Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 121 of 228
Found at i:35645739 original size:27 final size:26
Alignment explanation
Indices: 35645700--35645767 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
35645690 GAAGTATATT
**
35645700 TTACTGGTGGCTTTGCCACATATACTA
1 TTACTGGCAGCTTTGCCACAT-TACTA
*** * *
35645727 TTACTGGCAGCTTTGTTGCGTTACTG
1 TTACTGGCAGCTTTGCCACATTACTA
35645753 TTACTGGCAGCTTTG
1 TTACTGGCAGCTTTG
35645768 TTGTGTCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACATTACTA
Found at i:35645758 original size:26 final size:26
Alignment explanation
Indices: 35645722--35645793 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
35645712 TTGCCACATA
35645722 TACTATTACTGGCAGCTTTGTTGCGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* *
35645748 TACTGTTACTGGCAGCTTTGTTGTGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* * *
35645774 CATTATTACTGGCAACTTTG
1 TACTATTACTGGCAGCTTTG
35645794 CTACGATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGTTGCGT
Found at i:35645955 original size:28 final size:27
Alignment explanation
Indices: 35645913--35645969 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
35645903 TATTGATTAT
* *
35645913 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTAATGGGCCAAGGCCCACACTG-TAC
35645941 TGTAATGGGCCAAGGCCCACACTGTAC
1 TGTAATGGGCCAAGGCCCACACTGTAC
35645968 TG
1 TG
35645970 ATACTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (27 bp):
TGTAATGGGCCAAGGCCCACACTGTAC
Found at i:35646787 original size:26 final size:26
Alignment explanation
Indices: 35646720--35646791 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
35646710 CAGTGAACCC
* *
35646720 TAAAGAAACTCCTTTGTGGCGCAGTA
1 TAAAGAAACGCCTTTGTGGCGCAATA
* *
35646746 TGAAAGGAACGACTTTGTGGCGCAATA
1 T-AAAGAAACGCCTTTGTGGCGCAATA
*
35646773 TAAAGAAAAGCCTTTGTGG
1 TAAAGAAACGCCTTTGTGG
35646792 TGACTGATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.42
27 22 0.58
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (26 bp):
TAAAGAAACGCCTTTGTGGCGCAATA
Found at i:35659072 original size:3 final size:3
Alignment explanation
Indices: 35659064--35659088 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35659054 GGTTAAAAAT
35659064 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
35659089 GAAAAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35662476 original size:19 final size:19
Alignment explanation
Indices: 35662440--35662478 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35662430 TTACCATGTA
* **
35662440 TAATCTCTATTTTTCAATT
1 TAATCCCTATTTGACAATT
35662459 TAATCCCTATTTGACAATT
1 TAATCCCTATTTGACAATT
35662478 T
1 T
35662479 CATCAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATCCCTATTTGACAATT
Found at i:35663578 original size:36 final size:35
Alignment explanation
Indices: 35663527--35663654 Score: 107
Period size: 36 Copynumber: 3.6 Consensus size: 35
35663517 AGTACATTAA
* * * *
35663527 TAATCCAACCAAAACACACCAGTTGCTCATAAGAGC
1 TAATACAACCGAAACACACCA-CTGCTCAGAAGAGC
*
35663563 TAA-ACCATCCGAAACACACCACTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCACTGCTCAGAAGAGC
* * * *
35663598 TAATACAACTGAAACACACCAATGACTCCGAAAAGC
1 TAATACAACCGAAACACACCACTG-CTCAGAAGAGC
* *
35663634 -AAGTCCAATCGAAACACACCA
1 TAA-TACAACCGAAACACACCA
35663655 AAATAGAGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
35 33 0.44
36 42 0.56
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.13
Consensus pattern (35 bp):
TAATACAACCGAAACACACCACTGCTCAGAAGAGC
Found at i:35663596 original size:35 final size:36
Alignment explanation
Indices: 35663527--35663618 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
35663517 AGTACATTAA
* * * *
35663527 TAATCCAACCAAAACACACCAGTTGCTCATAAGAGC
1 TAATACAACCGAAACACACCAGCTGCTCAGAAGAGC
*
35663563 TAA-ACCATCCGAAACACACCA-CTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCAGCTGCTCAGAAGAGC
*
35663598 TAATACAACTGAAACACACCA
1 TAATACAACCGAAACACACCA
35663619 ATGACTCCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 29 0.62
36 18 0.38
ACGTcount: A:0.43, C:0.32, G:0.11, T:0.14
Consensus pattern (36 bp):
TAATACAACCGAAACACACCAGCTGCTCAGAAGAGC
Found at i:35670533 original size:35 final size:35
Alignment explanation
Indices: 35670482--35670594 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
35670472 AATCCAACCA
*
35670482 AAACACATCAAATGCTCATAAGAGCTAAACCATCTG
1 AAACACA-CAAATGCTCATAAGAGCTAAACCAACTG
* * *
35670518 AAACACACCAATGCTCATAATAGCTAATCCAACTG
1 AAACACACAAATGCTCATAAGAGCTAAACCAACTG
* * ** *
35670553 AAACAAACTAATGGCTC-TGAAGAGCTAGTCCAACCG
1 AAACACACAAAT-GCTCAT-AAGAGCTAAACCAACTG
35670589 AAACAC
1 AAACAC
35670595 GCCAAAACAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 35 0.54
36 30 0.46
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (35 bp):
AAACACACAAATGCTCATAAGAGCTAAACCAACTG
Found at i:35671686 original size:12 final size:12
Alignment explanation
Indices: 35671669--35671698 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35671659 CCTCACACAC
35671669 TCGTGTGCCAGG
1 TCGTGTGCCAGG
*
35671681 TCGTGTGCTAGG
1 TCGTGTGCCAGG
35671693 TCGTGT
1 TCGTGT
35671699 AACTTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
TCGTGTGCCAGG
Found at i:35672648 original size:84 final size:84
Alignment explanation
Indices: 35672507--35672674 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
35672497 GATAGTGTGA
35672507 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
1 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
35672572 ACGTAAGCAATGAATGCTT
66 ACGTAAGCAATGAATGCTT
*
35672591 TAGATCTCTGACGAGTTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
1 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
*
35672656 ACGTAAGCAATGGATGCTT
66 ACGTAAGCAATGAATGCTT
35672675 AGTAAGCTCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (84 bp):
TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
ACGTAAGCAATGAATGCTT
Found at i:35676767 original size:52 final size:52
Alignment explanation
Indices: 35676706--35676809 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
35676696 TATAGAGAGA
35676706 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
1 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
35676758 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
1 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
35676810 TGTGTTGCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (52 bp):
ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
Found at i:35677917 original size:24 final size:24
Alignment explanation
Indices: 35677885--35677931 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
35677875 GTATTTTTGT
*
35677885 GAGTACCATATTTCTAGTTAATGC
1 GAGTACCATATTTCTACTTAATGC
35677909 GAGTACCATATTTCTACTTAATG
1 GAGTACCATATTTCTACTTAATG
35677932 TTTGTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (24 bp):
GAGTACCATATTTCTACTTAATGC
Found at i:35679556 original size:8 final size:8
Alignment explanation
Indices: 35679543--35679567 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35679533 ATGCCCATAA
35679543 TATATTTT
1 TATATTTT
35679551 TATATTTT
1 TATATTTT
35679559 TATATTTT
1 TATATTTT
35679567 T
1 T
35679568 TATGTACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATATTTT
Found at i:35680031 original size:15 final size:14
Alignment explanation
Indices: 35679994--35680031 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
35679984 TAAAAATTAA
35679994 CAAATTTA-ACTGT
1 CAAATTTATACTGT
35680007 CAACATTTATACATGT
1 CAA-ATTTATAC-TGT
35680023 CAAATTTAT
1 CAAATTTAT
35680032 GCTGATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 5 0.23
15 8 0.36
16 6 0.27
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
CAAATTTATACTGT
Found at i:35684360 original size:14 final size:14
Alignment explanation
Indices: 35684343--35684381 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
35684333 TTTTATACCA
*
35684343 ATAATTTTTATAAT
1 ATAATATTTATAAT
*
35684357 ATAATATTTATATT
1 ATAATATTTATAAT
*
35684371 ATAACATTTAT
1 ATAATATTTAT
35684382 TTAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATATTTATAAT
Found at i:35687336 original size:18 final size:18
Alignment explanation
Indices: 35687296--35687362 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
35687286 TTTCGCGATA
*
35687296 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAATG
*
35687314 TATAACGTTTTGAAAGA-G
1 AATAACGTTTTGAAA-ATG
* *
35687332 AATAAC-TTATGAATATG
1 AATAACGTTTTGAAAATG
*
35687349 AATCACG-TTTGAAA
1 AATAACGTTTTGAAA
35687363 TTGATCGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.03
17 17 0.45
18 19 0.50
19 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.34
Consensus pattern (18 bp):
AATAACGTTTTGAAAATG
Found at i:35689078 original size:14 final size:13
Alignment explanation
Indices: 35689030--35689079 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
35689020 ACTGGTCATA
35689030 GAGAGA-ATTGAG
1 GAGAGATATTGAG
* *
35689042 GAGGGATATT-TG
1 GAGAGATATTGAG
35689054 GAGAGAT-TTGAG
1 GAGAGATATTGAG
35689066 GAGAGAATATTGAG
1 GAGAG-ATATTGAG
35689080 ATTTGGGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 18 0.60
13 5 0.17
14 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (13 bp):
GAGAGATATTGAG
Found at i:35689764 original size:27 final size:27
Alignment explanation
Indices: 35689734--35689876 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
35689724 GAGAGGTCAA
35689734 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
** *
35689761 TAAAATGACCGAAATACCCATATAAGG
1 TAAAATGACCGAAATACCCCCATAGGG
** *
35689788 TAAAATGACTAAAATACCCCCATAGGC
1 TAAAATGACCGAAATACCCCCATAGGG
* *
35689815 TAGAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
35689842 TAAAATGACC-AAATACCCCTATTGGG
1 TAAAATGACCGAAATACCCCCATAGGG
35689868 TAAAATGAC
1 TAAAATGAC
35689877 TATTATACCC
Statistics
Matches: 98, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.22
27 76 0.78
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:35693258 original size:56 final size:56
Alignment explanation
Indices: 35693189--35693522 Score: 372
Period size: 55 Copynumber: 6.0 Consensus size: 56
35693179 ATAGTATAAT
* * * * * * *
35693189 AATGCTTACTTTGAGACACTGAAGCAAC-ACTTTAATTTAATTTAGGATAGCAT-AA
1 AATGCTCAATTTGAAACACTAAAACAACAAC-TTAATTTAATTTAAGACAGCATGAA
* * * *
35693244 TAATACTCAATTTGAAACA-TTAAATAGCAACTTAATTTAATTTAAGACAGCATGAA
1 -AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
* *
35693300 AATGCTCAATTTGAAACA-TTAAATAACAACTTAATTTAATTTAAGACAGCATGAA
1 AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
* * *
35693355 AATGCTCAATTTGATAA-ACTAAAACACCAACTTTAATTCAATTTATGACAGCATGAA
1 AATGCTCAATTTGA-AACACTAAAACAACAAC-TTAATTTAATTTAAGACAGCATGAA
* * * *
35693412 AATGCTCAATTTGAAACACTAAAACAACAGCTTGATTCAATTTAAGACAGTATGAA
1 AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
* * * *
35693468 AATGCTCAATTTGAAACACTCAAACAACAACTTTAATTCATTTTATGACAGCATG
1 AATGCTCAATTTGAAACACTAAAACAACAAC-TTAATTTAATTTAAGACAGCATG
35693523 CAAACAGTAA
Statistics
Matches: 243, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
55 93 0.38
56 82 0.34
57 68 0.28
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (56 bp):
AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
Found at i:35693499 original size:113 final size:112
Alignment explanation
Indices: 35693220--35693522 Score: 389
Period size: 113 Copynumber: 2.7 Consensus size: 112
35693210 AAGCAACACT
* * * * * * * *
35693220 TTAATTTAATTTAGGATAGCAT-AATAATACTCAATTTGAAACA-TTAAATAGCAAC-TTAATTT
1 TTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTC
* * *
35693282 AATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAATAACAAC
65 AATTTATGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAAC
* *
35693330 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATAA-ACTAAAACACCAACTTTAATTC
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGA-AACACTAAAACAACAACTTTAATTC
*
35693394 AATTTATGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGC
65 AATTTATGACAGCATGAAAATGCTCAATTTGAAACA-TAAAACAACAAC
* * *
35693443 TTGATTCAATTTAAGACAGTATGAAAATGCTCAATTTGAAACACTCAAACAACAACTTTAATTCA
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCA
*
35693508 TTTTATGACAGCATG
66 ATTTATGACAGCATG
35693523 CAAACAGTAA
Statistics
Matches: 170, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
110 34 0.20
111 13 0.08
112 43 0.25
113 80 0.47
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (112 bp):
TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCA
ATTTATGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAAC
Found at i:35694364 original size:18 final size:18
Alignment explanation
Indices: 35694341--35694385 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
35694331 TTTATGATTG
35694341 GGTTGGGTAATTGAGTTT
1 GGTTGGGTAATTGAGTTT
* * *
35694359 GGTTGGATACTTGGGTTT
1 GGTTGGGTAATTGAGTTT
35694377 GGATTGGGT
1 GG-TTGGGT
35694386 TTAGGTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTGGGTAATTGAGTTT
Found at i:35702220 original size:27 final size:27
Alignment explanation
Indices: 35702190--35702394 Score: 146
Period size: 27 Copynumber: 7.9 Consensus size: 27
35702180 TAACCTATAA
35702190 GGGTATTTCGATAATTTCACAAACTAG
1 GGGTATTTCGATAATTTCACAAACTAG
*
35702217 GGGTATTTCGGTAATTTCACAAA-TCAG
1 GGGTATTTCGATAATTTCACAAACT-AG
* * *
35702244 GGGTATTTCAATAATTTTACACAC-AG
1 GGGTATTTCGATAATTTCACAAACTAG
*
35702270 AGGGTATTT---TAA--T-A-AAACTGG
1 -GGGTATTTCGATAATTTCACAAACTAG
*
35702291 GGGTATTTCGATAATTTCACAAATTAG
1 GGGTATTTCGATAATTTCACAAACTAG
** * * *
35702318 GGGCGTTTCGGTAATTTTACAAATTAG
1 GGGTATTTCGATAATTTCACAAACTAG
* * * *
35702345 AGGTATTTC-AGTAATTTTACACAC-CG
1 GGGTATTTCGA-TAATTTCACAAACTAG
35702371 GGAGTATTTC-AGTAATTTCACAAA
1 GG-GTATTTCGA-TAATTTCACAAA
35702395 TTGGGGGTCT
Statistics
Matches: 142, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.08
21 2 0.01
22 1 0.01
23 3 0.02
24 3 0.02
25 1 0.01
26 6 0.04
27 115 0.81
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAACTAG
Found at i:35702275 original size:54 final size:53
Alignment explanation
Indices: 35702190--35702395 Score: 167
Period size: 54 Copynumber: 3.9 Consensus size: 53
35702180 TAACCTATAA
*
35702190 GGGTATTTCGATAATTTCACAAACTAGGGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCAATAATTTCACAAAC-AGGGGTATTTCGGTAATTTCACAAATCAG
* * *
35702244 GGGTATTTCAATAATTTTACACACAGAGGGTATTT---TAA--T-A-AAA-CTGG
1 GGGTATTTCAATAATTTCACAAACAG-GGGTATTTCGGTAATTTCACAAATC-AG
* * ** * *
35702291 GGGTATTTCGATAATTTCACAAATTAGGGGCGTTTCGGTAATTTTACAAATTAG
1 GGGTATTTCAATAATTTCACAAA-CAGGGGTATTTCGGTAATTTCACAAATCAG
* * * * * *
35702345 AGGTATTTCAGTAATTTTACACACCGGGAGTATTTCAGTAATTTCACAAAT
1 GGGTATTTCAATAATTTCACAAACAGGG-GTATTTCGGTAATTTCACAAAT
35702396 TGGGGGTCTC
Statistics
Matches: 117, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
46 1 0.01
47 30 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
52 1 0.01
53 6 0.05
54 69 0.59
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (53 bp):
GGGTATTTCAATAATTTCACAAACAGGGGTATTTCGGTAATTTCACAAATCAG
Found at i:35705349 original size:39 final size:39
Alignment explanation
Indices: 35705291--35705430 Score: 133
Period size: 39 Copynumber: 3.6 Consensus size: 39
35705281 AACACACCAG
*
35705291 TTTGACACCCAGTGCCTCATCGAATAATTCGAAGTAATAA
1 TTTGACA-CCAGTGCCTCATCGAATAATCCGAAGTAATAA
* ** *
35705331 TTTGACACCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCAGTGCCTCATCGAATAATCCGAAGTAATAA
* *
35705368 -TTGGCACTCAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACAC-CAGTGCCTCATCGAA-TAATCCGAAGTAATAA
* * *
35705408 ATTGACACCTAGTGTCTTATCGA
1 TTTGACACC-AGTGCCTCATCGA
35705431 CTCGAAGTTG
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
36 6 0.08
37 14 0.17
38 11 0.14
39 22 0.28
40 10 0.12
41 17 0.21
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (39 bp):
TTTGACACCAGTGCCTCATCGAATAATCCGAAGTAATAA
Found at i:35706267 original size:22 final size:22
Alignment explanation
Indices: 35706240--35706310 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
35706230 TAATTTCTCC
35706240 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCTTTCTCTTTCTCTT
* *
35706262 TTTCTTTCTTTCCCTTTCT-AT
1 TTTCTTTCTTTCTCTTTCTCTT
*
35706283 TTTCGTTTCTATCTCTGTT-TCTT
1 TTTC-TTTCTTTCTCT-TTCTCTT
35706306 TTTCT
1 TTTCT
35706311 ATTTTCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 5 0.12
22 29 0.71
23 7 0.17
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTTTCTCTT
Found at i:35706766 original size:3 final size:3
Alignment explanation
Indices: 35706758--35706792 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35706748 AACTAAAAGA
35706758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35706793 AATGAATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35710326 original size:41 final size:41
Alignment explanation
Indices: 35710237--35710345 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
35710227 TCAGGCTCTG
* * * *
35710237 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGACTTTA
* *
35710278 TGTCTAGCAGGCTTCATGCCGGTGTATTGA-ATCAGGCTTT-
1 TGCCTAGCAGGCTTCATGCCGGTGTATT-ATATCAGACTTTA
* *
35710318 TGGCCTAGCAGGCTTCGTGCCAGTGTAT
1 T-GCCTAGCAGGCTTCATGCCGGTGTAT
35710346 CATTTCAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGACTTTA
Found at i:35719595 original size:15 final size:16
Alignment explanation
Indices: 35719577--35719606 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35719567 ATAAGAAAGG
35719577 AAATAAATG-AAAATT
1 AAATAAATGCAAAATT
35719592 AAATAAATGCAAAAT
1 AAATAAATGCAAAAT
35719607 AAGAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
AAATAAATGCAAAATT
Found at i:35722210 original size:25 final size:24
Alignment explanation
Indices: 35722173--35722238 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
35722163 TCCTTTACAT
35722173 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTCT-AATCG
* * *
35722198 GTATGCTCTTACGACCTGTAATCG
1 GTATGCTCATACGAGCTCTAATCG
* *
35722222 GTAAGATCATACGAGCT
1 GTATGCTCATACGAGCT
35722239 AAATAATAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAATCG
Found at i:35722289 original size:25 final size:25
Alignment explanation
Indices: 35722177--35722290 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
35722167 TTACATGTAT
* * *
35722177 GCTCATACGAGCTCTAA-ATCGGTAT
1 GCTCATACGAGCT-GAATAACGGTAA
* *
35722202 GCTCTTACGACCTG--TAATCGGTAA
1 GCTCATACGAGCTGAATAA-CGGTAA
* * **
35722226 GATCATACGAGCTAAATAATAGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
35722251 GCTCATGCTAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
35722276 GCTCGTACGAGCTGA
1 GCTCATACGAGCTGA
35722291 GAATCTGTAA
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
23 1 0.02
24 15 0.23
25 46 0.71
26 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:35736093 original size:3 final size:3
Alignment explanation
Indices: 35736085--35736119 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35736075 GGCTTAAATA
35736085 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
35736120 AACTGACGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:35737890 original size:51 final size:51
Alignment explanation
Indices: 35737808--35737996 Score: 204
Period size: 51 Copynumber: 3.7 Consensus size: 51
35737798 TATCAATACG
* * *
35737808 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGAT-ATGGTCACA
* * * * *
35737859 TGTGTAGTACTATGTGCAGGCGACTATGTGTACCGAAAGGCTTTGGTCACC
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGGTCACA
* * * *
35737910 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAA-G-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGGATATGGTCACA
* * *
35737960 TGTGTAGTACTACGTGAAGGCTACTACGTGTATCGAA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
35737997 TGATAATAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.03
50 38 0.32
51 72 0.61
52 6 0.05
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGGTCACA
Found at i:35752597 original size:80 final size:79
Alignment explanation
Indices: 35752496--35752720 Score: 276
Period size: 80 Copynumber: 2.8 Consensus size: 79
35752486 GCTCCTCGTT
* * *
35752496 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35752561 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
35752576 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
35752640 AATTAGTATCTTGCA
65 AATTAGTAACTCGCA
* * * *
35752655 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
35752718 GGA
63 GGA
35752721 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.02
79 55 0.44
80 68 0.54
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:35752680 original size:119 final size:120
Alignment explanation
Indices: 35752496--35752720 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
35752486 GCTCCTCGTT
* *
35752496 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
35752561 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
35752616 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
35752678 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
35752721 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35752720 original size:40 final size:40
Alignment explanation
Indices: 35752496--35752720 Score: 243
Period size: 40 Copynumber: 5.7 Consensus size: 40
35752486 GCTCCTCGTT
* * *
35752496 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
35752536 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
35752576 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
35752616 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA-CTTCGCA
* * *
35752655 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
35752696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35752721 CATCATTCAA
Statistics
Matches: 164, Mismatches: 10, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:35760594 original size:40 final size:39
Alignment explanation
Indices: 35760550--35760773 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 39
35760540 GCTCCTCGTT
*
35760550 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
35760590 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
35760630 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* *
35760670 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * *
35760709 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCA
35760750 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
35760774 ACATCATTCA
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 36 0.22
40 113 0.69
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:35760651 original size:80 final size:79
Alignment explanation
Indices: 35760550--35760774 Score: 294
Period size: 80 Copynumber: 2.8 Consensus size: 79
35760540 GCTCCTCGTT
* *
35760550 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35760615 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
35760630 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35760694 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
35760709 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
35760772 GGA
63 GGA
35760775 CATCATTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 3 0.02
79 56 0.44
80 69 0.54
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:35760734 original size:119 final size:120
Alignment explanation
Indices: 35760550--35760774 Score: 314
Period size: 119 Copynumber: 1.9 Consensus size: 120
35760540 GCTCCTCGTT
*
35760550 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
35760615 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
35760670 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
35760732 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
35760775 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.04
119 67 0.72
120 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35765693 original size:28 final size:28
Alignment explanation
Indices: 35765627--35765693 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
35765617 CTTTGACAGT
*
35765627 AACAGTAT-AGTGTGGGCCTTAGCCCAA
1 AACAGTATCAGTGTGGGCCTAAGCCCAA
* * * *
35765654 AATAGAAACAGTGTGGGCCTAAGCCCGA
1 AACAGTATCAGTGTGGGCCTAAGCCCAA
*
35765682 TACAGTATCAGT
1 AACAGTATCAGT
35765694 ATGGTGCAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (28 bp):
AACAGTATCAGTGTGGGCCTAAGCCCAA
Found at i:35765949 original size:32 final size:32
Alignment explanation
Indices: 35765905--35766220 Score: 389
Period size: 32 Copynumber: 9.9 Consensus size: 32
35765895 GTCACAACAA
* * * *
35765905 TAATATGTTTGGCACAAAGCCATCAGTAGCAG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
35765937 TGATATGATTGGCACACAGTCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
35765969 TAATATGATCGGTACAAAGCTATCAGTAATGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* *
35766001 TAAAATGATTGGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
*
35766033 TAATATGATCGGCACAAAGCCATTAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
*
35766065 TAATATGATCAGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
35766097 TAATATGATTGGCACAAAGCTATCAATAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
35766129 TAATATGACCAGTACAAAGCCATCAGTAATGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* *
35766161 TAATATGATCGACACAAAGCCATCAATAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
**
35766193 TAATATGATCGAAACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
35766221 GTATCGCAAC
Statistics
Matches: 240, Mismatches: 44, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 240 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGG
Found at i:35766331 original size:27 final size:27
Alignment explanation
Indices: 35766292--35766605 Score: 391
Period size: 27 Copynumber: 11.7 Consensus size: 27
35766282 CCTCGAGGGT
* *
35766292 ATTATGGTTATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
35766319 ATTACGGTCATTTGACCCTACAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
** *
35766346 ATTACTATCATTTTACCATACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
35766373 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
35766400 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
35766427 ATTATGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
35766454 ATTAC-GACATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
35766480 ATTACGGTCATTTAAACCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
35766507 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
35766534 ATTACGGTCATTTTACCCTACAGGGAC
1 ATTACGGTCATTTTACCCTACAGGGGC
*
35766561 ATTA-GGTTCATTTTACCCTACAGGGGTA
1 ATTACGG-TCATTTTACCCTACAGGGG-C
*
35766589 ATT-CGGTAATTTTACCC
1 ATTACGGTCATTTTACCC
35766606 ATCGAGGGTA
Statistics
Matches: 243, Mismatches: 40, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
26 25 0.10
27 213 0.88
28 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGC
Found at i:35766645 original size:27 final size:27
Alignment explanation
Indices: 35766584--35766636 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
35766574 TACCCTACAG
* *
35766584 GGGTAATTCGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
35766611 GGGTATTTCGATAATTTTACCCATCG
1 GGGTATTTCGATAATTTTACCCATCG
35766637 GGTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:35766652 original size:27 final size:26
Alignment explanation
Indices: 35766594--35766681 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
35766584 GGGTAATTCG
*
35766594 GTAATTTTACCCATCGAGGGTA-TTTC
1 GTAATTTTACCCATCG-GGGTATTTTA
*
35766620 GATAATTTTACCCATCGGGTTTATTTTA
1 G-TAATTTTACCCATCGGG-GTATTTTA
* *
35766648 GTAATTTTACCAATCAGGGGTATTTTG
1 GTAATTTTACCCATC-GGGGTATTTTA
35766675 GTAATTT
1 GTAATTT
35766682 AACAACTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 3 0.06
27 43 0.81
28 7 0.13
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (26 bp):
GTAATTTTACCCATCGGGGTATTTTA
Found at i:35769807 original size:22 final size:21
Alignment explanation
Indices: 35769753--35769817 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
35769743 TGCCAGTAGT
35769753 CAGAATGGCTAAGAGCCATAAA
1 CAGAATGGCTAA-AGCCATAAA
* * * *
35769775 GAGGATAGCTATAAGCTATAAA
1 CAGAATGGCTA-AAGCCATAAA
35769797 CAGAATGGCTACAAGCCATAA
1 CAGAATGGCTA-AAGCCATAA
35769818 GTATAGTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:35769877 original size:32 final size:32
Alignment explanation
Indices: 35769834--35770075 Score: 286
Period size: 32 Copynumber: 7.6 Consensus size: 32
35769824 TAATATTTTT
* * *
35769834 GGCACAAAGCCATCAGTAGCAGTGATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
35769866 GGCACACAGCCATCAGTAATGATAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
35769898 GGTACAAAGCCATCAGTAATGGTAATATGATT
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
35769930 GGCACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* *
35769962 GACACAAAGCCATCAGTAACGGTAATATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * * *
35769994 GGTACAAAGCCATCAATAACGGCAATATAATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * * * * *
35770026 GGTACAAAGCCATAAATAACGATAATATAACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
35770058 GGCACAAGGCCATCAGTA
1 GGCACAAAGCCATCAGTA
35770076 GCGTCGCACC
Statistics
Matches: 181, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 181 1.00
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAACGGTAATATGATC
Found at i:35770268 original size:24 final size:23
Alignment explanation
Indices: 35770226--35770300 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
35770216 TCAGAATTAG
* * *
35770226 TCATCCAAATCACAAACAAATCAG
1 TCATCTAAA-CACAGACAAATCAA
* *
35770250 TCATACTAAACATAGACAAATCAT
1 TCAT-CTAAACACAGACAAATCAA
* *
35770274 TCATTTAACCACAGACAAATCAA
1 TCATCTAAACACAGACAAATCAA
35770297 TCAT
1 TCAT
35770301 TTGACCTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 19 0.45
24 19 0.45
25 4 0.10
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (23 bp):
TCATCTAAACACAGACAAATCAA
Found at i:35770293 original size:23 final size:23
Alignment explanation
Indices: 35770236--35770302 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
35770226 TCATCCAAAT
* * *
35770236 CACAAACAAATCAGTCATACTAAA
1 CACAGACAAATCAATCAT-TTAAA
* * *
35770260 CATAGACAAATCATTCATTTAAC
1 CACAGACAAATCAATCATTTAAA
35770283 CACAGACAAATCAATCATTT
1 CACAGACAAATCAATCATTT
35770303 GACCTCAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (23 bp):
CACAGACAAATCAATCATTTAAA
Found at i:35770347 original size:27 final size:27
Alignment explanation
Indices: 35770315--35770738 Score: 497
Period size: 27 Copynumber: 15.7 Consensus size: 27
35770305 CCTCAAGGGT
35770315 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
*
35770342 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
35770369 ATTACGATCAGTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * * *
35770396 ATTACGATCATTTTACGCTACAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
35770423 ATTACGGTCATTTTATCCTATTGGGGGC
1 ATTACGGTCATTTTACCCTA-TAGGGGC
* *
35770451 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
*
35770478 ATTACGATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
35770505 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
35770532 ATTACAGTTATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
35770559 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
35770586 ATTACGATCATTTTACCCTAGAGGGAC
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
35770613 ATTACGGTCATTTTACCCTACATGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * *
35770640 TTTACGATCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * *
35770667 ATTATGGTCATTTTACCCTACATGGAC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
35770694 ATTACGGTCATTTTACCCTAAAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
**
35770721 ATTTTGGTCATTTTACCC
1 ATTACGGTCATTTTACCC
35770739 ATCGGGGGTA
Statistics
Matches: 335, Mismatches: 61, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 314 0.94
28 21 0.06
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGC
Found at i:35770384 original size:54 final size:54
Alignment explanation
Indices: 35770311--35770738 Score: 563
Period size: 54 Copynumber: 7.9 Consensus size: 54
35770301 TTGACCTCAA
* *
35770311 GGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAG
1 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
* * * *
35770365 GGGTATTACGATCAGTTTACCCTATAGGGGCATTACGATCATTTTACGCTACAA
1 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
* * * * *
35770419 GGGTATTACGGTCATTTTATCCTATTGGGGGCATTACGATCATTTTACCCTATAG
1 GGGTATTACGATCATTTTACCCTA-TAGGGGCATTACGGTCATTTTACCCTACAG
*
35770474 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAG
1 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
*
35770528 GGGTATTAC-AGTTATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
1 GGGTATTACGA-TCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
* *
35770582 GGGTATTACGATCATTTTACCCTAGAGGGACATTACGGTCATTTTACCCTACATG
1 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACA-G
* * * * *
35770637 GGCT-TTACGATCATTTTACCTTATAGGGGTATTATGGTCATTTTACCCTACAT
1 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
** * * * * **
35770690 GGACATTACGGTCATTTTACCCTAAAAGGGTATTTTGGTCATTTTACCC
1 GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCC
35770739 ATCGGGGGTA
Statistics
Matches: 333, Mismatches: 36, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
53 3 0.01
54 277 0.83
55 53 0.16
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GGGTATTACGATCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG
Found at i:35770747 original size:27 final size:27
Alignment explanation
Indices: 35770717--35770778 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
35770707 TACCCTAAAA
* *
35770717 GGGTATTTTGGTCATTTTACCCATCGG
1 GGGTATTTTGGTAATTTTACCCATCAG
*
35770744 GGGTATTTTGGTAATTTTATCCATCAG
1 GGGTATTTTGGTAATTTTACCCATCAG
35770771 GGGTATTT
1 GGGTATTT
35770779 CAGTAAAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACCCATCAG
Found at i:35770784 original size:27 final size:27
Alignment explanation
Indices: 35770730--35770784 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35770720 TATTTTGGTC
* **
35770730 ATTTTACCCATCGGGGGTATTTTGGTA
1 ATTTTACCCATCAGGGGTATTTCAGTA
*
35770757 ATTTTATCCATCAGGGGTATTTCAGTA
1 ATTTTACCCATCAGGGGTATTTCAGTA
35770784 A
1 A
35770785 AAGGTCTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTACCCATCAGGGGTATTTCAGTA
Found at i:35774733 original size:15 final size:17
Alignment explanation
Indices: 35774707--35774738 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35774697 GTATTATTGA
35774707 ATAAATTTATA-TGTTT
1 ATAAATTTATATTGTTT
35774723 ATAAA-TTATATTGTTT
1 ATAAATTTATATTGTTT
35774739 TCTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATAAATTTATATTGTTT
Found at i:35775063 original size:20 final size:20
Alignment explanation
Indices: 35775040--35775087 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
35775030 TTGCACTCCA
35775040 GTGCCT-TTGTCTACACTTCG
1 GTGCCTCTT-TCTACACTTCG
* *
35775060 GTGCCTCTTTCTGCACTTTG
1 GTGCCTCTTTCTACACTTCG
35775080 GTGCCTCT
1 GTGCCTCT
35775088 GTTATGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.06, C:0.31, G:0.21, T:0.42
Consensus pattern (20 bp):
GTGCCTCTTTCTACACTTCG
Found at i:35777665 original size:20 final size:20
Alignment explanation
Indices: 35777642--35777688 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
35777632 GGGTTAAGAT
*
35777642 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
35777662 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
35777682 TGAGCTG
1 TGAGCTG
35777689 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:35780541 original size:23 final size:24
Alignment explanation
Indices: 35780511--35780565 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
35780501 TTAACTTGAT
*
35780511 TTTTTTTTGCTC-ACTTTTTTT-TC
1 TTTTTTTTGCTCGA-TTTTTTTCAC
35780534 TTTTTTTTGCTCGATTTTTTTCAC
1 TTTTTTTTGCTCGATTTTTTTCAC
35780558 TTTTTTTT
1 TTTTTTTT
35780566 TGAATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTTTTGCTCGATTTTTTTCAC
Found at i:35780573 original size:11 final size:11
Alignment explanation
Indices: 35780559--35780583 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35780549 TTTTTTCACT
35780559 TTTTTTTTGAA
1 TTTTTTTTGAA
35780570 TTTTTTTTGAA
1 TTTTTTTTGAA
35780581 TTT
1 TTT
35780584 CGATTTTTTT
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:35790989 original size:14 final size:14
Alignment explanation
Indices: 35790970--35791001 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
35790960 AAATACGCAT
35790970 TTTATTGATCCTTA
1 TTTATTGATCCTTA
35790984 TTTATTGATCCTTA
1 TTTATTGATCCTTA
35790998 TTTA
1 TTTA
35791002 CTAAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTATTGATCCTTA
Found at i:35791468 original size:39 final size:39
Alignment explanation
Indices: 35791425--35791502 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
35791415 AAGAAAGGAA
35791425 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
1 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
35791464 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
1 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
35791503 TGACTGACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (39 bp):
AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
Found at i:35795861 original size:69 final size:67
Alignment explanation
Indices: 35795777--35796027 Score: 279
Period size: 69 Copynumber: 3.7 Consensus size: 67
35795767 ATAGTTGGAC
* ** *
35795777 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGCCTATTTTA
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGCC-ATTTTA
35795842 GTAT
65 G-AT
* * * *
35795846 ATTGTCATGTCATTTTGGTGGTATAAAATATGTGTTTCAATTGAAGTTTAATGTTATCCATTTTG
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTT-GCCATTTT-
*
35795911 GGAT
64 AGAT
** * * *
35795915 ATTATCATGTCATTCCGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTG-CCATTTT-
*
35795980 AGAC
64 AGAT
* *
35795984 ATTACCATGTCATTTT-AGTGGTATAAAATACATGTTTCAATTGA
1 ATTATCATGTCATTTTGA-TGGTATAAAATATATGTTTCAATTGA
35796028 GGTAGCAATG
Statistics
Matches: 152, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
69 149 0.98
70 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (67 bp):
ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGCCATTTTAG
AT
Found at i:35799541 original size:26 final size:26
Alignment explanation
Indices: 35799512--35799580 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
35799502 CATTCTGACC
*
35799512 CACAGCTCATGTGAGTAGACCAATTT
1 CACAGCTCATGTGAGCAGACCAATTT
* * * *
35799538 CACAACTCGTGTGAGCAGGCCCATTT
1 CACAGCTCATGTGAGCAGACCAATTT
*
35799564 CATAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
35799581 ACGATGTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGACCAATTT
Found at i:35803568 original size:25 final size:25
Alignment explanation
Indices: 35803526--35803596 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
35803516 ACAGCTCGTG
* *
35803526 AGAGCA-AACAATTTATAGCTTATA
1 AGAGCATACCAATTTATAGCTCATA
*
35803550 AGAGCATACCAATTTATAGCTCATG
1 AGAGCATACCAATTTATAGCTCATA
**
35803575 AGAGCATACTGATTTATAGCTC
1 AGAGCATACCAATTTATAGCTC
35803597 GAGTGAGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.15
25 35 0.85
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (25 bp):
AGAGCATACCAATTTATAGCTCATA
Found at i:35803604 original size:25 final size:25
Alignment explanation
Indices: 35803551--35803658 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
35803541 TAGCTTATAA
* *
35803551 GAGCATACCAATTTATAGCTC-ATGA
1 GAGCATACCGATTTATAGCTCGA-GT
*
35803576 GAGCATACTGATTTATAGCTCGAGT
1 GAGCATACCGATTTATAGCTCGAGT
* * *
35803601 GAGCATATCGATCTACAGCTCGAGT
1 GAGCATACCGATTTATAGCTCGAGT
* *
35803626 GAGCATACCGACTCATAGCTCGTA-T
1 GAGCATACCGATTTATAGCTCG-AGT
35803651 GAGCATAC
1 GAGCATAC
35803659 ATGTACATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 67 0.97
26 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
GAGCATACCGATTTATAGCTCGAGT
Found at i:35817007 original size:50 final size:50
Alignment explanation
Indices: 35816908--35817146 Score: 237
Period size: 50 Copynumber: 4.7 Consensus size: 50
35816898 AAAGAGATCT
35816908 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA-G--ATGAGAGGTCC
* * *
35816964 CATGTAAGACCATGTCTGTGAGATGGCATTAGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
** * * * **
35817014 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
* * * * * * **
35817064 CATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
* *
35817113 CATGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
35817147 TGTTATTATC
Statistics
Matches: 154, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.25
50 80 0.52
52 1 0.01
53 3 0.02
55 1 0.01
56 31 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
Found at i:35824552 original size:39 final size:39
Alignment explanation
Indices: 35824508--35824610 Score: 109
Period size: 39 Copynumber: 2.7 Consensus size: 39
35824498 ACCTAACATA
* * * * *
35824508 CAAGCATATATCACCATACTCATATAATCTCATAGCGTT
1 CAAGCATATATCACAATACTCATAAAATCACATAACCTT
* * * *
35824547 TAAGCATATGTCATAATACTCGTAAAATCACATAACCTT
1 CAAGCATATATCACAATACTCATAAAATCACATAACCTT
*
35824586 CAAGCATATACCACAATACTC-TAAA
1 CAAGCATATATCACAATACTCATAAA
35824611 GCATCTTTAT
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
38 4 0.08
39 47 0.92
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (39 bp):
CAAGCATATATCACAATACTCATAAAATCACATAACCTT
Found at i:35835832 original size:38 final size:39
Alignment explanation
Indices: 35835788--35835891 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 39
35835778 CTCTATAAGT
* *
35835788 TGAGCATTAGCGGTGTTTTTTGAAAA-CACCGCTATAGA
1 TGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
** **
35835826 TGAGCATTAGCGGCACTTTTTGAAAAGCGTCACTATAGA
1 TGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
*
35835865 TCGAGCATTAGCGGCGTTTTTTAAAAA
1 T-GAGCATTAGCGGCGTTTTTTGAAAA
35835892 AACGCCGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 23 0.42
39 10 0.18
40 22 0.40
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (39 bp):
TGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
Found at i:35839775 original size:43 final size:43
Alignment explanation
Indices: 35839722--35839932 Score: 210
Period size: 43 Copynumber: 4.9 Consensus size: 43
35839712 GTTTGTTCAT
* * * *
35839722 AAACGTCGCTAAAGAACGGTACT-TTTAGCGGTGTTTGTGATAA
1 AAACGCCGCTAAAGATC-ATACTCTTTAGCGGCGTTTGTGATAA
**
35839765 AAACGCCGCTAAAGATCATTTTCTTTAGCGGCGTTTGTGATAA
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
* * * *
35839808 AAGCGCCGCTAAAGATCATGCTCTTTAGCGACGTTTCTGATAA
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
* * ** *
35839851 AAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT-A
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGT-GATAA
* * * **
35839894 AAGCGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTG
35839933 GGTAAAGTGC
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.02
43 140 0.97
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
Found at i:35839933 original size:43 final size:43
Alignment explanation
Indices: 35839745--35839972 Score: 273
Period size: 43 Copynumber: 5.3 Consensus size: 43
35839735 GAACGGTACT
* * * *
35839745 TTTAGCGGTGTTTGTGATAAAAACGCCGCTAAAGATCATTTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
35839788 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
35839831 TTTAGCGACGTTTCTGATAAAAACGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
35839874 TTTAGCGGCGTTTGTGGGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
35839917 TTTAGCGGCGTTTGTGGGT-AAAGTGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
35839960 TATT-GCGGCGTTT
1 T-TTAGCGGCGTTT
35839973 TTCACATAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 160 0.98
44 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:35846707 original size:282 final size:280
Alignment explanation
Indices: 35846168--35846722 Score: 1038
Period size: 282 Copynumber: 2.0 Consensus size: 280
35846158 GTAGGCTTTG
35846168 CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
1 CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
35846233 ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATAT
66 ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATAT
35846298 AGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAAAC
131 AGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAAAC
*
35846363 ACCACTTGTTTTATAAGATTACTAGCATTTCCTTAGAAGAATCATCGAGCACCTGCAGCCCCTCT
196 ACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTGCAGCCCCTCT
35846428 TTCTTGTTCAAGAATTACAT
261 TTCTTGTTCAAGAATTACAT
*
35846448 CTGCAACAAAAGGGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
1 CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
* *
35846513 ATGCATAGATACCTGTTGGTAATCATCCTTTATCTGATTTAGTTTAATCCAGCAAATTTTGATAG
66 ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATA-
* *
35846578 GTAGAGGGATTACTGATCACATCTGCAATTACAGTTAGTATTACATTATATTAAACTAAGCAAAA
130 -TAGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAA
35846643 ACACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTGCAGCCCCT
194 ACACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTGCAGCCCCT
35846708 CTTTCTTGTTCAAGA
259 CTTTCTTGTTCAAGA
35846723 CCATTTTAGT
Statistics
Matches: 267, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
280 126 0.47
282 141 0.53
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (280 bp):
CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATAT
AGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAAAC
ACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTGCAGCCCCTCT
TTCTTGTTCAAGAATTACAT
Found at i:35850686 original size:7 final size:7
Alignment explanation
Indices: 35850674--35850726 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
35850664 ATTTCTTGTC
35850674 ATTTTAA
1 ATTTTAA
35850681 ATTTTAA
1 ATTTTAA
**
35850688 ATTTTTT
1 ATTTTAA
* *
35850695 GTGTTATA
1 ATTTTA-A
35850703 ATTTTAA
1 ATTTTAA
35850710 ATTTTAA
1 ATTTTAA
35850717 ATTTTAA
1 ATTTTAA
35850724 ATT
1 ATT
35850727 ATAGTTTGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 33 0.89
8 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:35850735 original size:39 final size:36
Alignment explanation
Indices: 35850674--35850753 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 36
35850664 ATTTCTTGTC
35850674 ATTTTAAATTTTAAATTTTTTGTGTTATAATTTTAA
1 ATTTTAAATTTTAAATTTTTTGTGTTATAATTTTAA
35850710 ATTTTAAATTTTAAATTATAGTTTGTGTTATAATTTTAA
1 ATTTTAAATTTTAAATT-T--TTTGTGTTATAATTTTAA
*
35850749 TTTTT
1 ATTTT
35850754 TTGTGGTATG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
36 17 0.43
37 1 0.03
39 22 0.55
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (36 bp):
ATTTTAAATTTTAAATTTTTTGTGTTATAATTTTAA
Found at i:35852338 original size:120 final size:120
Alignment explanation
Indices: 35852213--35852750 Score: 986
Period size: 120 Copynumber: 4.5 Consensus size: 120
35852203 AATTATTTTA
* * *
35852213 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
35852278 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
35852333 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
35852398 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35852453 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
35852518 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
35852573 AATTTTATTAAATTATATGTTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
35852638 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
35852693 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATATTTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
35852751 ATGATTAAAT
Statistics
Matches: 410, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
120 404 0.99
121 6 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35852488 original size:16 final size:16
Alignment explanation
Indices: 35852467--35852513 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
35852457 TTATTAAATT
35852467 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
35852483 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
35852498 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
35852514 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:35852987 original size:16 final size:16
Alignment explanation
Indices: 35852962--35852999 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
35852952 TTGATTTGCT
35852962 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
35852978 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
35852994 ATTACA
1 ATTACA
35853000 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:35863300 original size:13 final size:15
Alignment explanation
Indices: 35863278--35863309 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35863268 TATCCTATTT
35863278 TATTATTAATTAAC-
1 TATTATTAATTAACA
35863292 TATTA-TAATTAACA
1 TATTATTAATTAACA
35863306 TATT
1 TATT
35863310 TCCATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:35877846 original size:61 final size:61
Alignment explanation
Indices: 35877751--35877871 Score: 242
Period size: 61 Copynumber: 2.0 Consensus size: 61
35877741 TAGATACTGT
35877751 GAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATATC
1 GAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATATC
35877812 GAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
1 GAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
35877872 AGGATTGATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.23
Consensus pattern (61 bp):
GAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATATC
Found at i:35884761 original size:2 final size:2
Alignment explanation
Indices: 35884722--35884746 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35884712 ATAGGACAAA
35884722 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 T
35884747 TTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:35887612 original size:21 final size:22
Alignment explanation
Indices: 35887571--35887612 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35887561 CAACGTTTAA
* *
35887571 TGTCGTGACATGGAGTGGTTGT
1 TGTCGCGACATCGAGTGGTTGT
35887593 TGTCGCGACATCGA-TGGTTG
1 TGTCGCGACATCGAGTGGTTG
35887613 AATGTTCCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.33
Consensus pattern (22 bp):
TGTCGCGACATCGAGTGGTTGT
Found at i:35887709 original size:71 final size:70
Alignment explanation
Indices: 35887541--35887717 Score: 178
Period size: 71 Copynumber: 2.5 Consensus size: 70
35887531 ATTGAACACC
* ** * * * * *
35887541 GAATGCTTCCCCTCTTGGTTCAACGTTTAATGTCGTGACATGGAGTGGTTGTTGTCGCGACATCG
1 GAATG-TTCCCCTCTTGGTTCAAAGTTGGATGTCATGACATAGAGTAGTGGTTGTCGCGACATCA
*
35887606 ATGGTT
65 ACGGTT
* * *
35887612 GAATGTTCCCCTTTTAGGTTCGAAGTTGGATGTCATGACATAGAGTAGTGGTTGTTGCGACATCA
1 GAATGTTCCCCTCTT-GGTTCAAAGTTGGATGTCATGACATAGAGTAGTGGTTGTCGCGACATCA
35887677 ACGGTT
65 ACGGTT
*
35887683 -ATTTGTTTCCCCTCTTGGTTCAAAGTTAGG-TGTCA
1 GA-ATG-TTCCCCTCTTGGTTCAAAGTT-GGATGTCA
35887718 CAAAATTCCC
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
70 10 0.11
71 66 0.76
72 11 0.13
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (70 bp):
GAATGTTCCCCTCTTGGTTCAAAGTTGGATGTCATGACATAGAGTAGTGGTTGTCGCGACATCAA
CGGTT
Found at i:35891295 original size:59 final size:61
Alignment explanation
Indices: 35891224--35891340 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
35891214 ATCACTTTGA
* * * * *
35891224 TATTAAATTAATATAATATTTA-T-CAGGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
* *
35891283 TATTAAAATAATAGAATCTTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
35891341 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:35892938 original size:16 final size:16
Alignment explanation
Indices: 35892917--35892947 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35892907 CTATGCATAC
*
35892917 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
35892933 AAAATACAAAAGACA
1 AAAATACAAAAGACA
35892948 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:35895397 original size:35 final size:35
Alignment explanation
Indices: 35895332--35895427 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 35
35895322 ATGTATATCG
* * **
35895332 TTTACATGGTGTCGCCCTG-AAGAGGTTATATACTA
1 TTTACATGGTGTCACTCTGAAAGA-CCTATATACTA
* * *
35895367 TTTACA-GAGTGTCACTCTGAAGGACCTATATATTG
1 TTTACATG-GTGTCACTCTGAAAGACCTATATACTA
*
35895402 TTTACATGGTGTCCCTCTGAAAGACC
1 TTTACATGGTGTCACTCTGAAAGACC
35895428 AATAGATAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
34 1 0.02
35 44 0.90
36 4 0.08
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (35 bp):
TTTACATGGTGTCACTCTGAAAGACCTATATACTA
Found at i:35898871 original size:22 final size:24
Alignment explanation
Indices: 35898838--35898884 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
35898828 TACTTGTATT
*
35898838 TCTATTTTATTTTTTTCA-TTATA
1 TCTATTTTATTTTTATCATTTATA
35898861 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTTATCATTTATA
35898884 T
1 T
35898885 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTATTTTATTTTTATCATTTATA
Found at i:35902539 original size:34 final size:34
Alignment explanation
Indices: 35902468--35902547 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
35902458 ATGCCATTAG
*
35902468 CCATCCAGCACACCATAAGCTCGTATGATCCAAT
1 CCATCCAGCACACCATAAGCTCGTATAATCCAAT
* * *
35902502 CCATCTAGCACACCATATGCTCGTATAAGT-CAGT
1 CCATCCAGCACACCATAAGCTCGTATAA-TCCAAT
35902536 CCATCCAGCACA
1 CCATCCAGCACA
35902548 TTGTATCCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.21
Consensus pattern (34 bp):
CCATCCAGCACACCATAAGCTCGTATAATCCAAT
Found at i:35903348 original size:29 final size:29
Alignment explanation
Indices: 35903314--35903370 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
35903304 AGCTAATACC
35903314 AATCCAAAAACATAAAAATTACTAAAAAG
1 AATCCAAAAACATAAAAATTACTAAAAAG
35903343 AATCCAAAAACATAAAAATTACTAAAAA
1 AATCCAAAAACATAAAAATTACTAAAAA
35903371 TGGGGCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.18
Consensus pattern (29 bp):
AATCCAAAAACATAAAAATTACTAAAAAG
Found at i:35910836 original size:26 final size:26
Alignment explanation
Indices: 35910792--35910893 Score: 132
Period size: 26 Copynumber: 3.9 Consensus size: 26
35910782 AAGTATACTG
*
35910792 TACTGACAGCTTTGCTGCGATATTGT
1 TACTGGCAGCTTTGCTGCGATATTGT
* *
35910818 TACCGGCAGCTTTGTTGCGATATTGT
1 TACTGGCAGCTTTGCTGCGATATTGT
* * **
35910844 TACTGACAGCTTTGCTGCGATACTAC
1 TACTGGCAGCTTTGCTGCGATATTGT
*
35910870 TACTGGTAGCTTTGCTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
35910894 AGTTTGTTAG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTGT
Found at i:35910849 original size:52 final size:52
Alignment explanation
Indices: 35910792--35910893 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
35910782 AAGTATACTG
* ** *
35910792 TACTGACAGCTTTGCTGCGATATTGTTACCGGCAGCTTTGTTGCGATATTGT
1 TACTGACAGCTTTGCTGCGATACTACTACCGGCAGCTTTGCTGCGATATTGT
* *
35910844 TACTGACAGCTTTGCTGCGATACTACTACTGGTAGCTTTGCTGCGATATT
1 TACTGACAGCTTTGCTGCGATACTACTACCGGCAGCTTTGCTGCGATATT
35910894 AGTTTGTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (52 bp):
TACTGACAGCTTTGCTGCGATACTACTACCGGCAGCTTTGCTGCGATATTGT
Found at i:35911029 original size:27 final size:27
Alignment explanation
Indices: 35910994--35911058 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35910984 ATTGCACTGT
*
35910994 ACTGATACTGTATTAGGCTAAGGCCCAC
1 ACTG-TACTGTATTAGGCTAAGACCCAC
* *
35911022 A-TGTTACTGTATTGGGTTAAGACCCAC
1 ACTG-TACTGTATTAGGCTAAGACCCAC
35911049 ACTGTACTGT
1 ACTGTACTGT
35911059 TATTGAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
ACTGTACTGTATTAGGCTAAGACCCAC
Found at i:35911754 original size:27 final size:28
Alignment explanation
Indices: 35911724--35911787 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
35911714 CTATATAGTA
35911724 ACAGTAT-AATATGGGCCTTAGCCCAAT
1 ACAGTATCAATATGGGCCTTAGCCCAAT
* * *
35911751 ACAGTATCAGTGTGGGCTTTAGCCCAAT
1 ACAGTATCAATATGGGCCTTAGCCCAAT
35911779 ACAGTATCA
1 ACAGTATCA
35911788 GTACAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (28 bp):
ACAGTATCAATATGGGCCTTAGCCCAAT
Found at i:35911772 original size:28 final size:28
Alignment explanation
Indices: 35911735--35911789 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
35911725 CAGTATAATA
35911735 TGGGCCTTAGCCCAATACAGTATCAGTG
1 TGGGCCTTAGCCCAATACAGTATCAGTG
*
35911763 TGGGCTTTAGCCCAATACAGTATCAGT
1 TGGGCCTTAGCCCAATACAGTATCAGT
35911790 ACAATGCAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTATCAGTG
Found at i:35911921 original size:26 final size:26
Alignment explanation
Indices: 35911892--35911971 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
35911882 AACACACCAA
* *
35911892 TATCGTAGCAAATCTGCTAGTAATAG
1 TATCGCAGCAAAGCTGCTAGTAATAG
* *
35911918 TATCGCAGCAGAGCTG-TCAGTAACAG
1 TATCGCAGCAAAGCTGCT-AGTAATAG
* * *
35911944 TATCACAGCAAAGCTGCCAGTATTAG
1 TATCGCAGCAAAGCTGCTAGTAATAG
35911970 TA
1 TA
35911972 CAGTATACTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCTAGTAATAG
Found at i:35912162 original size:27 final size:27
Alignment explanation
Indices: 35912140--35912508 Score: 385
Period size: 27 Copynumber: 13.7 Consensus size: 27
35912130 TCTACCTTAT
*
35912140 GAGGGTATTTCAGTTATTTTACCCTAT-
1 GAGGGTATTTCAGTCATTTTACCCT-TC
* *
35912167 GCA-GGTATTTCAGTTATTTTGCCCTTC
1 G-AGGGTATTTCAGTCATTTTACCCTTC
* *
35912194 G-GGGTATTT-TGATCATTTTACCCTTA
1 GAGGGTATTTCAG-TCATTTTACCCTTC
**
35912220 GAGGGTATTTTGGTCATTTT-CCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
35912246 AAGGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
* *
35912273 GAGGGTATTTCAGTTATTTTACCCTTT
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
35912300 GAGGGTATTTCGGTCATTTTACCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
* *
35912327 GAAGGTATTTCAATCATTTTACCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
* *
35912354 GAGGATATTTAAGTCATTTTACCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
* ** *
35912381 GATGGTATTTTGGTCATTTTATCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
** * *
35912408 GAGGGTATTTTGGTTATTTTATCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
35912435 AAGGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
*
35912462 AAGGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
* *
35912489 AAGGGTATTTCGGTCATTTT
1 GAGGGTATTTCAGTCATTTT
35912509 CCCACGAATC
Statistics
Matches: 298, Mismatches: 33, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.01
26 42 0.14
27 250 0.84
28 4 0.01
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (27 bp):
GAGGGTATTTCAGTCATTTTACCCTTC
Found at i:35918981 original size:34 final size:34
Alignment explanation
Indices: 35918924--35919024 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
35918914 ATGAAACATG
* * * *
35918924 CAGTATTAGTCTGGGTCTAAGCCCAATACAATAA
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
35918958 CAGTATCAGTGTGGGCCTTAG-CC----CAAT-A
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
* * *
35918986 CAGTATCAGTGTGAGCCTTAGCCCAATACAGTAT
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
35919020 CAGTA
1 CAGTA
35919025 CAATGCAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
28 21 0.39
29 6 0.11
33 5 0.09
34 22 0.41
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
Found at i:35918993 original size:28 final size:28
Alignment explanation
Indices: 35918952--35919023 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
35918942 AAGCCCAATA
*
35918952 CAATAACAGTATCAGTGTGGGCCTTAGCC
1 CAAT-ACAGTATCAGTGTGAGCCTTAGCC
35918981 CAATACAGTATCAGTGTGAGCCTTAGCC
1 CAATACAGTATCAGTGTGAGCCTTAGCC
35919009 CAATACAGTATCAGT
1 CAATACAGTATCAGT
35919024 ACAATGCAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 38 0.90
29 4 0.10
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (28 bp):
CAATACAGTATCAGTGTGAGCCTTAGCC
Found at i:35919160 original size:26 final size:26
Alignment explanation
Indices: 35919131--35919199 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
35919121 ACCAATATCG
* * *
35919131 CAGCAAAGTTGCCAGTAATAGTACCA
1 CAGCAAAGCTGCCAGTAACAATACCA
*
35919157 CAGCAAAGCTGCCAGTAACAATATCA
1 CAGCAAAGCTGCCAGTAACAATACCA
35919183 CAGCAAAGCTGCCAGTA
1 CAGCAAAGCTGCCAGTA
35919200 TCAGTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATACCA
Found at i:35919428 original size:27 final size:27
Alignment explanation
Indices: 35919398--35919764 Score: 335
Period size: 27 Copynumber: 13.6 Consensus size: 27
35919388 ACCCTATGGA
* *
35919398 GGTATTTCAGTTATTTTACTCTTC-AGG
1 GGTATTTCGGTTATTTTACCCTTCGA-G
*** * *
35919425 GGTATTTTAATCATTTTACCCTTTGAG
1 GGTATTTCGGTTATTTTACCCTTCGAG
* * * *
35919452 GGTATTTTGGTCATTTTACCCTTCAAA
1 GGTATTTCGGTTATTTTACCCTTCGAG
* * *
35919479 GGTATTTCGGTTACTTTACCTTTCGGG
1 GGTATTTCGGTTATTTTACCCTTCGAG
*
35919506 GGTATTTC-ATTCATTTTACCCTTCGAG
1 GGTATTTCGGTT-ATTTTACCCTTCGAG
* *
35919533 GGTATTTC-ATTCATTTTACCTTTCGAG
1 GGTATTTCGGTT-ATTTTACCCTTCGAG
*
35919560 GGTATTTCGGTTATTTTACCCTTCGAA
1 GGTATTTCGGTTATTTTACCCTTCGAG
* * *
35919587 GGTATTTTGATCATTTTACCCTTCGAG
1 GGTATTTCGGTTATTTTACCCTTCGAG
** *
35919614 GGTATTTAAGTTATTTTACCCTTTGAG
1 GGTATTTCGGTTATTTTACCCTTCGAG
* ** ** *
35919641 GGTATTTCGGTCAAATTATTCTTCAAG
1 GGTATTTCGGTTATTTTACCCTTCGAG
*
35919668 GGTATTTCGGTTATTTTATCCTTCGAG
1 GGTATTTCGGTTATTTTACCCTTCGAG
* * * *
35919695 GGTATTTCGGTCATTTTAACCTTCAAT
1 GGTATTTCGGTTATTTTACCCTTCGAG
* * *
35919722 GGTATCTCGGTCATTTTACCTTTCGAG
1 GGTATTTCGGTTATTTTACCCTTCGAG
*
35919749 GGTATTTCGGTCATTT
1 GGTATTTCGGTTATTT
35919765 GCCCATGAAT
Statistics
Matches: 279, Mismatches: 58, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
26 2 0.01
27 274 0.98
28 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.46
Consensus pattern (27 bp):
GGTATTTCGGTTATTTTACCCTTCGAG
Found at i:35924787 original size:21 final size:21
Alignment explanation
Indices: 35924763--35924803 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35924753 CTTGGCATGT
*
35924763 AAGTCTCAATACTTAACCTAC
1 AAGTCTCAAGACTTAACCTAC
**
35924784 AAGTCTTGAGACTTAACCTA
1 AAGTCTCAAGACTTAACCTA
35924804 TTTATTGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (21 bp):
AAGTCTCAAGACTTAACCTAC
Found at i:35927407 original size:39 final size:39
Alignment explanation
Indices: 35927347--35927474 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 39
35927337 TGAGCAATAC
* * * *
35927347 CTACTAAAATGTATGCGCTATCGTGTCATACCTACTAATT
1 CTACTAAAA-GTATGCTCTATCGAGCCATACCTACTGATT
35927387 CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGA-T
1 CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
* * *
35927425 CTACTGAAAGTATGCTCTATCGAGCCATATCTACTGGTT
1 CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
*
35927464 CTACTGAAAGT
1 CTACTAAAAGT
35927475 TGTTCAAATG
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 35 0.44
39 36 0.45
40 9 0.11
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (39 bp):
CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
Found at i:35936071 original size:89 final size:90
Alignment explanation
Indices: 35935927--35936103 Score: 329
Period size: 89 Copynumber: 2.0 Consensus size: 90
35935917 GATTGTTCCC
*
35935927 AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATGTATTACTTCGACCT
1 AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATCTATTACTTCGACCT
35935992 AAATTATTATGAAATTTTGTTAACT
66 AAATTATTATGAAATTTTGTTAACT
*
35936017 AAATTATTTTT-AAGGCCACGTAAGCTTGATTTAAGGCCCATAAATGAATCTATTACTTCGACCT
1 AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATCTATTACTTCGACCT
35936081 AAATTATTATGAAATTTTGTTAA
66 AAATTATTATGAAATTTTGTTAA
35936104 TTATATTGGC
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
89 74 0.87
90 11 0.13
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (90 bp):
AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATCTATTACTTCGACCT
AAATTATTATGAAATTTTGTTAACT
Found at i:35938502 original size:18 final size:17
Alignment explanation
Indices: 35938479--35938559 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 17
35938469 TTAAGGATTT
35938479 AAATCTAATTCAAACTTA
1 AAATCTAATT-AAACTTA
*
35938497 AAATCTAATTGAACTTAA
1 AAATCTAATTAAACTT-A
*
35938515 AAGATCTAAAATCTAAAGTTA
1 AA-ATCT--AAT-TAAACTTA
*
35938536 AAAT-T--TTAAACTTT
1 AAATCTAATTAAACTTA
35938550 AAATCTAATT
1 AAATCTAATT
35938560 GAAAGATCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
17 7 0.14
18 13 0.26
19 5 0.10
20 2 0.04
21 6 0.12
22 5 0.10
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (17 bp):
AAATCTAATTAAACTTA
Found at i:35941835 original size:17 final size:18
Alignment explanation
Indices: 35941803--35941836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35941793 TCTCAGATGA
*
35941803 GCTTTTCCATTAAAAAGT
1 GCTTTTCCACTAAAAAGT
35941821 GCTTTTCC-CTAAAAAG
1 GCTTTTCCACTAAAAAG
35941837 CAATAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (18 bp):
GCTTTTCCACTAAAAAGT
Found at i:35942126 original size:21 final size:19
Alignment explanation
Indices: 35942100--35942172 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
35942090 ATCTAATTAC
35942100 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TAT-TTT
*
35942121 AAATATTTAAATATATTTT
1 AAATATTTAATTATATTTT
* *
35942140 ATATATTATAATTAAATTTAAT
1 AAATATT-TAATTATATTT--T
*
35942162 AAATAATTAAT
1 AAATATTTAAT
35942173 ATTAATTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 12 0.28
21 16 0.37
22 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATATTTT
Found at i:35942415 original size:13 final size:13
Alignment explanation
Indices: 35942389--35942421 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35942379 CACTCAAATT
*
35942389 TTCT-AAAAGTAC
1 TTCTCAAAAGCAC
35942401 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
35942414 TTCTCAAA
1 TTCTCAAA
35942422 GTCACTTTTC
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:0.24, G:0.06, T:0.30
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:35942440 original size:13 final size:13
Alignment explanation
Indices: 35942424--35942457 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35942414 TTCTCAAAGT
*
35942424 CACTTTTCCATAG
1 CACTTTTCCACAG
35942437 CACTTTTCCACAG
1 CACTTTTCCACAG
*
35942450 CACATTTC
1 CACTTTTC
35942458 AAAAGTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (13 bp):
CACTTTTCCACAG
Found at i:35951620 original size:19 final size:19
Alignment explanation
Indices: 35951592--35951635 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
35951582 GCAAAATAAA
*
35951592 TTTTAAAAA-TATTAAAAT
1 TTTTAAAAATTATAAAAAT
35951610 TTTTGAAAAATTATAAAAAT
1 TTTT-AAAAATTATAAAAAT
35951630 TATTTA
1 T-TTTA
35951636 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 5 0.23
20 10 0.45
21 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATTATAAAAAT
Found at i:35953003 original size:20 final size:18
Alignment explanation
Indices: 35952957--35953005 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
35952947 GCAGCGAAAC
35952957 TTAAAAACAATTAAAAAAT
1 TTAAAAA-AATTAAAAAAT
*
35952976 TT-AAAAAATTCATAAAATT
1 TTAAAAAAATT-A-AAAAAT
35952995 TTAAAAAAATT
1 TTAAAAAAATT
35953006 GTTGGTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 9 0.35
20 8 0.31
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAAAATTAAAAAAT
Found at i:35953575 original size:29 final size:28
Alignment explanation
Indices: 35953543--35953600 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
35953533 TTCATTAAAA
35953543 ATATAAAAAAATCT-TTGAAAATTTTACAT
1 ATATAAAAAAAT-TATTGAAAATTTT-CAT
* *
35953572 ATATAATAAAATTATTTAAAATTTTCAT
1 ATATAAAAAAATTATTGAAAATTTTCAT
35953600 A
1 A
35953601 AAATTTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
ATATAAAAAAATTATTGAAAATTTTCAT
Found at i:35953622 original size:19 final size:19
Alignment explanation
Indices: 35953586--35953621 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35953576 AATAAAATTA
35953586 TTTAAAATTTTCATAAAAT
1 TTTAAAATTTTCATAAAAT
*
35953605 TTTAAGATTTTC-TAAAA
1 TTTAAAATTTTCATAAAA
35953622 ACCTAGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTAAAATTTTCATAAAAT
Found at i:35957002 original size:22 final size:21
Alignment explanation
Indices: 35956972--35957045 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
35956962 TTGTACAAGT
* *
35956972 TTAGTACTTTTGTCCTCTCTG
1 TTAGCACTTTTGTGCTCTCTG
** *
35956993 TTCAGCACTTCGGTGCTCTCTAC
1 TT-AGCACTTTTGTGCTCTCT-G
*
35957016 TTAGCACTCTTGTGCTCTCTG
1 TTAGCACTTTTGTGCTCTCTG
35957037 TTTAGCACT
1 -TTAGCACT
35957046 ACAATGCTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.05
22 37 0.90
23 2 0.05
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.43
Consensus pattern (21 bp):
TTAGCACTTTTGTGCTCTCTG
Found at i:35957054 original size:44 final size:44
Alignment explanation
Indices: 35956972--35957055 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
35956962 TTGTACAAGT
* * * **
35956972 TTAGTACTTTTGTCCTCTCTGTTCAGCACTTCGGTGCTCTCTAC
1 TTAGCACTCTTGTCCTCTCTGTTCAGCACTACAATGCTCTCTAC
* *
35957016 TTAGCACTCTTGTGCTCTCTGTTTAGCACTACAATGCTCT
1 TTAGCACTCTTGTCCTCTCTGTTCAGCACTACAATGCTCT
35957056 TTAGTGTGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.42
Consensus pattern (44 bp):
TTAGCACTCTTGTCCTCTCTGTTCAGCACTACAATGCTCTCTAC
Found at i:35957861 original size:30 final size:30
Alignment explanation
Indices: 35957827--35957893 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
35957817 TTTAGTTGCC
35957827 TGATTGGCCCGTTATACACGTGGCACAATA
1 TGATTGGCCCGTTATACACGTGGCACAATA
** * * *
35957857 TGATTGGCCTTTTATATACGTGGCATAATC
1 TGATTGGCCCGTTATACACGTGGCACAATA
35957887 TGATTGG
1 TGATTGG
35957894 TAGAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (30 bp):
TGATTGGCCCGTTATACACGTGGCACAATA
Found at i:35960759 original size:30 final size:31
Alignment explanation
Indices: 35960711--35960770 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
35960701 AAATCTTTTA
*
35960711 TTTTCGCCCAAAATTTTTACTC-CTTCCCAC
1 TTTTCGCCCAAAACTTTTACTCACTTCCCAC
* * *
35960741 TTTTCTCCTAAAACTTTTATTCACTTCCCA
1 TTTTCGCCCAAAACTTTTACTCACTTCCCA
35960771 TCCCACCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (31 bp):
TTTTCGCCCAAAACTTTTACTCACTTCCCAC
Found at i:35961532 original size:5 final size:5
Alignment explanation
Indices: 35961522--35961552 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
35961512 CTCGAAAATT
35961522 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
35961553 CGAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:35966483 original size:50 final size:50
Alignment explanation
Indices: 35966382--35966710 Score: 329
Period size: 50 Copynumber: 6.5 Consensus size: 50
35966372 GGGAATGAGA
* * * * **
35966382 TCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCA-C----CGA-TATGAGAAC
35966438 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * * * **
35966488 TTCCATATAAGACCA-GTCTGGGACTTGGCGTTGGCACCGAGATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
***
35966537 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * * **
35966587 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * *
35966637 TCCC-TCATAAGACCATGTCTGGGATATGACATGGACATCGATATGAGAAC
1 TCCCAT-ATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* *
35966687 TCCCATGTAAGACCATATCTGGGA
1 TCCCATATAAGACCATGTCTGGGA
35966711 TATGACATTG
Statistics
Matches: 226, Mismatches: 44, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
49 40 0.18
50 148 0.65
51 3 0.01
55 1 0.00
56 34 0.15
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
Found at i:35966670 original size:100 final size:100
Alignment explanation
Indices: 35966382--35966710 Score: 446
Period size: 100 Copynumber: 3.2 Consensus size: 100
35966372 GGGAATGAGA
* * * *
35966382 TCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCAT-AT
1 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCA---AG---ATGAGAGGTCCC-TCAT
35966446 AAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
59 AAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * * *
35966488 TTCCATATAAGACCA-GTCTGGGACTTGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCA
1 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
35966552 TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
66 TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
35966587 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
1 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
* * * *
35966652 TGTCTGGGATATGACATGGACATCGATATGAGAAC
66 TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* *
35966687 TCCCATGTAAGACCATATCTGGGA
1 TCCCATATAAGACCATGTCTGGGA
35966711 TATGACATTG
Statistics
Matches: 201, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
99 69 0.34
100 98 0.49
102 2 0.01
105 20 0.10
106 12 0.06
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (100 bp):
TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
Found at i:35966711 original size:50 final size:49
Alignment explanation
Indices: 35966429--35966762 Score: 307
Period size: 50 Copynumber: 6.7 Consensus size: 49
35966419 TCATTGAGAT
**
35966429 TATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCAT-GGCACCGA
* * *
35966479 TATGAGAACTTCCATATAAGACCA-GTCTGGGACTTGGCGTTGGCACCGA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGC-ATGGCACCGA
* ** ***
35966528 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCAT-GGCACCGA
* *
35966578 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGC-ATGGCACCGA
* ** * * *
35966628 GATGAGAGGTCCC-TCATAAGACCATGTCTGGGATATGACATGGACATCGA
1 TATGAGAACTCCCAT-ATAAGACCATGTCTGGGACATGGCATGG-CACCGA
* * * * * *
35966678 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTG-ACAG-
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCATGGCACCGA
* * * *
35966725 TACAGAAAACATCCCATGTAAGACTATGTCTGGGACAT
1 TA-TGAGAAC-TCCCATATAAGACCATGTCTGGGACAT
35966763 AACTTTGGCA
Statistics
Matches: 232, Mismatches: 43, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.01
48 7 0.03
49 67 0.29
50 154 0.66
51 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCATGGCACCGA
Found at i:35969642 original size:49 final size:47
Alignment explanation
Indices: 35969490--35969665 Score: 307
Period size: 47 Copynumber: 3.7 Consensus size: 47
35969480 ATGATAGTAT
*
35969490 GGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35969537 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35969584 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
35969633 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35969666 CCCGAAGGGC
Statistics
Matches: 124, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 79 0.64
49 41 0.33
50 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:35969658 original size:96 final size:95
Alignment explanation
Indices: 35969490--35969665 Score: 309
Period size: 96 Copynumber: 1.8 Consensus size: 95
35969480 ATGATAGTAT
*
35969490 GGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
35969555 ATGAATGTGA-AAGTGTATATATGTGATAA
66 ATGAATGTGATAAGTGTATATATGTGATAA
*
35969584 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
35969649 TGATGAATGTGATAAGT
64 TGATGAATGTGATAAGT
35969666 CCCGAAGGGC
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
94 32 0.42
96 41 0.53
97 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (95 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGATAAGTGTATATATGTGATAA
Found at i:35969839 original size:37 final size:37
Alignment explanation
Indices: 35969783--35969861 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35969773 CCGAGCTCTA
* * *
35969783 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
35969820 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35969857 AAGAC
1 AAGAC
35969862 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35971778 original size:43 final size:43
Alignment explanation
Indices: 35971730--35971875 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
35971720 TTGGTTTTCA
*
35971730 GCACTAAGTGTGCGGGTAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35971773 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35971816 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35971859 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
35971876 TTGAAATGCA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Done.