Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 238 of 255
Found at i:77949397 original size:5 final size:5
Alignment explanation
Indices: 77949384--77949456 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
77949374 TTGTTTTATG
77949384 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
77949432 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
77949457 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:77949409 original size:19 final size:19
Alignment explanation
Indices: 77949385--77949427 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
77949375 TGTTTTATGT
77949385 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
77949404 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
77949423 ATATA
1 ATATA
77949428 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:77949437 original size:24 final size:25
Alignment explanation
Indices: 77949391--77949455 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
77949381 ATGTATATAT
* *
77949391 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
77949415 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
77949440 TTACTATAATATAATA
1 ATAATATAATATAATA
77949456 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:77952601 original size:44 final size:44
Alignment explanation
Indices: 77952537--77953090 Score: 260
Period size: 44 Copynumber: 12.8 Consensus size: 44
77952527 AGAATTTCAG
**
77952537 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGATAGTA
* * * * * *
77952581 ATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACGA-AG-G
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATT-GAA-GATAGTA
* * * *
77952625 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-TG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATTGAAGAT-AGTA
* *
77952666 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGATAGTA
* * * * * *
77952710 ATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACGA-A-TG
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATT-GAA-GATAGTA
* * * *
77952754 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-TG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATTGAAGAT-AGTA
* *
77952795 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGATAGTA
* * * * *
77952839 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATGAAG-G
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGAT--AGTA
* * * *
77952883 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG--CATCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATTGAAGAT-AGTA
* * * ** * ** * *
77952924 GTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAG-ATAGTA
* ** * *
77952969 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACA-TA
1 -ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGATAGTA
* * *
77953013 ATCCTATCTCCCTGA-AGTTACAGTGGAGCAGATT-AAAATAAAG-A
1 ATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATTGAAGAT--AGTA
* * *
77953057 ATCTTATCTCTCTGA-ATTGGCAGTAGAGTAGATT
1 ATCTTATCTCCCTGAGATT-ACAGTAGAGCAGATT
77953091 ACGTCCAAGT
Statistics
Matches: 390, Mismatches: 83, Indels: 74
0.71 0.15 0.14
Matches are distributed among these distances:
41 87 0.22
42 16 0.04
43 43 0.11
44 199 0.51
45 10 0.03
46 35 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGATAGTA
Found at i:77952687 original size:85 final size:85
Alignment explanation
Indices: 77952536--77953089 Score: 254
Period size: 85 Copynumber: 6.4 Consensus size: 85
77952526 AAGAATTTCA
** * * * *
77952536 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAA-GATAGTAATCCTATCTCCCTGATAT
1 GATCTTATCTCCCTGAAG-TTACAGTAGAGCAGATCGAATCA-AG--ATCTTATCTCCCTGAGAT
*
77952599 TACAGTGGAGCGGATTAAAACGAAG
62 TACAGTGGAGCAGATTAAAAC-AAG
* * **
77952624 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTC-AGATCTTATCTCCCTGAGATTACA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAAGATCTTATCTCCCTGAGATTACA
** * * *
77952688 GCAGAGCAGATTGAAGCTAG
66 GTGGAGCAGATTAAAACAAG
* * * * ** * *
77952708 TAATCCTATCTCCCTGATA-TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGA-AG
1 -GATCTTATCTCCCTGA-AGTTACAGTAGAGCAGATCGAATC-AA-GATCTTATCTCCCTGAGA-
* * *****
77952771 TTACAGTAGAGTAGATCGTGTC-A-
61 TTACAGTGGAGCAGATTAAAACAAG
* * * * *
77952794 GATCTTATCTCCCTG-AGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 GATCTTATCTCCCTGAAG-TTACAGTAGAGCAGATCGAATCAAG--ATCTTATCTCCCTGAGATT
* *
77952858 ACAGTGGAGCGGATTAAAATGAAG
63 ACAGTGGAGCAGATTAAAA-CAAG
* * * * * *
77952882 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC-AGGTCTTATTTCCCTGAGGTTACA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAAGATCTTATCTCCCTGAGATTACA
* * **
77952946 GCGGAGTAGACCGAAGAATTGC-A-
66 GTGGAGCAGA-TTAA-AA---CAAG
* ** ** * *
77952969 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACATA-ATCCTATCTCCCTGA-AGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAA-TCA-AGATCTTATCTCCCTGAGA-TT
*
77953032 ACAGTGGAGCAGATTAAAATAAAG
63 ACAGTGGAGCAGATTAAAA-CAAG
* * * *
77953056 AATCTTATCTCTCTGAA-TTGGCAGTAGAGTAGAT
1 GATCTTATCTCCCTGAAGTT-ACAGTAGAGCAGAT
77953090 TACGTCCAAG
Statistics
Matches: 342, Mismatches: 96, Indels: 57
0.69 0.19 0.12
Matches are distributed among these distances:
83 2 0.01
84 3 0.01
85 140 0.41
86 7 0.02
87 66 0.19
88 94 0.27
89 29 0.08
90 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (85 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAATCAAGATCTTATCTCCCTGAGATTACA
GTGGAGCAGATTAAAACAAG
Found at i:77952763 original size:129 final size:129
Alignment explanation
Indices: 77952533--77953045 Score: 735
Period size: 129 Copynumber: 4.0 Consensus size: 129
77952523 CCGAAGAATT
* *
77952533 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
77952598 TTACAGTGGAGCGGATTAAAACGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* *
77952662 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
*
77952727 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
*
77952791 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* **
77952856 TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* * * * * ** * * *
77952920 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAG-ATAGTA-ATCCTATCTCCCTGA
* * * * * * *
77952985 GGTTACAGCGGAGCAGATTAAAGAC-ATA--ATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT
64 GATTACAGTGGAGCGGATTAAA-ACGA-AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
77953046 TAAAATAAAG
Statistics
Matches: 353, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
129 285 0.81
130 32 0.09
131 34 0.10
132 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAACGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:77953425 original size:15 final size:16
Alignment explanation
Indices: 77953405--77953434 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77953395 CTAACAAAAG
77953405 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
77953420 AACCCAATAACCCAC
1 AACCCAATAACCCAC
77953435 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:77959929 original size:19 final size:18
Alignment explanation
Indices: 77959905--77959944 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77959895 TTGTTTGATA
77959905 AAAATAAATATTAATTTTT
1 AAAAT-AATATTAATTTTT
* *
77959924 AAAATATTATTTATTTTT
1 AAAATAATATTAATTTTT
77959942 AAA
1 AAA
77959945 TATTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATAATATTAATTTTT
Found at i:77959954 original size:18 final size:18
Alignment explanation
Indices: 77959913--77959952 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
77959903 TAAAAATAAA
*
77959913 TATTAATTTTTAAAATAT
1 TATTTATTTTTAAAATAT
77959931 TATTTATTTTT-AAATAT
1 TATTTATTTTTAAAATAT
77959948 TATTT
1 TATTT
77959953 TAAATGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATTTTTAAAATAT
Found at i:77960925 original size:29 final size:28
Alignment explanation
Indices: 77960892--77960952 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
77960882 TTCATGTACT
77960892 TTTTATAAATTTGAAATTTAGTCTTTTTA
1 TTTTAT-AATTTGAAATTTAGTCTTTTTA
** * * *
77960921 TTTTATTTTTTTAAATTTAGTGTTTTTT
1 TTTTATAATTTGAAATTTAGTCTTTTTA
77960949 TTTT
1 TTTT
77960953 TTAGATTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.69
Consensus pattern (28 bp):
TTTTATAATTTGAAATTTAGTCTTTTTA
Found at i:77963931 original size:18 final size:17
Alignment explanation
Indices: 77963904--77963937 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
77963894 TATAATAAAT
*
77963904 TTAATTTTATGTATATTA
1 TTAATCTTATGT-TATTA
77963922 TTAATCTTATGTTATT
1 TTAATCTTATGTTATT
77963938 TTATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TTAATCTTATGTTATTA
Found at i:77967046 original size:22 final size:22
Alignment explanation
Indices: 77966989--77967047 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
77966979 ACCACATCAC
* *
77966989 TAGGCACCAAAGTGCTGAGCAG
1 TAGGCACCAAAGTGCTGAACAA
* ** *
77967011 TAAGCACCGGAGTGTTGAACAA
1 TAGGCACCAAAGTGCTGAACAA
*
77967033 TAGGCACCATAGTGC
1 TAGGCACCAAAGTGC
77967048 AAATCAGTAG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (22 bp):
TAGGCACCAAAGTGCTGAACAA
Found at i:77967084 original size:20 final size:22
Alignment explanation
Indices: 77967043--77967091 Score: 75
Period size: 20 Copynumber: 2.3 Consensus size: 22
77967033 TAGGCACCAT
77967043 AGTGCAAATCAGTAGCCACCGA
1 AGTGCAAATCAGTAGCCACCGA
*
77967065 AGTGCAAA-CAGT-GGCACCGA
1 AGTGCAAATCAGTAGCCACCGA
77967085 AGTGCAA
1 AGTGCAA
77967092 TCCTGTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 14 0.54
21 4 0.15
22 8 0.31
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.12
Consensus pattern (22 bp):
AGTGCAAATCAGTAGCCACCGA
Found at i:77969553 original size:23 final size:23
Alignment explanation
Indices: 77969513--77969617 Score: 58
Period size: 23 Copynumber: 4.6 Consensus size: 23
77969503 ATGTAAAAAA
*
77969513 TTAAAGTAAATAATAATAAAACATT
1 TTAAAATAAAT-A-AATAAAACATT
* *
77969538 TTAAAATAAATAAAT---AGAGT
1 TTAAAATAAATAAATAAAACATT
* * * *
77969558 TCAAAATAAGGTATATAAAACAAT
1 TTAAAATAA-ATAAATAAAACATT
*
77969582 TTAAAATAAGT-AATCAAAACAATT
1 TTAAAATAAATAAAT-AAAAC-ATT
77969606 TT-AAATAAATAA
1 TTAAAATAAATAA
77969618 TATATAATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
20 11 0.18
21 4 0.07
22 2 0.03
23 17 0.28
24 17 0.28
25 10 0.16
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.30
Consensus pattern (23 bp):
TTAAAATAAATAAATAAAACATT
Found at i:77969588 original size:24 final size:23
Alignment explanation
Indices: 77969560--77969618 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
77969550 AATAGAGTTC
77969560 AAAATAAGGTATAT-AAAACAATTT
1 AAAATAA-GTA-ATCAAAACAATTT
77969584 AAAATAAGTAATCAAAACAATTT
1 AAAATAAGTAATCAAAACAATTT
* *
77969607 TAAATAAATAAT
1 AAAATAAGTAAT
77969619 ATATAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 2 0.06
23 23 0.72
24 7 0.22
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (23 bp):
AAAATAAGTAATCAAAACAATTT
Found at i:77970851 original size:5 final size:5
Alignment explanation
Indices: 77970843--77970871 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
77970833 AATAAAAAAC
77970843 GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
77970872 ACAAGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (5 bp):
GAAAT
Found at i:77972249 original size:40 final size:40
Alignment explanation
Indices: 77972202--77972284 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
77972192 TATGGGATAT
** *
77972202 TGAATATTGTTTTGAATACTGAATTGAACTGTGAAATTCC
1 TGAATATTGTTACGAATACTGAATTGAACTGTAAAATTCC
* * *
77972242 TGAATATTGTTACGTATACTGCATTGAACTGTAAAATTTC
1 TGAATATTGTTACGAATACTGAATTGAACTGTAAAATTCC
77972282 TGA
1 TGA
77972285 TGAAACGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (40 bp):
TGAATATTGTTACGAATACTGAATTGAACTGTAAAATTCC
Found at i:77972609 original size:17 final size:19
Alignment explanation
Indices: 77972583--77972623 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
77972573 GTGTGTTGAA
*
77972583 TACTGTTATTGTT-CTG-T
1 TACTGCTATTGTTACTGAT
77972600 TACTGCTATTGTTACTGAT
1 TACTGCTATTGTTACTGAT
77972619 TACTG
1 TACTG
77972624 TTTAGCTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 3 0.14
19 6 0.29
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (19 bp):
TACTGCTATTGTTACTGAT
Found at i:77977313 original size:26 final size:26
Alignment explanation
Indices: 77977275--77977332 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
77977265 CATGAAATTC
77977275 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
77977301 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
77977327 TTATCA
1 TTATCA
77977333 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:77979009 original size:39 final size:38
Alignment explanation
Indices: 77978953--77979104 Score: 223
Period size: 39 Copynumber: 3.9 Consensus size: 38
77978943 ATTCCACTCC
* * *
77978953 CCCCATGCTACTTTGTTTTATTATTAATTAAAACTACT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
77978991 CCCCTATACTATTTTGTTTTATTATTAATTAAAACTATT
1 CCCC-ATACTATTTTGTTTTATTATTAATTAAAACTATT
*
77979030 CCTCCATACTATTTTGTTTTTATTATTAATTAAAACCATT
1 CC-CCATACTATTTTG-TTTTATTATTAATTAAAACTATT
*
77979070 CCCCATACTATTTTATTTTTATTATTAATTAAAAC
1 CCCCATACTATTTT-GTTTTATTATTAATTAAAAC
77979105 CATACTTTAT
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
38 4 0.04
39 75 0.71
40 26 0.25
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:77979054 original size:79 final size:78
Alignment explanation
Indices: 77978955--77979104 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 78
77978945 TCCACTCCCC
* *
77978955 CCATGCTACTTTGTTTTATTATTAATTAAAACTACTCCCCTATACTATTTT-GTTTTATTATTAA
1 CCATACTACTTTGTTTTATTATTAATTAAAACCACTCCCC-ATACTATTTTAGTTTTATTATTAA
77979019 TTAAAACTATTCCT
65 TTAAAACTATTCCT
* * *
77979033 CCATACTATTTTGTTTTTATTATTAATTAAAACCATTCCCCATACTATTTTATTTTTATTATTAA
1 CCATACTACTTTG-TTTTATTATTAATTAAAACCACTCCCCATACTATTTTAGTTTTATTATTAA
77979098 TTAAAAC
65 TTAAAAC
77979105 CATACTTTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 21 0.32
79 44 0.68
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (78 bp):
CCATACTACTTTGTTTTATTATTAATTAAAACCACTCCCCATACTATTTTAGTTTTATTATTAAT
TAAAACTATTCCT
Found at i:77979145 original size:22 final size:21
Alignment explanation
Indices: 77979120--77979163 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
77979110 TTTATTTTCT
*
77979120 CTTTTTTTATCATAAAAAAAAA
1 CTTTTTTTAACA-AAAAAAAAA
*
77979142 CTTTTTTTAAGAAAAAAAAAA
1 CTTTTTTTAACAAAAAAAAAA
77979163 C
1 C
77979164 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (21 bp):
CTTTTTTTAACAAAAAAAAAA
Found at i:77979746 original size:22 final size:22
Alignment explanation
Indices: 77979721--77979765 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
77979711 ATACAATTTC
77979721 TTCTCTCC-CAAAATACAATCGA
1 TTCT-TCCTCAAAATACAATCGA
*
77979743 TTCTTCCTCAAAATACCATCGA
1 TTCTTCCTCAAAATACAATCGA
77979765 T
1 T
77979766 CCCCCCATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (22 bp):
TTCTTCCTCAAAATACAATCGA
Found at i:77995052 original size:18 final size:19
Alignment explanation
Indices: 77995037--77995072 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
77995027 TTTTTTTTTT
77995037 CCAAAAATG-CTTTTTTAG
1 CCAAAAATGTCTTTTTTAG
*
77995055 CCAAAAGTGTCTTTTTTA
1 CCAAAAATGTCTTTTTTA
77995073 AGCAATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (19 bp):
CCAAAAATGTCTTTTTTAG
Found at i:77997467 original size:23 final size:23
Alignment explanation
Indices: 77997441--77997485 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
77997431 TCACTTATTG
77997441 CTTTGAGCAATGAGTTGCAATTT
1 CTTTGAGCAATGAGTTGCAATTT
* *
77997464 CTTTGAGCATTGATTTGCAATT
1 CTTTGAGCAATGAGTTGCAATT
77997486 GAAAGGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (23 bp):
CTTTGAGCAATGAGTTGCAATTT
Found at i:78003286 original size:36 final size:37
Alignment explanation
Indices: 78003222--78003297 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
78003212 TATAATTTTC
* ** * *
78003222 AAAATAAAAATATGTTAGAATTTTTAAAAAATTGTAA
1 AAAATAAAAATATATTAGAAAATGTAAAAAAGTGTAA
*
78003259 AAAATAAAAAT-TATTAGAAAATGTAAAATAGTGTAA
1 AAAATAAAAATATATTAGAAAATGTAAAAAAGTGTAA
78003295 AAA
1 AAA
78003298 TAATTAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (37 bp):
AAAATAAAAATATATTAGAAAATGTAAAAAAGTGTAA
Found at i:78003296 original size:29 final size:29
Alignment explanation
Indices: 78003263--78003327 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
78003253 TTGTAAAAAA
*
78003263 TAAAAATTATTAGAAAATGTA-AAATAGTG
1 TAAAAATAATTA-AAAATGTATAAATAGTG
*
78003292 TAAAAATAATTAAAAATTTATAAATAGT-
1 TAAAAATAATTAAAAATGTATAAATAGTG
*
78003320 AAAAAATA
1 TAAAAATA
78003328 TTGTATCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (29 bp):
TAAAAATAATTAAAAATGTATAAATAGTG
Found at i:78005174 original size:25 final size:24
Alignment explanation
Indices: 78005140--78005204 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
78005130 TTTTTATTTG
* * *
78005140 TTTTTCATTTGTTTCTTTTTCTGA
1 TTTTTTATTTGTTTCCTTTTCCGA
78005164 TTCTTTTATTTGTTTGTCCTTTTCCGA
1 TT-TTTTATTTG-TT-TCCTTTTCCGA
78005191 TTTTTTATTTGTTT
1 TTTTTTATTTGTTT
78005205 TTCTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 3 0.09
25 10 0.29
26 11 0.31
27 11 0.31
ACGTcount: A:0.08, C:0.12, G:0.09, T:0.71
Consensus pattern (24 bp):
TTTTTTATTTGTTTCCTTTTCCGA
Found at i:78005210 original size:25 final size:25
Alignment explanation
Indices: 78005140--78005210 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
78005130 TTTTTATTTG
* * *
78005140 TTTTTCATTTGTTTCT-TTTTCTGA
1 TTTTTTATTTGTTTTTCTTTTCCGA
*
78005164 TTCTTTTATTTGTTTGTCCTTTTCCGA
1 TT-TTTTATTTGTTT-TTCTTTTCCGA
78005191 TTTTTTATTTGTTTTTCTTT
1 TTTTTTATTTGTTTTTCTTT
78005211 ATTTACTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 2 0.05
25 16 0.41
26 12 0.31
27 9 0.23
ACGTcount: A:0.07, C:0.13, G:0.08, T:0.72
Consensus pattern (25 bp):
TTTTTTATTTGTTTTTCTTTTCCGA
Found at i:78005407 original size:22 final size:22
Alignment explanation
Indices: 78005372--78005462 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
78005362 TTATTATTTG
* *
78005372 TTTTATAATATTTTAAATGTATA
1 TTTTAAAAT-TTTTAAATATATA
*
78005395 TTTTAAAATTTTTAAATATATT
1 TTTTAAAATTTTTAAATATATA
* * *
78005417 TTTTAAAA-ATTTAAATTTAAA
1 TTTTAAAATTTTTAAATATATA
78005438 TTTTTAAAATTATTTTTAAATATAT
1 -TTTT-AAA--ATTTTTAAATATAT
78005463 TAAAACTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
21 9 0.17
22 23 0.43
23 11 0.21
25 1 0.02
26 9 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
TTTTAAAATTTTTAAATATATA
Found at i:78005491 original size:12 final size:11
Alignment explanation
Indices: 78005439--78005493 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
78005429 AAATTTAAAT
78005439 TTTTAAAATTA
1 TTTTAAAATTA
*
78005450 TTTTTAAA-TA
1 TTTTAAAATTA
*
78005460 TATTAAAACTT-
1 TTTTAAAA-TTA
*
78005471 TTTTTAAATTA
1 TTTTAAAATTA
78005482 TATTTAAAATTA
1 T-TTTAAAATTA
78005494 AAAAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
10 10 0.29
11 14 0.41
12 10 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:78011585 original size:3 final size:3
Alignment explanation
Indices: 78011577--78011829 Score: 120
Period size: 3 Copynumber: 86.3 Consensus size: 3
78011567 TAGTACCATG
* * * *
78011577 ATA ATA ATA AGA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
78011623 TTA CTA ATA ATA ATA ATAA ATA A-A A-A ATG ATA GTA A-A TATA TATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA -ATA
* * *
78011668 A-A ATA ATA GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * *
78011709 TGTA ATA ATA ATA ATCA A-A ATA AAA ATA ATA A-C ATG TTA CTA ATA
1 -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
78011754 ATA ATA ATA ATA AGTA ATA ATA TATA ATA ATA ACA GTA ATA A-A ATA
1 ATA ATA ATA ATA A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
78011800 ACA ATA GTG ATA ATA TTA A-A ATA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
78011830 GAATGTCAAA
Statistics
Matches: 186, Mismatches: 44, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
2 24 0.13
3 144 0.77
4 18 0.10
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:78011784 original size:23 final size:23
Alignment explanation
Indices: 78011577--78011795 Score: 101
Period size: 23 Copynumber: 9.9 Consensus size: 23
78011567 TAGTACCATG
*
78011577 ATAATAATAAGAA-TAATAATAAT
1 ATAATAATAATAAGTAATAAT-AT
* * *
78011600 AAAATAATAA-AAATAACAATAT
1 ATAATAATAATAAGTAATAATAT
* *
78011622 GTTACTAATAATAA-TAATAA-AT
1 -ATAATAATAATAAGTAATAATAT
* *
78011644 A-AAAAATGAT-AGTAAATATATAT
1 ATAATAATAATAAGT-AATA-ATAT
* * *
78011667 AAAATAATAGTAACAGTAATAAAAT
1 ATAATAATAAT-A-AGTAATAATAT
78011692 A-AAT-ATAAT-A-TAATAA-AT
1 ATAATAATAATAAGTAATAATAT
*
78011710 GTAATAATAATAA-TCAA-AATA-
1 ATAATAATAATAAGT-AATAATAT
* * * *
78011731 AAAATAATAACATGTTACTAATA-
1 ATAATAATAATAAG-TAATAATAT
78011754 ATAATAATAATAAGTAATAATAT
1 ATAATAATAATAAGTAATAATAT
*
78011777 ATAATAATAA-CAGTAATAA
1 ATAATAATAATAAGTAATAA
78011796 AATAACAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 41
0.69 0.12 0.19
Matches are distributed among these distances:
18 2 0.01
19 10 0.07
20 13 0.09
21 17 0.11
22 26 0.17
23 60 0.40
24 11 0.07
25 4 0.03
26 4 0.03
27 3 0.02
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAATAATAATAAGTAATAATAT
Found at i:78011800 original size:20 final size:20
Alignment explanation
Indices: 78011665--78011805 Score: 90
Period size: 20 Copynumber: 6.7 Consensus size: 20
78011655 GTAAATATAT
*
78011665 ATAAAATAATAGTAACAGTA
1 ATAAAATAATAATAACAGTA
*
78011685 ATAAAATAA-ATATAATA-TA
1 ATAAAATAATA-ATAACAGTA
* * *
78011704 ATAAATGTAATAATAATAATCA
1 ATAAA-ATAATAATAACAGT-A
*
78011726 A-AATAAAAATAATAACATGTTA
1 ATAA-AATAATAATAACA-G-TA
* *
78011748 CTAATAATAATAATAATAAGTA
1 ATAA-AATAATAATAA-CAGTA
78011770 ATAATATATAATAATAACAGTA
1 ATAA-A-ATAATAATAACAGTA
*
78011792 ATAAAATAACAATA
1 ATAAAATAATAATA
78011806 GTGATAATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.08
20 30 0.31
21 14 0.14
22 19 0.20
23 25 0.26
24 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAATAACAGTA
Found at i:78013692 original size:8 final size:8
Alignment explanation
Indices: 78013681--78013735 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
78013671 ACCTATTAAA
78013681 TTTAAAAT
1 TTTAAAAT
78013689 TTTAAAAT
1 TTTAAAAT
78013697 TTTAAAAT
1 TTTAAAAT
*
78013705 TAGTTATAA-
1 T--TTAAAAT
78013714 -TTAAAAT
1 TTTAAAAT
*
78013721 TTTAATAT
1 TTTAAAAT
78013729 ATTTAAA
1 -TTTAAA
78013736 TATATTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
6 5 0.13
8 23 0.61
9 5 0.13
10 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (8 bp):
TTTAAAAT
Found at i:78013752 original size:18 final size:16
Alignment explanation
Indices: 78013674--78013754 Score: 53
Period size: 16 Copynumber: 5.0 Consensus size: 16
78013664 TATATTTACC
78013674 TATTAA-AT-TTAAAA
1 TATTAATATATTAAAA
* * *
78013688 TTTTAAAATTTTAAAA
1 TATTAATATATTAAAA
78013704 TTAGTT-ATA-ATTAAAA
1 -TA-TTAATATATTAAAA
*
78013720 TTTTAATATATTTAAATA
1 TATTAATATA-TTAAA-A
78013738 TATTAAGTATATTAAAA
1 TATTAA-TATATTAAAA
78013755 ATTTTAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
14 7 0.13
15 6 0.12
16 13 0.25
17 9 0.17
18 13 0.25
19 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TATTAATATATTAAAA
Found at i:78013761 original size:18 final size:18
Alignment explanation
Indices: 78013716--78013761 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
78013706 AGTTATAATT
78013716 AAAATTTTAATATATTTA
1 AAAATTTTAATATATTTA
* *
78013734 AATATATTAAGTATA-TTA
1 AAAATTTTAA-TATATTTA
78013752 AAAATTTTAA
1 AAAATTTTAA
78013762 ATTGATTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AAAATTTTAATATATTTA
Found at i:78013810 original size:19 final size:20
Alignment explanation
Indices: 78013778--78013821 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
78013768 TCTACTTGAC
78013778 ATTTTTTAACATA-TTTAAA
1 ATTTTTTAACATATTTTAAA
78013797 ATTTCTTTAA-ATATTTTAAA
1 ATTT-TTTAACATATTTTAAA
78013817 ATTTT
1 ATTTT
78013822 AAATATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTTAACATATTTTAAA
Found at i:78013822 original size:8 final size:9
Alignment explanation
Indices: 78013781--78013827 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
78013771 ACTTGACATT
78013781 TTTTAACATA
1 TTTTAA-ATA
* *
78013791 TTTAAAATT
1 TTTTAAATA
78013800 TCTTTAAATA
1 T-TTTAAATA
78013810 TTTTAAA-A
1 TTTTAAATA
78013818 TTTTAAATA
1 TTTTAAATA
78013827 T
1 T
78013828 ATTACAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
8 8 0.26
9 11 0.35
10 12 0.39
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTAAATA
Found at i:78013881 original size:8 final size:8
Alignment explanation
Indices: 78013868--78013952 Score: 71
Period size: 8 Copynumber: 10.0 Consensus size: 8
78013858 AAAAAATATA
78013868 TTAAAATT
1 TTAAAATT
78013876 TTAAAATT
1 TTAAAATT
78013884 TTAAAATAT
1 TTAAAAT-T
*
78013893 TTAAAAAAAT
1 TT--AAAATT
* *
78013903 TGAATATAT
1 TTAAAAT-T
78013912 TTAAAATTT
1 TTAAAA-TT
* *
78013921 TTAACATA
1 TTAAAATT
*
78013929 TTACAATT
1 TTAAAATT
78013937 TTAAAATT
1 TTAAAATT
78013945 TTAAAATT
1 TTAAAATT
78013953 GGTTATACTT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 39 0.65
9 14 0.23
10 3 0.05
11 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (8 bp):
TTAAAATT
Found at i:78013979 original size:69 final size:70
Alignment explanation
Indices: 78013905--78014069 Score: 230
Period size: 71 Copynumber: 2.4 Consensus size: 70
78013895 AAAAAAATTG
* *
78013905 AATATATTTAAAATTTTTAACATATTACAAT-T-TTAAAATTTTAAAATTGGTTATACTTAACAT
1 AATATATTTAAAATTTTTAATATATTA-AATATATTAAAATTTTAAAATTAGTTATACTTAACAT
78013968 TTTTTA
65 TTTTTA
* *
78013974 AATATATTT-AATTTTTTCAAATATATTAAATATATTAAAATTTTAAAATTAGTTATATTTAACA
1 AATATATTTAAAATTTTT--AATATATTAAATATATTAAAATTTTAAAATTAGTTATACTTAACA
*
78014038 TTTTTTT
64 TTTTTTA
78014045 AATATATTTAAAA-TTTTAATATATT
1 AATATATTTAAAATTTTTAATATATT
78014070 TAATTTTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
68 7 0.08
69 20 0.24
70 9 0.11
71 47 0.55
72 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (70 bp):
AATATATTTAAAATTTTTAATATATTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATT
TTTTA
Found at i:78014072 original size:37 final size:37
Alignment explanation
Indices: 78013875--78014105 Score: 109
Period size: 36 Copynumber: 6.5 Consensus size: 37
78013865 ATATTAAAAT
**** *
78013875 TTTAAAATTTTAAA-ATATTTAAAAAAATTGAATATA
1 TTTAAAATTTTAAATATATTTAAATTTTTTTAATATA
* * *
78013911 TTTAAAATTTTTAACATA-TTACAA---TTTTAAAAT-
1 TTTAAAATTTTAAATATATTTA-AATTTTTTTAATATA
* * *
78013944 TTTAAAATTGGT---TATACTTAACATTTTTTAAATATA
1 TTTAAAATT-TTAAATATATTTAA-ATTTTTTTAATATA
** * * *
78013980 TTTAATTTTTTCAAATATA-TTAAA-TATATTAAAAT-
1 TTTAAAATTTT-AAATATATTTAAATTTTTTTAATATA
**
78014015 TTTAAAAT--TAGTTATATTTAACATTTTTTTAATATA
1 TTTAAAATTTTAAATATATTTAA-ATTTTTTTAATATA
*
78014051 TTTAAAATTTT-AATATATTT-AATTTTTTTAAGCT-TT
1 TTTAAAATTTTAAATATATTTAAATTTTTTTAA--TATA
78014087 TTTAAAATTTTAAATATAT
1 TTTAAAATTTTAAATATAT
78014106 AGATTTTCTT
Statistics
Matches: 148, Mismatches: 25, Indels: 43
0.69 0.12 0.20
Matches are distributed among these distances:
31 4 0.03
32 9 0.06
33 14 0.09
34 8 0.05
35 32 0.22
36 51 0.34
37 21 0.14
38 5 0.03
39 4 0.03
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (37 bp):
TTTAAAATTTTAAATATATTTAAATTTTTTTAATATA
Found at i:78014078 original size:17 final size:17
Alignment explanation
Indices: 78014039--78014078 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
78014029 TATTTAACAT
78014039 TTTTTTAATATATTTAA
1 TTTTTTAATATATTTAA
**
78014056 AATTTTAATATATTTAA
1 TTTTTTAATATATTTAA
78014073 TTTTTT
1 TTTTTT
78014079 TAAGCTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAATATATTTAA
Found at i:78024823 original size:3 final size:3
Alignment explanation
Indices: 78024815--78024840 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78024805 ACGAACACTG
78024815 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
78024841 GATGGGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:78026455 original size:33 final size:33
Alignment explanation
Indices: 78026393--78026456 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
78026383 TTAAATACAC
* *
78026393 TAAAAATATTAAAATAAATATTTTCCAACAAAG
1 TAAAAATATTAAAATAAATATTATACAACAAAG
78026426 TAAAAATACATTAAAA-AAAT-TTATACAACAA
1 TAAAAAT--ATTAAAATAAATATTATACAACAA
78026457 TAAAATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 16 0.59
34 4 0.15
35 7 0.26
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (33 bp):
TAAAAATATTAAAATAAATATTATACAACAAAG
Found at i:78037770 original size:6 final size:6
Alignment explanation
Indices: 78037754--78037808 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
78037744 ACTTTATAAT
* * * *
78037754 TATTTA GATTTG TATTTG TAATTA TA-TTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
78037801 TATTTA TA
1 TATTTA TA
78037809 ATATTAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
5 5 0.12
6 38 0.88
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (6 bp):
TATTTA
Found at i:78037792 original size:23 final size:23
Alignment explanation
Indices: 78037746--78037804 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
78037736 TTGGTTTTAC
*
78037746 TTTATAATTAT-TTAGATTTGTA
1 TTTATAATTATATTAGATTTATA
* *
78037768 TTTGTAATTATATTATATTTATA
1 TTTATAATTATATTAGATTTATA
*
78037791 TTTATATTTATATT
1 TTTATAATTATATT
78037805 TATAATATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (23 bp):
TTTATAATTATATTAGATTTATA
Found at i:78038105 original size:14 final size:13
Alignment explanation
Indices: 78038078--78038103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78038068 ATATGACAAG
78038078 CCATTTTATTTTT
1 CCATTTTATTTTT
78038091 CCATTTTATTTTT
1 CCATTTTATTTTT
78038104 TCAAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
CCATTTTATTTTT
Found at i:78038563 original size:18 final size:20
Alignment explanation
Indices: 78038526--78038572 Score: 71
Period size: 18 Copynumber: 2.4 Consensus size: 20
78038516 TATTTAATTT
78038526 TTTATATATTTAATAATAATA
1 TTTAT-TATTTAATAATAATA
78038547 TTTATTATTT-A-AATAATA
1 TTTATTATTTAATAATAATA
78038565 TTTATTAT
1 TTTATTAT
78038573 ATTTTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.58
19 1 0.04
20 5 0.19
21 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTATTTAATAATAATA
Found at i:78038572 original size:21 final size:20
Alignment explanation
Indices: 78038522--78038576 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
78038512 TTTATATTTA
*
78038522 ATTTTTTATATATTTAATAAT
1 ATTTATTAT-TATTTAATAAT
*
78038543 A-ATATTTATTATTTAAATAAT
1 ATTTA-TTATTATTT-AATAAT
78038564 ATTTATTA-TATTT
1 ATTTATTATTATTT
78038577 TTTGTACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 11 0.39
21 15 0.54
22 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTATTATTATTTAATAAT
Found at i:78041446 original size:10 final size:9
Alignment explanation
Indices: 78041423--78041455 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
78041413 TCGATTCAAA
78041423 AAAAATAAT
1 AAAAATAAT
78041432 AAAAATAAT
1 AAAAATAAT
78041441 ATAAAATAA-
1 A-AAAATAAT
78041450 AAAAAT
1 AAAAAT
78041456 TTGATCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 11 0.48
10 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:78044935 original size:3 final size:3
Alignment explanation
Indices: 78044929--78044972 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
78044919 TTATCTCTCT
* * *
78044929 TTA TTA TT- TTA TTA TTA TTA TTA TTA TCA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
78044973 AGTTGAAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:78049836 original size:42 final size:42
Alignment explanation
Indices: 78049775--78049899 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
78049765 TCGTTTTCTA
** * *
78049775 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATC
*
78049817 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATC
*
78049859 GATGCCATAACCCAGCTATGGTCTTACACGA-A-TCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATATC
78049900 TCACTGATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
41 10 0.14
42 63 0.85
43 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATC
Found at i:78049961 original size:47 final size:46
Alignment explanation
Indices: 78049858--78049981 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
78049848 ATTCATATAT
* * * * *
78049858 CGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
78049904 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
*
78049951 CGATGCCATATCTCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
78049982 GAAATCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:78050041 original size:31 final size:31
Alignment explanation
Indices: 78050006--78050132 Score: 193
Period size: 31 Copynumber: 4.1 Consensus size: 31
78049996 CTTGTCACTT
*
78050006 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
78050037 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
78050068 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
78050099 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCGAAGCTACCACTTTTCACTGATCAG
78050130 GTA
1 GTA
78050133 CCTGATCAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.97
32 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:78050156 original size:43 final size:43
Alignment explanation
Indices: 78050091--78050180 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
78050081 CCACTTTTCA
*
78050091 CTGATCAGGTAGTCGGAACTACCACTTTTCACTGATCAGGTAC
1 CTGATCAGGTAGTCAGAACTACCACTTTTCACTGATCAGGTAC
*
78050134 CTGATCAGGTAG-CAGAAGCTACCACTTTTCACTGATCAGGTAG
1 CTGATCAGGTAGTCAGAA-CTACCACTTTTCACTGATCAGGTAC
78050177 CTGA
1 CTGA
78050181 AGCTGCCAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 4 0.09
43 40 0.91
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (43 bp):
CTGATCAGGTAGTCAGAACTACCACTTTTCACTGATCAGGTAC
Found at i:78050172 original size:31 final size:31
Alignment explanation
Indices: 78050134--78050197 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
78050124 GATCAGGTAC
78050134 CTGATCAGGTAGCAGAAGCTACC-ACTTTTCA
1 CTGATCAGGTAGCAGAAGCTACCAAC-TTTCA
* *
78050165 CTGATCAGGTAGCTGAAGCTGCCAACTTTCA
1 CTGATCAGGTAGCAGAAGCTACCAACTTTCA
78050196 CT
1 CT
78050198 TGTCATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
CTGATCAGGTAGCAGAAGCTACCAACTTTCA
Found at i:78050276 original size:50 final size:51
Alignment explanation
Indices: 78050189--78050301 Score: 187
Period size: 50 Copynumber: 2.3 Consensus size: 51
78050179 GAAGCTGCCA
78050189 ACTT-TCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATC
1 ACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATC
*
78050239 ACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCCGAAGCTATC
1 ACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATC
78050289 ACTTATCACTTGT
1 ACTTATCACTTGT
78050302 TGCCATGGTC
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
50 49 0.83
51 10 0.17
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (51 bp):
ACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATC
Found at i:78055483 original size:108 final size:108
Alignment explanation
Indices: 78055236--78055577 Score: 605
Period size: 108 Copynumber: 3.2 Consensus size: 108
78055226 GTATAACTAT
* *
78055236 ATAAATCTCAACCTTTTGTTATTAACTATCATAATAAAAATGACGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
* *
78055301 ACTCAACACAACCTTATTTCCTA-CCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA
* *
78055343 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTGAACCCTAACTCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
78055408 ACTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA
* *
78055451 ATAAATCTCAACCTTTTGTTATTAGCTAGCATAACAAAAATGACGTAAACCCTAAATTGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
78055516 ACTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA
78055559 ATAAATCTCAACCTTTTGT
1 ATAAATCTCAACCTTTTGT
78055578 GACGTAAACC
Statistics
Matches: 224, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
107 82 0.37
108 142 0.63
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (108 bp):
ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
ACTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA
Found at i:78055807 original size:251 final size:255
Alignment explanation
Indices: 78055344--78056090 Score: 984
Period size: 251 Copynumber: 2.9 Consensus size: 255
78055334 CTCTTTGTAA
* * * * * *
78055344 TAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTGAACCCTAACTCGATCTAAA
1 TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
* * *
78055409 CTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTAATAAATCTCAACCTTTTGTTATT
66 CTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATT
* * ** *
78055474 AGCTAGCATAACAAAAATGACGTAAACCCTAAATTGATCTAAACTCAACACAACCCTATTCCCTA
131 AACTAGCATAACAAAAATGACGTAAACCTTAAACCGATTTAAACTCAACACAACCCTATTCCCTA
**
78055539 CCCCATCCAACCTCTTTGTAATAAATCTCAACCTTTTGTGACGTAA-A-C-C-CTATGAAC-
196 CCCCATCCAACCTCTTTGTAATAAATCTCAACCTTTTGTGA-GTAATAGCACAAAATG-ACG
78055596 TAAA-CTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
1 TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
78055660 CTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATT
66 CTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATT
*
78055725 AACTAGCATAACAAAAATGATGTAAACCTTAAACCGATTTAAACTCAACACAACCCTATTCCCTA
131 AACTAGCATAACAAAAATGACGTAAACCTTAAACCGATTTAAACTCAACACAACCCTATTCCCTA
* * *
78055790 CCCCATCCAATCTCTTTGTAATAAATCTCAACCTTTTGTTATTAATTAGCATAACAAAAATGACG
196 CCCCATCCAACCTCTTTGTAATAAATCTCAACCTTTTGTGAGTAA-TAGC---AC-AAAATGACG
*
78055855 TAAATCCTAAATCGAACTAAACTTAACATTTTATTATTAATTAGCATAACAAAAATGACGTAAAC
1 -------TAAAT----CT---C--AACATTTTATTATTAACTAGCATAACAAAAATGACGTAAAC
* * *
78055920 CTTAAATCAATTTAAACTCGACACAACCCTATTCCCTATCCCATCCAACCTTTTTGTAATAAATC
50 CTTAAATCGATTTAAACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTAATAAATC
* *
78055985 TCAACATTTTATTATTAACTGGCATAACAAAAATGACATAAACCTTAAACCGATTTAAACTCAAC
115 TCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAACCGATTTAAACTCAAC
* *
78056050 ACAACCCTATTCCCTAACCCATCCAACCTCTCTGTATATAA
180 ACAACCCTATTCCCTACCCCATCCAACCTCTTTGTA-ATAA
78056091 CTAAATATTG
Statistics
Matches: 437, Mismatches: 30, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
250 3 0.01
251 214 0.49
252 5 0.01
253 1 0.00
257 1 0.00
258 2 0.00
259 3 0.01
266 4 0.01
271 2 0.00
274 1 0.00
276 197 0.45
277 4 0.01
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (255 bp):
TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
CTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATT
AACTAGCATAACAAAAATGACGTAAACCTTAAACCGATTTAAACTCAACACAACCCTATTCCCTA
CCCCATCCAACCTCTTTGTAATAAATCTCAACCTTTTGTGAGTAATAGCACAAAATGACG
Found at i:78055877 original size:108 final size:108
Alignment explanation
Indices: 78055596--78055869 Score: 462
Period size: 108 Copynumber: 2.5 Consensus size: 108
78055586 CCCTATGAAC
78055596 TAAA-CTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
1 TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
*
78055660 CTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTAA
66 CTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTAA
* *
78055703 TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGATGTAAACCTTAAACCGATTTAAA
1 TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
*
78055768 CTCAACACAACCCTATTCCCTACCCCATCCAATCTCTTTGTAA
66 CTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTAA
* * *
78055811 TAAATCTCAACCTTTTGTTATTAATTAGCATAACAAAAATGACGTAAATCC-TAAATCGA
1 TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAA-CCTTAAATCGA
78055870 ACTAAACTTA
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
107 4 0.03
108 150 0.96
109 2 0.01
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (108 bp):
TAAATCTCAACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAATCGATTTAAA
CTCAACACAACCCTATTCCCTACCCCATCCAACCTCTTTGTAA
Found at i:78055902 original size:168 final size:168
Alignment explanation
Indices: 78055711--78056026 Score: 515
Period size: 168 Copynumber: 1.9 Consensus size: 168
78055701 AATAAATCTC
* *
78055711 AACATTTTATTATTAACTAGCATAACAAAAATGATGTAAACCTTAAACCGATTTAAACTCAACAC
1 AACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAACCAATTTAAACTCAACAC
* * * *
78055776 AACCCTATTCCCTACCCCATCCAATCTCTTTGTAATAAATCTCAACCTTTTGTTATTAATTAGCA
66 AACCCTATTCCCTACCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATTAACTAGCA
*
78055841 TAACAAAAATGACGTAAATCCTAAATCGAACTAAACTT
131 TAACAAAAATGACATAAATCCTAAATCGAACTAAACTT
* * *
78055879 AACATTTTATTATTAATTAGCATAACAAAAATGACGTAAACCTTAAATCAATTTAAACTCGACAC
1 AACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAACCAATTTAAACTCAACAC
* * *
78055944 AACCCTATTCCCTATCCCATCCAACCTTTTTGTAATAAATCTCAACATTTTATTATTAACTGGCA
66 AACCCTATTCCCTACCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATTAACTAGCA
78056009 TAACAAAAATGACATAAA
131 TAACAAAAATGACATAAA
78056027 CCTTAAACCG
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
168 135 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (168 bp):
AACATTTTATTATTAACTAGCATAACAAAAATGACGTAAACCTTAAACCAATTTAAACTCAACAC
AACCCTATTCCCTACCCCATCCAACCTCTTTGTAATAAATCTCAACATTTTATTATTAACTAGCA
TAACAAAAATGACATAAATCCTAAATCGAACTAAACTT
Found at i:78056014 original size:108 final size:108
Alignment explanation
Indices: 78055879--78056078 Score: 337
Period size: 108 Copynumber: 1.9 Consensus size: 108
78055869 AACTAAACTT
* * * *
78055879 AACATTTTATTATTAATTAGCATAACAAAAATGACGTAAACCTTAAATCAATTTAAACTCGACAC
1 AACATTTTATTATTAACTAGCATAACAAAAATGACATAAACCTTAAACCAATTTAAACTCAACAC
*
78055944 AACCCTATTCCCTATCCCATCCAACCTTTTTGTAATAAATCTC
66 AACCCTATTCCCTAACCCATCCAACCTTTTTGTAATAAATCTC
* *
78055987 AACATTTTATTATTAACTGGCATAACAAAAATGACATAAACCTTAAACCGATTTAAACTCAACAC
1 AACATTTTATTATTAACTAGCATAACAAAAATGACATAAACCTTAAACCAATTTAAACTCAACAC
78056052 AACCCTATTCCCTAACCCATCCAACCT
66 AACCCTATTCCCTAACCCATCCAACCT
78056079 CTCTGTATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.29
Consensus pattern (108 bp):
AACATTTTATTATTAACTAGCATAACAAAAATGACATAAACCTTAAACCAATTTAAACTCAACAC
AACCCTATTCCCTAACCCATCCAACCTTTTTGTAATAAATCTC
Found at i:78057643 original size:216 final size:221
Alignment explanation
Indices: 78057072--78057651 Score: 579
Period size: 215 Copynumber: 2.7 Consensus size: 221
78057062 ACATATCTAG
** * * **
78057072 TTCAACATAAAAAATTCAGTTTTTTGGACTAAAAATGATAGCTGTCATGGGTCAAAGATCTATGG
1 TTCAACATTGAAAATTCAGTCTTTTGGAC-AAAAATGATAGCTTTCATATGTCAAAGATCTATGG
* * * *
78057137 TGAATTTGAGGTGACTGATGATCTAATTGGATTTATGGAG-TTTCTCTTTCCTTAATTATTAATT
65 TGAATTTGA-G-G--TGATGATCTAATTGGATTGATGGAGTTTTC-CTTCCCTTAATGATTAATA
* * * * *
78057201 TATACAGTTCTTCTCTACTTCAGTGTAAAGGGTGTTTTGCTATCTTTCTAGATTGATTAATTAGT
125 TATACAGTTCTTCTCTACTTAAATGTAAAGGGTGTTTTGCCATCTTTCTACATTGAATAATTAGT
* * *
78057266 TATCATGTTTGGTTTCATCATCTGCTCTATGTAA
190 TATCA-GTTTGATTTCAT-ATCTGATCAATGTAA
* *
78057300 TTCAACATTGAAAATTCACTCTTTTGGACTAAAATGATAGCTTTCATATGTCAAAGATCTAT-G-
1 TTCAACATTGAAAATTCAGTCTTTTGGACAAAAATGATAGCTTTCATATGTCAAAGATCTATGGT
* * * *
78057363 G----T--GGTGATGATCTAATTGGATTGATGGTGTTTTTCTTGCCTGT-ATGATTAATATGTAC
66 GAATTTGAGGTGATGATCTAATTGGATTGATGGAGTTTTCCTTCCCT-TAATGATTAATATATAC
*
78057421 AGTTCTTCTCTACTTAAATGTAGAGGGTGTTTTGCCATCTCTTC-ACATTGAATAATTAGTT-T-
130 AGTTCTTCTCTACTTAAATGTAAAGGGTGTTTTGCCATCT-TTCTACATTGAATAATTAGTTATC
78057483 A-TTT-ATTT-AT-T-T-ATCAAAT-TACA
194 AGTTTGATTTCATATCTGATC-AATGTA-A
* * *** * *
78057506 TTGAATATTAGTTGATTCAGTCTTGTTGGACCAAAATGATAGATTTCATATGTCAAAGATCTATG
1 TTCAACATT-GAAAATTCAGTCTT-TTGGACAAAAATGATAGCTTTCATATGTCAAAGATCTATG
* *
78057571 GTGAATTTGAGGTGATGATCCAATTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATA
64 GTGAATTTGAGGTGATGATCTAATTGGATTGATGGAGTTTTCCTTCCCTTAATGATTAATATATA
*
78057636 TAGTTCTTCTCTACTT
129 CAGTTCTTCTCTACTT
78057652 GAGAGTTACG
Statistics
Matches: 298, Mismatches: 38, Indels: 44
0.78 0.10 0.12
Matches are distributed among these distances:
205 4 0.01
206 11 0.04
207 11 0.04
208 37 0.12
209 3 0.01
210 4 0.01
211 3 0.01
213 1 0.00
214 2 0.01
215 93 0.31
216 70 0.23
217 1 0.00
218 1 0.00
221 1 0.00
225 1 0.00
226 1 0.00
227 29 0.10
228 25 0.08
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (221 bp):
TTCAACATTGAAAATTCAGTCTTTTGGACAAAAATGATAGCTTTCATATGTCAAAGATCTATGGT
GAATTTGAGGTGATGATCTAATTGGATTGATGGAGTTTTCCTTCCCTTAATGATTAATATATACA
GTTCTTCTCTACTTAAATGTAAAGGGTGTTTTGCCATCTTTCTACATTGAATAATTAGTTATCAG
TTTGATTTCATATCTGATCAATGTAA
Found at i:78057667 original size:216 final size:221
Alignment explanation
Indices: 78057072--78057687 Score: 576
Period size: 216 Copynumber: 2.8 Consensus size: 221
78057062 ACATATCTAG
** * * **
78057072 TTCAACATAAAAAATTCAGTTTTTTGGACTAAAAATGATAGCTGTCATGGGTCAAAGATCTATGG
1 TTCAACATTGAAAATTCAGTCTTTTGGAC-AAAAATGATAGCTTTCATATGTCAAAGATCTATGG
* * * *
78057137 TGAATTTGAGGTGACTGATGATCTAATTGGATTTATGGAG-TTTCTCTTTCCTTAATTATTAATT
65 TGAATTTGA-G-G--TGATGATCTAATTGGATTGATGGAGTTTTC-CTTCCCTTAATGATTAATA
* * * * *
78057201 TATACAGTTCTTCTCTACTTCAGTGTAAAGGGTGTTTTGCTATCT-TTCTAGATTGATTAATTAG
125 TATACAGTTCTTCTCTACTT-AGAGTTAAGGGTGTTTTGCCATCTCTTCTACATTGAATAATTAG
* * *
78057265 TTATCATGTTTGGTTTCATCATCTGCTCTATGTAA
189 TTATCA-GTTTGATTTCAT-ATCTGATCAATGTAA
* *
78057300 TTCAACATTGAAAATTCACTCTTTTGGACTAAAATGATAGCTTTCATATGTCAAAGATCTAT-G-
1 TTCAACATTGAAAATTCAGTCTTTTGGACAAAAATGATAGCTTTCATATGTCAAAGATCTATGGT
* * * *
78057363 G----T--GGTGATGATCTAATTGGATTGATGGTGTTTTTCTTGCCTGT-ATGATTAATATGTAC
66 GAATTTGAGGTGATGATCTAATTGGATTGATGGAGTTTTCCTTCCCT-TAATGATTAATATATAC
*
78057421 AGTTCTTCTCTACTTA-AATGTAGAGGGTGTTTTGCCATCTCTTC-ACATTGAATAATTAGTT-T
130 AGTTCTTCTCTACTTAGAGT-TA-AGGGTGTTTTGCCATCTCTTCTACATTGAATAATTAGTTAT
78057483 -A-TTT-ATTT-AT-T-T-ATCAAAT-TACA
193 CAGTTTGATTTCATATCTGATC-AATGTA-A
* * *** * *
78057506 TTGAATATTAGTTGATTCAGTCTTGTTGGACCAAAATGATAGATTTCATATGTCAAAGATCTATG
1 TTCAACATT-GAAAATTCAGTCTT-TTGGACAAAAATGATAGCTTTCATATGTCAAAGATCTATG
* *
78057571 GTGAATTTGAGGTGATGATCCAATTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATA
64 GTGAATTTGAGGTGATGATCTAATTGGATTGATGGAGTTTTCCTTCCCTTAATGATTAATATATA
* * * *
78057636 TAGTTCTTCTCTACTTGAGAGTTACGGGTGTTTTTCCATCTCTT-TAGATTGA
129 CAGTTCTTCTCTACTT-AGAGTTAAGGGTGTTTTGCCATCTCTTCTACATTGA
78057688 TTAAGATATG
Statistics
Matches: 325, Mismatches: 42, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
205 4 0.01
206 11 0.03
207 11 0.03
208 37 0.11
209 3 0.01
210 4 0.01
211 3 0.01
213 2 0.01
214 4 0.01
215 88 0.27
216 94 0.29
217 4 0.01
218 3 0.01
221 1 0.00
225 1 0.00
226 1 0.00
227 29 0.09
228 25 0.08
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (221 bp):
TTCAACATTGAAAATTCAGTCTTTTGGACAAAAATGATAGCTTTCATATGTCAAAGATCTATGGT
GAATTTGAGGTGATGATCTAATTGGATTGATGGAGTTTTCCTTCCCTTAATGATTAATATATACA
GTTCTTCTCTACTTAGAGTTAAGGGTGTTTTGCCATCTCTTCTACATTGAATAATTAGTTATCAG
TTTGATTTCATATCTGATCAATGTAA
Found at i:78064636 original size:6 final size:6
Alignment explanation
Indices: 78064625--78064658 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
78064615 TAAGACAGAA
78064625 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG -GAGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGG
78064659 AAGTCAACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:78071987 original size:43 final size:43
Alignment explanation
Indices: 78071903--78071987 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
78071893 AAATTGTACA
*
78071903 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAATATCG
*
78071946 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACATATATC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACAAATATC
78071988 AGAATCACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAATATCG
Found at i:78074625 original size:4 final size:4
Alignment explanation
Indices: 78074616--78074640 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
78074606 AGCAAACGTG
78074616 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
78074641 TAGAAAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:78076606 original size:31 final size:31
Alignment explanation
Indices: 78076571--78076634 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
78076561 CTTAATAGCC
**
78076571 CAGTGACTAAAATAAAAGTTTTTGAATAGTT
1 CAGTGACTAAAATAAAAACTTTTGAATAGTT
* *
78076602 CAGTGATTTAAATAAAAACTTTTGAATAGTT
1 CAGTGACTAAAATAAAAACTTTTGAATAGTT
78076633 CA
1 CA
78076635 ATGATCATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (31 bp):
CAGTGACTAAAATAAAAACTTTTGAATAGTT
Found at i:78077666 original size:25 final size:25
Alignment explanation
Indices: 78077638--78077685 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
78077628 AAGAACATTT
78077638 TAATTAATAATAAAGTTAAATATAA
1 TAATTAATAATAAAGTTAAATATAA
*
78077663 TAATTAATAATAAATTTAAATAT
1 TAATTAATAATAAAGTTAAATAT
78077686 GTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TAATTAATAATAAAGTTAAATATAA
Found at i:78077696 original size:25 final size:25
Alignment explanation
Indices: 78077643--78077697 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
78077633 CATTTTAATT
**
78077643 AATAATAAAGTTAAATATAATAATT
1 AATAATAAAGTTAAATATAATAAAA
* **
78077668 AATAATAAATTTAAATATGTTAAAA
1 AATAATAAAGTTAAATATAATAAAA
78077693 AATAA
1 AATAA
78077698 GAAAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AATAATAAAGTTAAATATAATAAAA
Found at i:78078178 original size:13 final size:13
Alignment explanation
Indices: 78078160--78078204 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
78078150 TAATAATTTT
78078160 TAATTTTTAAAAA
1 TAATTTTTAAAAA
*
78078173 TAATTTTT--ATA
1 TAATTTTTAAAAA
78078184 T-ATTTTTAAAAA
1 TAATTTTTAAAAA
78078196 TAATTTTTA
1 TAATTTTTA
78078205 TATATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTTAAAAA
Found at i:78078188 original size:23 final size:23
Alignment explanation
Indices: 78078151--78078219 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
78078141 TTATATATTT
78078151 AATAA-TTTT-TA-ATTTTTAAA
1 AATAATTTTTATATATTTTTAAA
78078171 AATAATTTTTATATATTTTTAAA
1 AATAATTTTTATATATTTTTAAA
78078194 AATAATTTTTATATATTTTTAAA
1 AATAATTTTTATATATTTTTAAA
78078217 AAT
1 AAT
78078220 TAAAAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
20 5 0.11
21 4 0.09
22 2 0.04
23 35 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATAATTTTTATATATTTTTAAA
Found at i:78104170 original size:125 final size:125
Alignment explanation
Indices: 78103948--78104201 Score: 508
Period size: 125 Copynumber: 2.0 Consensus size: 125
78103938 ATTTGAGAAA
78103948 TTTGAATATAAATCATTGAAAAACAATCAAATAATTCTTATGATATCTTTAGAAGATAAAACATT
1 TTTGAATATAAATCATTGAAAAACAATCAAATAATTCTTATGATATCTTTAGAAGATAAAACATT
78104013 ACATGTTCACCATCAAAGGTTTGTGATAAGTTAGAAATTGTTAGGTATATAAGCTTCGAT
66 ACATGTTCACCATCAAAGGTTTGTGATAAGTTAGAAATTGTTAGGTATATAAGCTTCGAT
78104073 TTTGAATATAAATCATTGAAAAACAATCAAATAATTCTTATGATATCTTTAGAAGATAAAACATT
1 TTTGAATATAAATCATTGAAAAACAATCAAATAATTCTTATGATATCTTTAGAAGATAAAACATT
78104138 ACATGTTCACCATCAAAGGTTTGTGATAAGTTAGAAATTGTTAGGTATATAAGCTTCGAT
66 ACATGTTCACCATCAAAGGTTTGTGATAAGTTAGAAATTGTTAGGTATATAAGCTTCGAT
78104198 TTTG
1 TTTG
78104202 TTGGAATATA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 129 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (125 bp):
TTTGAATATAAATCATTGAAAAACAATCAAATAATTCTTATGATATCTTTAGAAGATAAAACATT
ACATGTTCACCATCAAAGGTTTGTGATAAGTTAGAAATTGTTAGGTATATAAGCTTCGAT
Found at i:78105335 original size:13 final size:13
Alignment explanation
Indices: 78105317--78105341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78105307 TGTCTCGCAG
78105317 TGATTCCAGGCCA
1 TGATTCCAGGCCA
78105330 TGATTCCAGGCC
1 TGATTCCAGGCC
78105342 TCGAATCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
TGATTCCAGGCCA
Found at i:78106538 original size:11 final size:11
Alignment explanation
Indices: 78106519--78106572 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
78106509 TTTTATGTAT
*
78106519 TATACATTTTA
1 TATATATTTTA
78106530 TATATATTTT-
1 TATATATTTTA
78106540 TAT-TATTTTA
1 TATATATTTTA
*
78106550 TAT-TATTATA
1 TATATATTTTA
*
78106560 CATATATTATTA
1 TATATATT-TTA
78106572 T
1 T
78106573 CCTTAACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 6 0.17
10 14 0.40
11 13 0.37
12 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATATTTTA
Found at i:78106541 original size:28 final size:28
Alignment explanation
Indices: 78106496--78106572 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
78106486 ATAATATTAC
78106496 TTTTCATATAT-TATTTTATGTATTATACA
1 TTTT-ATATATATATTTTAT-TATTATACA
* *
78106525 TTTTATATATAT-TTTTATTATTTTATA
1 TTTTATATATATATTTTATTATTATACA
*
78106552 TTATTATACATATATTATTAT
1 TT-TTATATATATATT-TTAT
78106573 CCTTAACTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 9 0.22
28 21 0.51
29 7 0.17
30 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTATATATATATTTTATTATTATACA
Found at i:78110517 original size:23 final size:23
Alignment explanation
Indices: 78110486--78110531 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
78110476 AAAAATTCTA
*
78110486 TTTTCTTGTTGTT-TTACTATTTT
1 TTTTCTTGTT-TTCTCACTATTTT
*
78110509 TTTTGTTGTTTTCTCACTATTTT
1 TTTTCTTGTTTTCTCACTATTTT
78110532 GCTACTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTTCTTGTTTTCTCACTATTTT
Found at i:78110596 original size:18 final size:19
Alignment explanation
Indices: 78110563--78110604 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
78110553 TGCACTATTA
*
78110563 TATTGTTACTATTTTGTTGT
1 TATTGTTAC-ATTTTGTTAT
78110583 TATTGTTA-ATTTTGTTAT
1 TATTGTTACATTTTGTTAT
78110601 TATT
1 TATT
78110605 TTAGAGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (19 bp):
TATTGTTACATTTTGTTAT
Found at i:78111260 original size:12 final size:12
Alignment explanation
Indices: 78111243--78111267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78111233 TGTTTACAAA
78111243 ATTTATCATTTT
1 ATTTATCATTTT
78111255 ATTTATCATTTT
1 ATTTATCATTTT
78111267 A
1 A
78111268 GTTCTAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTATCATTTT
Found at i:78111784 original size:24 final size:22
Alignment explanation
Indices: 78111734--78111810 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 22
78111724 ACCATAATTC
*
78111734 TAAAAAA--AATAAAAAATTTT
1 TAAAAAATTAATAAAATATTTT
*
78111754 CTTAAAAATTACAGTAAAATATTTT
1 -TAAAAAATTA-A-TAAAATATTTT
78111779 TAAAAATTATTAA-AAATATATTTT
1 TAAAAA--ATTAATAAA-ATATTTT
78111803 TAAAAAAT
1 TAAAAAAT
78111811 AAATCTGCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
21 6 0.13
22 2 0.04
23 4 0.09
24 19 0.41
25 11 0.24
26 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (22 bp):
TAAAAAATTAATAAAATATTTT
Found at i:78112661 original size:13 final size:13
Alignment explanation
Indices: 78112643--78112667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78112633 ACATCATCAT
78112643 TTAATAGAAAAAA
1 TTAATAGAAAAAA
78112656 TTAATAGAAAAA
1 TTAATAGAAAAA
78112668 CTAATTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
TTAATAGAAAAAA
Found at i:78112746 original size:14 final size:14
Alignment explanation
Indices: 78112727--78112753 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78112717 AATAGAAAGT
78112727 TGAAATGCAATTCC
1 TGAAATGCAATTCC
78112741 TGAAATGCAATTC
1 TGAAATGCAATTC
78112754 TAAGAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (14 bp):
TGAAATGCAATTCC
Found at i:78119618 original size:12 final size:12
Alignment explanation
Indices: 78119603--78119714 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
78119593 CAATAGTGAA
*
78119603 AATAATAAGTAT
1 AATAATAAATAT
78119615 AATAATAAATAT
1 AATAATAAATAT
*
78119627 AATGAT--ATAT
1 AATAATAAATAT
*
78119637 AAAAATAATACTAT
1 AATAATAA-A-TAT
78119651 ATATAA-AAAGTAT
1 A-ATAATAAA-TAT
* *
78119664 -ATATATACATGT
1 AATA-ATAAATAT
78119676 -ATAATAAGATAT
1 AATAATAA-ATAT
78119688 ACACTAAT--AT-T
1 A-A-TAATAAATAT
78119699 AATAATAAATAT
1 AATAATAAATAT
78119711 AATA
1 AATA
78119715 GGGGTAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 28
0.67 0.09 0.25
Matches are distributed among these distances:
9 4 0.05
10 9 0.12
11 10 0.13
12 32 0.42
13 7 0.09
14 7 0.09
15 7 0.09
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:78119642 original size:18 final size:17
Alignment explanation
Indices: 78119601--78119670 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
78119591 AACAATAGTG
78119601 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
78119619 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
78119638 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
78119656 AAAAGTAT-ATATATA
1 AAAA-TATAATATATA
78119671 CATGTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.16
18 25 0.56
19 13 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:78122816 original size:20 final size:20
Alignment explanation
Indices: 78122788--78122832 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
78122778 CTGTTTAATT
78122788 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* * *
78122807 ATGGGCCCAACTTTGTTAAT
1 ATGGGCCCAACTGTATTAAA
78122827 ATGGGC
1 ATGGGC
78122833 AAGACCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:78126803 original size:26 final size:26
Alignment explanation
Indices: 78126772--78126879 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
78126762 TGAAATGCCC
*
78126772 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
78126798 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
78126824 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
78126850 ATAATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
78126876 ATCA
1 ATCA
78126880 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:78127284 original size:9 final size:9
Alignment explanation
Indices: 78127270--78127295 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
78127260 CATATACTAA
78127270 TAATAATAG
1 TAATAATAG
78127279 TAATAATAG
1 TAATAATAG
78127288 TAATAATA
1 TAATAATA
78127296 AAAGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:78128284 original size:3 final size:3
Alignment explanation
Indices: 78128276--78128532 Score: 91
Period size: 3 Copynumber: 88.3 Consensus size: 3
78128266 AATAGTGTAT
* **
78128276 ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA GCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
78128324 ATA ATA AGA TATA A-A A-A AGA A-A CA-A AT- ATA AT- ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
78128365 ATG TTA AAA ATA GAGTA ATAA ATA TTA ATA GAGA A-A GTA ACA A-A GATA
1 ATA ATA ATA ATA -A-TA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
* * * * * * *
78128413 ATA GTA AT- ATG ATA GTA A-A A-A AT- GTA ATA TTA AAA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
78128457 CTA A-A TATA CATA ATA ATA ATA AT- ATA A-A ATA ATA ATG ATA ATA
1 ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
78128501 GTA ATA AT- ATA A-A A-A ATA ACA ATA TATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA A
78128533 AAACTTAATC
Statistics
Matches: 191, Mismatches: 40, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
2 30 0.16
3 142 0.74
4 17 0.09
5 2 0.01
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:78128474 original size:19 final size:16
Alignment explanation
Indices: 78128448--78128532 Score: 63
Period size: 16 Copynumber: 5.4 Consensus size: 16
78128438 AATATTAAAA
*
78128448 AAAATAATACTAAATAT
1 AAAATAATAAT-AATAT
78128465 ACATAATAATAATAATAT
1 A-A-AATAATAATAATAT
*
78128483 AAAATAATAAT--GAT
1 AAAATAATAATAATAT
*
78128497 --AATAGTAATAATAT
1 AAAATAATAATAATAT
*
78128511 AAAA-AATAACAATAT
1 AAAATAATAATAATAT
*
78128526 ATAATAA
1 AAAATAA
78128533 AAACTTAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
12 8 0.15
14 4 0.07
15 12 0.22
16 13 0.24
17 2 0.04
18 7 0.13
19 8 0.15
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATAATAATAATAT
Found at i:78128487 original size:25 final size:24
Alignment explanation
Indices: 78128450--78128532 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 24
78128440 TATTAAAAAA
78128450 AATAATACT-AAATATACATAATAAT
1 AATAATA-TAAAATATA-ATAATAAT
*
78128475 AATAATATAAAATAATAATGATAATAGT
1 AATAATATAAAAT-AT-A--ATAATAAT
* *
78128503 AATAATATAAAAAATAACAATATAT
1 AATAATATAAAATATAATAATA-AT
78128528 AATAA
1 AATAA
78128533 AAACTTAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.12
25 17 0.35
26 3 0.06
27 3 0.06
28 19 0.40
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATATAAAATATAATAATAAT
Found at i:78130019 original size:111 final size:111
Alignment explanation
Indices: 78129807--78130019 Score: 256
Period size: 111 Copynumber: 1.9 Consensus size: 111
78129797 GGCCTATAAC
* *
78129807 ATATATATAATAAAGTATTTAAAAAATGTATACATAGTATATATACTAGGAATAATAATAATAGT
1 ATATACATAATAAAGTATTTAAAAAATGTATACATAGTATATATACTAGAAATAATAATAATAGT
*
78129872 AAAAACAACCATTAACAATGTTACATAAATAGATATATAGTAATAGT
66 AAAAACAACCATTAACAATATTACATAAATA-ATATATAGTAATAGT
* * *
78129919 ATATACATAATATAGTA-TTAAAATAT-T-TACATAGTATATACATATTAGAAATAATAATAAT-
1 ATATACATAATAAAGTATTTAAAAAATGTATACATAGTATAT--ATACTAGAAATAATAATAATA
* * *
78129980 GTTAAAAAAATAACTATTAATAATATTACATAAAT-ATATA
64 G-T--AAAAACAACCATTAACAATATTACATAAATAATATA
78130020 CATATATATA
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
109 12 0.14
110 2 0.02
111 32 0.37
112 15 0.17
113 26 0.30
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.34
Consensus pattern (111 bp):
ATATACATAATAAAGTATTTAAAAAATGTATACATAGTATATATACTAGAAATAATAATAATAGT
AAAAACAACCATTAACAATATTACATAAATAATATATAGTAATAGT
Found at i:78130135 original size:24 final size:24
Alignment explanation
Indices: 78130089--78130135 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
78130079 ATAATGATAA
**
78130089 TATAAAAATATATACATGAAATAG
1 TATAAAAATATATACAACAAATAG
* *
78130113 TATAAAAATATATATAACTAATA
1 TATAAAAATATATACAACAAATA
78130136 ATACTAATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (24 bp):
TATAAAAATATATACAACAAATAG
Found at i:78131792 original size:15 final size:15
Alignment explanation
Indices: 78131772--78131827 Score: 89
Period size: 14 Copynumber: 3.9 Consensus size: 15
78131762 CGATGAATTT
78131772 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
78131787 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
78131801 ATTGAATTTATATTG
1 ATTGAATTTATATTG
78131816 ATTGAA-TTATAT
1 ATTGAATTTATAT
78131828 AATATACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:78131804 original size:29 final size:27
Alignment explanation
Indices: 78131768--78131825 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
78131758 TATGCGATGA
78131768 ATTTATTGAATTTATATTGATTGAAATT
1 ATTTATTGAATTTATATTGATTG-AATT
78131796 ATTTGATTGAATTTATATTGATTGAATT
1 ATTT-ATTGAATTTATATTGATTGAATT
78131824 AT
1 AT
78131826 ATAATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
ATTTATTGAATTTATATTGATTGAATT
Found at i:78132229 original size:23 final size:23
Alignment explanation
Indices: 78132199--78132285 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
78132189 GCTTTATCGA
* * *
78132199 TCAGGCACTTTATTTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
78132222 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
78132243 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
78132265 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
78132286 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 35 0.65
22 2 0.04
23 17 0.31
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:78134272 original size:20 final size:21
Alignment explanation
Indices: 78134226--78134297 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
78134216 CCTGATCAGT
** * *
78134226 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
78134247 AAACGACACACGAGG-GCCTG
1 ATACGACACACGAGGTGCCTG
78134267 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
78134288 AAATACGACA
1 --ATACGACA
78134298 AATAAAGTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 18 0.43
21 16 0.38
23 8 0.19
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.12
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:78134707 original size:15 final size:15
Alignment explanation
Indices: 78134682--78134738 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
78134672 TCATGTATAT
78134682 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
78134698 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
78134713 -ATAATTTCAATCAA
1 TATAAATTCAATCAA
78134727 TATAAATTCAAT
1 TATAAATTCAAT
78134739 AAATTCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 13 0.34
15 21 0.55
16 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:78134723 original size:29 final size:27
Alignment explanation
Indices: 78134685--78134742 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
78134675 TGTATATTAT
78134685 ATAATTCAATCAATATAAATTCAATCAA
1 ATAATTCAATCAATATAAATTCAAT-AA
78134713 ATAATTTCAATCAATATAAATTCAATAA
1 ATAA-TTCAATCAATATAAATTCAATAA
78134741 AT
1 AT
78134743 TCATCGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATTCAATCAATATAAATTCAATAA
Found at i:78136522 original size:23 final size:22
Alignment explanation
Indices: 78136492--78136539 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
78136482 TATATATATG
78136492 TATTAAAAATAAATACATAATAA
1 TATTAAAAATAAATACATAA-AA
* **
78136515 TATTAAAAGTATGTACATAAAA
1 TATTAAAAATAAATACATAAAA
78136537 TAT
1 TAT
78136540 ATACATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
TATTAAAAATAAATACATAAAA
Found at i:78136622 original size:36 final size:38
Alignment explanation
Indices: 78136584--78136656 Score: 116
Period size: 36 Copynumber: 2.0 Consensus size: 38
78136574 AATACATGTA
78136584 AAAAT-ATATACATAATAT-ATA-AAATATATATATAT
1 AAAATAATATACATAATATAATATAAATATATATATAT
*
78136619 AAAATAATATACATAATATAATATTAATATATATATAT
1 AAAATAATATACATAATATAATATAAATATATATATAT
78136657 GCGTAATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 5 0.15
36 13 0.38
37 3 0.09
38 13 0.38
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (38 bp):
AAAATAATATACATAATATAATATAAATATATATATAT
Found at i:78136634 original size:14 final size:14
Alignment explanation
Indices: 78136602--78136642 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
78136592 TACATAATAT
*
78136602 ATAAAATATATATAT
1 ATAAAATA-ATATAC
78136617 ATAAAATAATATAC
1 ATAAAATAATATAC
*
78136631 ATAATATAATAT
1 ATAAAATAATAT
78136643 TAATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAATAATATAC
Found at i:78136648 original size:20 final size:19
Alignment explanation
Indices: 78136589--78136649 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 19
78136579 ATGTAAAAAT
*
78136589 ATATACATAATAT-ATAAA
1 ATATACATAATATAATATA
* *
78136607 ATATATAT-ATATAAAATA
1 ATATACATAATATAATATA
78136625 ATATACATAATATAATATTA
1 ATATACATAATATAATA-TA
78136645 ATATA
1 ATATA
78136650 TATATATGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.11
18 17 0.49
19 7 0.20
20 7 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATACATAATATAATATA
Found at i:78136656 original size:14 final size:12
Alignment explanation
Indices: 78136587--78136653 Score: 68
Period size: 13 Copynumber: 5.6 Consensus size: 12
78136577 ACATGTAAAA
78136587 ATATATACATAAT
1 ATATATA-ATAAT
*
78136600 ATATAAAATATAT
1 ATATATAATA-AT
78136613 ATATATAA-AAT
1 ATATATAATAAT
78136624 A-ATATACATAAT
1 ATATATA-ATAAT
*
78136636 ATA-ATATTAAT
1 ATATATAATAAT
78136647 ATATATA
1 ATATATA
78136654 TATGCGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 5 0.11
11 11 0.24
12 14 0.30
13 16 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:78136816 original size:16 final size:17
Alignment explanation
Indices: 78136797--78136834 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
78136787 AATAATGCTA
78136797 ATAATAAAT-ATAAAAT
1 ATAATAAATAATAAAAT
*
78136813 ATAAT-AGTAATAAAAT
1 ATAATAAATAATAAAAT
78136829 ATAATA
1 ATAATA
78136835 GTATACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAATAAATAATAAAAT
Found at i:78136835 original size:16 final size:16
Alignment explanation
Indices: 78136806--78136837 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
78136796 AATAATAAAT
78136806 ATAAAATATAATAGTA
1 ATAAAATATAATAGTA
78136822 ATAAAATATAATAGTA
1 ATAAAATATAATAGTA
78136838 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAAAATATAATAGTA
Found at i:78139608 original size:6 final size:6
Alignment explanation
Indices: 78139592--78139639 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
78139582 TAGTTTTCTC
* * *
78139592 AAAATA AAAATG GAAATG GAAATG AAAATG AAAATG AAAATG AGAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAAT
78139640 AATTCATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:78146667 original size:30 final size:31
Alignment explanation
Indices: 78146600--78146677 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 31
78146590 TTGGGATGAA
78146600 ATTAAATTATATATTTTTATAATTTTTAAATG
1 ATTAAATTATA-ATTTTTATAATTTTTAAATG
*
78146632 ATTAAATTA-AATTTTTATTATTTTTAGAA-G
1 ATTAAATTATAATTTTTATAATTTTTA-AATG
* *
78146662 GTTAAAATATAATTTT
1 ATTAAATTATAATTTT
78146678 ACTATTACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 23 0.56
31 9 0.22
32 9 0.22
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (31 bp):
ATTAAATTATAATTTTTATAATTTTTAAATG
Found at i:78147488 original size:13 final size:13
Alignment explanation
Indices: 78147470--78147495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78147460 TGAACCAAGA
78147470 TTTTTATTTTTAT
1 TTTTTATTTTTAT
78147483 TTTTTATTTTTAT
1 TTTTTATTTTTAT
78147496 GAATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:78160700 original size:30 final size:30
Alignment explanation
Indices: 78160666--78160725 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
78160656 TATTTTATTA
78160666 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
78160696 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
78160726 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:78165377 original size:627 final size:627
Alignment explanation
Indices: 78164184--78166065 Score: 3710
Period size: 627 Copynumber: 3.0 Consensus size: 627
78164174 AATTTTTGGG
78164184 TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
1 TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
78164249 TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
66 TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
78164314 TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
131 TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
78164379 AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
196 AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
78164444 AATTGAGAATAGAGTTGCTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
261 AATTGAGAATAGAGTTGCTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
78164509 TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
326 TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
*
78164574 ATAGATGCGAATCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAAAAAAGTG
391 ATAGATGCGAATCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAAAGTG
*
78164639 GATGTTTGCTATGCAAGAAGAGATGGAATCACTCCACAAAAACAGAACATGGGACATTGTGAAAC
456 GATGTTTGCTATGCAAGAAGAGATGGAATCACTCCACAAAAACAGAACATGAGACATTGTGAAAC
*
78164704 TTCCTAAATGTAAAAAGGTTGTTCATTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
521 TTCCTAAATGTAAAAAGGTTGTTCGTTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
78164769 GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
586 GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
78164811 TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
1 TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
78164876 TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
66 TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
78164941 TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
131 TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
78165006 AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
196 AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
*
78165071 AATTGAGAATAGAGTTGTTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
261 AATTGAGAATAGAGTTGCTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
78165136 TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
326 TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
*
78165201 ATAGATGCGAATCAAGAGCCATCTAATTATTTTGAGGCGGTTAGCTGTGAAGACTCAGAAAAGTG
391 ATAGATGCGAATCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAAAGTG
*
78165266 GATGTTTGCTATGCAAGAAGAGATGGAATCACTCGACAAAAACAGAACATGAGACATTGTGAAAC
456 GATGTTTGCTATGCAAGAAGAGATGGAATCACTCCACAAAAACAGAACATGAGACATTGTGAAAC
78165331 TTCCTAAATGTAAAAAGGTTGTTCGTTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
521 TTCCTAAATGTAAAAAGGTTGTTCGTTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
78165396 GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
586 GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
78165438 TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
1 TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
78165503 TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
66 TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
78165568 TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
131 TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
78165633 AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
196 AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
78165698 AATTGAGAATAGAGTTGCTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
261 AATTGAGAATAGAGTTGCTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
78165763 TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
326 TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
78165828 ATAGATGCGAATCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAAAGTG
391 ATAGATGCGAATCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAAAGTG
78165893 GATGTTTGCTATGCAAGAAGAGATGGAATCACTCCACAAAAACAGAACATGAGACATTGTGAAAC
456 GATGTTTGCTATGCAAGAAGAGATGGAATCACTCCACAAAAACAGAACATGAGACATTGTGAAAC
78165958 TTCCTAAATGTAAAAAGGTTGTTCGTTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
521 TTCCTAAATGTAAAAAGGTTGTTCGTTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
78166023 GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
586 GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
78166065 T
1 T
78166066 ATAGTCAAAT
Statistics
Matches: 1246, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
627 1246 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (627 bp):
TGTCTTGCGTATGCTCATGTTGATAATGGAAAATTGGAACCGAGATCCATTAAATGCGTTTTTCT
TGGTTATAAAGCTGGTGTAAAAGGGTATAAGTTATGGTGTCCTGAAAATAGAAAAGTTGTGATTA
TCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAACTTATCTCTTAAAGACTCTTCCAAT
AAAGAAAACCAAAAGCAGATGGAGTATCAGATTAATACAGAGTCAACTCCTCAAGCCATAACAAA
AATTGAGAATAGAGTTGCTTCTTCATCATAATACCCTATCGCCAAAAACAGAACTAGAAGAGAAA
TTAAACCTCCAAAGAAGTATGCCGAAGCTGATTTAGTTGCTTATTCTTTAAATGTGGCTGAAGCT
ATAGATGCGAATCAAGAGCCATCTAATTATTCTGAGGCGGTTAGCTGTGAAGACTCAGAAAAGTG
GATGTTTGCTATGCAAGAAGAGATGGAATCACTCCACAAAAACAGAACATGAGACATTGTGAAAC
TTCCTAAATGTAAAAAGGTTGTTCGTTGTAAATGGGTGTTTAAAAAGAAAGAAGGGACTCCAGGA
GTTGAAGAACCCAGATATAAAGCATGGCTTGTTGCAAAAGGT
Found at i:78170336 original size:1 final size:1
Alignment explanation
Indices: 78170330--78170368 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
78170320 CTAGATATAC
* * *
78170330 AAAAAAAAAAAAAAAAAAAAGAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
78170369 GAAACTCGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:78170360 original size:19 final size:19
Alignment explanation
Indices: 78170336--78170372 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78170326 ATACAAAAAA
78170336 AAAAAAAAAAAAAAGAAAG
1 AAAAAAAAAAAAAAGAAAG
*
78170355 AAAAAAGAAAAAAAGAAA
1 AAAAAAAAAAAAAAGAAA
78170373 CTCGTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAGAAAG
Found at i:78171357 original size:63 final size:63
Alignment explanation
Indices: 78171258--78171383 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
78171248 TGTGGTTTAA
78171258 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
1 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
78171321 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
1 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
78171384 TGTAGCAGGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (63 bp):
GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
Found at i:78171376 original size:31 final size:31
Alignment explanation
Indices: 78171278--78171377 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
78171268 TTGCGAGGCC
78171278 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1 AATGGTGCTTGGTTGATGTGGGCACTATAGA
* * * * *
78171309 AATGGTTCTTTGGTCTGATAAGT-TG--CGA-GGCC
1 AATGGTGC-TTGGT-TGAT--GTGGGCACTATAG-A
78171341 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1 AATGGTGCTTGGTTGATGTGGGCACTATAGA
78171372 AATGGT
1 AATGGT
78171378 TCTTTGTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 18
0.64 0.13 0.23
Matches are distributed among these distances:
28 2 0.04
29 1 0.02
30 4 0.08
31 21 0.42
32 15 0.30
33 4 0.08
34 1 0.02
35 2 0.04
ACGTcount: A:0.22, C:0.11, G:0.34, T:0.33
Consensus pattern (31 bp):
AATGGTGCTTGGTTGATGTGGGCACTATAGA
Found at i:78178021 original size:32 final size:33
Alignment explanation
Indices: 78177974--78178052 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
78177964 ATATATTATA
*
78177974 TATATTATGTATATATT-TTTAATGT-TATTAGTTG
1 TATATTATCT-TATATTATTTAATGTATA-TA-TTG
* *
78178008 TATATT-TCTTATATTATTTCATGTATATATTT
1 TATATTATCTTATATTATTTAATGTATATATTG
78178040 TATATTATCTTAT
1 TATATTATCTTAT
78178053 GTACATATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 14 0.36
33 17 0.44
34 8 0.21
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (33 bp):
TATATTATCTTATATTATTTAATGTATATATTG
Found at i:78178054 original size:23 final size:23
Alignment explanation
Indices: 78177963--78178061 Score: 82
Period size: 23 Copynumber: 4.3 Consensus size: 23
78177953 GTATATATTG
*
78177963 TATATATTATA-TATATTATGTA
1 TATATTTTATATTATATTATGTA
78177985 TATATTTT-TAATGT-TATTAGTTGTA
1 TATATTTTAT-AT-TATATTA--TGTA
78178010 TAT-TTCTTATATTAT-TTCATGTA
1 TATATT-TTATATTATATT-ATGTA
*
78178033 TATATTTTATATTATCTTATGTA
1 TATATTTTATATTATATTATGTA
*
78178056 CATATT
1 TATATT
78178062 CTGAAATACT
Statistics
Matches: 64, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
21 1 0.02
22 8 0.12
23 31 0.48
24 10 0.16
25 13 0.20
26 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (23 bp):
TATATTTTATATTATATTATGTA
Found at i:78178204 original size:17 final size:19
Alignment explanation
Indices: 78178182--78178217 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
78178172 TTTACTATAC
78178182 GTGTATATA-TA-TATTTT
1 GTGTATATAGTATTATTTT
78178199 GTGTATATAGTATTATTTT
1 GTGTATATAGTATTATTTT
78178218 CGTATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (19 bp):
GTGTATATAGTATTATTTT
Found at i:78178224 original size:18 final size:17
Alignment explanation
Indices: 78178184--78178234 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
78178174 TACTATACGT
*
78178184 GTATATATATATTTTGT
1 GTATATATATATTTTGC
78178201 GTATATAGTATTATTTT-C
1 GTATATA-TA-TATTTTGC
78178219 GTATATCATTATATTT
1 GTATAT-A-TATATTT
78178235 ATCATTATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 7 0.24
18 13 0.45
19 9 0.31
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (17 bp):
GTATATATATATTTTGC
Found at i:78189910 original size:2 final size:2
Alignment explanation
Indices: 78189903--78189940 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
78189893 TAAACAATAA
78189903 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
78189941 ATGTCCAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.