Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 256 of 322
Found at i:85032412 original size:4 final size:4
Alignment explanation
Indices: 85032403--85032457 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
85032393 CCCTGACTTC
85032403 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
85032451 TGTA TGT
1 TGTA TGT
85032458 GCTCTCTGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:85033035 original size:25 final size:25
Alignment explanation
Indices: 85033006--85033065 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
85032996 AAACCAAACC
**
85033006 AAGCCTTTGTGGTGAA-TTGTTTGGG
1 AAGCCTTTGTGGT-AAGTCATTTGGG
85033031 AAGCCTTTGTGGTAAGTCATTTGGG
1 AAGCCTTTGTGGTAAGTCATTTGGG
85033056 AAGCCTTTGT
1 AAGCCTTTGT
85033066 TCTATAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (25 bp):
AAGCCTTTGTGGTAAGTCATTTGGG
Found at i:85033107 original size:25 final size:24
Alignment explanation
Indices: 85033078--85033157 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
85033068 TATAAAGCCC
*
85033078 TTGTGGTGAATTGTTTGGGAAATCT
1 TTGTGGTGAATTGTTT-GGAAACCT
* ** * *
85033103 TTGTGGTGAGTCATTTGTAAAGCCC
1 TTGTGGTGAATTGTTTGGAAA-CCT
85033128 TTGTGGTGAATTGTTTAGGAAACCT
1 TTGTGGTGAATTGTTT-GGAAACCT
85033153 TTGTG
1 TTGTG
85033158 CGAGAAACCA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 4 0.10
25 34 0.81
26 4 0.10
ACGTcount: A:0.20, C:0.09, G:0.30, T:0.41
Consensus pattern (24 bp):
TTGTGGTGAATTGTTTGGAAACCT
Found at i:85033126 original size:66 final size:66
Alignment explanation
Indices: 85033006--85033131 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
85032996 AAACCAAACC
* * * *
85033006 AAGCCTTTGTGGTGAATTGTTTGGGAAGCCTTTGTGGTAAGTCATTTGGGAAGCCTTTGTTCTAT
1 AAGCCCTTGTGGTGAATTGTTTGGGAAACCTTTGTGGTAAGTCATTTGGAAAGCCCTTGTTCTAT
85033071 A
66 A
* * *
85033072 AAGCCCTTGTGGTGAATTGTTTGGGAAATCTTTGTGGTGAGTCATTTGTAAAGCCCTTGT
1 AAGCCCTTGTGGTGAATTGTTTGGGAAACCTTTGTGGTAAGTCATTTGGAAAGCCCTTGT
85033132 GGTGAATTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.39
Consensus pattern (66 bp):
AAGCCCTTGTGGTGAATTGTTTGGGAAACCTTTGTGGTAAGTCATTTGGAAAGCCCTTGTTCTAT
A
Found at i:85034975 original size:39 final size:40
Alignment explanation
Indices: 85034843--85034978 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 40
85034833 ATTCACTTTT
* * * **
85034843 AAGCATATATCACATTAC-ACATATAATCACATAACATTT
1 AAGCATATATCGCAATACTTCATATAATCACATAACATCC
* * *
85034882 AAGCATATATCACAATA-TTCATATAATTACATAACGTCC
1 AAGCATATATCGCAATACTTCATATAATCACATAACATCC
* * *
85034921 AATCACACATCGCAATACTT-ATATAATCACATAACATCC
1 AAGCATATATCGCAATACTTCATATAATCACATAACATCC
*
85034960 AAGCATATATTGCAATACT
1 AAGCATATATCGCAATACT
85034979 CAAAAACATG
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 77 0.97
40 2 0.03
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (40 bp):
AAGCATATATCGCAATACTTCATATAATCACATAACATCC
Found at i:85037182 original size:14 final size:14
Alignment explanation
Indices: 85037163--85037191 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
85037153 AGAATTTCAT
85037163 TCAACTAAAATCAA
1 TCAACTAAAATCAA
85037177 TCAACTAAAATCAA
1 TCAACTAAAATCAA
85037191 T
1 T
85037192 TTGTCCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
TCAACTAAAATCAA
Found at i:85040598 original size:27 final size:27
Alignment explanation
Indices: 85040567--85040744 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
85040557 TAAATTGTAC
85040567 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
85040594 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85040620 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
85040648 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
85040676 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85040703 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85040730 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85040745 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:85040681 original size:82 final size:81
Alignment explanation
Indices: 85040568--85040723 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
85040558 AAATTGTACA
* *
85040568 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85040632 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
85040649 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85040714 TGCGAGTTGA
65 TGCGAATTGA
85040724 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85040735 original size:82 final size:81
Alignment explanation
Indices: 85040564--85040744 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
85040554 GATTAAATTG
* *
85040564 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
85040629 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
85040645 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
85040709 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
85040727 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
85040745 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85048662 original size:27 final size:27
Alignment explanation
Indices: 85048631--85048808 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
85048621 TAAATTGTAC
85048631 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
85048658 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85048684 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
85048712 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
85048740 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85048767 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85048794 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85048809 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:85048745 original size:82 final size:81
Alignment explanation
Indices: 85048632--85048787 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
85048622 AAATTGTACA
* *
85048632 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85048696 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
85048713 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85048778 TGCGAGTTGA
65 TGCGAATTGA
85048788 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85048799 original size:82 final size:81
Alignment explanation
Indices: 85048628--85048808 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
85048618 GATTAAATTG
* *
85048628 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
85048693 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
85048709 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
85048773 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
85048791 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
85048809 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85052330 original size:18 final size:19
Alignment explanation
Indices: 85052299--85052334 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85052289 CTCTATTCTT
*
85052299 TTTCTATTTTATTTATTTA
1 TTTCTATTTCATTTATTTA
85052318 TTTC-ATTTCATTTATTT
1 TTTCTATTTCATTTATTT
85052335 TATGTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTATTTCATTTATTTA
Found at i:85056138 original size:44 final size:47
Alignment explanation
Indices: 85056027--85056245 Score: 207
Period size: 49 Copynumber: 4.6 Consensus size: 47
85056017 CTTGTGTACC
*
85056027 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATGATAGCT
* * *
85056074 AGTGTAAGACGTGTCTGGGACACGCATCGG-CTAAGA-GTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-AGACGATGATAGCT
* * * * *
85056118 GGTGTAAGACATGTCTGGGACATGCATCAGCACGTATA-GACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-TAGACGATGATAGCT
* * * *
85056166 AGTATAAGACCATGTCTGGGACATGACATCAGCCTCA-ATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCT-AGACGATGATAGCT
85056215 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
85056246 ACAACATATC
Statistics
Matches: 142, Mismatches: 19, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
44 29 0.20
45 1 0.01
46 10 0.07
47 31 0.22
48 12 0.08
49 51 0.36
50 8 0.06
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATGATAGCT
Found at i:85057060 original size:55 final size:55
Alignment explanation
Indices: 85056996--85057130 Score: 171
Period size: 55 Copynumber: 2.5 Consensus size: 55
85056986 GCACTTAAAA
* * * ** *
85056996 TTTAAAGTCAGTGTTGTACATGGGTAGGCCACACGGGCATGTGTCATAGCCGTGT
1 TTTAAAGTCAGTGTTGTACACGGGCAGGACACACGGGCATGCATCATAGCCATGT
* * *
85057051 TTTAAAGTCAATGTTGTACACGGGCAGGACACACGGGCGTGCATCATGGCCATGT
1 TTTAAAGTCAGTGTTGTACACGGGCAGGACACACGGGCATGCATCATAGCCATGT
* *
85057106 TTTAAAGTTAGTGTTGCACACGGGC
1 TTTAAAGTCAGTGTTGTACACGGGC
85057131 TAAGGGCTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (55 bp):
TTTAAAGTCAGTGTTGTACACGGGCAGGACACACGGGCATGCATCATAGCCATGT
Found at i:85063330 original size:37 final size:37
Alignment explanation
Indices: 85063277--85063416 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
85063267 CGAATAGTCC
* *
85063277 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
85063314 CCACACGTAGTCATCGGGTCTTACTCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
85063351 CCACACGTAGCCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
85063388 GCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
85063417 ATATATTTCC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:85063615 original size:48 final size:48
Alignment explanation
Indices: 85063557--85063890 Score: 523
Period size: 48 Copynumber: 7.0 Consensus size: 48
85063547 ATATACACAC
* *
85063557 ATCTCCTACATATTTCACACTAGCCATTCGGCGTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
85063605 ATCTCATACATATTTCACACTAGCCGTTCGGCGTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
85063653 ATCTCATATATATTTCACACTAGCCGTTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
85063701 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
85063749 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCATATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
85063797 ATCTCATAC----TTCACATTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
85063841 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
85063889 AT
1 AT
85063891 ATTTATCTTG
Statistics
Matches: 266, Mismatches: 16, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
44 41 0.15
48 225 0.85
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:85067462 original size:28 final size:28
Alignment explanation
Indices: 85067431--85067587 Score: 136
Period size: 28 Copynumber: 5.5 Consensus size: 28
85067421 CTGACTGATT
*
85067431 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
85067459 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
85067488 TCGCACACATAGTGCTTGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
85067516 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
85067545 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
85067573 TTGCACACACAGTGC
1 TCGCACACATAGTGC
85067588 CTCATAACTC
Statistics
Matches: 99, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.55
29 43 0.43
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:85067491 original size:29 final size:29
Alignment explanation
Indices: 85067458--85067559 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
85067448 GATTAAAGAA
85067458 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
** **
85067487 CTCGCACACATAGTG-CTTGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
85067515 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
85067544 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
85067560 TCGGTTGAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:85067498 original size:57 final size:57
Alignment explanation
Indices: 85067431--85067591 Score: 232
Period size: 57 Copynumber: 2.8 Consensus size: 57
85067421 CTGACTGATT
* * *
85067431 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* **
85067488 TCGCACACATAGTGCTTGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * *
85067545 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
85067592 TAACTCCAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 93 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:85067664 original size:40 final size:40
Alignment explanation
Indices: 85067619--85067987 Score: 627
Period size: 40 Copynumber: 9.3 Consensus size: 40
85067609 CCTTCGAGGT
* *
85067619 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
85067659 TTAGCCCGGATACATTACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
85067699 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
85067739 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
85067779 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAGC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
85067819 TTAGCCCGGATACATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
85067859 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
85067899 TTAGCCCGGATACATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
85067939 TTAGCCCGGATACATCACTAGCACAAATGCTCTT--G-AC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
85067976 TTAGCCCGGATA
1 TTAGCCCGGATA
85067988 TATATAACTC
Statistics
Matches: 318, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
37 14 0.04
38 1 0.00
40 303 0.95
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:85069326 original size:37 final size:37
Alignment explanation
Indices: 85069275--85069375 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
85069265 AATAGTCCCC
*
85069275 ACACGTAGTTATCGGGTCTTACCCGGACAAAATCTCA
1 ACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCA
* *
85069312 ACACGTAGTCATCGGGTCTTACCCGGACATAATCTCC
1 ACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCA
85069349 ACACGTAGTCATCGGGTCTTACCCGGA
1 ACACGTAGTCATCGGGTCTTACCCGGA
85069376 ATATATTTCC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (37 bp):
ACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCA
Found at i:85069681 original size:48 final size:48
Alignment explanation
Indices: 85069516--85069678 Score: 299
Period size: 48 Copynumber: 3.4 Consensus size: 48
85069506 ATATACACAC
*
85069516 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
85069564 ATCTCATACATATTTCACACTAGCCGTTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
85069612 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
85069660 ATCTCATACATATTTCACA
1 ATCTCATACATATTTCACA
85069679 TTATCTCATA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:85069683 original size:21 final size:21
Alignment explanation
Indices: 85069659--85069702 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
85069649 CACATATACA
85069659 TATCTCATACATATTTCACAT
1 TATCTCATACATATTTCACAT
85069680 TATCTCATACATATTTCACAT
1 TATCTCATACATATTTCACAT
85069701 TA
1 TA
85069703 GCCATTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (21 bp):
TATCTCATACATATTTCACAT
Found at i:85069693 original size:69 final size:69
Alignment explanation
Indices: 85069611--85069750 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
85069601 CACATATACA
*
85069611 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
85069676 ACAT
66 ACAT
85069680 TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
85069745 ACAT
66 ACAT
85069749 TA
1 TA
85069751 GCCATTCAGC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (69 bp):
TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
ACAT
Found at i:85069717 original size:117 final size:117
Alignment explanation
Indices: 85069563--85069785 Score: 392
Period size: 117 Copynumber: 1.9 Consensus size: 117
85069553 CACATATACA
* *
85069563 TATCTCATACATATTTCACACTAGCCGTTCGGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
* *
85069628 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
66 ACATTAGCCATTCAGCTTGACCACATATACATATCTCATACATATTTCACAT
*
85069680 TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
*
85069745 ACATTAGCCATTCAGCTTGACCATATATACATATCTCATAC
66 ACATTAGCCATTCAGCTTGACCACATATACATATCTCATAC
85069786 TTCACATTAG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 100 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (117 bp):
TATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTC
ACATTAGCCATTCAGCTTGACCACATATACATATCTCATACATATTTCACAT
Found at i:85069721 original size:165 final size:161
Alignment explanation
Indices: 85069516--85069839 Score: 513
Period size: 165 Copynumber: 2.0 Consensus size: 161
85069506 ATATACACAC
* *
85069516 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCA
* * * *
85069581 CACTAGCCGTTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCAGCTTGACCACATATACATATCTCATAC----TTCACATTAGACATTCGGCTT
*
85069646 TACCACATATACATATCTCATACATATTTCACATT
127 TACCACATATACATATCTCATACATATTACACATT
*
85069681 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCA
* *
85069746 CATTAGCCATTCAGCTTGACCATATATACATATCTCATACTTCACATTAGACATTCGGCTTTACC
66 CACTAGCCATTCAGCTTGACCACATATACATATCTCATACTTCACATTAGACATTCGGCTTTACC
*
85069811 ACATATACATATTTCATACATATTACACA
131 ACATATACATATCTCATACATATTACACA
85069840 CTAGCCATTC
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
161 51 0.34
165 97 0.66
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (161 bp):
ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCAGCTTGACCACATATACATATCTCATACTTCACATTAGACATTCGGCTTTACC
ACATATACATATCTCATACATATTACACATT
Found at i:85069801 original size:92 final size:92
Alignment explanation
Indices: 85069689--85069859 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 92
85069679 TTATCTCATA
* * * *
85069689 CATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCC
1 CATACTTCACATTAGACATTCGACTTTACCACATATACATATCTCATACATATTACACACTAGCC
85069754 ATTCAGCTTGACCATATATACATATCT
66 ATTCAGCTTGACCATATATACATATCT
* *
85069781 CATACTTCACATTAGACATTCGGCTTTACCACATATACATATTTCATACATATTACACACTAGCC
1 CATACTTCACATTAGACATTCGACTTTACCACATATACATATCTCATACATATTACACACTAGCC
* *
85069846 ATTCGGCTTTACCA
66 ATTCAGCTTGACCA
85069860 CACATATATA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (92 bp):
CATACTTCACATTAGACATTCGACTTTACCACATATACATATCTCATACATATTACACACTAGCC
ATTCAGCTTGACCATATATACATATCT
Found at i:85069872 original size:48 final size:48
Alignment explanation
Indices: 85069680--85069870 Score: 264
Period size: 48 Copynumber: 4.1 Consensus size: 48
85069670 TATTTCACAT
*
85069680 TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* * *
85069728 TATCTCATACATATTTCACATTAGCCATTCAGCTTGACCATATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
*
85069776 TATCTCATAC----TTCACATTAGACATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* * * * *
85069820 TATTTCATACATATTACACACTAGCCATTCGGCTTTACCACACATATA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
85069868 TAT
1 TAT
85069871 TTATCTTGTA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
44 39 0.31
48 86 0.69
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
Found at i:85075341 original size:30 final size:30
Alignment explanation
Indices: 85075307--85075363 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
85075297 TTTCGAGCAT
* *
85075307 AGGGGTAAAATGGTCATTTTGCCAAAGTCA
1 AGGGGCAAAATGGTCATTTTACCAAAGTCA
85075337 AGGGGCAAAATGGTCATTTTACCAAAG
1 AGGGGCAAAATGGTCATTTTACCAAAG
85075364 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTTACCAAAGTCA
Found at i:85077872 original size:7 final size:7
Alignment explanation
Indices: 85077860--85077891 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
85077850 TTCCTTCTTT
85077860 CTTTCCC
1 CTTTCCC
85077867 CTTTCCC
1 CTTTCCC
85077874 CTTTCCC
1 CTTTCCC
85077881 CTTTCCC
1 CTTTCCC
85077888 CTTT
1 CTTT
85077892 TTCGTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (7 bp):
CTTTCCC
Found at i:85077943 original size:18 final size:19
Alignment explanation
Indices: 85077912--85077949 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
85077902 CTTTATTCTT
* *
85077912 TTTCTATTTTATTTCTTTA
1 TTTCTATTTCATTTATTTA
85077931 TTTC-ATTTCATTTATTTA
1 TTTCTATTTCATTTATTTA
85077949 T
1 T
85077950 GTTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTCTATTTCATTTATTTA
Found at i:85077997 original size:20 final size:19
Alignment explanation
Indices: 85077964--85078002 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
85077954 AATTATATTG
85077964 TATTATTATATTAACATAAT
1 TATTATTATATTAA-ATAAT
85077984 TATTATTA-ACTTAAATAAT
1 TATTATTATA-TTAAATAAT
85078003 AAGTAAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATTATATTAAATAAT
Found at i:85078601 original size:14 final size:15
Alignment explanation
Indices: 85078582--85078616 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
85078572 TTCATAATAA
*
85078582 TCATCACAC-ATGTC
1 TCATCACACAATATC
85078596 TCATCACACAATATC
1 TCATCACACAATATC
85078611 TCATCA
1 TCATCA
85078617 TAATAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (15 bp):
TCATCACACAATATC
Found at i:85082865 original size:40 final size:40
Alignment explanation
Indices: 85082821--85083044 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
85082811 AAGTGAATAT
* * * * **
85082821 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
85082861 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
85082901 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
85082941 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
85082981 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
85083020 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
85083045 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:85082919 original size:80 final size:80
Alignment explanation
Indices: 85082782--85083044 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
85082772 TTGAATGCTG
* * * * *
85082782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
85082844 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
85082862 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
85082927 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
85082942 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
85083006 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
85083021 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
85083045 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:85082996 original size:120 final size:120
Alignment explanation
Indices: 85082782--85083044 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
85082772 TTGAATGCTG
* * *
85082782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
85082846 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
85082902 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
85082964 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
85083021 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
85083045 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:85085445 original size:20 final size:20
Alignment explanation
Indices: 85085420--85085461 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
85085410 TTCAACAGAC
*
85085420 ATCGAAGAGATTTCGAGATG
1 ATCGAAGAGATATCGAGATG
85085440 ATCGAAGAGATATCGAGATG
1 ATCGAAGAGATATCGAGATG
85085460 AT
1 AT
85085462 GCGGGCCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.24
Consensus pattern (20 bp):
ATCGAAGAGATATCGAGATG
Found at i:85091632 original size:27 final size:27
Alignment explanation
Indices: 85091601--85091809 Score: 231
Period size: 27 Copynumber: 7.6 Consensus size: 27
85091591 TAAATTGTAC
85091601 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
85091628 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85091654 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
85091682 GGCACTAAGTGTGCGAGTTTGACTAAGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
85091710 AGCACTACTAAGTGTGCGAGTTTGACTATGT
1 AG--C-ACTAAGTGTGCGA-TTTGACTATGT
*
85091741 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85091768 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85091795 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85091810 GACTCGATAT
Statistics
Matches: 157, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
27 108 0.69
28 21 0.13
29 1 0.01
30 1 0.01
31 26 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:85091708 original size:18 final size:18
Alignment explanation
Indices: 85091685--85091737 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
85091675 ACCATGCGGC
85091685 ACTAAGTGTGCGAGTTTG
1 ACTAAGTGTGCGAGTTTG
* *
85091703 ACTAAGT-AGC-A--CT-
1 ACTAAGTGTGCGAGTTTG
85091716 ACTAAGTGTGCGAGTTTG
1 ACTAAGTGTGCGAGTTTG
85091734 ACTA
1 ACTA
85091738 TGTAGCACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
13 7 0.27
14 3 0.12
15 1 0.04
16 1 0.04
17 3 0.12
18 11 0.42
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (18 bp):
ACTAAGTGTGCGAGTTTG
Found at i:85091756 original size:86 final size:82
Alignment explanation
Indices: 85091600--85091809 Score: 230
Period size: 86 Copynumber: 2.5 Consensus size: 82
85091590 TTAAATTGTA
* *
85091600 CAGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 CAGCACTAAGTGTGCGAGTTTGACTAAGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
85091664 TGTGCGAATTGACCATG
66 TGTGCGAATTGACCATG
* ** *
85091681 CGGCACTAAGTGTGCGAGTTTGACTAAGTAGCACTACTAAGTGTGCGAGTTTGACTATG-TAGCA
1 CAGCACTAAGTGTGCGAGTTTGACTAAGTAG--C-ACTAAGTGTGCGA-AATGAATATGAT-GCA
* **
85091745 CTAAGTGTGCGATTTGATTATG
61 CTAAGTGTGCGAATTGACCATG
* * *
85091767 TAGCACTAAGTGTGCGAG-TTGATTATA-TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTTGACTA-AGTAGCACTAAGTGTGCG
85091810 GACTCGATAT
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
81 16 0.15
82 22 0.20
83 1 0.01
84 1 0.01
85 23 0.21
86 46 0.42
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
CAGCACTAAGTGTGCGAGTTTGACTAAGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
TGTGCGAATTGACCATG
Found at i:85091800 original size:113 final size:112
Alignment explanation
Indices: 85091604--85091809 Score: 288
Period size: 113 Copynumber: 1.8 Consensus size: 112
85091594 ATTGTACAGC
*
85091604 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGC
1 ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGC
* *
85091669 GAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTAAGTAGCACT
66 GAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTAAGTAGCACT
** *
85091716 ACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAGTGT
1 ACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGT
* ** * *
85091780 GCGAGTTGATTATATAGCACTGAGTGTGCG
64 GCGAATTGACCATACAGCACTAAGTGTGCG
85091810 GACTCGATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
112 14 0.17
113 67 0.83
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (112 bp):
ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGC
GAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTAAGTAGCACT
Found at i:85099058 original size:45 final size:45
Alignment explanation
Indices: 85098852--85099054 Score: 299
Period size: 45 Copynumber: 4.6 Consensus size: 45
85098842 CTGAATTCAT
* *
85098852 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATA
* *
85098894 TCA-CAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
85098938 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
85098983 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
*
85099028 TCACCGGCACTATAGCCTGCTAGGCTC
1 TCACCGGCATTATAGCCTGCTAGGCTC
85099055 AAAGACCCAA
Statistics
Matches: 146, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
41 6 0.04
42 20 0.14
43 5 0.03
44 8 0.05
45 107 0.73
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
Found at i:85100427 original size:37 final size:37
Alignment explanation
Indices: 85100377--85100456 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
85100367 CTTATTACGA
* *
85100377 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
85100414 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
85100451 GGTCTT
1 AGTCTT
85100457 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:85100646 original size:47 final size:47
Alignment explanation
Indices: 85100575--85100921 Score: 561
Period size: 47 Copynumber: 7.4 Consensus size: 47
85100565 CCCTTCGGGA
** * * *
85100575 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACTTTCATCACATTGGCCATTCGGC
* * * * *
85100622 CTTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
85100669 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
85100716 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
85100763 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
85100810 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
85100857 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
85100904 CCTATTCACACATATACA
1 CTTA-TCACACATATACA
85100922 CTTTCACATT
Statistics
Matches: 284, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 270 0.95
48 13 0.05
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
Found at i:85103346 original size:47 final size:47
Alignment explanation
Indices: 85103276--85103424 Score: 253
Period size: 47 Copynumber: 3.2 Consensus size: 47
85103266 GGCTTATCAT
* * *
85103276 ATTTAACAAGGTTAACTACGTAACTTATCCGAAAATAGTAAGAACAA
1 ATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATAGTAAGAACAA
*
85103323 ATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATATTAAGAACAA
1 ATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATAGTAAGAACAA
*
85103370 ATTTAACAAGCTTAACTAAGGAACTTATCCGGAAATAGTAAGAACAA
1 ATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATAGTAAGAACAA
85103417 ATTTAACA
1 ATTTAACA
85103425 TCACTTCATC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (47 bp):
ATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATAGTAAGAACAA
Found at i:85107289 original size:34 final size:35
Alignment explanation
Indices: 85107231--85107302 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
85107221 CGTATCCTAG
*
85107231 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTTCC
1 CTACAGTCTCAGTCTTCTAAAG-TTTCAGTATTACC
* *
85107266 CTACTGTCTCAGT-TTCTACAGTTTCAGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
85107300 CTA
1 CTA
85107303 ACTACAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 14 0.42
35 12 0.36
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
Found at i:85111364 original size:34 final size:36
Alignment explanation
Indices: 85111312--85111382 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 36
85111302 CTAGCTACAG
*
85111312 TCTCAGTCTTCTAAAGTTTTCAGT-TTCCCCT-ACTA
1 TCTCAGTCTTCTAAAG-TTTCAGTATTACCCTAACTA
*
85111347 TCTCAGT-TTCTACAGTTTCAGTATTACCCTAACTA
1 TCTCAGTCTTCTAAAGTTTCAGTATTACCCTAACTA
85111382 T
1 T
85111383 AGAATCATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 7 0.22
34 13 0.41
35 12 0.38
ACGTcount: A:0.23, C:0.27, G:0.08, T:0.42
Consensus pattern (36 bp):
TCTCAGTCTTCTAAAGTTTCAGTATTACCCTAACTA
Found at i:85121164 original size:43 final size:44
Alignment explanation
Indices: 85121032--85121176 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 44
85121022 ACCCAGATGA
* * * * **
85121032 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGT
1 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAATAC
* * * ** *
85121075 GATTATC-TGTAAGACAATGTTCGGGATATTTACATCATT-ATAC
1 GATTA-CGTGTAAGACCATGTTTGGGACATTGGCATCGTTAATAC
*
85121118 GATTACGTGTAAGACCATGTTTGGGACATCGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAATAC
*
85121161 GATTTCGTGTAAGACC
1 GATTACGTGTAAGACC
85121177 CTATCTAGGA
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
42 1 0.01
43 74 0.94
44 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAATAC
Found at i:85125410 original size:47 final size:47
Alignment explanation
Indices: 85125340--85125470 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 47
85125330 TACAATTGAT
*
85125340 AAGTACCTATACCATGGCCCGTAGCCAAACCAAGGTAACT-TATC-CTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCT-TCTC-A
*
85125387 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCTCA
* *
85125434 AAATACCTATATCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
85125471 TTATTTGCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
47 75 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCTCA
Found at i:85131147 original size:44 final size:42
Alignment explanation
Indices: 85131071--85131227 Score: 149
Period size: 41 Copynumber: 3.7 Consensus size: 42
85131061 GGAACGTTGT
* **
85131071 CATCGATCTGAGA-TATCGTGTAAGACTGTGTCTGGGACATAGG
1 CATCGATCTGA-ATTA-CATGTAAGACCATGTCTGGGACATAGG
* * * *
85131114 CCTCGATTTGAGATTTACATGTAAGACCATGTCTGGGGCATCGG
1 CATCGATCTGA-A-TTACATGTAAGACCATGTCTGGGACATAGG
* * *
85131158 CATCGTATCTGAA-T-CATGTAAGACCCTGTCCGGGACAGAGG
1 CATCG-ATCTGAATTACATGTAAGACCATGTCTGGGACATAGG
85131199 CATCGATACTGAATTACATGTAAGACCAT
1 CATCGAT-CTGAATTACATGTAAGACCAT
85131228 ATCCAAGACG
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
40 2 0.02
41 32 0.34
42 2 0.02
43 23 0.25
44 27 0.29
45 7 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (42 bp):
CATCGATCTGAATTACATGTAAGACCATGTCTGGGACATAGG
Found at i:85138486 original size:15 final size:15
Alignment explanation
Indices: 85138466--85138496 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85138456 GCATGTCACC
85138466 TCCATAAAACTTACA
1 TCCATAAAACTTACA
85138481 TCCATAAAACTTACA
1 TCCATAAAACTTACA
85138496 T
1 T
85138497 TCAACACCTA
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:0.26, G:0.00, T:0.29
Consensus pattern (15 bp):
TCCATAAAACTTACA
Found at i:85138898 original size:29 final size:29
Alignment explanation
Indices: 85138817--85138931 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
85138807 TACATACATG
* *
85138817 CATATAGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * *
85138845 CAAATGGCCCATCT-GGCCTAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* * **
85138874 CTTTTGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
85138903 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
85138932 ATACTCATGC
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 16 0.24
29 50 0.76
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:85138931 original size:58 final size:57
Alignment explanation
Indices: 85138823--85138931 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 57
85138813 CATGCATATA
* * **
85138823 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCTAGTTCATATTCTTTTG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCTTTTG
*
85138880 GCCCACTAGGCCCAAT-TCACCTTCATATGGCCCAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATCT-GGCCCAAATCATATT
85138932 ATACTCATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 2 0.05
57 17 0.39
58 25 0.57
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCTTTTG
Found at i:85151597 original size:49 final size:47
Alignment explanation
Indices: 85151344--85151702 Score: 189
Period size: 46 Copynumber: 7.6 Consensus size: 47
85151334 TGATATGTGT
* * * *
85151344 GCTAGTGTAAGACATGTCTGGGACATGAATCGGCCA-C-ATTATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACATCGATGATGAGA
* * * *
85151390 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGA-GACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGATGATGAGA
* * * *
85151436 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCAGGAT-AT-ACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATC--GATGATGA-GA
* * * * * * * *
85151484 GCTAGTGTAAGACTTCTCTGAGACATGGCATCAAC-TTGTTGA-GTGT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGACATCGATGATGAGA
* * *
85151530 G-TCAGTGTAATACCTATCTGGGACATGGCATCGACATCGATAGATGAGA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGACATCGAT-GATGAGA
* * * * * *
85151579 GCTAGTGTAAGACATATCTGGGACA-CCATAACGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT--CGACATCGAT-GATGAGA
* * * * * * **
85151628 GTTAGTATAAGACCTGTCTAGGACATGGCATCGACTTTGATG-TGCTA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGACATCGATGATGAGA
*
85151675 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
85151703 GCGTCGGTAT
Statistics
Matches: 237, Mismatches: 57, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
45 4 0.02
46 96 0.41
47 22 0.09
48 41 0.17
49 70 0.30
50 1 0.00
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGATGATGAGA
Found at i:85154488 original size:77 final size:75
Alignment explanation
Indices: 85154361--85154536 Score: 255
Period size: 77 Copynumber: 2.3 Consensus size: 75
85154351 GGTGATACGT
*
85154361 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGATGAGTATTATACCAATTTGGCTTCAGGCC
1 TGATTTGGCTTC-GGCCATGATATTAGCACTTCGGATGAGTACTATACCAATTTGGCTTC-GGCC
85154426 ATGCATATC-AGA
64 ATGCATATCGA-A
* * *
85154438 TGATTTGGCTTCGGTCCATGATATTAGCACTTCGGGTGCGTACTATACCAATTTGGCTTCGGGCA
1 TGATTTGGCTTCGG-CCATGATATTAGCACTTCGGATGAGTACTATACCAATTTGGCTTCGGCCA
85154503 TGCATATCGAA
65 TGCATATCGAA
*
85154514 TGGTTTGGCTTCGAGCCATGATA
1 TGATTTGGCTTCG-GCCATGATA
85154537 ATAGTCCTTC
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
76 35 0.38
77 56 0.62
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (75 bp):
TGATTTGGCTTCGGCCATGATATTAGCACTTCGGATGAGTACTATACCAATTTGGCTTCGGCCAT
GCATATCGAA
Found at i:85165336 original size:47 final size:46
Alignment explanation
Indices: 85165251--85165464 Score: 138
Period size: 47 Copynumber: 4.6 Consensus size: 46
85165241 AGGTACCGAT
* * *
85165251 GCCATGACCCAGACATAGTCTTACACGGGCTTAT-ATCTCAAGTCGAA
1 GCCATGTCCCAGACAT-GTCTTACACTGAC-TATCATCTCAAGTCGAA
** * *
85165298 GCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTGGCCAA
1 GCCATGTCCCAGACAT-GTCTTACACTGACTATCATCTCAAGTCGAA
* * * * *
85165345 -CGCATGTCCCAGATATGTCTTACACTGGCT-TACGTCTCGAGGCCGATA
1 GC-CATGTCCCAGACATGTCTTACACTGACTAT-CATCTC-AAGTCGA-A
*
85165393 --CATGTCCCAGACATGTCTTACACT-AGC-ACTCGTCTCAATGTC-AA
1 GCCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCAA-GTCGAA
*
85165437 TGCCATGTCCCAGACATGGTTTTACACT
1 -GCCATGTCCCAGACAT-GTCTTACACT
85165465 AGCTCTCACA
Statistics
Matches: 134, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 54 0.40
47 66 0.49
48 10 0.07
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCATGTCCCAGACATGTCTTACACTGACTATCATCTCAAGTCGAA
Found at i:85165427 original size:46 final size:47
Alignment explanation
Indices: 85165300--85165467 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 47
85165290 AAGTCGAAGC
* * **
85165300 CATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTGGCCAACG
1 CATGTCCCAGACATGGTCTTACACTAGCAC--TCGTCTCGAGGCCAATA
* * * *
85165347 CATGTCCCAGATAT-GTCTTACACTGGC-TTACGTCTCGAGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTAGCACT-CGTCTCGAGGCCAATA
* * * *
85165393 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGTCAATGC
1 CATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGAGGCCAAT-A
*
85165440 CATGTCCCAGACATGGTTTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
85165468 TCTCACAAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 57 0.58
47 29 0.29
48 12 0.12
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGAGGCCAATA
Found at i:85167601 original size:11 final size:11
Alignment explanation
Indices: 85167585--85167616 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
85167575 TAGTAAGCTC
85167585 ATATGAAAATA
1 ATATGAAAATA
85167596 ATATGAAAATA
1 ATATGAAAATA
85167607 ATATGCAAAA
1 ATATG-AAAA
85167617 CTTATCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.25
Consensus pattern (11 bp):
ATATGAAAATA
Found at i:85170311 original size:15 final size:15
Alignment explanation
Indices: 85170291--85170323 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85170281 AAAGATAAAA
85170291 TTAAAGATTTCAATT
1 TTAAAGATTTCAATT
85170306 TTAAAGATTTCAATT
1 TTAAAGATTTCAATT
85170321 TTA
1 TTA
85170324 CGGATCAAAT
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:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAAAGATTTCAATT
Found at i:85170723 original size:60 final size:60
Alignment explanation
Indices: 85170639--85170757 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
85170629 ATACTAAACT
* * * *
85170639 AAACACAACAATTTATAACTTAATCCTAATTTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTAC
*
85170699 AAACACAA-AATTTTTTAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAA-TTTATAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTA
85170758 TAAAAAACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 2 0.04
60 51 0.96
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTAC
Found at i:85170749 original size:33 final size:32
Alignment explanation
Indices: 85170659--85170755 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 32
85170649 ATTTATAACT
* *
85170659 TAATCCTAATTTACTAATAAATTAATTTTAAAA
1 TAATCCTAAATCACTAA-AAATTAATTTTAAAA
* *
85170692 TAAT--TACAAACAC--AAAATT--TTTTAACA
1 TAATCCTA-AATCACTAAAAATTAATTTTAAAA
85170719 TAATCCTAAATCACTAACAAATTAATTTTAAAA
1 TAATCCTAAATCACTAA-AAATTAATTTTAAAA
85170752 TAAT
1 TAAT
85170756 TATAAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
27 11 0.22
28 5 0.10
29 7 0.14
30 2 0.04
31 7 0.14
32 3 0.06
33 15 0.30
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (32 bp):
TAATCCTAAATCACTAAAAATTAATTTTAAAA
Found at i:85170984 original size:29 final size:29
Alignment explanation
Indices: 85170914--85170984 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
85170904 ATACATTACC
*
85170914 TTTTTTTTCTTTCTTCTTCTTCTTCTTCT
1 TTTTTTTTCTTTCTCCTTCTTCTTCTTCT
85170943 TTTTTTTTC-TTCTCC-T-TTCTCTCTCTCT
1 TTTTTTTTCTTTCTCCTTCTTCT-TCT-TCT
85170971 TTTTTTTTCTTTCT
1 TTTTTTTTCTTTCT
85170985 TTCGGTGTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 4 0.11
27 4 0.11
28 17 0.45
29 13 0.34
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTTTTCTTTCTCCTTCTTCTTCTTCT
Found at i:85171319 original size:26 final size:28
Alignment explanation
Indices: 85171290--85171351 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
85171280 TATATATTTA
*
85171290 AATATTTTA-ATAAAAATAAAAA-AAAT
1 AATATTTTATAAAAAAATAAAAAGAAAT
85171316 AATATTTTATTTTAAAAAAATAAAAAGAAAT
1 AATATTTTA---TAAAAAAATAAAAAGAAAT
85171347 AATAT
1 AATAT
85171352 AAAATAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.30
30 12 0.40
31 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AATATTTTATAAAAAAATAAAAAGAAAT
Found at i:85171328 original size:31 final size:31
Alignment explanation
Indices: 85171292--85171351 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
85171282 TATATTTAAA
85171292 TATTTTAATAAAAATAAAAA-AAATAATATTT
1 TATTTTAA-AAAAATAAAAAGAAATAATATTT
85171323 TATTTTAAAAAAATAAAAAGAAATAATAT
1 TATTTTAAAAAAATAAAAAGAAATAATAT
85171352 AAAATAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
TATTTTAAAAAAATAAAAAGAAATAATATTT
Found at i:85172571 original size:24 final size:25
Alignment explanation
Indices: 85172522--85172581 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
85172512 ATAAAAAAGT
*
85172522 AAATTTTGATCCTCTAAAAATAAAA
1 AAATTTTAATCCTCTAAAAATAAAA
*
85172547 AAATTTTAATCTTCTAAAAATAAAA
1 AAATTTTAATCCTCTAAAAATAAAA
85172572 AAATTTTAAT
1 AAATTTTAAT
85172582 TTAATTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTTAATCCTCTAAAAATAAAA
Found at i:85173065 original size:24 final size:24
Alignment explanation
Indices: 85173013--85173066 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
85173003 CGTATTAAAA
* *
85173013 TATTAATGAAGTTGATTGCTATTG
1 TATTGATGAAATTGATTGCTATTG
*
85173037 TATTGATGAAATTTATTGCTATTG
1 TATTGATGAAATTGATTGCTATTG
85173061 TATTGA
1 TATTGA
85173067 AATTTACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (24 bp):
TATTGATGAAATTGATTGCTATTG
Found at i:85176320 original size:33 final size:33
Alignment explanation
Indices: 85176283--85176381 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 33
85176273 GCATGAAACC
85176283 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
1 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
* * * * * **
85176316 ATTGT-TTTTTGGAAGTT--GGC--ATGAAC-CC
1 ATTGTCATTTT-GCAGTTCCTGCAAATTATCTTT
85176344 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
1 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
85176377 ATTGT
1 ATTGT
85176382 TTTCCTACCA
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
28 10 0.22
29 8 0.18
30 2 0.04
31 2 0.04
32 8 0.18
33 15 0.33
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (33 bp):
ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
Found at i:85176357 original size:61 final size:61
Alignment explanation
Indices: 85176257--85176384 Score: 238
Period size: 61 Copynumber: 2.1 Consensus size: 61
85176247 TGATTCGGAA
85176257 GTTTATTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
1 GTTT-TTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
*
85176319 GTTTTTTGGAAGTTGGCATGAACCCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
1 GTTTTTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
85176380 GTTTT
1 GTTTT
85176385 CCTACCATGT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 61 0.94
62 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (61 bp):
GTTTTTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
Found at i:85176549 original size:37 final size:37
Alignment explanation
Indices: 85176494--85176567 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
85176484 AACTCCTTTA
*
85176494 TTTGTTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
1 TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
85176531 TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
1 TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
85176568 ATATGTCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.11, C:0.12, G:0.24, T:0.53
Consensus pattern (37 bp):
TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
Found at i:85181612 original size:25 final size:25
Alignment explanation
Indices: 85181549--85181612 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
85181539 CCAAATTTTC
*
85181549 TATAATTA-GTTTAAAATTTAAAATT
1 TATAATTATGTTT-AAATTCAAAATT
*
85181574 TATTATATAT-TTTAAATTC-AAATAT
1 TATAAT-TATGTTTAAATTCAAAAT-T
85181599 TATAATTATGTTTA
1 TATAATTATGTTTA
85181613 TTTTATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 7 0.22
25 20 0.62
26 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
TATAATTATGTTTAAATTCAAAATT
Found at i:85182374 original size:45 final size:43
Alignment explanation
Indices: 85182287--85182374 Score: 97
Period size: 45 Copynumber: 2.0 Consensus size: 43
85182277 ATCAAAATAA
* * **
85182287 TTTTTAAAATTTAGAATATTTATAAAAATTTCAAAATTTATAT
1 TTTTTAAAATTTAAAATATTTATAAAAAATTCAAAACATATAT
*
85182330 TTTTTAAAAATTTATAAATATTT-TAAAAAAATTCTAAACATATAT
1 TTTTT-AAAATTTA-AAATATTTAT-AAAAAATTCAAAACATATAT
85182375 AAAGAAAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
43 5 0.14
44 9 0.24
45 23 0.62
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (43 bp):
TTTTTAAAATTTAAAATATTTATAAAAAATTCAAAACATATAT
Found at i:85189773 original size:60 final size:60
Alignment explanation
Indices: 85189689--85189807 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
85189679 ATACTAAACT
* * * *
85189689 AAACACAACAATTTATAACTTAATCCTAATTTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTAC
*
85189749 AAACACAA-AATTTTTTAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAA-TTTATAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTA
85189808 TAAAAAACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 2 0.04
60 51 0.96
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATCACTAACAAATTAATTTTAAAATAATTAC
Found at i:85189799 original size:33 final size:32
Alignment explanation
Indices: 85189709--85189805 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 32
85189699 ATTTATAACT
* *
85189709 TAATCCTAATTTACTAATAAATTAATTTTAAAA
1 TAATCCTAAATCACTAA-AAATTAATTTTAAAA
* *
85189742 TAAT--TACAAACAC--AAAATT--TTTTAACA
1 TAATCCTA-AATCACTAAAAATTAATTTTAAAA
85189769 TAATCCTAAATCACTAACAAATTAATTTTAAAA
1 TAATCCTAAATCACTAA-AAATTAATTTTAAAA
85189802 TAAT
1 TAAT
85189806 TATAAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
27 11 0.22
28 5 0.10
29 7 0.14
30 2 0.04
31 7 0.14
32 3 0.06
33 15 0.30
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (32 bp):
TAATCCTAAATCACTAAAAATTAATTTTAAAA
Found at i:85190034 original size:29 final size:29
Alignment explanation
Indices: 85189964--85190034 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
85189954 ATACATTACC
*
85189964 TTTTTTTTCTTTCTTCTTCTTCTTCTTCT
1 TTTTTTTTCTTTCTCCTTCTTCTTCTTCT
85189993 TTTTTTTTC-TTCTCC-T-TTCTCTCTCTCT
1 TTTTTTTTCTTTCTCCTTCTTCT-TCT-TCT
85190021 TTTTTTTTCTTTCT
1 TTTTTTTTCTTTCT
85190035 TTCGGTGTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 4 0.11
27 4 0.11
28 17 0.45
29 13 0.34
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTTTTCTTTCTCCTTCTTCTTCTTCT
Found at i:85190369 original size:26 final size:28
Alignment explanation
Indices: 85190340--85190401 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
85190330 TATATATTTA
*
85190340 AATATTTTA-ATAAAAATAAAAA-AAAT
1 AATATTTTATAAAAAAATAAAAAGAAAT
85190366 AATATTTTATTTTAAAAAAATAAAAAGAAAT
1 AATATTTTA---TAAAAAAATAAAAAGAAAT
85190397 AATAT
1 AATAT
85190402 AAAATAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.30
30 12 0.40
31 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AATATTTTATAAAAAAATAAAAAGAAAT
Found at i:85190378 original size:31 final size:31
Alignment explanation
Indices: 85190342--85190401 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
85190332 TATATTTAAA
85190342 TATTTTAATAAAAATAAAAA-AAATAATATTT
1 TATTTTAA-AAAAATAAAAAGAAATAATATTT
85190373 TATTTTAAAAAAATAAAAAGAAATAATAT
1 TATTTTAAAAAAATAAAAAGAAATAATAT
85190402 AAAATAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
TATTTTAAAAAAATAAAAAGAAATAATATTT
Found at i:85191621 original size:24 final size:25
Alignment explanation
Indices: 85191572--85191631 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
85191562 ATAAAAAAGT
*
85191572 AAATTTTGATCCTCTAAAAATAAAA
1 AAATTTTAATCCTCTAAAAATAAAA
*
85191597 AAATTTTAATCTTCTAAAAATAAAA
1 AAATTTTAATCCTCTAAAAATAAAA
85191622 AAATTTTAAT
1 AAATTTTAAT
85191632 TTAATTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTTAATCCTCTAAAAATAAAA
Found at i:85192115 original size:24 final size:24
Alignment explanation
Indices: 85192063--85192116 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
85192053 CGTATTAAAA
* *
85192063 TATTAATGAAGTTGATTGCTATTG
1 TATTGATGAAATTGATTGCTATTG
*
85192087 TATTGATGAAATTTATTGCTATTG
1 TATTGATGAAATTGATTGCTATTG
85192111 TATTGA
1 TATTGA
85192117 AATTTACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (24 bp):
TATTGATGAAATTGATTGCTATTG
Found at i:85195370 original size:33 final size:33
Alignment explanation
Indices: 85195333--85195431 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 33
85195323 GCATGAAACC
85195333 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
1 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
* * * * * **
85195366 ATTGT-TTTTTGGAAGTT--GGC--ATGAAC-CC
1 ATTGTCATTTT-GCAGTTCCTGCAAATTATCTTT
85195394 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
1 ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
85195427 ATTGT
1 ATTGT
85195432 TTTCCTACCA
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
28 10 0.22
29 8 0.18
30 2 0.04
31 2 0.04
32 8 0.18
33 15 0.33
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (33 bp):
ATTGTCATTTTGCAGTTCCTGCAAATTATCTTT
Found at i:85195407 original size:61 final size:61
Alignment explanation
Indices: 85195307--85195434 Score: 238
Period size: 61 Copynumber: 2.1 Consensus size: 61
85195297 TGATTCGGAA
85195307 GTTTATTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
1 GTTT-TTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
*
85195369 GTTTTTTGGAAGTTGGCATGAACCCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
1 GTTTTTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
85195430 GTTTT
1 GTTTT
85195435 CCTACCATGT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 61 0.94
62 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (61 bp):
GTTTTTTGGAAGTTGGCATGAAACCATTGTCATTTTGCAGTTCCTGCAAATTATCTTTATT
Found at i:85195599 original size:37 final size:37
Alignment explanation
Indices: 85195544--85195617 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
85195534 AACTCCTTTA
*
85195544 TTTGTTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
1 TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
85195581 TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
1 TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
85195618 ATATGTCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.11, C:0.12, G:0.24, T:0.53
Consensus pattern (37 bp):
TTTGCTGTTTGGATTGTATGATTTGCTCAGTCTCTGT
Found at i:85200662 original size:25 final size:25
Alignment explanation
Indices: 85200599--85200662 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
85200589 CCAAATTTTC
*
85200599 TATAATTA-GTTTAAAATTTAAAATT
1 TATAATTATGTTT-AAATTCAAAATT
*
85200624 TATTATATAT-TTTAAATTC-AAATAT
1 TATAAT-TATGTTTAAATTCAAAAT-T
85200649 TATAATTATGTTTA
1 TATAATTATGTTTA
85200663 TTTTATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 7 0.22
25 20 0.62
26 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
TATAATTATGTTTAAATTCAAAATT
Found at i:85201424 original size:45 final size:43
Alignment explanation
Indices: 85201337--85201424 Score: 97
Period size: 45 Copynumber: 2.0 Consensus size: 43
85201327 ATCAAAATAA
* * **
85201337 TTTTTAAAATTTAGAATATTTATAAAAATTTCAAAATTTATAT
1 TTTTTAAAATTTAAAATATTTATAAAAAATTCAAAACATATAT
*
85201380 TTTTTAAAAATTTATAAATATTT-TAAAAAAATTCTAAACATATAT
1 TTTTT-AAAATTTA-AAATATTTAT-AAAAAATTCAAAACATATAT
85201425 AAAGAAAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
43 5 0.14
44 9 0.24
45 23 0.62
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (43 bp):
TTTTTAAAATTTAAAATATTTATAAAAAATTCAAAACATATAT
Found at i:85205222 original size:5 final size:5
Alignment explanation
Indices: 85205212--85205238 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
85205202 TGTGGTGCTT
85205212 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
85205239 ATTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:85206957 original size:28 final size:27
Alignment explanation
Indices: 85206906--85206958 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
85206896 GGTTTAATTT
*
85206906 TTTTGGTTTCAAATTTTGGTTTTGAGG
1 TTTTGGTTTCAAATTTTCGTTTTGAGG
85206933 TTTTGGATTTCAAA-TTTCGTATTTGA
1 TTTTGG-TTTCAAATTTTCGT-TTTGA
85206959 TTTTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.19, C:0.06, G:0.21, T:0.55
Consensus pattern (27 bp):
TTTTGGTTTCAAATTTTCGTTTTGAGG
Found at i:85206964 original size:28 final size:27
Alignment explanation
Indices: 85206904--85206964 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
85206894 TAGGTTTAAT
*
85206904 TTTTTTGGTTTCAAATTTTGGTTTTGA
1 TTTTTTGGTTTCAAATTTTCGTTTTGA
**
85206931 GGTTTTGGATTTCAAA-TTTCGTATTTGA
1 TTTTTTGG-TTTCAAATTTTCGT-TTTGA
85206959 TTTTTT
1 TTTTTT
85206965 TTATTTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.16, C:0.05, G:0.18, T:0.61
Consensus pattern (27 bp):
TTTTTTGGTTTCAAATTTTCGTTTTGA
Found at i:85207169 original size:15 final size:17
Alignment explanation
Indices: 85207146--85207180 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
85207136 ATTCTGCCTT
85207146 AAATAATTAA-ATTTTA
1 AAATAATTAAGATTTTA
85207162 AAAT-ATTAAGATTTTA
1 AAATAATTAAGATTTTA
85207178 AAA
1 AAA
85207181 AACTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATAATTAAGATTTTA
Found at i:85207194 original size:26 final size:24
Alignment explanation
Indices: 85207154--85207217 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
85207144 TTAAATAATT
*
85207154 AAATTTTAAAATATTAAGATTTTAAA
1 AAATTTT-TAATATTAAGA-TTTAAA
* *
85207180 AAACTTTTTAATATTAATATTTAAT
1 AAA-TTTTTAATATTAAGATTTAAA
*
85207205 ACATTTTTAATAT
1 AAATTTTTAATAT
85207218 ATTTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 10 0.30
25 7 0.21
26 12 0.36
27 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
AAATTTTTAATATTAAGATTTAAA
Found at i:85215849 original size:15 final size:16
Alignment explanation
Indices: 85215824--85215856 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
85215814 ATTTTTGAAC
85215824 TTTCAATGCTTTCATT
1 TTTCAATGCTTTCATT
85215840 TTTC-ATGCTTTCATT
1 TTTCAATGCTTTCATT
85215855 TT
1 TT
85215857 AAGTGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTCAATGCTTTCATT
Found at i:85218524 original size:71 final size:72
Alignment explanation
Indices: 85218405--85218543 Score: 244
Period size: 71 Copynumber: 1.9 Consensus size: 72
85218395 TTGATACATT
* *
85218405 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATATAT
85218470 TTGGATA
66 TTGGATA
*
85218477 TATGTGGTGTAATATTATGCAC-TAGACAATGTTGTTACTATGTGGTGTACCATTAATTATATAT
1 TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATATAT
85218541 TTG
66 TTG
85218544 AATAATATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 42 0.66
72 22 0.34
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (72 bp):
TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATATAT
TTGGATA
Found at i:85218757 original size:14 final size:14
Alignment explanation
Indices: 85218738--85218765 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85218728 ACAATTTATT
85218738 AATATATATTAATA
1 AATATATATTAATA
85218752 AATATATATTAATA
1 AATATATATTAATA
85218766 TATGTAAAAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:85218870 original size:14 final size:15
Alignment explanation
Indices: 85218848--85218924 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
85218838 TTACCAAACA
85218848 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
85218862 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
85218877 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
85218897 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
85218911 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
85218925 ACTGCCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:85218889 original size:20 final size:20
Alignment explanation
Indices: 85218864--85218903 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
85218854 AATATTTTCC
*
85218864 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
85218884 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
85218904 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:85218909 original size:34 final size:35
Alignment explanation
Indices: 85218852--85218918 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
85218842 CAAACACCAG
*
85218852 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
85218887 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
85218919 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:85218925 original size:14 final size:14
Alignment explanation
Indices: 85218887--85218926 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
85218877 ACAGAAAAGT
*
85218887 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
85218901 AAATCATTTTACGG
1 AAAACATTTTACAG
85218915 AAAACATTTTAC
1 AAAACATTTTAC
85218927 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:85220472 original size:16 final size:16
Alignment explanation
Indices: 85220446--85220480 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
85220436 AATAATGAAA
85220446 AAATAATAAATTT-TT
1 AAATAATAAATTTCTT
85220461 AAATATATAAATTTCTT
1 AAATA-ATAAATTTCTT
85220478 AAA
1 AAA
85220481 ACAACTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 8 0.44
17 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATAATAAATTTCTT
Found at i:85220583 original size:19 final size:20
Alignment explanation
Indices: 85220559--85220600 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
85220549 CAAACACAAT
85220559 AAAAGTAAAT-AATTTCCAG
1 AAAAGTAAATCAATTTCCAG
*
85220578 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCAATTTCCAG
85220598 AAA
1 AAA
85220601 TCATTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAAGTAAATCAATTTCCAG
Found at i:85225695 original size:15 final size:17
Alignment explanation
Indices: 85225672--85225706 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
85225662 ATTCTGCCTT
85225672 AAATAATTAA-ATTTTA
1 AAATAATTAAGATTTTA
85225688 AAAT-ATTAAGATTTTA
1 AAATAATTAAGATTTTA
85225704 AAA
1 AAA
85225707 AACTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATAATTAAGATTTTA
Found at i:85225720 original size:26 final size:24
Alignment explanation
Indices: 85225680--85225743 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
85225670 TTAAATAATT
*
85225680 AAATTTTAAAATATTAAGATTTTAAA
1 AAATTTT-TAATATTAAGA-TTTAAA
* *
85225706 AAACTTTTTAATATTAATATTTAAT
1 AAA-TTTTTAATATTAAGATTTAAA
*
85225731 ACATTTTTAATAT
1 AAATTTTTAATAT
85225744 ATTTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 10 0.30
25 7 0.21
26 12 0.36
27 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
AAATTTTTAATATTAAGATTTAAA
Found at i:85230863 original size:19 final size:20
Alignment explanation
Indices: 85230839--85230883 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
85230829 ATCCAAACAC
85230839 CAGAAAAGTAAATCA-TTTT
1 CAGAAAAGTAAATCATTTTT
85230858 CAGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATCATTTTT
85230878 CAGAAA
1 CAGAAA
85230884 TTATTTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (20 bp):
CAGAAAAGTAAATCATTTTT
Found at i:85230904 original size:13 final size:14
Alignment explanation
Indices: 85230867--85230904 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
85230857 TCAGAAAAGT
*
85230867 AAATCATTTTTCAG
1 AAATTATTTTTCAG
*
85230881 AAATTATTTTTCGG
1 AAATTATTTTTCAG
85230895 AAATTATTTT
1 AAATTATTTT
85230905 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (14 bp):
AAATTATTTTTCAG
Found at i:85236483 original size:19 final size:19
Alignment explanation
Indices: 85236459--85236498 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
85236449 ATTTAGTTAA
85236459 AAGGTATGAAGAGAAATTG
1 AAGGTATGAAGAGAAATTG
85236478 AAGGTATGAAGAGAAATTG
1 AAGGTATGAAGAGAAATTG
85236497 AA
1 AA
85236499 ATTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (19 bp):
AAGGTATGAAGAGAAATTG
Found at i:85236731 original size:2 final size:2
Alignment explanation
Indices: 85236726--85236778 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
85236716 AAAAAGACAC
85236726 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
85236768 AG AG AG AG AG A
1 AG AG AG AG AG A
85236779 AATTTTAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85238479 original size:21 final size:20
Alignment explanation
Indices: 85238451--85238493 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
85238441 AAGTGTAACC
85238451 TTTTTTATATTTTTATATAT
1 TTTTTTATATTTTTATATAT
*
85238471 TTTTATTATATTTTTTTATAT
1 TTTT-TTATATTTTTATATAT
85238492 TT
1 TT
85238494 GTTAATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTATATTTTTATATAT
Found at i:85238501 original size:10 final size:10
Alignment explanation
Indices: 85238451--85238493 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
85238441 AAGTGTAACC
85238451 TTTTT-TATA
1 TTTTTATATA
85238460 TTTTTATATA
1 TTTTTATATA
85238470 TTTTTATTATA
1 TTTTTA-TATA
*
85238481 TTTTTTTATA
1 TTTTTATATA
85238491 TTT
1 TTT
85238494 GTTAATATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
9 5 0.16
10 17 0.55
11 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTATATA
Found at i:85239385 original size:18 final size:17
Alignment explanation
Indices: 85239364--85239417 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
85239354 TTATAACTAA
85239364 TTTTATATTTTATATAAT
1 TTTTATATTTTATAT-AT
*
85239382 TTTTATACTTTTTTATAT
1 TTTTATA-TTTTATATAT
85239400 TTTATAATAATTTTATAT
1 TTT-T-AT-ATTTTATAT
85239418 TATATATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.40
19 8 0.27
20 9 0.30
21 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATTTTATATAT
Found at i:85239412 original size:11 final size:10
Alignment explanation
Indices: 85239370--85239417 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
85239360 CTAATTTTAT
85239370 ATTTTATATA
1 ATTTTATATA
85239380 ATTTT-TATA
1 ATTTTATATA
* *
85239389 CTTTTTTAT-
1 ATTTTATATA
85239398 ATTTTATAATA
1 ATTTTAT-ATA
85239409 ATTTTATAT
1 ATTTTATAT
85239418 TATATATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 13 0.41
10 12 0.38
11 7 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTATATA
Found at i:85240916 original size:12 final size:12
Alignment explanation
Indices: 85240899--85240923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85240889 TAAAAAAGAC
85240899 AAAAAATAAAAT
1 AAAAAATAAAAT
85240911 AAAAAATAAAAT
1 AAAAAATAAAAT
85240923 A
1 A
85240924 TTTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:85245823 original size:14 final size:16
Alignment explanation
Indices: 85245791--85245825 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
85245781 TTTTTCTCAT
85245791 TTTTAATTATGTAATA
1 TTTTAATTATGTAATA
85245807 TTTTAATT-TGT-ATA
1 TTTTAATTATGTAATA
85245821 TTTTA
1 TTTTA
85245826 TAATTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 3 0.16
16 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTAATTATGTAATA
Found at i:85245829 original size:16 final size:15
Alignment explanation
Indices: 85245789--85245831 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
85245779 CATTTTTCTC
85245789 ATTTTTAATTATGTA
1 ATTTTTAATTATGTA
85245804 ATATTTTAATT-TGTA
1 AT-TTTTAATTATGTA
85245819 TATTTTATAATTA
1 -ATTTT-TAATTA
85245832 ATTTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
ATTTTTAATTATGTA
Found at i:85245841 original size:20 final size:20
Alignment explanation
Indices: 85245809--85245846 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85245799 ATGTAATATT
*
85245809 TTAATTTGTATATTTTATAA
1 TTAATTTGTATATATTATAA
85245829 TTAATTT-TCATATATTAT
1 TTAATTTGT-ATATATTAT
85245847 TTTTTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTAATTTGTATATATTATAA
Found at i:85247859 original size:63 final size:64
Alignment explanation
Indices: 85247786--85247922 Score: 258
Period size: 64 Copynumber: 2.2 Consensus size: 64
85247776 ATTTATATAT
*
85247786 TGGTAAATTGTA-TTTTTTTATACAAGAAAAGAGAGAGGATCATAATGCTTTATTTCAATTTGA
1 TGGTAAATTGTATTTTTTTTATACAAGAAAAGAGAGAGAATCATAATGCTTTATTTCAATTTGA
85247849 TGGTAAATTGTATTTTTTTTATACAAGAAAAGAGAGAGAATCATAATGCTTTATTTCAATTTGA
1 TGGTAAATTGTATTTTTTTTATACAAGAAAAGAGAGAGAATCATAATGCTTTATTTCAATTTGA
85247913 TGGTAAATTG
1 TGGTAAATTG
85247923 CACTTTGACC
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 12 0.17
64 60 0.83
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (64 bp):
TGGTAAATTGTATTTTTTTTATACAAGAAAAGAGAGAGAATCATAATGCTTTATTTCAATTTGA
Found at i:85250519 original size:21 final size:21
Alignment explanation
Indices: 85250476--85250519 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
85250466 ATCCTCTAAA
* *
85250476 AATTTTCTATTTAAAAAATTT
1 AATTTTCTACTTAAAAAAATT
85250497 AATTTT-TACTTAAAATAAATT
1 AATTTTCTACTTAAAA-AAATT
85250518 AA
1 AA
85250520 AATATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTTCTACTTAAAAAAATT
Found at i:85250612 original size:13 final size:13
Alignment explanation
Indices: 85250594--85250632 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
85250584 TCAAATAATT
85250594 TAATTATATTAAA
1 TAATTATATTAAA
*
85250607 TAATTAATTTTAAA
1 TAATT-ATATTAAA
85250621 TAA-TATATTAAA
1 TAATTATATTAAA
85250633 CAGTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 6 0.26
14 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:85254602 original size:5 final size:5
Alignment explanation
Indices: 85254592--85254619 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
85254582 CATTCTCACC
85254592 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
85254620 CCAATCAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:85258873 original size:2 final size:2
Alignment explanation
Indices: 85258866--85258905 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
85258856 TAAGGGGAGG
85258866 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
85258906 AAGATAATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:85259422 original size:6 final size:6
Alignment explanation
Indices: 85259411--85259461 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
85259401 CTCACAACTT
* * * *
85259411 CTTTTC CTTTTC CTTTT- -TTTTG CTTTTT CTTTTT CTTTTC CTTTCC
1 CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC
85259457 CTTTT
1 CTTTT
85259462 TCCAATTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 4 0.10
6 35 0.90
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (6 bp):
CTTTTC
Found at i:85259436 original size:16 final size:16
Alignment explanation
Indices: 85259412--85259462 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
85259402 TCACAACTTC
85259412 TTTTCCTTTTCCTTTT
1 TTTTCCTTTTCCTTTT
* *
85259428 TTTTGCTTTTTCTTTTT
1 TTTT-CCTTTTCCTTTT
*
85259445 CTTTTCCTTTCCCTTTT
1 -TTTTCCTTTTCCTTTT
85259462 T
1 T
85259463 CCAATTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 5 0.18
17 19 0.68
18 4 0.14
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTCCTTTTCCTTTT
Found at i:85259444 original size:17 final size:18
Alignment explanation
Indices: 85259409--85259454 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
85259399 CGCTCACAAC
85259409 TTCTTTTCC-TTTTCCTT
1 TTCTTTTCCTTTTTCCTT
* *
85259426 TT-TTTTGCTTTTTCTTT
1 TTCTTTTCCTTTTTCCTT
85259443 TTCTTTTCCTTT
1 TTCTTTTCCTTT
85259455 CCCTTTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (18 bp):
TTCTTTTCCTTTTTCCTT
Done.