Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 165 of 313
Found at i:51809731 original size:17 final size:18
Alignment explanation
Indices: 51809698--51809732 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51809688 AAAACACATA
51809698 TAAAAAAACAACTAAAAT
1 TAAAAAAACAACTAAAAT
*
51809716 TAAAAGAACAAC-AAAAT
1 TAAAAAAACAACTAAAAT
51809733 GGATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.14
Consensus pattern (18 bp):
TAAAAAAACAACTAAAAT
Found at i:51811269 original size:68 final size:68
Alignment explanation
Indices: 51811153--51811333 Score: 231
Period size: 68 Copynumber: 2.7 Consensus size: 68
51811143 TTTTCCACTT
* * * *
51811153 TGGCGGACTTCATTTGTTACCATAGCCTAGCTATGGTCTTACATAATATAAACTCATGTTTACTA
1 TGGCGGACTTCATATGTTGCTATAGCCTAGCTATGGTCTTACATAATATAAACCCATGTTTACTA
51811218 TCC
66 TCC
* * *
51811221 TGGCAGACTTCATATGTTGCTATAGCCTAGCTACGGTCTTAC-TCAATATAAACCCATGTTTATT
1 TGGCGGACTTCATATGTTGCTATAGCCTAGCTATGGTCTTACAT-AATATAAACCCATGTTTACT
* *
51811285 GTCT
65 ATCC
* *
51811289 TGGTGGACTCCATATGTTG-TCATAGCCTAGCTATGGTCTTACATA
1 TGGCGGACTTCATATGTTGCT-ATAGCCTAGCTATGGTCTTACATA
51811334 TTAAAACTCT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
67 2 0.02
68 94 0.97
69 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (68 bp):
TGGCGGACTTCATATGTTGCTATAGCCTAGCTATGGTCTTACATAATATAAACCCATGTTTACTA
TCC
Found at i:51812469 original size:16 final size:16
Alignment explanation
Indices: 51812448--51812479 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51812438 TAAATTAATC
*
51812448 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
51812464 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
51812480 CAACCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:51820718 original size:25 final size:25
Alignment explanation
Indices: 51820669--51820733 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
51820659 CTATTTCTCA
*
51820669 TTTCTTTCTTTCCCTTTTTCTTTTC
1 TTTCTTTCTTTCCCTTTTTCGTTTC
51820694 TTTCTTT-TTCTCCCTGTTTT-GTTTC
1 TTTCTTTCTT-TCCCT-TTTTCGTTTC
51820719 TATTCCGTTTCTTTC
1 T-TT-C-TTTCTTTC
51820734 TATTTCTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
24 2 0.06
25 17 0.52
26 6 0.18
27 1 0.03
28 5 0.15
29 2 0.06
ACGTcount: A:0.02, C:0.26, G:0.05, T:0.68
Consensus pattern (25 bp):
TTTCTTTCTTTCCCTTTTTCGTTTC
Found at i:51828967 original size:41 final size:41
Alignment explanation
Indices: 51828852--51828956 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 41
51828842 AATGAGATAA
* *
51828852 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
*
51828893 TTCAGACTTTACGTC-AGCAGGCTTGACGCCAGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
*
51828933 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
51828957 AATTGCCAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 36 0.61
41 23 0.39
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
Found at i:51830052 original size:13 final size:13
Alignment explanation
Indices: 51830034--51830060 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51830024 AGAAATTGAC
51830034 GTGAAAACATGTT
1 GTGAAAACATGTT
51830047 GTGAAAACATGTT
1 GTGAAAACATGTT
51830060 G
1 G
51830061 ATAGGGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (13 bp):
GTGAAAACATGTT
Found at i:51830692 original size:37 final size:37
Alignment explanation
Indices: 51830633--51830725 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
51830623 GAGTACTAAG
* *
51830633 TAATCCAACCGA-AACACACCAAACGCTCATGAGAGC
1 TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
*
51830669 TAATCCAACTGATAACACGCCAAACGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
*
51830706 TAATCCAACCAATAACACGC
1 TAATCCAACCGATAACACGC
51830726 TTCAGCACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 11 0.22
37 40 0.78
ACGTcount: A:0.42, C:0.32, G:0.12, T:0.14
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
Found at i:51842630 original size:15 final size:15
Alignment explanation
Indices: 51842610--51842641 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51842600 CCATCCCCTT
51842610 AGAGGAGGATCTTTC
1 AGAGGAGGATCTTTC
51842625 AGAGGAGGATCTTTC
1 AGAGGAGGATCTTTC
51842640 AG
1 AG
51842642 CTGATCGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.25
Consensus pattern (15 bp):
AGAGGAGGATCTTTC
Found at i:51847033 original size:47 final size:46
Alignment explanation
Indices: 51846979--51847073 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 46
51846969 GTGATTTAAC
*
51846979 CACATTTCTGTTATGGCAGCTTGACTGCAGTTATAGTGGCTCGACCA
1 CACATTTCTGTTATGGCAGCTTGACTGCA-ATATAGTGGCTCGACCA
* * *
51847026 CACATTTCTGTTTTGGCAGCTTGGCTGCAATATAGTGGCTTGACCA
1 CACATTTCTGTTATGGCAGCTTGACTGCAATATAGTGGCTCGACCA
51847072 CA
1 CA
51847074 TATATATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 17 0.39
47 27 0.61
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (46 bp):
CACATTTCTGTTATGGCAGCTTGACTGCAATATAGTGGCTCGACCA
Found at i:51849759 original size:22 final size:23
Alignment explanation
Indices: 51849734--51849784 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
51849724 ATAAAATTAG
51849734 ATTTTAGATTTT-TATTTTTAAA
1 ATTTTAGATTTTCTATTTTTAAA
* *
51849756 ATTTTAGTTTTTCTATTTTTCAA
1 ATTTTAGATTTTCTATTTTTAAA
*
51849779 TTTTTA
1 ATTTTA
51849785 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTAGATTTTCTATTTTTAAA
Found at i:51852763 original size:72 final size:72
Alignment explanation
Indices: 51852646--51852790 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
51852636 AATGGCCAGT
51852646 ACTTGGATTACTCTGATATCTTCCAAACATTCAAATTGCAAATGCAATGTTAGGTTTTGTGTAGA
1 ACTTGGATTACTCTGATATCTTCCAAACATTCAAATTGCAAATGCAATGTTAGGTTTTGTGTAGA
51852711 CTTGAGC
66 CTTGAGC
*
51852718 ACTTGGATTACTCTGATATCTTCCAAACATTCCAATTGCAAATGCAATGTTAGGTTTTGTGTAGA
1 ACTTGGATTACTCTGATATCTTCCAAACATTCAAATTGCAAATGCAATGTTAGGTTTTGTGTAGA
51852783 CTTGAGC
66 CTTGAGC
51852790 A
1 A
51852791 TATGTAACAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (72 bp):
ACTTGGATTACTCTGATATCTTCCAAACATTCAAATTGCAAATGCAATGTTAGGTTTTGTGTAGA
CTTGAGC
Found at i:51855237 original size:47 final size:47
Alignment explanation
Indices: 51855139--51855229 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
51855129 CGGTTTAAAA
*
51855139 AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACTGTTTCAGGC
1 AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCAGGC
* * * *
51855186 AAATGAGTTTGCAAGATTGTAGACAAAGCTTAATTACGGTTTCA
1 AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCA
51855230 ATGAAATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (47 bp):
AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCAGGC
Found at i:51862205 original size:24 final size:24
Alignment explanation
Indices: 51862172--51862228 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
51862162 TTTATGTCCC
*
51862172 AAAATCACAATGGATTGAACCTTG
1 AAAATTACAATGGATTGAACCTTG
*
51862196 AAAATTACAATGGATTGGACCTTG
1 AAAATTACAATGGATTGAACCTTG
*
51862220 AAGATTACA
1 AAAATTACA
51862229 GTGGGGGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (24 bp):
AAAATTACAATGGATTGAACCTTG
Found at i:51862675 original size:88 final size:88
Alignment explanation
Indices: 51862539--51862998 Score: 668
Period size: 88 Copynumber: 5.2 Consensus size: 88
51862529 ATGGATTGAA
* * * *
51862539 GAAGATTGTAGATCTTGTTTTCCTATACTGGCAATGAAGTAGATCGAAAACACCGGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
51862604 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * *
51862627 GAAGATTATAGATCTTGCCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACTAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
* * *
51862692 CCTAAGCAGTAATGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * *
51862715 GAAGATTGTAGATCTTGTCTTCTTGTACTAGCAGTGAAGTAGATCGATAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
51862780 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* *
51862803 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAATGAAGTAGATCGAAAACACCAGCTTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
* *
51862868 CCTGAGTAACAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * *
51862891 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATCGAAAACACTAGCCCTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
* * * ** *
51862956 CTTAAGTAGCAGTAAAGTAGGTC
66 CCTGAGCAGCAGTGGAGTAGGTT
*
51862979 GAAGATTGTAGATCCTGTCT
1 GAAGATTGTAGATCTTGTCT
51862999 CCCTAAGCAG
Statistics
Matches: 333, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 333 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
CCTGAGCAGCAGTGGAGTAGGTT
Found at i:51863655 original size:44 final size:45
Alignment explanation
Indices: 51863559--51863679 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 45
51863549 ACTAAAACCA
* * * *
51863559 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATGACTAG
* * *
51863604 -TCCTATCTCCCTGAAGTTGTAGTGGAG-TGAATTAAAATGA-TGG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAG-ATTAAAATGACTAG
* *
51863647 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
51863680 CGCATCAGAC
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 3 0.05
44 58 0.94
45 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATGACTAG
Found at i:51863915 original size:44 final size:44
Alignment explanation
Indices: 51863765--51864115 Score: 239
Period size: 44 Copynumber: 7.8 Consensus size: 44
51863755 AAGATAGTAG
* * * * *
51863765 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACACCATAACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-A-GAT-ACCA
* * *
51863811 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCA
* * * *
51863856 ACCTTGTCTCCCTGAAGTTAG-AGTGGAACA-AGTTGAGGATACCA
1 ATCTTATCTCCCTGAAGTT-GCAGTGGAGCAGA-TTGAAGATACCA
* **
51863900 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* * * **
51863944 ATCATATCTCCCTGAAGTTGCAATGGAGCAGATT-AAAATGATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCA
* * * * * * *
51863988 ATCCTATAC-CTCTGAAGTTACAGTAGGTTG--GATTAAATCTACCATAACA
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GG-AGCAGATT-GA---A-GATACCA
*
51864037 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* *
51864082 ATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
51864116 AAAACGATGA
Statistics
Matches: 242, Mismatches: 44, Indels: 40
0.74 0.13 0.12
Matches are distributed among these distances:
43 4 0.02
44 125 0.52
45 45 0.19
46 34 0.14
47 2 0.01
48 1 0.00
49 8 0.03
50 23 0.10
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
Found at i:51864269 original size:27 final size:27
Alignment explanation
Indices: 51864231--51864287 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
51864221 TATCTTTCTG
*
51864231 AAGTGCAGTGGAGTGGATCGAAGCAAC
1 AAGTGCAGTGGAGTAGATCGAAGCAAC
*
51864258 AAGTGCAGTGGAGTAGATTGAAGCAAC
1 AAGTGCAGTGGAGTAGATCGAAGCAAC
51864285 AAG
1 AAG
51864288 ACACAGTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.35, T:0.16
Consensus pattern (27 bp):
AAGTGCAGTGGAGTAGATCGAAGCAAC
Found at i:51865590 original size:3 final size:3
Alignment explanation
Indices: 51865573--51865609 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
51865563 ACATAACATC
*
51865573 ATT AAT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
51865610 CGCCATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:51872968 original size:16 final size:16
Alignment explanation
Indices: 51872949--51872979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51872939 GTTTTAAATA
51872949 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
51872965 ATATAACATTTATAA
1 ATATAAAATTTATAA
51872980 AAGAAGGTTT
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:51873343 original size:20 final size:22
Alignment explanation
Indices: 51873305--51873344 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51873295 CATATAATTT
*
51873305 TTTATAATATATATTTTTAGGA
1 TTTATAATATATATCTTTAGGA
51873327 TTTATAATATA-A-CTTTAG
1 TTTATAATATATATCTTTAG
51873345 AAATTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 1 0.06
22 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTATAATATATATCTTTAGGA
Found at i:51886411 original size:38 final size:38
Alignment explanation
Indices: 51886360--51886438 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
51886350 CCAGGATGTA
51886360 CTTATAATTGGACCCTATACGGAAGAGACTCAAAAGCC
1 CTTATAATTGGACCCTATACGGAAGAGACTCAAAAGCC
51886398 CTTATAATTGGACCCTATACGGAAGAGACTCAAAAGCC
1 CTTATAATTGGACCCTATACGGAAGAGACTCAAAAGCC
51886436 CTT
1 CTT
51886439 CATGCTAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (38 bp):
CTTATAATTGGACCCTATACGGAAGAGACTCAAAAGCC
Found at i:51892054 original size:26 final size:26
Alignment explanation
Indices: 51892025--51892076 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
51892015 AATAATAATG
*
51892025 ACGCAGCAAAGCTGCTAGTAACAGTA
1 ACGCAGCAAAGCTACTAGTAACAGTA
*
51892051 ACGCAGCAAGGCTACTAGTAACAGTA
1 ACGCAGCAAAGCTACTAGTAACAGTA
51892077 CAATATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
ACGCAGCAAAGCTACTAGTAACAGTA
Found at i:51892250 original size:27 final size:26
Alignment explanation
Indices: 51892233--51892641 Score: 350
Period size: 27 Copynumber: 15.2 Consensus size: 26
51892223 TATATTAGTC
51892233 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
*
51892260 ATTTTACCCTTCG-GAGGTATTTCGCTA
1 ATTTTACCCTTTGAG-GGTATTTCG-TA
* *
51892287 ATTTTACCCTTCGAGGGGATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
** *
51892314 ATTTTA-CCTTCTGAGGGTATAACAGTC
1 ATTTTACCCTT-TGAGGGTATTTC-GTA
* *
51892341 ATTTTACTCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
51892368 ATTTTACCCTTTG-GAGGTATTTCGATA
1 ATTTTACCCTTTGAG-GGTATTTCG-TA
* * *
51892395 ATTTTA-TCTTTCGGGGGTATTTGGTA
1 ATTTTACCCTTT-GAGGGTATTTCGTA
*
51892421 ATTTTACCCTTCGAGAGG-ATTTCGGTA
1 ATTTTACCCTTTGAG-GGTATTTC-GTA
*
51892448 ATTTTACCTTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTC-GTA
*
51892475 ATTTTACCCTTT-AGGGGTATTTTGGTA
1 ATTTTACCCTTTGA-GGGTA-TTTCGTA
*
51892502 ATTTTACCCTTTG-GAGGTATTTTAGTA
1 ATTTTACCCTTTGAG-GGTA-TTTCGTA
* * *
51892529 ATTTTACCCTTCGAGGATATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
*
51892556 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTC-GTA
* *
51892583 ATTTTACCCTTTG-GGATATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
* *
51892609 ATTTTACCC-TTCAGGGGTACTTCGGTA
1 ATTTTACCCTTTGA-GGGTATTTC-GTA
51892636 ATTTTA
1 ATTTTA
51892642 TCACAAATCG
Statistics
Matches: 319, Mismatches: 39, Indels: 48
0.79 0.10 0.12
Matches are distributed among these distances:
25 3 0.01
26 51 0.16
27 253 0.79
28 12 0.04
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTTGAGGGTATTTCGTA
Found at i:51892303 original size:54 final size:54
Alignment explanation
Indices: 51892233--51892641 Score: 415
Period size: 54 Copynumber: 7.6 Consensus size: 54
51892223 TATATTAGTC
* *
51892233 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTCGGAGGTATTTCGCTA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGGAGGTATTTCGATA
* * ** *
51892287 ATTTTACCCTTCGAGGGGATTTCGATAATTTTA-CCTTCTGAGGGTATAAC-AGTC
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGGA-GGTATTTCGA-TA
* *
51892341 ATTTTACTCTTCGAGGGTATTTCGATAATTTTACCCTTTGGAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGGAGGTATTTCGATA
* * * * *
51892395 ATTTTATCTTTCGGGGGTATTT-GGTAATTTTACCCTTCGAGAGG-ATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCG-GAGGTATTTCGATA
* * * * * *
51892448 ATTTTACCTTTTGAGGGTATTTCGGTAATTTTACCCTTTAGG-GGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCC-TTCGGAGGTATTTCGATA
* * *
51892502 ATTTTACCCTTTG-GAGGTATTT-TAGTAATTTTACCCTTC-GAGGATATTTTGATA
1 ATTTTACCCTTCGAG-GGTATTTCGA-TAATTTTACCCTTCGGAGG-TATTTCGATA
* * * *
51892556 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTGG-GATATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGGAGGTATTTCGATA
* *
51892609 ATTTTACCCTTC-AGGGGTACTTCGGTAATTTTA
1 ATTTTACCCTTCGA-GGGTATTTCGATAATTTTA
51892642 TCACAAATCG
Statistics
Matches: 302, Mismatches: 37, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
52 2 0.01
53 96 0.32
54 192 0.64
55 12 0.04
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGGAGGTATTTCGATA
Found at i:51892370 original size:81 final size:81
Alignment explanation
Indices: 51892233--51892641 Score: 442
Period size: 81 Copynumber: 5.1 Consensus size: 81
51892223 TATATTAGTC
* *
51892233 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTCGGAGGTATTTCGCTAATTTTACCCTT
1 ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTCGGAGGTATTTCGATAATTTTACCCTT
*
51892298 CGAGGGGATTTCGATA
66 CGAGGGTATTTCGATA
** * * *
51892314 ATTTTA-CCTTCTGAGGGTATAACAGTCATTTTACTCTTC-GAGGGTATTTCGATAATTTTACCC
1 ATTTTACCCTT-TGAGGGTATTTCGGTAATTTTACCCTTCGGA-GGTATTTCGATAATTTTACCC
*
51892377 TTTG-GAGGTATTTCGATA
64 TTCGAG-GGTATTTCGATA
* * * *
51892395 ATTTTA-TCTTTCGGGGGTATTT-GGTAATTTTACCCTTCGAGAGG-ATTTCGGTAATTTTACCT
1 ATTTTACCCTTT-GAGGGTATTTCGGTAATTTTACCCTTCG-GAGGTATTTCGATAATTTTACCC
* *
51892457 TTTGAGGGTATTTCGGTA
64 TTCGAGGGTATTTCGATA
* * *
51892475 ATTTTACCCTTT-AGGGGTATTTTGGTAATTTTACCCTTTGGAGGTATTT-TAGTAATTTTACCC
1 ATTTTACCCTTTGA-GGGTATTTCGGTAATTTTACCCTTCGGAGGTATTTCGA-TAATTTTACCC
* *
51892538 TTCGAGGATATTTTGATA
64 TTCGAGGGTATTTCGATA
* * * *
51892556 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTGG-GATATTTTGATAATTTTACCCTT
1 ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTCGGAGGTATTTCGATAATTTTACCCTT
* *
51892620 C-AGGGGTACTTCGGTA
66 CGA-GGGTATTTCGATA
51892636 ATTTTA
1 ATTTTA
51892642 TCACAAATCG
Statistics
Matches: 276, Mismatches: 37, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
79 1 0.00
80 105 0.38
81 167 0.61
82 3 0.01
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTCGGAGGTATTTCGATAATTTTACCCTT
CGAGGGTATTTCGATA
Found at i:51893577 original size:21 final size:23
Alignment explanation
Indices: 51893526--51893582 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
51893516 GAAGAGGGAA
*
51893526 AAGAGAAGGAAAAAAATCGACAAC
1 AAGAGAA-GAAAAAAATCGAAAAC
*
51893550 AAGAGAAGAAAAAAAT-GAAAAG
1 AAGAGAAGAAAAAAATCGAAAAC
51893572 AA-AGAAGAAAA
1 AAGAGAAGAAAA
51893583 GAAAAGATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 6 0.19
23 9 0.29
24 7 0.23
ACGTcount: A:0.70, C:0.05, G:0.21, T:0.04
Consensus pattern (23 bp):
AAGAGAAGAAAAAAATCGAAAAC
Found at i:51893586 original size:17 final size:19
Alignment explanation
Indices: 51893523--51893589 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 19
51893513 AAAGAAGAGG
51893523 GAAAAGAGAAGGAAAAAAAT
1 GAAAAGAGAA-GAAAAAAAT
51893543 CGACAACAAGAGAAGAAAAAAAT
1 -G--AA-AAGAGAAGAAAAAAAT
*
51893566 GAAAAGA-AAGAAGAAAA-
1 GAAAAGAGAAGAAAAAAAT
51893583 GAAAAGA
1 GAAAAGA
51893590 TGAGGGAGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
17 7 0.17
18 9 0.21
19 4 0.10
20 2 0.05
21 1 0.02
22 1 0.02
23 11 0.26
24 7 0.17
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.03
Consensus pattern (19 bp):
GAAAAGAGAAGAAAAAAAT
Found at i:51902095 original size:15 final size:16
Alignment explanation
Indices: 51902075--51902104 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51902065 TTTCTTTTAC
51902075 AGAAAAA-ATAAAAAA
1 AGAAAAATATAAAAAA
51902090 AGAAAAATATAAAAA
1 AGAAAAATATAAAAA
51902105 GGAAGAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (16 bp):
AGAAAAATATAAAAAA
Found at i:51903016 original size:3 final size:3
Alignment explanation
Indices: 51903010--51903041 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
51903000 CGTTTTTTTA
*
51903010 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
51903042 CTACAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:51903042 original size:12 final size:12
Alignment explanation
Indices: 51903010--51903044 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
51903000 CGTTTTTTTA
*
51903010 TATTATTATTAT
1 TATTATTACTAT
51903022 TATTATTACTAT
1 TATTATTACTAT
51903034 TATTATTACTA
1 TATTATTACTA
51903045 CAACTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:51908163 original size:13 final size:12
Alignment explanation
Indices: 51908141--51908206 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 12
51908131 TTTCATAAAT
51908141 AAAA-AAAAGGA
1 AAAAGAAAAGGA
51908152 AAAAGTAAAAGGA
1 AAAAG-AAAAGGA
*
51908165 AAAAGAAAA-AA
1 AAAAGAAAAGGA
* *
51908176 AAAAGGAGAGGAA
1 AAAAGAAAAGG-A
*
51908189 GAAAAGAAAAAGA
1 -AAAAGAAAAGGA
51908202 AAAAG
1 AAAAG
51908207 GAGAGGCCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
11 12 0.28
12 9 0.21
13 14 0.33
14 8 0.19
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAGGA
Found at i:51908179 original size:31 final size:31
Alignment explanation
Indices: 51908141--51908205 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
51908131 TTTCATAAAT
51908141 AAAAAAAAGGA-A-AAAGTAAAAGGAAAAAGAA
1 AAAAAAAAGGAGAGAAAG-AAAA-GAAAAAGAA
*
51908172 AAAAAAAAGGAGAGGAAGAAAAGAAAAAGAA
1 AAAAAAAAGGAGAGAAAGAAAAGAAAAAGAA
51908203 AAA
1 AAA
51908206 GGAGAGGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 23 0.74
32 5 0.16
33 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (31 bp):
AAAAAAAAGGAGAGAAAGAAAAGAAAAAGAA
Found at i:51909168 original size:44 final size:43
Alignment explanation
Indices: 51909078--51910015 Score: 211
Period size: 44 Copynumber: 20.8 Consensus size: 43
51909068 ATGGCGAATA
* **
51909078 TTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAATC
1 TTATC-CCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-AATC
* *
51909122 TTATCCCTCTGAAGTTGCAGTGGGGTAGATTGAAGATACAAGTC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TC
* * * *
51909166 TTA-CCTCCCTGAAGTTGTAGTGAAGCAGACTGAAGATATCAAATC
1 TTATCC-CTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AATC
* ** * * * *
51909211 TCATTTCTCTAAAGTTGCAGTGGAACATAATGAAGCTATAAATTACAGATC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACA-ATC
* * * * *
51909262 TTATCTCTCTGAAGTTGCAGTAGAGCA-AAT-CATAT-CAAATC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-AATC
* * * * ** * *
51909303 TTATCCCCCTTGAAGTTGCGGAGGAGCTGATTGAAGCCACCAGTA
1 TTATCCCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATA-CAATC
** * *
51909348 TTATCTCC-CTGAAGTTGCAGCAGAACAGACTGAAGATAGCGAATC
1 TTATC-CCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AATC
** * * *
51909393 TTATTTCTCTGGCA-TTGCAATGGAACAGATTGAAGCTATAAAGTGCAGATC
1 TTATCCCTCT-GAAGTTGCAGTGGAGCAGATTGAAG--AT--A---CA-ATC
* * * * *
51909444 TTATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAACGAT-GAATC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATT-GAA-GATACAATC
* * * * * * *
51909488 CTATTCCTCTGAAGTTACAGTAGG-TCGGATTAAATCTACCATAACAAGTC
1 TTATCCCTCTGAAGTTGCAGT-GGAGCAGATT-GA---A-GAT-ACAA-TC
* * * *
51909538 TTATCTCC-CAGAAATTGCAGTGGAGCAGACT-AAAAT-CGTAAGTC
1 TTATC-CCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAC--AA-TC
* * * *
51909582 TTATCTCC-CTGAAGTTTCAATGGAGCAGACTGAAGATAGTAGAT-
1 TTATC-CCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA-ATC
** * * *
51909626 TTATTTCTCTGAAGTTGCAGTGGAACAGATT-AAAATTACAGATA
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA-ATC
* * * * * *
51909670 TTATCTCTCTGAAGTTACAGTAGAGCA-AAT-CATAT-CAAGTC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TC
*
51909711 TTATCTCC-CTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAGATC
1 TTATC-CCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA-ATC
* * * * *
51909756 TTATCCCCCTGAAGTTGTAGTGGGGTAGATTGAAGCTACAAGTC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TC
* * *
51909800 TTATCTCC-CT-AAGGTTACAGTGGAGTAGATTGAATATAGCAAATC
1 TTATC-CCTCTGAA-GTTGCAGTGGAGCAGATTGAAGATA-C-AATC
* * *
51909845 TCATTTCC-CTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATC
1 TTA-TCCCTCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACA-ATC
* * * * * * *
51909896 TTATCTCTCTGAAATTGCAATAGAGCAGA-TCATAG-CA-AACC
1 TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGA-AGATACAATC
* * * ** *
51909937 TTATCTCTCTGAAGTTGCAGTAGAGTC-GATTAAAGCCACAAACC
1 TTATCCCTCTGAAGTTGCAGTGGAG-CAGATTGAAGATAC-AATC
51909981 TTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAG
1 TTATC-CCTCTGAAGTTGCAGTGGAGCAGATTGAAG
51910016 GTAGTGAATC
Statistics
Matches: 667, Mismatches: 143, Indels: 168
0.68 0.15 0.17
Matches are distributed among these distances:
40 1 0.00
41 65 0.10
42 28 0.04
43 29 0.04
44 261 0.39
45 134 0.20
46 14 0.02
47 6 0.01
48 1 0.00
49 6 0.01
50 31 0.05
51 84 0.13
52 6 0.01
53 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
TTATCCCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAATC
Found at i:51909358 original size:182 final size:181
Alignment explanation
Indices: 51909118--51909469 Score: 440
Period size: 182 Copynumber: 1.9 Consensus size: 181
51909108 TAAAGCCACT
* * * * *
51909118 AATCTTATCCCTCTGAAGTTGCAGTGGGGTAGATTGAAGATACAAGTCTTACCTCCCTGAAGTTG
1 AATCTTATCCCCCTGAAGTTGCAGAGGGCTAGATTGAAGACACAAGTATTACCTCCCTGAAGTTG
* * * * *
51909183 TAG-TGAAGCAGACTGAAGATATCAAATCTCATTTCTCT-AAAGTTGCAGTGGAACATAATGAAG
66 CAGCAGAA-CAGACTGAAGATAGCAAATCTCATTTCTCTGAAA-TTGCAATGGAACAGAATGAAG
*
51909246 CTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCA
129 CTATAAAGTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCA
* * * *
51909299 AATCTTATCCCCCTTGAAGTTGCGGAGGAGCT-GATTGAAGCCACCAGTATTATCTCCCTGAAGT
1 AATCTTATCCCCC-TGAAGTTGCAGAGG-GCTAGATTGAAGACACAAGTATTACCTCCCTGAAGT
* * ** *
51909363 TGCAGCAGAACAGACTGAAGATAGCGAATCTTATTTCTCTGGCATTGCAATGGAACAGATTGAAG
64 TGCAGCAGAACAGACTGAAGATAGCAAATCTCATTTCTCTGAAATTGCAATGGAACAGAATGAAG
* * *
51909428 CTATAAAGTGCAGATCTTATCTCTTTGAAGTTGCAGTGGAGC
129 CTATAAAGTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
51909470 GGATTAAAAC
Statistics
Matches: 144, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
181 12 0.08
182 126 0.88
183 6 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (181 bp):
AATCTTATCCCCCTGAAGTTGCAGAGGGCTAGATTGAAGACACAAGTATTACCTCCCTGAAGTTG
CAGCAGAACAGACTGAAGATAGCAAATCTCATTTCTCTGAAATTGCAATGGAACAGAATGAAGCT
ATAAAGTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCA
Found at i:51909767 original size:45 final size:44
Alignment explanation
Indices: 51909536--51910048 Score: 248
Period size: 44 Copynumber: 11.6 Consensus size: 44
51909526 CCATAACAAG
* * * * * *
51909536 TCTTATCTCCCAGAAATTGCAGTGGAGCAGACT-AAAATCGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAA
* * * *
51909579 GTCTTATCTCCCTGAAGTTTCAATGGAGCAGACTGAAGATAGTAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCA-A
* * * * *
51909625 T-TTATTTCTCTGAAGTTGCAGTGGAACAG-ATTAAAATTA-CAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGA-TAGCA-A
* * * * * *
51909668 TATTATCTCTCTGAAGTTACAGTAGAGCA-AAT---CATATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAA
51909708 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCA-A
* * * * * *
51909754 TCTTATCCCCCTGAAGTTGTAGTGGGGTAGATTGAAGCTA-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAA
* * * *
51909797 GTCTTATCTCCCT-AAGGTTACAGTGGAGTAGATTGAATATAGCAAA
1 -TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGAATGAAGATAGC-AA
* * * * *
51909843 TCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAG--AT--A--GCA-A
* * * * *
51909894 TCTTATCTCTCTGAAATTGCAATAGAGCAG-AT---CATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGC-AA
* * * * * **
51909935 CCTTATCTCTCTGAAGTTGCAGTAGAGTC-GATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGAATGAAGATAGC-AA
* * * *
51909979 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGTAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAG-CAA
* *
51910024 TCTTATCTCCCCGAAGCTGCAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
51910049 GGTAGAAAGA
Statistics
Matches: 365, Mismatches: 71, Indels: 65
0.73 0.14 0.13
Matches are distributed among these distances:
40 3 0.01
41 55 0.15
42 6 0.02
43 13 0.04
44 149 0.41
45 103 0.28
46 6 0.02
47 2 0.01
49 1 0.00
50 2 0.01
51 25 0.07
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAA
Found at i:51909821 original size:89 final size:89
Alignment explanation
Indices: 51909705--51909882 Score: 232
Period size: 89 Copynumber: 2.0 Consensus size: 89
51909695 CAAATCATAT
* * *
51909705 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCAGATCTTATCCCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAATGAAGATAGCAAATCTCATCCCCCTGAAG
* ***
51909770 TTGTAGTGGGGTAGATTGAAGCTA
66 TTGCAGTGGAACAGATTGAAGCTA
* * * **
51909794 CAAGTCTTATCTCCCT-AAGGTTACAGTGGAGTAGATTGAATATAGCAAATCTCATTTCCCTGAA
1 CAAGTCTTATCTCCCTGAA-GTTACAGTGGAGCAGAATGAAGATAGCAAATCTCATCCCCCTGAA
51909858 GTTGCAGTGGAACAGATTGAAGCTA
65 GTTGCAGTGGAACAGATTGAAGCTA
51909883 TAAATTACAG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
88 2 0.03
89 74 0.97
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (89 bp):
CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAATGAAGATAGCAAATCTCATCCCCCTGAAG
TTGCAGTGGAACAGATTGAAGCTA
Found at i:51910030 original size:226 final size:227
Alignment explanation
Indices: 51909261--51910039 Score: 589
Period size: 226 Copynumber: 3.5 Consensus size: 227
51909251 AATTACAGAT
* * * * *
51909261 CTTATCTCTCTGAAGTTGCAGTAGAG-CA-AAT-CA--TATCAAATCTTATCCCCCTTGAAGTTG
1 CTTATCTCTCTGAAGTTGCAGTAGAGTCAGATTAAAGCTACCAAACCTTATCTCCC-TGAAGTTG
* * * ** ** * * *** *
51909321 CGGAGGAGCTGATTGAAGCCA-CCAGTATTATCTCCCTGAAGTTGCAGCAGAACAGACTGAAGAT
65 CAGTGGAGCAGATTGAAGATAGTAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTGAAGAT
* * * * * * *
51909385 AGCGAATCTTATTTCTCTGGCA-TTGCAATGGAACAGATTGAAGCTATAAAGTGCAGATCTTATC
130 AGCAAAT-TCATTTCCCT-GAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATC
* * * * *
51909449 TCTTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATC
193 TCTCTGAAGTTGCAGTAGAGCAGATCATAAC-A--AA-C
* * * *
51909488 C-TAT-TCCTCTGAAGTTACAGTAG-GTCGGATTAAATCTACCATAACAAGTCTTATCTCCCAGA
1 CTTATCT-CTCTGAAGTTGCAGTAGAGTCAGATTAAAGCTACCA-AAC----CTTATCTCCCTGA
* * * * *
51909550 AATTGCAGTGGAGCAGACT-AAAATCGTAAGTCTTATCTCCCTGAAGTTTCAATGGAGCAGACTG
60 AGTTGCAGTGGAGCAGATTGAAGATAGTAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTG
* * * * *
51909614 AAGATAGTAGATTTATTTCTCTGAAGTTGCAGTGGAACAGA-T-----TA-AAATTACAGATATT
125 AAGATAGCAAATTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTT
* * * **
51909672 ATCTCTCTGAAGTTACAGTAGAGCAAATCATATCAAGT
190 ATCTCTCTGAAGTTGCAGTAGAGCAGATCATAACAAAC
* * * * * * * * * *
51909710 CTTATCTCCCTGAAGTTGCAGTGGAG-CAGAATGAAGATAGCAGATCTTATCCCCCTGAAGTTGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGTCAGATTAAAGCTACCAAACCTTATCTCCCTGAAGTTGC
* * * * * * * *
51909774 AGTGGGGTAGATTGAAGCTA-CAAGTCTTATCTCCCT-AAGGTTACAGTGGAGTAGATTGAATAT
66 AGTGGAGCAGATTGAAGATAGTAAGTCTTATCTCCCTGAA-GTTACAATGGAGCAGACTGAAGAT
51909837 AGCAAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCT
130 AGCAAAT-TCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCT
* * *
51909902 CTCTGAAATTGCAATAGAGCAGATCATAGCAAAC
194 CTCTGAAGTTGCAGTAGAGCAGATCATAACAAAC
*
51909936 CTTATCTCTCTGAAGTTGCAGTAGAGTC-GATTAAAGCCA-CAAACCTTATCTCCCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGTCAGATTAAAGCTACCAAACCTTATCTCCCTGAAGTTGC
* *
51909999 AGTGGAGCAGATTGAAGGTAGTGAA-TCTTATCTCCCCGAAG
66 AGTGGAGCAGATTGAAGATAGT-AAGTCTTATCTCCCTGAAG
51910040 CTGCAGTGGG
Statistics
Matches: 425, Mismatches: 97, Indels: 61
0.73 0.17 0.10
Matches are distributed among these distances:
217 2 0.00
218 64 0.15
219 30 0.07
220 1 0.00
222 2 0.00
223 28 0.07
224 2 0.00
225 42 0.10
226 144 0.34
227 10 0.02
228 1 0.00
230 4 0.01
231 2 0.00
232 3 0.01
233 26 0.06
234 55 0.13
235 9 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (227 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGTCAGATTAAAGCTACCAAACCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTGAAGATAGTAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTGAAGATA
GCAAATTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCT
CTGAAGTTGCAGTAGAGCAGATCATAACAAAC
Found at i:51910681 original size:16 final size:16
Alignment explanation
Indices: 51910660--51910692 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51910650 GATTTCTTTT
51910660 AAAGAAAGAATA-AAAA
1 AAAGAAA-AATATAAAA
51910676 AAAGAAAAATATAAAA
1 AAAGAAAAATATAAAA
51910692 A
1 A
51910693 GGAAGAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAGAAAAATATAAAA
Found at i:51910691 original size:15 final size:16
Alignment explanation
Indices: 51910660--51910692 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
51910650 GATTTCTTTT
51910660 AAAGAAAGAATAAAAA
1 AAAGAAAGAATAAAAA
*
51910676 AAAGAAA-AATATAAA
1 AAAGAAAGAATAAAAA
51910691 AA
1 AA
51910693 GGAAGAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAGAAAGAATAAAAA
Found at i:51912686 original size:37 final size:38
Alignment explanation
Indices: 51912611--51912686 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
51912601 AAGAAGAACT
*
51912611 TTTTTTTTAAAAAACTAACAAATAAATTAATTAATAAA
1 TTTTTTTTAAAAAACTAACAAATAAATAAATTAATAAA
*
51912649 TTTTTTTTAAAAAA-TAA-AGAAT-ACTAAATTAATTAAA
1 TTTTTTTTAAAAAACTAACA-AATAAATAAATTAA-TAAA
51912686 T
1 T
51912687 GAAATAGGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 9 0.26
37 11 0.32
38 14 0.41
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (38 bp):
TTTTTTTTAAAAAACTAACAAATAAATAAATTAATAAA
Found at i:51914353 original size:44 final size:43
Alignment explanation
Indices: 51914305--51914427 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 43
51914295 ATCGGCTTTA
* **
51914305 ATCTGCTCCACTGTAAGCTCAGGGAGATAAGATTTGCTT-CTTC
1 ATCTGCTCCACTGTAAGCTTAGGGAGATAAGACCTGCTTAC-TC
* *
51914348 GATCTGCCCCACTGT-AGCTTTAGGGGGATAAGACCTGCTTACTC
1 -ATCTGCTCCACTGTAAGC-TTAGGGAGATAAGACCTGCTTACTC
* * *
51914392 AGTCTGCTCCACTGCAACCTTAGGGATATAAGACCT
1 A-TCTGCTCCACTGTAAGCTTAGGGAGATAAGACCT
51914428 TATGCGATCC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.06
44 58 0.89
45 3 0.05
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTGCTCCACTGTAAGCTTAGGGAGATAAGACCTGCTTACTC
Found at i:51914615 original size:87 final size:87
Alignment explanation
Indices: 51914495--51914909 Score: 652
Period size: 87 Copynumber: 4.8 Consensus size: 87
51914485 TGCTTAGGGA
* *
51914495 CAAGATCTACTATCTTTAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
* * *
51914560 CTTTGCTGTTAAGGCAGGAAGG
66 CTTCGCTGTCAATGCAGGAAGG
*
51914582 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
*
51914647 CTTCGCTGTTAATGCAGGAAGG
66 CTTCGCTGTCAATGCAGGAAGG
* * *
51914669 CAAGATCTGCTATCTTTAATCAGCTCCACTACAACCGATGGAGGCAAGGCTTTATTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
51914734 CTTCGCTGTCAATGCAGGAAGG
66 CTTCGCTGTCAATGCAGGAAGG
* * *
51914756 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTCGTTTTTGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
51914821 CTTCGCTGTCAATGCAGGAAGG
66 CTTCGCTGTCAATGCAGGAAGG
* * * * *
51914843 TAAAATCTGAC-ATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTATTTTTGATCT
1 CAAGATCTG-CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
51914907 GCT
65 GCT
51914910 GATCTGTTCT
Statistics
Matches: 305, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
87 304 1.00
88 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
CTTCGCTGTCAATGCAGGAAGG
Found at i:51921626 original size:13 final size:13
Alignment explanation
Indices: 51921596--51921645 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
51921586 ACATTTTAAT
51921596 AAACAAATAAATG
1 AAACAAATAAATG
*
51921609 AAACAGAATAATTG
1 AAACA-AATAAATG
*
51921623 -AACAAATAAA-C
1 AAACAAATAAATG
*
51921634 AAACAAACAAAT
1 AAACAAATAAAT
51921646 AAATGAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 14 0.47
13 9 0.30
14 7 0.23
ACGTcount: A:0.68, C:0.12, G:0.06, T:0.14
Consensus pattern (13 bp):
AAACAAATAAATG
Found at i:51921875 original size:17 final size:17
Alignment explanation
Indices: 51921850--51921882 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51921840 ACATAGCTTG
*
51921850 AAATGAATAAATAAAAT
1 AAATAAATAAATAAAAT
51921867 AAATAAATAAATAAAA
1 AAATAAATAAATAAAA
51921883 AACAAAACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:51923788 original size:15 final size:15
Alignment explanation
Indices: 51923770--51923798 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51923760 TTTTTATATT
51923770 ATTATTATTATTACC
1 ATTATTATTATTACC
51923785 ATTATTATTATTAC
1 ATTATTATTATTAC
51923799 AACTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTATTATTACC
Found at i:51923985 original size:15 final size:15
Alignment explanation
Indices: 51923951--51923985 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
51923941 ATTGCTATTA
51923951 TTATTATTATTCATT
1 TTATTATTATTCATT
* *
51923966 GTATTATTATTGATT
1 TTATTATTATTCATT
51923981 TTATT
1 TTATT
51923986 TTTCTTTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATTATTATTCATT
Found at i:51927373 original size:45 final size:45
Alignment explanation
Indices: 51927324--51927769 Score: 323
Period size: 45 Copynumber: 9.6 Consensus size: 45
51927314 AGTAAAGTCA
* *
51927324 CAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
51927369 CAAATCTTATCTCCCTGAAGTTGTAATAGAGCAAATTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
51927414 TAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-AACGCTACAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G--A-TAG
* *
51927462 TTACAAATCTTATCTCCCTGAAGTTGTAGTGTAGCAGATT-AA-A-A-
1 ---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * *
51927506 CAAATCTTATCTCCTTGAAGTTGCAGTGAAGTAGATTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
51927551 CAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG
* * *
51927599 TTACAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGAT-G
1 ---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * ** * * * *
51927646 CGAATCTTATTTCTCTGAAGTTATAGTGGAACATATTAAAGCTACAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG
* * * *
51927694 TTAAAAATTTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTA-
1 ---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* *
51927741 CAATTCCTATAC-CCCTGAAGTTGCAGTGG
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGG
51927770 GTTAGAACGA
Statistics
Matches: 314, Mismatches: 62, Indels: 51
0.74 0.15 0.12
Matches are distributed among these distances:
41 33 0.11
42 2 0.01
43 1 0.00
44 58 0.18
45 109 0.35
46 1 0.00
47 4 0.01
48 6 0.02
49 1 0.00
51 99 0.32
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:51927500 original size:51 final size:50
Alignment explanation
Indices: 51927318--51927743 Score: 243
Period size: 51 Copynumber: 9.0 Consensus size: 50
51927308 CAAATCAGTA
* * *
51927318 AAGTCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAAATT--G----
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCTAC
* * * * *
51927362 AAGATAGCAAATCTTATCTCCCTGAAGTTGTAATAGAGCAAATTGAAG--A-
1 AAGTTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCTAC
* * *
51927411 TAG-T--AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAACGCTAC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-GCTAC
* *
51927459 AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGTAGCAGA-T----TA-
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCTAC
* * *
51927503 AA---ACAAATCTTATCTCCTTGAAGTTGCAGTGAAGTAGATT--G----
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCTAC
* * * *
51927544 AAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAC
1 AAGTTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCTAC
* * *
51927596 AAGTTACAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATT--G----
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCTAC
* * * * * ** * *
51927640 AAGATGCGAATCTTATTTCTCTGAAGTTATAGTGGAACATATTAAAGCTAC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCTAC
* * *
51927691 AAGTTAAAAATTTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCTAC
51927742 AA
1 AA
51927744 TTCCTATACC
Statistics
Matches: 293, Mismatches: 57, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
41 34 0.12
42 1 0.00
44 43 0.15
45 97 0.33
47 2 0.01
48 6 0.02
49 3 0.01
50 1 0.00
51 101 0.34
52 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (50 bp):
AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCTAC
Found at i:51927546 original size:137 final size:141
Alignment explanation
Indices: 51927318--51927667 Score: 489
Period size: 137 Copynumber: 2.5 Consensus size: 141
51927308 CAAATCAGTA
* * *
51927318 AAGTCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCTTATCTCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATAGCAAATCTTATCTCC
* *
51927383 CTGAAGTTGTAATAGAGCAAATTGAAGATAGTAAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
66 CTGAAGTTGCAATAGAGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
51927448 ATT-AACGCTAC
131 ATTGAA-GCTAC
* *
51927459 AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGTAGCAGATT-AA-A-A-CAAATCTTATCTCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATAGCAAATCTTATCTCC
* * * * *
51927520 TTGAAGTTGCAGT-GAAGTAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACA
66 CTGAAGTTGCAATAG-AGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACA
51927584 GATTGAAGCTAC
130 GATTGAAGCTAC
* * * *
51927596 AAGTTACAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGAT-GCGAATCTTATTTCT
1 AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATAGCAAATCTTATCTCC
51927660 CTGAAGTT
66 CTGAAGTT
51927668 ATAGTGGAAC
Statistics
Matches: 184, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
136 1 0.01
137 118 0.64
138 5 0.03
139 2 0.01
140 20 0.11
141 38 0.21
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (141 bp):
AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATAGCAAATCTTATCTCC
CTGAAGTTGCAATAGAGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
ATTGAAGCTAC
Found at i:51927688 original size:95 final size:96
Alignment explanation
Indices: 51927505--51927737 Score: 326
Period size: 95 Copynumber: 2.4 Consensus size: 96
51927495 GCAGATTAAA
* * *
51927505 ACAAATCTTATCTCCTTGAAGTTGCAGTGAAGTAGATTGAAGATAGCAAATCTTATTTTCCTGAA
1 ACAAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAA
* *
51927570 GTTGCAGTGGAACAGATTGAAGCTACAAGTT
66 GTTACAGTGGAACAGATTAAAGCTACAAGTT
* * * *
51927601 ACAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGAT-GCGAATCTTA-TTTCTCTGA
1 ACAAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTC-CTGA
* *
51927664 AGTTATAGTGGAACATATTAAAGCTACAAGTT
65 AGTTACAGTGGAACAGATTAAAGCTACAAGTT
* *
51927696 AAAAATTTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
1 ACAAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
51927738 CTACAATTCC
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
94 4 0.03
95 78 0.65
96 38 0.32
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (96 bp):
ACAAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAA
GTTACAGTGGAACAGATTAAAGCTACAAGTT
Found at i:51927785 original size:95 final size:94
Alignment explanation
Indices: 51927507--51927769 Score: 319
Period size: 95 Copynumber: 2.8 Consensus size: 94
51927497 AGATTAAAAC
* * * *
51927507 AAATCTTATCTCCTTGAAGTTGCAGTGAAGTAGATTGAAGATAGCAAATCTTATTTTCCTGAAGT
1 AAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AATCTTATTTCCCTGAAGT
*
51927572 TGCAGTGGAACAGATTGAAGCTACAAGTTAC
64 TGCAGTGGAACAGATTGAAGCTACAAGTTAA
* * * * *
51927603 AAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATGCGAATCTTATTTCTCTGAAGTT
1 AAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAC-AATCTTATTTCCCTGAAGTT
** * *
51927668 ATAGTGGAACATATTAAAGCTACAAGTTAA
65 GCAGTGGAACAGATTGAAGCTACAAGTTAA
* * * **
51927698 AAATTTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAATTCCTATACCCCTGAAGTT
1 AAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TCTTATTTCCCTGAAGTT
51927763 GCAGTGG
65 GCAGTGG
51927770 GTTAGAACGA
Statistics
Matches: 139, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
94 2 0.01
95 101 0.73
96 36 0.26
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (94 bp):
AAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAATCTTATTTCCCTGAAGTTG
CAGTGGAACAGATTGAAGCTACAAGTTAA
Found at i:51927983 original size:21 final size:21
Alignment explanation
Indices: 51927945--51927985 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51927935 CCCAAATAAG
*
51927945 AAACCAAATAAATAAATAAAT
1 AAACCAAAAAAATAAATAAAT
51927966 AAACCAAAAATAAT-AATAAA
1 AAACCAAAAA-AATAAATAAA
51927986 GTCCAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCAAAAAAATAAATAAAT
Found at i:51929848 original size:73 final size:73
Alignment explanation
Indices: 51929757--51930020 Score: 363
Period size: 73 Copynumber: 3.6 Consensus size: 73
51929747 TTATATTTGT
** * *
51929757 TTTATTTATTTATTTATTACCCTTTTACTTTTTAAATGCCTAAATTTAATATTATTTATATTTGT
1 TTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTTGT
*
51929822 TATATCTA
66 TTTATCTA
* * *
51929830 TTTATTTATTTGTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTCATATTTTT
1 TTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTTGT
51929895 TTTAT-TGA
66 TTTATCT-A
* * * *
51929903 TTTATTTACTTATTTATTATTCTTTTACTTCTTAAATACTTAAATTTAATTTTATGTATA--TGT
1 TTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTTGT
51929966 TTTATCTA
66 TTTATCTA
* * *
51929974 TCTATCTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTT
1 TTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
51930021 GATAATACTT
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
71 50 0.30
72 2 0.01
73 117 0.69
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (73 bp):
TTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTTGT
TTTATCTA
Found at i:51929856 original size:19 final size:18
Alignment explanation
Indices: 51929806--51929856 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
51929796 CTAAATTTAA
*
51929806 TATTA-TTTATATTTGTT
1 TATTATTTTTTATTTGTT
51929823 ATATCTATTTATTTATTTGTT
1 -TAT-TATTT-TTTATTTGTT
51929844 TATTATTCTTTTA
1 TATTATT-TTTTA
51929857 CTTTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.11
19 10 0.36
20 6 0.21
21 9 0.32
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (18 bp):
TATTATTTTTTATTTGTT
Found at i:51929885 original size:35 final size:35
Alignment explanation
Indices: 51929844--51929957 Score: 90
Period size: 35 Copynumber: 3.2 Consensus size: 35
51929834 TTTATTTGTT
51929844 TATTATTCTTTTACTTTTTAAATACTTAAATTTAA
1 TATTATTCTTTTACTTTTTAAATACTTAAATTTAA
* * * * *
51929879 TATTATTCATATTT--TTTTT-ATTGATTTATTTACTTATT
1 TATTATTC-T-TTTACTTTTTAAAT-ACTTA--AATTTA-A
*
51929917 TATTATTCTTTTACTTCTTAAATACTTAAATTTAA
1 TATTATTCTTTTACTTTTTAAATACTTAAATTTAA
*
51929952 TTTTAT
1 TATTAT
51929958 GTATATGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
34 2 0.03
35 22 0.38
36 8 0.14
37 8 0.14
38 16 0.28
39 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (35 bp):
TATTATTCTTTTACTTTTTAAATACTTAAATTTAA
Found at i:51931564 original size:2 final size:2
Alignment explanation
Indices: 51931557--51931581 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51931547 TGTCTTAAGT
51931557 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
51931582 TGTTTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51932158 original size:23 final size:23
Alignment explanation
Indices: 51932132--51932175 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
51932122 TGATATGGAT
*
51932132 AAAT-GAAAATATTTTATATTAAA
1 AAATAGAAAATA-TATATATTAAA
*
51932155 AAATATAAAATATATATATTA
1 AAATAGAAAATATATATATTA
51932176 GGAAATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATAGAAAATATATATATTAAA
Found at i:51934468 original size:3 final size:3
Alignment explanation
Indices: 51934460--51934512 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
51934450 AATAAATAGG
* * * *
51934460 TAA TAA TAA CAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51934508 TAA TA
1 TAA TA
51934513 GTAGGACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:51935546 original size:15 final size:15
Alignment explanation
Indices: 51935526--51935578 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
51935516 GGGCATGGTA
51935526 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
51935541 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
51935556 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
51935571 ATTGGGTT
1 ATTGGGTT
51935579 CTTTTGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:51935554 original size:8 final size:8
Alignment explanation
Indices: 51935528--51935570 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
51935518 GCATGGTAAT
51935528 TGGGTTTG
1 TGGGTTTG
*
51935536 TGGGTAT-
1 TGGGTTTG
51935543 TGGGTTTG
1 TGGGTTTG
*
51935551 TGGGTAT-
1 TGGGTTTG
51935558 TGGGTTTG
1 TGGGTTTG
51935566 TGGGT
1 TGGGT
51935571 ATTGGGTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.47
Consensus pattern (8 bp):
TGGGTTTG
Found at i:51939005 original size:21 final size:21
Alignment explanation
Indices: 51938979--51939020 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
51938969 AAAAAGAAAG
51938979 CATGAGAAAAGTTGCATCCTT
1 CATGAGAAAAGTTGCATCCTT
51939000 CATGAGAAAAGTTGCATCCTT
1 CATGAGAAAAGTTGCATCCTT
51939021 TTCCTTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
CATGAGAAAAGTTGCATCCTT
Found at i:51939376 original size:31 final size:31
Alignment explanation
Indices: 51939340--51939408 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
51939330 TCATGTATAC
* *
51939340 AATTGAATCAAAATTAAATTTTTATATACAT
1 AATTGAATCAAAATCAAACTTTTATATACAT
* * *
51939371 AATTGATTCAAAATCAAACTTTTATGTATAT
1 AATTGAATCAAAATCAAACTTTTATATACAT
51939402 AATTGAA
1 AATTGAA
51939409 CCAAGCCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (31 bp):
AATTGAATCAAAATCAAACTTTTATATACAT
Found at i:51941086 original size:12 final size:12
Alignment explanation
Indices: 51941069--51941093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51941059 AAAATGTACA
51941069 AAAAGAAAAAAG
1 AAAAGAAAAAAG
51941081 AAAAGAAAAAAG
1 AAAAGAAAAAAG
51941093 A
1 A
51941094 GCAAGCCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:51943385 original size:63 final size:64
Alignment explanation
Indices: 51943286--51943418 Score: 259
Period size: 63 Copynumber: 2.1 Consensus size: 64
51943276 TTTTACTCGA
51943286 ATGAAACAATTTCTATGATGCACTCTTAAATTATTCTAAACTAGAATGAAT-AAAAAAAAACTC
1 ATGAAACAATTTCTATGATGCACTCTTAAATTATTCTAAACTAGAATGAATAAAAAAAAAACTC
51943349 ATGAAACAATTTCTATGATGCACTCTTAAATTATTCTAAACTAGAATGAATAAAAAAAAAACTC
1 ATGAAACAATTTCTATGATGCACTCTTAAATTATTCTAAACTAGAATGAATAAAAAAAAAACTC
51943413 ATGAAA
1 ATGAAA
51943419 GAAAGAATGT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 51 0.74
64 18 0.26
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (64 bp):
ATGAAACAATTTCTATGATGCACTCTTAAATTATTCTAAACTAGAATGAATAAAAAAAAAACTC
Found at i:51943869 original size:22 final size:22
Alignment explanation
Indices: 51943844--51943886 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51943834 ACACCAAAAC
* *
51943844 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
51943866 AGGCCTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCACTTTTT
51943887 AGCGCCGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:51944035 original size:43 final size:41
Alignment explanation
Indices: 51943988--51944162 Score: 167
Period size: 43 Copynumber: 4.1 Consensus size: 41
51943978 AAAAATGCCG
51943988 CTAAAGACCAGGATCTTTAGCAGCGCTTTTCCCACAAACGCCA
1 CTAAAGACCAGGA-CTTTAGC-GCGCTTTTCCCACAAACGCCA
* *
51944031 CTAAAGACCAGGACTTTTAGCGGCGCTTTTTCCAGAAACGCCA
1 CTAAAGACCAGGAC-TTTAGC-GCGCTTTTCCCACAAACGCCA
* * *
51944074 CTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCG
1 CTAAAGACCAGGA-CTTTAGCG-CGCTTTTCCCACAAACGCCA
* * * *
51944117 CTATA-A-CATTGACTTTTAGCGACACTTTT-TCACAAACGCCA
1 CTAAAGACCA-GGAC-TTTAGCG-CGCTTTTCCCACAAACGCCA
51944158 CTAAA
1 CTAAA
51944163 AGCATAAATT
Statistics
Matches: 113, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
41 17 0.15
42 19 0.17
43 76 0.67
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (41 bp):
CTAAAGACCAGGACTTTAGCGCGCTTTTCCCACAAACGCCA
Found at i:51944093 original size:86 final size:84
Alignment explanation
Indices: 51943988--51944162 Score: 219
Period size: 86 Copynumber: 2.1 Consensus size: 84
51943978 AAAAATGCCG
* * *
51943988 CTAAAGACCAGGATCTTTAGC-AGCGCTTTTCCCACAAACGCCACTAAAGACCA-GGACTTTTAG
1 CTAAAGAACAAGACCTTTAGCGA-CGCTTTTCCCACAAACGCCACTAAA-A-CATGGACTTTTAG
* * *
51944051 CGGCGCTTTTTCCAGAAACGCCA
63 CGACACTTTTT-CACAAACGCCA
* * *
51944074 CTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAACATTGACTTTTAGCGA
1 CTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAACATGGACTTTTAGCGA
51944139 CACTTTTTCACAAACGCCA
66 CACTTTTTCACAAACGCCA
51944158 CTAAA
1 CTAAA
51944163 AGCATAAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
84 17 0.22
85 19 0.24
86 41 0.53
87 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (84 bp):
CTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAACATGGACTTTTAGCGA
CACTTTTTCACAAACGCCA
Found at i:51948140 original size:41 final size:41
Alignment explanation
Indices: 51948095--51948539 Score: 737
Period size: 41 Copynumber: 10.9 Consensus size: 41
51948085 AATATTTTTT
* * * *
51948095 GCGGCGCTTTTTTAAAAACGCCGCTAAATACCCGAGAATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
51948136 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
51948177 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
**
51948218 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCTAAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
51948259 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
* * *
51948300 GCGGTGCTTCTTCAAAAACGCCGTTAAATACCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
51948341 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
**
51948382 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCTAAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
51948423 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
* *
51948464 GCGGTGCTTCTTCAAAAACGCCGTTAAAGACCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
*
51948505 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGA
51948540 AAACTCAAAG
Statistics
Matches: 377, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 377 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTA
Found at i:51949646 original size:20 final size:20
Alignment explanation
Indices: 51949623--51949662 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51949613 CAAATGTGTT
*
51949623 AAAATTATTAATTAAAAATA
1 AAAAATATTAATTAAAAATA
**
51949643 AAAAATATTTTTTAAAAATA
1 AAAAATATTAATTAAAAATA
51949663 CTAATTACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATTAATTAAAAATA
Found at i:51954001 original size:24 final size:24
Alignment explanation
Indices: 51953966--51954011 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
51953956 TCCCCTTAGC
*
51953966 AAAT-AAACCCAATTTTATAAATAA
1 AAATAAAACCAAATTTTA-AAATAA
51953990 AAATAAAACCAAATTTTAAAAT
1 AAATAAAACCAAATTTTAAAAT
51954012 GTCCACAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAAACCAAATTTTAAAATAA
Found at i:51954882 original size:11 final size:11
Alignment explanation
Indices: 51954866--51954902 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
51954856 AGGCTCCTTT
51954866 TTTTATTTTTC
1 TTTTATTTTTC
*
51954877 TTTTATTTATC
1 TTTTATTTTTC
*
51954888 TTTTTTTTTTC
1 TTTTATTTTTC
51954899 TTTT
1 TTTT
51954903 CGTTTTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:51961213 original size:17 final size:18
Alignment explanation
Indices: 51961191--51961232 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
51961181 CAAGAATTAC
51961191 TTATCGATGT-TCAAGAT
1 TTATCGATGTATCAAGAT
*
51961208 TTATCGAATTTATCAAGAT
1 TTATCG-ATGTATCAAGAT
51961227 TT-TCGA
1 TTATCGA
51961233 GAAAGCTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 6 0.27
19 9 0.41
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (18 bp):
TTATCGATGTATCAAGAT
Found at i:51965949 original size:17 final size:18
Alignment explanation
Indices: 51965927--51965968 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
51965917 CAAGAATTAC
51965927 TTATCGATGT-TCAAGAT
1 TTATCGATGTATCAAGAT
*
51965944 TTATCGAATTTATCAAGAT
1 TTATCG-ATGTATCAAGAT
51965963 TT-TCGA
1 TTATCGA
51965969 GAAAGCTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 6 0.27
19 9 0.41
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (18 bp):
TTATCGATGTATCAAGAT
Found at i:51967121 original size:9 final size:9
Alignment explanation
Indices: 51967107--51967137 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51967097 GTTAAACGAA
51967107 TCGAGTTAT
1 TCGAGTTAT
*
51967116 TCGAGTTAA
1 TCGAGTTAT
51967125 TCGAGTTAT
1 TCGAGTTAT
51967134 TCGA
1 TCGA
51967138 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:51968618 original size:3 final size:3
Alignment explanation
Indices: 51968610--51968640 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
51968600 CCTCATCTCA
51968610 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
51968641 GATGCCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51980247 original size:15 final size:14
Alignment explanation
Indices: 51980219--51980252 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51980209 TATTTATATG
*
51980219 TATTAAATTATTTT
1 TATTTAATTATTTT
51980233 TATTTAATTATTTTT
1 TATTTAATTA-TTTT
51980248 TATTT
1 TATTT
51980253 TTAAAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTAATTATTTT
Found at i:51986540 original size:20 final size:19
Alignment explanation
Indices: 51986509--51986553 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
51986499 ATATATTTTT
51986509 AAAA-ATTTTAAATTATTA
1 AAAATATTTTAAATTATTA
*
51986527 AAAATATTTATAAATTTTTA
1 AAAATATTT-TAAATTATTA
*
51986547 CAAATAT
1 AAAATAT
51986554 AATGATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATATTTTAAATTATTA
Found at i:51994910 original size:21 final size:21
Alignment explanation
Indices: 51994884--51994936 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
51994874 CATTGTTTCT
* *
51994884 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
51994905 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
51994926 AATCTCACCGC
1 AATCTCACCGC
51994937 CACCAATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:51995415 original size:34 final size:35
Alignment explanation
Indices: 51995357--51995422 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
51995347 GGTGTACCGT
51995357 TAAACTATTAAAAAGGGATACAACAAATGATGCTG
1 TAAACTATTAAAAAGGGATACAACAAATGATGCTG
*
51995392 TAAACTATTGAAAA-GGATACAACAAATGATG
1 TAAACTATTAAAAAGGGATACAACAAATGATG
51995423 TTGATTTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.23
Consensus pattern (35 bp):
TAAACTATTAAAAAGGGATACAACAAATGATGCTG
Found at i:52000508 original size:12 final size:11
Alignment explanation
Indices: 52000479--52000509 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
52000469 AAGGGGTGGA
52000479 AAAAGAGAAAT
1 AAAAGAGAAAT
52000490 AAAAGAGAAAT
1 AAAAGAGAAAT
52000501 AAATAGAGA
1 AAA-AGAGA
52000510 TAATCCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (11 bp):
AAAAGAGAAAT
Found at i:52001175 original size:24 final size:26
Alignment explanation
Indices: 52001130--52001180 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
52001120 CAAACTTTAT
* * *
52001130 TTAATAATAAGTTTTGATATAATAAA
1 TTAATAATAAGTTTTAAAATAAAAAA
52001156 TTAA-AATAA-TTTTAAAATAAAAAA
1 TTAATAATAAGTTTTAAAATAAAAAA
52001180 T
1 T
52001181 AAAGTTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 5 0.23
26 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
TTAATAATAAGTTTTAAAATAAAAAA
Found at i:52001327 original size:20 final size:19
Alignment explanation
Indices: 52001284--52001334 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
52001274 TCAACTTTTA
52001284 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAAAT-ATTTC
52001304 AATCAAGTTAAAAT-TTTCC
1 AATCAAGTTAAAATATTT-C
52001323 TAATC-AGTTAAA
1 -AATCAAGTTAAA
52001335 CTGTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 18 0.62
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (19 bp):
AATCAAGTTAAAATATTTC
Found at i:52002650 original size:25 final size:25
Alignment explanation
Indices: 52002616--52002665 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52002606 GAAAAAAAAA
52002616 GTATATGGATAAAATGCAATTTTAT
1 GTATATGGATAAAATGCAATTTTAT
52002641 GTATATGGATAAAATGCAATTTTAT
1 GTATATGGATAAAATGCAATTTTAT
52002666 TGTCTCTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (25 bp):
GTATATGGATAAAATGCAATTTTAT
Found at i:52012584 original size:22 final size:20
Alignment explanation
Indices: 52012559--52012598 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52012549 TATAGGAAAA
52012559 TATTAAAAAATTCATAAAAAGC
1 TATT-AAAAATT-ATAAAAAGC
*
52012581 TATTAATAATTATAAAAA
1 TATTAAAAATTATAAAAA
52012599 TGGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TATTAAAAATTATAAAAAGC
Found at i:52013160 original size:22 final size:22
Alignment explanation
Indices: 52013117--52013160 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
52013107 TAAATTATTA
*
52013117 ATATTATTAGTTATATTAAAAT
1 ATATTAATAGTTATATTAAAAT
*
52013139 ATATTAATA-TTATTATTCAAAT
1 ATATTAATAGTTA-TATTAAAAT
52013161 CATGATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAATAGTTATATTAAAAT
Found at i:52014412 original size:14 final size:14
Alignment explanation
Indices: 52014377--52014418 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
52014367 GAAAAGTGAG
52014377 AAGTGCTT-TTAAA
1 AAGTGCTTATTAAA
*
52014390 AAGTG-TTATGAAA
1 AAGTGCTTATTAAA
52014403 AAGTGCTTATTAAA
1 AAGTGCTTATTAAA
52014417 AA
1 AA
52014419 AGTAAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 14 0.56
14 9 0.36
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (14 bp):
AAGTGCTTATTAAA
Found at i:52018482 original size:50 final size:50
Alignment explanation
Indices: 52018415--52018566 Score: 164
Period size: 51 Copynumber: 3.0 Consensus size: 50
52018405 GCTAGGTCAT
* *
52018415 GTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAAAATGATAGGTCGCA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAGGTCGCA
* ** * ** **
52018466 -TGTGTAGTACTATGTGCAGGCTACTATGCATACCGAATAGCTTTG-AACA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GATAGGTCGCA
52018515 TGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
1 -GTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAGGTCGCA
52018567 CGTGAAGAGA
Statistics
Matches: 78, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
49 5 0.06
50 33 0.42
51 34 0.44
52 6 0.08
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGGTCGCA
Found at i:52020324 original size:57 final size:59
Alignment explanation
Indices: 52020261--52020384 Score: 155
Period size: 57 Copynumber: 2.2 Consensus size: 59
52020251 GACTTCTATT
* * *
52020261 CAAAGAAAATG-AAAGAAGGAAAAATAGTTTAAAGAACTGCTACAAAAGTTG-AAGAAC
1 CAAAGAAAAGGAAAAGAAGGAAAAATAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
** * *
52020318 CAAAG-AAAGGAAAAGTTGGGAAAGTAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
1 CAAAGAAAAGGAAAAGAAGGAAAAATAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
*
52020376 CAGAGAAAA
1 CAAAGAAAA
52020385 AGTTGTTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
56 4 0.07
57 39 0.70
58 10 0.18
59 3 0.05
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.15
Consensus pattern (59 bp):
CAAAGAAAAGGAAAAGAAGGAAAAATAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
Found at i:52024999 original size:20 final size:22
Alignment explanation
Indices: 52024955--52025003 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
52024945 TACCTCTAGT
* *
52024955 GAAGTACAAGTACTTCTTAGGA
1 GAAGTACAACTACATCTTAGGA
52024977 GAAGTACAACTACAT-TT-GGA
1 GAAGTACAACTACATCTTAGGA
52024997 GAAGTAC
1 GAAGTAC
52025004 TAATACAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (22 bp):
GAAGTACAACTACATCTTAGGA
Found at i:52025296 original size:23 final size:22
Alignment explanation
Indices: 52025222--52025296 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
52025212 CCAAACATAA
*
52025222 CAATCATAAAACATGCTTACAAA-A
1 CAATCATAAAACAT-C-T-CAAACT
*
52025246 CGATCAT-AAACATC-CAAAGCT
1 CAATCATAAAACATCTCAAA-CT
*
52025267 CATTCATAAAACATACTCAAACT
1 CAATCATAAAACAT-CTCAAACT
52025290 CAATCAT
1 CAATCAT
52025297 CATCCATCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
19 4 0.10
21 5 0.12
22 7 0.17
23 15 0.37
24 10 0.24
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (22 bp):
CAATCATAAAACATCTCAAACT
Found at i:52030531 original size:128 final size:129
Alignment explanation
Indices: 52030313--52030622 Score: 416
Period size: 128 Copynumber: 2.4 Consensus size: 129
52030303 TTTCTAAAAT
** * *
52030313 CGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCTAGAAACGCCGCTAAAGACCAAGACCTT
1 CGCCGCTAAAGACCACGACCTTTAGAGGCGCTTTTTCCAGAAACGCCGCTAAAGACCAAGACCTT
*
52030378 TAGCGGCGCTTTTCCCACAAGCGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
52030442 CGCCGCTATAGACCACGACCTTTAGAGAG-GC-TTTTCCAGAAACGCCGTTATAGATCGC-A-AC
1 CGCCGCTAAAGACCACGACCTTTAGAG-GCGCTTTTTCCAGAAACGCCGCTAAAGA-C-CAAGAC
* *
52030503 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGACCGCGACCTTTAGCGGCGCTTTTCCCACA
63 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCACA
52030568 AA
128 AA
* * *
52030570 CGCCGCTAAAGATCACGACCTTTAGCA-GCGC-TTCTCGCAAAAACGCCGCTAAA
1 CGCCGCTAAAGACCACGACCTTTAG-AGGCGCTTTTTC-CAGAAACGCCGCTAAA
52030623 AACATAACCT
Statistics
Matches: 159, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
127 1 0.01
128 115 0.72
129 41 0.26
130 2 0.01
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (129 bp):
CGCCGCTAAAGACCACGACCTTTAGAGGCGCTTTTTCCAGAAACGCCGCTAAAGACCAAGACCTT
TAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:52030621 original size:43 final size:43
Alignment explanation
Indices: 52030313--52030622 Score: 381
Period size: 43 Copynumber: 7.2 Consensus size: 43
52030303 TTTCTAAAAT
** * * *
52030313 CGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCTAGAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* *
52030356 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAG
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
*
52030399 CGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
52030442 CGCCGCTATAGACCACGACCTTTAGAGAG-GCTTTT-CCAGAAA
1 CGCCGCTAAAGACCACGACCTTTAGCG-GCGCTTTTCCCACAAA
* * * * * *
52030484 CGCCGTTATAGATCGCAACCTTTAGCGGCGTTTTTCCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* *
52030527 CGCCGCTATAGACCGCGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * * * *
52030570 CGCCGCTAAAGATCACGACCTTTAGCAGCGCTTCTCGCAAAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
52030613 CGCCGCTAAA
1 CGCCGCTAAA
52030623 AACATAACCT
Statistics
Matches: 236, Mismatches: 28, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
41 1 0.00
42 33 0.14
43 201 0.85
44 1 0.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:52030753 original size:117 final size:118
Alignment explanation
Indices: 52030546--52030773 Score: 361
Period size: 117 Copynumber: 1.9 Consensus size: 118
52030536 AGACCGCGAC
* *
52030546 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCACGACCTTTAGCAGCGCTTCTCGCAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACACAACCTTTAGCAGCGCTTCTCGCAAA
*
52030611 AACGCCGCTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAAATACTAT
66 AACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAAATACTAT
* *
52030664 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACA-AACCTTTGGC-GACGCTTCTCGCAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACACAACCTTTAGCAG-CGCTTCTCGCAA
* **
52030727 AAATGCCACTAAAAACATAACCTTTAAAAAATTTTATTTTAATCAAA
65 AAACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAA
52030774 TAATATTTAC
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
116 1 0.01
117 63 0.62
118 37 0.37
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (118 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACACAACCTTTAGCAGCGCTTCTCGCAAA
AACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAAATACTAT
Found at i:52031966 original size:17 final size:19
Alignment explanation
Indices: 52031930--52031966 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
52031920 CCAGAAGCTC
*
52031930 AAATCACAATAAATAATAA
1 AAATCACAATAAAAAATAA
52031949 AAAT-ACAA-AAAAAATAA
1 AAATCACAATAAAAAATAA
52031966 A
1 A
52031967 TACGGCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATCACAATAAAAAATAA
Found at i:52036190 original size:29 final size:29
Alignment explanation
Indices: 52036141--52036197 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
52036131 AATTGGACAT
* *
52036141 TGGTAACACCTAATCCATAAACCTTAAAA
1 TGGTAACACCTAAACCATAAACCCTAAAA
* *
52036170 TGGTAACACTTAAACCTTAAACCCTAAA
1 TGGTAACACCTAAACCATAAACCCTAAA
52036198 CCATGTATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.25
Consensus pattern (29 bp):
TGGTAACACCTAAACCATAAACCCTAAAA
Found at i:52037503 original size:41 final size:41
Alignment explanation
Indices: 52037441--52037636 Score: 293
Period size: 41 Copynumber: 4.8 Consensus size: 41
52037431 AGATTTTATT
* *
52037441 ATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAGACACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
* * * *
52037482 ATTAGCGGCGCTTTTTTAAAAATGCCGTTAAAGGCACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
*
52037523 ATTAGCGGCGCTTTCTCAAAAACGCCACTAAAGGCACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
* *
52037564 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
* *
52037605 ATTAGCGGTGCTTTCTCAAAAGCGCCGCTAAA
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
52037637 TGCCTCAAAA
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
Found at i:52042856 original size:25 final size:26
Alignment explanation
Indices: 52042801--52042856 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
52042791 CCCCAACAAC
52042801 ATTTTAACGATTTTACCCTTAGTAAA
1 ATTTTAACGATTTTACCCTTAGTAAA
* *
52042827 ATTTTAACGATTTTGCCC-TGGTAAA
1 ATTTTAACGATTTTACCCTTAGTAAA
52042852 ATTTT
1 ATTTT
52042857 GAGAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (26 bp):
ATTTTAACGATTTTACCCTTAGTAAA
Found at i:52044832 original size:13 final size:14
Alignment explanation
Indices: 52044785--52044825 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
52044775 ATGGAGGTAG
*
52044785 GATTCTCTATATCT
1 GATTCTGTATATCT
52044799 -ATTCTGTATATCT
1 GATTCTGTATATCT
52044812 GATTCTGT-TATCT
1 GATTCTGTATATCT
52044825 G
1 G
52044826 TATCTGTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:52050315 original size:24 final size:23
Alignment explanation
Indices: 52050284--52050330 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
52050274 TATTCACACA
52050284 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
52050307 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
52050331 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:52050608 original size:22 final size:24
Alignment explanation
Indices: 52050566--52050609 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
52050556 TAACGAAGCT
52050566 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
52050590 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
52050610 TATTGTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:52051210 original size:5 final size:5
Alignment explanation
Indices: 52051190--52051246 Score: 91
Period size: 5 Copynumber: 11.6 Consensus size: 5
52051180 TTAGTTTATT
52051190 TAATA T-ATA TTAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA -TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
52051240 T-ATA TAA
1 TAATA TAA
52051247 AACATAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
4 7 0.14
5 39 0.80
6 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:52054049 original size:25 final size:25
Alignment explanation
Indices: 52054012--52054073 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
52054002 ACAGATGTAC
* *
52054012 TAATCGGAAAGCACTAACAAGCTAA
1 TAATCAGAGAGCACTAACAAGCTAA
* ***
52054037 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTAACAAGCTAA
52054062 TAATCAGAGAGC
1 TAATCAGAGAGC
52054074 GCGCTAAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACAAGCTAA
Found at i:52058895 original size:12 final size:12
Alignment explanation
Indices: 52058878--52058902 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52058868 GGTGTTCATT
52058878 CGGTTAACCGAC
1 CGGTTAACCGAC
52058890 CGGTTAACCGAC
1 CGGTTAACCGAC
52058902 C
1 C
52058903 CGAAATTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:52060113 original size:126 final size:126
Alignment explanation
Indices: 52059886--52060362 Score: 699
Period size: 126 Copynumber: 3.8 Consensus size: 126
52059876 TAATTTCGAG
* *
52059886 TTGACGTTTCTGATCAAATAGTATAAAATCGTTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
52059951 AAATTGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAACAATTATTTTT
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
* * *
52060012 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGTAAGATGCTATTTGAGAATAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
52060077 AAATCGTGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
** * * *
52060138 TTGACGTTTCTGAATAAATAATATAAAATCGCTACTAGCAGGGTGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
** * * *
52060203 AAATTACG-GCTCGTGGACACGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
* * *
52060261 TTGACGTTTCTAAGCAAATAGTATAAAATCGTTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
52060326 AAATCACGCCCTTGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAG
52060363 CATGTTTGGG
Statistics
Matches: 314, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
123 69 0.22
124 26 0.08
125 41 0.13
126 178 0.57
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:52060328 original size:249 final size:252
Alignment explanation
Indices: 52059886--52060362 Score: 728
Period size: 249 Copynumber: 1.9 Consensus size: 252
52059876 TAATTTCGAG
* * *
52059886 TTGACGTTTCTGATCAAATAGTATAAAATCGTTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGATCAAATAATATAAAATCGCTACTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
52059951 AAATTGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAACAATTATTTTTTTGA
66 AAATTACGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTTTTGA
* * * *
52060016 CGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGTAAGATGCTATTTGAGAATAATTTGTGAAAT
131 CGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTTGAAAAGAATTTGTGAAAT
**
52060081 CGTGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
196 CACGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
*
52060138 TTGACGTTTCTGAAT-AAATAATATAAAATCGCTACTAGCAGGGTGCTATTTGAGAAGAATTTGT
1 TTGACGTTTCTG-ATCAAATAATATAAAATCGCTACTAGCAGGATGCTATTTGAGAAGAATTTGT
* * * *
52060202 GAAATTACG-GCTCGTGGACACGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTTTTG
65 GAAATTACGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTTTTG
* *
52060264 ACGTTTCTAAGCAAATAGTATAAAATCGTTTCTAGCAGGATGCTATTTGAAAAGAATTTGTGAAA
130 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTTGAAAAGAATTTGTGAAA
* *
52060329 TCACGCCCTTGTGGACGCGCTTTTGCTACAGTAG
195 TCACGCCCTCGTGGACACGCTTTTGCTACAGTAG
52060363 CATGTTTGGG
Statistics
Matches: 203, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
249 97 0.48
250 1 0.00
251 38 0.19
252 65 0.32
253 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (252 bp):
TTGACGTTTCTGATCAAATAATATAAAATCGCTACTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATTACGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTTTTGA
CGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTTGAAAAGAATTTGTGAAAT
CACGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:52062706 original size:23 final size:23
Alignment explanation
Indices: 52062680--52062820 Score: 71
Period size: 23 Copynumber: 6.0 Consensus size: 23
52062670 ATGTAAAATT
* * *
52062680 ATTAACTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGAGTTTTTA
52062703 ATTAAATTAGGTTAGAGTTTTT-
1 ATTAAATTAGGTTAGAGTTTTTA
* *
52062725 A--AAGTTAAGGCTTAGGGTTTTTA
1 ATTAAATT-AGG-TTAGAGTTTTTA
* *
52062748 AGTT--A--GGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGAGTTTTTA
52062768 ATTAAATTAGGTTAGGGTTAGGATTTTTA
1 ATTAAATTAGGTTA--G--A-G-TTTTTA
* *
52062797 ATTAAATTATGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGAGTTTTTA
52062820 A
1 A
52062821 AGTTAAGGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
19 2 0.02
20 17 0.19
21 6 0.07
22 11 0.12
23 32 0.35
24 1 0.01
25 1 0.01
27 1 0.01
28 1 0.01
29 19 0.21
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (23 bp):
ATTAAATTAGGTTAGAGTTTTTA
Found at i:52062761 original size:20 final size:21
Alignment explanation
Indices: 52062712--52062772 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
52062702 AATTAAATTA
*
52062712 GGTTAGAGTTTTTAAAGTTAAG
1 GGTTAGGGTTTTT-AAGTTAAG
*
52062734 GCTTAGGGTTTTTAAGTT-AG
1 GGTTAGGGTTTTTAAGTTAAG
52062754 GGTTAGGGTTTTTAA-TTAA
1 GGTTAGGGTTTTTAAGTTAA
52062773 ATTAGGTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
21 5 0.14
22 11 0.31
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:52062782 original size:29 final size:29
Alignment explanation
Indices: 52062749--52062815 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
52062739 GGGTTTTTAA
*
52062749 GTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGATTTTTAATTAAATTAG
*
52062778 GTTAGGGTTAGGATTTTTAATTAAATTAT
1 GTTAGGGTTAGGATTTTTAATTAAATTAG
52062807 GTTAGGGTT
1 GTTAGGGTT
52062816 TTTAAAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTAGGATTTTTAATTAAATTAG
Found at i:52062929 original size:22 final size:22
Alignment explanation
Indices: 52062899--52062954 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
52062889 CGGACTACAG
52062899 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
*
52062921 TTAGAGTTTTT-AAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
52062942 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
52062955 TTAAATTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAGGT
Found at i:52062975 original size:29 final size:29
Alignment explanation
Indices: 52062942--52063505 Score: 582
Period size: 29 Copynumber: 19.0 Consensus size: 29
52062932 AAGTTAAGGT
*
52062942 TTAGGGTTTTTAATTAAATTAGGTTAGAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52062971 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063000 TTAGGGTTTGTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
52063029 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063058 TTTA-TGTTTTTAAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTT-AATTAAATTAGGTTAGGG
52063088 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
52063117 TTTA-GGTTTTTAAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTT-AATTAAATTAGGTTAGGG
*
52063147 TTAGAGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* **
52063176 GTAGGGTTTTTAATTAAATTATTAAATTA-GG
1 TTAGGGTTTTTAATT-AA--ATTAGGTTAGGG
* **
52063207 TTAGGATTAGGGTTT--TT-AATTAAATTAGGTTAGGG
1 TTAGGGTT----TTTAATTAAATT-AGGT----TAGGG
52063242 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063271 -T----TTTGT-ATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
** * * *
52063294 TTTTTAAAGTTAAGGTTTAGAGTT--TTTAAGTTAAGGT
1 ---TTAGGGTT----TTTA-A-TTAAATTAGGTT-AGGG
*
52063331 TTAGGGTTTTTAATTAAATTAGGTTAGAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063360 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063389 TTAGGGTTTGTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
52063418 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063447 TTTA-TGTTTTTAAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTT-AATTAAATTAGGTTAGGG
52063477 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
52063506 NNNNNNNNNN
Statistics
Matches: 456, Mismatches: 36, Indels: 86
0.79 0.06 0.15
Matches are distributed among these distances:
23 17 0.04
24 4 0.01
27 1 0.00
28 3 0.01
29 270 0.59
30 96 0.21
31 14 0.03
32 7 0.02
33 6 0.01
34 12 0.03
35 14 0.03
36 6 0.01
37 4 0.01
38 2 0.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:52063096 original size:59 final size:58
Alignment explanation
Indices: 52062942--52063505 Score: 682
Period size: 59 Copynumber: 9.5 Consensus size: 58
52062932 AAGTTAAGGT
* *
52062942 TTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063000 TTAGGGTTTGTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063058 TTTA-TGTTTTTAAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTT-AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063117 TTTA-GGTTTTTAAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTT-AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
52063176 GTAGGGTTTTTAATTAAATTATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGG--TTT--TT--A--ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
52063241 G
58 G
*
52063242 TTAGGGTTTTTAATTAAATTAGGTTAGGG-T----TTTGT-ATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
** * * *
52063294 TTTTTAAAGTTAAGGTTTAGAGTT--TTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTA
1 ---TTAGGGTT----TTTA-A-TTAAATTAGGTT-AGGGTTAGGGTTTTTAATTAAATTAGGTTA
*
52063357 GAG
56 GGG
* *
52063360 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTGTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
52063418 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTA-TGTTTTTAAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTT-AATTAAATTAGGTTAGGG
52063477 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
52063506 NNNNNNNNNN
Statistics
Matches: 445, Mismatches: 31, Indels: 59
0.83 0.06 0.11
Matches are distributed among these distances:
52 17 0.04
53 4 0.01
55 6 0.01
57 3 0.01
58 141 0.32
59 179 0.40
60 5 0.01
61 6 0.01
62 2 0.00
63 8 0.02
64 5 0.01
65 4 0.01
66 65 0.15
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (58 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:52063205 original size:37 final size:37
Alignment explanation
Indices: 52063159--52063233 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
52063149 AGAGTTTTTA
*
52063159 ATTAAATTAGGTTAGGGGTAGGGTTTTTAATTAAATT
1 ATTAAATTAGGTTAGGAGTAGGGTTTTTAATTAAATT
*
52063196 ATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATT
1 ATTAAATTAGGTTAGGAGTAGGGTTTTTAATTAAATT
52063233 A
1 A
52063234 GGTTAGGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (37 bp):
ATTAAATTAGGTTAGGAGTAGGGTTTTTAATTAAATT
Found at i:52063318 original size:22 final size:22
Alignment explanation
Indices: 52063288--52063343 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
52063278 TTAAATTAGG
52063288 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
*
52063310 TTAGAGTTTTT-AAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
52063331 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
52063344 TTAAATTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAGGT
Found at i:52064396 original size:7 final size:7
Alignment explanation
Indices: 52064386--52064410 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52064376 TTATATACAT
52064386 AATACTA
1 AATACTA
52064393 AATACTA
1 AATACTA
52064400 AATACTA
1 AATACTA
52064407 AATA
1 AATA
52064411 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:52064618 original size:20 final size:20
Alignment explanation
Indices: 52064581--52064618 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52064571 TTTATTTTTA
*
52064581 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
52064601 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
52064619 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:52065612 original size:22 final size:22
Alignment explanation
Indices: 52065587--52065637 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
52065577 AAATATGGAT
52065587 TTGAGAGAATTTT-GAAAGGAAA
1 TTGAGAGAATTTTGGAAA-GAAA
52065609 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
52065631 TTGAGAG
1 TTGAGAG
52065638 GAAATATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:52069328 original size:16 final size:16
Alignment explanation
Indices: 52069307--52069356 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
52069297 CTATTTAATC
52069307 ATATAATAAATTATTA
1 ATATAATAAATTATTA
52069323 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
52069336 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
52069353 ATAT
1 ATAT
52069357 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:52069331 original size:29 final size:30
Alignment explanation
Indices: 52069299--52069356 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
52069289 TATTATTTCT
52069299 ATTTAATCA-TATAATAAATTA-TTAATATA
1 ATTT-ATCATTATAATAAATTATTTAATATA
* *
52069328 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
52069357 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:52069382 original size:13 final size:14
Alignment explanation
Indices: 52069366--52069407 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
52069356 TTTAAATTTT
52069366 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
52069379 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
52069394 ATTTTAAATAATAT
1 ATTTT-AATAATAT
52069408 TCTTCATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:52069392 original size:16 final size:16
Alignment explanation
Indices: 52069370--52069406 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
52069360 AATTTTATTT
52069370 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
52069387 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
52069402 TAATA
1 TAATA
52069407 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Done.