Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 204 of 333
Found at i:66760331 original size:43 final size:43
Alignment explanation
Indices: 66760284--66760371 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
66760274 TCTTAGTGAT
66760284 TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
1 TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
*
66760327 TTTTATTATTTATGTCTCATTACCTTAAGCACTGATGGTTGAA
1 TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
66760370 TT
1 TT
66760372 ACTTGATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.47
Consensus pattern (43 bp):
TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
Found at i:66764322 original size:163 final size:163
Alignment explanation
Indices: 66764045--66764361 Score: 465
Period size: 163 Copynumber: 1.9 Consensus size: 163
66764035 CAAAACCAAA
* * * * *
66764045 TCATTAGATGGATTTTATTGCTCCAAGAATTCAACATCGAGATTCGAGACAAGAAGGGATGCAGA
1 TCATTAGATGGAATTTACTACTCCAAGAATTCAACATCAAGATTCGAGACAAGAAAGGATGCAGA
*
66764110 AACTTAGTGGCTAACCACTTGAGTAGGTTAAAAACACCTTGTAATGACACTCCTATAAAGGATGA
66 AACTTAGTGGCTAACCACATGAGTAGGTTAAAAACACCTTGTAATGACACTCCTATAAAGGATGA
66764175 GTTTCCTGATGAGGGCCTATTTTCGACCAAGAC
131 GTTTCCTGATGAGGGCCTATTTTCGACCAAGAC
* * * * *
66764208 TCATTAGATGGAATTTACTACTTCAAGAATTCGACATCAAGCTTCGAGATACGAAAGGATGC-GA
1 TCATTAGATGGAATTTACTACTCCAAGAATTCAACATCAAGATTCGAGACAAGAAAGGATGCAG-
* * * *
66764272 AAACTTGGTGGTTGACCACATGAGTAGGTTAAAAACACCTTGTGATGACACTCCTATAAAGGATG
65 AAACTTAGTGGCTAACCACATGAGTAGGTTAAAAACACCTTGTAATGACACTCCTATAAAGGATG
* *
66764337 AGTTTCTTGATGATGGCCTATTTTC
130 AGTTTCCTGATGAGGGCCTATTTTC
66764362 AGCCAAAGTG
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
162 1 0.01
163 135 0.99
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (163 bp):
TCATTAGATGGAATTTACTACTCCAAGAATTCAACATCAAGATTCGAGACAAGAAAGGATGCAGA
AACTTAGTGGCTAACCACATGAGTAGGTTAAAAACACCTTGTAATGACACTCCTATAAAGGATGA
GTTTCCTGATGAGGGCCTATTTTCGACCAAGAC
Found at i:66768482 original size:105 final size:105
Alignment explanation
Indices: 66768300--66768492 Score: 237
Period size: 105 Copynumber: 1.8 Consensus size: 105
66768290 AAAATTAAGA
* * *
66768300 GTGTGTTGGGCTGAGTAACCGTGGTAGGGTGCTAGGGTTGTCATTCCACTTCGCATCAAAAGGGC
1 GTGTGTTGGGCTGAGTAACCGAGGTAGGGTGCTAGGGTTGTCATCCCACTTCACATCAAAAGGGC
* *
66768365 CAAAACGCTCTTAACCAAAAATAGTATAATAATAAAATAG
66 CAAAACACTCTTAACAAAAAATAGTATAATAATAAAATAG
* ** *
66768405 GTGTGTTGGGTTGAGTAATTGAGGT-GAGGTGCCT-GGGTTGTCATCCCTCTTCACATCAAAAGG
1 GTGTGTTGGGCTGAGTAACCGAGGTAG-GGTG-CTAGGGTTGTCATCCCACTTCACATCAAAAGG
* * * *
66768468 GTCAATACATTCTTAAGAAAAAATA
64 GCCAAAACACTCTTAACAAAAAATA
66768493 CAAAAAAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
104 1 0.01
105 70 0.96
106 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (105 bp):
GTGTGTTGGGCTGAGTAACCGAGGTAGGGTGCTAGGGTTGTCATCCCACTTCACATCAAAAGGGC
CAAAACACTCTTAACAAAAAATAGTATAATAATAAAATAG
Found at i:66776074 original size:23 final size:23
Alignment explanation
Indices: 66775984--66776101 Score: 107
Period size: 23 Copynumber: 5.0 Consensus size: 23
66775974 GCGACTCACC
66775984 TCAGCTCGCAT-GAGCTTACTGCTAT
1 TCAGCTCG-ATAGAGCTTACTG-T-T
66776009 ATCAGCTCG-TAAGAGCTTACTGTT
1 -TCAGCTCGAT-AGAGCTTACTGTT
*
66776033 CTCAGCTC-ATATGAACTTACTGTT
1 -TCAGCTCGATA-GAGCTTACTGTT
* * *
66776057 TTAGCTCGTTAGAGCTTACCGTT
1 TCAGCTCGATAGAGCTTACTGTT
*
66776080 TCAGCTCAATAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
66776102 CCATCAGCTC
Statistics
Matches: 77, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
23 35 0.45
24 23 0.30
25 1 0.01
26 18 0.23
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (23 bp):
TCAGCTCGATAGAGCTTACTGTT
Found at i:66776074 original size:47 final size:46
Alignment explanation
Indices: 66776012--66776101 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 46
66776002 CTGCTATATC
*
66776012 AGCTCGTAAGAGCTTACTGTTCTCAGCTC-ATATGAACTTACTGTTTT
1 AGCTCGTAAGAGCTTACCGTT-TCAGCTCAATA-GAACTTACTGTTTT
* *
66776059 AGCTCGTTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACTGT
1 AGCTCGTAAGAGCTTACCGTTTCAGCTCAATAGAACTTACTGT
66776102 CCATCAGCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
46 17 0.44
47 22 0.56
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (46 bp):
AGCTCGTAAGAGCTTACCGTTTCAGCTCAATAGAACTTACTGTTTT
Found at i:66779796 original size:10 final size:10
Alignment explanation
Indices: 66779778--66779818 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
66779768 GTAAAAGCCT
*
66779778 AAAATTTAAA
1 AAAAATTAAA
66779788 AAAAATT-AA
1 AAAAATTAAA
*
66779797 AAAATTTAAA
1 AAAAATTAAA
66779807 AAAAATTAAA
1 AAAAATTAAA
66779817 AA
1 AA
66779819 CATATAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:66779800 original size:19 final size:19
Alignment explanation
Indices: 66779778--66779818 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
66779768 GTAAAAGCCT
66779778 AAAATTTAAAAAAAATTAA
1 AAAATTTAAAAAAAATTAA
66779797 AAAATTTAAAAAAAATTAA
1 AAAATTTAAAAAAAATTAA
66779816 AAA
1 AAA
66779819 CATATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATTTAAAAAAAATTAA
Found at i:66779853 original size:18 final size:18
Alignment explanation
Indices: 66779830--66779867 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
66779820 ATATAGTTTA
*
66779830 TATTCGATTTATTCAAAT
1 TATTCGAGTTATTCAAAT
*
66779848 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCAAAT
66779866 TA
1 TA
66779868 GAAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:66779893 original size:6 final size:6
Alignment explanation
Indices: 66779876--66779906 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
66779866 TAGAAAATTT
66779876 AACTCG -ACTCG AACTCG AACTCG AACTCG AA
1 AACTCG AACTCG AACTCG AACTCG AACTCG AA
66779907 ATTCAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
AACTCG
Found at i:66790657 original size:23 final size:23
Alignment explanation
Indices: 66790630--66790673 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
66790620 TTTTCACAAA
66790630 AAAATAATAATTTTA-TATTTTAT
1 AAAATAA-AATTTTATTATTTTAT
*
66790653 AAAATAAATTTTTATTATTTT
1 AAAATAAAATTTTATTATTTT
66790674 GAAAATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AAAATAAAATTTTATTATTTTAT
Found at i:66790678 original size:22 final size:23
Alignment explanation
Indices: 66790630--66790679 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
66790620 TTTTCACAAA
*
66790630 AAAATAATAATTTTATATTTTAT
1 AAAATAATAATTTTATATTTTAG
*
66790653 AAAATAA-ATTTTTATTATTTT-G
1 AAAATAATAATTTTA-TATTTTAG
66790675 AAAAT
1 AAAAT
66790680 TGTTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AAAATAATAATTTTATATTTTAG
Found at i:66790778 original size:5 final size:5
Alignment explanation
Indices: 66790768--66790808 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
66790758 AATGGTTAAA
**
66790768 TTTCT TTTC- TTT-T TTTAA TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
66790809 GAAATGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
4 6 0.19
5 25 0.81
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:66791545 original size:21 final size:20
Alignment explanation
Indices: 66791503--66791575 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
66791493 AATCATACTA
* * *
66791503 ATTTTTATATTTTTTGTGAT
1 ATTTTTATAATTTTGGTAAT
66791523 ATTTTTATAATTTTGGTTAAT
1 ATTTTTATAATTTTGG-TAAT
*
66791544 A-TTTTATAAATTT--TAATT
1 ATTTTTATAATTTTGGTAA-T
*
66791562 AATTTTATAATTTT
1 ATTTTTATAATTTT
66791576 TATGCTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.07
18 2 0.04
19 11 0.24
20 25 0.56
21 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTTTGGTAAT
Found at i:66792718 original size:27 final size:27
Alignment explanation
Indices: 66792664--66792734 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
66792654 GTGCCATCAG
* * *
66792664 GGCATTTCTTTCAAAGTTCACCACGAA
1 GGCATCTCTTTCATATTTCACCACGAA
* *
66792691 GG-ATACTCTTTCATATTTCTCCATGAA
1 GGCAT-CTCTTTCATATTTCACCACGAA
*
66792718 GGCATTTCTTTCATATT
1 GGCATCTCTTTCATATT
66792735 GTGCCACAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.06
27 32 0.89
28 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (27 bp):
GGCATCTCTTTCATATTTCACCACGAA
Found at i:66792746 original size:27 final size:27
Alignment explanation
Indices: 66792698--66792809 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 27
66792688 GAAGGATACT
* * ** *
66792698 CTTTCATATTTCTCCATGAAGGCATTT
1 CTTTCATATTGCGCCACAAAGGCATTC
* *
66792725 CTTTCATATTGTGCCACAAAGGCGTTC
1 CTTTCATATTGCGCCACAAAGGCATTC
* * * *
66792752 CTTTCGTATTACGTCACAAAGGCGTTC
1 CTTTCATATTGCGCCACAAAGGCATTC
* *
66792779 CTTTCATATTGCACCACAAAGACATTC
1 CTTTCATATTGCGCCACAAAGGCATTC
66792806 CTTT
1 CTTT
66792810 AAGGTTCGTC
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (27 bp):
CTTTCATATTGCGCCACAAAGGCATTC
Found at i:66793803 original size:6 final size:6
Alignment explanation
Indices: 66793792--66793842 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
66793782 TGAAAAAATT
* * *
66793792 AGAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
66793841 AG
1 AG
66793843 GTAACAGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
5 2 0.05
6 31 0.84
7 3 0.08
8 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:66793849 original size:31 final size:31
Alignment explanation
Indices: 66793763--66793865 Score: 127
Period size: 31 Copynumber: 3.3 Consensus size: 31
66793753 CTAGAATTAG
* * * * *
66793763 AATCAGAATCAGAATTAGGTGAA-AAAATTAG
1 AATCAGAATCAGTATCAGGT-AACAGAATAAA
*
66793794 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAA
66793825 AATCAGAATCAGTATCAGGTAACAGAATAAAA
1 AATCAGAATCAGTATCAGGTAACAGAAT-AAA
66793857 AATCAGAAT
1 AATCAGAAT
66793866 GTAAATGCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
30 2 0.03
31 51 0.80
32 11 0.17
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATAAA
Found at i:66794044 original size:27 final size:26
Alignment explanation
Indices: 66794002--66794103 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
66793992 GCTCAGTTAT
* *
66794002 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
66794029 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
66794055 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
66794083 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
66794104 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:66794290 original size:22 final size:22
Alignment explanation
Indices: 66794262--66794326 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
66794252 GCAAATACGT
*
66794262 TTGGCACACAACCATAATCAGG
1 TTGGCACAAAACCATAATCAGG
* * *
66794284 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAACCATAAT-CAGG
*
66794306 TTGACACAAAACCATAATCAG
1 TTGGCACAAAACCATAATCAG
66794327 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAACCATAATCAGG
Found at i:66794802 original size:27 final size:27
Alignment explanation
Indices: 66794754--66794994 Score: 272
Period size: 27 Copynumber: 9.0 Consensus size: 27
66794744 GGGCAAAATG
* * * *
66794754 GTAATTTTACCCCACA-AGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
66794780 ATAATTCCACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
66794807 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
66794833 GATAATTCTACCTTACAGGGGTATTAC-
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
66794860 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * * * *
66794888 GCAATTTTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
66794915 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
66794942 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCA
66794969 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
66794995 GATATTTTAC
Statistics
Matches: 182, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 12 0.07
27 169 0.93
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:66794839 original size:54 final size:54
Alignment explanation
Indices: 66794754--66794998 Score: 300
Period size: 54 Copynumber: 4.6 Consensus size: 54
66794744 GGGCAAAATG
* * * * * *
66794754 GTAATTTTACCCCACA-AGGTATCTCAATAATTCCACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
66794807 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTA--TTA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
** * *
66794859 CGATAATTCTACCCTACAGGGGTATTTCGGCAATTTTACCTTATAGGGGTATTTTA
1 -G-TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
* * ***
66794915 GTAATTCTACCCTATAGGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCTTACAGGGGTATTTTA
66794969 GTAATTCTACCCTACAGGGGTATTTCGATA
1 GTAATTCTACCCTACAGGGGTATTTCGATA
66794999 TTTTACAAAT
Statistics
Matches: 165, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.02
53 15 0.09
54 142 0.86
55 2 0.01
56 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
Found at i:66794960 original size:108 final size:108
Alignment explanation
Indices: 66794788--66794995 Score: 355
Period size: 108 Copynumber: 1.9 Consensus size: 108
66794778 CAATAATTCC
*
66794788 ACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGG
1 ACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
66794853 GTATTACGATAATTCTACCCTACAGGGGTATTTCGGCAATTTT
66 GTATTACGATAATTCTACCCTACAGGGGTATTTCGGCAATTTT
* *
66794896 ACCTTATAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC-AGTAATTCTACCCTACAGG
1 ACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
* *
66794960 GGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
65 GGTATTACGATAATTCTACCCTACAGGGGTATTTCG
66794996 ATATTTTACA
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
107 1 0.01
108 93 0.99
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (108 bp):
ACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
GTATTACGATAATTCTACCCTACAGGGGTATTTCGGCAATTTT
Found at i:66795045 original size:27 final size:27
Alignment explanation
Indices: 66794983--66795163 Score: 192
Period size: 27 Copynumber: 6.8 Consensus size: 27
66794973 TTCTACCCTA
* *
66794983 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
** * *
66795009 C-GAGAATATTTTGATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
*
66795036 CAGGGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*
66795063 TAGGGGTATTTTGGTAATTTTACAAA-
1 CAGGGGTATTTTGGTAATTTTACAAAT
66795089 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AGGGGTATTTTGGTAATTTTACAAAT
**
66795116 CTAGGGGTATTTTGGTAATTTTACTGAT
1 C-AGGGGTATTTTGGTAATTTTACAAAT
* *
66795144 -TGAGGTATTTTGGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
66795164 GTAAACTAAG
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.01
26 28 0.21
27 104 0.78
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:66795157 original size:26 final size:27
Alignment explanation
Indices: 66795015--66795180 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
66795005 AAATCGAGAA
* *
66795015 TATTTTGATAATTTCACAAA-TCAGGGG
1 TATTTTGGTAATTTTACAAACT-AGGGG
**
66795042 TATTTTGGTAATTTTACAAGTTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
66795069 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
66795096 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
** * *
66795123 TATTTTGGTAATTTTACTGA-TTGAGG
1 TATTTTGGTAATTTTACAAACTAGGGG
** *
66795149 TATTTTGGTAATTTTGTAAACTAAGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
66795176 TATTT
1 TATTT
66795181 CAATAAGTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.17
27 100 0.83
28 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACTAGGGG
Found at i:66795220 original size:27 final size:27
Alignment explanation
Indices: 66795190--66795484 Score: 437
Period size: 27 Copynumber: 10.9 Consensus size: 27
66795180 TCAATAAGTT
* **
66795190 TGTAAATCGAGGATAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
**
66795217 TGTAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
*
66795244 TATAAATCGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* * *
66795271 TATAAATCGAGGGTAAAACAATAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
*
66795298 TATAAATCGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
*
66795325 TGTAAATCGAGGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
*
66795352 TATAAATCGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
*
66795379 TGTAAATCGAGGGTAAAATGGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
66795406 TGTAAATCGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* *
66795433 TATAAATCGAGGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* *
66795460 TGTAAATCGATGGTAAAATGGTAAT
1 TGTAAATCGAGGGTAAAATAGTAAT
66795485 CCTATCTTAT
Statistics
Matches: 247, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 247 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
TGTAAATCGAGGGTAAAATAGTAATTC
Found at i:66795281 original size:81 final size:81
Alignment explanation
Indices: 66795192--66795489 Score: 488
Period size: 81 Copynumber: 3.7 Consensus size: 81
66795182 AATAAGTTTG
* * *
66795192 TAAATCGAGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
66795257 TAAAATAGTAATTCTA
66 TAAAATAGTAATTCTA
* * * *
66795273 TAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
*
66795338 TAAAACAGTAATTCTA
66 TAAAATAGTAATTCTA
* *
66795354 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
66795419 TAAAATAGTAATTCTA
66 TAAAATAGTAATTCTA
* *
66795435 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGATGGTAAAATGGTAATCCTAT
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
66795490 CTTATTTCAG
Statistics
Matches: 200, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 200 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
TAAAATAGTAATTCTA
Found at i:66795522 original size:27 final size:27
Alignment explanation
Indices: 66795492--66795583 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
66795482 AATCCTATCT
*
66795492 TATTTCAGTAATTTTACAAATCGAGGA
1 TATTTCAGTAATTTTACAAATCGAGGG
** * *
66795519 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
66795546 TACTTT-GGTAATTTTACAAGTCCAGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
66795573 TATTTCAGTAA
1 TATTTCAGTAA
66795584 CTTGGTAAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.06
27 47 0.89
28 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:66805362 original size:49 final size:49
Alignment explanation
Indices: 66805289--66805386 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
66805279 TTATGTATGA
*
66805289 AAAGTCATTGGTTATATACCTGTTATACACATGAAAAATAAGATTCACT
1 AAAGTCATTGGTTATATACATGTTATACACATGAAAAATAAGATTCACT
*
66805338 AAAGTCATTGGTTATATACATGTTATATACATGAAAAATAAGATTCACT
1 AAAGTCATTGGTTATATACATGTTATACACATGAAAAATAAGATTCACT
66805387 CTCAAAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (49 bp):
AAAGTCATTGGTTATATACATGTTATACACATGAAAAATAAGATTCACT
Found at i:66813432 original size:30 final size:30
Alignment explanation
Indices: 66813396--66813477 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
66813386 CATGACACAT
* *
66813396 GGGCGTGTGGCCTACCCGTGTGTTTAACAC
1 GGGCGTGTGGCCTACCCGTGTGTCTAACAA
*
66813426 GGGCGTGTGACCTACCCGTGTGTCTAACAA
1 GGGCGTGTGGCCTACCCGTGTGTCTAACAA
* **
66813456 GGGTGTGTGGATTACCCGTGTG
1 GGGCGTGTGGCCTACCCGTGTG
66813478 GAAGTGCCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (30 bp):
GGGCGTGTGGCCTACCCGTGTGTCTAACAA
Found at i:66823686 original size:26 final size:26
Alignment explanation
Indices: 66823653--66823707 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
66823643 CCCTCTTTGA
66823653 TCAATAAAGTGCATTTTATATTGCTT
1 TCAATAAAGTGCATTTTATATTGCTT
66823679 TCAATAAAGTGCATTTTATATTGCTT
1 TCAATAAAGTGCATTTTATATTGCTT
66823705 TCA
1 TCA
66823708 TATTTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (26 bp):
TCAATAAAGTGCATTTTATATTGCTT
Found at i:66827176 original size:27 final size:28
Alignment explanation
Indices: 66827146--66827202 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
66827136 TTTGTGTATT
*
66827146 TGTGAAA-GAGGGACTAAATTGTAAAAA
1 TGTGAAACGAGGGACTAAAGTGTAAAAA
* *
66827173 TGTGAAACTTAGGGGCTAAAGTGTAAAAA
1 TGTGAAAC-GAGGGACTAAAGTGTAAAAA
66827202 T
1 T
66827203 TCCCAAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
29 18 0.72
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (28 bp):
TGTGAAACGAGGGACTAAAGTGTAAAAA
Found at i:66827636 original size:43 final size:42
Alignment explanation
Indices: 66827554--66827709 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
66827544 TGTGACTACA
* * *
66827554 TGTAAGACCATGTCTGGGACATTGGCATTGTATTTTGATTACG
1 TGTAAGACCATGTCTGGGATATTGGCATCGTA-TATGATTACG
* *
66827597 TGTAAGACCATGTCTGGGATATTGGCACCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGATATTGGCATCG-TATATGATTACG
* * * * * *
66827640 TGTAAGA-CACTGTTTAGGATAGTGGCATCGATATGTGATAACA
1 TGTAAGACCA-TGTCTGGGATATTGGCATCG-TATATGATTACG
*
66827683 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGATATTGGCAT
66827710 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 8 0.09
43 81 0.87
44 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGATATTGGCATCGTATATGATTACG
Found at i:66827869 original size:22 final size:22
Alignment explanation
Indices: 66827844--66827888 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
66827834 AGTATTTGAA
66827844 AAGGGAAGTATTTGATGAACTC
1 AAGGGAAGTATTTGATGAACTC
66827866 AAGGGAAGTATTTGATGAACTC
1 AAGGGAAGTATTTGATGAACTC
66827888 A
1 A
66827889 CTTACGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (22 bp):
AAGGGAAGTATTTGATGAACTC
Found at i:66829935 original size:18 final size:18
Alignment explanation
Indices: 66829890--66829935 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
66829880 ATGCTAGAAC
66829890 TTATATG-TTTAATATTA
1 TTATATGATTTAATATTA
* *
66829907 -TAAATGTATTTAATTTTA
1 TTATATG-ATTTAATATTA
66829925 TTATATGATTT
1 TTATATGATTT
66829936 TTTTTCTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 5 0.22
18 13 0.57
19 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TTATATGATTTAATATTA
Found at i:66831374 original size:13 final size:13
Alignment explanation
Indices: 66831351--66831379 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66831341 TTTGCTTATA
66831351 TTTGTTGCTTGTG
1 TTTGTTGCTTGTG
66831364 TTTGTTGCTTGTG
1 TTTGTTGCTTGTG
66831377 TTT
1 TTT
66831380 TAGATCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.28, T:0.66
Consensus pattern (13 bp):
TTTGTTGCTTGTG
Found at i:66833376 original size:40 final size:40
Alignment explanation
Indices: 66833312--66833412 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
66833302 ATACGGTACC
* *
66833312 ACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTCATCCCCAT
*
66833352 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTCATCCCC--
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTCATCCCCAT
* * *
66833390 ACATGGTGTGTTGGGTTGGATGG
1 ACTTGGTGTGTAGGGCTGGATGG
66833413 AGATGGTGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 19 0.35
40 35 0.65
ACGTcount: A:0.13, C:0.15, G:0.38, T:0.35
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTCGATTTCATCCCCAT
Found at i:66854176 original size:31 final size:31
Alignment explanation
Indices: 66854126--66854184 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
66854116 AATTGTACTT
66854126 ATGAAAATTTGATTGTGATTCAACTATATAA
1 ATGAAAATTTGATTGTGATTCAACTATATAA
* * * *
66854157 ATGAAACTTTTATTTTGATTCAATTATA
1 ATGAAAATTTGATTGTGATTCAACTATA
66854185 CACATTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (31 bp):
ATGAAAATTTGATTGTGATTCAACTATATAA
Found at i:66856823 original size:12 final size:12
Alignment explanation
Indices: 66856795--66856829 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
66856785 TTTAGATTTA
66856795 AATAT-AAAATT
1 AATATAAAAATT
66856806 -ATATAAAAATT
1 AATATAAAAATT
66856817 AATATAAAAATT
1 AATATAAAAATT
66856829 A
1 A
66856830 TTATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.18
11 6 0.27
12 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATAAAAATT
Found at i:66858517 original size:15 final size:15
Alignment explanation
Indices: 66858497--66858526 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66858487 TTTTAGATTG
66858497 CATCTTTCTTTTAAA
1 CATCTTTCTTTTAAA
66858512 CATCTTTCTTTTAAA
1 CATCTTTCTTTTAAA
66858527 AATGTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (15 bp):
CATCTTTCTTTTAAA
Found at i:66859843 original size:15 final size:15
Alignment explanation
Indices: 66859805--66859847 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
66859795 TCATTAAATA
66859805 ATTTT-TATATTTTT
1 ATTTTATATATTTTT
*
66859819 A-TTAATTATATTTTT
1 ATTTTA-TATATTTTT
66859834 ATTTTATATATTTT
1 ATTTTATATATTTT
66859848 CAATTTCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 2 0.08
14 1 0.04
15 18 0.75
16 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTATATATTTTT
Found at i:66861109 original size:30 final size:29
Alignment explanation
Indices: 66861041--66861114 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
66861031 AAATCCGCCT
*
66861041 TTTTTTAATTTGCTTCCAGATTGCTTTTTA
1 TTTTTT-ATTTGCTTCCAGATTGCTTTTCA
* *
66861071 TTTATTTATTTGCTTTCAGTTTGCTTTTACA
1 TTT-TTTATTTGCTTCCAGATTGCTTTT-CA
*
66861102 TTTTTTATATGCT
1 TTTTTTATTTGCT
66861115 CATGATGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (29 bp):
TTTTTTATTTGCTTCCAGATTGCTTTTCA
Found at i:66862506 original size:9 final size:9
Alignment explanation
Indices: 66862494--66862535 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
66862484 CTTGGAATAT
66862494 TAAAAAAAA
1 TAAAAAAAA
*
66862503 TAAAAACAAT
1 TAAAAA-AAA
66862513 TAAAAAAAA
1 TAAAAAAAA
66862522 -AAAAAAAA
1 TAAAAAAAA
66862530 -AAAAAA
1 TAAAAAA
66862536 TCCGTCTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 14 0.47
9 8 0.27
10 8 0.27
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.10
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:66863943 original size:46 final size:46
Alignment explanation
Indices: 66863893--66864065 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
66863883 TGGTTGAGCA
*
66863893 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66863939 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
66863986 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
66864032 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTTACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66864066 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.55
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66864049 original size:93 final size:93
Alignment explanation
Indices: 66863890--66864059 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
66863880 GGATGGTTGA
*
66863890 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
66863955 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
66863983 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
66864047 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
66864060 TACTTAGGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66864326 original size:19 final size:20
Alignment explanation
Indices: 66864289--66864326 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66864279 ATAAGGTGGT
66864289 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
66864309 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
66864327 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:66871528 original size:46 final size:46
Alignment explanation
Indices: 66871478--66871650 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
66871468 TGGTTGAGCA
*
66871478 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66871524 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
66871571 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
66871617 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66871651 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.55
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66871634 original size:93 final size:93
Alignment explanation
Indices: 66871475--66871645 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
66871465 GGATGGTTGA
*
66871475 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
66871540 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
66871568 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
66871632 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
66871646 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66873569 original size:28 final size:27
Alignment explanation
Indices: 66873512--66873608 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
66873502 TAAATTGTGC
* *
66873512 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
66873539 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
* * *
66873567 AGCACTAGGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
66873594 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66873609 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 37 0.60
28 25 0.40
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:66881341 original size:28 final size:27
Alignment explanation
Indices: 66881284--66881380 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
66881274 TAAATTGTGC
* *
66881284 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
66881311 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
* * *
66881339 AGCACTAGGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
66881366 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66881381 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 37 0.60
28 25 0.40
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:66882988 original size:19 final size:20
Alignment explanation
Indices: 66882951--66882988 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66882941 ATAAGGTGGT
66882951 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
66882971 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
66882989 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:66884981 original size:40 final size:40
Alignment explanation
Indices: 66884937--66885015 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
66884927 ATATGGTACC
*
66884937 ACTTGGTGTATAGGGTTGGATGGGTCGATTAT-ATCCCCAT
1 ACTTGGTGTATAGGGCTGGATGGGTCGATT-TCATCCCCAT
* * *
66884977 ACTTGGTGTGTAGGGCTGGGTGGGTTGATTTCATCCCCA
1 ACTTGGTGTATAGGGCTGGATGGGTCGATTTCATCCCCA
66885016 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.34
Consensus pattern (40 bp):
ACTTGGTGTATAGGGCTGGATGGGTCGATTTCATCCCCAT
Found at i:66886121 original size:37 final size:37
Alignment explanation
Indices: 66886080--66886228 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
66886070 TGGTAATTTC
*
66886080 AAGACTTATGTCATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
66886117 AAGACTTATGTAATGTTTTTAATTATGTAATGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
66886154 AATACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* * *
66886191 AATACTTATGTAATGTTTTTAATTATATATTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
66886228 A
1 A
66886229 TTCGGTTAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:66886127 original size:20 final size:19
Alignment explanation
Indices: 66886102--66886205 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 19
66886092 ATGTTTTTAA
*
66886102 TTATGTAGTGATTCAAAGAC
1 TTATGTAATGATTCAAA-AC
***
66886122 TTATGTAATG-TTTTTAA-
1 TTATGTAATGATTCAAAAC
66886139 TTATGTAATGATTCAAATAC
1 TTATGTAATGATTCAAA-AC
***
66886159 TTATGTAAT-ATTTTTAA-
1 TTATGTAATGATTCAAAAC
*
66886176 TTATGTAGTGATTCAAATAC
1 TTATGTAATGATTCAAA-AC
66886196 TTATGTAATG
1 TTATGTAATG
66886206 TTTTTAATTA
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
17 18 0.29
18 9 0.14
19 9 0.14
20 27 0.43
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (19 bp):
TTATGTAATGATTCAAAAC
Found at i:66886144 original size:17 final size:17
Alignment explanation
Indices: 66886085--66886216 Score: 66
Period size: 17 Copynumber: 7.2 Consensus size: 17
66886075 ATTTCAAGAC
*
66886085 TTATGTCATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
66886102 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
66886121 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
** *
66886139 TTATGTAATGATTCAAATAC
1 TTATGTAATG-TT--TTTAA
*
66886159 TTATGTAATATTTTTAA
1 TTATGTAATGTTTTTAA
* ** *
66886176 TTATGTAGTGATTCAAATAC
1 TTATGTAATG-TT--TTTAA
66886196 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
66886213 TTAT
1 TTAT
66886217 ATATTGATTC
Statistics
Matches: 81, Mismatches: 25, Indels: 18
0.65 0.20 0.15
Matches are distributed among these distances:
17 34 0.42
18 8 0.10
19 8 0.10
20 31 0.38
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:66886247 original size:9 final size:9
Alignment explanation
Indices: 66886235--66886275 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
66886225 TCAATTCGGT
66886235 TAATTCAGG
1 TAATTCAGG
*
66886244 TAATTCAGT
1 TAATTCAGG
*
66886253 TAATTCGGG
1 TAATTCAGG
*
66886262 TAATTCAGT
1 TAATTCAGG
66886271 TAATT
1 TAATT
66886276 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (9 bp):
TAATTCAGG
Found at i:66886254 original size:18 final size:18
Alignment explanation
Indices: 66886227--66886275 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
66886217 ATATTGATTC
*
66886227 AATTCGGTTAATTCAGGT
1 AATTCAGTTAATTCAGGT
*
66886245 AATTCAGTTAATTCGGGT
1 AATTCAGTTAATTCAGGT
66886263 AATTCAGTTAATT
1 AATTCAGTTAATT
66886276 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (18 bp):
AATTCAGTTAATTCAGGT
Found at i:66900117 original size:24 final size:24
Alignment explanation
Indices: 66900085--66900130 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
66900075 CGTTCTCATT
66900085 CACGGCCATGTCCTCGACCATGGC
1 CACGGCCATGTCCTCGACCATGGC
66900109 CACGGCCATGTCCTCGACCATG
1 CACGGCCATGTCCTCGACCATG
66900131 ACTACTAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (24 bp):
CACGGCCATGTCCTCGACCATGGC
Found at i:66900129 original size:12 final size:12
Alignment explanation
Indices: 66900090--66900130 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
66900080 TCATTCACGG
66900090 CCATGTCCTCGA
1 CCATGTCCTCGA
* * *
66900102 CCATGGCCACGG
1 CCATGTCCTCGA
66900114 CCATGTCCTCGA
1 CCATGTCCTCGA
66900126 CCATG
1 CCATG
66900131 ACTACTAGTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.20
Consensus pattern (12 bp):
CCATGTCCTCGA
Found at i:66901296 original size:18 final size:18
Alignment explanation
Indices: 66901273--66901315 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
66901263 ATAAATAAAT
*
66901273 TAAAAGGTTTAAAGAAGA
1 TAAAAGGTTTAAAAAAGA
*
66901291 TGAAAGG-TTAAAAAAGA
1 TAAAAGGTTTAAAAAAGA
66901308 TAAAAGGT
1 TAAAAGGT
66901316 GGGAAGGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (18 bp):
TAAAAGGTTTAAAAAAGA
Found at i:66906729 original size:6 final size:6
Alignment explanation
Indices: 66906718--66906766 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
66906708 TAAAGGAGAA
*
66906718 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAA GATAGAGT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA-AGA-T GAAGA
66906767 GATGGAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
6 31 0.79
7 6 0.15
8 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.35, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:66906733 original size:15 final size:15
Alignment explanation
Indices: 66906685--66906756 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
66906675 AGTGACATAC
* *
66906685 GAAGGAGATGAAGTT
1 GAAGAAGATGAAGAT
* *
66906700 GCAGAAGATAAAGGA-
1 GAAGAAGATGAA-GAT
66906715 GAAGAAGATGAAGAT
1 GAAGAAGATGAAGAT
66906730 GAAGATGAAGATGAAGAT
1 G-A-A-GAAGATGAAGAT
66906748 GAAGAAGAT
1 GAAGAAGAT
66906757 AGAGTGAAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 2 0.04
15 26 0.57
16 3 0.07
17 2 0.04
18 13 0.28
ACGTcount: A:0.50, C:0.01, G:0.35, T:0.14
Consensus pattern (15 bp):
GAAGAAGATGAAGAT
Found at i:66906741 original size:18 final size:18
Alignment explanation
Indices: 66906714--66906766 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 18
66906704 AAGATAAAGG
66906714 AGAAGAAGATGAAGATGA
1 AGAAGAAGATGAAGATGA
*
66906732 AGATGAAGATGAAGATGA
1 AGAAGAAGATGAAGATGA
66906750 AGAAGATAGAGTGAAGA
1 AGAAGA-AGA-TGAAGA
66906767 GATGGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 22 0.71
19 3 0.10
20 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.34, T:0.13
Consensus pattern (18 bp):
AGAAGAAGATGAAGATGA
Found at i:66909898 original size:20 final size:20
Alignment explanation
Indices: 66909873--66909916 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
66909863 TAATTTTAAT
66909873 TTTAATATAATATTTGGTAA
1 TTTAATATAATATTTGGTAA
* * *
66909893 TTTAATTTAATTTTTGTTAA
1 TTTAATATAATATTTGGTAA
66909913 TTTA
1 TTTA
66909917 GTACTTAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAATATAATATTTGGTAA
Found at i:66919117 original size:60 final size:60
Alignment explanation
Indices: 66919019--66919179 Score: 157
Period size: 60 Copynumber: 2.6 Consensus size: 60
66919009 TAGGCCTAAA
* * *
66919019 CCCTATTCAGAAATCAGAGT-TAACTGAGCCTTAGCCCATATCAATATTAATCAGGGCCATAG
1 CCCTATT-ACAAATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAATCAGGGCCATAG
* * * **
66919081 CCC-CTTACAATATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCTGTAG
1 CCCTATTACAA-ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCAGGGCCATAG
* * *
66919141 CCCTATTACAAGTC-GAGATATATTGGGCCTTGCCCATAT
1 CCCTATTACAAATCAGAG-TATACTGGGCCTAGCCCATAT
66919180 TAACACAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
59 3 0.04
60 53 0.64
61 23 0.28
62 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (60 bp):
CCCTATTACAAATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCAGGGCCATAG
Found at i:66931931 original size:26 final size:26
Alignment explanation
Indices: 66931895--66932041 Score: 177
Period size: 26 Copynumber: 5.7 Consensus size: 26
66931885 AATCAAATCA
*
66931895 AATATAAAAAACAATTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
*
66931921 AATATATAAAACAATTTGAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* * * **
66931947 AACATATAAGACAATTTAAAGTAACC
1 AATATATAAAACAATTTAAAATAAAT
* *
66931973 AGTATATAAAACGATTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
66931999 AGTATATAAAACAGTTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
66932025 AATATAAAAAATAATTT
1 AATATATAAAACAATTT
66932042 GAAGCTACAA
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (26 bp):
AATATATAAAACAATTTAAAATAAAT
Found at i:66932041 original size:78 final size:78
Alignment explanation
Indices: 66931897--66932041 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 78
66931887 TCAAATCAAA
* * *
66931897 TATAAAAAACAATTTAAAATAAATAATATATAAAACAATTTGAAATAAATAACATATAAGACAAT
1 TATAAAAAACAATTTAAAATAAATAATATATAAAACAATTTAAAATAAATAACATAAAAAACAAT
66931962 TTAAAGTAACCAG
66 TTAAAGTAACCAG
* * * * * *
66931975 TATATAAAACGATTTAAAATAAATAGTATATAAAACAGTTTAAAATAAATAATATAAAAAATAAT
1 TATAAAAAACAATTTAAAATAAATAATATATAAAACAATTTAAAATAAATAACATAAAAAACAAT
66932040 TT
66 TT
66932042 GAAGCTACAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.30
Consensus pattern (78 bp):
TATAAAAAACAATTTAAAATAAATAATATATAAAACAATTTAAAATAAATAACATAAAAAACAAT
TTAAAGTAACCAG
Found at i:66934319 original size:48 final size:47
Alignment explanation
Indices: 66934202--66934319 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 47
66934192 ATATCAGTGT
* * *
66934202 CGATGCCATGTCGCAGACATGGTTTATATGGGACTTCACATTGATGC
1 CGATGCCATGTCCCAGACATGGTTTACATGGGACTTCACACTGATGC
* * * * *
66934249 CAATGCCATATCCTAGATATGGTATTACATGGGA-TCTCATACTGATGC
1 CGATGCCATGTCCCAGACATGGT-TTACATGGGACT-TCACACTGATGC
*
66934297 CGATGCCATGTCCCAAACATGGT
1 CGATGCCATGTCCCAGACATGGT
66934320 CTTATACAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
47 19 0.34
48 37 0.66
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTTTACATGGGACTTCACACTGATGC
Found at i:66938799 original size:131 final size:131
Alignment explanation
Indices: 66938472--66938933 Score: 432
Period size: 131 Copynumber: 3.5 Consensus size: 131
66938462 CAAATGGGAG
* * * * * * * * ** *
66938472 ATTGCAACCCAACACGATAGGGAACTACTCCCCGAATTGCCAAACATCGAGTATTTCCTTTGTTT
1 ATTGCAACCCAGCACGTTAGGGCACGATTCCACAAATTGCCAAATATCGA-TATCACCTTCGTTT
* * * * *
66938537 TAAA-GAGTTTTTAGAAAACGTGAGT-AAATTCCGAAGGAATCTTCGATTGTTTTGAA-CAAATG
65 TAAAGGA-TTTTTAGAAGACGTGAGTGAAATTCTGAAGGGATCTTCGATTATTTT-AAGCAAACG
66938599 A-AA
128 AGAA
* * * * * * *
66938602 AGTGCAACCCAGCACGATAGGGCACGATT-CTCAAATTGTCAAACACCGAGTATTACCTTCGTTT
1 ATTGCAACCCAGCACGTTAGGGCACGATTCCACAAATTGCCAAATATCGA-TATCACCTTCGTTT
* * * *
66938666 TAAAGGATTTTTAGAAGACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAG
65 TAAAGGATTTTTAGAAGACGTGAGTGAAATTCTGAAGGGATCTTCGATTATTTTAAGCAAACGAG
66938731 AA
130 AA
** * *
66938733 ATTGCAACCCAGCACGTTAGGATACGATTCCGCAAATTGCCAAATATCGCACATCACCTTCG-TT
1 ATTGCAACCCAGCACGTTAGGGCACGATTCCACAAATTGCCAAATATCG-ATATCACCTTCGTTT
* * * * * * * *
66938797 TAAGGGATTTTTAAAAGACGTGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAGCGAG
65 TAAAGGATTTTTAGAAGACGTGAGTGAAATTCTGAAGGGATCTTCGATTATTTTAAGCAAACGAG
66938862 AA
130 AA
* * * * *
66938864 ATTGCAACCCAACACATTAGGGCACGATTCCACGAATTGCCAAGTATCGAATATCGCCTTCGTTT
1 ATTGCAACCCAGCACGTTAGGGCACGATTCCACAAATTGCCAAATATCG-ATATCACCTTCGTTT
66938929 TAAAG
65 TAAAG
66938934 AATTCTTAAT
Statistics
Matches: 272, Mismatches: 53, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
129 51 0.19
130 54 0.20
131 136 0.50
132 30 0.11
133 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (131 bp):
ATTGCAACCCAGCACGTTAGGGCACGATTCCACAAATTGCCAAATATCGATATCACCTTCGTTTT
AAAGGATTTTTAGAAGACGTGAGTGAAATTCTGAAGGGATCTTCGATTATTTTAAGCAAACGAGA
A
Found at i:66941445 original size:19 final size:20
Alignment explanation
Indices: 66941421--66941467 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
66941411 CATTTTGGGG
* *
66941421 TTGGGTCTAGGTTTAGTTA-
1 TTGGGTCTAGATTTAGCTAT
66941440 TTGGGTCTAGATTTAGCTAT
1 TTGGGTCTAGATTTAGCTAT
66941460 TTGGGTCT
1 TTGGGTCT
66941468 TGGGTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.15, C:0.09, G:0.30, T:0.47
Consensus pattern (20 bp):
TTGGGTCTAGATTTAGCTAT
Found at i:66945760 original size:48 final size:48
Alignment explanation
Indices: 66945612--66945780 Score: 137
Period size: 48 Copynumber: 3.5 Consensus size: 48
66945602 CCACATATCA
* *
66945612 ATGCCATATCCTAGATATGGTCTTATAT-GAAGTCTCATATTAATGTCG
1 ATGCCATATCCTAGATATGGTCTTATATGGGA-TCTCATACTAATGTCG
* * * * * * * *
66945660 ATGCCATGTCCCAGACATGGTCTCATATGGGAAATCACAT-C-GATGCCA
1 ATGCCATATCCTAGATATGGTCTTATATGGG--ATCTCATACTAATGTCG
* * *
66945708 ATGCCATATCCTAGATATGGTATTACATGGGATCTTATACTAATGTCG
1 ATGCCATATCCTAGATATGGTCTTATATGGGATCTCATACTAATGTCG
* * * *
66945756 ATGCCATGTCCCAAACATGGTCTTA
1 ATGCCATATCCTAGATATGGTCTTA
66945781 GTCTTATCGA
Statistics
Matches: 90, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
46 5 0.06
47 1 0.01
48 77 0.86
49 1 0.01
50 5 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (48 bp):
ATGCCATATCCTAGATATGGTCTTATATGGGATCTCATACTAATGTCG
Found at i:66947083 original size:18 final size:18
Alignment explanation
Indices: 66947060--66947099 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
66947050 CTTAAAACTT
66947060 TATCGAGAGGAATATTTA
1 TATCGAGAGGAATATTTA
*
66947078 TATCGAGAGGAATATTTC
1 TATCGAGAGGAATATTTA
66947096 TATC
1 TATC
66947100 TCAGATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (18 bp):
TATCGAGAGGAATATTTA
Found at i:66954814 original size:18 final size:18
Alignment explanation
Indices: 66954791--66954825 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
66954781 TCCCTAAATT
66954791 CCTAACTTAGTTTTTTCC
1 CCTAACTTAGTTTTTTCC
66954809 CCTAACTTAGTTTTTTC
1 CCTAACTTAGTTTTTTC
66954826 TTTCCCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (18 bp):
CCTAACTTAGTTTTTTCC
Found at i:66957459 original size:27 final size:26
Alignment explanation
Indices: 66957397--66957539 Score: 142
Period size: 27 Copynumber: 5.3 Consensus size: 26
66957387 AGCATGGCTG
* *
66957397 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
66957423 CTAGATACAGATAATCATGGCAGGGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
66957451 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
66957478 CCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
66957505 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
66957532 CCAGAACA
1 CCAGAACA
66957540 CTTCCTCCAT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.04
27 82 0.82
28 14 0.14
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:66959186 original size:26 final size:26
Alignment explanation
Indices: 66959148--66959231 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
66959138 CATGAAATTC
* * *
66959148 TTATCATGAAACATTTACCGAACCCA
1 TTATCATGGAACATTTACCTAACCTA
66959174 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
66959200 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
66959226 TTATCA
1 TTATCA
66959232 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:66963224 original size:46 final size:46
Alignment explanation
Indices: 66963157--66963249 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
66963147 GCAAACAGAT
66963157 AGAATATAGTGAAATGAAGTATAGTGTTCTGTAAGTGTCATAGGTC
1 AGAATATAGTGAAATGAAGTATAGTGTTCTGTAAGTGTCATAGGTC
*
66963203 AGAATATAGTGAACTGAAGTATAGTGTTCTGTAAGTGTCATAGGTC
1 AGAATATAGTGAAATGAAGTATAGTGTTCTGTAAGTGTCATAGGTC
66963249 A
1 A
66963250 ATTGTAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (46 bp):
AGAATATAGTGAAATGAAGTATAGTGTTCTGTAAGTGTCATAGGTC
Found at i:66964918 original size:25 final size:25
Alignment explanation
Indices: 66964813--66964920 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
66964803 CTTGGTAATC
* *
66964813 AAATGTCATTC-TGATTCTAAAAATG
1 AAATGTCA-TCATGATTTTGAAAATG
* * * * *
66964838 ATATGTTATAATGATTTTGATAATA
1 AAATGTCATCATGATTTTGAAAATG
* * ** *
66964863 AAATGTCATTATGATCTTGGTAATC
1 AAATGTCATCATGATTTTGAAAATG
66964888 AAATGTCATCATGATTTTGAAAATG
1 AAATGTCATCATGATTTTGAAAATG
*
66964913 ATATGTCA
1 AAATGTCA
66964921 AATTGGTTAT
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
24 1 0.02
25 62 0.98
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (25 bp):
AAATGTCATCATGATTTTGAAAATG
Found at i:66967951 original size:65 final size:65
Alignment explanation
Indices: 66967869--66968001 Score: 248
Period size: 65 Copynumber: 2.0 Consensus size: 65
66967859 GTTTAAGGAT
* *
66967869 CATTTGATGTTGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTTGTGACCACATGGGTGGC
1 CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
66967934 CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
1 CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
66967999 CAT
1 CAT
66968002 ACAGGCGTGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.17, C:0.14, G:0.29, T:0.40
Consensus pattern (65 bp):
CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
Found at i:66973409 original size:21 final size:21
Alignment explanation
Indices: 66973385--66973430 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
66973375 CCACACGAGT
*
66973385 GTGTGAGGACTTCACAAGGGC
1 GTGTGAGGACTCCACAAGGGC
* * *
66973406 GTGTGTGGCCTCCACATGGGC
1 GTGTGAGGACTCCACAAGGGC
66973427 GTGT
1 GTGT
66973431 AGACCCCCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (21 bp):
GTGTGAGGACTCCACAAGGGC
Found at i:66975654 original size:46 final size:45
Alignment explanation
Indices: 66975575--66975717 Score: 191
Period size: 46 Copynumber: 3.2 Consensus size: 45
66975565 GCCTTAACAA
*
66975575 GTGACCAAACACTATTATCGATTCGTGTAGGTTCAACCCTAATAG
1 GTGACCAAGCACTATTATCGATTCGTGTAGGTTCAACCCTAATAG
*
66975620 GTGACCAAGCACTATTACTCGATTTGTGTAGGTTCAACCCTAA-AGG
1 GTGACCAAGCACTATTA-TCGATTCGTGTAGGTTCAACCCTAATA-G
* * *
66975666 GTGACCAGGCACTATTGTCTGATTCGTGTAGGTT-AACCCTAATGG
1 GTGACCAAGCACTATTATC-GATTCGTGTAGGTTCAACCCTAATAG
*
66975711 GTAACCA
1 GTGACCA
66975718 GGAACTATGA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
45 34 0.39
46 53 0.61
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
GTGACCAAGCACTATTATCGATTCGTGTAGGTTCAACCCTAATAG
Found at i:66978503 original size:49 final size:49
Alignment explanation
Indices: 66978431--66978707 Score: 299
Period size: 51 Copynumber: 5.8 Consensus size: 49
66978421 TGAGGTCACG
* * *
66978431 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGATCGCA
* * *
66978480 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GATCGCA
* * *
66978531 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GATCGCA
*
66978582 TGTGTAGTACTAAGTGCAGGCTACTATGTGT-----ATCA--GAT-G--
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGATCGCA
* * *
66978621 -GT-TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGATCGCA
* *
66978668 TGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA
66978708 CATTGTCTAC
Statistics
Matches: 199, Mismatches: 15, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
37 26 0.13
38 2 0.01
42 6 0.03
44 2 0.01
45 1 0.01
46 3 0.02
48 2 0.01
49 69 0.35
50 2 0.01
51 86 0.43
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGATCGCA
Found at i:66978551 original size:51 final size:51
Alignment explanation
Indices: 66978426--66978613 Score: 308
Period size: 51 Copynumber: 3.7 Consensus size: 51
66978416 TATTGTGAGG
* * * *
66978426 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAA-TT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
* *
66978475 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
66978526 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
66978577 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA
66978614 TCAGATGGTT
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
49 40 0.31
50 2 0.02
51 87 0.67
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
Found at i:66978627 original size:37 final size:37
Alignment explanation
Indices: 66978586--66978656 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
66978576 ATCACGTGTG
*
66978586 TAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGT
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
66978623 TAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
66978657 AATTGGTCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (37 bp):
TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
Found at i:66978658 original size:88 final size:86
Alignment explanation
Indices: 66978535--66978705 Score: 243
Period size: 86 Copynumber: 2.0 Consensus size: 86
66978525 ATCACGTGTG
* * *
66978535 TAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GATCACATGTGTAGTACTAAGTGCA
* *
66978600 GGCTACTATGTGTATCAGATGGT
64 GGCTACTATGCGTACCAGATGGT
* * * *
66978623 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTATTACTAAGTGCAGG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCACATGTGTAGTACTAAGTGCAGG
66978688 CTACTATGCGTACCAGAT
66 CTACTATGCGTACCAGAT
66978706 AACATTGTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 39 0.53
87 2 0.03
88 33 0.45
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (86 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCACATGTGTAGTACTAAGTGCAGG
CTACTATGCGTACCAGATGGT
Found at i:66982258 original size:64 final size:64
Alignment explanation
Indices: 66982092--66982264 Score: 179
Period size: 68 Copynumber: 2.6 Consensus size: 64
66982082 TGGATGATAC
* * *
66982092 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCACATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
66982157 AG
63 AG
* * * * *
66982159 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
66982223 C-G
62 CAG
*
66982225 GGATATATGTAGCTAGGTCACATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCACATGTGT-GTACTAAGTGCA
66982265 GTCTACTACG
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
64 28 0.32
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:66982300 original size:49 final size:49
Alignment explanation
Indices: 66982240--66982334 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
66982230 TATGTAGCTA
* *
66982240 GGTCACATGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
66982289 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
66982335 GTTTGGCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:66989156 original size:116 final size:117
Alignment explanation
Indices: 66989014--66989243 Score: 417
Period size: 116 Copynumber: 2.0 Consensus size: 117
66989004 AGAATAAGAG
* *
66989014 TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGTTTGAATGCCTTTGATTT
1 TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGCTTGAATGCCTTCGATTT
66989079 AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGGTA
66 AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGGTA
*
66989131 TAAGAATTCCTAA-AAGTTTTTGTACAATGGGTTCTGGATTTTAAGGCTTGAATGCCTTCGATTT
1 TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGCTTGAATGCCTTCGATTT
*
66989195 AACCAATATATGGTTGTCACGCTTAGTTGCAAGGACAATAGAGGTTCTG
66 AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTG
66989244 ACATTTGGAA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
116 96 0.88
117 13 0.12
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (117 bp):
TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGCTTGAATGCCTTCGATTT
AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGGTA
Found at i:67006280 original size:43 final size:43
Alignment explanation
Indices: 67006233--67006337 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
67006223 GATGCCGCTA
** *
67006233 TCCCAGACGGGGTCTTACACAAAATCA-TATAACAATGCCAATG
1 TCCCAGACATGGTCTTACACAAAATCACAAT-ACAATGCCAATG
* * *
67006276 TCCCAGGCATGGTCTTACACATAATCACAATACAATGCCAATT
1 TCCCAGACATGGTCTTACACAAAATCACAATACAATGCCAATG
*
67006319 TCCTAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
67006338 TGTATTCATA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 51 0.96
44 2 0.04
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACAAAATCACAATACAATGCCAATG
Found at i:67026837 original size:37 final size:37
Alignment explanation
Indices: 67026787--67026865 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
67026777 TTATTACGAA
* * *
67026787 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
67026824 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
67026861 GTCTT
1 GTCTT
67026866 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:67027129 original size:47 final size:47
Alignment explanation
Indices: 67026984--67027409 Score: 674
Period size: 47 Copynumber: 9.1 Consensus size: 47
67026974 CCCTTCGGGA
* * * * * * *
67026984 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
67027031 CCTGCCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67027077 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67027124 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67027171 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67027218 CTTATCACACATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67027265 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67027312 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67027359 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67027406 CTTA
1 CTTA
67027410 CTATCATTTC
Statistics
Matches: 357, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 39 0.11
47 318 0.89
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67031012 original size:18 final size:19
Alignment explanation
Indices: 67030989--67031033 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
67030979 AGTATAAGGG
67030989 CAAAATGGTA-TTTTTTCC
1 CAAAATGGTATTTTTTTCC
67031007 CAAAATGGTATTTTTTTCC
1 CAAAATGGTATTTTTTTCC
67031026 CAAAATGG
1 CAAAATGG
67031034 GAATTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (19 bp):
CAAAATGGTATTTTTTTCC
Found at i:67031039 original size:20 final size:19
Alignment explanation
Indices: 67030989--67031039 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
67030979 AGTATAAGGG
*
67030989 CAAAATGGTA-TTTTTTCC
1 CAAAATGGAATTTTTTTCC
*
67031007 CAAAATGGTATTTTTTTCC
1 CAAAATGGAATTTTTTTCC
67031026 CAAAATGGGAATTT
1 CAAAAT-GGAATTT
67031040 GATTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 10 0.33
19 14 0.47
20 6 0.20
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
CAAAATGGAATTTTTTTCC
Found at i:67057303 original size:30 final size:30
Alignment explanation
Indices: 67057269--67057340 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
67057259 TGTTGCCAAC
*
67057269 ATCGGCAGTCATCGGCTTCTATTGGACATA
1 ATCGGCAGTCATCGGCTTCTATTGGACACA
* *
67057299 ATCGGCTGTCATCGTCTTCTATTGGACACA
1 ATCGGCAGTCATCGGCTTCTATTGGACACA
**
67057329 ATCAACAGTCAT
1 ATCGGCAGTCAT
67057341 AGAATTCTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (30 bp):
ATCGGCAGTCATCGGCTTCTATTGGACACA
Found at i:67059334 original size:14 final size:15
Alignment explanation
Indices: 67059311--67059344 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
67059301 GCACATACAA
*
67059311 GGTTCGCACATA-TG
1 GGTTCACACATATTG
67059325 GGTTCACACATATTG
1 GGTTCACACATATTG
67059340 GGTTC
1 GGTTC
67059345 GCATACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (15 bp):
GGTTCACACATATTG
Found at i:67059564 original size:28 final size:28
Alignment explanation
Indices: 67059533--67059587 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
67059523 TTTGCATGTA
*
67059533 AGGGCTTCGAATATGGGGGTTCACATAT
1 AGGGCTTCGAATATAGGGGTTCACATAT
* * *
67059561 AGGGGTTTGCATATAGGGGTTCACATA
1 AGGGCTTCGAATATAGGGGTTCACATA
67059588 CAAGAGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (28 bp):
AGGGCTTCGAATATAGGGGTTCACATAT
Found at i:67059565 original size:14 final size:14
Alignment explanation
Indices: 67059543--67059587 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
67059533 AGGGCTTCGA
*
67059543 ATATGGGGGTTCAC
1 ATATAGGGGTTCAC
**
67059557 ATATAGGGGTTTGC
1 ATATAGGGGTTCAC
67059571 ATATAGGGGTTCAC
1 ATATAGGGGTTCAC
67059585 ATA
1 ATA
67059588 CAAGAGGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.31
Consensus pattern (14 bp):
ATATAGGGGTTCAC
Found at i:67059569 original size:43 final size:43
Alignment explanation
Indices: 67059475--67059598 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
67059465 CGCGTGCAAT
* *
67059475 GGGGTTTGCATGTAAGGGTTCAAATACAAGGGTGTTCACAGATT
1 GGGGTTTGCATGTAAGGGTTCAAATA-AAGGGGGTTCACAGATA
* * *
67059519 GGGGTTTGCATGTAAGGGCTTCGAAT-ATGGGGGTTCACATATA
1 GGGGTTTGCATGTAAGGG-TTCAAATAAAGGGGGTTCACAGATA
* * * *
67059562 GGGGTTTGCATATAGGGGTTCACATACAAGAGGGTTC
1 GGGGTTTGCATGTAAGGGTTCAAATA-AAGGGGGTTC
67059599 GTATGTAAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 5 0.08
43 29 0.44
44 26 0.39
45 6 0.09
ACGTcount: A:0.25, C:0.12, G:0.34, T:0.29
Consensus pattern (43 bp):
GGGGTTTGCATGTAAGGGTTCAAATAAAGGGGGTTCACAGATA
Found at i:67059681 original size:15 final size:15
Alignment explanation
Indices: 67059629--67059684 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
67059619 CAAGGGGTTC
67059629 ACATGGGGGTTCACCT
1 ACAT-GGGGTTCACCT
**
67059645 ACATGGTGGTTTCATAT
1 ACATGG-GG-TTCACCT
*
67059662 ACATGGGGCTCACCT
1 ACATGGGGTTCACCT
67059677 ACATGGGG
1 ACATGGGG
67059685 GTGTTCGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 14 0.42
16 8 0.24
17 11 0.33
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (15 bp):
ACATGGGGTTCACCT
Found at i:67063384 original size:26 final size:26
Alignment explanation
Indices: 67063335--67063387 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
67063325 ACGTACAGGG
*
67063335 GACACACGGCTAGGCAACACACCCAT
1 GACACACGGCTAGACAACACACCCAT
*
67063361 GACACACGGCCTAGAC-ACATACCCAT
1 GACACACGG-CTAGACAACACACCCAT
67063387 G
1 G
67063388 TGTTTACCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.34, C:0.38, G:0.19, T:0.09
Consensus pattern (26 bp):
GACACACGGCTAGACAACACACCCAT
Found at i:67064277 original size:46 final size:47
Alignment explanation
Indices: 67064167--67064392 Score: 151
Period size: 46 Copynumber: 4.7 Consensus size: 47
67064157 ACAATCAAAA
*
67064167 TCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGCATC
1 TCGAGGCCGATG-CATGTCCCA-ACAT-GTCTTACACTGGCTCTCACATC
* * *
67064217 TCTG-CGCTGATGCATGTCCCACACATCTCTTACACTGGCT-T-ACATC
1 TC-GAGGCCGATGCATGTCCCA-ACATGTCTTACACTGGCTCTCACATC
* * *
67064263 TCGAGGCCGATGCATGTCCCTAACATGTCTTACTCTAGCTCT--CGTC
1 TCGAGGCCGATGCATGTCCC-AACATGTCTTACACTGGCTCTCACATC
* * * * * * * *
67064309 TCAATGCCAATGCCATGTCCTAGATATGGTCTTACACTGACTCTCATA-A
1 TCGAGGCCGATG-CATGTCCCA-ACAT-GTCTTACACTGGCTCTCACATC
* * *
67064358 T-GTGGCTGATGCATGTCTCAGACATGTCTTACACT
1 TCGAGGCCGATGCATGTCCCA-ACATGTCTTACACT
67064393 AGCACACAAA
Statistics
Matches: 137, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
45 1 0.01
46 58 0.42
47 24 0.18
48 31 0.23
49 14 0.10
50 8 0.06
51 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.30
Consensus pattern (47 bp):
TCGAGGCCGATGCATGTCCCAACATGTCTTACACTGGCTCTCACATC
Found at i:67065871 original size:27 final size:27
Alignment explanation
Indices: 67065839--67065958 Score: 111
Period size: 27 Copynumber: 4.3 Consensus size: 27
67065829 TTCACACATA
67065839 TAGGGTTTGCACATATGGGTTCGTACC
1 TAGGGTTTGCACATATGGGTTCGTACC
*
67065866 TTGGGTTTCGCACACGTA-GGGTTTGCAGATA-C
1 TAGGGTTT-GCACA--TATGGG-TT-C-G-TACC
*
67065898 -AGGGTTCGCACATATGGGTTCGTACC
1 TAGGGTTTGCACATATGGGTTCGTACC
* * *
67065924 TAGGGCTTGCACATATGGGTTTGCACC
1 TAGGGTTTGCACATATGGGTTCGTACC
67065951 TAGGGTTT
1 TAGGGTTT
67065959 TGAACATGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
25 2 0.03
26 2 0.03
27 37 0.49
28 9 0.12
29 6 0.08
30 9 0.12
31 6 0.08
32 2 0.03
33 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (27 bp):
TAGGGTTTGCACATATGGGTTCGTACC
Found at i:67065909 original size:58 final size:56
Alignment explanation
Indices: 67065840--67065948 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 56
67065830 TCACACATAT
* * *
67065840 AGGGTTTGCACATATGGGTTCGTACCTTGGGTTTCGCACACGTA-GGGTTTGCAGATAC
1 AGGGTTCGCACATATGGGTTCGTACCTAGGGCTT-GCACA--TATGGGTTTGCAGATAC
67065898 AGGGTTCGCACATATGGGTTCGTACCTAGGGCTTGCACATATGGGTTTGCA
1 AGGGTTCGCACATATGGGTTCGTACCTAGGGCTTGCACATATGGGTTTGCA
67065949 CCTAGGGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
55 2 0.04
56 9 0.19
57 5 0.11
58 31 0.66
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (56 bp):
AGGGTTCGCACATATGGGTTCGTACCTAGGGCTTGCACATATGGGTTTGCAGATAC
Found at i:67065918 original size:14 final size:14
Alignment explanation
Indices: 67065833--67066000 Score: 76
Period size: 14 Copynumber: 11.7 Consensus size: 14
67065823 CACGGTTTCA
*
67065833 CACATATAGGGTTTG
1 CACATAT-GGGTTCG
67065848 CACATATGGGTTCG
1 CACATATGGGTTCG
* *
67065862 TACCT-TGGGTTTCG
1 CACATATGGG-TTCG
*
67065876 CACACGTA-GGGTTTG
1 CACA--TATGGGTTCG
* *
67065891 CAGATACAGGGTTCG
1 CACATA-TGGGTTCG
67065906 CACATATGGGTTCG
1 CACATATGGGTTCG
* *
67065920 TACCTA-GGGCTT-G
1 CACATATGGG-TTCG
*
67065933 CACATATGGGTTTG
1 CACATATGGGTTCG
* *
67065947 CACCTA-GGGTTTTG
1 CACATATGGG-TTCG
* * *
67065961 AACATGTACGGTTCG
1 CACATAT-GGGTTCG
*
67065976 CACATATAGGGTTTG
1 CACATAT-GGGTTCG
*
67065991 CACATCTGGG
1 CACATATGGG
67066001 CTTGTACCTA
Statistics
Matches: 116, Mismatches: 25, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
13 19 0.16
14 47 0.41
15 44 0.38
16 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (14 bp):
CACATATGGGTTCG
Found at i:67065943 original size:85 final size:85
Alignment explanation
Indices: 67065839--67066029 Score: 215
Period size: 85 Copynumber: 2.3 Consensus size: 85
67065829 TTCACACATA
* * * * * * *
67065839 TAGGGTTTGCACATATGGGTTCGTACCTTGGGTTTCGCACACGTAGGGTTTGCAGATACAGGGTT
1 TAGGGCTTGCACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTT
67065904 CGCACATATGGG-TTCGTACC
66 CGCACATATGGGCTT-GTACC
* * * *
67065924 TAGGGCTTGCACATATGGGTTTGCACCTAGGGTTTTGAACATGTACGGTTCGCACATATAGGGTT
1 TAGGGCTTGCACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTT
* *
67065989 TGCACATCTGGGCTTGTACC
66 CGCACATATGGGCTTGTACC
* **
67066009 TACGGCTCACACATA-GGGTTC
1 TAGGGCTTGCACATATGGGTTC
67066030 CACATAGTAA
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
84 5 0.06
85 81 0.92
86 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (85 bp):
TAGGGCTTGCACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTT
CGCACATATGGGCTTGTACC
Found at i:67066211 original size:18 final size:17
Alignment explanation
Indices: 67066177--67066224 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
67066167 GGTTCCCATG
*
67066177 ATATATGAGGCTTGCATA
1 ATATAT-AGGGTTGCATA
*
67066195 ATATATAGGGTTAGCATG
1 ATATATAGGGTT-GCATA
*
67066213 ATAAATAGGGTT
1 ATATATAGGGTT
67066225 CACATACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (17 bp):
ATATATAGGGTTGCATA
Found at i:67069456 original size:11 final size:11
Alignment explanation
Indices: 67069442--67069493 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
67069432 TCTTTCAATA
67069442 TTCTCTCAAAT
1 TTCTCTCAAAT
67069453 TTCTCTCAAA-
1 TTCTCTCAAAT
67069463 -TCTCTCAAAT
1 TTCTCTCAAAT
*
67069473 TTCTCTTAAAT
1 TTCTCTCAAAT
*
67069484 TCCTCTCAAA
1 TTCTCTCAAA
67069494 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:67069468 original size:20 final size:21
Alignment explanation
Indices: 67069436--67069493 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
67069426 CTTCAATCTT
67069436 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
67069458 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
67069478 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
67069494 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:67069549 original size:16 final size:15
Alignment explanation
Indices: 67069520--67069550 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67069510 TCAAAAAAGC
*
67069520 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
67069535 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
67069550 T
1 T
67069551 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:67070665 original size:7 final size:7
Alignment explanation
Indices: 67070653--67070700 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
67070643 TAGTGGATTC
67070653 GTATTTA
1 GTATTTA
67070660 GTATTTA
1 GTATTTA
67070667 GTATTTA
1 GTATTTA
67070674 GTATTTA
1 GTATTTA
67070681 GTATTTA
1 GTATTTA
67070688 GTATTTA
1 GTATTTA
67070695 GTATTT
1 GTATTT
67070701 TTTATTTAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:67071949 original size:116 final size:116
Alignment explanation
Indices: 67071744--67072477 Score: 1324
Period size: 116 Copynumber: 6.3 Consensus size: 116
67071734 TATTTGTACA
*
67071744 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAAGGTTGTTTTAAATAAAGTAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGAT-AAAAGGTTGTTTTAAATAAAGTAA
67071809 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
65 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
67071861 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
67071926 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
67071977 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
67072042 TGTAACTTAGTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGT
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
67072093 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
67072158 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGT
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
67072209 AACATTTTGAGTATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
67072274 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
67072325 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATATAAAAGGTTGTTTTAAATAAAGTA
1 AACATTTTGAATATTTTTATATTATTTCATGT-A-ATTAGATAAAAGGTTGTTTTAAATAAAGTA
* * *
67072390 ATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
64 ATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
67072443 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
67072478 AAAATATAAA
Statistics
Matches: 597, Mismatches: 18, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
116 447 0.75
117 41 0.07
118 109 0.18
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:67075727 original size:126 final size:126
Alignment explanation
Indices: 67075494--67075906 Score: 623
Period size: 126 Copynumber: 3.3 Consensus size: 126
67075484 GCCTAAGTTA
* * * * *
67075494 TTTCAGAAACCACTGTAGCAAAAGAGTGTCCATGTGGGAGCTTCTTTCAATACTGTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** *
67075559 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCCCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
67075620 TTCCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTC-TTCTAGTAATTTTGCCGAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTC-AGTACTTTTGCTGAAA
*
67075684 ATGCATCCTGCTTGAAGCATTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
67075746 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
67075811 TGCATCTTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
67075872 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGT
67075907 AGAAGCTTTT
Statistics
Matches: 260, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
125 4 0.02
126 252 0.97
127 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:67076116 original size:96 final size:98
Alignment explanation
Indices: 67075957--67076190 Score: 262
Period size: 96 Copynumber: 2.4 Consensus size: 98
67075947 CCTAAACGCC
* * * * *
67075957 AAACCCTAATTTATTTGATTTTTTTCTTAAATACCCTAAAACCCTAAAATCCTAATCTAATTTTT
1 AAACACTAATTTATTTGATTTTTTCCTTAAAAACCATAAAACACTAAAATCCTAATCTAA-TTTT
* * * ** *
67076022 TTTAATTTA-TAATTAATTTACTCAAGTAACCCT
65 TTAAAATTAGTAATTAATTTAATCAACAAACACT
*
67076055 AAACATTAATTTATTTGATTTTTTCCTTAAAAACCAT-AAACACT-AAA-CCATAATCTAATTTT
1 AAACACTAATTTATTTGATTTTTTCCTTAAAAACCATAAAACACTAAAATCC-TAATCTAATTTT
* *
67076117 TTAAAATTAGTAATTAATTTAATTAACAAATACT
65 TTAAAATTAGTAATTAATTTAATCAACAAACACT
* * *
67076151 AAACCCTAATTTATTTAATTTTTTCCTT-AAAACCCTAAAA
1 AAACACTAATTTATTTGATTTTTTCCTTAAAAACCATAAAA
67076191 TTTAAAAATC
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
95 20 0.17
96 57 0.50
97 6 0.05
98 32 0.28
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (98 bp):
AAACACTAATTTATTTGATTTTTTCCTTAAAAACCATAAAACACTAAAATCCTAATCTAATTTTT
TAAAATTAGTAATTAATTTAATCAACAAACACT
Found at i:67076548 original size:22 final size:21
Alignment explanation
Indices: 67076504--67076551 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 21
67076494 TTTTGAAAAT
67076504 ATTTTAAATTATTATGTTTAA
1 ATTTTAAATTATTATGTTTAA
67076525 ATTTTAAATTAAATTAT-TTTAA
1 ATTTTAAATT--ATTATGTTTAA
67076547 ATTTT
1 ATTTT
67076552 TTTATGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
22 10 0.40
23 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATTATTATGTTTAA
Found at i:67078721 original size:23 final size:24
Alignment explanation
Indices: 67078695--67078740 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
67078685 ATTAAAAACC
*
67078695 ATAAATATT-TACAAAAATAATTT
1 ATAAAAATTATACAAAAATAATTT
* *
67078718 ATAAAAATTATTCAAAATTAATT
1 ATAAAAATTATACAAAAATAATT
67078741 AAATACCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAAAATTATACAAAAATAATTT
Found at i:67080887 original size:40 final size:39
Alignment explanation
Indices: 67080807--67080988 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 39
67080797 AAACCCGGTA
* * * *
67080807 CCTTCGGGATTTAGCCGGATATAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCGGTTAT-AGTAACTCGCACAAATG
67080846 CCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGC-CGGTTATAGTAACTCGCACAAATG
*
67080886 CCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGT-TATAGTAACTCGCACAAATG
* * *
67080926 CCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGTTA-TAGTAACTCGCACAAATG
67080966 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAG-CCGGTTAT
67080989 CATCCGAATA
Statistics
Matches: 127, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 20 0.16
40 103 0.81
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATG
Found at i:67089083 original size:40 final size:40
Alignment explanation
Indices: 67089002--67089179 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
67088992 AAACCCGGTA
* * *
67089002 CCTTCGGGATTTAG-CCGGATATAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
*
67089041 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
67089081 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
67089121 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
67089161 CCTTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
67089180 TTATCATCCG
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 16 0.12
40 112 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:67092696 original size:131 final size:131
Alignment explanation
Indices: 67092271--67092796 Score: 449
Period size: 131 Copynumber: 4.0 Consensus size: 131
67092261 TGCCTCACCC
* * * **
67092271 TAGAAAACACGAGTGAAATTCTGAA-GAGATATTCGATTATTTTGATCAAACGGGAAATTGCAA-
1 TAGAAAACATGAGTGAAATTCTGAAGGA-ATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * ** * * *
67092334 CCAGCACGATGGGGTACTATTCCCCGAATTGCCAAACATCGAATATCGCCTTTGTTTTAAAGGGT
65 CCAGCACGATAGGGCACGATT-CCCGAATTATCAAACATCGAGTATCGCCTTCGTTTTAAAGGAT
67092399 TTT
129 TTT
* * ** * * *
67092402 TAGAAAACGTGAGTGAAATTTTGAAGGAACCTTCGATTGTCTTGAAAAAACGAGAAATCACAACC
1 TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACC
* ** * * * * * *
67092467 CAACGTGTTAGGGCACGATTCCTGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGG-TT
66 CAGCACGATAGGGCACGATTCCCGAATTATCAAACATCGAGTATCGCCTTCGTTTT-AAAGGATT
67092531 TT
130 TT
* ** ** * *
67092533 TA-ATAAACACGAGTGAAAACCAAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCACAAC
1 TAGA-AAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * *
67092597 CCAGCACGATAGGGCATGATTCTCGAATTATCAAATATCGAGTATTGCCTTCGTTTTAAAGGATT
65 CCAGCACGATAGGGCACGATTCCCGAATTATCAAACATCGAGTATCGCCTTCGTTTTAAAGGATT
67092662 TT
130 TT
* * * * * **
67092664 TAGAAGATATGAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAAAC-AGGAAATTGCAA
1 TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAA-CAAACGA-GAAATCACAA
* * * *
67092727 CCCAGCACGTTAGGGCACGATTCCGCGAATTA-CGAAATATCGCA-TATCGCATTCG-TTTAAGG
64 CCCAGCACGATAGGGCACGATTCC-CGAATTATC-AAACATCG-AGTATCGCCTTCGTTTTAAAG
67092789 GATTTT
126 GATTTT
67092795 TA
1 TA
67092797 ATAATTTTGA
Statistics
Matches: 313, Mismatches: 71, Indels: 22
0.77 0.17 0.05
Matches are distributed among these distances:
130 8 0.03
131 259 0.83
132 45 0.14
133 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (131 bp):
TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACC
CAGCACGATAGGGCACGATTCCCGAATTATCAAACATCGAGTATCGCCTTCGTTTTAAAGGATTT
T
Found at i:67095575 original size:21 final size:22
Alignment explanation
Indices: 67095532--67095581 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
67095522 TAACTCTTGG
*
67095532 ATTTTTTCTGAAAATAAGCTAA
1 ATTTTTTCTGAAAATAAGATAA
67095554 ATTTTCTTCT-AAAATAA-ATAA
1 ATTTT-TTCTGAAAATAAGATAA
*
67095575 ATATTTT
1 ATTTTTT
67095582 AAACTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.28
22 12 0.48
23 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTTTTCTGAAAATAAGATAA
Found at i:67096047 original size:51 final size:51
Alignment explanation
Indices: 67095992--67096128 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 51
67095982 TATGGTAACT
* *
67095992 AATCTTAGAGGATATGATATTATAATCTTAGAGATCTTAGATATGATACGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATACGG
* * * ** * * ** *
67096043 AATCTTATAAGATATTATTTTATAATAATACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATACGG
*
67096094 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
67096129 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATACGG
Found at i:67099069 original size:51 final size:51
Alignment explanation
Indices: 67099014--67099150 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 51
67099004 TATGGTAACT
* *
67099014 AATCTTAGAGGATATGATATTATAATCTTAGAGATCTTAGATATGATACGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATACGG
* * * ** * * ** *
67099065 AATCTTATAAGATATTATTTTATAATAATACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATACGG
*
67099116 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
67099151 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATACGG
Found at i:67101316 original size:21 final size:22
Alignment explanation
Indices: 67101280--67101321 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
67101270 TGAAATAAAT
67101280 CATAAAATAAATAAAGATTAATA
1 CATAAAAT-AATAAAGATTAATA
*
67101303 CATAAAAT-ATAAAGTTTAA
1 CATAAAATAATAAAGATTAA
67101322 CATATAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
CATAAAATAATAAAGATTAATA
Done.