Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 118 of 126
Found at i:36462204 original size:45 final size:45
Alignment explanation
Indices: 36462110--36462325 Score: 290
Period size: 45 Copynumber: 4.8 Consensus size: 45
36462100 TACACGGTGG
* * ** *
36462110 ATCAGCACATAGC-ACCACCCTTATAATCAATTATATTCGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGATACCCGATGGA
** * **
36462154 ATCAGCACATAGCAACCACCTTTATTTTCAATAATTTCCGATGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGATACCCGATGGA
* *
36462199 GTCAGCACATAGCAACCACCTTTATAATCAATGGTACCCGATGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGATACCCGATGGA
* *
36462244 ATCAGCACATAGCAACCACCTTTCTAATCAATGGTACCCGATGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGATACCCGATGGA
*
36462289 ATCAGCACATATCAACCACCTTTATAATCAATGATAC
1 ATCAGCACATAGCAACCACCTTTATAATCAATGATAC
36462326 TTAGTACACA
Statistics
Matches: 152, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 13 0.09
45 139 0.91
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATGATACCCGATGGA
Found at i:36463637 original size:57 final size:58
Alignment explanation
Indices: 36463575--36463703 Score: 131
Period size: 57 Copynumber: 2.2 Consensus size: 58
36463565 TTCAAAAATA
* * *
36463575 ATATTATCTTAATAAAT-TTAACATTTAATTTAATTTATTACTT-ATCTTGAT-AGTATT
1 ATATTAT-TTAATAAATCTTAACATTAAATTTAATCTAATA-TTCATCTTGATAAGTATT
* * * *
36463632 TTATTAAATTAAT-TATCTTAATATTAAATTTAATCTAATATTCATCTTGATAAGTATT
1 ATATT-ATTTAATAAATCTTAACATTAAATTTAATCTAATATTCATCTTGATAAGTATT
36463690 ATATTAATTTAATA
1 ATATT-ATTTAATA
36463704 TTAAATTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
56 4 0.07
57 36 0.62
58 18 0.31
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (58 bp):
ATATTATTTAATAAATCTTAACATTAAATTTAATCTAATATTCATCTTGATAAGTATT
Found at i:36463716 original size:58 final size:57
Alignment explanation
Indices: 36463601--36463724 Score: 137
Period size: 58 Copynumber: 2.2 Consensus size: 57
36463591 TTTAACATTT
* * * *
36463601 AATTTAATTTATTACTTATCTTGATAGTATTTTATTAAATTAATTATCTTAATATTA
1 AATTTAATCTAATACTTATCTTGATAGTATTATATTAAATTAATTATCTAAATATTA
*
36463658 AATTTAATCTAATA-TTCATCTTGATAAGTATTATATTAATTTAA-TAT-TAAATTAATTA
1 AATTTAATCTAATACTT-ATCTTGAT-AGTATTATATTAAATTAATTATCTAAA-T-ATTA
*
36463716 AGTTTAATC
1 AATTTAATC
36463725 ATAGTTGAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
56 5 0.09
57 24 0.42
58 28 0.49
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (57 bp):
AATTTAATCTAATACTTATCTTGATAGTATTATATTAAATTAATTATCTAAATATTA
Found at i:36465908 original size:38 final size:39
Alignment explanation
Indices: 36465838--36465913 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
36465828 GATACAACTG
*
36465838 ATCATGTCAACTAATTGCAAAAGACCAAACATGTTGGTC
1 ATCATGTCAACTAACTGCAAAAGACCAAACATGTTGGTC
*
36465877 ATCATGTCACCTAACTGC-AAAGACCAAACATGTTGGT
1 ATCATGTCAACTAACTGCAAAAGACCAAACATGTTGGT
36465914 GAACTATGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 19 0.54
39 16 0.46
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (39 bp):
ATCATGTCAACTAACTGCAAAAGACCAAACATGTTGGTC
Found at i:36470133 original size:50 final size:50
Alignment explanation
Indices: 36470070--36470169 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
36470060 TTTTGTTCAC
36470070 GAGTTTACGAGGGTTTTTAGGTTAAGGATGGAATTGTCTTGTTTTGGGTA
1 GAGTTTACGAGGGTTTTTAGGTTAAGGATGGAATTGTCTTGTTTTGGGTA
36470120 GAGTTTACGAGGGTTTTTAGGTTAAGGATGGAATTGTCTTGTTTTGGGTA
1 GAGTTTACGAGGGTTTTTAGGTTAAGGATGGAATTGTCTTGTTTTGGGTA
36470170 ATATTAAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.42
Consensus pattern (50 bp):
GAGTTTACGAGGGTTTTTAGGTTAAGGATGGAATTGTCTTGTTTTGGGTA
Found at i:36478824 original size:50 final size:49
Alignment explanation
Indices: 36478770--36478897 Score: 130
Period size: 50 Copynumber: 2.6 Consensus size: 49
36478760 TATTGAGATT
* * * *
36478770 ATGAGAGGTCTCATGTAAGACCATGTTTGAGACATGACGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGACATGGGCACCG-G
*** * * *
36478820 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGACATGGGCACCGG
** *
36478869 ATGAGAACTCCCATGTAAGACCATATCTG
1 ATGAGAGGTCCCATGTAAGACCATGTCTG
36478898 GGATATGGCA
Statistics
Matches: 62, Mismatches: 16, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
49 23 0.37
50 39 0.63
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGACATGGGCACCGG
Found at i:36478892 original size:49 final size:49
Alignment explanation
Indices: 36478781--36478962 Score: 143
Period size: 49 Copynumber: 3.7 Consensus size: 49
36478771 TGAGAGGTCT
* * * * * **
36478781 CATGTAAGACCATGTTTGAGACATGACGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-TATGAGAACTCC
*** *
36478831 CCCATAAGACCATGTCTGGGACATGGCATGGGCACCGTATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGTATGAGAACTCC
* * * * *
36478880 CATGTAAGACCATATCTGGGATATGGCATTGGTA--GTACAGAAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGTA-TGAGAAC-TCC
* * * *
36478929 CATGTAAGACTATTTCTGGGACATAGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
36478963 TGTATTATCA
Statistics
Matches: 104, Mismatches: 26, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
47 3 0.03
48 5 0.05
49 67 0.64
50 29 0.28
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGTATGAGAACTCC
Found at i:36486934 original size:17 final size:16
Alignment explanation
Indices: 36486912--36486945 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36486902 GGGGATGAAA
36486912 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
36486929 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
36486945 T
1 T
36486946 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:36495912 original size:28 final size:28
Alignment explanation
Indices: 36495880--36495936 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
36495870 GTTACTGAGA
36495880 AAGAATCTATTGAGGACATTGTCAATGC
1 AAGAATCTATTGAGGACATTGTCAATGC
*
36495908 AAGAATCTGTTGAGGACATTGTCAATGC
1 AAGAATCTATTGAGGACATTGTCAATGC
36495936 A
1 A
36495937 TCCGAGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (28 bp):
AAGAATCTATTGAGGACATTGTCAATGC
Found at i:36499785 original size:22 final size:22
Alignment explanation
Indices: 36499725--36499782 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
36499715 AATCTTCAAG
36499725 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
36499744 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
36499766 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
36499783 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:36500029 original size:23 final size:23
Alignment explanation
Indices: 36499988--36500032 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
36499978 TCTTATTTTG
*
36499988 TTGATTTGTTTATAATTTATTTA
1 TTGATTTGTATATAATTTATTTA
**
36500011 TTGATTTGTATATTGTTTATTT
1 TTGATTTGTATATAATTTATTT
36500033 CAAATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (23 bp):
TTGATTTGTATATAATTTATTTA
Found at i:36500390 original size:36 final size:37
Alignment explanation
Indices: 36500310--36500390 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 37
36500300 GTATACATAC
*
36500310 ATATGTTTTATAATATATACATATACGTACACATTTTTT
1 ATAT-TTTTATAATATATACATATACG-ACACATTTTAT
* *
36500349 A-ATTTTTATAA-ATATATATATAC-ACATACTTTTAT
1 ATATTTTTATAATATATACATATACGACACA-TTTTAT
36500384 ATATTTT
1 ATATTTT
36500391 CTATGTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 4 0.11
35 6 0.16
36 16 0.43
37 8 0.22
38 2 0.05
39 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (37 bp):
ATATTTTTATAATATATACATATACGACACATTTTAT
Found at i:36500529 original size:14 final size:14
Alignment explanation
Indices: 36500512--36500561 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
36500502 TATATATATT
36500512 TTTTTATTTTATAA
1 TTTTTATTTTATAA
* *
36500526 TTTTTATCTAATATA
1 TTTTTATTTTATA-A
*
36500541 TTTATATTTTATAA
1 TTTTTATTTTATAA
36500555 TTTTTAT
1 TTTTTAT
36500562 CTATTTTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTATTTTATAA
Found at i:36500539 original size:29 final size:29
Alignment explanation
Indices: 36500507--36500564 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
36500497 GTACATATAT
* *
36500507 ATATTTTTTTATTTTATAATTTTTATCTA
1 ATATATTTATATTTTATAATTTTTATCTA
36500536 ATATATTTATATTTTATAATTTTTATCTA
1 ATATATTTATATTTTATAATTTTTATCTA
36500565 TTTTCTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (29 bp):
ATATATTTATATTTTATAATTTTTATCTA
Found at i:36505109 original size:38 final size:38
Alignment explanation
Indices: 36505058--36505133 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
36505048 TGTAAGCCGG
36505058 TTCAGCAGAAGCTCAAGAGAATGAGGCCCGCCCGATAT
1 TTCAGCAGAAGCTCAAGAGAATGAGGCCCGCCCGATAT
36505096 TTCAGCAGAAGCTCAAGAGAATGAGGCCCGCCCGATAT
1 TTCAGCAGAAGCTCAAGAGAATGAGGCCCGCCCGATAT
36505134 CTTACTAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (38 bp):
TTCAGCAGAAGCTCAAGAGAATGAGGCCCGCCCGATAT
Found at i:36508758 original size:40 final size:39
Alignment explanation
Indices: 36508660--36508922 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
36508650 TCCTCGTTCA
* * * *
36508660 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
36508699 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
36508738 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
36508778 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
36508818 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
36508858 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
36508899 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
36508923 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:36508882 original size:120 final size:119
Alignment explanation
Indices: 36508660--36508922 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
36508650 TCCTCGTTCA
* * *
36508660 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
36508725 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
36508778 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
36508843 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
36508899 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
36508923 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:36508931 original size:41 final size:41
Alignment explanation
Indices: 36508854--36508931 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36508844 TTTGTATCTC
* * *
36508854 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36508895 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36508932 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36519394 original size:44 final size:44
Alignment explanation
Indices: 36519344--36519583 Score: 288
Period size: 44 Copynumber: 5.7 Consensus size: 44
36519334 AGTAGTCTTG
**
36519344 TCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* * * *
36519388 CCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTGAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
*
36519432 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTTCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTA
*
36519476 TCTCACTGGTCAGCAGTGG-A-A---T--AG---GTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
36519510 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
* *
36519554 TCTTCCTGAG-CAGCAGTGGAGTAGGTTGAA
1 TCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
36519584 AATTACAGAT
Statistics
Matches: 167, Mismatches: 16, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
34 24 0.14
35 3 0.02
36 1 0.01
37 2 0.01
39 2 0.01
41 2 0.01
42 1 0.01
43 2 0.01
44 129 0.77
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTA
Found at i:36519556 original size:78 final size:78
Alignment explanation
Indices: 36519422--36519579 Score: 241
Period size: 78 Copynumber: 2.0 Consensus size: 78
36519412 GTTGAAGATT
* *
36519422 GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATC-TCACTG-G
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTTC-CTGAG
36519485 TCAGCAGTGGAATAG
65 -CAGCAGTGGAATAG
36519500 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTTCCTGAG
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTTCCTGAG
*
36519564 CAGCAGTGGAGTAG
65 CAGCAGTGGAATAG
36519578 GT
1 GT
36519580 TGAAAATTAC
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
78 69 0.93
79 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (78 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTTCCTGAGC
AGCAGTGGAATAG
Found at i:36519600 original size:44 final size:44
Alignment explanation
Indices: 36519502--36519618 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 44
36519492 TGGAATAGGT
* * * **
36519502 GAATCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGT
1 GAATCCTATCTCCCTAAG-CAGCAGTGGAGTAGGTTGAAAATTCA
* *
36519546 GAATCCTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACA
1 GAATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATT-CA
* *
36519591 G-ATCTTATCTCCCTAAGCAGTAGTGGAG
1 GAATCCTATCTCCCTAAGCAGCAGTGGAG
36519619 CAGATCGAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
44 59 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
GAATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTCA
Found at i:36519600 original size:122 final size:122
Alignment explanation
Indices: 36519378--36519601 Score: 328
Period size: 122 Copynumber: 1.8 Consensus size: 122
36519368 GTTGAAGATT
* *
36519378 GTGAATCCTACCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTACCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTC
* *
36519443 AGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCACTGGTCAGCAGTGGAATAG
66 AGCAGTGGAATAGGTTGAAGAATGTAAGATCTATCTCACTGGTCAGCAGTGGAATAG
* * *
36519500 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTTCCTGAG-
1 GTGAATCCTACCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTG-GT
*
36519564 CAGCAGTGGAGTAGGTTGAA-AAT-TACAGATCTTATCTC
65 CAGCAGTGGAATAGGTTGAAGAATGTA-AGATC-TATCTC
36519602 CCTAAGCAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
120 2 0.02
121 6 0.07
122 82 0.90
123 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (122 bp):
GTGAATCCTACCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTC
AGCAGTGGAATAGGTTGAAGAATGTAAGATCTATCTCACTGGTCAGCAGTGGAATAG
Found at i:36519806 original size:50 final size:50
Alignment explanation
Indices: 36519752--36520019 Score: 173
Period size: 50 Copynumber: 5.4 Consensus size: 50
36519742 TTGGCATTAC
* * *
36519752 AGTGGAATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCTGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCTGTGT
* * ** * *
36519802 AGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCTCC-AACAT-TGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTC-CCTAGC-TGTGT
** * * * * *
36519852 AGTTAAATAGATTAAAGCCACAACGGTGAATCTTACTTCCTTAGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCTGTGT
* * * ** * ** * *
36519902 AGTGTAACAGATTTAAGCTATGACGGTGAATCTTGTTTCCCTACCAT-TGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGC-TGTGT
** * * * * * *
36519952 AGTTAAATAGATTGAAGCCACAACGACAAATCTTACTTCCCTGGCAGTCT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCTGTGT
*
36520002 AGTGGAACAGATTAAAGC
1 AGTGGAACAGATTGAAGC
36520020 TAAAGGTAGC
Statistics
Matches: 156, Mismatches: 56, Indels: 12
0.70 0.25 0.05
Matches are distributed among these distances:
49 1 0.01
50 152 0.97
51 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCTGTGT
Found at i:36519875 original size:100 final size:99
Alignment explanation
Indices: 36519757--36520054 Score: 366
Period size: 100 Copynumber: 3.0 Consensus size: 99
36519747 ATTACAGTGG
* *
36519757 AATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCTGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAAC-GCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTAAAGCTA
36519822 CGACGGCGAATCTTGTTTCTCC-AACATTGCAGTTA
65 CGACGGCGAATCTTGTTTC-CCTAACATTGCAGTTA
* * * * * * *
36519857 AATAGATTAAAGCCACAACGGTGAATCTTACTTCCTTAGCGGTGTAGTGTAACAGATTTAAGCTA
1 AATAGATTGAAGCCACAAC-GCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTAAAGCTA
* * *
36519922 TGACGGTGAATCTTGTTTCCCTACCATTGCAGTTA
65 CGACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
* *
36519957 AATAGATTGAAGCCACAACGACAAATCTTACTTCCCTGGCAGTCTAGTGGAACAGATTAAAGCTA
1 AATAGATTGAAGCCACAACG-CGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTAAAGCTA
* * * *
36520022 -AAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAG
65 CGACG--GCGAATCTTGTTTCCCTAACATTGCAG
36520055 CGGAGCAAAA
Statistics
Matches: 169, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
99 5 0.03
100 140 0.83
101 24 0.14
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (99 bp):
AATAGATTGAAGCCACAACGCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTAAAGCTAC
GACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
Found at i:36526029 original size:36 final size:36
Alignment explanation
Indices: 36525954--36526029 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
36525944 CATACATACG
*
36525954 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
36525991 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
36526027 TTT
1 TTT
36526030 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:36526157 original size:23 final size:22
Alignment explanation
Indices: 36526130--36526172 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
36526120 TAATTCACAC
*
36526130 ACATATATATTTTTCTTATATGT
1 ACATATATATATTT-TTATATGT
36526153 ACATATATATATTTTTATAT
1 ACATATATATATTTTTATAT
36526173 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
ACATATATATATTTTTATATGT
Found at i:36529045 original size:14 final size:14
Alignment explanation
Indices: 36529026--36529059 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
36529016 AGTGGTAAGA
36529026 GATTAAAAATCCTT
1 GATTAAAAATCCTT
36529040 GATTAAAAATCCTT
1 GATTAAAAATCCTT
*
36529054 GGTTAA
1 GATTAA
36529060 TCTCTCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (14 bp):
GATTAAAAATCCTT
Found at i:36529862 original size:4 final size:4
Alignment explanation
Indices: 36529853--36529879 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36529843 TTCACTGCGT
36529853 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
36529880 TTTCAGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:36530503 original size:3 final size:3
Alignment explanation
Indices: 36530495--36530533 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
36530485 GTTTAAAGGG
36530495 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36530534 AGGGATTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36533226 original size:37 final size:36
Alignment explanation
Indices: 36533163--36533236 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 36
36533153 AACTTTGTTT
*
36533163 ATTTTGTGCTTTTACATGTAAAATACAAGCGG-AGGA
1 ATTTTGTGCTATTACATGTAAAATACAAG-GGAAGGA
*
36533199 ATTTTGTGCTATTATATGGTAAAATACAAGGGAAGGA
1 ATTTTGTGCTATTACAT-GTAAAATACAAGGGAAGGA
36533236 A
1 A
36533237 AAGGGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 17 0.50
37 17 0.50
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (36 bp):
ATTTTGTGCTATTACATGTAAAATACAAGGGAAGGA
Found at i:36536307 original size:20 final size:19
Alignment explanation
Indices: 36536278--36536324 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
36536268 ATTAACATTA
*
36536278 TTAAACTAGATTAATTTAAG
1 TTAAATTAGATTAA-TTAAG
36536298 TTAAATTAGATTAATTAAG
1 TTAAATTAGATTAATTAAG
36536317 TTAAATTA
1 TTAAATTA
36536325 AACTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (19 bp):
TTAAATTAGATTAATTAAG
Found at i:36539860 original size:16 final size:16
Alignment explanation
Indices: 36539839--36539869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36539829 CCAAACATGT
36539839 CAATAGCTAGCCATTC
1 CAATAGCTAGCCATTC
*
36539855 CAATAGCTAGTCATT
1 CAATAGCTAGCCATT
36539870 ATGAAATACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (16 bp):
CAATAGCTAGCCATTC
Found at i:36549968 original size:19 final size:19
Alignment explanation
Indices: 36549922--36549969 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
36549912 TGTTGATGTG
* *
36549922 CCAGGATGCACTTCGTGTT
1 CCAGGATGCGCTTCGTGCT
* * *
36549941 CTAGTATGCGCTTTGTGCT
1 CCAGGATGCGCTTCGTGCT
36549960 CCAGGATGCG
1 CCAGGATGCG
36549970 TTTTTGTATG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.31
Consensus pattern (19 bp):
CCAGGATGCGCTTCGTGCT
Found at i:36552405 original size:27 final size:27
Alignment explanation
Indices: 36552375--36552523 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 27
36552365 GAATTTTCCG
*
36552375 CAAAGGC-ATCTCTTTTAAAGTTCACCA
1 CAAAGGCTAT-TCTTTTAAAGTTCGCCA
* * **
36552402 CAAAGACTATTCTTTCAGAA--TCATCA
1 CAAAGGCTATTCTTTTA-AAGTTCGCCA
* * * *
36552428 CAATGGTTATTCTTTTAGAGTTTGCCA
1 CAAAGGCTATTCTTTTAAAGTTCGCCA
* * *
36552455 CAAAGACTATTCTTTTAGAGTTTGCCA
1 CAAAGGCTATTCTTTTAAAGTTCGCCA
*
36552482 CAAAGGCTATTCTTTCAAAGTTCGCCA
1 CAAAGGCTATTCTTTTAAAGTTCGCCA
36552509 CAAAGGCTATTCTTT
1 CAAAGGCTATTCTTT
36552524 AGCTATCATG
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
25 1 0.01
26 18 0.18
27 77 0.77
28 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (27 bp):
CAAAGGCTATTCTTTTAAAGTTCGCCA
Found at i:36552420 original size:54 final size:53
Alignment explanation
Indices: 36552361--36552523 Score: 175
Period size: 54 Copynumber: 3.0 Consensus size: 53
36552351 AGGTGATCTA
* *
36552361 TTCAGAATTTTCCGCAAAGGCATCTCTTTTAAAGTTCACCACAAAGACTATTCT
1 TTCAGAATTTTCCACAAAGGCAT-TCTTTTAAAGTTCGCCACAAAGACTATTCT
** * * * *
36552415 TTCAGAATCAT-CACAATGGTTATTCTTTTAGAGTTTGCCACAAAGACTATTCT
1 TTCAGAATTTTCCACAAAGG-CATTCTTTTAAAGTTCGCCACAAAGACTATTCT
* * * * *
36552468 TTTAGAGTTTGCCACAAAGGCTATTCTTTCAAAGTTCGCCACAAAGGCTATTCT
1 TTCAGAATTTTCCACAAAGGC-ATTCTTTTAAAGTTCGCCACAAAGACTATTCT
36552522 TT
1 TT
36552524 AGCTATCATG
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
53 39 0.45
54 48 0.55
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (53 bp):
TTCAGAATTTTCCACAAAGGCATTCTTTTAAAGTTCGCCACAAAGACTATTCT
Found at i:36556769 original size:50 final size:50
Alignment explanation
Indices: 36556715--36556894 Score: 189
Period size: 50 Copynumber: 3.5 Consensus size: 50
36556705 CAATGTCATA
* **
36556715 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* ** *
36556765 TCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* * ** *
36556815 TCCTAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATG
*
36556871 TCCCAGACATGGTCTTTCATGGGA
1 TCCCAGACATGGTCTTACATGGGA
36556895 TCTCATTCCC
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
50 72 0.67
53 2 0.02
56 33 0.31
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:36564423 original size:50 final size:50
Alignment explanation
Indices: 36564329--36564475 Score: 159
Period size: 50 Copynumber: 2.9 Consensus size: 50
36564319 TGATAATAAC
* * * * * **
36564329 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGAGTTCTCATATCA
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCA
* * * * *
36564379 ATGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCA
* * *
36564429 GTGCCAACACCATGTCCTAGACATGGTCTTACGTGGAACCTCTCATA
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATA
36564476 ACCTCAATAA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCA
Found at i:36571014 original size:27 final size:27
Alignment explanation
Indices: 36570970--36571181 Score: 192
Period size: 27 Copynumber: 7.8 Consensus size: 27
36570960 TTTCGATCAT
* *
36570970 TTTTACAAATCGGGGGTATTTTGGTAA
1 TTTTACAAATTGAGGGTATTTTGGTAA
* * *
36570997 TTCTACAAATTGAAGGTATTTCGGTAA
1 TTTTACAAATTGAGGGTATTTTGGTAA
* * ***
36571024 TTTCACAAATCGAGGGTATTTCAATAA
1 TTTTACAAATTGAGGGTATTTTGGTAA
*
36571051 TTTTTACATATTGAGGGTATTTTGGTAA
1 -TTTTACAAATTGAGGGTATTTTGGTAA
* * *
36571079 TTTTGCAAA-TCAGGGGTATTTTAGTAA
1 TTTTACAAATTGA-GGGTATTTTGGTAA
* * *
36571106 TTTTTGCAAATCGAGGGTATTTTAGTAA
1 -TTTTACAAATTGAGGGTATTTTGGTAA
* *
36571134 TTTTTCAAATTGAGGGTATTTTGATAA
1 TTTTACAAATTGAGGGTATTTTGGTAA
* * *
36571161 TTTTGCAAACTAAGGGTATTT
1 TTTTACAAATTGAGGGTATTT
36571182 CAATAATTTT
Statistics
Matches: 151, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.01
27 104 0.69
28 44 0.29
29 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TTTTACAAATTGAGGGTATTTTGGTAA
Found at i:36571070 original size:55 final size:55
Alignment explanation
Indices: 36570954--36571226 Score: 239
Period size: 55 Copynumber: 5.0 Consensus size: 55
36570944 TTACCCTATA
* * * * *
36570954 AGGGTATTTCGATCATTTTTACAAATCGGGGGTATTTTGGTAA-TTCTACAAATTG
1 AGGGTATTTCGGT-AATTTTACAAATCGAGGGTATTTTAGTAATTTTTACAAATTG
* * * * *
36571009 AAGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCAATAATTTTTACATATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTTACAAATTG
* * * *
36571064 AGGGTATTTTGGTAATTTTGCAAATC-AGGGGTATTTTAGTAATTTTTGCAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTTAGTAATTTTTACAAATTG
** * * * * *
36571119 AGGGTATTTTAGTAATTTTTCAAATTGAGGGTATTTT-GATAA-TTTTGCAAACTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTTTACAAATTG
** * * * *
36571173 AGGGTATTTCAATAATTTTTGCAAATCGGGGGTATTTCAGTAATTTTTGCAAAT
1 AGGGTATTTCGGTAA-TTTTACAAATCGAGGGTATTTTAGTAATTTTTACAAAT
36571227 CAAGGGTCTC
Statistics
Matches: 179, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
54 47 0.26
55 121 0.68
56 11 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (55 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTTACAAATTG
Found at i:36571097 original size:82 final size:83
Alignment explanation
Indices: 36570954--36571226 Score: 311
Period size: 82 Copynumber: 3.3 Consensus size: 83
36570944 TTACCCTATA
* * * * * * * *
36570954 AGGGTATTTCGATCATTTTTACAAATCGGGGGTATTTTGGTAATTCTACAAAT-TGAAGGTATTT
1 AGGGTATTTCAATAATTTTTACAAATTGAGGGTATTTTGGTAATTTTGCAAATCAG-GGGTATTT
* **
36571018 CGGTAA-TTTCACAAATCG
65 CAGTAATTTTTGCAAATCG
* *
36571036 AGGGTATTTCAATAATTTTTACATATTGAGGGTATTTTGGTAATTTTGCAAATCAGGGGTATTTT
1 AGGGTATTTCAATAATTTTTACAAATTGAGGGTATTTTGGTAATTTTGCAAATCAGGGGTATTTC
36571101 AGTAATTTTTGCAAATCG
66 AGTAATTTTTGCAAATCG
* * * *
36571119 AGGGTATTTTAGTAATTTTT-CAAATTGAGGGTATTTTGATAATTTTGCAAA-CTAAGGGTATTT
1 AGGGTATTTCAATAATTTTTACAAATTGAGGGTATTTTGGTAATTTTGCAAATC-AGGGGTATTT
*
36571182 CAATAATTTTTGCAAATCG
65 CAGTAATTTTTGCAAATCG
* * *
36571201 GGGGTATTTCAGTAATTTTTGCAAAT
1 AGGGTATTTCAATAATTTTTACAAAT
36571227 CAAGGGTCTC
Statistics
Matches: 165, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
81 1 0.01
82 130 0.79
83 34 0.21
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (83 bp):
AGGGTATTTCAATAATTTTTACAAATTGAGGGTATTTTGGTAATTTTGCAAATCAGGGGTATTTC
AGTAATTTTTGCAAATCG
Found at i:36571233 original size:28 final size:28
Alignment explanation
Indices: 36570954--36571233 Score: 227
Period size: 28 Copynumber: 10.2 Consensus size: 28
36570944 TTACCCTATA
* *
36570954 AGGGTATTTC-GATCATTTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTTGCAAATCG
* ** * * *
36570982 GGGGTATTTTGGTAA-TTCTACAAATTG
1 AGGGTATTTCAGTAATTTTTGCAAATCG
* * **
36571009 AAGGTATTTCGGTAA-TTTCACAAATCG
1 AGGGTATTTCAGTAATTTTTGCAAATCG
* * * *
36571036 AGGGTATTTCAATAATTTTTACATATTG
1 AGGGTATTTCAGTAATTTTTGCAAATCG
**
36571064 AGGGTATTTTGGTAA-TTTTGCAAATC-
1 AGGGTATTTCAGTAATTTTTGCAAATCG
*
36571090 AGGGGTATTTTAGTAATTTTTGCAAATCG
1 A-GGGTATTTCAGTAATTTTTGCAAATCG
* *
36571119 AGGGTATTTTAGTAATTTTT-CAAATTG
1 AGGGTATTTCAGTAATTTTTGCAAATCG
* *
36571146 AGGGTATTT-TGATAA-TTTTGCAAA-CTA
1 AGGGTATTTCAG-TAATTTTTGCAAATC-G
*
36571173 AGGGTATTTCAATAATTTTTGCAAATCG
1 AGGGTATTTCAGTAATTTTTGCAAATCG
* *
36571201 GGGGTATTTCAGTAATTTTTGCAAATCA
1 AGGGTATTTCAGTAATTTTTGCAAATCG
36571229 AGGGT
1 AGGGT
36571234 CTCGGCGACC
Statistics
Matches: 206, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 98 0.48
28 99 0.48
29 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (28 bp):
AGGGTATTTCAGTAATTTTTGCAAATCG
Found at i:36573223 original size:20 final size:21
Alignment explanation
Indices: 36573197--36573256 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
36573187 CTCATACAAG
36573197 ATTGCACTTCGGTGCCTCTAT
1 ATTGCACTTCGGTGCCTCTAT
* * *
36573218 -TTGCACTTTGATGCCTCTGT
1 ATTGCACTTCGGTGCCTCTAT
36573238 ATTGCACTTCGGTGCCTCT
1 ATTGCACTTCGGTGCCTCT
36573257 GTTAGCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (21 bp):
ATTGCACTTCGGTGCCTCTAT
Found at i:36573244 original size:21 final size:21
Alignment explanation
Indices: 36573197--36573258 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
36573187 CTCATACAAG
*
36573197 ATTGCACTTCGGTGCCTCTAT
1 ATTGCACTTCGGTGCCTCTGT
* *
36573218 -TTGCACTTTGATGCCTCTGT
1 ATTGCACTTCGGTGCCTCTGT
36573238 ATTGCACTTCGGTGCCTCTGT
1 ATTGCACTTCGGTGCCTCTGT
36573259 TAGCATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.40
Consensus pattern (21 bp):
ATTGCACTTCGGTGCCTCTGT
Found at i:36578769 original size:30 final size:29
Alignment explanation
Indices: 36578704--36578865 Score: 137
Period size: 30 Copynumber: 5.5 Consensus size: 29
36578694 ATTATCAATC
*
36578704 TATGAAAAGGGATAGCTTCGGATATAAAT
1 TATGAAAAGGGATAGCTTCGGCTATAAAT
* **
36578733 TATGAAAAGGGATGGCTTCGGCTATTGAT
1 TATGAAAAGGGATAGCTTCGGCTATAAAT
* * * *
36578762 CTATGAAAAAGGATAGCTTTGACTATCAAT
1 -TATGAAAAGGGATAGCTTCGGCTATAAAT
* * * *
36578792 TATGAAAAGGGAT-GGTGACGACCATCAAAT
1 TATGAAAAGGGATAGCT-TCGGCTAT-AAAT
* * *
36578822 TATGAAAAAGGATAGCTTCGGCTATTGAAC
1 TATGAAAAGGGATAGCTTCGGCTA-TAAAT
*
36578852 TATGAAAAGAGATA
1 TATGAAAAGGGATA
36578866 ATTTTGGTTA
Statistics
Matches: 103, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
28 2 0.02
29 42 0.41
30 56 0.54
31 3 0.03
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTTCGGCTATAAAT
Found at i:36578878 original size:89 final size:90
Alignment explanation
Indices: 36578729--36578896 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 90
36578719 CTTCGGATAT
* * * *
36578729 AAATTATGAAAAGGGATGGCTTCGGCTATTGATCTATGAAAAAGGATAGCTTTGACTATC-AATT
1 AAATTATGAAAAAGGATAGCTTCGGCTATTGAACTATGAAAAAGGATAACTTTGACTATCAAATT
* *
36578793 ATGAAAAGGGATGGTGACGACCATC
66 ACGAAAAAGGATGGTGACGACCATC
* **
36578818 AAATTATGAAAAAGGATAGCTTCGGCTATTGAACTATG-AAAAGAGATAATTTTGGTTATCAAAT
1 AAATTATGAAAAAGGATAGCTTCGGCTATTGAACTATGAAAAAG-GATAACTTTGACTATCAAAT
36578882 TACGAAAAAGGATGG
65 TACGAAAAAGGATGG
36578897 GTCAGCCATT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
88 5 0.07
89 47 0.69
90 16 0.24
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.27
Consensus pattern (90 bp):
AAATTATGAAAAAGGATAGCTTCGGCTATTGAACTATGAAAAAGGATAACTTTGACTATCAAATT
ACGAAAAAGGATGGTGACGACCATC
Found at i:36586339 original size:10 final size:10
Alignment explanation
Indices: 36586326--36586352 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
36586316 TGTTTTGGAG
36586326 TGTGTTTGAA
1 TGTGTTTGAA
36586336 TGTGTTTGAA
1 TGTGTTTGAA
36586346 TGTGTTT
1 TGTGTTT
36586353 TGGTCATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (10 bp):
TGTGTTTGAA
Found at i:36586681 original size:55 final size:54
Alignment explanation
Indices: 36586566--36586696 Score: 165
Period size: 55 Copynumber: 2.4 Consensus size: 54
36586556 TCAGCACGGT
* * *
36586566 TGTGTGACCATATTTCAAATATACACACGATCTAGCACAAGGCCTGCGACATGG
1 TGTGTGACCATATTTCGAATATACACACGATCTAGCACAAGGCCTGCGACACGC
* * *
36586620 TCGTGTGACCATATTTCGAATATACACAC-AGTCTGGCACATGGCCTGTGACACGAC
1 T-GTGTGACCATATTTCGAATATACACACGA-TCTAGCACAAGGCCTGCGACACG-C
*
36586676 TGTGTGACCTTATTTCGAATA
1 TGTGTGACCATATTTCGAATA
36586697 CCCACATGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
54 2 0.03
55 64 0.96
56 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (54 bp):
TGTGTGACCATATTTCGAATATACACACGATCTAGCACAAGGCCTGCGACACGC
Found at i:36589402 original size:23 final size:21
Alignment explanation
Indices: 36589346--36589403 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 21
36589336 TAAGGAGGTG
36589346 TAATGCTCTCCTTTTAATGAAA
1 TAATGCTC-CCTTTTAATGAAA
**
36589368 TAACAACT-CCTTTTAATGATATA
1 TAA-TGCTCCCTTTTAATGA-A-A
36589391 TAATGCTCCCTTT
1 TAATGCTCCCTTT
36589404 GTATGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
21 11 0.39
22 6 0.21
23 11 0.39
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (21 bp):
TAATGCTCCCTTTTAATGAAA
Found at i:36601135 original size:18 final size:17
Alignment explanation
Indices: 36601102--36601140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36601092 TTTTATAAAT
36601102 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
36601120 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
36601137 TGTG
1 TGTG
36601141 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:36601399 original size:23 final size:23
Alignment explanation
Indices: 36601369--36601487 Score: 159
Period size: 23 Copynumber: 5.2 Consensus size: 23
36601359 GTTATTGATC
*
36601369 AGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTTCGGCTACATATT
* *
36601392 AGTGGTAGCTACAGCTACATATT
1 AGTGGTAGCTTCGGCTACATATT
*
36601415 AGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTTCGGCTACATATT
* *
36601438 AGTGGTAGCTAT-GGCTACGTATC
1 AGTGGTAGCT-TCGGCTACATATT
*
36601461 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATT
36601484 AGTG
1 AGTG
36601488 TGGCATTGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 1 0.01
23 82 0.98
24 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATT
Found at i:36601421 original size:46 final size:46
Alignment explanation
Indices: 36601366--36601480 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
36601356 AGTGTTATTG
36601366 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
* ** *
36601412 ATTAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTATGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
36601458 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
36601481 ATCAGTGTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACAGCTACAT
Found at i:36610160 original size:50 final size:50
Alignment explanation
Indices: 36610050--36610249 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 50
36610040 ACATTAAGAG
* * *
36610050 GATGAGA--TCCCATGTAAGACCATGTCTGGGATATGGCATTAGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
*
36610101 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * *
36610154 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCTCCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
36610204 TATGAGAACTCCCATGTACGACCATATCTGGGATATGGCATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36610250 GTACAAAAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
50 80 0.64
51 1 0.01
53 3 0.02
54 6 0.05
55 1 0.01
56 34 0.27
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:36616214 original size:35 final size:35
Alignment explanation
Indices: 36616153--36616221 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
36616143 ACTCTATGTT
* *
36616153 TGGCGTGTTTCGGTTAGACTAGCTCTTATGAGCAC
1 TGGCGTGTTTCAGTTAGACTAACTCTTATGAGCAC
*
36616188 TGGCGTGTTTCAGTTGGA-TCAACTCTTATGAGCA
1 TGGCGTGTTTCAGTTAGACT-AACTCTTATGAGCA
36616222 TTTGGTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 29 0.97
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (35 bp):
TGGCGTGTTTCAGTTAGACTAACTCTTATGAGCAC
Found at i:36618964 original size:11 final size:10
Alignment explanation
Indices: 36618951--36618983 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
36618941 TCAACTAATT
36618951 TTTTTTAT-A
1 TTTTTTATAA
36618960 TTTTTTATAA
1 TTTTTTATAA
36618970 TTTTTTAATAA
1 TTTTTT-ATAA
36618981 TTT
1 TTT
36618984 ATCTAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.36
10 7 0.32
11 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:36619223 original size:15 final size:17
Alignment explanation
Indices: 36619178--36619215 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
36619168 AACTGGACCG
*
36619178 GAACTATCTCTAAACGA
1 GAACTATCTATAAACGA
36619195 GAACTATCTATAAACGA
1 GAACTATCTATAAACGA
36619212 GAAC
1 GAAC
36619216 ACTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (17 bp):
GAACTATCTATAAACGA
Found at i:36627525 original size:13 final size:13
Alignment explanation
Indices: 36627507--36627532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36627497 AATTATTGCC
36627507 TACCATAAATTAG
1 TACCATAAATTAG
36627520 TACCATAAATTAG
1 TACCATAAATTAG
36627533 AAGGTTGGTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TACCATAAATTAG
Found at i:36633127 original size:12 final size:11
Alignment explanation
Indices: 36633110--36633144 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
36633100 AACAAATTAT
36633110 CTCTCATATTTC
1 CTCTCA-ATTTC
36633122 CTCTCAA-TTC
1 CTCTCAATTTC
36633132 CTCTCAATTTC
1 CTCTCAATTTC
36633143 CT
1 CT
36633145 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:36634751 original size:7 final size:7
Alignment explanation
Indices: 36634741--36634765 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36634731 ATTCGATTGA
36634741 TATTTAG
1 TATTTAG
36634748 TATTTAG
1 TATTTAG
36634755 TATTTAG
1 TATTTAG
36634762 TATT
1 TATT
36634766 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:36635989 original size:29 final size:28
Alignment explanation
Indices: 36635963--36636878 Score: 728
Period size: 29 Copynumber: 34.3 Consensus size: 28
36635953 AACCTAATTT
*
36635963 AACCCTAAACCTCTAACCTAAATTAATTAAA
1 AACCCT-AACC-CTAACCTAATTTAATT-AA
*
36635994 AACCCTAACCTCTAACCTAAATTAATTAAA
1 AACCCTAACC-CTAACCTAATTTAATT-AA
*
36636024 AACCCTAACCTCTAACCTAAATTAATTACA
1 AACCCTAACC-CTAACCTAATTTAATTA-A
*
36636054 AACCCTAACCCTAATCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
36636083 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
*
36636112 AACCCTAACCTCTAACCTAAATT-ATTACA
1 AACCCTAACC-CTAACCTAATTTAATTA-A
36636141 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
* *
36636170 AACCTTAACCCTAACCTGATTTAATT-A
1 AACCCTAACCCTAACCTAATTTAATTAA
* *
36636197 AA----AACCCTAATCTAATTTAATTTA
1 AACCCTAACCCTAACCTAATTTAATTAA
36636221 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
* *
36636250 AACCCTAACCCT---TTAACTT-A--AA
1 AACCCTAACCCTAACCTAATTTAATTAA
*
36636272 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
*
36636301 AACCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTA-A
*
36636331 AACTCTAACCCTAACCTAATTTAATTAA
1 AACCCTAACCCTAACCTAATTTAATTAA
*
36636359 AA----ACCCCTAACCTAATTTAATT-A
1 AACCCTAACCCTAACCTAATTTAATTAA
*
36636382 AA----AACCCTAACCTAATTTAACCCT-A
1 AACCCTAACCCTAACCTAATTTAA--TTAA
*
36636407 AACTCTAA-CCT-A---AA-TTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
*
36636430 AACCCTAACCCCTAACCTAAATTAATTATA
1 AACCCTAA-CCCTAACCTAATTTAATTA-A
36636460 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
* *
36636489 AACCCTAACCCT---TTAACTT-A--AA
1 AACCCTAACCCTAACCTAATTTAATTAA
*
36636511 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
*
36636540 AACCCTAAACCCT----TAACTT-A--AA
1 AACCCT-AACCCTAACCTAATTTAATTAA
*
36636562 AACCCTAACCTTAACCTAATTTAATT-A
1 AACCCTAACCCTAACCTAATTTAATTAA
36636589 AA----AACCCTAACCTAATTTAATTAA
1 AACCCTAACCCTAACCTAATTTAATTAA
*
36636613 AA----A-CCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
36636637 AACCCTAAACCCT----TAA-TT-A--AA
1 AACCCT-AACCCTAACCTAATTTAATTAA
*
36636658 AACCCTAACCTTAACCTAATTTAATT-A
1 AACCCTAACCCTAACCTAATTTAATTAA
36636685 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
*
36636710 AACCCTAAACCCT----TAACTT-A--AA
1 AACCCT-AACCCTAACCTAATTTAATTAA
*
36636732 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
36636761 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
*
36636790 AACCCTAAACCCT----TAACTT-A--AA
1 AACCCT-AACCCTAACCTAATTTAATTAA
*
36636812 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
36636841 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATT-AA
36636870 AACCCTAAC
1 AACCCTAAC
36636879 ATTTTACTAA
Statistics
Matches: 744, Mismatches: 48, Indels: 188
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.01
21 24 0.03
22 50 0.07
23 105 0.14
24 36 0.05
25 44 0.06
26 35 0.05
27 10 0.01
28 37 0.05
29 257 0.35
30 135 0.18
31 6 0.01
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (28 bp):
AACCCTAACCCTAACCTAATTTAATTAA
Found at i:36636226 original size:22 final size:23
Alignment explanation
Indices: 36636147--36636878 Score: 356
Period size: 23 Copynumber: 28.4 Consensus size: 23
36636137 TACAAACCCT
36636147 AACCCTAACCTAATTTAATTAAAAA
1 AACCCTAACCTAATTTAATT--AAA
*
36636172 CCTTAACCCTAACCTGATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
36636199 AACCCTAATCTAATTTAATTTAAA
1 AACCCTAACCTAATTTAA-TTAAA
36636223 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
36636250 AACCCTAACC--CTTTAACTTAAA
1 AACCCTAACCTAATTTAA-TTAAA
36636272 AACCCTAACCTTAACCTAATTTAATTAAA
1 AA--C---CC-TAACCTAATTTAATTAAA
*
36636301 AACCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA--CCTAA--T---TTAATTAAA
*
36636331 AACTCTAACCCTAACCTAATTTAATTAAA
1 AACCCT------AACCTAATTTAATTAAA
36636360 AACCCCTAACCTAATTTAATTAAA
1 AA-CCCTAACCTAATTTAATTAAA
****
36636384 AACCCTAACCTAATTTAACCCTA
1 AACCCTAACCTAATTTAATTAAA
* *
36636407 AACTCTAACCTAAATTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
36636430 AACCCTAACCCCTAACCTAAATTAATTATAA
1 AACCCTAA--CCTAA--T---TTAATTA-AA
*
36636461 ACCCTAACCCTAACCTAATTTAATTAAA
1 A-AC----CCTAACCTAATTTAATTAAA
*
36636489 AACCCTAACC--CTTTAACTTAAA
1 AACCCTAACCTAATTTAA-TTAAA
36636511 AACCCTAACCTTAACCTAATTTAATTAAA
1 AA--C---CC-TAACCTAATTTAATTAAA
*
36636540 AACCCTAAACCCTTAACTTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
*
36636564 CCCTAACCTTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
36636591 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
36636614 AACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
36636637 AACCCTAAACCCTTAA-TTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
*
36636660 CCCTAACCTTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
36636687 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
36636710 AACCCTAAACCCTTAACTTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
*
36636734 CCCTAACCTTAACCTAATTTAATTAAAAA
1 ----AACCCTAACCTAATTTAATT--AAA
36636763 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
36636790 AACCCTAAACCCTTAACTTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
*
36636814 CCCTAACCTTAACCTAATTTAATTAAAAA
1 ----AACCCTAACCTAATTTAATT--AAA
36636843 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
36636870 AACCCTAAC
1 AACCCTAAC
36636879 ATTTTACTAA
Statistics
Matches: 570, Mismatches: 42, Indels: 188
0.71 0.05 0.23
Matches are distributed among these distances:
21 10 0.02
22 14 0.02
23 173 0.30
24 50 0.09
25 49 0.09
26 32 0.06
27 39 0.07
28 45 0.08
29 102 0.18
30 33 0.06
31 3 0.01
32 3 0.01
34 10 0.02
36 7 0.01
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:36636243 original size:51 final size:52
Alignment explanation
Indices: 36635947--36636878 Score: 627
Period size: 51 Copynumber: 17.6 Consensus size: 52
36635937 ATGTAATAAA
**** *
36635947 AACCCTAACCTAATTTAACCCTAAACCTCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACC-CTAACCTAATTTAATTAAAAACCCT
* *
36636000 AACCTCTAACCTAAATTAATTAAAAACCCTAACCTCTAACCTAAATTAATTACAAACCCT
1 AACC-CTAACCTAATTTAATTAAAAACCCTAA-C-CTAA--T---TTAATTAAAAACCCT
*
36636060 AACCCTAATCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATT--AAA----AACCCTAACCTAATTTAATTAAAAACCCT
* *
36636118 AACCTCTAACCTAAATT-ATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCTT
1 AACC-CTAACCTAATTTAATT--AAA----AACCCTAACCTAATTTAATTAAAAACCCT
* * *
36636176 AACCCTAACCTGATTTAATTAAAAACCCTAATCTAATTTAATT-TAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
*
36636227 AACCCTAACCTAATTTAATTAAAAACCCTAACC--CTTTAACTTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCT
* * *
36636278 AACCTTAACCTAATTTAATTAAAAACCCTAACCCCTAACCTAAATTAATTACAAACTCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAA--CCTAA--T---TTAATTAAAAACCCT
36636337 AACCCTAACCTAATTTAATTAAAAACCCCTAACCTAATTTAATT--AAA----
1 AACCCTAACCTAATTTAATTAAAAA-CCCTAACCTAATTTAATTAAAAACCCT
**** * *
36636384 AACCCTAACCTAATTTAACCCTAAACTCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
*
36636436 AACCCCTAACCTAAATTAATTATAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AA-CCCTAACCTAATTTAA-T-TAAA----AACCCTAACCTAATTTAATTAAAAACCCT
* * *
36636495 AACCCT---TTAACTTAA--AAACCCTAACCTTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCT
* ***** *
36636546 AAACCCTTAACTTAA---AAACCCTAACCTTAACCTAATTTAATT--AAA----
1 -AACCC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
*
36636591 AACCCTAACCTAATTTAATTAAAAACCTTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
*
36636643 AAACCCT----TAA-TTAA--AAACCCTAACCTTAACCTAATTTAATT--AAA----
1 -AACCCTAACCTAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCT
*
36636687 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCT
*
36636738 AACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATT--AAA----AACCCTAACCTAATTTAATTAAAAACCCT
* ***** *
36636796 AAACCCTTAACTTAA---AAACCCTAACCTTAACCTAATTTAATTAAAAACCCT
1 -AACCC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
36636847 AACCCTAACCTAATTTAATTAAAAACCCTAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAAC
36636879 ATTTTACTAA
Statistics
Matches: 716, Mismatches: 72, Indels: 183
0.74 0.07 0.19
Matches are distributed among these distances:
43 13 0.02
44 9 0.01
45 2 0.00
46 46 0.06
47 31 0.04
48 17 0.02
49 18 0.03
50 30 0.04
51 179 0.25
52 36 0.05
53 43 0.06
54 19 0.03
55 12 0.02
56 12 0.02
57 19 0.03
58 84 0.12
59 94 0.13
60 35 0.05
61 4 0.01
63 4 0.01
64 1 0.00
65 8 0.01
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (52 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:36636283 original size:21 final size:21
Alignment explanation
Indices: 36636240--36636281 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
36636230 CCTAACCTAA
36636240 TTTAATTAAAAACCCTAACCC
1 TTTAATTAAAAACCCTAACCC
36636261 TTTAACTTAAAAACCCTAACC
1 TTTAA-TTAAAAACCCTAACC
36636282 TTAACCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (21 bp):
TTTAATTAAAAACCCTAACCC
Found at i:36636522 original size:21 final size:21
Alignment explanation
Indices: 36636479--36636520 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
36636469 CCTAACCTAA
36636479 TTTAATTAAAAACCCTAACCC
1 TTTAATTAAAAACCCTAACCC
36636500 TTTAACTTAAAAACCCTAACC
1 TTTAA-TTAAAAACCCTAACC
36636521 TTAACCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (21 bp):
TTTAATTAAAAACCCTAACCC
Found at i:36636932 original size:17 final size:18
Alignment explanation
Indices: 36636891--36636932 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
36636881 TTTACTAACC
* *
36636891 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
36636909 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
36636926 ATTAATA
1 ATTAATA
36636933 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:36649413 original size:41 final size:41
Alignment explanation
Indices: 36649350--36649499 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
36649340 TCGGGGTTTA
*
36649350 AATCCAAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* *
36649391 AATCTGAGCTTGGTCTTGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
36649432 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
36649472 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
36649500 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:36658417 original size:24 final size:23
Alignment explanation
Indices: 36658383--36658427 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
36658373 GCTTAATAAC
36658383 AAGAAGCTCATAAGAGCTTAAAT
1 AAGAAGCTCATAAGAGCTTAAAT
**
36658406 AAGAATGCTCATGCGAGCTTAA
1 AAGAA-GCTCATAAGAGCTTAA
36658428 CAGGTAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (23 bp):
AAGAAGCTCATAAGAGCTTAAAT
Found at i:36669987 original size:79 final size:82
Alignment explanation
Indices: 36669876--36670060 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
36669866 GCTACTCGTT
* *
36669876 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36669939 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
36669956 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36670019 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36670036 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36670061 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:36670060 original size:40 final size:40
Alignment explanation
Indices: 36669857--36670060 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
36669847 CGGAATTTAA
** *
36669857 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36669897 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36669937 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36669976 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36670016 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36670056 CCGGA
1 CCGGA
36670061 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36677928 original size:79 final size:78
Alignment explanation
Indices: 36677826--36678048 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
36677816 GCTCCTCGTT
* *
36677826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
36677891 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
36677906 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
36677970 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
36677984 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
36678047 GA
63 GA
36678049 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:36677943 original size:39 final size:40
Alignment explanation
Indices: 36677826--36678048 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
36677816 GCTCCTCGTT
* *
36677826 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
36677866 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
36677906 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
36677945 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
36677984 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
36678025 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36678049 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:36682050 original size:6 final size:6
Alignment explanation
Indices: 36682039--36682225 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
36682029 AACCAAAATG
*
36682039 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
36682087 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
36682136 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
36682184 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
36682226 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 14, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 11 0.07
6 127 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:36682054 original size:30 final size:30
Alignment explanation
Indices: 36682039--36682225 Score: 262
Period size: 30 Copynumber: 6.4 Consensus size: 30
36682029 AACCAAAATG
*
36682039 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
36682069 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
36682099 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
36682124 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
36682154 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
36682184 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
36682215 AGAATCAGAAT
1 AGAATCAGAAT
36682226 GTGAATGCAA
Statistics
Matches: 141, Mismatches: 6, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
24 2 0.01
25 19 0.13
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 91 0.65
31 24 0.17
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:36682139 original size:85 final size:85
Alignment explanation
Indices: 36682039--36682225 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
36682029 AACCAAAATG
36682039 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
36682104 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
36682124 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
36682189 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
36682209 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
36682226 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:36682380 original size:27 final size:26
Alignment explanation
Indices: 36682343--36682408 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
36682333 AGCATGGCTG
*
36682343 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
36682369 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
36682396 CCAGAATCAGATA
1 CCAGAA-CAGATA
36682409 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:36682413 original size:27 final size:27
Alignment explanation
Indices: 36682343--36682416 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
36682333 AGCATGGCTG
* *
36682343 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
36682369 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
36682396 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
36682417 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:36682423 original size:27 final size:27
Alignment explanation
Indices: 36682367--36682424 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
36682357 GTGACAGAGT
* * *
36682367 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
36682394 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
36682421 CACC
1 CACC
36682425 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:36682629 original size:22 final size:22
Alignment explanation
Indices: 36682581--36682639 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
36682571 GTAAATACGT
*
36682581 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
36682603 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
36682625 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
36682640 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:36682806 original size:27 final size:26
Alignment explanation
Indices: 36682727--36682809 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
36682717 TCGATCGGTC
* * *
36682727 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
36682753 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
36682780 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
36682807 AAC
1 AAC
36682810 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:36683038 original size:27 final size:27
Alignment explanation
Indices: 36683008--36683203 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
36682998 GGGGCAAAAT
* * * *
36683008 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36683035 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36683062 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36683089 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
36683116 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36683143 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36683170 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36683197 AGTAATT
1 GGTAATT
36683204 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:36683238 original size:27 final size:27
Alignment explanation
Indices: 36683208--36683590 Score: 549
Period size: 27 Copynumber: 14.2 Consensus size: 27
36683198 GTAATTTCAC
*
36683208 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
36683235 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
36683262 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
36683289 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
36683316 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
36683343 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
36683370 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
36683397 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
36683424 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
36683451 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
36683478 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
36683505 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
36683532 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
36683559 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
36683586 AATCG
1 AATCG
36683591 GGAGTACTTT
Statistics
Matches: 318, Mismatches: 30, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
26 4 0.01
27 310 0.97
28 4 0.01
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:36686363 original size:21 final size:21
Alignment explanation
Indices: 36686337--36686384 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
36686327 TAGTGGAGAT
36686337 AGGAAAAACAAGTTCCAAAAC
1 AGGAAAAACAAGTTCCAAAAC
* *
36686358 AGGAAAAATAGGTTCCAAAAC
1 AGGAAAAACAAGTTCCAAAAC
36686379 AGGAAA
1 AGGAAA
36686385 CACAGTGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (21 bp):
AGGAAAAACAAGTTCCAAAAC
Found at i:36691854 original size:17 final size:17
Alignment explanation
Indices: 36691831--36691872 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
36691821 CACACATTTT
36691831 GGTGAGCTCGCAGTTATA
1 GGTGAGCTCGCAGTT-TA
36691849 -GTGAGCTCGCAGTTTA
1 GGTGAGCTCGCAGTTTA
36691865 GGTGAGCT
1 GGTGAGCT
36691873 TACTATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.29
Consensus pattern (17 bp):
GGTGAGCTCGCAGTTTA
Found at i:36694350 original size:32 final size:30
Alignment explanation
Indices: 36694276--36694357 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
36694266 GAATATAATT
* *
36694276 GTAACATAAATATTTAATTATTTATTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
36694308 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
36694340 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
36694358 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:36695306 original size:3 final size:3
Alignment explanation
Indices: 36695300--36695341 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
36695290 ATTATTATTA
36695300 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
36695342 AGATGAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:36698653 original size:38 final size:37
Alignment explanation
Indices: 36698602--36698725 Score: 185
Period size: 38 Copynumber: 3.3 Consensus size: 37
36698592 ATATTTGATG
*
36698602 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGCTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTG-TAT
36698640 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAT
* *
36698678 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAT
*
36698716 TATATTCGGG
1 TATATCCGGG
36698726 CCTTTGAGCC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 79 0.99
39 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (37 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAT
Found at i:36701814 original size:14 final size:14
Alignment explanation
Indices: 36701797--36701825 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36701787 GAACAGATAC
36701797 ACCTCAAAATTTAT
1 ACCTCAAAATTTAT
36701811 ACCTCAAAATTTAT
1 ACCTCAAAATTTAT
36701825 A
1 A
36701826 GATTATGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
ACCTCAAAATTTAT
Found at i:36705571 original size:32 final size:32
Alignment explanation
Indices: 36705535--36705596 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
36705525 TTATTTGGCT
36705535 TATTAAAATGTCATGTGCATGTTAGATGATGG
1 TATTAAAATGTCATGTGCATGTTAGATGATGG
* * *
36705567 TATTACATTGTCATGTGCATGTTAGTTGAT
1 TATTAAAATGTCATGTGCATGTTAGATGAT
36705597 ACTATAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (32 bp):
TATTAAAATGTCATGTGCATGTTAGATGATGG
Found at i:36709631 original size:17 final size:18
Alignment explanation
Indices: 36709609--36709651 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
36709599 AGAGCTCGTA
36709609 GGTGAGCTCT-CA-TGTTT
1 GGTGAGCTCTGCAGTG-TT
36709626 GGTGAGCT-TGCAGTGTT
1 GGTGAGCTCTGCAGTGTT
36709643 GGTGAGCTC
1 GGTGAGCTC
36709652 ACGATCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 20 0.87
18 2 0.09
ACGTcount: A:0.12, C:0.16, G:0.37, T:0.35
Consensus pattern (18 bp):
GGTGAGCTCTGCAGTGTT
Found at i:36709694 original size:18 final size:18
Alignment explanation
Indices: 36709641--36709694 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
36709631 GCTTGCAGTG
*
36709641 TTGGTGAGCTCACGA-TC
1 TTGGTGAGCTCACAATTC
* *
36709658 TTGGTGAGCTCATAGTTC
1 TTGGTGAGCTCACAATTC
*
36709676 TTGGTGGGCTCACAATTC
1 TTGGTGAGCTCACAATTC
36709694 T
1 T
36709695 GATGAGCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (18 bp):
TTGGTGAGCTCACAATTC
Found at i:36713465 original size:21 final size:21
Alignment explanation
Indices: 36713441--36713480 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36713431 AGGTTGATTG
*
36713441 TGATTTGGTATAATTTTGACA
1 TGATTTGGCATAATTTTGACA
*
36713462 TGATTTGGCATACTTTTGA
1 TGATTTGGCATAATTTTGA
36713481 TGTGTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (21 bp):
TGATTTGGCATAATTTTGACA
Found at i:36713713 original size:22 final size:22
Alignment explanation
Indices: 36713688--36713729 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36713678 ACGGTCTTAG
**
36713688 AACACGATTGTGTGTCTCCTCC
1 AACACGACCGTGTGTCTCCTCC
36713710 AACACGACCGTGTGTCTCCT
1 AACACGACCGTGTGTCTCCT
36713730 TCTACATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (22 bp):
AACACGACCGTGTGTCTCCTCC
Found at i:36715816 original size:57 final size:58
Alignment explanation
Indices: 36715726--36715840 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 58
36715716 CTTGAACAAC
*
36715726 ATGAACCAAATGATAACTCTAAAATATAGAGTTATCTACGGTAC-TTTTAACTAGTAA
1 ATGAACCAAATGATAACTCTAAAATATAAAGTTATCTACGGTACTTTTTAACTAGTAA
* *
36715783 ATGAACCAAATGATAACTCTAAAATATAAAGTTATCTACTGTACTTTTTACCTAGTAA
1 ATGAACCAAATGATAACTCTAAAATATAAAGTTATCTACGGTACTTTTTAACTAGTAA
36715841 TTCATGCAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 42 0.78
58 12 0.22
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (58 bp):
ATGAACCAAATGATAACTCTAAAATATAAAGTTATCTACGGTACTTTTTAACTAGTAA
Found at i:36719012 original size:16 final size:16
Alignment explanation
Indices: 36718990--36719021 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
36718980 TCCCTAAGAA
36718990 AAAAAAAAGAGAAAAAG
1 AAAAAAAA-AGAAAAAG
36719007 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
36719022 AAAGAAGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:36719027 original size:19 final size:18
Alignment explanation
Indices: 36718989--36719023 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36718979 TTCCCTAAGA
*
36718989 AAAAAAAAAGAGAAAAAG
1 AAAAAAAAAGAAAAAAAG
36719007 AAAAAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
36719024 AGAAGGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAG
Found at i:36721350 original size:67 final size:65
Alignment explanation
Indices: 36721252--36721383 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 65
36721242 TGCTTGCAGA
** * *
36721252 AAGAAAATGTGTGTAAGATTTGTATGGCTTTTTGCCAAAATTACAGTTTAATATTTTTCTTGATT
1 AAGAAAATGTGTGTAAGATTTAAATGACTTTTTGCCAAAATTACAGTTTAATATTTATCTTGATT
* * *
36721317 AAGAAAATGTGAGTGTAAGATTTAAATGACTTTTTGTCATAATTACAGTTTAGTATTTATCTTGA
1 AAGAAAATGT--GTGTAAGATTTAAATGACTTTTTGCCAAAATTACAGTTTAATATTTATCTTGA
36721382 TT
64 TT
36721384 GAGTTTCCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 10 0.17
67 48 0.83
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (65 bp):
AAGAAAATGTGTGTAAGATTTAAATGACTTTTTGCCAAAATTACAGTTTAATATTTATCTTGATT
Found at i:36725047 original size:16 final size:17
Alignment explanation
Indices: 36725028--36725059 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36725018 TGGTAGAGGT
36725028 TATTC-TGAACAACATC
1 TATTCTTGAACAACATC
36725044 TATTCTTGAACAACAT
1 TATTCTTGAACAACAT
36725060 TTGTCCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (17 bp):
TATTCTTGAACAACATC
Found at i:36728376 original size:21 final size:21
Alignment explanation
Indices: 36728350--36728390 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36728340 TCCAGCAACC
*
36728350 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
36728371 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
36728391 CTGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:36730236 original size:145 final size:145
Alignment explanation
Indices: 36729973--36730249 Score: 527
Period size: 145 Copynumber: 1.9 Consensus size: 145
36729963 GAAGCTGAAT
* *
36729973 TTAGGGCAATGGCTCTTGGAGTTTGTGAGTTGTTATGGCTAAAGATTATATTGGAAGACTTGAAG
1 TTAGGGCAATGGCTCTTGGAGTTTGTGAGTTGTTATGACTAAAGATTATATTAGAAGACTTGAAG
36730038 ATCAAGTGGGAAGGTCCAATGAAGTTGTATTGCGATAATAAGTCTGCTATCAATATCACACATAA
66 ATCAAGTGGGAAGGTCCAATGAAGTTGTATTGCGATAATAAGTCTGCTATCAATATCACACATAA
36730103 TCCACCTCAACGTGA
131 TCCACCTCAACGTGA
36730118 TTAGGGCAATGGCTCTTGGAGTTTGTGAGTTGTTATGACTAAAGATTATATTAGAAGACTTGAAG
1 TTAGGGCAATGGCTCTTGGAGTTTGTGAGTTGTTATGACTAAAGATTATATTAGAAGACTTGAAG
*
36730183 ATCAAGTGGGAAGGTCCAATGAAGTTGTATTGCGATAATAAGTCTGCTATCAATATCGCACATAA
66 ATCAAGTGGGAAGGTCCAATGAAGTTGTATTGCGATAATAAGTCTGCTATCAATATCACACATAA
36730248 TC
131 TC
36730250 TAGTTCAACA
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 129 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (145 bp):
TTAGGGCAATGGCTCTTGGAGTTTGTGAGTTGTTATGACTAAAGATTATATTAGAAGACTTGAAG
ATCAAGTGGGAAGGTCCAATGAAGTTGTATTGCGATAATAAGTCTGCTATCAATATCACACATAA
TCCACCTCAACGTGA
Found at i:36738669 original size:46 final size:46
Alignment explanation
Indices: 36738616--36738791 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
36738606 TATTTGGGCA
*
36738616 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
36738662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
36738709 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
36738755 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36738792 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 72 0.66
47 37 0.34
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:36738771 original size:93 final size:93
Alignment explanation
Indices: 36738612--36738783 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
36738602 GGGATATTTG
* * *
36738612 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
36738677 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
36738705 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
36738770 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
36738784 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:36741726 original size:15 final size:15
Alignment explanation
Indices: 36741706--36741783 Score: 86
Period size: 15 Copynumber: 5.2 Consensus size: 15
36741696 CATAGTATCG
*
36741706 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
36741721 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
*
36741736 TATTTTGGATTTCTT
1 TATCTTGGATTTCTT
* * *
36741751 TAT-TCCGGGTTTCTC
1 TATCT-TGGATTTCTT
36741766 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
36741781 TAT
1 TAT
36741784 TCGGTTTTCT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
14 1 0.02
15 49 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:36741794 original size:14 final size:14
Alignment explanation
Indices: 36741715--36741794 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
36741705 GTATCTTGGG
*
36741715 TTTCTTTATCTTGGA
1 TTTCTTTAT-TCGGA
* *
36741730 TCTCTTTATTTTGGA
1 TTTCTTTA-TTCGGA
*
36741745 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
* *
36741760 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
36741775 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
36741789 TTTCTT
1 TTTCTT
36741795 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
14 11 0.21
15 39 0.75
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:36743505 original size:27 final size:27
Alignment explanation
Indices: 36743486--36744063 Score: 723
Period size: 27 Copynumber: 21.4 Consensus size: 27
36743476 ATTACCAAAG
36743486 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
36743513 CACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
36743540 TACCCTCGATTTATAGAATTGCCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
36743567 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
36743594 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * ** *
36743621 TACACTTGATTTTTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
36743648 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
36743675 TACCCTC-AGTTTATAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* * *
36743702 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
36743729 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
36743756 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
36743783 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
36743810 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
36743837 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
36743864 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
36743891 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
36743918 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
36743945 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
36743972 TACCCTTGATTTACAGAATTACTAG-TT
1 TACCCTCGATTTACAGAATTAC-CGTTT
* *
36743999 TACCCTC-AGTTTACAAAATTATCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
36744026 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
36744053 TACCCTTGATT
1 TACCCTCGATT
36744064 GTGAAATTAC
Statistics
Matches: 478, Mismatches: 65, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
26 4 0.01
27 470 0.98
28 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:36744098 original size:27 final size:27
Alignment explanation
Indices: 36744068--36744261 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
36744058 TTGATTGTGA
36744068 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
36744095 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
36744122 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
36744149 -ATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
36744175 AATTA-TCGAAATACCCTTGTAGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
36744202 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
36744229 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
36744256 AATTAC
1 AATTAC
36744262 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.16
27 116 0.83
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:36744124 original size:80 final size:80
Alignment explanation
Indices: 36744076--36744260 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 80
36744066 GAAATTACTG
* *
36744076 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
36744141 TAGGATAGATTACCA
66 TAGGATAGATTACCA
* * * * * *
36744156 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
* *
36744221 TAGGGTAGAATTACCG
66 TAGGATAG-ATTACCA
* * * *
36744237 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
36744261 CCATTTTGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 64 0.71
81 26 0.29
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (80 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
TAGGATAGATTACCA
Found at i:36744136 original size:54 final size:54
Alignment explanation
Indices: 36744068--36744262 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
36744058 TTGATTGTGA
* * ** *
36744068 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
* * * *
36744122 AATTACTGAAATACCCTTATAGGAT-AGATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
*
36744175 AATTA-TCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
* * *
36744229 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACC
36744263 ATTTTGCCCC
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.36
54 76 0.63
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
Found at i:36744504 original size:27 final size:26
Alignment explanation
Indices: 36744462--36744543 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
36744452 GGAGGAAGCA
*
36744462 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
36744489 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * * *
36744515 TATTTGATGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
36744542 TT
1 TT
36744544 GACCGATCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:36744659 original size:22 final size:22
Alignment explanation
Indices: 36744631--36744689 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
36744621 CCCGTTATTA
36744631 ATGGCTTTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
36744653 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
36744675 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
36744690 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:36744884 original size:27 final size:25
Alignment explanation
Indices: 36744854--36744927 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
36744844 TAGGTAGGTT
*
36744854 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACA-TATCTG-TTCTGGTGACTC
36744881 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCAC-ATATCTGT-TCTGGTGACTC
*
36744908 TGTCACGATATCTGTTCTGG
1 TGCCAC-ATATCTGTTCTGG
36744928 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 35 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TGCCACATATCTGTTCTGGTGACTC
Found at i:36745054 original size:6 final size:6
Alignment explanation
Indices: 36745045--36745224 Score: 169
Period size: 6 Copynumber: 29.8 Consensus size: 6
36745035 TTGCATTCAC
*
36745045 ATTCTG ATTCTG ATTCTG --TCACG TATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG -ATTCTG ATTCTG ATTCTG ATTCTG
* *
36745093 -TTACTA ATACTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
36745141 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
36745190 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
36745225 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 12, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
4 2 0.01
5 11 0.08
6 119 0.82
7 9 0.06
8 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:36745242 original size:30 final size:30
Alignment explanation
Indices: 36745120--36745244 Score: 155
Period size: 30 Copynumber: 4.1 Consensus size: 30
36745110 GATTCTGTTA
*
36745120 CTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTTACC-AATT
*
36745151 CTGATTCTGATTCTGATTCTGTTACTAATAT
1 CTGATTCTGATTCTGATTCTGTTACCAAT-T
**
36745182 -TGATTCTGATTCTGATTCTGTTACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCAATT
* *
36745211 CTGATTCTGATTCTCATTTTGGTT-CCAATT
1 CTGATTCTGATTCTGATTCT-GTTACCAATT
36745241 CTGA
1 CTGA
36745245 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.01
30 55 0.65
31 28 0.33
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
CTGATTCTGATTCTGATTCTGTTACCAATT
Found at i:36747831 original size:48 final size:48
Alignment explanation
Indices: 36747759--36747927 Score: 225
Period size: 48 Copynumber: 3.5 Consensus size: 48
36747749 TATATAGGCC
*
36747759 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGTTAATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCT
* * * * ** *
36747807 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCTCGATATGTGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCT
* *
36747854 AGTGTAAGACCATGTTTGGAACATGACATCGGCATTAATATTAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCT
36747902 AGTGTAAGACCATGTTT-GAGACATGG
1 AGTGTAAGACCATGTTTGGA-ACATGG
36747928 TATCTTCATC
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 42 0.41
48 60 0.59
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCT
Found at i:36758230 original size:79 final size:81
Alignment explanation
Indices: 36758117--36758299 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
36758107 TACTCGTTCA
* *
36758117 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCCTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCCTC-GGATCTTAACCCGG
* *
36758180 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* * **
36758197 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCCTCGGATCTTAACCCGGA
* *
36758260 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
36758276 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
36758300 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCCTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:36758299 original size:40 final size:40
Alignment explanation
Indices: 36758115--36758299 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
36758105 GCTACTCGTT
* *
36758115 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * * *
36758155 CAAATGCCCTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
36758195 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
36758234 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
36758275 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36758300 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:36759497 original size:56 final size:56
Alignment explanation
Indices: 36759430--36759717 Score: 558
Period size: 56 Copynumber: 5.1 Consensus size: 56
36759420 TATTAGTTTA
*
36759430 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
1 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
36759486 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
1 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
36759542 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
1 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
36759598 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
1 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
*
36759654 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
36759710 TTGCCCAT
1 TTGCCCAT
36759718 CATCCCTTGT
Statistics
Matches: 230, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 230 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGCT
Found at i:36764511 original size:23 final size:24
Alignment explanation
Indices: 36764485--36764529 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
36764475 AAGGTAAGGT
*
36764485 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
*
36764508 AAGGTAAGTCAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
36764530 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:36766604 original size:6 final size:6
Alignment explanation
Indices: 36766577--36766621 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
36766567 TTTTGAAGAC
* * *
36766577 TTTTAT TTATTAT TTTTGT TTTTAT TTTTAC TTTTAT CTTTAT TT
1 TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
36766622 ATCTTTTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:36766611 original size:18 final size:19
Alignment explanation
Indices: 36766577--36766623 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
36766567 TTTTGAAGAC
* *
36766577 TTTTATTTATTATTTTTGT
1 TTTTATTTATTACTTTTAT
36766596 TTTTATTT-TTACTTTTAT
1 TTTTATTTATTACTTTTAT
*
36766614 CTTTATTTAT
1 TTTTATTTAT
36766624 CTTTTTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATTTATTACTTTTAT
Found at i:36769682 original size:40 final size:40
Alignment explanation
Indices: 36769623--36769767 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
36769613 CATTTGAATG
* *
36769623 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* * *
36769663 TTATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
36769703 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
36769743 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
36769768 ATTGTGCTTG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 91 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:36771785 original size:36 final size:36
Alignment explanation
Indices: 36771745--36771821 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
36771735 ATTTTGTTTG
* *
36771745 TAAGTTGAGGATTTTGCTTGAAGACATGCAAACGCT
1 TAAGTTGAAGATTTTGCTTGAAGACAAGCAAACGCT
36771781 TAAGTTGAAGATTTTGCTTGAAGACAAGCAAACGCT
1 TAAGTTGAAGATTTTGCTTGAAGACAAGCAAACGCT
36771817 TAAGT
1 TAAGT
36771822 GTGGGGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (36 bp):
TAAGTTGAAGATTTTGCTTGAAGACAAGCAAACGCT
Done.