Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 246 of 292
Found at i:71560731 original size:41 final size:41
Alignment explanation
Indices: 71560636--71560713 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
71560626 CTTAAATGAT
* * * *
71560636 GCAAGAGGTCAAGCAGTAGCGGTGTTTGTGATAAAAACACC
1 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACACC
71560677 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAA
1 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAA
71560714 TGACGGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.19
Consensus pattern (41 bp):
GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACACC
Found at i:71560765 original size:7 final size:7
Alignment explanation
Indices: 71560753--71560827 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
71560743 ATAATTTTAT
*
71560753 TTTAGGG
1 TTTAAGG
71560760 TTT-AGG
1 TTTAAGG
*
71560766 TTTTAAGA
1 -TTTAAGG
*
71560774 TTTAATG
1 TTTAAGG
71560781 TTTAAGG
1 TTTAAGG
71560788 TTTAAGG
1 TTTAAGG
* *
71560795 TCTATGG
1 TTTAAGG
*
71560802 TTTATGG
1 TTTAAGG
71560809 TTTTAAGG
1 -TTTAAGG
*
71560817 TTTATGG
1 TTTAAGG
71560824 TTTA
1 TTTA
71560828 GTGTTTTGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
6 2 0.04
7 45 0.82
8 8 0.15
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:71560822 original size:22 final size:21
Alignment explanation
Indices: 71560753--71560834 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 21
71560743 ATAATTTTAT
* *
71560753 TTTAGGGTTTAGGTTTTAAGA
1 TTTATGGTTTAGGTTTTAAGG
71560774 TTTAAT-GTTTAAGG-TTTAAGG
1 TTT-ATGGTTT-AGGTTTTAAGG
*
71560795 TCTATGGTTTATGGTTTTAAGG
1 TTTATGGTTTA-GGTTTTAAGG
71560817 TTTATGGTTTAGTGTTTT
1 TTTATGGTTTAG-GTTTT
71560835 GTAACAGCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.06
21 22 0.43
22 26 0.51
ACGTcount: A:0.21, C:0.01, G:0.26, T:0.52
Consensus pattern (21 bp):
TTTATGGTTTAGGTTTTAAGG
Found at i:71563732 original size:29 final size:29
Alignment explanation
Indices: 71563693--71563772 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
71563683 CACTTTGTGC
71563693 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
71563722 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* * *
71563750 GATACTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTTGGATGGA
71563773 CATTTTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.47
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:71563994 original size:22 final size:23
Alignment explanation
Indices: 71563957--71564001 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
71563947 GTTTTACTGA
71563957 TCAGACACTTTATGTGTCGTATT
1 TCAGACACTTTATGTGTCGTATT
*
71563980 TCAGGCAC-TTATGTGTCGTATT
1 TCAGACACTTTATGTGTCGTATT
71564002 CTTATCAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (23 bp):
TCAGACACTTTATGTGTCGTATT
Found at i:71568580 original size:21 final size:22
Alignment explanation
Indices: 71568545--71568587 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
71568535 TTACAACCTT
*
71568545 AGTATTTAAGGTTTAGGGGTTA
1 AGTATTTAAGGTTTAAGGGTTA
*
71568567 AGTA-TTATGGTTTAAGGGTTA
1 AGTATTTAAGGTTTAAGGGTTA
71568588 GGGATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (22 bp):
AGTATTTAAGGTTTAAGGGTTA
Found at i:71568944 original size:2 final size:2
Alignment explanation
Indices: 71568937--71568965 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71568927 ACTTTTGTAC
71568937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71568966 GGGTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71569845 original size:18 final size:18
Alignment explanation
Indices: 71569795--71569845 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
71569785 TCCCCCAACA
* * *
71569795 AAATTTCCCCAATTTCCT
1 AAATTTTCCCAAATCCCT
*
71569813 AAATTTTCCCTAATCCCT
1 AAATTTTCCCAAATCCCT
71569831 AAATTTTCCCAAATC
1 AAATTTTCCCAAATC
71569846 AAAATCCCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTCCCAAATCCCT
Found at i:71570311 original size:19 final size:17
Alignment explanation
Indices: 71570263--71570304 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
71570253 AAATTGAAAC
71570263 GATTACTTTCATAGAGA
1 GATTACTTTCATAGAGA
71570280 GATTACTTTCATAGAGA
1 GATTACTTTCATAGAGA
71570297 GATTACTT
1 GATTACTT
71570305 AATCATAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (17 bp):
GATTACTTTCATAGAGA
Found at i:71572920 original size:13 final size:13
Alignment explanation
Indices: 71572904--71572928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71572894 TAATTAAAGG
71572904 GTTAAAATTTAAA
1 GTTAAAATTTAAA
71572917 GTTAAAATTTAA
1 GTTAAAATTTAA
71572929 CTTACACAAC
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:71572995 original size:34 final size:31
Alignment explanation
Indices: 71572951--71573174 Score: 133
Period size: 34 Copynumber: 7.5 Consensus size: 31
71572941 ACATAATTTA
*
71572951 CATAATTTACATAGTACATAAATAAATATCATAT
1 CATAACTTACATA--ACATAAAT-AATATCATAT
* * *
71572985 CATAACTTACACAACTTACATAAT-T--TA-
1 CATAACTTACATAACATAAATAATATCATAT
71573012 CATAA-TGTACATAA-AT--AT-ATATCATAT
1 CATAACT-TACATAACATAAATAATATCATAT
*
71573039 CATAACTTACATAATACATAAATAAATATCATCT
1 CATAACTTACAT-A-ACATAAAT-AATATCATAT
* * *
71573073 CATAACTTACACAACTTACATAAT-T--TA-
1 CATAACTTACATAACATAAATAATATCATAT
*
71573100 CAT-A-TT--GT-ACATAAATATATATCATAT
1 CATAACTTACATAACATAAATA-ATATCATAT
*
71573127 CACAACTTACATAATGCATAAATAAATATCATAT
1 CATAACTTACATAA--CATAAAT-AATATCATAT
71573161 CATAACTTACATAA
1 CATAACTTACATAA
71573175 TTTACATTAC
Statistics
Matches: 146, Mismatches: 18, Indels: 52
0.68 0.08 0.24
Matches are distributed among these distances:
22 7 0.05
23 4 0.03
24 4 0.03
25 2 0.01
26 7 0.05
27 26 0.18
28 6 0.04
29 3 0.02
30 4 0.03
31 7 0.05
32 15 0.10
33 1 0.01
34 59 0.40
35 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.34
Consensus pattern (31 bp):
CATAACTTACATAACATAAATAATATCATAT
Found at i:71573057 original size:52 final size:51
Alignment explanation
Indices: 71572936--71573059 Score: 187
Period size: 54 Copynumber: 2.4 Consensus size: 51
71572926 TAACTTACAC
71572936 AACTTACATAATTTACATAATTTACATAGTACATAAATAAATATCATATCAT
1 AACTTACATAA-TTACATAATTTACATAGTACATAAATAAATATCATATCAT
* *
71572988 AACTTACACAACTTACATAATTTACATAATGTACATAAATATATATCATATCAT
1 AACTTACATAA-TTACATAATTTACAT-A-GTACATAAATAAATATCATATCAT
71573042 AACTTACATAA-TACATAA
1 AACTTACATAATTACATAA
71573060 ATAAATATCA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
52 32 0.48
53 1 0.02
54 33 0.50
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (51 bp):
AACTTACATAATTACATAATTTACATAGTACATAAATAAATATCATATCAT
Found at i:71573067 original size:88 final size:88
Alignment explanation
Indices: 71572951--71573193 Score: 396
Period size: 88 Copynumber: 2.8 Consensus size: 88
71572941 ACATAATTTA
* *
71572951 CATAATTTACATAGTACATAAATAAATATCATATCATAACTTACACAACTTACATAATTTACATA
1 CATAACTTACATAATACATAAATAAATATCATATCATAACTTACACAACTTACATAATTTACATA
71573016 ATGTACATAAATATATATCATAT
66 ATGTACATAAATATATATCATAT
*
71573039 CATAACTTACATAATACATAAATAAATATCATCTCATAACTTACACAACTTACATAATTTACATA
1 CATAACTTACATAATACATAAATAAATATCATATCATAACTTACACAACTTACATAATTTACATA
*
71573104 TTGTACATAAATATATATCATAT
66 ATGTACATAAATATATATCATAT
* * * * * *
71573127 CACAACTTACATAATGCATAAATAAATATCATATCATAACTTACATAATTTACATTACTTACATA
1 CATAACTTACATAATACATAAATAAATATCATATCATAACTTACACAACTTACATAATTTACATA
71573192 AT
66 AT
71573194 TTACGTAATA
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 143 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (88 bp):
CATAACTTACATAATACATAAATAAATATCATATCATAACTTACACAACTTACATAATTTACATA
ATGTACATAAATATATATCATAT
Found at i:71573100 original size:9 final size:9
Alignment explanation
Indices: 71572926--71573103 Score: 77
Period size: 9 Copynumber: 20.2 Consensus size: 9
71572916 AGTTAAAATT
71572926 TAACTTACA
1 TAACTTACA
*
71572935 CAACTTACA
1 TAACTTACA
*
71572944 TAATTTACA
1 TAACTTACA
*
71572953 TAATTTACA
1 TAACTTACA
*
71572962 T-A-GTACA
1 TAACTTACA
* *
71572969 TAA-ATAAA
1 TAACTTACA
* *
71572977 TATCATATCA
1 TAACTTA-CA
71572987 TAACTTACA
1 TAACTTACA
*
71572996 CAACTTACA
1 TAACTTACA
*
71573005 TAATTTACA
1 TAACTTACA
71573014 TAA-TGTACA
1 TAACT-TACA
* *
71573023 TAA-ATATA
1 TAACTTACA
* *
71573031 TATCATATCA
1 TAACTTA-CA
71573041 TAACTTACA
1 TAACTTACA
71573050 TAA--TACA
1 TAACTTACA
* *
71573057 TAA-ATAAA
1 TAACTTACA
*
71573065 TATCATCT-CA
1 TAAC-T-TACA
71573075 TAACTTACA
1 TAACTTACA
*
71573084 CAACTTACA
1 TAACTTACA
*
71573093 TAATTTACA
1 TAACTTACA
71573102 TA
1 TA
71573104 TTGTACATAA
Statistics
Matches: 131, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
7 12 0.09
8 19 0.15
9 83 0.63
10 16 0.12
11 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (9 bp):
TAACTTACA
Found at i:71574673 original size:42 final size:42
Alignment explanation
Indices: 71574614--71574697 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
71574604 TATTGAAGAG
71574614 TTAGAACAGTTATGGGTGGGTGTTGAGACATATGATGTACTA
1 TTAGAACAGTTATGGGTGGGTGTTGAGACATATGATGTACTA
71574656 TTAGAACAGTTATGGGTGGGTGTTGAGACATATGATGTACTA
1 TTAGAACAGTTATGGGTGGGTGTTGAGACATATGATGTACTA
71574698 AGAAAGGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.33
Consensus pattern (42 bp):
TTAGAACAGTTATGGGTGGGTGTTGAGACATATGATGTACTA
Found at i:71577391 original size:30 final size:30
Alignment explanation
Indices: 71577356--71577413 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
71577346 CGGAAACACC
71577356 TGATGAGCCTGCAAAAATTCAAAGTAATCA
1 TGATGAGCCTGCAAAAATTCAAAGTAATCA
71577386 TGATGAGCCTGCAAAAATTCAAAGTAAT
1 TGATGAGCCTGCAAAAATTCAAAGTAAT
71577414 GTTAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (30 bp):
TGATGAGCCTGCAAAAATTCAAAGTAATCA
Found at i:71579951 original size:32 final size:32
Alignment explanation
Indices: 71579854--71579967 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
71579844 GTACCTAAAA
* * *
71579854 TGTACAACTGGAAAAGTAAATGTACACTGTGTG
1 TGTACAACTTGAAAAGGAAATGTACCCT-TGTG
* * *
71579887 TGTACAACTTAAAAAGGAAACGTACACTTTGTG
1 TGTACAACTTGAAAAGGAAATGTAC-CCTTGTG
71579920 TGTAC-ACTTGAAAAGGAAATGTACGCCTTGTG
1 TGTACAACTTGAAAAGGAAATGTAC-CCTTGTG
71579952 TGTACAA-TGTGAAAAG
1 TGTACAACT-TGAAAAG
71579968 TGGTAGCTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
32 29 0.43
33 38 0.56
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (32 bp):
TGTACAACTTGAAAAGGAAATGTACCCTTGTG
Found at i:71579997 original size:31 final size:31
Alignment explanation
Indices: 71579960--71580045 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
71579950 TGTGTACAAT
*
71579960 GTGAAAAGTGGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
71579991 GTGAAAAGTAGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
71580022 ATGAATAGTGATAGCTTCGACTAC
1 GTGAAAAGTGGTAGCTTCGGCTAC
71580046 AAGTGACAAG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:71580165 original size:27 final size:27
Alignment explanation
Indices: 71580135--71580186 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
71580125 TAGTTGAACT
*
71580135 ATGGAAAAGTGATAAAGTGTGCCAATC
1 ATGGAAAAATGATAAAGTGTGCCAATC
*
71580162 ATGGAAAAATGATATAGTGTGCCAA
1 ATGGAAAAATGATAAAGTGTGCCAA
71580187 ACATAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGGAAAAATGATAAAGTGTGCCAATC
Found at i:71583093 original size:43 final size:42
Alignment explanation
Indices: 71583021--71583155 Score: 164
Period size: 43 Copynumber: 3.2 Consensus size: 42
71583011 GAACATGATA
* **
71583021 TTTAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTCATATTC
1 TTTAACGGCGTTTGTTG-AAAAGCGCCGCTAAAGGTCACGTTC
* * *
71583063 TTTAACGGCGTTTGTATGAAAAGTGGCGCTAAAAGTCACGTTC
1 TTTAACGGCGTTTGT-TGAAAAGCGCCGCTAAAGGTCACGTTC
* *
71583106 TTTAGCGGCGTTTGTGTGGAAAGCGCCGCTAAAGGTCACGTTC
1 TTTAACGGCGTTTGT-TGAAAAGCGCCGCTAAAGGTCACGTTC
71583149 TTTAACG
1 TTTAACG
71583156 ACGCTTTCTC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 12 0.15
43 64 0.82
44 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
TTTAACGGCGTTTGTTGAAAAGCGCCGCTAAAGGTCACGTTC
Found at i:71583201 original size:85 final size:86
Alignment explanation
Indices: 71583021--71583202 Score: 208
Period size: 85 Copynumber: 2.1 Consensus size: 86
71583011 GAACATGATA
* * * * * * *
71583021 TTTAGCGGCGTTTTTGT-AAAAGCGCCGCTAAAGGTCATATTCTTTAACGGCGTTTGTATGAAAA
1 TTTAGAGGCGTTTGTGTGGAAAGCGCCGCTAAAGGTCACATTCTTTAACGACGCTTGTATCAAAA
* *
71583085 GTGGCGCTAAAAGTCACGTTC
66 ATGCCGCTAAAAGTCACGTTC
* * *
71583106 TTTAGCGGCGTTTGTGTGGAAAGCGCCGCTAAAGGTCACGTTCTTTAACGACGCTT-TCTCAAAA
1 TTTAGAGGCGTTTGTGTGGAAAGCGCCGCTAAAGGTCACATTCTTTAACGACGCTTGTATCAAAA
*
71583170 ATGCCGCTAAAAGTCATG-TC
66 ATGCCGCTAAAAGTCACGTTC
*
71583190 TTTTGGAGGCGTT
1 -TTTAGAGGCGTT
71583203 GTCTTTAGCA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 2 0.02
85 47 0.57
86 33 0.40
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (86 bp):
TTTAGAGGCGTTTGTGTGGAAAGCGCCGCTAAAGGTCACATTCTTTAACGACGCTTGTATCAAAA
ATGCCGCTAAAAGTCACGTTC
Found at i:71583667 original size:11 final size:11
Alignment explanation
Indices: 71583651--71583675 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
71583641 AAACTTCTTA
71583651 CATAAAATACC
1 CATAAAATACC
71583662 CATAAAATACC
1 CATAAAATACC
71583673 CAT
1 CAT
71583676 GGTAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
CATAAAATACC
Found at i:71591552 original size:14 final size:14
Alignment explanation
Indices: 71591533--71591560 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71591523 AAATTCTAAA
71591533 TTGAAATATATTTT
1 TTGAAATATATTTT
71591547 TTGAAATATATTTT
1 TTGAAATATATTTT
71591561 CTTGTAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTGAAATATATTTT
Found at i:71591803 original size:26 final size:27
Alignment explanation
Indices: 71591743--71591803 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
71591733 ATATTAATTA
* *
71591743 ATTTTTTCATTTTTTATTAGATAATATC
1 ATTTTTTCATTTTTCA-TACATAATATC
* *
71591771 ATATTTTCATTTTTCA-ACATAATATT
1 ATTTTTTCATTTTTCATACATAATATC
71591797 ATTTTTT
1 ATTTTTT
71591804 TAAAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 14 0.50
28 14 0.50
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTTTTCATTTTTCATACATAATATC
Found at i:71593237 original size:18 final size:18
Alignment explanation
Indices: 71593214--71593255 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
71593204 TTTAGGAATA
* *
71593214 TTTTTATCTAAAAAGTGT
1 TTTTTATCCAAAAAGTAT
*
71593232 TTTTTATCCCAAAAGTAT
1 TTTTTATCCAAAAAGTAT
71593250 TTTTTA
1 TTTTTA
71593256 GAACTAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (18 bp):
TTTTTATCCAAAAAGTAT
Found at i:71594331 original size:13 final size:13
Alignment explanation
Indices: 71594313--71594338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71594303 GGTGGCGGAC
71594313 ATTGCCCCACAAG
1 ATTGCCCCACAAG
71594326 ATTGCCCCACAAG
1 ATTGCCCCACAAG
71594339 GCGAAGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
ATTGCCCCACAAG
Found at i:71597019 original size:14 final size:14
Alignment explanation
Indices: 71596990--71597019 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
71596980 TTTATTATCT
71596990 AAAACAAAACCAAA
1 AAAACAAAACCAAA
71597004 AAAACCAAAACCAAA
1 AAAA-CAAAACCAAA
71597019 A
1 A
71597020 CCAAAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAACAAAACCAAA
Found at i:71598588 original size:17 final size:18
Alignment explanation
Indices: 71598526--71598589 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 18
71598516 TGTTATATTT
*
71598526 TTTTAAGAATTTAAAATA
1 TTTTAAAAATTTAAAATA
** *
71598544 TAATAGAAATTATAAAATA
1 TTTTAAAAATT-TAAAATA
*
71598563 TTGTAAAAATTTAAAA-A
1 TTTTAAAAATTTAAAATA
71598580 TTTTAAAAAT
1 TTTTAAAAAT
71598590 ATATTGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 10 0.27
18 12 0.32
19 15 0.41
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TTTTAAAAATTTAAAATA
Found at i:71599148 original size:21 final size:23
Alignment explanation
Indices: 71599124--71599170 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
71599114 ATCAATACAG
*
71599124 TAAAAAAA-TATTTGGAAT-AAT
1 TAAAAAAATTATTTGAAATAAAT
71599145 TAAAAAAATTATTTGAAATAAAT
1 TAAAAAAATTATTTGAAATAAAT
71599168 TAA
1 TAA
71599171 CATTTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (23 bp):
TAAAAAAATTATTTGAAATAAAT
Found at i:71606156 original size:40 final size:40
Alignment explanation
Indices: 71606111--71606237 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
71606101 CGGAATATAA
*
71606111 CCGGATATAAGCATGTGCACAAATACCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* *
71606151 CCGGATAGAATG-ACT-TGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
71606191 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
71606231 CCGGATA
1 CCGGATA
71606238 AAATTTCCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 68 0.93
41 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71606255 original size:40 final size:40
Alignment explanation
Indices: 71606127--71606277 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 40
71606117 ATAAGCATGT
* * * * **
71606127 GCACAAATACCTTCGGGTCTTAGCCCGGATAGAA-TGACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAACCG-CCA
* * *
71606167 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAACCGCCA
* ***
71606207 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAACCGCCA
* * *
71606247 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
71606278 TCATTCAATT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAACCGCCA
Found at i:71612313 original size:3 final size:3
Alignment explanation
Indices: 71612305--71612332 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
71612295 GAGAGATAGG
71612305 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
71612333 AGTGAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:71612697 original size:25 final size:21
Alignment explanation
Indices: 71612647--71612697 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 21
71612637 ATCTTTATAA
71612647 TTTTAATATTTTTATATTTTT
1 TTTTAATATTTTTATATTTTT
*
71612668 GTTTAACTATTATTTATATTATTCT
1 TTTTAA-TATT-TTTATATT-TT-T
71612693 TTTTA
1 TTTTA
71612698 TAAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 8 0.33
24 2 0.08
25 5 0.21
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATATTTTTATATTTTT
Found at i:71620074 original size:29 final size:30
Alignment explanation
Indices: 71620040--71620101 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
71620030 ACTTATTTTA
*
71620040 TTGTTAA-TCTATTATTATTTTAAAGGGAT
1 TTGTTAATTCTATTATTATTTTAAAGGCAT
* * *
71620069 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTCTATTATTATTTTAAAGGCAT
71620099 TTG
1 TTG
71620102 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (30 bp):
TTGTTAATTCTATTATTATTTTAAAGGCAT
Found at i:71629258 original size:25 final size:25
Alignment explanation
Indices: 71629230--71629283 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
71629220 TTTCTATTTC
71629230 TGTTAAAGATTTCATGAAATACCAT
1 TGTTAAAGATTTCATGAAATACCAT
71629255 TGTTAAAGATTTCATGAAATACCAT
1 TGTTAAAGATTTCATGAAATACCAT
71629280 TGTT
1 TGTT
71629284 GATATCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (25 bp):
TGTTAAAGATTTCATGAAATACCAT
Found at i:71629999 original size:43 final size:42
Alignment explanation
Indices: 71629887--71629999 Score: 97
Period size: 42 Copynumber: 2.7 Consensus size: 42
71629877 GAAATTTAAG
* * * * * *
71629887 TGTAAGACCATGTCTGGGACATCGACATCGTATCTGTTTTCG
1 TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTGATTACA
* *
71629929 TATAAGACC-CTGTCTGGGACAG-AGGCATCG-ATACTGAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTCGGCATCGTAT-CTG-ATTACA
71629972 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTCGGCAT
71630000 TATACTTGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
41 2 0.04
42 27 0.49
43 25 0.45
44 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTGATTACA
Found at i:71630465 original size:12 final size:13
Alignment explanation
Indices: 71630448--71630479 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
71630438 GCAAATGTTA
71630448 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
71630460 AGTTTTGATGCAT
1 AGTTTTGATGCAT
71630473 -GTTTTGA
1 AGTTTTGA
71630480 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:71635704 original size:21 final size:21
Alignment explanation
Indices: 71635678--71635720 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
71635668 TCACTGAATT
71635678 TGTGAGTGTGTTATAATCTAG
1 TGTGAGTGTGTTATAATCTAG
*
71635699 TGTGAGTTTGTTATAATCTAG
1 TGTGAGTGTGTTATAATCTAG
71635720 T
1 T
71635721 AAATGTAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.47
Consensus pattern (21 bp):
TGTGAGTGTGTTATAATCTAG
Found at i:71641185 original size:22 final size:22
Alignment explanation
Indices: 71641158--71641202 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
71641148 TTTATAATTT
71641158 TTTAGAATTTCATAATAATTAA
1 TTTAGAATTTCATAATAATTAA
71641180 TTTAGAATTTCATAATAATTAA
1 TTTAGAATTTCATAATAATTAA
71641202 T
1 T
71641203 CACAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTAGAATTTCATAATAATTAA
Found at i:71643541 original size:155 final size:155
Alignment explanation
Indices: 71643284--71643593 Score: 575
Period size: 155 Copynumber: 2.0 Consensus size: 155
71643274 TTCAAGTTTT
*
71643284 AAAGCGTATTGTACAATTAAGGTTAATGCATGTTTCTAGAGAAGAAAATAAATATATAAATTTCC
1 AAAGCGTATTGTACAATTAAGGTTAATGCATGCTTCTAGAGAAGAAAATAAATATATAAATTTCC
* * *
71643349 TAACTAAAATGGTTTTAGATAAGAAGAAAGGTGTTTAGATTTTTGACGAAGCTCGAGCTCATAGC
66 TAACTAAAATGGTTTCAGATAAGAAGAAAAGTGTTTAGATTTTTGACGAAACTCGAGCTCATAGC
*
71643414 TAATATTAAAAGTTTGATTTAATAA
131 TAATATTAAAAGTTTGATATAATAA
71643439 AAAGCGTATTGTACAATTAAGGTTAATGCATGCTTCTAGAGAAGAAAATAAATATATAAATTTCC
1 AAAGCGTATTGTACAATTAAGGTTAATGCATGCTTCTAGAGAAGAAAATAAATATATAAATTTCC
71643504 TAACTAAAATGGTTTCAGATAAGAAGAAAAGTGTTTAGATTTTTGACGAAACTCGAGCTCATAGC
66 TAACTAAAATGGTTTCAGATAAGAAGAAAAGTGTTTAGATTTTTGACGAAACTCGAGCTCATAGC
71643569 TAATATTAAAAGTTTGATATAATAA
131 TAATATTAAAAGTTTGATATAATAA
71643594 GCAATGAATT
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 150 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.33
Consensus pattern (155 bp):
AAAGCGTATTGTACAATTAAGGTTAATGCATGCTTCTAGAGAAGAAAATAAATATATAAATTTCC
TAACTAAAATGGTTTCAGATAAGAAGAAAAGTGTTTAGATTTTTGACGAAACTCGAGCTCATAGC
TAATATTAAAAGTTTGATATAATAA
Found at i:71643705 original size:6 final size:6
Alignment explanation
Indices: 71643696--71643722 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
71643686 TGAATGAAAA
71643696 TGGAAG TGGAAG TGGAAG TGGAAG TGG
1 TGGAAG TGGAAG TGGAAG TGGAAG TGG
71643723 CTTACGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.52, T:0.19
Consensus pattern (6 bp):
TGGAAG
Found at i:71645024 original size:3 final size:3
Alignment explanation
Indices: 71645010--71645045 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
71645000 CACTCATGAA
71645010 ATT ATCT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
71645046 AAGGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:71650731 original size:15 final size:15
Alignment explanation
Indices: 71650711--71650740 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71650701 CTCCAGAGTT
71650711 ATATGAAAGTTCATG
1 ATATGAAAGTTCATG
71650726 ATATGAAAGTTCATG
1 ATATGAAAGTTCATG
71650741 CTAACTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
ATATGAAAGTTCATG
Found at i:71650802 original size:38 final size:39
Alignment explanation
Indices: 71650738--71650816 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
71650728 ATGAAAGTTC
71650738 ATGCTAACTTTGATGGAGCCAAATTTTAATTGAATTGAT
1 ATGCTAACTTTGATGGAGCCAAATTTTAATTGAATTGAT
71650777 ATGCTAACTTTGA-GGAGCCAAATTTTAATTGAATTGAT
1 ATGCTAACTTTGATGGAGCCAAATTTTAATTGAATTGAT
71650815 AT
1 AT
71650817 TCTTCAAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 27 0.68
39 13 0.32
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (39 bp):
ATGCTAACTTTGATGGAGCCAAATTTTAATTGAATTGAT
Found at i:71650955 original size:33 final size:34
Alignment explanation
Indices: 71650916--71650992 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
71650906 TAACTTGAAA
71650916 GTGTCTTCAACAGAGT-ACTC-TAATACTTCATTG
1 GTGTCTTCAACAGA-TAACTCTTAATACTTCATTG
* *
71650949 GTGTCTTCAACATATAACTCTTATTACTTCATTG
1 GTGTCTTCAACAGATAACTCTTAATACTTCATTG
71650983 GTGTCTTCAA
1 GTGTCTTCAA
71650993 AACTTTCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 1 0.03
33 17 0.43
34 22 0.55
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (34 bp):
GTGTCTTCAACAGATAACTCTTAATACTTCATTG
Found at i:71655235 original size:69 final size:69
Alignment explanation
Indices: 71655150--71655290 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
71655140 TGGCATTCTT
71655150 TAGGAATAGATGGTTAGGCTGCTTTTTCTGGTACATCAAATTGTTATAGGTTGTTGTAGGTTGTT
1 TAGGAATAGATGGTTAGGCTGCTTTTTCTGGTACATCAAATTGTTATAGGTTGTTGTAGGTTGTT
71655215 GTTA
66 GTTA
71655219 TAGGAATAGATGGTTAGGCTGCTTTTTCTGGTACATCAAATTGTTATAGGTTGTTGTAGGTTGTT
1 TAGGAATAGATGGTTAGGCTGCTTTTTCTGGTACATCAAATTGTTATAGGTTGTTGTAGGTTGTT
71655284 GTTA
66 GTTA
71655288 TAG
1 TAG
71655291 ATGATCAATG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.22, C:0.07, G:0.28, T:0.43
Consensus pattern (69 bp):
TAGGAATAGATGGTTAGGCTGCTTTTTCTGGTACATCAAATTGTTATAGGTTGTTGTAGGTTGTT
GTTA
Found at i:71667518 original size:14 final size:14
Alignment explanation
Indices: 71667499--71667526 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71667489 ATTTAGCCAA
71667499 AAAATTGCAAATGG
1 AAAATTGCAAATGG
71667513 AAAATTGCAAATGG
1 AAAATTGCAAATGG
71667527 TTTTGAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AAAATTGCAAATGG
Found at i:71669001 original size:14 final size:14
Alignment explanation
Indices: 71668984--71669016 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
71668974 AAACAGGAAA
71668984 AAAAAAACTAA-AAC
1 AAAAAAA-TAAGAAC
71668998 AAAAAAATAAGAAC
1 AAAAAAATAAGAAC
71669012 AAAAA
1 AAAAA
71669017 GTACACTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.82, C:0.09, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAAATAAGAAC
Found at i:71673240 original size:14 final size:15
Alignment explanation
Indices: 71673210--71673242 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
71673200 AGCCTAAATT
*
71673210 TTTATAGTTTTAGCA
1 TTTATAGTTTTACCA
71673225 TTTATA-TTTTACCA
1 TTTATAGTTTTACCA
71673239 TTTA
1 TTTA
71673243 ACAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTATAGTTTTACCA
Found at i:71673466 original size:2 final size:2
Alignment explanation
Indices: 71673459--71673506 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
71673449 TAAGCTGATG
71673459 AT AT AT AT AT AT 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 AT AT AT AT AT AT
71673501 AT AT AT
1 AT AT AT
71673507 CCATTTTCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71674794 original size:6 final size:6
Alignment explanation
Indices: 71674783--71674817 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
71674773 GCCAACCCCT
71674783 CTACAC CTACAC CTACAC CTACAC CTACAC CTACA
1 CTACAC CTACAC CTACAC CTACAC CTACAC CTACA
71674818 TCTTCCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.17
Consensus pattern (6 bp):
CTACAC
Found at i:71676224 original size:2 final size:2
Alignment explanation
Indices: 71676217--71676244 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71676207 TCACCTGTCA
71676217 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
71676245 GATTATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71677613 original size:12 final size:13
Alignment explanation
Indices: 71677586--71677618 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
71677576 TTTAAAGAAG
71677586 ATTTATTTTCTTA
1 ATTTATTTTCTTA
71677599 ATTTATTTT-TTA
1 ATTTATTTTCTTA
*
71677611 ATTAATTT
1 ATTTATTT
71677619 AAATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTATTTTCTTA
Found at i:71679627 original size:31 final size:31
Alignment explanation
Indices: 71679589--71679651 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
71679579 TGTGTGACGA
71679589 AAGACAACAAATGAAGAATTGACGGCAAATT
1 AAGACAACAAATGAAGAATTGACGGCAAATT
71679620 AAGACAACAAATGAAGAATTGACGGCAAATT
1 AAGACAACAAATGAAGAATTGACGGCAAATT
71679651 A
1 A
71679652 CCCAAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (31 bp):
AAGACAACAAATGAAGAATTGACGGCAAATT
Found at i:71681379 original size:12 final size:13
Alignment explanation
Indices: 71681364--71681395 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
71681354 ATAACACATT
71681364 TCAAAAC-ATGCA
1 TCAAAACTATGCA
71681376 TCAAAACTATGCA
1 TCAAAACTATGCA
71681389 -CAAAACT
1 TCAAAACT
71681396 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:71687702 original size:14 final size:14
Alignment explanation
Indices: 71687677--71687715 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
71687667 ATTAATATAC
* *
71687677 TTTAAAAATATTAT
1 TTTAATAATATTAA
*
71687691 TTTTATAATATTAA
1 TTTAATAATATTAA
71687705 TTTAATAATAT
1 TTTAATAATAT
71687716 AATGAACAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATAATATTAA
Found at i:71690776 original size:128 final size:127
Alignment explanation
Indices: 71690395--71690778 Score: 585
Period size: 128 Copynumber: 3.0 Consensus size: 127
71690385 TTATATTGAT
*
71690395 GATACTAAATAGAATAATGTTGATAATATCACCAAGGCTAATGA---TTATTTGACCTTCAATTG
1 GATACTAAATAGAA-AATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
*
71690457 GCTAGCATGATCTTATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
* ** * * *
71690520 AATACTAAATAGAGTGATGCTGATAATATCACCAAGGCTAATGATCTCTATTTAACTTTCAATTG
1 GATACTAAATAGA-AAATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
** * *
71690585 GCTAGCATGATCTCATAAAAATTAAGGTACATTACAATATCACTGATAATGACGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
71690648 GATACTAAATAGAAAATTGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
1 GATACTAAATAGAAAA-TGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
* * *
71690713 GCTAGCCTGATCTCATAAAACCCAAGGCACATTATAATATCACTGATAATGATGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
71690776 GAT
1 GAT
71690779 TTACCTTCTT
Statistics
Matches: 229, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
125 39 0.17
127 1 0.00
128 189 0.83
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (127 bp):
GATACTAAATAGAAAATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTGG
CTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
Found at i:71701531 original size:6 final size:6
Alignment explanation
Indices: 71701520--71701552 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
71701510 GAGTCTGCAA
71701520 TTTTTC TTTTTC TTTTTC -TTTTC TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
71701553 AATTTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:71701537 original size:12 final size:12
Alignment explanation
Indices: 71701520--71701552 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
71701510 GAGTCTGCAA
71701520 TTTTTCTTTTTC
1 TTTTTCTTTTTC
71701532 TTTTTC-TTTTC
1 TTTTTCTTTTTC
71701543 TTTTT-TTTTT
1 TTTTTCTTTTT
71701553 AATTTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:71705670 original size:13 final size:13
Alignment explanation
Indices: 71705654--71705696 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
71705644 TTATTATGTT
71705654 TTATTATATTATA
1 TTATTATATTATA
71705667 TTATTATATTAATATA
1 TTATTATA-T--TATA
71705683 TTATTATATTATA
1 TTATTATATTATA
71705696 T
1 T
71705697 ACTTAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:71705671 original size:8 final size:8
Alignment explanation
Indices: 71705660--71705694 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
71705650 TGTTTTATTA
71705660 TATTATAT
1 TATTATAT
71705668 TATTATAT
1 TATTATAT
*
71705676 TAATATAT
1 TATTATAT
71705684 TATTATAT
1 TATTATAT
71705692 TAT
1 TAT
71705695 ATACTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:71705682 original size:16 final size:15
Alignment explanation
Indices: 71705654--71705697 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
71705644 TTATTATGTT
71705654 TTATTATA-T-TATA
1 TTATTATATTATATA
71705667 TTATTATATTAATATA
1 TTATTATATT-ATATA
71705683 TTATTATATTATATA
1 TTATTATATTATATA
71705698 CTTAAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.29
14 1 0.04
15 5 0.18
16 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATATTATATA
Found at i:71713504 original size:47 final size:47
Alignment explanation
Indices: 71713387--71713560 Score: 203
Period size: 47 Copynumber: 3.7 Consensus size: 47
71713377 ATAATTTCAC
*
71713387 CCATAATGAACTCGGAACGCAACTCAACGAGCTT-GGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAG-TTCGGATGCTTCACAT
* * *
71713433 CCAGAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * *
71713479 CCATAAGTGAACTCGGAACGCAACTCAAAGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * *
71713528 TC-TCACGAACTCGGAACGCAACTCAACGAGTTC
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC
71713561 AGATCTCAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
45 2 0.02
46 41 0.38
47 61 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:71720963 original size:47 final size:46
Alignment explanation
Indices: 71720836--71720974 Score: 181
Period size: 46 Copynumber: 3.0 Consensus size: 46
71720826 ACTATCATAA
* * *
71720836 TTTCACCCATAATGAACTCAGAACGCAACTCAACGAGCTCGGATG-
1 TTTCATCCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGC
* * * *
71720881 TTCACATCCATAATGAACTCGGAATACAACTCAACGAGTTGGGATGC
1 TT-TCATCCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGC
*
71720928 TTTCATCCATAAGTGAACTCAGAACACAAGTCAACGAGTTCGGATGC
1 TTTCATCCATAA-TGAACTCAGAACACAACTCAACGAGTTCGGATGC
71720975 CTCATAATTC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 2 0.03
46 45 0.57
47 32 0.41
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (46 bp):
TTTCATCCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGC
Found at i:71737867 original size:18 final size:18
Alignment explanation
Indices: 71737844--71737881 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
71737834 ATTTAATTTA
*
71737844 TTTTCTTTTGATTTTGAT
1 TTTTCTTTTGATTTTCAT
*
71737862 TTTTCTTTTTATTTTCAT
1 TTTTCTTTTGATTTTCAT
71737880 TT
1 TT
71737882 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTGATTTTCAT
Found at i:71741590 original size:47 final size:47
Alignment explanation
Indices: 71741539--71741649 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
71741529 GACATTGAGT
*
71741539 CGATG-AGACACTATGTGT-CGACTATTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
71741586 CGATGAAGTACTTTGTGTACGATAATGTTAAAGTTTCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
71741633 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
71741650 CTTATCCTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 51 0.91
48 5 0.09
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:71748444 original size:18 final size:18
Alignment explanation
Indices: 71748421--71748458 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
71748411 ATTTAATTTA
* *
71748421 TTTTCTTTTTCTTTTGAT
1 TTTTCTTTTTATTTTCAT
71748439 TTTTCTTTTTATTTTCAT
1 TTTTCTTTTTATTTTCAT
71748457 TT
1 TT
71748459 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTATTTTCAT
Found at i:71751203 original size:13 final size:13
Alignment explanation
Indices: 71751187--71751219 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71751177 TTTAATTAAA
*
71751187 TTAGTTAATTAGT
1 TTAGATAATTAGT
71751200 TTAGATAATTAGT
1 TTAGATAATTAGT
71751213 TTA-ATAA
1 TTAGATAA
71751220 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:71754479 original size:109 final size:108
Alignment explanation
Indices: 71754281--71754499 Score: 332
Period size: 109 Copynumber: 2.0 Consensus size: 108
71754271 TGTGCCTGAG
* *
71754281 TAGAACCATACAAATCATCAATCTTTTATTTAAGAGTTCTCCCTGGTTAGATAGCATAATAATCG
1 TAGAACCACACAAATCATCAATCTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATCG
** *
71754346 CAGTGAGGTTGAAAACACCAGCTGCTTTTGTCGGCTTTGTCCT
66 CAGTGAGGTTGAAAACACCAGCTGCTTTCATCGACTTTGTCCT
* *
71754389 TAGAACCACCCAAATCATCAATCTTTTTATTTAAGAGTTCTACTTGGTTAGATAGCATAATAATC
1 TAGAACCACACAAATCATCAATC-TTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
* *
71754454 GCA-TCGAGGTTGAAATCACCGGCTGCTTTCATCGACTTTGTCCT
65 GCAGT-GAGGTTGAAAACACCAGCTGCTTTCATCGACTTTGTCCT
71754498 TA
1 TA
71754500 TAACTTGCCA
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 22 0.22
109 78 0.78
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (108 bp):
TAGAACCACACAAATCATCAATCTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATCG
CAGTGAGGTTGAAAACACCAGCTGCTTTCATCGACTTTGTCCT
Found at i:71757026 original size:46 final size:46
Alignment explanation
Indices: 71756909--71757029 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
71756899 GATATGTGTG
* * * *
71756909 CTAGTGTAAGACATGTCTGGGACATACATCAGCCACAGTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAACGAGAA
* **
71756955 CCAGTGTAAGACATGTCTGGGACATGCATCAG-CATTGAAACGAGAA
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-AACGAGAA
71757001 CTAGTGTAAGACATGTCTGGGACATGCAT
1 CTAGTGTAAGACATGTCTGGGACATGCAT
71757030 TGGCCTCGCG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
45 3 0.05
46 63 0.95
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAACGAGAA
Found at i:71757697 original size:33 final size:33
Alignment explanation
Indices: 71757660--71757726 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
71757650 GATCTTGCTT
71757660 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
1 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
71757693 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
1 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
71757726 T
1 T
71757727 ATTAGCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
Found at i:71758342 original size:12 final size:12
Alignment explanation
Indices: 71758325--71758354 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
71758315 TTTAGTGGTT
71758325 AAGTGTGCTGAG
1 AAGTGTGCTGAG
71758337 AAGTGTGCTGAG
1 AAGTGTGCTGAG
71758349 AAGTGT
1 AAGTGT
71758355 TGGAGAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.40, T:0.27
Consensus pattern (12 bp):
AAGTGTGCTGAG
Found at i:71759083 original size:27 final size:27
Alignment explanation
Indices: 71759060--71759294 Score: 294
Period size: 27 Copynumber: 8.7 Consensus size: 27
71759050 TCAGTTTACC
71759060 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
71759087 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
71759114 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
71759141 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
71759168 AAATTACCAAAAAACCCCT-GTTTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
71759195 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
71759222 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
71759249 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
71759276 AAATTACTAAAATACCCCT
1 AAATTACCAAAATACCCCT
71759295 GTAGGGTAGA
Statistics
Matches: 177, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 174 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:71759197 original size:81 final size:81
Alignment explanation
Indices: 71759060--71759294 Score: 326
Period size: 81 Copynumber: 2.9 Consensus size: 81
71759050 TCAGTTTACC
* * * * * *
71759060 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
*
71759125 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTATA
* * ** * *
71759141 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAAAACCCCTGTTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
* *
71759206 ATACCCTTTGTTTATA
66 ATACCCCTAGTTTATA
*
71759222 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
71759287 ATACCCCT
66 ATACCCCT
71759295 GTAGGGTAGA
Statistics
Matches: 132, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 132 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
ATACCCCTAGTTTATA
Found at i:71759308 original size:54 final size:54
Alignment explanation
Indices: 71759060--71759294 Score: 355
Period size: 54 Copynumber: 4.4 Consensus size: 54
71759050 TCAGTTTACC
71759060 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
71759114 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
71759168 AAATTACCAAAAAACCCCT-GTTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
71759222 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
71759276 AAATTACTAAAATACCCCT
1 AAATTACCAAAATACCCCT
71759295 GTAGGGTAGA
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 161 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:71759331 original size:81 final size:81
Alignment explanation
Indices: 71759060--71759346 Score: 240
Period size: 81 Copynumber: 3.5 Consensus size: 81
71759050 TCAGTTTACC
** * * * * * *
71759060 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
*
71759125 ATACCC-CTAGTTTG-TA
66 ATACCCTCT-G-TGGATA
* * **** * *
71759141 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAAAACCCCTGTTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
* **
71759206 ATACCCTTTGTTTATA
66 ATACCCTCTGTGGATA
** *
71759222 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
*
71759287 ATACCC-CTGTAGGGTA
66 ATACCCTCTGT-GGATA
* *** * *
71759303 GAATTATTGAAATACCCCT-GTAGGGTAAAATTACCGAGATACCC
1 AAATTACCAAAATACCCCTAGT-GGGTAAAATTACCAAAATACCC
71759347 TTGTGGGGTA
Statistics
Matches: 170, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
80 7 0.04
81 162 0.95
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
ATACCCTCTGTGGATA
Found at i:71759364 original size:27 final size:27
Alignment explanation
Indices: 71759220--71759364 Score: 123
Period size: 27 Copynumber: 5.4 Consensus size: 27
71759210 CCTTTGTTTA
* **
71759220 TAAAATTACCAAAATACCCCTAGT-TTG
1 TAAAATTACCGAAATACCCCT-GTAGGG
* **
71759247 TAAAATTACCAAAATACCCCTG-ATTTG
1 TAAAATTACCGAAATACCCCTGTA-GGG
* **
71759274 TGAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* **
71759301 TAGAATTATTGAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* * *
71759328 TAAAATTACCGAGATACCCTTGTGGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
71759355 TAAAATTACC
1 TAAAATTACC
71759365 ATTTTACCCC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 99 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCCTGTAGGG
Found at i:71759900 original size:6 final size:6
Alignment explanation
Indices: 71759891--71760083 Score: 101
Period size: 6 Copynumber: 31.3 Consensus size: 6
71759881 TTGCATTCAC
* * * *
71759891 ATTCTG ATTCTA ATTCTG -TTACCTG GTACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
71759941 ATTCTG ATTCTG GTTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
71759990 ACTCTG -TTACCTA ATTCTG ATTCTG GTTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
71760040 ATTCTG ATTCTG ATTTTG ATTCTC ATTTTG ATTCT- ATTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
71760084 AATATTTCTT
Statistics
Matches: 141, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
5 9 0.06
6 111 0.79
7 14 0.10
8 7 0.05
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:71759947 original size:25 final size:25
Alignment explanation
Indices: 71759891--71759970 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
71759881 TTGCATTCAC
* *
71759891 ATTCTGATTCTAATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
* *
71759916 GTACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
*
71759941 ATTCTGATTCTGGTTCTGATT--CTA
1 ATTCTGATTCTGATTCTG-TTACCTA
71759965 ATTCTG
1 ATTCTG
71759971 TTACCTGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
24 9 0.19
25 36 0.77
26 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:71759954 original size:37 final size:37
Alignment explanation
Indices: 71759900--71759989 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
71759890 CATTCTGATT
*
71759900 CTAATTCTG-TTACCTGGTACTGATTCTGATTCTGTTAC
1 CTAATTCTGATT--CTGGTACTGATTCTAATTCTGTTAC
*
71759938 CTAATTCTGATTCTGGTTCTGATTCTAATTCTGTTAC
1 CTAATTCTGATTCTGGTACTGATTCTAATTCTGTTAC
* *
71759975 CTGATACTGATTCTG
1 CTAATTCTGATTCTG
71759990 ACTCTGTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
37 36 0.77
38 9 0.19
39 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.46
Consensus pattern (37 bp):
CTAATTCTGATTCTGGTACTGATTCTAATTCTGTTAC
Found at i:71759989 original size:62 final size:62
Alignment explanation
Indices: 71759892--71760054 Score: 263
Period size: 62 Copynumber: 2.6 Consensus size: 62
71759882 TGCATTCACA
*
71759892 TTCTGATTCTAATTCTGTTACCTGGTACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
*
71759954 TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGACTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
* * * * *
71760016 TTTTGATTTTGATTCTGTCACCTGATTCTGATTCTGATT
1 TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATT
71760055 TTGATTCTCA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (62 bp):
TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
Found at i:71759995 original size:25 final size:25
Alignment explanation
Indices: 71759956--71760014 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
71759946 GATTCTGGTT
* * *
71759956 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTGACTCTGTTACCTAATA
*
71759981 CTGATTCTGACTCTGTTACCTAATT
1 CTGATTCTGACTCTGTTACCTAATA
71760006 CTGATTCTG
1 CTGATTCTG
71760015 GTTTTGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (25 bp):
CTGATTCTGACTCTGTTACCTAATA
Found at i:71760023 original size:37 final size:37
Alignment explanation
Indices: 71759982--71760062 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
71759972 TACCTGATAC
* *
71759982 TGATTCTGACTCTGTTACCTAATTCTGATTCTGGTTT
1 TGATTCTGACTCTGTCACCTAATTCTGATTCTGATTT
* * *
71760019 TGATTTTGATTCTGTCACCTGATTCTGATTCTGATTT
1 TGATTCTGACTCTGTCACCTAATTCTGATTCTGATTT
71760056 TGATTCT
1 TGATTCT
71760063 CATTTTGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.16, C:0.17, G:0.16, T:0.51
Consensus pattern (37 bp):
TGATTCTGACTCTGTCACCTAATTCTGATTCTGATTT
Found at i:71765488 original size:183 final size:183
Alignment explanation
Indices: 71765128--71765678 Score: 906
Period size: 183 Copynumber: 3.0 Consensus size: 183
71765118 CAAGTTAGTA
* *
71765128 TGCTTACATAGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
1 TGCTCACACAGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
* * *
71765193 GCTGAGACATGGCCGTGTGTTCCTATTTTTGAATACCAACATGACCGTGTGACCTCTGCAGCTTT
66 GCTGAGACATGGCCGTGTGTCCCTA-TTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTT
* * * *
71765258 GAAAATTTTCTACTTTTTCAGAAAAATTCTTTGAGTTTCCAATTTAGTCCTGAC
130 GAAATTTTTCTACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGAC
* *
71765312 TGCTCACACAGCCTAGCATACGGGGGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
1 TGCTCACACAGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
*
71765377 GCTGAGACATGGCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGTTTTG
66 GCTGAGACATGGCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTG
71765442 AAATTTTTCTACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGAC
131 AAATTTTTCTACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGAC
**
71765495 TGCTCACACAGCCTAGCACACAAGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
1 TGCTCACACAGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
* * *
71765560 GCTGAGACATGGCTGTGTGTCCCTATTTCGAATACCCACACGACCGTGTGACCCCTGCAGCTTTG
66 GCTGAGACATGGCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTG
* *
71765625 AAATTTTTCTACCTTTTT-AGAAAATTTTTTTGAGTTTTCGATTTAGTCCCGAC
131 AAATTTTTCTA-CTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGAC
71765678 T
1 T
71765679 TGTTTCTAAT
Statistics
Matches: 344, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
183 253 0.74
184 91 0.26
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (183 bp):
TGCTCACACAGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGG
GCTGAGACATGGCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTG
AAATTTTTCTACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGAC
Found at i:71774974 original size:29 final size:29
Alignment explanation
Indices: 71774916--71774986 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
71774906 TATTATAAGG
* **
71774916 AATAGATCAAATTAGTCCCTTCACTGTTA
1 AATAGATCAAATTAATCCCTTCACCATTA
*
71774945 AATAGATCAATTTAATCCCTGT-ACCATTA
1 AATAGATCAAATTAATCCCT-TCACCATTA
*
71774974 AAAAGAATCAAAT
1 AATAG-ATCAAAT
71774987 GATACCAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (29 bp):
AATAGATCAAATTAATCCCTTCACCATTA
Found at i:71777038 original size:12 final size:12
Alignment explanation
Indices: 71777021--71777053 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
71777011 AGAGCCAGAT
71777021 TCATCTTCATCC
1 TCATCTTCATCC
*
71777033 TCATCTTCGTCC
1 TCATCTTCATCC
71777045 TCATCTTCA
1 TCATCTTCA
71777054 AACTTCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.39, G:0.03, T:0.42
Consensus pattern (12 bp):
TCATCTTCATCC
Found at i:71779964 original size:46 final size:47
Alignment explanation
Indices: 71779907--71780215 Score: 461
Period size: 46 Copynumber: 6.7 Consensus size: 47
71779897 TTATCTTTGA
* * * *
71779907 CATGATGCCATGGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
71779953 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
71779999 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT-ATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
* * *
71780045 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-CGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
71780091 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC--TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
** *
71780136 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
**
71780182 TTTGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
71780216 CACATTTCAT
Statistics
Matches: 243, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
44 4 0.02
45 42 0.17
46 193 0.79
47 4 0.02
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
Found at i:71786309 original size:27 final size:27
Alignment explanation
Indices: 71786268--71786324 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
71786258 AACCCTAATT
* *
71786268 TTTCTGTTTATTTTCTTTCTCTT-TTTC
1 TTTCTGTTTAGTTTCTTGCT-TTGTTTC
*
71786295 TTTCTGTTTCGTTTCTTGCTTTGTTTC
1 TTTCTGTTTAGTTTCTTGCTTTGTTTC
71786322 TTT
1 TTT
71786325 ATTTCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.02, C:0.18, G:0.09, T:0.72
Consensus pattern (27 bp):
TTTCTGTTTAGTTTCTTGCTTTGTTTC
Found at i:71786377 original size:8 final size:8
Alignment explanation
Indices: 71786364--71786398 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
71786354 ATATTTTAAT
71786364 TATAATAA
1 TATAATAA
71786372 TATAATAA
1 TATAATAA
* *
71786380 TGTAATGA
1 TATAATAA
71786388 TATAATAA
1 TATAATAA
71786396 TAT
1 TAT
71786399 TTACTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (8 bp):
TATAATAA
Found at i:71787202 original size:17 final size:17
Alignment explanation
Indices: 71787179--71787235 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
71787169 TCATGCAACT
71787179 GTGTGGGACATACAGCC
1 GTGTGGGACATACAGCC
*
71787196 ATGTGGGACATACAGCC
1 GTGTGGGACATACAGCC
*
71787213 GTGTGGGACACACAGCC
1 GTGTGGGACATACAGCC
71787230 GTGTGG
1 GTGTGG
71787236 CAGATCGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.18
Consensus pattern (17 bp):
GTGTGGGACATACAGCC
Found at i:71787829 original size:40 final size:40
Alignment explanation
Indices: 71787783--71787875 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
71787773 AGGGTGACAA
* *
71787783 CCTTTTCAACCTTTTCATTGGATATCCATTTCGGATATAT
1 CCTTTTCAACCTTTTCATTGGATATCCATTTCAGATATAC
* * *
71787823 CCTTTTCAACCATTTCATTTGATATCTATTTCAGATATAC
1 CCTTTTCAACCTTTTCATTGGATATCCATTTCAGATATAC
71787863 CCTTTTCAACCTT
1 CCTTTTCAACCTT
71787876 GTAACACCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.06, T:0.45
Consensus pattern (40 bp):
CCTTTTCAACCTTTTCATTGGATATCCATTTCAGATATAC
Found at i:71791247 original size:40 final size:40
Alignment explanation
Indices: 71791188--71791282 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
71791178 ACTACATTTG
*
71791188 GCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATAAACA
1 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
* *
71791228 GCATTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
71791268 GCACTAAGTGTGCAA
1 GCACTAAGTGTGCAA
71791283 AATGGTATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (40 bp):
GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
Found at i:71795638 original size:40 final size:37
Alignment explanation
Indices: 71795583--71795709 Score: 98
Period size: 40 Copynumber: 3.3 Consensus size: 37
71795573 GCGCTCAGAG
*
71795583 CTAGTGGGATTAACCGACAGTATTGAATGTGAGCCCAGCT
1 CTAGTTGGA-TAACCGACA-TA-TGAATGTGAGCCCAGCT
* ** *
71795623 CTAGTTGGATGAACCGACA-ATG--TTTGCTCCCAGCG
1 CTAGTTGGAT-AACCGACATATGAATGTGAGCCCAGCT
*
71795658 CTAGTTGGATATACCGACAATAATAAATGTGAGCCCAGCT
1 CTAGTTGGATA-ACCGAC-AT-ATGAATGTGAGCCCAGCT
* *
71795698 TTAGTTGAATAA
1 CTAGTTGGATAA
71795710 ACCAACGGTG
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
34 1 0.01
35 25 0.37
36 1 0.01
37 2 0.03
38 3 0.04
39 2 0.03
40 34 0.50
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (37 bp):
CTAGTTGGATAACCGACATATGAATGTGAGCCCAGCT
Found at i:71795722 original size:75 final size:75
Alignment explanation
Indices: 71795582--71795732 Score: 187
Period size: 75 Copynumber: 2.0 Consensus size: 75
71795572 TGCGCTCAGA
* * * * * *
71795582 GCTAGTGGGATTAACCGACAGTATTGAATGTGAGCCCAGCTCTAGTTGGATGAACCGACAATGTT
1 GCTAGTGGGATTAACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGAATAAACCAACAATGTT
*
71795647 TGCTCCCAGC
66 TGCACCCAGC
* * **
71795657 GCTAGTTGGA-TATACCGACAATAATAAATGTGAGCCCAGCTTTAGTTGAATAAACCAACGGTGT
1 GCTAGTGGGATTA-ACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGAATAAACCAACAATGT
71795721 TTGCACCCAGC
65 TTGCACCCAGC
71795732 G
1 G
71795733 TTAATCGGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 2 0.03
75 62 0.97
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (75 bp):
GCTAGTGGGATTAACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGAATAAACCAACAATGTT
TGCACCCAGC
Found at i:71799138 original size:2 final size:2
Alignment explanation
Indices: 71799131--71799157 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71799121 TTAAAGCTTT
71799131 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
71799158 TAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71803703 original size:6 final size:6
Alignment explanation
Indices: 71803694--71803727 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
71803684 CAGAGCCAGA
* *
71803694 TTCATC TTCATC CTCATC TTCATC CTCATC TTCA
1 TTCATC TTCATC TTCATC TTCATC TTCATC TTCA
71803728 AACTTCTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (6 bp):
TTCATC
Found at i:71803712 original size:12 final size:12
Alignment explanation
Indices: 71803695--71803727 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
71803685 AGAGCCAGAT
71803695 TCATCTTCATCC
1 TCATCTTCATCC
71803707 TCATCTTCATCC
1 TCATCTTCATCC
71803719 TCATCTTCA
1 TCATCTTCA
71803728 AACTTCTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATCTTCATCC
Found at i:71811725 original size:106 final size:106
Alignment explanation
Indices: 71811584--71811798 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 106
71811574 TCAGAAGCTA
*
71811584 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGCTTGAAACTATAACACAGCTATACAAT
1 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
71811649 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
66 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
*
71811690 TGCACTTGTACAGTTACCTACATGATCTGCAAACCAAGATTGAAACTATAACACAGCTATACAAT
1 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
71811755 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
66 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
71811796 TGC
1 TGC
71811799 CTTTGTGGGC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (106 bp):
TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
Found at i:71821206 original size:37 final size:36
Alignment explanation
Indices: 71821156--71821242 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
71821146 TGCGAAGTCT
71821156 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
71821192 GTACCCGGACATAATCTCCACAGGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
71821229 TCACCCGGAACATA
1 T-ACCCGG-ACATA
71821243 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:71821361 original size:51 final size:51
Alignment explanation
Indices: 71821291--71821429 Score: 210
Period size: 51 Copynumber: 2.8 Consensus size: 51
71821281 ATTCACATTA
* * * *
71821291 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCG
*
71821342 GCCATTAGGCCTTATCACATATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCG
*
71821393 GCCATTAGGCCTTATCAC--ATATATACACACTTTCACA
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACA
71821430 AATTTTAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 17 0.21
51 64 0.79
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (51 bp):
GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCG
Found at i:71826024 original size:16 final size:16
Alignment explanation
Indices: 71825999--71826036 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
71825989 ATAACAACTC
*
71825999 TTGTTTAAAAT-AGTTG
1 TTGTTCAAAATCA-TTG
71826015 TTGTTCAAAATCATTG
1 TTGTTCAAAATCATTG
71826031 TTGTTC
1 TTGTTC
71826037 GAGAATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (16 bp):
TTGTTCAAAATCATTG
Found at i:71826469 original size:2 final size:2
Alignment explanation
Indices: 71826462--71826499 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
71826452 TTAATACAAG
*
71826462 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71826500 AATGGATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:71827912 original size:24 final size:24
Alignment explanation
Indices: 71827880--71827930 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
71827870 CGAAGCATCC
71827880 TAATTTTTCCACTTTTGTCAAAGA
1 TAATTTTTCCACTTTTGTCAAAGA
*
71827904 TAATTTTTCTACTTTTGTCAAAGA
1 TAATTTTTCCACTTTTGTCAAAGA
71827928 TAA
1 TAA
71827931 GTGGAGTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATTTTTCCACTTTTGTCAAAGA
Found at i:71831495 original size:60 final size:60
Alignment explanation
Indices: 71831399--71831520 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
71831389 ACGAACAAAA
71831399 AAAAAGAATAACGATAATCTGACGGTTGCAGAATACCAAATCAAGGCCGTACCATTAAGC
1 AAAAAGAATAACGATAATCTGACGGTTGCAGAATACCAAATCAAGGCCGTACCATTAAGC
*
71831459 AAAAAGAATAACGATAATCTGACGGTTGCAGCATACCAAATCAAGGCCGTACCATTAAGC
1 AAAAAGAATAACGATAATCTGACGGTTGCAGAATACCAAATCAAGGCCGTACCATTAAGC
71831519 AA
1 AA
71831521 CCATGGACGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (60 bp):
AAAAAGAATAACGATAATCTGACGGTTGCAGAATACCAAATCAAGGCCGTACCATTAAGC
Found at i:71837121 original size:2 final size:2
Alignment explanation
Indices: 71837114--71837140 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71837104 TCACTTTGCT
71837114 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
71837141 TTTTCTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:71847815 original size:21 final size:21
Alignment explanation
Indices: 71847789--71847836 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
71847779 TGTTTCTAAA
*
71847789 CTCACCGCTACAGTATCCAAT
1 CTCACCGCTACAGTAACCAAT
*
71847810 CTCACCGCTACAGTAACTAAT
1 CTCACCGCTACAGTAACCAAT
71847831 CTCACC
1 CTCACC
71847837 CCACCACTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.40, G:0.08, T:0.23
Consensus pattern (21 bp):
CTCACCGCTACAGTAACCAAT
Found at i:71857796 original size:14 final size:14
Alignment explanation
Indices: 71857763--71857790 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71857753 AACATAAATG
71857763 TATTTTTTTTTCAC
1 TATTTTTTTTTCAC
71857777 TATTTTTTTTTCAC
1 TATTTTTTTTTCAC
71857791 CTTTTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTTTTTTCAC
Found at i:71858928 original size:17 final size:16
Alignment explanation
Indices: 71858889--71858952 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 16
71858879 TAGAAATAGC
71858889 AAAA-TAAAAT-TAAA
1 AAAATTAAAATATAAA
71858903 AATAATTAAAATATATAA
1 AA-AATTAAAATATA-AA
71858921 AAAATTAAAATATAAA
1 AAAATTAAAATATAAA
71858937 AAAATTAAAACTATAA
1 AAAATTAAAA-TATAA
71858953 GTATGAGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 18 0.40
17 19 0.42
18 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATTAAAATATAAA
Found at i:71858943 original size:33 final size:33
Alignment explanation
Indices: 71858889--71858951 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
71858879 TAGAAATAGC
71858889 AAAATAAAATTAAAAATAATTAAAA-TATATAA
1 AAAATAAAATTAAAAATAATTAAAACTATATAA
71858921 AAAATTAAAATATAAAAA-AATTAAAACTATA
1 AAAA-TAAAAT-TAAAAATAATTAAAACTATA
71858952 AGTATGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 4 0.14
33 14 0.50
34 10 0.36
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (33 bp):
AAAATAAAATTAAAAATAATTAAAACTATATAA
Found at i:71859023 original size:5 final size:5
Alignment explanation
Indices: 71858982--71859044 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
71858972 AATTAATTAG
*
71858982 TAAAA TAAAA -ATAAA TAATA TAATAA TTAATAA -AAAA TAAAA TAAAA
1 TAAAA TAAAA TA-AAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
71859029 TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA T
71859045 TGGGGTGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 3 0.06
5 40 0.78
6 2 0.04
7 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:71862277 original size:22 final size:22
Alignment explanation
Indices: 71862252--71862296 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
71862242 AGAAAAAGTT
71862252 AGTAAATTAAAATAAAAACAAA
1 AGTAAATTAAAATAAAAACAAA
** *
71862274 AGTAAATTGCAATAAAAATAAA
1 AGTAAATTAAAATAAAAACAAA
71862296 A
1 A
71862297 TGGCTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (22 bp):
AGTAAATTAAAATAAAAACAAA
Found at i:71879349 original size:21 final size:20
Alignment explanation
Indices: 71879313--71879357 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
71879303 ATGGAGGTTT
*
71879313 TTTTAAAAAATATTCCTGGG
1 TTTTAAAAAATATTCCTGGC
71879333 TTTTAAAAGAA-AGTTCCTGGC
1 TTTTAAAA-AATA-TTCCTGGC
71879354 TTTT
1 TTTT
71879358 CTTGTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAATATTCCTGGC
Found at i:71881635 original size:18 final size:18
Alignment explanation
Indices: 71881575--71881636 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
71881565 ACAATGTAGA
*
71881575 TGAAAAAATAATGATATT
1 TGAAATAATAATGATATT
* *
71881593 TGAAAT-AT-TTTATATAT
1 TGAAATAATAATGATAT-T
**
71881610 AAAAATAATAATGATATT
1 TGAAATAATAATGATATT
71881628 TGAAATAAT
1 TGAAATAAT
71881637 TATTTGATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 15 0.47
19 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TGAAATAATAATGATATT
Found at i:71881742 original size:72 final size:73
Alignment explanation
Indices: 71881666--71881813 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 73
71881656 AGAAATCACC
*
71881666 ATACCCACAATATAGATGGAGAATTTG-ACATATATATATATATATATTATATAAAGAAAAATAT
1 ATACCCACAATATAGATGGAGAATTTGAACACATATATATATATATATTATATAAAGAAAAATAT
71881730 ATAAAAAA
66 ATAAAAAA
71881738 ATACCCACAATATAGATGGAGAATTTGACACACATATATATATATATATTATATAAAGAAAAATA
1 ATACCCACAATATAGATGGAGAATTTGA-ACACATATATATATATATATTATATAAAGAAAAATA
71881803 TATAAAAAA
65 TATAAAAAA
71881812 AT
1 AT
71881814 TTAGTTGATG
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 27 0.37
74 46 0.63
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (73 bp):
ATACCCACAATATAGATGGAGAATTTGAACACATATATATATATATATTATATAAAGAAAAATAT
ATAAAAAA
Found at i:71881881 original size:18 final size:17
Alignment explanation
Indices: 71881858--71881891 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71881848 ATATAATGAT
71881858 AAATATCAATTTTATTAA
1 AAATAT-AATTTTATTAA
*
71881876 AAATATATTTTTATTA
1 AAATATAATTTTATTA
71881892 TATAATTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATATAATTTTATTAA
Found at i:71884555 original size:19 final size:19
Alignment explanation
Indices: 71884515--71884556 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
71884505 ATAATAACAT
**
71884515 ATTTAATTAAATATTATTA
1 ATTTAATTAAATATTAGGA
71884534 ATTTAATTAAA-ATTAAGGA
1 ATTTAATTAAATATT-AGGA
71884553 ATTT
1 ATTT
71884557 CATAAGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
ATTTAATTAAATATTAGGA
Found at i:71886528 original size:15 final size:15
Alignment explanation
Indices: 71886508--71886550 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
71886498 GTTGTAGTTG
71886508 ATAAATTATTTAAAT
1 ATAAATTATTTAAAT
*
71886523 ATAAATTTTTTAAAT
1 ATAAATTATTTAAAT
* *
71886538 GT-ATTTATTTAAA
1 ATAAATTATTTAAA
71886551 AATTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATAAATTATTTAAAT
Found at i:71888606 original size:15 final size:16
Alignment explanation
Indices: 71888586--71888623 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
71888576 TTTTTATTAT
*
71888586 TTTTTAATTTT-CATA
1 TTTTTAATTTTAAATA
*
71888601 TTTTTATTTTTAAATA
1 TTTTTAATTTTAAATA
71888617 TTTTTAA
1 TTTTTAA
71888624 AACAGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTAAATA
Found at i:71889218 original size:10 final size:10
Alignment explanation
Indices: 71889203--71889257 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
71889193 TATTCTAGTT
71889203 AAAAATTATA
1 AAAAATTATA
71889213 AAAAATT-T-
1 AAAAATTATA
*
71889221 AAAAATTATT
1 AAAAATTATA
*
71889231 AAGAATTA-A
1 AAAAATTATA
71889240 AAAAA-TATTA
1 AAAAATTA-TA
71889250 AAAAATTA
1 AAAAATTA
71889258 AAATTTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 9 0.24
9 6 0.16
10 20 0.54
11 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:71889224 original size:18 final size:18
Alignment explanation
Indices: 71889201--71889260 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
71889191 TTTATTCTAG
71889201 TTAAAAATTATAAAAAAT
1 TTAAAAATTATAAAAAAT
* *
71889219 TTAAAAATTATTAAGAAT
1 TTAAAAATTATAAAAAAT
* *
71889237 TAAAAAAATATTAAAAAA-
1 TTAAAAATTA-TAAAAAAT
71889255 TTAAAA
1 TTAAAA
71889261 TTTAACAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 29 0.85
19 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAAAATTATAAAAAAT
Done.