAATT-TCGTGTTTTC
*
64961061 AAAAATTTTCATG-TTTC
1 AAAAA-TTTCGTGTTTTC
* *
64961078 TAAAATTTTCGT-ATTTC
1 -AAAAATTTCGTGTTTTC
*
64961095 AAAAATTTTCATGTTTTC
1 AAAAA-TTTCGTGTTTTC
*
64961113 AAAATTTTGCGTG-TTTC
1 AAAAATTT-CGTGTTTTC
*
64961130 AAAAATCTTCATGTTTTC
1 AAAAAT-TTCGTGTTTTC
*
64961148 AAAAATTCCGATG-TTTC
1 AAAAATTTCG-TGTTTTC
*
64961165 AAAAAATTCTCGTGTTTTA
1 -AAAAATT-TCGTGTTTTC
* *
64961184 AAAAATTTCCGAGTTTTAA
1 AAAAATTT-CGTGTTTT-C
*
64961203 AAAAATTTTCGTGCTTTC
1 AAAAA-TTTCGTGTTTTC
* *
64961221 AAAAGTTTTTCGT-ATTTC
1 AAAA--ATTTCGTGTTTTC
*
64961239 AAAAATCCTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
64961257 AAAAATTTCGGTGTTTT-
1 AAAAATTTC-GTGTTTTC
*
64961274 AAAATTTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
64961291 GAAAAA
1 -AAAAA
64961297 AAATCTTTTG
Statistics
Matches: 388, Mismatches: 66, Indels: 108
0.69 0.12 0.19
Matches are distributed among these distances:
15 2 0.01
16 32 0.08
17 108 0.28
18 148 0.38
19 55 0.14
20 17 0.04
21 14 0.04
22 5 0.01
23 7 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:64960895 original size:35 final size:36
Alignment explanation
Indices: 64960770--64961297 Score: 148
Period size: 35 Copynumber: 14.6 Consensus size: 36
64960760 TAAATATTCA
* *
64960770 AAAAATTTCGTGTTTTCACAAAAAATTTCCATGTTT-T
1 AAAATTTTCGTGTTTT--CAAAAAATTCCCATGTTTCT
** * *
64960807 AAAATTTTCGTGGCTTCAAAATAATTTTTCTCGTGTTT-T
1 AAAATTTTCGTGTTTTCAAAA-AA---TTCCCATGTTTCT
* *
64960846 AAAAAATATTCGTGTTTTCAAAAAATT-CCATTTTTC-
1 --AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
*
64960882 AAAATTTTCCGTGTTTTCTAAAAATTCCCATGTTTCT
1 AAAATTTT-CGTGTTTTCAAAAAATTCCCATGTTTCT
* **** *
64960919 AAAATTTTTGTG-TTTC-AAAAATTTTTGTGTTTTT
1 AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
* * * *
64960953 AAAATTTT-TTGAATTTTC-AACAATTCTCGTGTTTC-
1 AAAATTTTCGTG--TTTTCAAAAAATTCCCATGTTTCT
* ***
64960988 ACAAATTTTCGTGTTTT-AAAAATTTTTTATGTTT-T
1 A-AAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
* ** *
64961023 AAAAAAAATTCTCGTG-TTTC-AAAAATTGTCGTGTTT-T
1 ----AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
* * ** * * *
64961060 AAAAAATTTTCATG-TTTC-TAAAATTTTCGTATTTCA
1 --AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
* * ** * *
64961096 AAAATTTTCATGTTTTC-AAAATTTTGCGTGTTTCA
1 AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
* * * *
64961131 AAAATCTTCATGTTTTC-AAAAATTCCGATGTTTCAA
1 AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTC-T
* *
64961167 AAAATTCTCGTGTTTT-AAAAAATTTCCGA-GTTT-T
1 AAAATTTTCGTGTTTTCAAAAAA-TTCCCATGTTTCT
* ** ** * * *
64961201 AAAAAAATTTTCGTGCTTTCAAAAGTTTTTCGTATTTCA
1 ---AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
** * **
64961240 AAAATCCTCGTGTTTTC-AAAAATTTCGGTGTTT-T
1 AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
64961274 AAAATTTTCGTGTTTTCGAAAAAA
1 AAAATTTTCGTGTTTTC-AAAAAA
64961298 AATCTTTTGT
Statistics
Matches: 378, Mismatches: 78, Indels: 71
0.72 0.15 0.13
Matches are distributed among these distances:
33 2 0.01
34 55 0.15
35 127 0.34
36 84 0.22
37 63 0.17
38 17 0.04
39 10 0.03
40 2 0.01
41 18 0.05
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (36 bp):
AAAATTTTCGTGTTTTCAAAAAATTCCCATGTTTCT
Found at i:64960985 original size:53 final size:51
Alignment explanation
Indices: 64960914--64961120 Score: 191
Period size: 53 Copynumber: 3.9 Consensus size: 51
64960904 AATTCCCATG
* * *
64960914 TTTCTAAAATTTTTGTGTTTCAAAAATTTTTGTGTTTTTAAAATTTTTTGAAT
1 TTTC-AAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAATTTTTT-AAT
* * *
64960967 TTTCAACAATTCTCGTGTTTCACAAATTTTCGTGTTTTAAAAATTTTTTATGT
1 TTTCAA-AATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAATTTTTTA-AT
* * ** *
64961020 TTTAAAAAAAATTCTCGTGTTTCAAAAATTGTCGTG-TTTTAAAAAATTTTCAT
1 TTT---CAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAATTTTTTAAT
* * * *
64961073 GTTTCTAAAATTTTCGTATTTCAAAAATTTTCATGTTTTCAAAATTTT
1 -TTTC-AAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAATTTT
64961121 GCGTGTTTCA
Statistics
Matches: 124, Mismatches: 22, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
52 28 0.23
53 55 0.44
54 14 0.11
55 25 0.20
56 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (51 bp):
TTTCAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAATTTTTTAAT
Found at i:64967585 original size:78 final size:78
Alignment explanation
Indices: 64967409--64968314 Score: 1151
Period size: 78 Copynumber: 11.7 Consensus size: 78
64967399 CAAGAAATAT
* ** * **** **
64967409 TTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAACAAGTTGAGCCTCGG-GTCAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
64967473 GCCGAGGTATTTC
66 GCCGAGGTATTTC
*
64967486 TTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
64967551 GCCGAGGTATTTC
66 GCCGAGGTATTTC
* * * *
64967564 GTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
64967629 GCCGAGGTATTTC
66 GCCGAGGTATTTC
*
64967642 TTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GATCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-CACA
64967706 TGCCGAGGTATTTC
65 TGCCGAGGTATTTC
* * *
64967720 TTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC-
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACA
*
64967784 -GCTGAGG-A----
65 TGCCGAGGTATTTC
* *** * * *
64967792 ATTTACAATTTCTGTTTTTTTTTAATTCAACTCATATTGCGAGAGTTGAGTTGAGCCTTGGACAC
1 TTTTA-AATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
*
64967857 ATGACGAGGTATTTC
64 ATGCCGAGGTATTTC
* * * *
64967872 TTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
64967937 GCCGAGGTATTTC
66 GCCGAGGTATTTC
* * * * *
64967950 GTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGCGTTGAGCCTCGGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
*
64968015 GCCGAGGTACTTC
66 GCCGAGGTATTTC
* * *
64968028 TTTTATATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC-
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACA
* *
64968092 -GCTGAGG-A---A
65 TGCCGAGGTATTTC
* ***
64968101 TTTTCAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
* *
64968166 ACTGAGGTATTTC
66 GCCGAGGTATTTC
* * *
64968179 TTTTAAATTTCTGTTCTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
*
64968244 GCCGACGTATTTC
66 GCCGAGGTATTTC
64968257 TTTTAAATTTCT-TATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTAAATTTCTGT-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64968315 TGAGTCACGT
Statistics
Matches: 724, Mismatches: 82, Indels: 43
0.85 0.10 0.05
Matches are distributed among these distances:
72 9 0.01
73 64 0.09
74 43 0.06
75 6 0.01
76 3 0.00
77 64 0.09
78 477 0.66
79 17 0.02
80 41 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (78 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
GCCGAGGTATTTC
Found at i:64967976 original size:308 final size:306
Alignment explanation
Indices: 64967415--64968314 Score: 1363
Period size: 308 Copynumber: 2.9 Consensus size: 306
64967405 ATATTTTTCA
** * **** * *
64967415 ATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAACAAGTTGAGCCTCGGGTCATGCCGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * ***
64967480 TATTT-CTTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 AATTTAC-----AATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * * *
64967544 GACACATGCCGAGGTATTTCGTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGT
126 GACACATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGT
* *
64967609 GAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAATCAACTCA
191 GAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCA
*
64967674 TATTGCGAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTATTTCTTTTAT
255 TATTGCGAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTACTTCTTTTAT
*
64967726 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * *
64967791 AATTTACAATTTCTGTTTTTTTTTAATTCAACTCATATTGCGAGAGTTGAGTTGAGCCTTGGACA
66 AATTTACAATTTCTG-TTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
64967856 CATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGT
130 CATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGT
*
64967921 TGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTATTTTTCAAAAATCAACTCATATT
195 TGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATATT
* * *
64967986 GCGAGAAGTGCGTTGAGCCTCGGTCACATGCCGAGGTACTTCTTTTAT
259 GCGAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTACTTCTTTTAT
*
64968034 ATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
*
64968099 AATTTTCAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
66 AATTTACAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
* *
64968164 AT-ACTGAGGTATTTCTTTTAAATTTCTGTTCTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
131 ATGAC-GAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGT
* *
64968228 TGAGCCTCGAACACATGCCGACGTATTTCTTTTAAATTTCTTATTTTCAAAAAAATCAACTCATA
195 TGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTT-TTTTC--AAAAATCAACTCATA
64968293 TTGCGAGAGGTGAGTTGAGCCT
257 TTGCGAGAGGTGAGTTGAGCCT
64968315 TGAGTCACGT
Statistics
Matches: 540, Mismatches: 43, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
306 3 0.01
307 156 0.29
308 286 0.53
309 35 0.06
311 59 0.11
312 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (306 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
AATTTACAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
ATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGTT
GAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTACTTCTTTTAT
Found at i:64968625 original size:59 final size:59
Alignment explanation
Indices: 64968561--64968727 Score: 212
Period size: 59 Copynumber: 2.8 Consensus size: 59
64968551 AAAAAAATAA
*
64968561 AAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTTTGACCCTTAAAATTTTTC
1 AAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTTTGACCCTTAAAATTTCTC
* * * * *
64968620 AAAATTACATTTTCATCCCTAAACTTTTTGAAATTATATTTTAACTCC-TAAAATTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTTTGAC-CCTTAAAATTTCTC
* * *
64968679 AAAATTACATTTTGACCCC-AAAATTTTCTCAAAATTACACTTTGGCCCT
1 AAAATTACATTTTGACCCCTAAACTTTT-T-AAAATTACATTTTGACCCT
64968728 AGAAGTTTTG
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
58 7 0.08
59 70 0.78
60 13 0.14
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (59 bp):
AAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTTTGACCCTTAAAATTTCTC
Found at i:64968626 original size:30 final size:29
Alignment explanation
Indices: 64968561--64968728 Score: 187
Period size: 29 Copynumber: 5.7 Consensus size: 29
64968551 AAAAAAATAA
*
64968561 AAAATTACATTTTGACCCCTAAACTTTTT-
1 AAAATTACATTTTGA-CCCTAAAATTTTTC
64968590 AAAATTACATTTTGACCCTTAAAATTTTTC
1 AAAATTACATTTTGACCC-TAAAATTTTTC
* *
64968620 AAAATTACATTTTCATCCCTAAACTTTTT-
1 AAAATTACATTTTGA-CCCTAAAATTTTTC
* * * *
64968649 GAAATTATATTTTAACTCCTAAAATTTCTC
1 AAAATTACATTTTGAC-CCTAAAATTTTTC
*
64968679 AAAATTACATTTTGACCCCAAAATTTTCTC
1 AAAATTACATTTTGACCCTAAAATTTT-TC
* *
64968709 AAAATTACACTTTGGCCCTA
1 AAAATTACATTTTGACCCTA
64968729 GAAGTTTTGC
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
28 4 0.03
29 55 0.47
30 55 0.47
31 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAAATTTTTC
Found at i:64969071 original size:10 final size:10
Alignment explanation
Indices: 64969053--64969125 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
64969043 GGCCGAACGG
*
64969053 AGAAGAAGAA
1 AGAAAAAGAA
64969063 AGAAAAAG--
1 AGAAAAAGAA
*
64969071 AGAGAAAGAA
1 AGAAAAAGAA
64969081 AGAAAAAG--
1 AGAAAAAGAA
*
64969089 AGAGAAAGAA
1 AGAAAAAGAA
** *
64969099 AGAAGGAGGA
1 AGAAAAAGAA
*
64969109 AGAAGAAGAA
1 AGAAAAAGAA
64969119 AGAAAAA
1 AGAAAAA
64969126 TAAAAAAATA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 14 0.29
10 34 0.71
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:64969079 original size:18 final size:18
Alignment explanation
Indices: 64969058--64969102 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
64969048 AACGGAGAAG
64969058 AAGAAAGAAAAAGAGAGA
1 AAGAAAGAAAAAGAGAGA
64969076 AAGAAAGAAAAAGAGAGA
1 AAGAAAGAAAAAGAGAGA
64969094 AAGAAAGAA
1 AAGAAAGAA
64969103 GGAGGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAAAAGAGAGA
Found at i:64969112 original size:18 final size:17
Alignment explanation
Indices: 64969057--64969112 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
64969047 GAACGGAGAA
64969057 GAAGAAAGAAAAAGAGAG
1 GAAGAAAGAAAAAG-GAG
*
64969075 AAAGAAAGAAAAA-GA-
1 GAAGAAAGAAAAAGGAG
64969090 G-AGAAAGAAAGAAGGAG
1 GAAGAAAGAAA-AAGGAG
64969107 GAAGAA
1 GAAGAA
64969113 GAAGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
16 4 0.12
17 1 0.03
18 16 0.50
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
GAAGAAAGAAAAAGGAG
Found at i:64969253 original size:18 final size:18
Alignment explanation
Indices: 64969232--64969269 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64969222 AAAAAAATTT
64969232 AAGCAAAAAAAAAAGAAA
1 AAGCAAAAAAAAAAGAAA
* *
64969250 AAGCAGAAAAAATAGAAA
1 AAGCAAAAAAAAAAGAAA
64969268 AA
1 AA
64969270 AACAGGCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (18 bp):
AAGCAAAAAAAAAAGAAA
Found at i:64969427 original size:9 final size:9
Alignment explanation
Indices: 64969415--64969450 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
64969405 AAAAGGGAGA
64969415 AAAAAGAAG
1 AAAAAGAAG
64969424 AAAAAGAAG
1 AAAAAGAAG
*
64969433 AAAAAAAAG
1 AAAAAGAAG
64969442 AAAAA-AAG
1 AAAAAGAAG
64969450 A
1 A
64969451 GTTTCAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:64969427 original size:19 final size:19
Alignment explanation
Indices: 64969412--64969450 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
64969402 AAAAAAAGGG
64969412 AGAAAAAAGAAGAAAAAGA
1 AGAAAAAAGAAGAAAAAGA
64969431 AGAAAAAA-AAGAAAAA-A
1 AGAAAAAAGAAGAAAAAGA
64969448 AGA
1 AGA
64969451 GTTTCAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AGAAAAAAGAAGAAAAAGA
Found at i:64969652 original size:21 final size:22
Alignment explanation
Indices: 64969614--64969657 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
64969604 GTATTGATAT
*
64969614 TTTTAATTTAATTCAATTTTAA
1 TTTTAATTTAAATCAATTTTAA
*
64969636 TTTTATTTTAAAT-AATTTTAA
1 TTTTAATTTAAATCAATTTTAA
64969657 T
1 T
64969658 AAATAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAATTTAAATCAATTTTAA
Found at i:64969793 original size:18 final size:17
Alignment explanation
Indices: 64969768--64970290 Score: 237
Period size: 17 Copynumber: 29.5 Consensus size: 17
64969758 ATTGTAAATA
64969768 TTCAAAAATTTCGTGTT
1 TTCAAAAATTTCGTGTT
64969785 TTCACAAAAATTTCCGTG-T
1 TT--CAAAAATTT-CGTGTT
* **
64969804 TTCAAAATTTTCGTGGC
1 TTCAAAAATTTCGTGTT
64969821 TTCAAAATAATTTTTC-TCGTGT
1 TTC-AAA-AA--TTTCGT-GT-T
*
64969843 TTCAAAAAATATTTGTGTT
1 TTC-AAAAAT-TTCGTGTT
* *
64969862 TTCAAAAATTCCAT-TT
1 TTCAAAAATTTCGTGTT
*
64969878 TTC-AAATTTTCTGTGTT
1 TTCAAAAATTTC-GTGTT
* *
64969895 TTCTAAAATTCTCATG-T
1 TTCAAAAATT-TCGTGTT
* *
64969912 TTCTAAAATTT-TTGTGT
1 TTCAAAAATTTCGTGT-T
*
64969929 TTCAAAAATTTTGTGTT
1 TTCAAAAATTTCGTGTT
** * *
64969946 TTCAAATTTTTTGTATT
1 TTCAAAAATTTCGTGTT
*
64969963 TTCAACAATTCTCGTG-T
1 TTCAAAAATT-TCGTGTT
* *
64969980 TTCACAAATTTTCGTATT
1 TTCA-AAAATTTCGTGTT
* ** *
64969998 TTAAAAAATTTTTATATT
1 TTCAAAAA-TTTCGTGTT
*
64970016 TTAAAAAAAATTCTCGTG-T
1 TT--CAAAAATT-TCGTGTT
64970035 TTCAAAAATTGTCGTGTT
1 TTCAAAAATT-TCGTGTT
* *
64970053 TTAAAAAATTTTCATG-T
1 TTCAAAAA-TTTCGTGTT
* *
64970070 TTCTAAAATTTTCGT-AT
1 TTC-AAAAATTTCGTGTT
* *
64970087 TTAAAAAATTTTCATGTT
1 TTCAAAAA-TTTCGTGTT
* *
64970105 TTTAAAATTTTGCGTG-T
1 TTCAAAAATTT-CGTGTT
64970122 TTCAAAAATCTTCGTGTT
1 TTCAAAAAT-TTCGTGTT
*
64970140 TTCAAAAATTCCGATG-T
1 TTCAAAAATTTCG-TGTT
64970157 TTCAAAAAATTCTCGTGTT
1 TTC-AAAAATT-TCGTGTT
* **
64970176 TTAAAAAATTTCCAAGTT
1 TTCAAAAATTT-CGTGTT
*
64970194 TTAAAAAAATTTTCGTGTT
1 TT-CAAAAA-TTTCGTGTT
* *
64970213 TTCAAAATTTTTTCGT-AT
1 TTCAAAA--ATTTCGTGTT
*
64970231 TTCAAAAATCCTCGTGTT
1 TTCAAAAAT-TTCGTGTT
64970249 TTC-AAAATTTCGGTGTT
1 TTCAAAAATTTC-GTGTT
* * *
64970266 TTGAAAATTTTTGTGTT
1 TTCAAAAATTTCGTGTT
64970283 TTCAAAAA
1 TTCAAAAA
64970291 AAATCTCGTG
Statistics
Matches: 388, Mismatches: 70, Indels: 96
0.70 0.13 0.17
Matches are distributed among these distances:
15 8 0.02
16 18 0.05
17 154 0.40
18 123 0.32
19 50 0.13
20 20 0.05
21 8 0.02
22 7 0.02
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
TTCAAAAATTTCGTGTT
Found at i:64969812 original size:16 final size:17
Alignment explanation
Indices: 64969791--64969828 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
64969781 TGTTTTCACA
*
64969791 AAAATTTCCGT-GTTTC
1 AAAATTTCCGTGGCTTC
*
64969807 AAAATTTTCGTGGCTTC
1 AAAATTTCCGTGGCTTC
64969824 AAAAT
1 AAAAT
64969829 AATTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (17 bp):
AAAATTTCCGTGGCTTC
Found at i:64970071 original size:35 final size:35
Alignment explanation
Indices: 64969771--64970290 Score: 268
Period size: 35 Copynumber: 14.7 Consensus size: 35
64969761 GTAAATATTC
64969771 AAAAA-TTTCGTGTTTTCACAAAAATTTCCGTG-TTT-
1 AAAAATTTTCGTGTTTT--CAAAAATTT-CGTGTTTTA
* ** *
64969806 CAAAATTTTCGTGGCTTCAAAATAATTTTTCTCGTGTTTCA
1 AAAAATTTTCGTGTTTTC-AAA-AA---TT-TCGTGTTTTA
* *
64969847 AAAAATATTT-GTGTTTTCAAAAATTCCAT-TTTT-
1 AAAAAT-TTTCGTGTTTTCAAAAATTTCGTGTTTTA
* * *
64969880 -CAAATTTTCTGTGTTTTCTAAAATTCTCATGTTTCT-
1 AAAAATTTTC-GTGTTTTCAAAAATT-TCGTGTTT-TA
* *
64969916 -AAAATTTTTGTG-TTTCAAAAATTTTGTGTTTT-
1 AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTTTA
* * * * * *
64969948 CAAATTTTTTGTATTTTCAACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTCAAAAATT-TCGTGTTTTA
* * * ** *
64969983 ACAAATTTTCGTATTTTAAAAAATTTTTATATTTTAAA
1 AAAAATTTTCGTGTTTTCAAAAA-TTTCGTGTTTT--A
*
64970021 AAAAATTCTCGTG-TTTCAAAAATTGTCGTGTTTTA
1 AAAAATTTTCGTGTTTTCAAAAATT-TCGTGTTTTA
* * *
64970056 AAAAATTTTCATG-TTTCTAAAATTTTCGT-ATTTA
1 AAAAATTTTCGTGTTTTC-AAAAATTTCGTGTTTTA
* * * *
64970090 AAAAATTTTCATGTTTTTAAAATTTTGCGTG-TTTC
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTTTA
* * *
64970125 AAAAATCTTCGTGTTTTCAAAAATTCCGATGTTTCA
1 AAAAATTTTCGTGTTTTCAAAAATTTCG-TGTTTTA
* * **
64970161 AAAAATTCTCGTGTTTTAAAAAATTTCCAAGTTTTAA
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTTT-A
* * *
64970198 AAAAATTTTCGTGTTTTCAAAATTTTTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTCAAAA--ATTTCGTGTTTTA
**
64970234 AAAAATCCTCGTGTTTTC-AAAATTTCGGTGTTTT-
1 AAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTTTA
* *
64970268 GAAAATTTTTGTGTTTTCAAAAA
1 AAAAATTTTCGTGTTTTCAAAAA
64970291 AAATCTCGTG
Statistics
Matches: 374, Mismatches: 74, Indels: 74
0.72 0.14 0.14
Matches are distributed among these distances:
31 3 0.01
32 5 0.01
33 34 0.09
34 73 0.20
35 100 0.27
36 78 0.21
37 39 0.10
38 11 0.03
39 11 0.03
40 6 0.02
41 11 0.03
42 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (35 bp):
AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTTTA
Found at i:64970351 original size:17 final size:17
Alignment explanation
Indices: 64969768--64970373 Score: 184
Period size: 17 Copynumber: 34.3 Consensus size: 17
64969758 ATTGTAAATA
64969768 TTCAAAAATT-TCGTGTT
1 TTCAAAAATTCTCGTG-T
64969785 TTCACAAAAATT-TCCGTGT
1 TT--CAAAAATTCT-CGTGT
* *
64969804 TTC-AAAATTTTCGTGGC
1 TTCAAAAATTCTCGT-GT
64969821 TTCAAAATAATTTTTCTCGTGT
1 TTC-AAA-AA---TTCTCGTGT
*
64969843 TTCAAAAAATAT-TTGTGTT
1 TTC-AAAAAT-TCTCGTG-T
* *
64969862 TTCAAAAATTC-CATTT
1 TTCAAAAATTCTCGTGT
**
64969878 TTCAAATTTTCT-GTGTT
1 TTCAAAAATTCTCGTG-T
* *
64969895 TTCTAAAATTCTCATGT
1 TTCAAAAATTCTCGTGT
* * *
64969912 TTCTAAAATTTTTGTGT
1 TTCAAAAATTCTCGTGT
*
64969929 TTCAAAAATT-TTGTGTT
1 TTCAAAAATTCTCGTG-T
* * * *
64969946 TTC-AAATTTTTTGTATT
1 TTCAAAAATTCTCGT-GT
*
64969963 TTCAACAATTCTCGTGT
1 TTCAAAAATTCTCGTGT
* * *
64969980 TTCACAAATTTTCGTATT
1 TTCAAAAATTCTCGT-GT
* * ** *
64969998 TTAAAAAATTTTTATATT
1 TTCAAAAATTCTCGT-GT
*
64970016 TTAAAAAAAATTCTCGTGT
1 TT--CAAAAATTCTCGTGT
*
64970035 TTCAAAAATTGTCGTGTT
1 TTCAAAAATTCTCGTG-T
* * *
64970053 TTAAAAAATTTTCATGT
1 TTCAAAAATTCTCGTGT
* * *
64970070 TTCTAAAATTTTCGTAT
1 TTCAAAAATTCTCGTGT
* * *
64970087 TTAAAAAATTTTCATGT
1 TTCAAAAATTCTCGTGT
** *
64970104 TTTTAAAATTTTGCGTGT
1 TTCAAAAATTCT-CGTGT
64970122 TTCAAAAA-TCTTCGTGTT
1 TTCAAAAATTC-TCGTG-T
64970140 TTCAAAAATTC-CGATGT
1 TTCAAAAATTCTCG-TGT
64970157 TTCAAAAAATTCTCGTGTT
1 TTC-AAAAATTCTCGTG-T
*
64970176 TTAAAAAATT-TCCAAGT-T
1 TTCAAAAATTCT-C--GTGT
* *
64970194 TTAAAAAAATTTTCGTGTT
1 TT-CAAAAATTCTCGTG-T
* * *
64970213 TTCAAAATTTTTTCGTAT
1 TTCAAAA-ATTCTCGTGT
*
64970231 TTCAAAAATCCTCGTGTT
1 TTCAAAAATTCTCGTG-T
64970249 TTC-AAAATT-TCGGTGT
1 TTCAAAAATTCTC-GTGT
** * *
64970265 TTTGAAAATTTTTGTGTT
1 TTCAAAAATTCTCGTG-T
*
64970283 TTCAAAAAAAATCTCGTGT
1 TTC--AAAAATTCTCGTGT
* * *
64970302 TTCATAAATTTTCGTTT
1 TTCAAAAATTCTCGTGT
***
64970319 TTTTTAAA-T-T-GTGT
1 TTCAAAAATTCTCGTGT
*
64970333 TTCCAAAATTCTCGTGT
1 TTCAAAAATTCTCGTGT
* *
64970350 TTAAAAAAAATTCTCATGT
1 TT--CAAAAATTCTCGTGT
64970369 TTCAA
1 TTCAA
64970374 TCGGATCGCG
Statistics
Matches: 449, Mismatches: 87, Indels: 106
0.70 0.14 0.17
Matches are distributed among these distances:
14 8 0.02
15 2 0.00
16 37 0.08
17 178 0.40
18 114 0.25
19 66 0.15
20 28 0.06
21 2 0.00
22 8 0.02
23 6 0.01
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
TTCAAAAATTCTCGTGT
Found at i:64972252 original size:19 final size:20
Alignment explanation
Indices: 64972230--64972281 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
64972220 AAATAGGAGG
64972230 ATATTTTTTAAAATTTTA-A
1 ATATTTTTTAAAATTTTATA
** *
64972249 ATATTTTTTGGATTTTTATA
1 ATATTTTTTAAAATTTTATA
64972269 A-ATTTTTTAAAAT
1 ATATTTTTTAAAAT
64972282 AAATTTTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
ATATTTTTTAAAATTTTATA
Found at i:64973103 original size:17 final size:17
Alignment explanation
Indices: 64973081--64973115 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64973071 TTTTCCTCTC
64973081 TTTTTTTAA-ATATTTAT
1 TTTTTTTAACAT-TTTAT
64973098 TTTTTTTAACATTTTAT
1 TTTTTTTAACATTTTAT
64973115 T
1 T
64973116 AGACCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTTAACATTTTAT
Found at i:64977804 original size:23 final size:24
Alignment explanation
Indices: 64977767--64977837 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 24
64977757 AGGTAATAAA
64977767 TTTTATAA-AATTTTAAAATTATAT
1 TTTTA-AATAATTTTAAAATTATAT
*
64977791 TTTTAAATAA-TTT--AATCATAT
1 TTTTAAATAATTTTAAAATTATAT
**
64977812 TTTTATTTAATTTTAAGAATTATAT
1 TTTTAAATAATTTTAA-AATTATAT
64977837 T
1 T
64977838 AATTGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
21 15 0.39
22 3 0.08
23 5 0.13
24 7 0.18
25 8 0.21
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
TTTTAAATAATTTTAAAATTATAT
Found at i:64978161 original size:31 final size:31
Alignment explanation
Indices: 64978123--64978182 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
64978113 GTTTAAAAAA
* * * *
64978123 CCCTTATTTGAGCATTTTTTAAAATGTTTGG
1 CCCTTATTTGAACACTTTTAAAAAGGTTTGG
64978154 CCCTTATTTGAACACTTTTAAAAAGGTTT
1 CCCTTATTTGAACACTTTTAAAAAGGTTT
64978183 ATCTTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (31 bp):
CCCTTATTTGAACACTTTTAAAAAGGTTTGG
Found at i:64994153 original size:11 final size:11
Alignment explanation
Indices: 64994133--64994202 Score: 79
Period size: 11 Copynumber: 6.4 Consensus size: 11
64994123 AAAGAATGTC
64994133 AAAG-AAAAAA
1 AAAGAAAAAAA
*
64994143 AAACAAAAAAA
1 AAAGAAAAAAA
64994154 AAAGAAAAAAA
1 AAAGAAAAAAA
*
64994165 AAAGGAAAAAA
1 AAAGAAAAAAA
* *
64994176 AATGAAAGAAA
1 AAAGAAAAAAA
*
64994187 TAAGAAAAATAA
1 AAAGAAAAA-AA
64994199 AAAG
1 AAAG
64994203 GAGAAGCCTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
10 3 0.06
11 40 0.83
12 5 0.10
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:64994154 original size:12 final size:12
Alignment explanation
Indices: 64994137--64994201 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
64994127 AATGTCAAAG
*
64994137 AAAAAAAAA-CA
1 AAAAAAAAAGAA
64994148 AAAAAAAAAGAA
1 AAAAAAAAAGAA
*
64994160 AAAAAAAAGGAA
1 AAAAAAAAAGAA
64994172 AAAAAATGAAAGAA
1 AAAAAA--AAAGAA
* *
64994186 ATAAGAAAAATAA
1 A-AAAAAAAAGAA
64994199 AAA
1 AAA
64994202 GGAGAAGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 9 0.20
12 20 0.44
13 6 0.13
14 6 0.13
15 4 0.09
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.05
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:64994157 original size:21 final size:20
Alignment explanation
Indices: 64994133--64994202 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 20
64994123 AAAGAATGTC
64994133 AAAGAAAAAAAAACAAAAAAA
1 AAAGAAAAAAAAA-AAAAAAA
64994154 AAAGAAAAAAAAAAGGAAAAAA
1 AAAGAAAAAAAAAA--AAAAAA
* *
64994176 AATGAAAGAAATAAGAAAAATAA
1 AAAGAAA-AAA-AA-AAAAAAAA
64994199 AAAG
1 AAAG
64994203 GAGAAGCCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.02
21 13 0.32
22 12 0.29
23 11 0.27
24 2 0.05
25 2 0.05
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.04
Consensus pattern (20 bp):
AAAGAAAAAAAAAAAAAAAA
Found at i:64994182 original size:10 final size:9
Alignment explanation
Indices: 64994133--64994195 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 9
64994123 AAAGAATGTC
64994133 AAAGAAAAA
1 AAAGAAAAA
*
64994142 AAA-ACAAA
1 AAAGAAAAA
*
64994150 AAA-AAAAG
1 AAAGAAAAA
64994158 AAA-AAAAA
1 AAAGAAAAA
*
64994166 AAGGAAAAA
1 AAAGAAAAA
64994175 AAATGAAAGAA
1 AAA-GAAA-AA
64994186 ATAAGAAAAA
1 A-AAGAAAAA
64994196 TAAAAAGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 19 0.43
9 10 0.23
10 6 0.14
11 7 0.16
12 2 0.05
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.03
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:64994192 original size:33 final size:34
Alignment explanation
Indices: 64994136--64994204 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
64994126 GAATGTCAAA
64994136 GAAAAAAAAACAAAAAAAAAAGAAAAA-AAAAAG
1 GAAAAAAAAACAAAAAAAAAAGAAAAATAAAAAG
** * *
64994169 GAAAAAAAATGAAAGAAATAAGAAAAATAAAAAG
1 GAAAAAAAAACAAAAAAAAAAGAAAAATAAAAAG
64994203 GA
1 GA
64994205 GAAGCCTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 23 0.74
34 8 0.26
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (34 bp):
GAAAAAAAAACAAAAAAAAAAGAAAAATAAAAAG
Found at i:64995818 original size:45 final size:46
Alignment explanation
Indices: 64995693--64996316 Score: 519
Period size: 45 Copynumber: 13.5 Consensus size: 46
64995683 AAAAGATAAG
*
64995693 CTTCCT-TATTTGGCAAGCAGAGGTAGATCGAAGATAGCAGATCTTGT
1 CTTCCTGTATTTGGC-AGC-GAAGTAGATCGAAGATAGCAGATCTTGT
64995740 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
* * * *
64995786 CTTCCTGTA-TTGGCAGTGAAGTAGATCAAAGATAGTAAGATC-TAT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAG-CAGATCTTGT
* ** ** ** * * * *
64995831 CTTCCTGCAGATCTTATCTTCCTGTATTTGGCAACGGAGTAGATCGAAGATAACAGATCTTGT
1 CTTCCTG--TAT-TTGGC-AGC-G-AAGTAG-ATC-GA--AGATAGCAG-------ATCTTGT
* * * *
64995894 CTTCTTGTATTTGGCAGTGAAGTACATCGAAGATAGCAGATCTTAT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
* * * *
64995940 CTTCCTATATTTGGTAGCGGAGTA-ATTGAAGATAGCAGATCTTGT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
* * * * * *
64995985 CTTCCTGTATTTGACAGTGGAAGTAGATCAAAGATTGTAGATCTTAT
1 CTTCCTGTATTTGGCAG-CGAAGTAGATCGAAGATAGCAGATCTTGT
* * * *
64996032 CTTCCTGTATTTGGCAGCGGAGTAGATGGAAGATAGTAGATATTGT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
* *
64996078 CTTCTTGTATTTGGCAGGGAAGTAGATCGAAGATAGCAGATC-TGT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
* * *
64996123 CTTCTTGTATTTGGCAGC-AGGGTAGATCGAAGATAGCATATCTTGT
1 CTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATAGCAGATCTTGT
* *
64996169 CTTCCTG-ATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTAT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
*
64996214 C-TCC-G--TTTAGCAGCG-A-TAGATCGAAGATAGCAGATCTTGT
1 CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
64996254 CTT-CTGTATTTGGCAGC-AGAGTAGATCG-AGATAGCAGATCTTGT
1 CTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATAGCAGATCTTGT
* *
64996298 -TCCCTGTATTTAGCA-CGAA
1 CTTCCTGTATTTGGCAGCGAA
64996317 ACAGACTAAA
Statistics
Matches: 465, Mismatches: 77, Indels: 74
0.75 0.12 0.12
Matches are distributed among these distances:
40 25 0.05
41 3 0.01
42 9 0.02
43 12 0.03
44 33 0.07
45 147 0.32
46 138 0.30
47 42 0.09
48 8 0.02
49 3 0.01
51 1 0.00
52 3 0.01
53 9 0.02
54 1 0.00
55 5 0.01
56 7 0.02
57 2 0.00
58 1 0.00
60 3 0.01
61 2 0.00
62 3 0.01
63 8 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (46 bp):
CTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
Found at i:64995844 original size:16 final size:17
Alignment explanation
Indices: 64995823--64995854 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64995813 AAAGATAGTA
64995823 AGATC-TATCTTCCTGC
1 AGATCTTATCTTCCTGC
64995839 AGATCTTATCTTCCTG
1 AGATCTTATCTTCCTG
64995855 TATTTGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (17 bp):
AGATCTTATCTTCCTGC
Found at i:64995935 original size:108 final size:109
Alignment explanation
Indices: 64995729--64995945 Score: 339
Period size: 108 Copynumber: 2.0 Consensus size: 109
64995719 ATCGAAGATA
* * *
64995729 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
1 GCAGATCTTATCTTCCTGTATTTGGCAACGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
*
64995794 ATTGGCAGTGAAGTAGATCAAAGATAGTAAGATC-TATCTTCCT
66 ATTGGCAGTGAAGTACATCAAAGATAGTAAGATCTTATCTTCCT
* *
64995837 GCAGATCTTATCTTCCTGTATTTGGCAACGGAGTAGATCGAAGATAACAGATCTTGTCTTCTTGT
1 GCAGATCTTATCTTCCTGTATTTGGCAACGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
* *
64995902 ATTTGGCAGTGAAGTACATCGAAGATAG-CAGATCTTATCTTCCT
66 A-TTGGCAGTGAAGTACATCAAAGATAGTAAGATCTTATCTTCCT
64995946 ATATTTGGTA
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 66 0.67
109 33 0.33
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (109 bp):
GCAGATCTTATCTTCCTGTATTTGGCAACGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
ATTGGCAGTGAAGTACATCAAAGATAGTAAGATCTTATCTTCCT
Found at i:64996157 original size:184 final size:181
Alignment explanation
Indices: 64995837--64996294 Score: 612
Period size: 184 Copynumber: 2.6 Consensus size: 181
64995827 CTATCTTCCT
* *
64995837 GCAGATCTTATCTTCCTGTATTTGGCAACGGAGTAGATCGAAGATAACAGATCTTGTCTTCTTGT
1 GCAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCTTGT
* * * *
64995902 ATTTGGCAGTGAAGTACATCGAAGATAGCAGATCTTATCTTCCTATATTTGGTAGCGGAGTAATT
66 ATTTGGCAGGGAAGTAGATCGAAGATAGCAGATC-TATCTTCCTATATTTGGCAGCGGAGTAATC
* *
64995967 GAAGATAGCAGATCTTGTCTTCCTGTATTTGACAGTGGAAGTAGATCAAAGATT
130 GAAGATAGCAGATCTTGTCTTCCTG-ATTTGACAGCGG-AGTAGATCAAAGATA
* * * *
64996021 GTAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATGGAAGATAGTAGATATTGTCTTCTTGT
1 GCAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCTTGT
* * *
64996086 ATTTGGCAGGGAAGTAGATCGAAGATAGCAGATCTGTCTTCTTGTATTTGGCAGCAGG-GTAGAT
66 ATTTGGCAGGGAAGTAGATCGAAGATAGCAGATCTATCTTCCTATATTTGGCAGC-GGAGTA-AT
* * *
64996150 CGAAGATAGCATATCTTGTCTTCCTGATTTGGCAGCGGAGTAGATCGAAGATA
129 CGAAGATAGCAGATCTTGTCTTCCTGATTTGACAGCGGAGTAGATCAAAGATA
*
64996203 GCAGATCTTATC-TCC-G--TTTAGCAGC-GA-TAGATCGAAGATAGCAGATCTTGTCTTC-TGT
1 GCAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCTTGT
*
64996261 ATTTGGCA-GCAGAGTAGATCG-AGATAGCAGATCT
66 ATTTGGCAGGGA-AGTAGATCGAAGATAGCAGATCT
64996295 TGTTCCCTGT
Statistics
Matches: 247, Mismatches: 24, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
174 15 0.06
175 20 0.08
176 25 0.10
177 2 0.01
178 8 0.03
180 1 0.00
181 3 0.01
182 24 0.10
183 30 0.12
184 119 0.48
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (181 bp):
GCAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCTTGT
ATTTGGCAGGGAAGTAGATCGAAGATAGCAGATCTATCTTCCTATATTTGGCAGCGGAGTAATCG
AAGATAGCAGATCTTGTCTTCCTGATTTGACAGCGGAGTAGATCAAAGATA
Found at i:64996238 original size:40 final size:44
Alignment explanation
Indices: 64995837--64996297 Score: 400
Period size: 46 Copynumber: 10.2 Consensus size: 44
64995827 CTATCTTCCT
* * *
64995837 GCAGATCTTATCTTCCTGTATTTGGCAACGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCC-G-ATTTGGCAGCAGAGTAGATCGAAGATA
* * * *
64995883 ACAGATCTTGTCTTCTTGTATTTGGCAG-TGAAGTACATCGAAGATA
1 GCAGATCTTGTCTTC-CG-ATTTGGCAGCAG-AGTAGATCGAAGATA
* * * * *
64995929 GCAGATCTTATCTTCCTATATTTGGTAGCGGAGTA-ATTGAAGATA
1 GCAGATCTTGTCTTCC--GATTTGGCAGCAGAGTAGATCGAAGATA
* ** * *
64995974 GCAGATCTTGTCTTCCTGTATTTGACAGTGGAAGTAGATCAAAGATT
1 GCAGATCTTGTCTTCC-G-ATTTGGCAGCAG-AGTAGATCGAAGATA
* * * *
64996021 GTAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATGGAAGATA
1 GCAGATCTTGTCTTCC-G-ATTTGGCAGCAGAGTAGATCGAAGATA
* * * *
64996067 GTAGATATTGTCTTCTTGTATTTGGCAG-GGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTC-CG-ATTTGGCAGCAG-AGTAGATCGAAGATA
* *
64996113 GCAGATC-TGTCTTCTTGTATTTGGCAGCAGGGTAGATCGAAGATA
1 GCAGATCTTGTCTTC-CG-ATTTGGCAGCAGAGTAGATCGAAGATA
* *
64996158 GCATATCTTGTCTTCCTGATTTGGCAGCGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCC-GATTTGGCAGCAGAGTAGATCGAAGATA
* *
64996203 GCAGATCTTATC-TCCG-TTTAGCAGC-GA-TAGATCGAAGATA
1 GCAGATCTTGTCTTCCGATTTGGCAGCAGAGTAGATCGAAGATA
*
64996243 GCAGATCTTGTCTTCTGTATTTGGCAGCAGAGTAGATCG-AGATA
1 GCAGATCTTGTCTTCCG-ATTTGGCAGCAGAGTAGATCGAAGATA
64996287 GCAGATCTTGT
1 GCAGATCTTGT
64996298 TCCCTGTATT
Statistics
Matches: 350, Mismatches: 47, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
40 24 0.07
41 5 0.01
42 8 0.02
43 9 0.03
44 21 0.06
45 118 0.34
46 130 0.37
47 35 0.10
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCGATTTGGCAGCAGAGTAGATCGAAGATA
Found at i:64996415 original size:41 final size:43
Alignment explanation
Indices: 64996350--64996451 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
64996340 CTCCTGTATG
*
64996350 GCAGTGAAGCAGATTGAAGATACAA-AC-TATCTCC-CGAAGTT
1 GCAGTGGAGCAGATTGAAGATACAAGACTTATCTCCACGAAG-T
* * *
64996391 GCAGTGGAGCAGGTTGAA-ATTACAAGTCTTATCTCCATGAAGT
1 GCAGTGGAGCAGATTGAAGA-TACAAGACTTATCTCCACGAAGT
**
64996434 GCAGTGGAGTGGATTGAA
1 GCAGTGGAGCAGATTGAA
64996452 TTACTAGTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.02
41 21 0.42
42 1 0.02
43 23 0.46
44 4 0.08
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (43 bp):
GCAGTGGAGCAGATTGAAGATACAAGACTTATCTCCACGAAGT
Found at i:64996451 original size:43 final size:42
Alignment explanation
Indices: 64996377--64996460 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
64996367 AGATACAAAC
64996377 TATCTCCCGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCT
1 TATCTCCCGAAGTTGCAGTGGAGCAGGTTG-AATTACAAGTCT
* * *
64996420 TATCTCCATGAAG-TGCAGTGGAG-TGGATTGAATTACTAGTC
1 TATCTCC-CGAAGTTGCAGTGGAGCAGG-TTGAATTACAAGTC
64996461 CAATTTCCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 12 0.33
43 20 0.56
44 4 0.11
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TATCTCCCGAAGTTGCAGTGGAGCAGGTTGAATTACAAGTCT
Found at i:64999579 original size:26 final size:26
Alignment explanation
Indices: 64999487--64999660 Score: 118
Period size: 26 Copynumber: 6.5 Consensus size: 26
64999477 AAAAATAAAA
** *
64999487 AAATTACATTTGCCCCCTAAACTTTTTG
1 AAATTACATTTTACCACTAAA--TTTTG
* *
64999515 AAATTACATTTTGACCATTAAAATTTTC
1 AAATTACATTTT-ACCACT-AAATTTTG
*
64999543 AAAATACATTTTACCACTAAATTTTG
1 AAATTACATTTTACCACTAAATTTTG
* * * * *
64999569 AAATTATATTTGACCCCTAAACTTCTC
1 AAATTACATTTTACCACTAAA-TTTTG
*
64999596 AAA-TACATTTTACCAC-ACATTTTG
1 AAATTACATTTTACCACTAAATTTTG
* * * *
64999620 AAATTATATTTGACCCCTAAACTTTCTCA
1 AAATTACATTTTACCACTAAA-TTT-T-G
64999649 AAATTACATTTT
1 AAATTACATTTT
64999661 GACCCCAAAA
Statistics
Matches: 111, Mismatches: 27, Indels: 15
0.73 0.18 0.10
Matches are distributed among these distances:
24 6 0.05
25 12 0.11
26 36 0.32
27 14 0.13
28 27 0.24
29 13 0.12
30 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (26 bp):
AAATTACATTTTACCACTAAATTTTG
Found at i:64999629 original size:51 final size:53
Alignment explanation
Indices: 64999510--64999660 Score: 207
Period size: 51 Copynumber: 2.8 Consensus size: 53
64999500 CCCCTAAACT
* ** * *
64999510 TTTTGAAATTACATTTTGACCATTAAAATTTTCAAAATACATTTTACCACTAAA
1 TTTTGAAATTATA-TTTGACCCCTAAACTTCTCAAAATACATTTTACCACTAAA
*
64999564 TTTTGAAATTATATTTGACCCCTAAACTTCTC-AAATACATTTTACCAC-ACA
1 TTTTGAAATTATATTTGACCCCTAAACTTCTCAAAATACATTTTACCACTAAA
64999615 TTTTGAAATTATATTTGACCCCTAAACTTTCTCAAAATTACATTTT
1 TTTTGAAATTATATTTGACCCCTAAAC-TTCTCAAAA-TACATTTT
64999661 GACCCCAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 29 0.33
52 21 0.24
53 18 0.20
54 20 0.23
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (53 bp):
TTTTGAAATTATATTTGACCCCTAAACTTCTCAAAATACATTTTACCACTAAA
Found at i:65000549 original size:21 final size:21
Alignment explanation
Indices: 65000505--65000550 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
65000495 TGGTATTTAC
*
65000505 ATTTTAATTTAATTTAATTCA
1 ATTTTAATTTAATTTAAATCA
*
65000526 ATTTTAATTTTATTTTAAAT-A
1 ATTTTAA-TTTAATTTAAATCA
65000547 ATTT
1 ATTT
65000551 AATAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTAATTTAATTTAAATCA
Found at i:65000698 original size:19 final size:17
Alignment explanation
Indices: 65000663--65000704 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
65000653 ATTGTAAATA
*
65000663 TTCAAAAAATTCGTGTT
1 TTCAAAAAATTCATGTT
65000680 TTCACAAAAATTCCATGTT
1 TTCA-AAAAATT-CATGTT
65000699 TT-AAAA
1 TTCAAAA
65000705 TTTTCGTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 7 0.32
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (17 bp):
TTCAAAAAATTCATGTT
Found at i:65000870 original size:50 final size:52
Alignment explanation
Indices: 65000814--65000942 Score: 165
Period size: 50 Copynumber: 2.5 Consensus size: 52
65000804 TCTAAATTTT
* * *
65000814 GTGTTTCAAAAATTTTGTGTTTTAAAATTTTTGA-ATTTT-CAACAATTCTC
1 GTGTTTCAAAAATTTCGTGTTTTAAAATTTTTGATATTTTAAAAAAATTCTC
* * * *
65000864 GTGTTTCACAAATTTCGTGTTTAAAAATTTTTTATGTTTTAAAAAAATTCTC
1 GTGTTTCAAAAATTTCGTGTTTTAAAATTTTTGATATTTTAAAAAAATTCTC
65000916 GTGTTTC-AAAATTGTCGTGTTTTAAAA
1 GTGTTTCAAAAATT-TCGTGTTTTAAAA
65000943 ATTTCATGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 30 0.45
51 9 0.13
52 28 0.42
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (52 bp):
GTGTTTCAAAAATTTCGTGTTTTAAAATTTTTGATATTTTAAAAAAATTCTC
Found at i:65000877 original size:17 final size:16
Alignment explanation
Indices: 65000663--65001161 Score: 201
Period size: 16 Copynumber: 29.5 Consensus size: 16
65000653 ATTGTAAATA
*
65000663 TTCAAAAAATTCGTGTT
1 TTCAAAAATTTCGTG-T
* *
65000680 TTCACAAAAATTCCATGT
1 TT--CAAAAATTTCGTGT
* * *
65000698 TTTAAAATTTTCGTGGC
1 TTCAAAAATTTCGT-GT
65000715 TTCAAATAATTTTCTCGTGTT
1 TTCAAA-AA--TT-TCGTG-T
*
65000736 TTAAAAAATATTCGTGTT
1 TTCAAAAAT-TTCGTG-T
* * *
65000754 TTCAAAAATTCCATTT
1 TTCAAAAATTTCGTGT
*
65000770 TTC-AAATTTTCCGTGTT
1 TTCAAAAATTT-CGTG-T
* * *
65000787 TTCTAAAATTCCCATG-
1 TTCAAAAATT-TCGTGT
* *
65000803 TTC-TAAATTTTGTGT
1 TTCAAAAATTTCGTGT
*
65000818 TTCAAAAATTTTGTGT
1 TTCAAAAATTTCGTGT
* * *
65000834 TTTAAAATTTTTGAAT-T
1 TTCAAAAATTTCG--TGT
*
65000851 TTCAACAATTCTCGTGT
1 TTCAAAAATT-TCGTGT
*
65000868 TTCACAAATTTCGTGT
1 TTCAAAAATTTCGTGT
**
65000884 TT-AAAAATTTTTTATGTT
1 TTCAAAAA--TTTCGTG-T
*
65000902 TTAAAAAAATTCTCGTGT
1 TT-CAAAAATT-TCGTGT
65000920 TTC-AAAATTGTCGTGT
1 TTCAAAAATT-TCGTGT
* *
65000936 TTTAAAAATTTCATG-
1 TTCAAAAATTTCGTGT
* * *
65000951 TTCTAAATTTTCGTAT
1 TTCAAAAATTTCGTGT
*
65000967 TTC-AAAATTTCATGTT
1 TTCAAAAATTTCGTG-T
*
65000983 TTC-AAATTTTGCGTGT
1 TTCAAAAATTT-CGTGT
*
65000999 TTC-AAAATCTTCATGTT
1 TTCAAAAAT-TTCGTG-T
*
65001016 TTCAAAAATTCCGATGT
1 TTCAAAAATTTCG-TGT
65001033 TTCAAAAATTCTCG-GT
1 TTCAAAAATT-TCGTGT
* *
65001049 TTTAAAAATTTCCGAGTT
1 TTCAAAAATTT-CGTG-T
*
65001067 TTAAAAAATTTCGTGCT
1 TTCAAAAATTTCGTG-T
* *
65001084 TTCAAAAGTTTTTCGTAT
1 TTCAAAA--ATTTCGTGT
*
65001102 TTCAAAAATCCTCGTGTT
1 TTCAAAAAT-TTCGTG-T
65001120 TTCAAAAATTTCGGTGT
1 TTCAAAAATTTC-GTGT
* *
65001137 TTTAAAATTTTCGTGT
1 TTCAAAAATTTCGTGT
65001153 TTCGAAAAA
1 TTC-AAAAA
65001162 AAATCTTTTG
Statistics
Matches: 364, Mismatches: 75, Indels: 86
0.69 0.14 0.16
Matches are distributed among these distances:
14 2 0.01
15 36 0.10
16 110 0.30
17 97 0.27
18 80 0.22
19 20 0.05
20 10 0.03
21 9 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (16 bp):
TTCAAAAATTTCGTGT
Found at i:65001051 original size:34 final size:35
Alignment explanation
Indices: 65000663--65001154 Score: 145
Period size: 34 Copynumber: 14.5 Consensus size: 35
65000653 ATTGTAAATA
*
65000663 TTCAAAAAAT-TCGTGTTTTCACAAAAATTCC-ATGT
1 TTCAAAAATTCTCGTGTTTT--CAAAAATTCCGATGT
* * **
65000698 TT-TAAAATTTTCGTGGCTTCAAATAATTTTCTCG-TGTT
1 TTCAAAAATTCTCGTGTTTTCAAA-AA--TTC-CGATG-T
* *
65000736 TTAAAAAATAT-TCGTGTTTTCAAAAATTCC-ATTT
1 TTCAAAAAT-TCTCGTGTTTTCAAAAATTCCGATGT
** * *
65000770 TTCAAATTTTC-CGTGTTTTCTAAAATTCCCATG-
1 TTCAAAAATTCTCGTGTTTTCAAAAATTCCGATGT
* * **
65000803 TTC-TAAATT-TTGTG-TTTCAAAAATTTTG-TGT
1 TTCAAAAATTCTCGTGTTTTCAAAAATTCCGATGT
* * * ** *
65000834 TT-TAAAATTTTTGAATTTTCAACAATTCTCG-TGT
1 TTCAAAAATTCTCGTGTTTTCAAAAATTC-CGATGT
* ***
65000868 TTCACAAATT-TCGTG-TTT-AAAAATTTTTTATGTT
1 TTCAAAAATTCTCGTGTTTTCAAAAA-TTCCGATG-T
* *
65000902 TTAAAAAAATTCTCGTG-TTTC-AAAATTGTCG-TGT
1 TT-CAAAAATTCTCGTGTTTTCAAAAATT-CCGATGT
* * * * * *
65000936 TTTAAAAATT-TCATG--TTCTAAATTTTCG-TAT
1 TTCAAAAATTCTCGTGTTTTCAAAAATTCCGATGT
* ** *
65000967 TTC-AAAATT-TCATGTTTTCAAATTTTGCG-TGT
1 TTCAAAAATTCTCGTGTTTTCAAAAATTCCGATGT
*
65000999 TTC-AAAA-TCTTCATGTTTTCAAAAATTCCGATGT
1 TTCAAAAATTC-TCGTGTTTTCAAAAATTCCGATGT
65001033 TTCAAAAATTCTCG-GTTTT-AAAAATTTCCGA-GTT
1 TTCAAAAATTCTCGTGTTTTCAAAAA-TTCCGATG-T
* * * * *
65001067 TTAAAAAATT-TCGTGCTTTCAAAAGTTTTTCG-TAT
1 TTCAAAAATTCTCGTGTTTTCAAAA--ATTCCGATGT
* * *
65001102 TTCAAAAATCCTCGTGTTTTCAAAAATTTCGGTGT
1 TTCAAAAATTCTCGTGTTTTCAAAAATTCCGATGT
* *
65001137 TT-TAAAATTTTCGTGTTT
1 TTCAAAAATTCTCGTGTTT
65001155 CGAAAAAAAA
Statistics
Matches: 348, Mismatches: 66, Indels: 87
0.69 0.13 0.17
Matches are distributed among these distances:
30 13 0.04
31 28 0.08
32 41 0.12
33 75 0.22
34 79 0.23
35 49 0.14
36 38 0.11
37 3 0.01
38 5 0.01
39 16 0.05
40 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (35 bp):
TTCAAAAATTCTCGTGTTTTCAAAAATTCCGATGT
Found at i:65007390 original size:78 final size:78
Alignment explanation
Indices: 65007214--65008118 Score: 1142
Period size: 78 Copynumber: 11.7 Consensus size: 78
65007204 CAAGAAATAT
* ** * **** **
65007214 TTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAACAAGTTGAGCCTCGG-GTCAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
65007278 GCCGAGGTATTTC
66 GCCGAGGTATTTC
*
65007291 TTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
65007356 GCCGAGGTATTTC
66 GCCGAGGTATTTC
* * * *
65007369 GTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
65007434 GCCGAGGTATTTC
66 GCCGAGGTATTTC
*
65007447 TTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GATCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-CACA
65007511 TGCCGAGGTATTTC
65 TGCCGAGGTATTTC
* * *
65007525 TTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC-
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACA
*
65007589 -GCTGAGG-A----
65 TGCCGAGGTATTTC
* *** * * *
65007597 ATTTACAATTTCTGTTTTTTTTTAATTCAACTCATATTGCGAGAGTTGAGTTGAGCCTTGGACAC
1 TTTTA-AATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
*
65007662 ATGACGAGGTATTTC
64 ATGCCGAGGTATTTC
* * * *
65007677 TTTTAAATTTCTATTCTTC-AAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
65007741 GCCGAGGTATTTC
66 GCCGAGGTATTTC
* * * * *
65007754 GTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGCGTTGAGCCTCGGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
*
65007819 GCCGAGGTACTTC
66 GCCGAGGTATTTC
* * *
65007832 TTTTATATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC-
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACA
* *
65007896 -GCTGAGG-A---A
65 TGCCGAGGTATTTC
* ***
65007905 TTTTCAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
* *
65007970 ACTGAGGTATTTC
66 GCCGAGGTATTTC
* * *
65007983 TTTTAAATTTCTGTTCTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
*
65008048 GCCGACGTATTTC
66 GCCGAGGTATTTC
65008061 TTTTAAATTTCT-TATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTAAATTTCTGT-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65008119 TGAGTCACGT
Statistics
Matches: 723, Mismatches: 81, Indels: 45
0.85 0.10 0.05
Matches are distributed among these distances:
72 9 0.01
73 64 0.09
74 43 0.06
75 6 0.01
76 3 0.00
77 132 0.18
78 408 0.56
79 17 0.02
80 41 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (78 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
GCCGAGGTATTTC
Found at i:65007778 original size:307 final size:306
Alignment explanation
Indices: 65007220--65008118 Score: 1354
Period size: 307 Copynumber: 2.9 Consensus size: 306
65007210 ATATTTTTCA
** * **** * *
65007220 ATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAACAAGTTGAGCCTCGGGTCATGCCGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * ***
65007285 TATTT-CTTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 AATTTAC-----AATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * * *
65007349 GACACATGCCGAGGTATTTCGTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGT
126 GACACATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGT
* *
65007414 GAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAATCAACTCA
191 GAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCA
*
65007479 TATTGCGAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTATTTCTTTTAT
255 TATTGCGAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTACTTCTTTTAT
*
65007531 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * *
65007596 AATTTACAATTTCTGTTTTTTTTTAATTCAACTCATATTGCGAGAGTTGAGTTGAGCCTTGGACA
66 AATTTACAATTTCTG-TTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
65007661 CATGACGAGGTATTTCTTTTAAATTTCTATTCTTC-AAAATCAACTCATAATGCGAGAAGTGAGT
130 CATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGT
*
65007725 TGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTATTTTTCAAAAATCAACTCATATT
195 TGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATATT
* * *
65007790 GCGAGAAGTGCGTTGAGCCTCGGTCACATGCCGAGGTACTTCTTTTAT
259 GCGAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTACTTCTTTTAT
*
65007838 ATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
*
65007903 AATTTTCAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
66 AATTTACAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
* *
65007968 AT-ACTGAGGTATTTCTTTTAAATTTCTGTTCTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
131 ATGAC-GAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGT
* *
65008032 TGAGCCTCGAACACATGCCGACGTATTTCTTTTAAATTTCTTATTTTCAAAAAAATCAACTCATA
195 TGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTT-TTTTC--AAAAATCAACTCATA
65008097 TTGCGAGAGGTGAGTTGAGCCT
257 TTGCGAGAGGTGAGTTGAGCCT
65008119 TGAGTCACGT
Statistics
Matches: 538, Mismatches: 43, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
305 2 0.00
306 78 0.14
307 288 0.54
308 75 0.14
309 35 0.07
311 59 0.11
312 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (306 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
AATTTACAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
ATGACGAGGTATTTCTTTTAAATTTCTATTCTTCAAAAATCAACTCATAATGCGAGAAGTGAGTT
GAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCGATCACATGCCGAGGTACTTCTTTTAT
Found at i:65008039 original size:229 final size:232
Alignment explanation
Indices: 65007213--65008152 Score: 1146
Period size: 229 Copynumber: 4.1 Consensus size: 232
65007203 TCAAGAAATA
*** **
65007213 TTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAACAAGTTGAGCCTCGG-GTCA
1 TTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACACA
*
65007277 TGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 TGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
65007342 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGC
131 AGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGC
* *
65007407 GAGAAGTGAGTTGAGCCTC-GGTCACATGCCGAGGTAT
196 GAGAGGTGAGTTGAGCCTCGGGTCACA-GCTGAGGTAT
* ** * *
65007444 TTCTTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GATC
1 TT-TTTCA-ATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGA-C
*
65007508 ACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
63 ACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* * * * *** *
65007573 TTGAGCCTTGGGTCAC--GCTGAGG-A----ATTTACAATTTCTGTTTTTTTTTAATTCAACTCA
128 TTGAGCC-TCGGACACATGCCGAGGTATTTCTTTTA-AATTTCTG-TTTTTCAAAAATCAACTCA
* * *
65007631 TATTGCGAGAGTTGAGTTGAGCCT-TGGACACATGAC-GAGGTATT
190 TATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-G-CTGAGGTA-T
* * * *
65007675 TCTTTTAAATTTCT-ATTCTTCAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACAC
1 T-TTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACAC
* * * *
65007739 ATGCCGAGGTATTTCGTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGCGTT
65 ATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
65007804 GAGCCTCGGTCACATGCCGAGGTACTTCTTTTATATTTCTGTTTTTCAAAAATCAGCTCATATTG
130 GAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTG
65007869 CGAGAGGTGAGTTGAGCCTCGGGTCAC-GCTGAGG-A-
195 CGAGAGGTGAGTTGAGCCTCGGGTCACAGCTGAGGTAT
* * * *
65007904 ATTTTCAATTTCTGTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACA
1 TTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACACA
* * * *
65007969 TACTGAGGTATTTCTTTTAAATTTCTGTTCTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTG
66 TGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
65008034 AGCCTCGAACACATGCCGACGTATTTCTTTTAAATTTCT-TATTTTCAAAAAAATCAACTCATAT
131 AGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTGT-TTTTC--AAAAATCAACTCATAT
* *
65008098 TGCGAGAGGTGAGTTGAGCCTTGAGTCAC-G-TCGAGGTA-
193 TGCGAGAGGTGAGTTGAGCCTCGGGTCACAGCT-GAGGTAT
65008136 TTTTTCAATTTCTGTTT
1 TTTTTCAATTTCTGTTT
65008153 GTGAGAGGTG
Statistics
Matches: 609, Mismatches: 73, Indels: 53
0.83 0.10 0.07
Matches are distributed among these distances:
228 23 0.04
229 254 0.42
230 66 0.11
231 59 0.10
232 29 0.05
233 87 0.14
234 81 0.13
235 10 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (232 bp):
TTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGACACA
TGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCGGGTCACAGCTGAGGTAT
Found at i:65008396 original size:29 final size:29
Alignment explanation
Indices: 65008363--65008523 Score: 173
Period size: 29 Copynumber: 5.5 Consensus size: 29
65008353 AAAAAAATAA
*
65008363 AAAATTACATTTTGACCCCTAAACTTTTT
1 AAAATTACATTTTGACCCCTAAAATTTTT
*
65008392 AAAATTACATTTTGA-CCCTTAAATTTTT
1 AAAATTACATTTTGACCCCTAAAATTTTT
* * *
65008420 CAAAATTACATTTTCATCCCTAAACTTTTT
1 -AAAATTACATTTTGACCCCTAAAATTTTT
* * * * *
65008450 GAAATTATATTTTAACTCCTAAAATTTCTC
1 AAAATTACATTTTGACCCCTAAAATTT-TT
65008480 AAAATTACATTTTGACCCC-AAAATTTTCT
1 AAAATTACATTTTGACCCCTAAAATTTT-T
*
65008509 CAAAATTACACTTTG
1 -AAAATTACATTTTG
65008524 GCCCTAGAAG
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
28 12 0.11
29 57 0.52
30 40 0.37
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAAAATTTTT
Found at i:65008455 original size:58 final size:59
Alignment explanation
Indices: 65008363--65008518 Score: 199
Period size: 58 Copynumber: 2.6 Consensus size: 59
65008353 AAAAAAATAA
* * * *
65008363 AAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTTTGAC-CCTTAAATTTTTC
1 AAAATTACATTTTCACCCCTAAACTTTTTAAAATTACATTTTAACTCCTAAAATTTCTC
* * *
65008421 AAAATTACATTTTCATCCCTAAACTTTTTGAAATTATATTTTAACTCCTAAAATTTCTC
1 AAAATTACATTTTCACCCCTAAACTTTTTAAAATTACATTTTAACTCCTAAAATTTCTC
* *
65008480 AAAATTACATTTTGACCCC-AAAATTTTCTCAAAATTACA
1 AAAATTACATTTTCACCCCTAAACTTTT-T-AAAATTACA
65008519 CTTTGGCCCT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 47 0.57
59 29 0.35
60 7 0.08
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (59 bp):
AAAATTACATTTTCACCCCTAAACTTTTTAAAATTACATTTTAACTCCTAAAATTTCTC
Found at i:65008875 original size:17 final size:18
Alignment explanation
Indices: 65008857--65008900 Score: 81
Period size: 17 Copynumber: 2.5 Consensus size: 18
65008847 AACGGAGAAG
65008857 AAGAAAGAAAAAGAGAGA
1 AAGAAAGAAAAAGAGAGA
65008875 AAGAAAG-AAAAGAGAGA
1 AAGAAAGAAAAAGAGAGA
65008892 AAGAAAGAA
1 AAGAAAGAA
65008901 GGAGGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAAAAGAGAGA
Found at i:65008894 original size:13 final size:12
Alignment explanation
Indices: 65008875--65008922 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
65008865 AAAAGAGAGA
65008875 AAGAAAGAAAAG
1 AAGAAAGAAAAG
65008887 AGAGAAAG-AAAG
1 A-AGAAAGAAAAG
* *
65008899 AAGGAGGAAGAAG
1 AAGAAAGAA-AAG
65008912 AAGAAAGAAAA
1 AAGAAAGAAAA
65008923 ATAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 16 0.55
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAG
Found at i:65009049 original size:18 final size:18
Alignment explanation
Indices: 65009028--65009065 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65009018 AAAAAAATTT
65009028 AAGCAAAAAAAAAAGAAA
1 AAGCAAAAAAAAAAGAAA
* *
65009046 AAGCAGAAAAAATAGAAA
1 AAGCAAAAAAAAAAGAAA
65009064 AA
1 AA
65009066 AACAGGCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (18 bp):
AAGCAAAAAAAAAAGAAA
Found at i:65009221 original size:9 final size:9
Alignment explanation
Indices: 65009209--65009247 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
65009199 AAAAAAAGGG
65009209 AGAAAAAGA
1 AGAAAAAGA
65009218 AGAAAAAAGA
1 AG-AAAAAGA
*
65009228 AGAAAAAAA
1 AGAAAAAGA
65009237 AGAAAAA-A
1 AGAAAAAGA
65009245 AGA
1 AGA
65009248 GTTTCAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 4 0.14
9 15 0.54
10 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:65009223 original size:19 final size:19
Alignment explanation
Indices: 65009196--65009244 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
65009186 ACCAGCAGAG
*
65009196 AGAA-AAAAAAGGGAGAAAA
1 AGAAGAAAAAA-GAAGAAAA
65009215 AGAAGAAAAAAGAAGAAAA
1 AGAAGAAAAAAGAAGAAAA
*
65009234 AAAAGAAAAAA
1 AGAAGAAAAAA
65009245 AGAGTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAGAAAAAAGAAGAAAA
Found at i:65009449 original size:21 final size:22
Alignment explanation
Indices: 65009411--65009454 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65009401 GTATTGATAT
*
65009411 TTTTAATTTAATTCAATTTTAA
1 TTTTAATTTAAATCAATTTTAA
*
65009433 TTTTATTTTAAAT-AATTTTAA
1 TTTTAATTTAAATCAATTTTAA
65009454 T
1 T
65009455 AAATAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAATTTAAATCAATTTTAA
Found at i:65009586 original size:18 final size:18
Alignment explanation
Indices: 65009565--65010093 Score: 241
Period size: 18 Copynumber: 29.5 Consensus size: 18
65009555 ATTGTAAATA
65009565 TTCAAAAAATTTCGTGTT
1 TTCAAAAAATTTCGTGTT
65009583 TTCACAAAAAATTTCCGTG-T
1 TT--CAAAAAATTT-CGTGTT
* **
65009603 TTC-AAAATTTTCGTGGC
1 TTCAAAAAATTTCGTGTT
65009620 TTCAAAATAATTTTTC-TCGTGT
1 TTCAAAA-AA--TTTCGT-GT-T
*
65009642 TTCAAAAAATATTTGTGTT
1 TTCAAAAAAT-TTCGTGTT
* *
65009661 TTCAAAAAATTCCAT-TT
1 TTCAAAAAATTTCGTGTT
*
65009678 TTC-AAAATTTTCTGTGTT
1 TTCAAAAAATTTC-GTGTT
* *
65009696 TTCTAAAAATTCTCATG-T
1 TTCAAAAAATT-TCGTGTT
* * *
65009714 TTCTAAAATTTTTGTG-T
1 TTCAAAAAATTTCGTGTT
*
65009731 TTC-AAAAATTTTGTGTT
1 TTCAAAAAATTTCGTGTT
** * *
65009748 TTCAAAATTTTTTGTATT
1 TTCAAAAAATTTCGTGTT
*
65009766 TTC-AACAATTCTCGTG-T
1 TTCAAAAAATT-TCGTGTT
* * *
65009783 TTCACAAATTTTCGTATT
1 TTCAAAAAATTTCGTGTT
** *
65009801 TT-AAAAAATTTTTATATT
1 TTCAAAAAA-TTTCGTGTT
*
65009819 TTAAAAAAAATTCTCGTG-T
1 TT-CAAAAAATT-TCGTGTT
65009838 TTC-AAAAATTGTCGTGTT
1 TTCAAAAAATT-TCGTGTT
* *
65009856 TT-AAAAATTTTCATG-T
1 TTCAAAAAATTTCGTGTT
* * *
65009872 TTCTAAAATTTTCGT-AT
1 TTCAAAAAATTTCGTGTT
*
65009889 TT-AAAAAATTTTCATGTT
1 TTCAAAAAA-TTTCGTGTT
* *
65009907 TT-TAAAATTTTGCGTG-T
1 TTCAAAAAATTT-CGTGTT
65009924 TTC-AAAAATCTTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
*
65009942 TTC-AAAAATTCCGATG-T
1 TTCAAAAAATTTCG-TGTT
65009959 TTCAAAAAATTCTCGTGTT
1 TTCAAAAAATT-TCGTGTT
**
65009978 TT-AAAAAATTTCCAAGTT
1 TTCAAAAAATTT-CGTGTT
*
65009996 TTAAAAAAATTTTCGTGTT
1 TTCAAAAAA-TTTCGTGTT
** *
65010015 TTCAAAATTTTTTCGT-AT
1 TTCAAAA-AATTTCGTGTT
*
65010033 TTC-AAAAATCCTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
65010051 TTC-AAAAATTTCGGTGTT
1 TTCAAAAAATTTC-GTGTT
* *
65010069 TT--GAAAATTTTGTGTT
1 TTCAAAAAATTTCGTGTT
65010085 TTCAAAAAA
1 TTCAAAAAA
65010094 AAATCTCGTG
Statistics
Matches: 394, Mismatches: 69, Indels: 96
0.70 0.12 0.17
Matches are distributed among these distances:
16 37 0.09
17 116 0.29
18 138 0.35
19 53 0.13
20 31 0.08
21 12 0.03
22 7 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (18 bp):
TTCAAAAAATTTCGTGTT
Found at i:65009611 original size:16 final size:17
Alignment explanation
Indices: 65009590--65009627 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
65009580 GTTTTCACAA
*
65009590 AAAATTTCCGT-GTTTC
1 AAAATTTCCGTGGCTTC
*
65009606 AAAATTTTCGTGGCTTC
1 AAAATTTCCGTGGCTTC
65009623 AAAAT
1 AAAAT
65009628 AATTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (17 bp):
AAAATTTCCGTGGCTTC
Found at i:65009950 original size:36 final size:35
Alignment explanation
Indices: 65009565--65010175 Score: 354
Period size: 35 Copynumber: 17.1 Consensus size: 35
65009555 ATTGTAAATA
* *
65009565 TTCAAAAAATTTCGTGTTTTCACAAAAAATTTCCGTGT
1 TTCAAAAATTTTCGTGTTTT--C-AAAAATTTTCGTGT
**
65009603 TTC-AAAATTTTCGTGGCTTCAAAATAATTTTTCTCGTGT
1 TTCAAAAATTTTCGTGTTTTC-AAA-AA--TTT-TCGTGT
* * * *
65009642 TTCAAAAAATATTT-GTGTTTTCAAAAAATTCCATTT
1 TTC-AAAAAT-TTTCGTGTTTTCAAAAATTTTCGTGT
* *
65009678 TTC-AAAATTTTCTGTGTTTTCTAAAAATTCTCATGT
1 TTCAAAAATTTTC-GTGTTTTC-AAAAATTTTCGTGT
* *
65009714 TTCTAAAATTTTTGTG-TTTCAAAAATTTT-GTGTT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTG-T
* * * * *
65009748 TTCAAAATTTTTTGTATTTTCAACAATTCTCGTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTGT
* * * ** *
65009783 TTCACAAATTTTCGTATTTTAAAAAATTTTTATATT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGT-GT
* * *
65009819 TTAAAAAAAATTCTCGTG-TTTCAAAAATTGTCGTGT
1 TT--CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGT
* * * *
65009855 TTTAAAAATTTTCATG-TTTCTAAAATTTTCGTAT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTGT
* * *
65009889 TTAAAAAATTTTCATGTTTT-TAAAATTTTGCGTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTT-CGTGT
* *
65009924 TTCAAAAATCTTCGTGTTTTCAAAAA-TTCCGATGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCG-TGT
* * *
65009959 TTCAAAAAATTCTCGTGTTTTAAAAAATTTCCAAGT-T
1 TTC-AAAAATTTTCGTGTTTTCAAAAATTTTC--GTGT
* * *
65009996 TTAAAAAAATTTTCGTGTTTTCAAAATTTTTTCGTAT
1 TT-CAAAAATTTTCGTGTTTTCAAAA-ATTTTCGTGT
**
65010033 TTCAAAAATCCTCGTGTTTTCAAAAA-TTTCGGTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTC-GTGT
** * *
65010068 TTTGAAAATTTT-GTGTTTTCAAAAAAAAATCTCGTGT
1 TTCAAAAATTTTCGTGTTTTC---AAAAATTTTCGTGT
* ***
65010105 TTCATAAATTTTCGT-TTTTTTTAAA--TT-GTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTGT
* * ** * *
65010136 TTCCAAAATTCTCGTGTTTAAAAAAATTCTCATGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTGT
65010171 TTCAA
1 TTCAA
65010176 TCGGATCGCG
Statistics
Matches: 447, Mismatches: 88, Indels: 79
0.73 0.14 0.13
Matches are distributed among these distances:
31 16 0.04
32 7 0.02
33 5 0.01
34 95 0.21
35 104 0.23
36 79 0.18
37 87 0.19
38 26 0.06
39 11 0.02
40 3 0.01
41 11 0.02
42 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (35 bp):
TTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTGT
Found at i:65010019 original size:73 final size:69
Alignment explanation
Indices: 65009853--65010092 Score: 196
Period size: 73 Copynumber: 3.4 Consensus size: 69
65009843 AAATTGTCGT
* * * * ** * * *
65009853 GTTTTAAAAATTTTCATG-TTTCTAAAATTTTCGTATTTAAAAAATTTTCATGTTTTTAAAATTT
1 GTTTTAAAAATTTTCGTGTTTTC-AAAAATTCCGTATTTCAAAAATCCTCGTGTTTTAAAAAATT
* **
65009917 TGCGT
65 TCCAA
* * * *
65009922 GTTTCAAAAATCTTCGTGTTTTCAAAAATTCCGATGTTTCAAAAAATTCTCGTGTTTTAAAAAAT
1 GTTTTAAAAATTTTCGTGTTTTCAAAAATTCCG-TATTTC-AAAAATCCTCGTGTTTTAAAAAAT
65009987 TTCCAA
64 TTCCAA
* * *
65009993 GTTTTAAAAAAATTTTCGTGTTTTCAAAATTTTTTCGTATTTCAAAAATCCTCGTGTTTTCAAAA
1 GTTTT--AAAAATTTTCGTGTTTTCAAAA--ATTCCGTATTTCAAAAATCCTCGTGTTTTAAAAA
***
65010058 ATTTCGGT
62 ATTTCCAA
*
65010066 GTTTTGAAAATTTT-GTGTTTTCAAAAA
1 GTTTTAAAAATTTTCGTGTTTTCAAAAA
65010093 AAAATCTCGT
Statistics
Matches: 138, Mismatches: 26, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
69 23 0.17
70 20 0.14
71 35 0.25
73 51 0.37
74 5 0.04
75 4 0.03
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (69 bp):
GTTTTAAAAATTTTCGTGTTTTCAAAAATTCCGTATTTCAAAAATCCTCGTGTTTTAAAAAATTT
CCAA
Found at i:65010131 original size:54 final size:54
Alignment explanation
Indices: 65010036--65010143 Score: 123
Period size: 54 Copynumber: 2.0 Consensus size: 54
65010026 TTCGTATTTC
*
65010036 AAAAATCCTCGTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTGTGTTTTCAAAA
1 AAAAATCCTCGTGTTTTCAAAAATTTCGGTGTTTTGAAAA--TTGTGTTTCCAAAA
* * **
65010092 AAAAAT-CTCGTG-TTTCATAAATTTTC-GTTTTTTTTAAATTGTGTTTCCAAAA
1 AAAAATCCTCGTGTTTTCA-AAAATTTCGGTGTTTTGAAAATTGTGTTTCCAAAA
65010144 TTCTCGTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
52 13 0.28
54 14 0.30
55 13 0.28
56 6 0.13
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (54 bp):
AAAAATCCTCGTGTTTTCAAAAATTTCGGTGTTTTGAAAATTGTGTTTCCAAAA
Found at i:65010154 original size:17 final size:17
Alignment explanation
Indices: 65009633--65010175 Score: 203
Period size: 17 Copynumber: 30.8 Consensus size: 17
65009623 AAAATAATTT
65009633 TTCTCGTGTTTCAAAAAA
1 TTCTCGTGTTTC-AAAAA
*
65009651 TAT-TTGTGTTTTCAAAAAA
1 T-TCTCGTG-TTTC-AAAAA
* *
65009670 TTC-CATTTTTC-AAAA
1 TTCTCGTGTTTCAAAAA
*
65009685 TTTTCTGTGTTTTCTAAAAA
1 TTCTC-GTG-TTTC-AAAAA
* *
65009705 TTCTCATGTTTCTAAAA
1 TTCTCGTGTTTCAAAAA
* *
65009722 TTTTTGTGTTTCAAAAA
1 TTCTCGTGTTTCAAAAA
* *
65009739 TT-TTGTGTTTTCAAAAT
1 TTCTCGTG-TTTCAAAAA
* * * *
65009756 TTTTTGTATTTTCAACAA
1 TTCTCGT-GTTTCAAAAA
*
65009774 TTCTCGTGTTTCACAAA
1 TTCTCGTGTTTCAAAAA
* * *
65009791 TTTTCGTATTTTAAAAAA
1 TTCTCGT-GTTTCAAAAA
* ** * *
65009809 TTTTTATATTTTAAAAAAAA
1 TTCTCGT-GTTT--CAAAAA
65009829 TTCTCGTGTTTCAAAAA
1 TTCTCGTGTTTCAAAAA
* *
65009846 TTGTCGTGTTTTAAAAA
1 TTCTCGTGTTTCAAAAA
* * *
65009863 TTTTCATGTTTCTAAAA
1 TTCTCGTGTTTCAAAAA
* * *
65009880 TTTTCGTATTTAAAAAA
1 TTCTCGTGTTTCAAAAA
* * **
65009897 TTTTCATGTTTTTAAAA
1 TTCTCGTGTTTCAAAAA
*
65009914 TTTTGCGTGTTTCAAAAA
1 TTCT-CGTGTTTCAAAAA
65009932 -TCTTCGTGTTTTCAAAAA
1 TTC-TCGTG-TTTCAAAAA
65009950 TTC-CGATGTTTCAAAAAA
1 TTCTCG-TGTTTC-AAAAA
*
65009968 TTCTCGTGTTTTAAAAAA
1 TTCTCGTG-TTTCAAAAA
*
65009986 TT-TCCAAGT-TTTAAAAAAA
1 TTCT-C--GTGTTT-CAAAAA
* *
65010005 TTTTCGTGTTTTCAAAATT
1 TTCTCGTG-TTTCAAAA-A
* *
65010024 TTTTCGTATTTCAAAAA
1 TTCTCGTGTTTCAAAAA
*
65010041 TCCTCGTGTTTTCAAAAA
1 TTCTCGTG-TTTCAAAAA
**
65010059 TT-TCGGTGTTTTGAAAA
1 TTCTC-GTGTTTCAAAAA
*
65010076 TT-TTGTGTTTTCAAAAAAAA
1 TTCTCGTG-TTTC---AAAAA
* *
65010096 ATCTCGTGTTTCATAAA
1 TTCTCGTGTTTCAAAAA
* * ***
65010113 TTTTCGTTTTTTTTAAA
1 TTCTCGTGTTTCAAAAA
*
65010130 -T-T-GTGTTTCCAAAA
1 TTCTCGTGTTTCAAAAA
*
65010144 TTCTCGTGTTTAAAAAAA
1 TTCTCGTGTTT-CAAAAA
*
65010162 TTCTCATGTTTCAA
1 TTCTCGTGTTTCAA
65010176 TCGGATCGCG
Statistics
Matches: 402, Mismatches: 82, Indels: 83
0.71 0.14 0.15
Matches are distributed among these distances:
14 8 0.02
15 8 0.02
16 11 0.03
17 168 0.42
18 130 0.32
19 43 0.11
20 30 0.07
21 4 0.01
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (17 bp):
TTCTCGTGTTTCAAAAA
Found at i:65012049 original size:19 final size:20
Alignment explanation
Indices: 65012027--65012078 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
65012017 AAATAGGAGG
65012027 ATATTTTTTAAAATTTTA-A
1 ATATTTTTTAAAATTTTATA
** *
65012046 ATATTTTTTGGATTTTTATA
1 ATATTTTTTAAAATTTTATA
65012066 A-ATTTTTTAAAAT
1 ATATTTTTTAAAAT
65012079 AAATTTTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
ATATTTTTTAAAATTTTATA
Found at i:65012904 original size:17 final size:17
Alignment explanation
Indices: 65012882--65012915 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65012872 TTTTCCTCTC
65012882 TTTTTTAA-ATATTTATT
1 TTTTTTAACAT-TTTATT
65012899 TTTTTTAACATTTTATT
1 TTTTTTAACATTTTATT
65012916 AGACCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAACATTTTATT
Found at i:65017605 original size:25 final size:24
Alignment explanation
Indices: 65017569--65017640 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 24
65017559 AGGTAATAAA
65017569 TTTTATAA-AATTTTAAAAATTATAT
1 TTTTA-AATAATTTT-AAAATTATAT
*
65017594 TTTTAAATAA-TTT--AATCATAT
1 TTTTAAATAATTTTAAAATTATAT
**
65017615 TTTTATTTAATTTTAAGAATTATAT
1 TTTTAAATAATTTTAA-AATTATAT
65017640 T
1 T
65017641 AATTGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 15 0.39
22 3 0.08
24 5 0.13
25 15 0.39
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
TTTTAAATAATTTTAAAATTATAT
Found at i:65017967 original size:31 final size:31
Alignment explanation
Indices: 65017929--65017988 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
65017919 GTTTAAAAAA
* * * *
65017929 CCCTTATTTGAGCATTTTTTAAAATGTTTGG
1 CCCTTATTTGAACACTTTTAAAAAGGTTTGG
65017960 CCCTTATTTGAACACTTTTAAAAAGGTTT
1 CCCTTATTTGAACACTTTTAAAAAGGTTT
65017989 ATCTTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (31 bp):
CCCTTATTTGAACACTTTTAAAAAGGTTTGG
Found at i:65025440 original size:24 final size:23
Alignment explanation
Indices: 65025402--65025463 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
65025392 GGAAGAACCA
*
65025402 TATATCGGAAAGCTCAAGAGAGCT
1 TATATCGGGAAGCTCAAGAGAG-T
* * *
65025426 TATATCGGGATGCTCATGTGAGT
1 TATATCGGGAAGCTCAAGAGAGT
* *
65025449 TATAGCGGGACGCTC
1 TATATCGGGAAGCTC
65025464 TTGCGAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (23 bp):
TATATCGGGAAGCTCAAGAGAGT
Found at i:65025807 original size:10 final size:11
Alignment explanation
Indices: 65025788--65025817 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
65025778 AATTTAATAA
65025788 AATTCACATTC
1 AATTCACATTC
65025799 AATTC-CATTC
1 AATTCACATTC
65025809 AATTCACAT
1 AATTCACAT
65025818 CTTAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:65035304 original size:29 final size:28
Alignment explanation
Indices: 65035250--65035318 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
65035240 AATAGCCTAT
*
65035250 ATTTTTATAATTTTAAAGAATTAAATGAA
1 ATTTTTATTATTTTAAAGAATTAAAT-AA
* *
65035279 ATTTTTATTATTTTTAA-AATTAAAATAT
1 ATTTTTATTATTTTAAAGAATT-AAATAA
65035307 ATTTTTATTATT
1 ATTTTTATTATT
65035319 ACTAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTTTTATTATTTTAAAGAATTAAATAA
Found at i:65035328 original size:27 final size:28
Alignment explanation
Indices: 65035279--65035331 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
65035269 ATTAAATGAA
**
65035279 ATTTTTATTATTTTTAAAATTAAAATAT
1 ATTTTTATTATTACTAAAATTAAAATAT
*
65035307 ATTTTTATTATTACT-AATTTAAAAT
1 ATTTTTATTATTACTAAAATTAAAAT
65035332 TTTATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTTTATTATTACTAAAATTAAAATAT
Found at i:65035341 original size:16 final size:16
Alignment explanation
Indices: 65035327--65035363 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
65035317 TTACTAATTT
65035327 AAAATTTTATAAATTAA
1 AAAATTTT-TAAATTAA
65035344 AAAATTTTTAAA--AA
1 AAAATTTTTAAATTAA
65035358 AAAATT
1 AAAATT
65035364 CCATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTTTAAATTAA
Found at i:65036465 original size:20 final size:20
Alignment explanation
Indices: 65036440--65036485 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
65036430 ATTTAAAGAA
65036440 AATTTTTAATCAACTCAATC
1 AATTTTTAATCAACTCAATC
* *
65036460 AATTTTTTATCAATTCAATC
1 AATTTTTAATCAACTCAATC
65036480 AATTTT
1 AATTTT
65036486 GTATCGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTTTAATCAACTCAATC
Found at i:65036490 original size:20 final size:20
Alignment explanation
Indices: 65036448--65036490 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
65036438 AAAATTTTTA
*
65036448 ATCAACTCAATCAATTTTTT
1 ATCAACTCAATCAATTTTGT
*
65036468 ATCAATTCAATCAATTTTGT
1 ATCAACTCAATCAATTTTGT
65036488 ATC
1 ATC
65036491 GATTAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
ATCAACTCAATCAATTTTGT
Found at i:65036499 original size:20 final size:20
Alignment explanation
Indices: 65036456--65036499 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
65036446 TAATCAACTC
* *
65036456 AATCAATTTTTTATCAATTC
1 AATCAATTTTGTATCAATTA
*
65036476 AATCAATTTTGTATCGATTA
1 AATCAATTTTGTATCAATTA
65036496 AATC
1 AATC
65036500 TTTTTTAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (20 bp):
AATCAATTTTGTATCAATTA
Found at i:65042347 original size:17 final size:16
Alignment explanation
Indices: 65042325--65042368 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
65042315 TTCAAAATGC
65042325 AATTAATTAAAAATTTT
1 AATTAATTAAAAA-TTT
65042342 AATTAATT--AAATTT
1 AATTAATTAAAAATTT
*
65042356 ATTTAATTAAAAA
1 AATTAATTAAAAA
65042369 CTTATTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 3 0.12
17 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAATTAAAAATTT
Found at i:65043314 original size:23 final size:23
Alignment explanation
Indices: 65043264--65043308 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
65043254 GGCCAATCAC
*
65043264 TGTAATATCCCGAAAATTACTAA
1 TGTAATACCCCGAAAATTACTAA
65043287 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
65043309 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAA
Found at i:65052324 original size:31 final size:31
Alignment explanation
Indices: 65052287--65052351 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
65052277 AACAACCCAA
*
65052287 TGACTTAAAT-AATAACTTTCGAATAGTTCAG
1 TGACTTAAATGAA-AACTTTCAAATAGTTCAG
*
65052318 TGACTTAAATGAAAACTTTTAAATAGTTCAG
1 TGACTTAAATGAAAACTTTCAAATAGTTCAG
65052349 TGA
1 TGA
65052352 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATAGTTCAG
Found at i:65054497 original size:30 final size:32
Alignment explanation
Indices: 65054431--65054489 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
65054421 TCTACTATAT
65054431 TTTTTGTTATAAATATTTTATTTAAAATACAC
1 TTTTTGTTATAAATATTTTATTTAAAATACAC
*
65054463 TTTTTGTTATAGATA-TTT-TTTAAAATA
1 TTTTTGTTATAAATATTTTATTTAAAATA
65054490 TCGTTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 9 0.35
31 3 0.12
32 14 0.54
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (32 bp):
TTTTTGTTATAAATATTTTATTTAAAATACAC
Found at i:65061250 original size:44 final size:44
Alignment explanation
Indices: 65061182--65061437 Score: 193
Period size: 44 Copynumber: 5.7 Consensus size: 44
65061172 CAGTGGGATG
*
65061182 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
* **
65061226 CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA
* * * *
65061270 GCGAA-TCTTATTTCCCTGAAGTTTCAGTGGAAC-GGATTGAAGCTATA
1 -C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAA-AT-TA
* * * * *
65061317 AATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT--CA-TA
1 CA----AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
** * * *
65061362 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
65061407 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
65061438 TAGACTGAAG
Statistics
Matches: 160, Mismatches: 34, Indels: 36
0.70 0.15 0.16
Matches are distributed among these distances:
41 24 0.15
42 3 0.02
44 66 0.41
45 37 0.23
46 2 0.01
47 2 0.01
49 1 0.01
50 1 0.01
51 24 0.15
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
Found at i:65061354 original size:96 final size:94
Alignment explanation
Indices: 65061228--65061534 Score: 328
Period size: 96 Copynumber: 3.3 Consensus size: 94
65061218 TGAAATTACT
* * *
65061228 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTT
*
65061293 TCAGTGGAACGGATTGAAGCTATAAATTG
66 ACAGTGGAACGGATTGAAGCTATAAATTG
* * * * *
65061322 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACCTTATCTCCCTAAAG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAG
* *
65061383 TTACAGTGGAGCAGG-TTGAAG-T-TACA---
64 TTACAGTGGAAC-GGATTGAAGCTATAAATTG
* * * *
65061409 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTGAATTTTATATCCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTT
*
65061474 GCAGTGGAACGGATTGAAGCTATAAATTG
66 ACAGTGGAACGGATTGAAGCTATAAATTG
* * *
65061503 TAGGCCTTATCTCTCTGAAGTTGCAATAGAGC
1 -A-GTCTTATCTCCCTGAAGTTGCAGTAGAGC
65061535 TGATCATAGA
Statistics
Matches: 171, Mismatches: 27, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
85 28 0.16
86 3 0.02
88 2 0.01
89 35 0.20
90 4 0.02
91 4 0.02
92 36 0.21
93 2 0.01
95 4 0.02
96 53 0.31
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (94 bp):
AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTT
ACAGTGGAACGGATTGAAGCTATAAATTG
Found at i:65061490 original size:181 final size:181
Alignment explanation
Indices: 65061181--65061630 Score: 650
Period size: 181 Copynumber: 2.5 Consensus size: 181
65061171 GCAGTGGGAT
* * * * *
65061181 GCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACTAGTCTTATCTCCCTGAAG
1 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
* * *
65061246 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTTCAGTGGAACGGATTGAA
66 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
* *
65061311 GCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA
131 GCTATAAATTGCAGACCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATA
65061362 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
1 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
* * *
65061427 TTGCAGTGGAGTAGACTGAAGATAGTGAATTTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
66 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
* * *
65061492 GCTATAAATTGTAGGCCTTATCTCTCTGAAGTTGCAATAGAGCTGATCATA
131 GCTATAAATTGCAGACCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATA
* * * * ** * *
65061543 GAAAACCTTATCTCCTTAAAATTACAGTGGAACAGACTGAAGATAACCAA-TCTTATCTCTCTGA
1 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAG-TTA-CAAGTCTTATCTCCCTGA
*
65061607 AGTTGCAGTGGAGCAGATTGAAGA
64 AGTTGCAGTGGAGCAGACTGAAGA
65061631 CAGACAACAA
Statistics
Matches: 241, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 201 0.83
182 37 0.15
183 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (181 bp):
GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
GCTATAAATTGCAGACCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATA
Found at i:65061657 original size:49 final size:48
Alignment explanation
Indices: 65061549--65061862 Score: 201
Period size: 44 Copynumber: 6.8 Consensus size: 48
65061539 CATAGAAAAC
* * * *
65061549 CTTATCTCCTTAAAATTACAGTGGAACAGACTGAAGATA-AC--C-AAT
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGA-AGACAACAAAT
*
65061594 CTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTGAAGACAGACAACAAAT
1 CTTATCTCCT-TAAAGTTGCAGTGGAGCAGATTGAAGA-AGACAACAAAT
* * * *
65061643 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATT--A-AAG-CCACAAAC
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACAACAAAT
* * * * * * *
65061687 CTTATCTCAC-TGAAGTTGAAGTGGAACAGGTT-AAAAATA-AACCAAT
1 CTTATCTC-CTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACAACAAAT
* * **
65061733 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATGGGATACAAAT
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACA-ACAAAT
* * * * * *
65061782 CTTATCTCCCTAAAGTTACAGTAGAGCAGATT--A-AAG-CCATAAAC
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACAACAAAT
* * * *
65061826 CTTATCTCCCTAAATTTACAGTGGAGCAGGTTGAAGA
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGA
65061863 TACCAATCTC
Statistics
Matches: 217, Mismatches: 35, Indels: 32
0.76 0.12 0.11
Matches are distributed among these distances:
44 68 0.31
45 35 0.16
46 38 0.18
47 6 0.03
48 2 0.01
49 66 0.30
50 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (48 bp):
CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACAACAAAT
Found at i:65061701 original size:44 final size:45
Alignment explanation
Indices: 65061591--65061854 Score: 217
Period size: 49 Copynumber: 5.7 Consensus size: 45
65061581 GAAGATAACC
*
65061591 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGACAGACAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-AG-CAACA
* * *
65061640 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATT-AAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCAACA
* * * * * ** *
65061684 AACCTTATCTCACTGAAGTTGAAGTGGAACAGGTTAAAAATAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAGCAACA
* * *
65061730 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATGGGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-AGCA-ACA
* * * * *
65061779 AATCTTATCTCCCTAAAGTTACAGTAGAGCAGATT-AAAGCCATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCAACA
* * * *
65061823 AACCTTATCTCCCTAAATTTACAGTGGAGCAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
65061855 GTTGAAGATA
Statistics
Matches: 176, Mismatches: 34, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
44 64 0.36
45 3 0.02
46 38 0.22
47 3 0.02
48 1 0.01
49 67 0.38
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCAACA
Found at i:65061749 original size:46 final size:47
Alignment explanation
Indices: 65061549--65061816 Score: 149
Period size: 49 Copynumber: 5.7 Consensus size: 47
65061539 CATAGAAAAC
* * * * * *
65061549 CTTATCTCCTTAAAATT-ACAGTGGAACAGACTGAAGAT--AACCAAT
1 CTTATCTCCCTAAAGTTGA-AGTGGAACAGATTAAAAATGAAACAAAT
* * * * *
65061594 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGACA-GACAACAAAT
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATT-AA-AAATGA-AACAAAT
* * * * ** *
65061643 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATT--AAA-GCCACAAAC
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAATGAAACAAAT
* * * *
65061687 CTTATCTCACTGAAGTTGAAGTGGAACAGGTTAAAAAT-AAACCAAT
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAATGAAACAAAT
* * * * *
65061733 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATGGGATACAAAT
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAAT--GAAACAAAT
* *
65061782 CTTATCTCCCTAAAGTT-ACAGTAGAGCAGATTAAA
1 CTTATCTCCCTAAAGTTGA-AGTGGAACAGATTAAA
65061817 GCCATAAACC
Statistics
Matches: 172, Mismatches: 38, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
44 32 0.19
45 27 0.16
46 39 0.23
47 2 0.01
49 72 0.42
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (47 bp):
CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAATGAAACAAAT
Found at i:65061849 original size:139 final size:138
Alignment explanation
Indices: 65061545--65061905 Score: 422
Period size: 139 Copynumber: 2.6 Consensus size: 138
65061535 TGATCATAGA
* * ** * *
65061545 AAACCTTATCTCCTTAAAATTACAGTGGAACAGACTGAAGATAACCAATCTTATCTCTCTGAAGT
1 AAACCTTATCTCCCTAAATTTACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGT
* * ** *
65061610 TGCAGTGGAGCAGATTGAAGACAGACAACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATT
66 TGCAGTGGAGCAGATTGAAGACAGACAACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATT
65061675 AAAGCCAC
131 AAAGCCAC
* * * * *
65061683 AAACCTTATCTCACTGAAGTTGA-AGTGGAACAGGTTAAAAATAAACCAATCTTATCTCCCTAAA
1 AAACCTTATCTCCCT-AAATTTACAGTGGAACAGGTTGAAGAT-AACCAATCTTATCTCCCTAAA
** *
65061747 GTTGCAGTGGAGCAGATTGAAGATGGGA-TACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAG
64 GTTGCAGTGGAGCAGATTGAAGA-CAGACAACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAG
*
65061811 ATTAAAGCCAT
128 ATTAAAGCCAC
* * * *
65061822 AAACCTTATCTCCCTAAATTTACAGTGGAGCAGGTTGAAGAT-ACCAATCTCATATCCTTAAAGT
1 AAACCTTATCTCCCTAAATTTACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGT
* * * *
65061886 TGTAGTAGATCAAATTGAAG
66 TGCAGTGGAGCAGATTGAAG
65061906 CTACTAATCC
Statistics
Matches: 186, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
137 35 0.19
138 33 0.18
139 116 0.62
140 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (138 bp):
AAACCTTATCTCCCTAAATTTACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGT
TGCAGTGGAGCAGATTGAAGACAGACAACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATT
AAAGCCAC
Found at i:65063675 original size:3 final size:3
Alignment explanation
Indices: 65063659--65063741 Score: 51
Period size: 3 Copynumber: 27.3 Consensus size: 3
65063649 TCAAATTTTA
* * * * *
65063659 TAT TAT TCAC TAT TAT TAT TAT TAT TAT TAA TGT CAT TGT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
65063705 CAT TAT TAT TGT CAT CAT T-T TCAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T
65063742 GTTTATGCAT
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:65063701 original size:24 final size:24
Alignment explanation
Indices: 65063674--65063736 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
65063664 TTCACTATTA
*
65063674 TTATTATTATTATTAATGTCATTG
1 TTATTATCATTATTAATGTCATTG
* **
65063698 TTATTATCATTATTATTGTCATCA
1 TTATTATCATTATTAATGTCATTG
65063722 TT-TTCATCATTATTA
1 TTATT-ATCATTATTA
65063737 TTATTGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.57
Consensus pattern (24 bp):
TTATTATCATTATTAATGTCATTG
Found at i:65069936 original size:118 final size:121
Alignment explanation
Indices: 65069795--65070031 Score: 426
Period size: 122 Copynumber: 2.0 Consensus size: 121
65069785 TGTTTGAATG
*
65069795 AATATGAACTTGAATTTTCATATAGTGTGTAC-AA-ATAGA-TTTTTTATGTCATTTTTCTTGTA
1 AATATGAACTTGAATTTTCATATAGTGTGTACAAATATAGATTTTTTTATGTCAATTTTCTTGTA
65069857 TGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTATAAT
66 TGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTATAAT
*
65069913 AATATGAACTTGAATTTTCATATAGTGTGTACAAATTATAGATTTTTTTATGTTAATTTTCTTGT
1 AATATGAACTTGAATTTTCATATAGTGTGTACAAA-TATAGATTTTTTTATGTCAATTTTCTTGT
65069978 ATGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTAT
65 ATGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTAT
65070032 GTTAATGTCA
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
118 32 0.28
119 2 0.02
121 5 0.04
122 74 0.65
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (121 bp):
AATATGAACTTGAATTTTCATATAGTGTGTACAAATATAGATTTTTTTATGTCAATTTTCTTGTA
TGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTATAAT
Found at i:65072510 original size:23 final size:22
Alignment explanation
Indices: 65072484--65072529 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
65072474 ATACATAAAT
65072484 ATTTTAAAA-ATATATAATAACAA
1 ATTTTAAAATATAT-TAA-AACAA
65072507 ATTTTAAAATATATTAAAACAA
1 ATTTTAAAATATATTAAAACAA
65072529 A
1 A
65072530 AAAAGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTTTAAAATATATTAAAACAA
Found at i:65072515 original size:22 final size:23
Alignment explanation
Indices: 65072484--65072529 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
65072474 ATACATAAAT
65072484 ATTTTAAAAATATA-TAATAACAA
1 ATTTTAAAAATATATTAA-AACAA
65072507 ATTTT-AAAATATATTAAAACAA
1 ATTTTAAAAATATATTAAAACAA
65072529 A
1 A
65072530 AAAAGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTTAAAAATATATTAAAACAA
Found at i:65072952 original size:15 final size:15
Alignment explanation
Indices: 65072932--65072973 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
65072922 TGGGATAGTG
65072932 TTTTATCTTA-TTTTA
1 TTTTAT-TTATTTTTA
65072947 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
65072962 -TTT-TTTATTTTT
1 TTTTATTTATTTTT
65072974 TTCAAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.35
14 6 0.23
15 11 0.42
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:65073731 original size:17 final size:17
Alignment explanation
Indices: 65073709--65073763 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
65073699 GGCCAATGTA
65073709 GGCGTGTTGGCCACACG
1 GGCGTGTTGGCCACACG
65073726 GGCGTGTTGGCCACACG
1 GGCGTGTTGGCCACACG
* *
65073743 GGCGTATGTGCCCACACG
1 GGCGTGT-TGGCCACACG
65073761 GGC
1 GGC
65073764 ATGTGGGCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 23 0.66
18 12 0.34
ACGTcount: A:0.13, C:0.31, G:0.40, T:0.16
Consensus pattern (17 bp):
GGCGTGTTGGCCACACG
Found at i:65073773 original size:18 final size:18
Alignment explanation
Indices: 65073709--65073774 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 18
65073699 GGCCAATGTA
*
65073709 GGCGTGTTGG-CCACACG
1 GGCGTGTGGGCCCACACG
*
65073726 GGCGTGTTGG-CCACACG
1 GGCGTGTGGGCCCACACG
* *
65073743 GGCGTATGTGCCCACACG
1 GGCGTGTGGGCCCACACG
*
65073761 GGCATGTGGGCCCA
1 GGCGTGTGGGCCCA
65073775 TAATTCTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 24 0.57
18 18 0.43
ACGTcount: A:0.14, C:0.30, G:0.39, T:0.17
Consensus pattern (18 bp):
GGCGTGTGGGCCCACACG
Found at i:65080215 original size:13 final size:12
Alignment explanation
Indices: 65080195--65080229 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
65080185 ATGCTATAAC
65080195 AAAAAGAAAAGA
1 AAAAAGAAAAGA
65080207 AAAAGAGAAAAGA
1 AAAA-AGAAAAGA
*
65080220 AAAATGAAAA
1 AAAAAGAAAA
65080230 CCTAAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:65081374 original size:99 final size:99
Alignment explanation
Indices: 65081203--65081386 Score: 316
Period size: 99 Copynumber: 1.9 Consensus size: 99
65081193 GATAGCACAT
* *
65081203 AGTAATTGAATGAGTGTAATAATTCTTAGGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
1 AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
*
65081268 AGAATTCCCTAGATGTGTTTTTTGGACAGAACAG
66 AGAATTCCCTAGACGTGTTTTTTGGACAGAACAG
*
65081302 AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTATAAAGAATT
1 AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
65081367 -GTAATTCCCTAGACGTGTTT
66 AG-AATTCCCTAGACGTGTTT
65081387 AGCTAGCAGA
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 1 0.01
99 79 0.99
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (99 bp):
AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
AGAATTCCCTAGACGTGTTTTTTGGACAGAACAG
Found at i:65081496 original size:16 final size:16
Alignment explanation
Indices: 65081475--65081520 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
65081465 TTATATTTTT
65081475 TAAAAAATAATTACTA
1 TAAAAAATAATTACTA
* *
65081491 TAAAAAATTATTAGTA
1 TAAAAAATAATTACTA
65081507 TGATAAAAATAATT
1 T-A-AAAAATAATT
65081521 TTTGGACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.60
17 1 0.04
18 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
TAAAAAATAATTACTA
Found at i:65083918 original size:57 final size:57
Alignment explanation
Indices: 65083785--65083927 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
65083775 AATTGATGGT
*
65083785 AAAAAGGATCTAGCCCGGACGGGTGATCTTATCCTGATATAGCCCTCCCGAATAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATC---T--TGATATAGCCCTCCCGAAGAATATGTGTG
* *
65083848 AAAAAGATCTAGCCTGGATGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTG-G
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
* *
65083904 AAAATGGATTTAGCCCGGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
65083928 AATCCGAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.07
57 41 0.57
59 1 0.01
62 20 0.28
63 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
Found at i:65084109 original size:67 final size:67
Alignment explanation
Indices: 65084001--65084131 Score: 244
Period size: 67 Copynumber: 2.0 Consensus size: 67
65083991 TTGACGTTGC
*
65084001 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCACGGGAGTGTGCTCTCTT
65084066 GT
66 GT
*
65084068 AGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCACGGGAGTGTGCTCTCT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCACGGGAGTGTGCTCTCT
65084132 AAATTGGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (67 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCACGGGAGTGTGCTCTCTT
GT
Found at i:65091483 original size:34 final size:34
Alignment explanation
Indices: 65091440--65091507 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
65091430 TTCAGGGAAT
65091440 GCAACAAATCTACTAGGACGGACTTATAAACATC
1 GCAACAAATCTACTAGGACGGACTTATAAACATC
65091474 GCAACAAATCTACTAGGACGGACTTATAAACATC
1 GCAACAAATCTACTAGGACGGACTTATAAACATC
65091508 CCAATAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.21
Consensus pattern (34 bp):
GCAACAAATCTACTAGGACGGACTTATAAACATC
Found at i:65092728 original size:30 final size:30
Alignment explanation
Indices: 65092684--65092746 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
65092674 ACTTAACAAG
65092684 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
65092714 CAAATGTCTTTAAAATGATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
65092744 CAA
1 CAA
65092747 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:65099404 original size:31 final size:30
Alignment explanation
Indices: 65099361--65099418 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
65099351 TTCTCAACCC
*
65099361 TAATGTAGGAACAATTGTCAAATTCAAGTCT
1 TAATATAGGAACAATTG-CAAATTCAAGTCT
*
65099392 TAATATAGGAACAATTGCAAGTTCAAG
1 TAATATAGGAACAATTGCAAATTCAAG
65099419 GACTAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (30 bp):
TAATATAGGAACAATTGCAAATTCAAGTCT
Found at i:65103782 original size:32 final size:31
Alignment explanation
Indices: 65103746--65103825 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
65103736 AAATATTTTT
* **
65103746 CAGATCTATATCATGAAAATTATATCCATTAA
1 CAGATCTATAACATGAAAA-TATATCCACAAA
* * *
65103778 CAGATCTAAAACATGAAGATATATTCACAAA
1 CAGATCTATAACATGAAAATATATCCACAAA
65103809 CAGATCTATAACATGAA
1 CAGATCTATAACATGAA
65103826 GTTATATACC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 25 0.61
32 16 0.39
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (31 bp):
CAGATCTATAACATGAAAATATATCCACAAA
Found at i:65123689 original size:17 final size:16
Alignment explanation
Indices: 65123636--65123696 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 16
65123626 TCAAAAATAG
65123636 TAAAGAAGAAATTTGAGAA
1 TAAA-AAGAAA-TTGA-AA
* *
65123655 TAAAAAAAAATCTTAAA
1 TAAAAAGAAAT-TGAAA
65123672 TAAATAAGAAATTGAAA
1 TAAA-AAGAAATTGAAA
65123689 TTAAAAAG
1 -TAAAAAG
65123697 GAAAAAGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 14 0.40
18 17 0.49
19 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (16 bp):
TAAAAAGAAATTGAAA
Found at i:65135015 original size:15 final size:14
Alignment explanation
Indices: 65134966--65135021 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
65134956 AAATGACTAT
*
65134966 ATATAAA-TAAATA
1 ATATAAATTAAAAA
**
65134979 ATATAAATTACTAA
1 ATATAAATTAAAAA
65134993 ATATTAAATTAAAAA
1 ATA-TAAATTAAAAA
65135008 GATATAAATATAAA
1 -ATATAAAT-TAAA
65135022 TTATTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 14 0.41
16 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (14 bp):
ATATAAATTAAAAA
Found at i:65144809 original size:28 final size:29
Alignment explanation
Indices: 65144777--65144843 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
65144767 GAGACTTTCC
* *
65144777 TTTTAATTCTTGACTAG-AGCTTATTCAA
1 TTTTAATGCTTCACTAGAAGCTTATTCAA
* *
65144805 TTTT-ATGCTTCAGTTGAAGCTTATTCAA
1 TTTTAATGCTTCACTAGAAGCTTATTCAA
65144833 TTTT-ATGCTTC
1 TTTTAATGCTTC
65144844 GGTTGAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTTAATGCTTCACTAGAAGCTTATTCAA
Found at i:65144848 original size:28 final size:28
Alignment explanation
Indices: 65144794--65144850 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
65144784 TCTTGACTAG
65144794 AGCTTATTCAATTTTATGCTTCAGTTGA
1 AGCTTATTCAATTTTATGCTTCAGTTGA
*
65144822 AGCTTATTCAATTTTATGCTTCGGTTGA
1 AGCTTATTCAATTTTATGCTTCAGTTGA
65144850 A
1 A
65144851 AGCCAATCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
AGCTTATTCAATTTTATGCTTCAGTTGA
Found at i:65152996 original size:11 final size:11
Alignment explanation
Indices: 65152963--65153003 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
65152953 GAATTTTTAC
65152963 TTTTTAAT-AT
1 TTTTTAATGAT
65152973 TTTTT-ATGAAT
1 TTTTTAATG-AT
65152984 TTTTTAATGAT
1 TTTTTAATGAT
65152995 TTATTTAAT
1 TT-TTTAAT
65153004 CAAGCTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 5 0.19
11 11 0.41
12 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (11 bp):
TTTTTAATGAT
Found at i:65155881 original size:95 final size:95
Alignment explanation
Indices: 65155718--65155907 Score: 346
Period size: 95 Copynumber: 2.0 Consensus size: 95
65155708 GGTCTAGGTT
65155718 TCTTCACTACTGGTGAAGAATCTAAGAGAAGACTAAGAACAACAATGTTGAAACTACATATAAAC
1 TCTTCACTACTGGTGAAGAATCTAAGAGAAGACTAAGAACAACAATGTTGAAACTACATATAAAC
65155783 CCACAAAAACTAGGTAGGTTTATGACAACA
66 CCACAAAAACTAGGTAGGTTTATGACAACA
* *
65155813 TCTTCACTACTGGTGAAGAATCTAAGGGAAGAC-ATAGAACAATAATGTTGAAACTACATATAAA
1 TCTTCACTACTGGTGAAGAATCTAAGAGAAGACTA-AGAACAACAATGTTGAAACTACATATAAA
65155877 CCCACAAAAACTAGGTAGGTTTATGACAACA
65 CCCACAAAAACTAGGTAGGTTTATGACAACA
65155908 CAACAATACC
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 1 0.01
95 91 0.99
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (95 bp):
TCTTCACTACTGGTGAAGAATCTAAGAGAAGACTAAGAACAACAATGTTGAAACTACATATAAAC
CCACAAAAACTAGGTAGGTTTATGACAACA
Found at i:65173384 original size:25 final size:26
Alignment explanation
Indices: 65173350--65173398 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
65173340 CTGTTTTGAC
65173350 CAAATATCTAGAAA-CAAA-TTAATGT
1 CAAATATCTA-AAATCAAACTTAATGT
*
65173375 CAAATTTCTAAAATCAAACTTAAT
1 CAAATATCTAAAATCAAACTTAAT
65173399 AAAAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.62
26 5 0.24
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (26 bp):
CAAATATCTAAAATCAAACTTAATGT
Found at i:65173853 original size:17 final size:17
Alignment explanation
Indices: 65173831--65173863 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65173821 TATTTAATTT
65173831 TTATTT-ATAAATATATA
1 TTATTTAAT-AATATATA
65173848 TTATTTAATAATATAT
1 TTATTTAATAATATAT
65173864 TTGTTGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATAATATATA
Found at i:65174011 original size:23 final size:21
Alignment explanation
Indices: 65173972--65174014 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
65173962 AAGGAGGAAT
*
65173972 TATAAAAAATTCTAAATATTG
1 TATAAAAAATTATAAATATTG
65173993 TATAAAAAATTAATAAAATATT
1 TATAAAAAATT-AT-AAATATT
65174015 TTAAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAAAAAATTATAAATATTG
Found at i:65181096 original size:26 final size:26
Alignment explanation
Indices: 65181067--65181126 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
65181057 TTTCTTTTGT
*
65181067 TTTGGGTTT-GTTTGGGTTATTGGGT-A
1 TTTGGGTTTAG-TTGGGTT-TTGGCTGA
65181093 TTT-GGTTTAGTTGGGTTTTGGCTGA
1 TTTGGGTTTAGTTGGGTTTTGGCTGA
65181118 TTTGGGTTT
1 TTTGGGTTT
65181127 TAGGTTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 5 0.17
25 16 0.53
26 9 0.30
ACGTcount: A:0.07, C:0.02, G:0.37, T:0.55
Consensus pattern (26 bp):
TTTGGGTTTAGTTGGGTTTTGGCTGA
Found at i:65181112 original size:16 final size:16
Alignment explanation
Indices: 65181077--65181135 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
65181067 TTTGGGTTTG
*
65181077 TTTGGGTTA-TTGGGT
1 TTTGGTTTAGTTGGGT
65181092 ATTTGGTTTAGTTGGGT
1 -TTTGGTTTAGTTGGGT
* * *
65181109 TTTGGCTGATTTGGGT
1 TTTGGTTTAGTTGGGT
65181125 TTTAGGTTTAG
1 TTT-GGTTTAG
65181136 GCCTGCTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 24 0.71
17 10 0.29
ACGTcount: A:0.10, C:0.02, G:0.36, T:0.53
Consensus pattern (16 bp):
TTTGGTTTAGTTGGGT
Done.