Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 235 of 438
Found at i:72790169 original size:96 final size:96
Alignment explanation
Indices: 72789972--72790306 Score: 431
Period size: 96 Copynumber: 3.5 Consensus size: 96
72789962 AAAGGGTAAG
* * * * ** *
72789972 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATAT-TAGTGTCAATGTCATG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC--ACATATCGAG-AACAATGCCATG
*
72790036 TTCCAAACATGGTCTTACACTAGCTCTCATATCA
63 TCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * **
72790070 ATGCCAATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATATCGAGAATGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGAACAATGCCATGTCC
* *
72790135 CAGACATGGTCTTACACTAGCTCTCATATTA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
* * ** *
72790166 ATGCCGATGCCA-GATTCTAAACATGGTCTTACACTAGCTCACATATCGAGGCCAATGGCATGTC
1 ATGCCGATGCCATG-TTCCAAACATGGTCTTACACTGGCTCACATATCGAGAACAATGCCATGTC
*
72790230 CCAAACATGGTTTTACACTAGCTCTCATATCA
65 CCAAACATGGTCTTACACTAGCTCTCATATCA
*
72790262 ATGCCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCACATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
72790307 ACCCTAGTAT
Statistics
Matches: 205, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.00
96 165 0.80
97 3 0.01
98 36 0.18
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGAACAATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCATATCA
Found at i:72790239 original size:144 final size:144
Alignment explanation
Indices: 72789976--72790306 Score: 423
Period size: 144 Copynumber: 2.3 Consensus size: 144
72789966 GGTAAGATGC
* * * *
72789976 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATTAGTGTCAATGTCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATATTAATGCCAATGCCATGTTCCA
* * * *
72790041 AACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCAAACATGGTTTTACACTG
64 AACATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCAAACATGGTTTTACACTA
*
72790106 GCTCACATATCGA-GAA
129 GCTCACATATCAATG-A
* * * *
72790122 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGCCA-GATTCTAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTAATGCCAATGCCATG-TTCCAA
* *
72790186 ACATGGTCTTACACTAGCTCACATATCGAGGCCAATGGCATGTCCCAAACATGGTTTTACACTAG
65 ACATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCAAACATGGTTTTACACTAG
* *
72790251 CTCTCATATCAATGC
130 CTCACATATCAATGA
* * * *
72790266 CGATGCCATGTTCCAAATATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
72790307 ACCCTAGTAT
Statistics
Matches: 160, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
143 1 0.01
144 123 0.77
145 2 0.01
146 34 0.21
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTAATGCCAATGCCATGTTCCAAA
CATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCAAACATGGTTTTACACTAGC
TCACATATCAATGA
Found at i:72796510 original size:19 final size:19
Alignment explanation
Indices: 72796397--72796521 Score: 65
Period size: 19 Copynumber: 6.3 Consensus size: 19
72796387 ATAAAAAAAA
72796397 ATAAAAATCAATAAAAG-TT
1 ATAAAAATC-ATAAAAGATT
***
72796416 ATAAAAAAT-ATTAAATTTTT
1 AT-AAAAATCA-TAAAAGATT
*
72796436 ATTAAAAATTAGTAAAAAGAATT
1 A-TAAAAATCA-T-AAAAG-ATT
**
72796459 ATAAAAATCATAAAAGAAA
1 ATAAAAATCATAAAAGATT
** **
72796478 ATAAAAATTGTAAAATTTT
1 ATAAAAATCATAAAAGATT
*
72796497 ATAAAAATCATAAAAAATT
1 ATAAAAATCATAAAAGATT
*
72796516 ACAAAA
1 ATAAAA
72796522 TATAAAAAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
18 1 0.01
19 40 0.51
20 20 0.25
21 4 0.05
22 11 0.14
23 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAAATCATAAAAGATT
Found at i:72796979 original size:22 final size:23
Alignment explanation
Indices: 72796940--72796984 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
72796930 CAACTTAATT
72796940 GTTTTTTGTGATAAATTTTGAAG
1 GTTTTTTGTGATAAATTTTGAAG
* *
72796963 GTTTTTT-TTATACATTTTGAAG
1 GTTTTTTGTGATAAATTTTGAAG
72796985 TTTAAATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.56
Consensus pattern (23 bp):
GTTTTTTGTGATAAATTTTGAAG
Found at i:72799221 original size:33 final size:33
Alignment explanation
Indices: 72799179--72799243 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
72799169 CCCATTCTCT
72799179 AAACTGAAGGAGACTAAAAAGAGATATTTCAAA
1 AAACTGAAGGAGACTAAAAAGAGATATTTCAAA
72799212 AAACTGAAGGAGACTAAAAAGAGATATTTCAA
1 AAACTGAAGGAGACTAAAAAGAGATATTTCAA
72799244 CTCAACAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.54, C:0.09, G:0.18, T:0.18
Consensus pattern (33 bp):
AAACTGAAGGAGACTAAAAAGAGATATTTCAAA
Found at i:72801116 original size:187 final size:176
Alignment explanation
Indices: 72800820--72801173 Score: 492
Period size: 187 Copynumber: 1.9 Consensus size: 176
72800810 TTATTATTAT
* *
72800820 TTTTATATATTAAATAATTTATAAAAAAATAAAATATATAATATTGGAATGTAAATATAAAAAAA
1 TTTTATATATTAAATAATTTATAAAAAAATAAAATATATAATAGTGCAATGTAAATATAAAAAAA
* **
72800885 TGTGTTATCTATGGTTAAAATTTTCATAAAACAAAAGGCATATAAAAATTTTAAACATTAAATTA
66 TGCGTTATCTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAATTTTAAACATTAAATTA
* *
72800950 AAAATAATATACTTTTTTAAAGAATTTAAAAAGAATATATTTTTTA
131 AAAATAATATAATTTTTAAAAGAATTTAAAAAGAATATATTTTTTA
* *
72800996 TTTTATATATTATATAATTTATATAAAATTAAATTAAATATATAATAGTGCAATGTAGATATATA
1 TTTTATATATTAAATAA-TT-TATAAAA--AAATAAAATATATAATAGTGCAATGTA-A-ATATA
* *
72801061 AAAAATTGCGTTAAATTGTTTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAATTTTAA
60 AAAAAATGCGTT--A---TCTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAATTTTAA
* *
72801126 ACATTAAATTCAAAATAATATAATTTTTAAAAGAATTTAAAAATAATA
120 ACATTAAATTAAAAATAATATAATTTTTAAAAGAATTTAAAAAGAATA
72801174 ATATAGGTTG
Statistics
Matches: 154, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
176 16 0.10
177 2 0.01
178 7 0.05
180 24 0.16
181 1 0.01
182 15 0.10
184 1 0.01
187 88 0.57
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (176 bp):
TTTTATATATTAAATAATTTATAAAAAAATAAAATATATAATAGTGCAATGTAAATATAAAAAAA
TGCGTTATCTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAATTTTAAACATTAAATTA
AAAATAATATAATTTTTAAAAGAATTTAAAAAGAATATATTTTTTA
Found at i:72812565 original size:15 final size:16
Alignment explanation
Indices: 72812541--72812573 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
72812531 GTTTTTAGTT
72812541 TTGCTCTCTCT-TTCC
1 TTGCTCTCTCTGTTCC
*
72812556 TTGCTTTCTCTGTTCC
1 TTGCTCTCTCTGTTCC
72812572 TT
1 TT
72812574 TTTTCTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.33, G:0.09, T:0.58
Consensus pattern (16 bp):
TTGCTCTCTCTGTTCC
Found at i:72821026 original size:21 final size:21
Alignment explanation
Indices: 72821002--72821067 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
72820992 CATTTTTAGA
72821002 AACTTCTCCTTCTTCAGCAAC
1 AACTTCTCCTTCTTCAGCAAC
*
72821023 AAC-T-TCC-TCTTCTGCAAC
1 AACTTCTCCTTCTTCAGCAAC
*
72821041 AACTTCAT-CTTCTACAGCAAC
1 AACTTC-TCCTTCTTCAGCAAC
72821062 AACTTC
1 AACTTC
72821068 CTTCTCAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 13 0.34
19 4 0.11
20 2 0.05
21 19 0.50
ACGTcount: A:0.27, C:0.36, G:0.05, T:0.32
Consensus pattern (21 bp):
AACTTCTCCTTCTTCAGCAAC
Found at i:72821039 original size:18 final size:18
Alignment explanation
Indices: 72821012--72821069 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
72821002 AACTTCTCCT
*
72821012 TCTTCAGCAACAACTTCC
1 TCTTCTGCAACAACTTCC
*
72821030 TCTTCTGCAACAACTTCA
1 TCTTCTGCAACAACTTCC
72821048 TCTTCTACAGCAACAACTTCC
1 TCTTCT---GCAACAACTTCC
72821069 T
1 T
72821070 TCTCAACAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 22 0.65
21 12 0.35
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (18 bp):
TCTTCTGCAACAACTTCC
Found at i:72830393 original size:46 final size:46
Alignment explanation
Indices: 72830326--72830416 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
72830316 TATATATACA
** * *
72830326 CATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* *
72830372 CATCTCATACACATTTCACATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
72830417 ATACACATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:72830785 original size:47 final size:47
Alignment explanation
Indices: 72830430--72830786 Score: 516
Period size: 47 Copynumber: 7.6 Consensus size: 47
72830420 CACATCCATG
* * ** *
72830430 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGTATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
* * * *
72830477 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
* *
72830524 TTCTTCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
* * *
72830571 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
*
72830618 TTCATCACATTGGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
* * *
72830665 TTCATCATATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
** *
72830712 TTCATCACATTTTCCATTCGGCCTTAGCACAGATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
*
72830759 TTCATCACATTTGCCATTCGGCCTTAGC
1 TTCATCACATTGGCCATTCGGCCTTAGC
72830787 TCATGTATAC
Statistics
Matches: 287, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 287 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTAGCACACATATGCATGTTCACA
Found at i:72833627 original size:40 final size:40
Alignment explanation
Indices: 72833581--72833936 Score: 525
Period size: 40 Copynumber: 8.9 Consensus size: 40
72833571 CCGAATACAC
* * * * *
72833581 ATCACCAGCATGATTGCTCTTCGAGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
72833621 AACACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
72833661 ATCACTAGCACGAATGCTCTTCGGGACATAGCCCGAATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
72833701 AACACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
72833741 ATCACTAGCACGAATGCTTTTCGGGACTTAGCCCAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
72833781 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
72833821 AAT-ACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATAT
1 -ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
72833861 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
72833901 ATCACTAGCACGAATACTCTTCGGGACTTAGCCCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
72833937 CTGTGACAGC
Statistics
Matches: 288, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 284 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:72835776 original size:40 final size:39
Alignment explanation
Indices: 72835611--72835794 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
72835601 AAATTGAATG
* * *
72835611 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
72835651 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
72835691 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
72835731 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
72835770 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
72835795 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:72835819 original size:80 final size:81
Alignment explanation
Indices: 72835651--72835839 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
72835641 GCTGGAAATT
* * * *
72835651 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
72835716 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
72835732 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
72835795 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
72835811 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
72835840 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:72843896 original size:40 final size:39
Alignment explanation
Indices: 72843731--72843914 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
72843721 AAATTGAATG
* * *
72843731 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
72843771 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
72843811 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
72843851 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
72843890 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
72843915 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:72843939 original size:80 final size:81
Alignment explanation
Indices: 72843771--72843959 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
72843761 GCTGGAAATT
* * * *
72843771 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
72843836 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
72843852 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
72843915 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
72843931 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
72843960 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:72846924 original size:46 final size:46
Alignment explanation
Indices: 72846856--72846946 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
72846846 TATATATACA
** * *
72846856 CATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
72846902 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
72846947 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:72846989 original size:22 final size:22
Alignment explanation
Indices: 72846963--72847038 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
72846953 ATCCATGTTC
72846963 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
72846985 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
72847010 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
72847032 ATCACAT
1 ATCACAT
72847039 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:72846991 original size:47 final size:47
Alignment explanation
Indices: 72846960--72847363 Score: 592
Period size: 47 Copynumber: 8.6 Consensus size: 47
72846950 CACATCCATG
* * *
72846960 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
* * *
72847007 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
* * * *
72847054 TTCTTCACATTGGCCATTTGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
* * *
72847101 TTCATCACATTGGCTATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
* * *
72847148 TTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
* * *
72847195 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
*
72847242 TTCATCACATTTGCCATTCGGCCTTAGCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
* * *
72847289 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
*
72847336 TTCATCACATTTGCCATTCGGCCTTAGC
1 TTCATCACATTGGCCATTCGGCCTTAGC
72847364 TCATGTATAT
Statistics
Matches: 333, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 333 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
Found at i:72847272 original size:22 final size:22
Alignment explanation
Indices: 72847247--72847319 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
72847237 TCACATTCAT
72847247 CACATTTGCCATTCGGCCTTAG
1 CACATTTGCCATTCGGCCTTAG
* * *
72847269 CACATATATG-CATGTTC-ACATTCAT
1 CACAT-T-TGCCA--TTCGGCCTT-AG
72847294 CACATTTGCCATTCGGCCTTAG
1 CACATTTGCCATTCGGCCTTAG
72847316 CACA
1 CACA
72847320 CAAATGCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 13 0.34
23 8 0.21
24 8 0.21
25 9 0.24
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (22 bp):
CACATTTGCCATTCGGCCTTAG
Found at i:72847424 original size:141 final size:139
Alignment explanation
Indices: 72846988--72847409 Score: 389
Period size: 141 Copynumber: 3.0 Consensus size: 139
72846978 CTGCCTTATC
* * * * * * *
72846988 ACATGTATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCAT
1 ACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCAC
* * * * * * * ***
72847053 ATTCTTCACATTGGCCATTTGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCTAT
66 ATTCATCACATTTGCCATTCGGCCTTAGCACACAAATACA-GTTCACATCCATCACATT-AAAAT
* *** * **
72847118 TCGGCCTTATC
129 CCGAAATCAAA
*
72847129 ACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCAC
1 ACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCAC
* * ***
72847194 ATTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCAT
66 ATTCATCACATTTGCCATTCGGCCTTAGCACACAAATACA-GTTCACATCCATCACA-TTAAAAT
* *** * **
72847259 TCGGCCTTAGC
129 CCGAAATCAAA
* *
72847270 ACATATATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCAC
1 ACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCAC
* * *
72847335 ATTCATCACATTTGCCATTCGGCCTTAGCTCATGTATATACA-TTCACATCCATCACA-TAAAAT
66 ATTCATCACATTTGCCATTCGGCCTTAGCACA--CAAATACAGTTCACATCCATCACATTAAAAT
*
72847398 CCTAAATCAAA
129 CCGAAATCAAA
72847409 A
1 A
72847410 TATAAATTTT
Statistics
Matches: 244, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
139 7 0.03
141 230 0.94
142 2 0.01
143 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (139 bp):
ACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAATACATGTTCAC
ATTCATCACATTTGCCATTCGGCCTTAGCACACAAATACAGTTCACATCCATCACATTAAAATCC
GAAATCAAA
Found at i:72858782 original size:40 final size:40
Alignment explanation
Indices: 72858738--72858951 Score: 157
Period size: 40 Copynumber: 5.7 Consensus size: 40
72858728 GTTCAAAACA
* * ***
72858738 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
72858778 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * *
72858818 CCTTCGGG-CTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
72858857 CCTT-GGG-CTTAG-CCGGATATCA-TAGCTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* *
72858893 CCTTCGGG-CTTAGCCCGGATCATCTC-A----CAC-ATTG
1 CCTTCGGGACTTAGCCCGGAT-ATCACAACCCGCACAAATG
72858927 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
72858952 TCGAACATTC
Statistics
Matches: 150, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
33 4 0.03
34 24 0.16
35 3 0.02
36 13 0.09
37 17 0.11
38 14 0.09
39 35 0.23
40 40 0.27
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:72858849 original size:39 final size:39
Alignment explanation
Indices: 72858768--72858950 Score: 247
Period size: 39 Copynumber: 4.9 Consensus size: 39
72858758 TATGGTAACC
* * * *
72858768 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
72858808 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
72858847 CGCACAATTGCCTT-GGGCTTAG-CCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
72858884 -GCACAATTGCCTTCGGGCTTAGCCCGG--ATCAT--CT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
72858918 CACAC-ATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
72858951 CTCGAACATT
Statistics
Matches: 131, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
34 24 0.18
35 3 0.02
36 22 0.17
37 22 0.17
38 12 0.09
39 31 0.24
40 17 0.13
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:72858904 original size:75 final size:73
Alignment explanation
Indices: 72858768--72858951 Score: 239
Period size: 75 Copynumber: 2.5 Consensus size: 73
72858758 TATGGTAACC
* *
72858768 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTT-AGCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
72858833 CGGGTATCATAGCT
64 C-GG-ATCAT--CT
* *
72858847 CGCACAATTGCCTT-GGGCTTAGCCGGATATCATAGCT-GCACAATTGCCTTCGGGCTTAGCCCG
1 CGCACAATTGCCTTCGGGCTTAGCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
72858910 GATCATCT
66 GATCATCT
*
72858918 CACAC-ATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAG-CCGGATATCAC
72858952 TCGAACATTC
Statistics
Matches: 97, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
70 8 0.08
71 14 0.14
72 10 0.10
73 5 0.05
74 2 0.02
75 25 0.26
76 14 0.14
77 3 0.03
78 3 0.03
79 13 0.13
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (73 bp):
CGCACAATTGCCTTCGGGCTTAGCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
GATCATCT
Found at i:72866951 original size:38 final size:39
Alignment explanation
Indices: 72866831--72866981 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
72866821 TATGGTAACC
* * * *
72866831 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
72866871 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
72866910 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
72866948 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
72866982 CTCGAACATT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 38 0.36
39 51 0.48
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:72866965 original size:77 final size:79
Alignment explanation
Indices: 72866831--72866981 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
72866821 TATGGTAACC
72866831 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
72866896 CGGATATCATAGCT
66 CGGATATCATAGCT
* * * *
72866910 CGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
72866973 CGGATATCA
66 CGGATATCA
72866982 CTCGAACATT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 42 0.62
78 9 0.13
79 17 0.25
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:72874273 original size:39 final size:39
Alignment explanation
Indices: 72874161--72874353 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
72874151 TCGTTCAAAC
* * * * * *
72874161 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
72874201 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
* *
72874241 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCAC-ATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
72874279 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
72874318 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
72874354 TTCATACACA
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.26
39 61 0.44
40 42 0.30
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:72874306 original size:77 final size:78
Alignment explanation
Indices: 72874161--72874355 Score: 277
Period size: 77 Copynumber: 2.5 Consensus size: 78
72874151 TCGTTCAAAC
* * * * * *
72874161 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCAC-ATTGCCTTCGGGACTTAACCCGGATATC
72874226 ACAACTCGCACAATT
64 ACAACTCGCACAATT
*
72874241 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTGCCTTCGGG-CTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTGCCTTCGGGACTTAACCCGGATATCAC
72874305 AACTCGCACAATT
66 AACTCGCACAATT
*
72874318 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 GCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
72874356 CATACACATC
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
77 63 0.59
78 13 0.12
79 21 0.20
80 9 0.08
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTGCCTTCGGGACTTAACCCGGATATCAC
AACTCGCACAATT
Found at i:72887287 original size:21 final size:21
Alignment explanation
Indices: 72887248--72887288 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
72887238 TCCCCACATG
*
72887248 GTGTGATGGTTGGTATGGGAA
1 GTGTGATGGTTGATATGGGAA
72887269 GTGTGATGGTTAGAT-TGGGA
1 GTGTGATGGTT-GATATGGGA
72887289 TGGGCTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (21 bp):
GTGTGATGGTTGATATGGGAA
Found at i:72888131 original size:88 final size:88
Alignment explanation
Indices: 72887981--72888155 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 88
72887971 TTGAAGAGGG
*
72887981 TTTTTCTAAAATTGTTTTTTTGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAATG
1 TTTTTCTAAAATTGATTTTTTGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAATG
72888046 ATGCTATTGAAAGTGTGGCACGC
66 ATGCTATTGAAAGTGTGGCACGC
*
72888069 TTTTTCTAAAAATT-ATTTTTTGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTTTGAAAT
1 TTTTTCT-AAAATTGATTTTTTGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAAT
*
72888133 GATGCTATTGAAGGTGTGGCACG
65 GATGCTATTGAAAGTGTGGCACG
72888156 GTAAGTCTCC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
88 77 0.93
89 6 0.07
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (88 bp):
TTTTTCTAAAATTGATTTTTTGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAATG
ATGCTATTGAAAGTGTGGCACGC
Found at i:72890472 original size:29 final size:29
Alignment explanation
Indices: 72890439--72890570 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
72890429 GTGACGAGAT
72890439 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
72890468 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
72890497 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
72890526 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
72890555 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
72890571 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:72898407 original size:29 final size:29
Alignment explanation
Indices: 72898374--72898504 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
72898364 GTGACGAGAT
72898374 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
72898403 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
72898431 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
72898460 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
72898489 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
72898505 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:72898437 original size:28 final size:29
Alignment explanation
Indices: 72898374--72898445 Score: 128
Period size: 28 Copynumber: 2.5 Consensus size: 29
72898364 GTGACGAGAT
*
72898374 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
72898403 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
72898431 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
72898446 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:72900826 original size:40 final size:40
Alignment explanation
Indices: 72900733--72900984 Score: 324
Period size: 38 Copynumber: 6.5 Consensus size: 40
72900723 AAGCCAAGTA
* * *
72900733 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
72900771 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
72900811 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
72900851 -CTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
72900890 CCTTCGGGACTTAGCCCGG--ATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
72900928 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG--CAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
72900966 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
72900985 TTATCATCCG
Statistics
Matches: 192, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
38 72 0.38
39 54 0.28
40 66 0.34
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:72900865 original size:79 final size:79
Alignment explanation
Indices: 72900733--72900984 Score: 340
Period size: 79 Copynumber: 3.2 Consensus size: 79
72900723 AAGCCAAGTA
* * * *
72900733 CCTTCGGGATTTA-ACCGGATATAGCTA-CTCGCTC-AATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
72900795 GTAACTCGCACCAATG
65 GTAACTCGCA-CAATG
* *
72900811 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG-CTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
72900875 TAACTCGCACAAATG
66 TAACTCGCAC-AATG
72900890 CCTTCGGGACTTAGCCCGG--ATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* *
72900952 GTCACTAGCA-AATG
65 GTAACTCGCACAATG
72900966 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
72900985 TTATCATCCG
Statistics
Matches: 158, Mismatches: 10, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
76 23 0.15
77 19 0.12
78 43 0.27
79 69 0.44
80 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAATG
Found at i:72901625 original size:18 final size:18
Alignment explanation
Indices: 72901602--72901636 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
72901592 ACTAAGCACT
72901602 TAAACAAATTCTCTTTAC
1 TAAACAAATTCTCTTTAC
72901620 TAAACAAATTCTCTTTA
1 TAAACAAATTCTCTTTA
72901637 ACTATACACA
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:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAACAAATTCTCTTTAC
Found at i:72908978 original size:40 final size:40
Alignment explanation
Indices: 72908885--72909141 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
72908875 AAGCCAAGTA
* * *
72908885 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
72908923 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
72908963 CCTTCGGGACTTAGCCCGGATATAGTAGCTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
72909003 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
72909043 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
72909083 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
72909123 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
72909142 TTATCATCTG
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 12 0.06
39 18 0.09
40 167 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:72913641 original size:22 final size:20
Alignment explanation
Indices: 72913596--72913645 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
72913586 TTCTAACGCT
* *
72913596 TTTATATGTTTTTATTAAAT
1 TTTATATTTTTTTATTAAAG
72913616 TTTATATTTTTATTAGTTAAAG
1 TTTATATTTTT-TTA-TTAAAG
72913638 TTTA-ATTT
1 TTTATATTT
72913646 CAGCAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 7 0.27
22 9 0.35
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (20 bp):
TTTATATTTTTTTATTAAAG
Found at i:72916800 original size:15 final size:15
Alignment explanation
Indices: 72916782--72916824 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
72916772 TCTAAGACAG
72916782 AGAAATCCAAGATAA
1 AGAAATCCAAGATAA
**
72916797 AGAAACTCCCAAGATTC
1 AGAAA-T-CCAAGATAA
72916814 AGAAATCCAAG
1 AGAAATCCAAG
72916825 TTACAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.14
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:72921203 original size:44 final size:45
Alignment explanation
Indices: 72921117--72921644 Score: 191
Period size: 50 Copynumber: 10.7 Consensus size: 45
72921107 CTGGTACGCA
* * * *
72921117 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTG-G
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGAG
* * *
72921161 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG----A-G
* * * *
72921211 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTAGG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATC-TG-A-G
* * * *
72921260 CATAGTAGCCTGCACTTAGTGCTACACATGCGACCTATCAATCTGGTACACG
1 --TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT-G---A-G
* * * *
72921312 TAATAGCCTGCACTTAGTACAACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG----A-G
* * * * * *
72921362 TAGTAGCCTGTACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATC---T-GA-G
* * *
72921413 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC---T-GA-G
* * * * *
72921463 TAGTAGCCTGCCCTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATC-TG-A-G
* *
72921512 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
1 --TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT-G---A-G
* ** *
72921564 TAGTAGCCTGTACTTAGTACTACACACGTGAATTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG----A-G
* * *
72921614 TAGTAGCTTACACTTAGTAGTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
72921645 TCGAAGTTAA
Statistics
Matches: 368, Mismatches: 83, Indels: 60
0.72 0.16 0.12
Matches are distributed among these distances:
44 36 0.10
48 1 0.00
49 12 0.03
50 212 0.58
51 97 0.26
52 9 0.02
54 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (45 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGAG
Found at i:72921304 original size:101 final size:99
Alignment explanation
Indices: 72921160--72921738 Score: 470
Period size: 101 Copynumber: 5.8 Consensus size: 99
72921150 TATCAATCTG
* * * * * *
72921160 GTAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTGCACT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAATCTGGTACACGTAGTAGCCTGCACT
* * **
72921225 TAGTACTACACACGTGATCAAAGTTAACGGGTAGGC
66 TAGTACTACACACGTGA-C-AAGTCAACTGGTACAC
* * * * * *
72921261 ATAGTAGCCTGCACTTAGTGCTACACATGCGACCTATCAATCTGGTACACGTAATAGCCTGCACT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAATCTGGTACACGTAGTAGCCTGCACT
* * * *
72921326 TAGTACAACACACGTGACTTAA-CCATCTGATACAC
66 TAGTACTACACACGTGAC--AAGTCAACTGGTACAC
* * * * *
72921361 GTAGTAGCCTGTACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACACATAGTAGCCTGCA
1 GTAGTAGCCTGCACTTAGTACTACACACGTGA-CATA-TCAATCTGGTACACGTAGTAGCCTGCA
** * * * *
72921425 CTTAGTACTACACACGTGACTTGACCATCTGATAGAC
64 CTTAGTACTACACACGTGACAAG-TCAACTGGTACAC
* * * * * *
72921462 GTAGTAGCCTGCCCTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACGCATAGTAGCCTGCA
1 GTAGTAGCCTGCACTTAGTACTACACACGTGA-CATA-TCAATCTGGTACACGTAGTAGCCTGCA
* *
72921526 CTTAGTACTACACATGTGACCTA-TCAATCTGGTACAC
64 CTTAGTACTACACACGTGA-CAAGTCAA-CTGGTACAC
* * * * * * *
72921563 GTAGTAGCCTGTACTTAGTACTACACACGTGA-ATTAACCATCTGATACATGTAGTAGCTTACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACA-TATCAATCTGGTACACGTAGTAGCCTGCAC
* * * **
72921627 TTAGTAGTACACACGTGATCGAAGTTAACGGGTATGC
65 TTAGTACTACACACGTGA-C-AAGTCAACTGGTACAC
* * * *
72921664 ATAGTAGCCTGCACTTA-TCACTACACATGCGACCTATCAAT-TCGGTACACGTAGTAGCCTGCA
1 GTAGTAGCCTGCACTTAGT-ACTACACACGTGACATATCAATCT-GGTACACGTAGTAGCCTGCA
72921727 CTTAGTACTACA
64 CTTAGTACTACA
72921739 TAAGTGACTC
Statistics
Matches: 387, Mismatches: 77, Indels: 28
0.79 0.16 0.06
Matches are distributed among these distances:
99 2 0.01
100 72 0.19
101 305 0.79
102 8 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (99 bp):
GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAATCTGGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACAAGTCAACTGGTACAC
Found at i:72921382 original size:151 final size:149
Alignment explanation
Indices: 72921109--72921589 Score: 564
Period size: 151 Copynumber: 3.2 Consensus size: 149
72921099 GAAGCTCTCT
*
72921109 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGT-A-G--TAGCCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTAACGTATAGCCT
* *
72921170 GCACTTAATACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTGCACTTAGTACTACA
66 GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACA
72921235 CACGTGATCAAAGTTAACG
131 CACGTGATCAAAGTTAACG
* *
72921254 GGTAGGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCTATCAATCTGGTACACGTAATAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTA-ACGT-ATAGC
* *
72921319 CTGCACTTAGTACAACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGTACTTAGTACTA
64 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
72921384 CACACGTGATCAAAGTTAACG
129 CACACGTGATCAAAGTTAACG
* * * * * *
72921405 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTGA-CCATCTGATAGACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAATCTGGTA-ACGTA-TAG
* * ** * * * * *
72921469 CCTGCCCTTAGTACTACACACGTGA-TCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTA
63 CCTGCACTTAGTACTACACACGTGACT-TAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTA
* ** * *
72921533 CTACACATGTGA-CCTA-TCAATCT
126 CTACACACGTGATCAAAGTTAA-CG
* * *
72921556 GGTACACGTAGTAGCCTGTACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
72921590 CGTGAATTAA
Statistics
Matches: 291, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
145 50 0.17
147 1 0.00
148 1 0.00
150 5 0.02
151 197 0.68
152 37 0.13
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTAACGTATAGCCT
GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACA
CACGTGATCAAAGTTAACG
Found at i:72921468 original size:252 final size:250
Alignment explanation
Indices: 72921161--72921738 Score: 879
Period size: 252 Copynumber: 2.3 Consensus size: 250
72921151 ATCAATCTGG
*
72921161 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTT-ATACTACACACGTGACTT-ACCATCTGATACACGTAGTAGCCTGCACTT
* *
72921226 AGTACTACACACGTGATCAAAGTTAACGGGTAGGCATAGTAGCCTGCACTTAGTGCTACACATGC
64 AGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
*
72921291 GACCTATCAATCTGGTACACGTAATAGCCTGCACTTAGTACAACACACGTGACTTAACCATCTGA
129 GACCTATCAATCTGGTACACGTAATAGCCTGCACTTAGTACAACACACGTGAATTAACCATCTGA
**
72921356 TACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCAAAGTTAACGGGTACACA
194 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTACACA
* *
72921413 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTGCCCTT
1 TAGTAGCCTGCACTTA-TACTACACACGTGACTT-ACCATCTGATACACGTAGTAGCCTGCACTT
*
72921478 AGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGT
64 AGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
* * *
72921543 GACCTATCAATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGAATTAACCATCTGA
129 GACCTATCAATCTGGTACACGTAATAGCCTGCACTTAGTACAACACACGTGAATTAACCATCTGA
* * * * **
72921608 TACATGTAGTAGCTTACACTTAGTAGTACACACGTGATCGAAGTTAACGGGTATGCA
194 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTACACA
* * * * *
72921665 TAGTAGCCTGCACTTATCACTACACATGCGACCTATCAAT-TCGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAT-ACTACACACGTGACTTA-CCATCT-GATACACGTAGTAGCCTGCACT
72921729 TAGTACTACA
63 TAGTACTACA
72921739 TAAGTGACTC
Statistics
Matches: 296, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
251 4 0.01
252 292 0.99
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (250 bp):
TAGTAGCCTGCACTTATACTACACACGTGACTTACCATCTGATACACGTAGTAGCCTGCACTTAG
TACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
CCTATCAATCTGGTACACGTAATAGCCTGCACTTAGTACAACACACGTGAATTAACCATCTGATA
CACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTACACA
Found at i:72921590 original size:151 final size:151
Alignment explanation
Indices: 72921211--72921747 Score: 546
Period size: 151 Copynumber: 3.5 Consensus size: 151
72921201 CTGATACATG
* ** * * ** *
72921211 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTAGGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACGTAGTAGCCTGCAC
* * * * * * * * * *
72921275 TTAGTGCTACACATGCGACCTATCAATCTGGTACACGTAATAGCCTGCACTTAGTACAACACACG
64 TTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACG
* ** * * * * *
72921340 TGA-CTTAA-CCATCTGATACACG
129 TGATC-AAAGTTAACGGGTACGCA
* * ** * * *
72921362 TAGTAGCCTGTACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACGTAGTAGCCTGCAC
* * * *
72921426 TTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTGCCCTTAGTACTACACACG
64 TTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACG
72921491 TGATCAAAGTTAACGGGTACGCA
129 TGATCAAAGTTAACGGGTACGCA
*
72921514 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
* * * *
72921579 AGTACTACACACGTGAATTAACCATCTGATACATGTAGTAGCTTACACTTAGTAGTACACACGTG
66 AGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
* *
72921644 ATCGAAGTTAACGGGTATGCA
131 ATCAAAGTTAACGGGTACGCA
*
72921665 TAGTAGCCTGCACTTA-TCACTACACATGCGACCTATCAAT-TCGGTACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGT-ACTACACATGTGACCTATCAATCT-GGTACACGTAGTAGCCTGCAC
* *
72921728 TTAGTACTACATAAGTGACT
64 TTAGTACTACACACGTGACT
72921748 CACAATGGAT
Statistics
Matches: 335, Mismatches: 46, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
150 5 0.01
151 293 0.87
152 37 0.11
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (151 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
ATCAAAGTTAACGGGTACGCA
Found at i:72933955 original size:48 final size:48
Alignment explanation
Indices: 72933884--72934203 Score: 403
Period size: 48 Copynumber: 6.7 Consensus size: 48
72933874 AGTACCAATT
* * * *
72933884 CCATGTCCCCGACATTGTCTTACA-T-GAATCCACATATCATTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCGATG
* * *
72933932 CCATGTCCTAGACATGGTCTTACACTGGCACACATATCCTCGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
* * * *
72933980 CCATGTCCCA-AGCATGGTCTTACACAGGAACATATATCATCGCTGATG
1 CCATGTCCCAGA-CATGGTCTTACACTGGCACACATATCATCGCCGATG
* *
72934028 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
* * * * *
72934076 CCATGTCCTAGACATGGTCTTACACAGGAACATATATCATCGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
*
72934124 CCATGTCCCAGACATGGTCTTACACTGGCACACTTATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
* *
72934172 CCATGTCCTAGACATGGTCTTACACAGGCACA
1 CCATGTCCCAGACATGGTCTTACACTGGCACA
72934204 TTTAGCATGG
Statistics
Matches: 234, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.00
48 229 0.98
49 2 0.01
50 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
Found at i:72934048 original size:96 final size:96
Alignment explanation
Indices: 72933917--72934204 Score: 454
Period size: 96 Copynumber: 3.0 Consensus size: 96
72933907 ATGAATCCAC
* * * * *
72933917 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCCTCGTCGATGCC
1 ATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCC
*
72933982 ATGTCCCA-AGCATGGTCTTACACAGGAACAT
66 ATGTCCTAGA-CATGGTCTTACACAGGAACAT
* *
72934013 ATATCATCGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCC
1 ATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCC
72934078 ATGTCCTAGACATGGTCTTACACAGGAACAT
66 ATGTCCTAGACATGGTCTTACACAGGAACAT
*
72934109 ATATCATCG-TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACTTATCATCGCCGATGC
1 ATATCATCGCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGC
*
72934173 CATGTCCTAGACATGGTCTTACACAGGCACAT
65 CATGTCCTAGACATGGTCTTACACAGGAACAT
72934205 TTAGCATGGT
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
95 1 0.01
96 176 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
ATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCC
ATGTCCTAGACATGGTCTTACACAGGAACAT
Found at i:72939505 original size:23 final size:23
Alignment explanation
Indices: 72939475--72939518 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
72939465 CTTCTAACTG
*
72939475 AAATTAGACCTAAATAAATACTA
1 AAATTAGACCTAAAGAAATACTA
72939498 AAATTAGACCTAAAGAAATAC
1 AAATTAGACCTAAAGAAATAC
72939519 CATAGCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.23
Consensus pattern (23 bp):
AAATTAGACCTAAAGAAATACTA
Found at i:72939725 original size:21 final size:22
Alignment explanation
Indices: 72939699--72939740 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
72939689 GTGTATTTTG
72939699 ATGTTTGATGATAGA-AAACAC
1 ATGTTTGATGATAGATAAACAC
* *
72939720 ATGTTTGTTGTTAGATAAACA
1 ATGTTTGATGATAGATAAACA
72939741 ACATTTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (22 bp):
ATGTTTGATGATAGATAAACAC
Found at i:72952160 original size:300 final size:300
Alignment explanation
Indices: 72951618--72952524 Score: 1697
Period size: 300 Copynumber: 3.0 Consensus size: 300
72951608 ATTTTATTAT
72951618 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
72951683 GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
66 GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
*
72951748 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTGGTAAATATACCATTTTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTGGTAAATATACCATTGTTAAT
72951813 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
* *
72951878 AATTAATAAGTAAAAATTTAATAAATTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
*
72951918 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCATTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
*
72951983 GAATACTTAATTTGATAAAAATGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
66 GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
* * *
72952048 AGGCATTAAATGGCTATGAAATTAAATACTAGAGGTTCTTATCTGGTAAATATACCATTGTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTGGTAAATATACCATTGTTAAT
72952113 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
72952178 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
* *
72952218 TATGTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGTTAAGAAATTTTATCGTTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
*
72952283 GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTACAAAAGTGATGTTCTAATAGCTAA
66 GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
* *
72952348 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTGTCTGGTAAATATATCATTGTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTGGTAAATATACCATTGTTAAT
72952413 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
72952478 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
72952518 TATTTTA
1 TATTTTA
72952525 GTCCATTTTC
Statistics
Matches: 588, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
300 588 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (300 bp):
TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTGGTAAATATACCATTGTTAAT
ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
Found at i:72957363 original size:13 final size:13
Alignment explanation
Indices: 72957345--72957375 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
72957335 CATTTCCAAC
72957345 TTACCTTAGGTTA
1 TTACCTTAGGTTA
72957358 TTACCTTAGGTTA
1 TTACCTTAGGTTA
72957371 TTACC
1 TTACC
72957376 ATGTAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (13 bp):
TTACCTTAGGTTA
Found at i:72960969 original size:25 final size:25
Alignment explanation
Indices: 72960941--72960995 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
72960931 ATTAGACATC
*
72960941 AAAATACACAAATATCTATCATGAA
1 AAAAAACACAAATATCTATCATGAA
*** *
72960966 AAAAAATTTAAATATCTATCATTAA
1 AAAAAACACAAATATCTATCATGAA
72960991 AAAAA
1 AAAAA
72960996 TTTAGACTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAAACACAAATATCTATCATGAA
Found at i:72960997 original size:24 final size:25
Alignment explanation
Indices: 72960950--72960999 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
72960940 CAAAATACAC
72960950 AAATATCTATCATGAAAAAAAATTT
1 AAATATCTATCATGAAAAAAAATTT
*
72960975 AAATATCTATCAT-TAAAAAAATTT
1 AAATATCTATCATGAAAAAAAATTT
72960999 A
1 A
72961000 GACTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (25 bp):
AAATATCTATCATGAAAAAAAATTT
Found at i:72974680 original size:17 final size:17
Alignment explanation
Indices: 72974658--72974738 Score: 85
Period size: 17 Copynumber: 4.8 Consensus size: 17
72974648 AACTTACCAT
72974658 ACCCAATACCCACATAA
1 ACCCAATACCCACATAA
* *
72974675 ACCCAA-ACCCAAAATCA
1 ACCCAATACCC-ACATAA
72974692 ACCCAATACCCACATAA
1 ACCCAATACCCACATAA
* **
72974709 ACCCAA-ACCCAAAATCT
1 ACCCAATACCC-ACATAA
72974726 ACCCAATACCCAC
1 ACCCAATACCCAC
72974739 CACCCAACTC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.15
17 36 0.69
18 8 0.15
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (17 bp):
ACCCAATACCCACATAA
Found at i:72974698 original size:34 final size:34
Alignment explanation
Indices: 72974658--72974738 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
72974648 AACTTACCAT
72974658 ACCCAATACCCACATAAACCCAAACCCAAAATCA
1 ACCCAATACCCACATAAACCCAAACCCAAAATCA
*
72974692 ACCCAATACCCACATAAACCCAAACCCAAAATCT
1 ACCCAATACCCACATAAACCCAAACCCAAAATCA
72974726 ACCCAATACCCAC
1 ACCCAATACCCAC
72974739 CACCCAACTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (34 bp):
ACCCAATACCCACATAAACCCAAACCCAAAATCA
Found at i:72976865 original size:16 final size:16
Alignment explanation
Indices: 72976830--72976877 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
72976820 CTATTTTAAG
72976830 TTTATTTT-AATTTTA
1 TTTATTTTAAATTTTA
72976845 TTTATTTTAAATTATTA
1 TTTATTTTAAATT-TTA
*
72976862 -TTATTTTAGATTTTA
1 TTTATTTTAAATTTTA
72976877 T
1 T
72976878 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.38
16 15 0.52
17 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTATTTTAAATTTTA
Found at i:72977779 original size:18 final size:19
Alignment explanation
Indices: 72977756--72977795 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
72977746 TTCCTTTAAA
72977756 TTATTTCAT-TATTTA-TTT
1 TTATTTCATCT-TTTACTTT
72977774 TTATTTCATCTTTTACTTT
1 TTATTTCATCTTTTACTTT
72977793 TTA
1 TTA
72977796 CTTTTTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTCATCTTTTACTTT
Found at i:72983052 original size:56 final size:56
Alignment explanation
Indices: 72982989--72983119 Score: 226
Period size: 56 Copynumber: 2.3 Consensus size: 56
72982979 CCATGGAATT
* *
72982989 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
*
72983045 GATATATGTGTGCGAGTAAGACTACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
*
72983101 GATTTATGTGTGCGAGTAA
1 GATATATGTGTGCGAGTAA
72983120 AACCCTGTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
Found at i:72983141 original size:56 final size:56
Alignment explanation
Indices: 72982989--72983154 Score: 183
Period size: 56 Copynumber: 3.0 Consensus size: 56
72982979 CCATGGAATT
* * * * * *
72982989 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCC
1 GATATATGTGTGCGAGTAAAACTACGTATAAGACGTTGGCATCGATATGTGATTCC
* * *
72983045 GATATATGTGTGCGAGTAAGACTACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAAACTACGTATAAGACGTTGGCATCGATATGTGATTCC
* * **
72983101 GATTTATGTGTGCGAGTAAAAC-CCTGTATGGGACAG-TGGCATCGATATGTGATT
1 GATATATGTGTGCGAGTAAAACTAC-GTATAAGAC-GTTGGCATCGATATGTGATT
72983155 ACATGTAAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
55 1 0.01
56 96 0.98
57 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAAACTACGTATAAGACGTTGGCATCGATATGTGATTCC
Found at i:72987257 original size:27 final size:26
Alignment explanation
Indices: 72987220--72987303 Score: 132
Period size: 27 Copynumber: 3.2 Consensus size: 26
72987210 AGCATGGCTG
* *
72987220 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
72987246 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
72987273 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
72987300 CCAG
1 CCAG
72987304 TATACTCTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
26 12 0.22
27 42 0.78
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:72991466 original size:25 final size:25
Alignment explanation
Indices: 72991429--72991493 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
72991419 ACCTCAGATC
72991429 TTATGAGCATTCCGATTAAA-GGCTCT
1 TTATGAGC-TTCCG-TTAAATGGCTCT
* *
72991455 TTGTGAGTTTCCCGTTAAATTGGCTCT
1 TTATGAGCTT-CCGTTAAA-TGGCTCT
72991482 TTATGAGCTTCC
1 TTATGAGCTTCC
72991494 CGATATGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 7 0.22
26 11 0.34
27 14 0.44
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (25 bp):
TTATGAGCTTCCGTTAAATGGCTCT
Found at i:72992535 original size:31 final size:32
Alignment explanation
Indices: 72992497--72992561 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
72992487 TAAAATGTGT
*
72992497 TGACTTCGTCAAACAATCAATGACAA-CTAAA
1 TGACTTCGTCAAACAATCAACGACAACCTAAA
72992528 TGACTTCGTCAAACAATCAACGACAACCTAAA
1 TGACTTCGTCAAACAATCAACGACAACCTAAA
72992560 TG
1 TG
72992562 GCGCCTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.22
Consensus pattern (32 bp):
TGACTTCGTCAAACAATCAACGACAACCTAAA
Found at i:73013139 original size:37 final size:37
Alignment explanation
Indices: 73013080--73013188 Score: 200
Period size: 37 Copynumber: 2.9 Consensus size: 37
73013070 AGCTCAGACG
* *
73013080 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
73013117 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
73013154 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
73013189 ATATATTTCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:73013444 original size:98 final size:98
Alignment explanation
Indices: 73013335--73013569 Score: 443
Period size: 98 Copynumber: 2.4 Consensus size: 98
73013325 GCACATCGCC
*
73013335 TACATATTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
73013400 GACCATTCGGCTTTACCACATATACATATCTCA
66 GACCATTCGGCTTTACCACATATACATATCTCA
73013433 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
73013498 GACCATTCGGCTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATACATATCTCA
*
73013531 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
73013570 TGCATGTTCA
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 134 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATACATATCTCA
Found at i:73013459 original size:48 final size:48
Alignment explanation
Indices: 73013335--73013569 Score: 339
Period size: 50 Copynumber: 4.8 Consensus size: 48
73013325 GCACATCGCC
*
73013335 TACATATTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCA-A
* *
73013385 TATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATAG-CCATTCGGCTTTACCACATATACATATCTCAA
73013433 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCA-A
* * *
73013483 TATATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATAG-CCATTCGGCTTTACCACATATACATATCTCAA
73013531 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATA
73013570 TGCATGTTCA
Statistics
Matches: 168, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
48 77 0.46
49 8 0.05
50 83 0.49
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:73013571 original size:50 final size:50
Alignment explanation
Indices: 73013335--73013715 Score: 329
Period size: 47 Copynumber: 7.9 Consensus size: 50
73013325 GCACATCGCC
* *
73013335 TACATATTTCACACTAGCCATTTGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTC--A
*
73013385 TATATATTTCACATT-GACCATTCGGCTTTACCACATATA--CATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
73013433 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTC--A
*
73013483 TATATATTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
73013531 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * * * *
73013580 T--AT-TCATCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * * *
73013626 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC-
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * **
73013673 -ACAT-TCATCACATTGGCCATTCGGCCTTATTACATATATGCAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCAT
73013716 GTTCACATTC
Statistics
Matches: 298, Mismatches: 18, Indels: 33
0.85 0.05 0.09
Matches are distributed among these distances:
46 1 0.00
47 120 0.40
48 79 0.27
49 8 0.03
50 90 0.30
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (50 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:73013611 original size:22 final size:22
Alignment explanation
Indices: 73013585--73013660 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
73013575 GTTCATATTC
73013585 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
73013607 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
73013631 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
73013654 ATCACAT
1 ATCACAT
73013661 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:73013618 original size:47 final size:47
Alignment explanation
Indices: 73013539--73013779 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
73013529 CATACATATT
* * * *
73013539 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
73013586 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
73013633 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
73013680 TCACATTGGCCATTCGGCCTTATTACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
73013727 TCACATTGGCCATTTGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
73013774 TCACAT
1 TCACAT
73013780 AAAATCCTAA
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:73013663 original size:94 final size:94
Alignment explanation
Indices: 73013491--73013779 Score: 377
Period size: 94 Copynumber: 3.1 Consensus size: 94
73013481 TATATATATT
* * * * *
73013491 TCACATTGACCATTCGGCTTTA-C-CACATATGCATATCTCATACATAT-TTCACATTAGCCATT
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC--ACAT-TCATCACATTGGCCATT
* * *
73013553 CGGCTTTACCACATATATGCATGTTCATATTCA
62 CGGCCTTATCACATATATGCATGTTCACATTCA
73013586 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
73013651 CTTATCACATATATGCATGTTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
* * * *
73013680 TCACATTGGCCATTCGGCCTTATTACATATATGCATGTTCACATTCATCACATTGGCCATTTGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
* * **
73013745 CTTATCTCATATATACACATTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
73013774 TCACAT
1 TCACAT
73013780 AAAATCCTAA
Statistics
Matches: 175, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
93 1 0.01
94 139 0.79
95 20 0.11
96 4 0.02
97 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATGCATGTTCACATTCA
Found at i:73020535 original size:27 final size:27
Alignment explanation
Indices: 73020492--73020647 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
73020482 ATTACCAAAG
*
73020492 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
73020518 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
73020545 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
73020572 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
73020599 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
73020626 TATCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
73020648 TAAAATACCC
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 5 0.04
27 115 0.96
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:73020657 original size:54 final size:54
Alignment explanation
Indices: 73020479--73020675 Score: 189
Period size: 54 Copynumber: 3.7 Consensus size: 54
73020469 CTCGACTTGT
* *
73020479 AAAATTACCAAAGTACCC-CGATTTACATAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* *** * *
73020532 ATAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* * ** * * ** *
73020586 AGAATTACTATTTTACCCTTGATTTATAGAATTACTATTTTATCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* * * * *
73020640 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACC
73020676 AAAATACCCT
Statistics
Matches: 119, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
53 13 0.11
54 106 0.89
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
Found at i:73020657 original size:81 final size:81
Alignment explanation
Indices: 73020465--73020676 Score: 210
Period size: 81 Copynumber: 2.6 Consensus size: 81
73020455 AGTATTGAAA
* * * * *
73020465 TATCCTCGACTTGTAAAATTACCAAAGTACCC-CGATTTACATAATTACCGTTTTACCCTCGATT
1 TATCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
* *
73020529 TACATAATTACCGTTT
66 TACAGAATTACCATTT
* * **** * * *
73020545 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TATCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
* *
73020610 TATAGAATTACTATTT
66 TACAGAATTACCATTT
* * * * *
73020626 TATCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TATCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCA
73020677 AAATACCCTC
Statistics
Matches: 101, Mismatches: 30, Indels: 1
0.77 0.23 0.01
Matches are distributed among these distances:
80 24 0.24
81 77 0.76
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
TATCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:73020665 original size:27 final size:27
Alignment explanation
Indices: 73020635--73020954 Score: 165
Period size: 27 Copynumber: 12.0 Consensus size: 27
73020625 TTATCCTCGA
*
73020635 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
*
73020662 TTTACAAAATTACCAAAATACCC-TCG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
73020688 ATCAGTAAAATTACCAAAATACCC-TGG
1 TTTA-CAAAATTACCAAAATACCCTTGG
* ** * * *
73020715 TCTGTAAAATTGCTAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
73020742 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
**
73020769 TTTGTAAAATTACCAAAATACCACTT-G
1 TTTACAAAATTACCAAAATACC-CTTGG
* ** ***
73020796 --T--GAAATTACTGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * **
73020819 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACCAAAATACCCTTGG
*
73020846 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* *
73020874 TTT-CTAAAGATTA-TAGAAATACCATTGG
1 TTTAC-AAA-ATTACCA-AAATACCCTTGG
**
73020902 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * * *
73020929 TTTGTAGATTTACCAAAACACCCTTG
1 TTTACAAAATTACCAAAATACCCTTG
73020955 TAGGGTGAAA
Statistics
Matches: 235, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.01
23 14 0.06
25 2 0.01
26 23 0.10
27 162 0.69
28 15 0.06
29 17 0.07
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:73020687 original size:54 final size:54
Alignment explanation
Indices: 73020629--73020952 Score: 220
Period size: 54 Copynumber: 6.1 Consensus size: 54
73020619 ACTATTTTAT
**
73020629 CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATAC
1 CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
* * * * * *
73020683 CCTCGA-TCAGTAAAATTACCAAAATACCC-TGGTCTGTAAAATTGCTAAAATAC
1 CCTCGATTTA-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
* ** * * *
73020736 CC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
1 CCTC-GATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
* * * ***
73020790 CACT---TGT--GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 C-CTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
* * * *
73020840 CC-CTAATTTACAAAATTAC-AGAAATACCCTTGACTTTCTAAAGATTA-TAGAAATAC
1 CCTC-GATTTACAAAATTACTA-AAATACCCTTG-GTTTGTAAA-ATTACCA-AAATAC
* * * * * * *
73020896 CATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACAC
1 CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
73020950 CCT
1 CCT
73020953 TGTAGGGTGA
Statistics
Matches: 209, Mismatches: 42, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
49 1 0.00
50 38 0.18
52 5 0.02
53 43 0.21
54 71 0.34
55 16 0.08
56 35 0.17
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
Found at i:73020743 original size:80 final size:80
Alignment explanation
Indices: 73020640--73020790 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 80
73020630 CTCGATTTAC
*
73020640 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
73020704 AAATACCCTGGTCTGT
65 AAATACCCTGGTCTGT
* ** * **
73020720 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
73020785 AATACC
66 AATACC
73020791 ACTTGTGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
79 2 0.03
80 61 0.97
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCCTGGTCTGT
Found at i:73020823 original size:50 final size:50
Alignment explanation
Indices: 73020692--73020840 Score: 149
Period size: 50 Copynumber: 2.9 Consensus size: 50
73020682 CCCTCGATCA
** * * * *
73020692 GTAAAATTACCAAAATA-CCCTGGTCTGTAAAATTGCTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCAC----TT
*
73020745 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTT
1 GTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCACTT
* **
73020795 GTGAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 GTAAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACC
73020841 CCTAATTTAC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
49 4 0.05
50 39 0.46
53 17 0.20
54 25 0.29
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (50 bp):
GTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCACTT
Found at i:73020842 original size:77 final size:76
Alignment explanation
Indices: 73020640--73020871 Score: 227
Period size: 77 Copynumber: 3.0 Consensus size: 76
73020630 CTCGATTTAC
* ** ** * **
73020640 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
73020704 AAATACCCTGGTCTGT
65 AAATACCC---T-TGT
* **
73020720 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
73020785 AATACCACTTGT
66 AATACC-CTTGT
* * * **
73020797 GAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-CA
1 AAAATTACTAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
73020860 GAAATACCCTTG
65 -AAATACCCTTG
73020872 ACTTTCTAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
76 10 0.08
77 58 0.44
78 1 0.01
80 58 0.44
81 6 0.05
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (76 bp):
AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCTTGT
Found at i:73021049 original size:27 final size:27
Alignment explanation
Indices: 73020972--73021049 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
73020962 AAATGACTAA
* *
73020972 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
73020999 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
73021026 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
73021050 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:73021961 original size:24 final size:25
Alignment explanation
Indices: 73021855--73021948 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
73021845 AGGAAGTGCT
*
73021855 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
73021880 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
73021905 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
73021929 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
73021949 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:73022255 original size:31 final size:31
Alignment explanation
Indices: 73022168--73022276 Score: 155
Period size: 31 Copynumber: 3.5 Consensus size: 31
73022158 GTTTACAGTA
*
73022168 AAGGCTTCGGCCCAGTGATATGATTAATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
73022199 AAGGCTTTGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* * *
73022230 AAGGCTTCAGCCCAGTGATATGATTTAGGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
73022261 AAGGATTCGACCCAGT
1 AAGGCTTCGGCCCAGT
73022277 AACCGTTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:73026201 original size:17 final size:17
Alignment explanation
Indices: 73026179--73026214 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
73026169 ACGAAAAGAA
73026179 AAGATGAGATAGGGGAG
1 AAGATGAGATAGGGGAG
*
73026196 AAGATGAGATGGGGGAG
1 AAGATGAGATAGGGGAG
73026213 AA
1 AA
73026215 AACAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.47, T:0.11
Consensus pattern (17 bp):
AAGATGAGATAGGGGAG
Found at i:73031496 original size:21 final size:20
Alignment explanation
Indices: 73031464--73031507 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
73031454 GGTTTCAGTA
* *
73031464 CAGTCTATCTATAGTAGTCT
1 CAGTCTACCTATAGCAGTCT
*
73031484 CAGTACTACCTATAGCAGTTT
1 CAGT-CTACCTATAGCAGTCT
73031505 CAG
1 CAG
73031508 GATATACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (20 bp):
CAGTCTACCTATAGCAGTCT
Found at i:73034862 original size:16 final size:16
Alignment explanation
Indices: 73034841--73034871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73034831 TTTTATTACC
*
73034841 ATAATTATTATATTAT
1 ATAATTATAATATTAT
73034857 ATAATTATAATATTA
1 ATAATTATAATATTA
73034872 ACTTATTAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAATTATAATATTAT
Found at i:73040195 original size:49 final size:51
Alignment explanation
Indices: 73040096--73040199 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 51
73040086 CTCCAAAATG
* ** **
73040096 AAAATGAAAATGGAGAAAATAAAATCATTTGGAAATGAATGTGGTTTTCTC
1 AAAATGAAAATGGAGAAAATAAAATCATTTAGAAATGAACATGGAATTCTC
* *
73040147 AAAATGAAAAT-GAG-AAATCAATTCATTTAGAAATGAACATGGAATTCTC
1 AAAATGAAAATGGAGAAAATAAAATCATTTAGAAATGAACATGGAATTCTC
73040196 AAAA
1 AAAA
73040200 ATGATTGGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
49 32 0.70
50 3 0.07
51 11 0.24
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAAATAAAATCATTTAGAAATGAACATGGAATTCTC
Found at i:73048252 original size:20 final size:20
Alignment explanation
Indices: 73048227--73048296 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
73048217 ATTAATTATT
*
73048227 TATA-AAATT-TAATTTAAA
1 TATATAAATTATATTTTAAA
73048245 TATATAAATTATATTTTAAA
1 TATATAAATTATATTTTAAA
73048265 TATATAAATTATATTTTAAA
1 TATATAAATTATATTTTAAA
*
73048285 TAT-TAAAATATA
1 TATATAAATTATA
73048297 ACCAATAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
18 4 0.08
19 13 0.27
20 31 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATAAATTATATTTTAAA
Found at i:73052718 original size:13 final size:14
Alignment explanation
Indices: 73052682--73052720 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
73052672 CCTTCCTATC
73052682 AGTTTTGGGAATTAT
1 AGTTTTGGG-ATTAT
73052697 AGATTTTGGGATTA-
1 AG-TTTTGGGATTAT
73052711 AGTTTTGGGA
1 AGTTTTGGGA
73052721 GGTTAGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 2 0.09
15 6 0.26
16 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
AGTTTTGGGATTAT
Found at i:73057374 original size:16 final size:17
Alignment explanation
Indices: 73057353--73057387 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
73057343 TTCGTTTTTA
*
73057353 TGATATAT-ATTTAATT
1 TGATATATGAATTAATT
73057369 TGATATATGAATTAATT
1 TGATATATGAATTAATT
73057386 TG
1 TG
73057388 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
TGATATATGAATTAATT
Found at i:73060545 original size:37 final size:37
Alignment explanation
Indices: 73060495--73060618 Score: 221
Period size: 37 Copynumber: 3.4 Consensus size: 37
73060485 CTTATTACGA
*
73060495 AGTCTTACCCGGACATAATCTCTACACGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
73060532 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
73060569 GGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
73060606 GGTCTTACCCGGA
1 AGTCTTACCCGGA
73060619 ATATATTTCC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:73060734 original size:48 final size:48
Alignment explanation
Indices: 73060663--73061076 Score: 801
Period size: 48 Copynumber: 8.6 Consensus size: 48
73060653 TGTTACAACA
* *
73060663 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73060711 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73060759 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73060807 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73060855 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
73060903 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73060951 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73060999 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
73061047 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
73061077 ATTACACTTT
Statistics
Matches: 362, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 362 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:73062602 original size:13 final size:13
Alignment explanation
Indices: 73062584--73062608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73062574 CACTAAATTT
73062584 TCATGGATTCAAA
1 TCATGGATTCAAA
73062597 TCATGGATTCAA
1 TCATGGATTCAA
73062609 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:73063546 original size:57 final size:59
Alignment explanation
Indices: 73063475--73063615 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 59
73063465 TATCGTATTA
* * *
73063475 CAGGATTACTAGTCCAGGCTAAATCCATTA-TGTAACGTATACTCAGA-AGAGATCA-AT
1 CAGGATTACCAGTCCAGGCTAAATCCATAATTGTAACATATACT-AGAGAGAGATCATAT
* * * * * *
73063532 TAGGATTACCAGTCCAGGCTAAA-CCCTAATTGTAACATATGCTTGAGAGGGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCATAATTGTAACATATACTAGAGAGAGATCATAT
*
73063590 CAGGATTACCCGTCCAGGCTAAATCC
1 CAGGATTACCAGTCCAGGCTAAATCC
73063616 TTTCCATAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
56 6 0.09
57 38 0.55
58 23 0.33
59 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (59 bp):
CAGGATTACCAGTCCAGGCTAAATCCATAATTGTAACATATACTAGAGAGAGATCATAT
Found at i:73068412 original size:65 final size:65
Alignment explanation
Indices: 73068287--73068428 Score: 275
Period size: 65 Copynumber: 2.2 Consensus size: 65
73068277 GATTAGTGGG
73068287 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
1 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
*
73068352 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATGATATTTTTT
1 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
73068417 AAAATTAATTTT
1 AAAATTAATTTT
73068429 CAAGTCAAAC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 76 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (65 bp):
AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
Found at i:73068946 original size:57 final size:54
Alignment explanation
Indices: 73068874--73068979 Score: 149
Period size: 57 Copynumber: 1.9 Consensus size: 54
73068864 AATGATTATC
* * * *
73068874 TTAATATTAAGTTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATAAGAT
73068931 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAAT
73068980 CTAATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 17 0.38
55 1 0.02
56 1 0.02
57 26 0.58
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (54 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATAAGAT
Found at i:73070042 original size:2 final size:2
Alignment explanation
Indices: 73070035--73070077 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
73070025 CTATAAAATA
*
73070035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73070076 AT
1 AT
73070078 CATCCCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73083998 original size:29 final size:30
Alignment explanation
Indices: 73083940--73084019 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
73083930 ATCCGAAAAC
* *
73083940 TATATATGAACTTTGGTTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
* *
73083971 TATACATGAACTTTGATTT-TGTGTAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
73084000 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
73084020 GATTCAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.37
30 10 0.23
31 17 0.40
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:73089058 original size:33 final size:33
Alignment explanation
Indices: 73089016--73089083 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
73089006 AAGGTCTGAG
73089016 TGAGAGTGTTTGATTGCTGGACAGGAGCTGGAA
1 TGAGAGTGTTTGATTGCTGGACAGGAGCTGGAA
*
73089049 TGAGAGTGTTTGGTTGCTGGACAGGAGCTGGAA
1 TGAGAGTGTTTGATTGCTGGACAGGAGCTGGAA
73089082 TG
1 TG
73089084 TCTAGAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.41, T:0.28
Consensus pattern (33 bp):
TGAGAGTGTTTGATTGCTGGACAGGAGCTGGAA
Found at i:73102897 original size:44 final size:43
Alignment explanation
Indices: 73102814--73102899 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
73102804 ATATTTTATA
* ***
73102814 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCCC
1 TTATCTTTTAATAGTTTATTAGAATAAAAAAACTATTTTCCCC
* *
73102857 TTATGTTTTAATAGTTTATTAAGAATAAAAAAATTATTTTCCC
1 TTATCTTTTAATAGTTTATT-AGAATAAAAAAACTATTTTCCC
73102900 AATTAGGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 18 0.50
44 18 0.50
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (43 bp):
TTATCTTTTAATAGTTTATTAGAATAAAAAAACTATTTTCCCC
Found at i:73124304 original size:23 final size:23
Alignment explanation
Indices: 73124276--73124321 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
73124266 GACTTGGTCC
73124276 AGGTTGAGGTAATACAAAACTAT
1 AGGTTGAGGTAATACAAAACTAT
*
73124299 AGGTTGAGGTAATCCAAAACTAT
1 AGGTTGAGGTAATACAAAACTAT
73124322 CTTTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (23 bp):
AGGTTGAGGTAATACAAAACTAT
Found at i:73124871 original size:14 final size:15
Alignment explanation
Indices: 73124838--73124870 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
73124828 TTTTTCAAAG
73124838 AAAAGTGGTAGTTTA
1 AAAAGTGGTAGTTTA
73124853 AAAAGTGGTAGTTTA
1 AAAAGTGGTAGTTTA
73124868 AAA
1 AAA
73124871 GACGTATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (15 bp):
AAAAGTGGTAGTTTA
Found at i:73126537 original size:19 final size:19
Alignment explanation
Indices: 73126500--73126537 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
73126490 ATTGCATGTT
*
73126500 TGAATAAAAATAAACAGAA
1 TGAATAAAAATAAAAAGAA
73126519 TGAATAGAAAA-AAAAAGAA
1 TGAATA-AAAATAAAAAGAA
73126538 ATGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.71, C:0.03, G:0.13, T:0.13
Consensus pattern (19 bp):
TGAATAAAAATAAAAAGAA
Found at i:73135865 original size:22 final size:22
Alignment explanation
Indices: 73135840--73135883 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
73135830 GGACCTTATT
* *
73135840 AATATAATTTTAATAATTTAAA
1 AATATAAATATAATAATTTAAA
*
73135862 AATATAAATATAATATTTTAAA
1 AATATAAATATAATAATTTAAA
73135884 GTTTGAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATAAATATAATAATTTAAA
Found at i:73138379 original size:26 final size:24
Alignment explanation
Indices: 73138350--73138417 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 24
73138340 AAATAAAAAA
* *
73138350 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
73138376 ATTTAAAAACATAAAAACAAAT--
1 ATTTAAAAACATAAAAACAAATAC
73138398 A-TT-AAAACA-AAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
73138418 AAAAATGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 10 0.26
20 6 0.15
21 2 0.05
22 1 0.03
24 5 0.13
25 3 0.08
26 12 0.31
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:73138634 original size:15 final size:16
Alignment explanation
Indices: 73138614--73138643 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73138604 AAAGTTACTT
73138614 AAAA-TTAAAAATAAA
1 AAAATTTAAAAATAAA
73138629 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
73138644 TTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTTAAAAATAAA
Found at i:73139246 original size:13 final size:13
Alignment explanation
Indices: 73139228--73139261 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
73139218 TCTTCAAAAA
73139228 TAGAATTTATTCT
1 TAGAATTTATTCT
73139241 TAGAATTTATTCT
1 TAGAATTTATTCT
73139254 TAGAATTT
1 TAGAATTT
73139262 TTTTTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (13 bp):
TAGAATTTATTCT
Found at i:73140932 original size:40 final size:40
Alignment explanation
Indices: 73140822--73141078 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
73140812 AAGCCAAGTA
* * *
73140822 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
73140860 CCTTCGGGACATAG-CCAGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73140899 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
73140939 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
73140979 CCTTCGGGACTTAGCCCAGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
73141019 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
73141060 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
73141079 TTATCACCCA
Statistics
Matches: 195, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 27 0.14
39 16 0.08
40 123 0.63
41 24 0.12
42 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:73142908 original size:30 final size:30
Alignment explanation
Indices: 73142872--73142933 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
73142862 TATTGGGTCC
73142872 AATTAAACGTGTTTTTTGAAATTTTAACCT
1 AATTAAACGTGTTTTTTGAAATTTTAACCT
73142902 AATTAAACGTGTTTTTTGAAATTTTAACCT
1 AATTAAACGTGTTTTTTGAAATTTTAACCT
73142932 AA
1 AA
73142934 CACGTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (30 bp):
AATTAAACGTGTTTTTTGAAATTTTAACCT
Found at i:73148932 original size:10 final size:9
Alignment explanation
Indices: 73148908--73148933 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
73148898 TTCAAGAATC
73148908 TCAAAAACA
1 TCAAAAACA
73148917 TCAAAAACA
1 TCAAAAACA
73148926 TCAAAAAC
1 TCAAAAAC
73148934 CAACACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:73149481 original size:16 final size:16
Alignment explanation
Indices: 73149460--73149493 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73149450 CCAATATCCA
* *
73149460 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
73149476 ATTATCACATTTACAC
1 ATTATCACATTTACAC
73149492 AT
1 AT
73149494 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:73149539 original size:2 final size:2
Alignment explanation
Indices: 73149532--73149561 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
73149522 TACATTCGTA
73149532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73149562 CAATTCGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73150036 original size:26 final size:26
Alignment explanation
Indices: 73150006--73150086 Score: 144
Period size: 26 Copynumber: 3.1 Consensus size: 26
73149996 AATTTAGTCC
73150006 CTATTACTCAAAATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
* *
73150032 CTATTATTCAATATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
73150058 CTATTACTCAAAATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
73150084 CTA
1 CTA
73150087 CAATTTAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (26 bp):
CTATTACTCAAAATTTATAATTTGTT
Found at i:73150345 original size:14 final size:14
Alignment explanation
Indices: 73150320--73150358 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
73150310 GTTGAACCTT
73150320 CTTTTC-TTCTTTC
1 CTTTTCTTTCTTTC
*
73150333 TTTTTCTTTCTTTC
1 CTTTTCTTTCTTTC
73150347 CTTTTCTTTCTT
1 CTTTTCTTTCTT
73150359 AGTTTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTCTTTCTTTC
Found at i:73150427 original size:29 final size:31
Alignment explanation
Indices: 73150395--73150455 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
73150385 ACCTATTTTT
* *
73150395 TATAC-TTTAATTTATTATT-ATATAATATA
1 TATACATTTAATTAATTATTAATATAACATA
*
73150424 TATACATTTACTTAATTATTAATATAACATA
1 TATACATTTAATTAATTATTAATATAACATA
73150455 T
1 T
73150456 TTTAACATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 5 0.19
30 12 0.44
31 10 0.37
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (31 bp):
TATACATTTAATTAATTATTAATATAACATA
Found at i:73157724 original size:21 final size:21
Alignment explanation
Indices: 73157700--73157742 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
73157690 GAACCTTCAC
73157700 TTAT-TCATCACATAGTCATTT
1 TTATATCA-CACATAGTCATTT
* *
73157721 TTATATTACACCTAGTCATTT
1 TTATATCACACATAGTCATTT
73157742 T
1 T
73157743 CCGTTGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (21 bp):
TTATATCACACATAGTCATTT
Found at i:73157883 original size:50 final size:50
Alignment explanation
Indices: 73157777--73157915 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 50
73157767 CGAATGCCCG
* * *
73157777 GTGGACTGCACATAGTACCAC-CATTGTAGTCAAAGCTACTTTCTTCACAAA
1 GTGGCCTGCACATAGTACCACAC-TTGT-GACAAAGCTACTTTCTACACAAA
* * *
73157828 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTTT-TACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGACAAAGCTA-CTTTCTACACAAA
* * *
73157878 GTGGCCTGCACTTAGTACCACACATGTGATAGAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGACA-AAGCTA
73157916 TAGGGTACGC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 40 0.54
51 33 0.45
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
GTGGCCTGCACATAGTACCACACTTGTGACAAAGCTACTTTCTACACAAA
Found at i:73157994 original size:50 final size:51
Alignment explanation
Indices: 73157925--73158054 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 51
73157915 ATAGGGTACG
* **
73157925 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACCATCTGGTACA
1 CATAGTAGCCTGTACTTAGTACTACACATGCGACCTAAACCATCTGAAACA
* * * * *
73157975 CGTAGTAGCTTGTACTTAGTACTACACATGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGTACTTAGTACTACACATGCGACCT-AAACCATCTGAAACA
*
73158027 CATAGTAGCCTGTACATAGTACTACACA
1 CATAGTAGCCTGTACTTAGTACTACACA
73158055 AGTGTTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 32 0.48
52 35 0.52
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (51 bp):
CATAGTAGCCTGTACTTAGTACTACACATGCGACCTAAACCATCTGAAACA
Found at i:73165773 original size:98 final size:97
Alignment explanation
Indices: 73165599--73165793 Score: 264
Period size: 98 Copynumber: 2.0 Consensus size: 97
73165589 GAACTCATGC
* * *
73165599 TTTTATTTGAATCAAAGAATATGAGTCACACATACATAGTCCATTATCCACTCAAGATTAAGGTA
1 TTTTATTTGAATCAAAGAATACGAGCCACACATACATAGTCCATCATCCACTCAAGATTAAGGTA
*
73165664 TGACACACTATGAACATCACAAGTGAATAAAT
66 TGACACACTATGAACATCACAAATGAATAAAT
* * * * *
73165696 TTTTCATTTGCATCATAGTATACGAGCCACACATACATAGTCCGTCATCCACTCAGGATTAAGGT
1 TTTT-ATTTGAATCAAAGAATACGAGCCACACATACATAGTCCATCATCCACTCAAGATTAAGGT
* ** *
73165761 ATGACACTCTATGAAGGTTACAAATGAATAAAT
65 ATGACACACTATGAACATCACAAATGAATAAAT
73165794 CTATAAATGG
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
97 4 0.05
98 80 0.95
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (97 bp):
TTTTATTTGAATCAAAGAATACGAGCCACACATACATAGTCCATCATCCACTCAAGATTAAGGTA
TGACACACTATGAACATCACAAATGAATAAAT
Found at i:73174640 original size:15 final size:15
Alignment explanation
Indices: 73174620--73174650 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
73174610 CATAAAACTT
73174620 TCACAAGAGCAACAC
1 TCACAAGAGCAACAC
73174635 TCACAAGAGCAACAC
1 TCACAAGAGCAACAC
73174650 T
1 T
73174651 TTTGTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.32, G:0.13, T:0.10
Consensus pattern (15 bp):
TCACAAGAGCAACAC
Found at i:73175933 original size:58 final size:57
Alignment explanation
Indices: 73175822--73176008 Score: 258
Period size: 58 Copynumber: 3.3 Consensus size: 57
73175812 CCACTGACCG
* * *
73175822 ATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATTACCA
1 ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTA-CA
73175879 ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACA
1 ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACA
* * *
73175936 GATCTCGCACACATAGTGCTCGGTTAACGGAATTTGCACACACAGTGCCTCTAA-T-C-
1 -ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC-AATTACA
73175992 AT-TCGCACACATAATGC
1 ATCTCGCACACATAATGC
73176009 CCATATTCAT
Statistics
Matches: 120, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
54 14 0.12
55 2 0.02
57 28 0.23
58 74 0.62
59 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (57 bp):
ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACA
Found at i:73175974 original size:29 final size:29
Alignment explanation
Indices: 73175825--73175983 Score: 114
Period size: 29 Copynumber: 5.5 Consensus size: 29
73175815 CTGACCGATC
* *
73175825 TCGCACACATAGTGCTCGGTTGAA--GAAC
1 TCGCACACACAGTGCTCGGTT-AACGGAAT
** *
73175853 TCGCACACACAGTGCCTCAATT-AC-CAAT
1 TCGCACACACAGTG-CTCGGTTAACGGAAT
* * *
73175881 CTCGCACACATAATGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAACGGAAT
** *
73175911 TCGCACACACAGTGCCTCAATT-ACAG-AT
1 TCGCACACACAGTG-CTCGGTTAACGGAAT
*
73175939 CTCGCACACATAGTGCTCGGTTAACGGAAT
1 -TCGCACACACAGTGCTCGGTTAACGGAAT
*
73175969 TTGCACACACAGTGC
1 TCGCACACACAGTGC
73175984 CTCTAATCAT
Statistics
Matches: 99, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
27 1 0.01
28 27 0.27
29 61 0.62
30 10 0.10
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAACGGAAT
Found at i:73176362 original size:43 final size:43
Alignment explanation
Indices: 73176152--73176361 Score: 366
Period size: 43 Copynumber: 4.9 Consensus size: 43
73176142 CAACGGCATT
*
73176152 AAGCCTGCTAGGCACGAAGTCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
73176195 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
* *
73176238 AAGCTTGCTAGGCACGAAGGCCCGAATACATATCACCGGCCCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
* *
73176281 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGACACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
*
73176324 AAGCCTGCTAGGCACGAAGGCCCGAATACAAATCACCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCG
73176362 AGTTTCATGC
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
Found at i:73177328 original size:10 final size:10
Alignment explanation
Indices: 73177313--73177340 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
73177303 TAACAACAGA
73177313 GTAAGCTTTT
1 GTAAGCTTTT
73177323 GTAAGCTTTT
1 GTAAGCTTTT
73177333 GTAAGCTT
1 GTAAGCTT
73177341 AGTAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.46
Consensus pattern (10 bp):
GTAAGCTTTT
Done.