Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 133 of 311
Found at i:44899191 original size:15 final size:15
Alignment explanation
Indices: 44899167--44899198 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44899157 GTCTTATAAC
*
44899167 AAGTTGAATAACAAT
1 AAGTTAAATAACAAT
44899182 AAGTTAAATAACAAT
1 AAGTTAAATAACAAT
44899197 AA
1 AA
44899199 CACATACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.25
Consensus pattern (15 bp):
AAGTTAAATAACAAT
Found at i:44903118 original size:44 final size:42
Alignment explanation
Indices: 44903065--44903190 Score: 114
Period size: 44 Copynumber: 3.0 Consensus size: 42
44903055 ATCTAAATTA
*
44903065 TTGTGTAAGACCGTGTCTGGGACACAGGCATCGAAT-TGAAATT
1 TTGTGTAAGACCATGTCTGGGACACAGGCATCGAATCTG--ATT
* * *
44903108 TATGTGTAAGACCATGTCTTGGATATCA-GCATCGTATCTGATT
1 T-TGTGTAAGACCATGTCTGGGACA-CAGGCATCGAATCTGATT
* * * *
44903151 TCGTATAAGACCCTGTCTGGGACAGAGGCATC-AATACTGA
1 TTGTGTAAGACCATGTCTGGGACACAGGCATCGAAT-CTGA
44903191 ATTACATGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
41 3 0.04
42 27 0.40
43 5 0.07
44 28 0.42
45 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TTGTGTAAGACCATGTCTGGGACACAGGCATCGAATCTGATT
Found at i:44921671 original size:41 final size:40
Alignment explanation
Indices: 44921585--44921684 Score: 137
Period size: 41 Copynumber: 2.5 Consensus size: 40
44921575 AAATCAGCTA
* * *
44921585 TATATATGGTACCTAGTGTGCGATTCGACATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGAATCGACATAGCTTCGAC
* * *
44921625 TATATATGGCACTTAGTGTGTGAGATCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGA-ATCGACATAGCTTCGAC
44921666 TATATATGGCACTTAGTGT
1 TATATATGGCACTTAGTGT
44921685 ATGATTTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 20 0.38
41 33 0.62
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGAATCGACATAGCTTCGAC
Found at i:44922485 original size:24 final size:24
Alignment explanation
Indices: 44922457--44922518 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 24
44922447 TGTTTATGGC
44922457 TAAATTGGATG-TTTATTTATATTA
1 TAAATTGG-TGTTTTATTTATATTA
44922481 TAAATTGGTGTCATTTTATTTATATTA
1 TAAATTGGTG---TTTTATTTATATTA
44922508 TAAATTGGTGT
1 TAAATTGGTGT
44922519 CATTTTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 2 0.06
24 9 0.26
27 23 0.68
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.53
Consensus pattern (24 bp):
TAAATTGGTGTTTTATTTATATTA
Found at i:44922502 original size:27 final size:27
Alignment explanation
Indices: 44922468--44922524 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
44922458 AAATTGGATG
44922468 TTTATTTATATTATAAATTGGTGTCAT
1 TTTATTTATATTATAAATTGGTGTCAT
44922495 TTTATTTATATTATAAATTGGTGTCAT
1 TTTATTTATATTATAAATTGGTGTCAT
44922522 TTT
1 TTT
44922525 GGTTGTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.58
Consensus pattern (27 bp):
TTTATTTATATTATAAATTGGTGTCAT
Found at i:44928681 original size:27 final size:27
Alignment explanation
Indices: 44928647--44928846 Score: 267
Period size: 27 Copynumber: 7.4 Consensus size: 27
44928637 TGGATAAGTT
*
44928647 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
44928674 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
44928701 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
44928728 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
44928755 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
44928782 GTAGAAATATCAAAATTCCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
44928809 GTAGAATTACCGAGATACCCTTGT-GTG
1 GTAGAATTACCGAAATACCCCTGTAG-G
*
44928836 GTAAAATTACC
1 GTAGAATTACC
44928847 ATTTTGCCCC
Statistics
Matches: 150, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:44929541 original size:27 final size:26
Alignment explanation
Indices: 44929497--44929547 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
44929487 GTCACTGCAA
*
44929497 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
44929524 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
44929548 GACAGCCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:44929612 original size:73 final size:73
Alignment explanation
Indices: 44929514--44929694 Score: 290
Period size: 73 Copynumber: 2.5 Consensus size: 73
44929504 GCCTCGCCAC
* *
44929514 ATATATCTATTCTGGTGACTTCGTCACAATATCTGACAGCCTTGCTGCAATCTGGTGGCTTTGCC
1 ATATATCTATTCTGGTGACTTCGTCACAATATCTGACAGCCTCGCTGCAATATGGTGGCTTTGCC
44929579 ACATATAT
66 ACATATAT
*
44929587 ATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAATATGGTGGCTTTGCC
1 ATATATCTATTCTGGTGACTTCGTCACAATATCTGACAGCCTCGCTGCAATATGGTGGCTTTGCC
44929652 ACATATAT
66 ACATATAT
* * * * *
44929660 ATATATCTGTTCTGGTGGCCTAGCCACAATATCTG
1 ATATATCTATTCTGGTGACTTCGTCACAATATCTG
44929695 TATCTGGTGA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 100 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (73 bp):
ATATATCTATTCTGGTGACTTCGTCACAATATCTGACAGCCTCGCTGCAATATGGTGGCTTTGCC
ACATATAT
Found at i:44929686 original size:33 final size:32
Alignment explanation
Indices: 44929639--44929700 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
44929629 CGCTGCAATA
* *
44929639 TGGTGGCTTTGCCACATATATATATATCTGTTC
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTC
* *
44929672 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
44929701 GTGACTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTC
Found at i:44929714 original size:27 final size:26
Alignment explanation
Indices: 44929662--44929719 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
44929652 ACATATATAT
*
44929662 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44929688 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44929715 ATATC
1 ATATC
44929720 AGGCAGCCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44935576 original size:27 final size:27
Alignment explanation
Indices: 44935543--44935714 Score: 186
Period size: 27 Copynumber: 6.4 Consensus size: 27
44935533 TCGATAAGTT
* *
44935543 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44935570 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
44935597 GTAGAACTT-TTGAAATACTCCTGTAGG
1 GTAGAA-TTACCGAAATACCCCTGTAGG
* * * *
44935624 ATAGAAATACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44935651 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
44935678 GTAGAATTACTG-AATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44935704 GTAAAATTACC
1 GTAGAATTACC
44935715 ATTTTGCCCC
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 22 0.18
27 96 0.80
28 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:44936508 original size:27 final size:26
Alignment explanation
Indices: 44936456--44936514 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
44936446 CCACATATAT
*
44936456 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44936482 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44936509 ATATCT
1 ATATCT
44936515 CGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44941722 original size:14 final size:14
Alignment explanation
Indices: 44941703--44941732 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44941693 CCATATACAA
*
44941703 ATAAACTTATCAAC
1 ATAAACTTATAAAC
44941717 ATAAACTTATAAAC
1 ATAAACTTATAAAC
44941731 AT
1 AT
44941733 CAAGAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAACTTATAAAC
Found at i:44942111 original size:44 final size:42
Alignment explanation
Indices: 44941960--44942118 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 42
44941950 AGCATATACA
* * *
44941960 ATGCCAACATCCCAGACGTGGTTTTACATGT-AATCAAACATCG
1 ATGCCAACATCCTAGACGTGGTCTTACACGTAAATC-AA-ATCG
*
44942003 ATGCC-ACTATCCTAGACAG-GGTCTTACACG-AAATCAAATACC
1 ATGCCAAC-ATCCTAGAC-GTGGTCTTACACGTAAATCAAAT-CG
** *
44942045 ATGCCAATGT-CTCAGA-GATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAACATCCT-AGACG-TGGTCTTACACGTAAATCA-AA-TCG
44942089 ATGCCAACATCCTAGACGTGGTCTTACACG
1 ATGCCAACATCCTAGACGTGGTCTTACACG
44942119 ATAACACATA
Statistics
Matches: 93, Mismatches: 10, Indels: 25
0.73 0.08 0.20
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 25 0.27
43 32 0.34
44 27 0.29
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACATCCTAGACGTGGTCTTACACGTAAATCAAATCG
Found at i:44945696 original size:16 final size:16
Alignment explanation
Indices: 44945675--44945706 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44945665 ACTGTAACGC
44945675 CCCAAAAATCCAGAAA
1 CCCAAAAATCCAGAAA
*
44945691 CCCAAAAATCCTGAAA
1 CCCAAAAATCCAGAAA
44945707 TCTCAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.31, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCAGAAA
Found at i:44946935 original size:8 final size:8
Alignment explanation
Indices: 44946922--44946948 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44946912 ATCGGCCAAA
44946922 GCCGAAAT
1 GCCGAAAT
44946930 GCCGAAAT
1 GCCGAAAT
44946938 GCCGAAAT
1 GCCGAAAT
44946946 GCC
1 GCC
44946949 AAAAAGTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.26, T:0.11
Consensus pattern (8 bp):
GCCGAAAT
Found at i:44946959 original size:16 final size:16
Alignment explanation
Indices: 44946919--44946960 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
44946909 TAGATCGGCC
*
44946919 AAAGCCGAAATGCCGA
1 AAAGCCGAAATGCCAA
*
44946935 AATGCCGAAATGCCAA
1 AAAGCCGAAATGCCAA
*
44946951 AAAGTCGAAA
1 AAAGCCGAAA
44946961 GTTTGGCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.48, C:0.21, G:0.21, T:0.10
Consensus pattern (16 bp):
AAAGCCGAAATGCCAA
Found at i:44947190 original size:28 final size:28
Alignment explanation
Indices: 44947150--44947260 Score: 143
Period size: 28 Copynumber: 3.9 Consensus size: 28
44947140 CATGACTATA
*
44947150 AATGTGATTTGGGTCTAAT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
44947178 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
*
44947207 AATGTGATTGGGCCGAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* *
44947235 AATGAGATTGGGCCTAGTGGGCCATA
1 AATGTGATTGGGCCTAATGGGCCATA
44947261 AGCATGTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 59 0.81
29 14 0.19
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:44947235 original size:57 final size:56
Alignment explanation
Indices: 44947147--44947258 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
44947137 GAGCATGACT
* * *
44947147 ATAAATGTGATTTGGGTCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTTGGGCCGAATGGCCATATGAATGAGA-TTGGGCCTAATGGGCCAC
*
44947204 ATAAATGTGA-TTGGGCCGAATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCA
1 ATAAATGTGATTTGGGCCGAAT-GGCCATATGAATGAGATTGGGCCTAATGGGCCA
44947259 TAAGCATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 25 0.50
57 25 0.50
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (56 bp):
ATAAATGTGATTTGGGCCGAATGGCCATATGAATGAGATTGGGCCTAATGGGCCAC
Found at i:44958791 original size:33 final size:32
Alignment explanation
Indices: 44958742--44958805 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
44958732 CTCGCTGCAA
* *
44958742 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
44958775 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
44958806 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:44958819 original size:27 final size:26
Alignment explanation
Indices: 44958767--44958826 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44958757 ACATATATAT
*
44958767 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44958793 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44958820 ATATCTG
1 ATATCTG
44958827 CCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44960986 original size:26 final size:27
Alignment explanation
Indices: 44960957--44961010 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
44960947 CCACACAAGT
*
44960957 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
44960983 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
44961010 T
1 T
44961011 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:44961041 original size:27 final size:27
Alignment explanation
Indices: 44961011--44961183 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
44961001 GGGGCAAAAT
* * *
44961011 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
44961038 GGTAATTCTACCCTATAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
44961065 TATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
44961092 GGTAATTCTATCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
44961119 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
44961146 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
44961173 GGTAATTCTAC
1 GGTAATTCTAC
44961184 AACTTATCCA
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 118 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:44961122 original size:81 final size:81
Alignment explanation
Indices: 44961030--44961182 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 81
44961020 ACCCCACAAG
* *
44961030 GGTATCTCGGTAATTCTACCCTATAGGGGTATTT-ATATATTTCTACCCTACAAGGGTATTTCGG
1 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA-ATAATTCTACCCTACAAGGGTATTTCGG
44961094 TAATTCTATCCTACAGA
65 TAATTCTATCCTACAGA
* * *
44961111 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGT
44961176 AATTCTA
66 AATTCTA
44961183 CAACTTATCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 65 0.98
82 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGT
AATTCTATCCTACAGA
Found at i:44961169 original size:54 final size:54
Alignment explanation
Indices: 44961011--44961183 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
44961001 GGGGCAAAAT
* * * *
44961011 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
** * * * *
44961065 TATATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* **
44961119 GGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
44961173 GGTAATTCTAC
1 GGTAATTCTAC
44961184 AACTTATCCA
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
Found at i:44965870 original size:29 final size:28
Alignment explanation
Indices: 44965798--44965870 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
44965788 GTATAATAAG
*
44965798 CCCGCACACTTAGTGCTTAATAGTGGAA
1 CCCGCACACTTAGTGCTTAATAGTGCAA
* * *
44965826 CTCGCACACTTAGTGCTATACA-ATTTCAA
1 CCCGCACACTTAGTGCT-TA-ATAGTGCAA
44965855 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
44965871 CAATCTCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 16 0.42
29 21 0.55
30 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
CCCGCACACTTAGTGCTTAATAGTGCAA
Found at i:44976600 original size:41 final size:41
Alignment explanation
Indices: 44976549--44976643 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
44976539 TGCAGTTACT
*
44976549 TGACAGCTTGTGTGAGCAGCACCGAGTCTCTA-AGTCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGAGTCGCTATA-TCTTGAC
*
44976590 TGACAGCTTGTGTGAGCAGCATCGAGTCGCTATATCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGAGTCGCTATATCTTGAC
* *
44976631 TGTCAACTTGTGT
1 TGACAGCTTGTGT
44976644 CAGTAGGCCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 48 0.98
42 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCAGCACCGAGTCGCTATATCTTGAC
Found at i:44982236 original size:29 final size:28
Alignment explanation
Indices: 44982153--44982265 Score: 111
Period size: 29 Copynumber: 4.0 Consensus size: 28
44982143 CCTGTATCTA
* *
44982153 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
* * * *
44982181 GCCTATTAGGCACAAACGAC-CTCTATATG
1 GCCCATTAGGCCCAATC-ACATTC-ATATG
*
44982210 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCC-AATCACATTCATATG
* *
44982239 GCCCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
44982266 TCATGCTCAC
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
28 27 0.40
29 36 0.54
30 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:44982346 original size:17 final size:18
Alignment explanation
Indices: 44982324--44982357 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44982314 TGCCTATTAT
44982324 GGGCCCAAC-AGCCCATC
1 GGGCCCAACTAGCCCATC
*
44982341 GGGCCCATCTAGCCCAT
1 GGGCCCAACTAGCCCAT
44982358 TCTGGCTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GGGCCCAACTAGCCCATC
Found at i:44982501 original size:8 final size:8
Alignment explanation
Indices: 44982488--44982530 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
44982478 TCAGCTTTTT
44982488 GGCATTTC
1 GGCATTTC
44982496 GGCATTTC
1 GGCATTTC
*
44982504 GGCTTTTC
1 GGCATTTC
* *
44982512 GGTATTTT
1 GGCATTTC
44982520 GGCATTTC
1 GGCATTTC
44982528 GGC
1 GGC
44982531 TTTTGCCGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (8 bp):
GGCATTTC
Found at i:44982508 original size:24 final size:24
Alignment explanation
Indices: 44982476--44982534 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
44982466 GTAGCCAAAC
* *
44982476 TTTCAGCTTTTTGGCATTTCGGCA
1 TTTCGGCTTTTCGGCATTTCGGCA
* *
44982500 TTTCGGCTTTTCGGTATTTTGGCA
1 TTTCGGCTTTTCGGCATTTCGGCA
44982524 TTTCGGCTTTT
1 TTTCGGCTTTT
44982535 GCCGATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.08, C:0.19, G:0.22, T:0.51
Consensus pattern (24 bp):
TTTCGGCTTTTCGGCATTTCGGCA
Found at i:44982511 original size:16 final size:16
Alignment explanation
Indices: 44982476--44982534 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
44982466 GTAGCCAAAC
*
44982476 TTTCAGCTTTTTGGCA
1 TTTCGGCTTTTTGGCA
* * *
44982492 TTTCGGCATTTCGGCT
1 TTTCGGCTTTTTGGCA
44982508 TTTCGG-TATTTTGGCA
1 TTTCGGCT-TTTTGGCA
44982524 TTTCGGCTTTT
1 TTTCGGCTTTT
44982535 GCCGATCTAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 33 0.97
17 1 0.03
ACGTcount: A:0.08, C:0.19, G:0.22, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTTGGCA
Found at i:44986688 original size:28 final size:28
Alignment explanation
Indices: 44986657--44986756 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 28
44986647 CCTGTATCTA
* *
44986657 GCCCATTAAGCCCAAA-CATATTCATATG
1 GCCCATTAGGCCCAAACCA-ATTTATATG
44986685 GCCCATTAGGCCCAAACCAACTTTATATG
1 GCCCATTAGGCCCAAACCAA-TTTATATG
*
44986714 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAACCA-ATTTATATG
**
44986743 GCCCGCTAGGCCCA
1 GCCCATTAGGCCCA
44986757 TTCACATTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.25
29 47 0.73
30 1 0.02
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
GCCCATTAGGCCCAAACCAATTTATATG
Found at i:44987871 original size:27 final size:28
Alignment explanation
Indices: 44987787--44987884 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
44987777 CATGAGATTG
* * * *
44987787 GCACTAAGTGTGCGGGTTTAAATTGTAAA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
44987816 GCACTATGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44987844 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44987871 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44987885 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44987895 original size:27 final size:27
Alignment explanation
Indices: 44987815--44987897 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
44987805 TAAATTGTAA
* * *
44987815 AGCACTATGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44987843 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44987870 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44987897 A
1 A
44987898 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44987898 original size:29 final size:27
Alignment explanation
Indices: 44987787--44987898 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
44987777 CATGAGATTG
** * *
44987787 GCACTAAGTGTGCGGGTTTAAATTGTAAA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
44987816 GCACTATGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
44987844 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
44987871 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
44987899 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:44992293 original size:39 final size:39
Alignment explanation
Indices: 44992239--44992549 Score: 505
Period size: 39 Copynumber: 8.0 Consensus size: 39
44992229 AAGACACTGA
44992239 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
44992278 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
44992317 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
44992356 AAATGTATCCGGACTAAAGTCCCACAGGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
44992395 AAATATATCCAGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
44992434 AAATCTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
44992473 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
44992512 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
44992550 ATAATATAAT
Statistics
Matches: 249, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 249 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:44998632 original size:22 final size:22
Alignment explanation
Indices: 44998568--44998691 Score: 117
Period size: 22 Copynumber: 5.5 Consensus size: 22
44998558 TCAGCTCGTA
* *
44998568 AGAGCTTACTACTTTCAGCTCATT
1 AGAGCTTACT-GTTT-AGCTCAAT
*
44998592 AGAGCTTACCGTTTTAGCTC-AT
1 AGAGCTTACTG-TTTAGCTCAAT
*
44998614 ATGATCTTACTGTTTAGCTCAAT
1 A-GAGCTTACTGTTTAGCTCAAT
* *
44998637 AGAGCTTACTGTTCAGCTCGAT
1 AGAGCTTACTGTTTAGCTCAAT
44998659 AGAGCTTACCAT-TTTAGCTCAAT
1 AGAGCTTA-C-TGTTTAGCTCAAT
*
44998682 CGAGCTTACT
1 AGAGCTTACT
44998692 ATTCATCAGC
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.01
22 37 0.44
23 33 0.39
24 13 0.15
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (22 bp):
AGAGCTTACTGTTTAGCTCAAT
Found at i:44998691 original size:45 final size:45
Alignment explanation
Indices: 44998558--44998696 Score: 133
Period size: 45 Copynumber: 3.1 Consensus size: 45
44998548 TACCGATATA
* * * *
44998558 TCAGCTCG-TAAGAGCTTACTACTTTCAGCTCATTAGAGCTTACCGTT
1 TCAGCTCGAT-AGAGCTTACCA-TTTTAGCTCAATAGAGCTTACTG-T
* *
44998605 TTAGCTC-ATATGATCTTA-C-TGTTTAGCTCAATAGAGCTTACTGT
1 TCAGCTCGATA-GAGCTTACCAT-TTTAGCTCAATAGAGCTTACTGT
* *
44998649 TCAGCTCGATAGAGCTTACCATTTTAGCTCAATCGAGCTTACTAT
1 TCAGCTCGATAGAGCTTACCATTTTAGCTCAATAGAGCTTACTGT
44998694 TCA
1 TCA
44998697 TCAGCTCAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
44 14 0.18
45 47 0.62
46 2 0.03
47 13 0.17
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (45 bp):
TCAGCTCGATAGAGCTTACCATTTTAGCTCAATAGAGCTTACTGT
Found at i:45002549 original size:55 final size:53
Alignment explanation
Indices: 45002441--45002625 Score: 144
Period size: 55 Copynumber: 3.4 Consensus size: 53
45002431 ATTAGGGTTT
* ** * *
45002441 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATTCCATGTAAGACCATGCCAAGAAATGG-CATTGATAA-G-TTCATAAGGC
** *
45002496 AAGGATTCCATGTAAGACCATTTCAA-AAAGTGGCATTGATAAGTTACTATAAGGAA
1 AAGGATTCCATGTAAGACCATGCCAAGAAA-TGGCATTGATAAGTT-C-ATAAGG-C
* ** * *
45002552 AAGG--TCTCATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATTC-CATGTAAGACCATGCCAAGAAATGGCATTGATAAGTTCATAAGGC
*
45002604 AAGGATACCATGTAAGACCATG
1 AAGGATTCCATGTAAGACCATG
45002626 TTAAGACATG
Statistics
Matches: 103, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
52 6 0.06
53 21 0.20
54 12 0.12
55 59 0.57
56 5 0.05
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATTCCATGTAAGACCATGCCAAGAAATGGCATTGATAAGTTCATAAGGC
Found at i:45007148 original size:24 final size:25
Alignment explanation
Indices: 45007077--45007146 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
45007067 GAGGAAGTGC
* * *
45007077 AAAAGGGCTTTTGCCCTAGTTTACCG
1 AAAAGGGC-TTTGCCCCAGTTTATCA
*
45007103 AAAAGGGATTT-CCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
45007127 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
45007147 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 20 0.53
25 11 0.29
26 7 0.18
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:45007403 original size:30 final size:31
Alignment explanation
Indices: 45007367--45007449 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
45007357 CGTTTATAGC
*
45007367 AAAGGCTTCAGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
45007397 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
45007428 AAAGGCTTCGGGCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
45007450 TTGAGATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:45011115 original size:21 final size:20
Alignment explanation
Indices: 45011091--45011130 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45011081 TTGGACAAAT
*
45011091 AAGCAGCAAAAGGCTTTTGAG
1 AAGCAGAAAAAGG-TTTTGAG
*
45011112 AAGCTGAAAAAGGTTTTGA
1 AAGCAGAAAAAGGTTTTGA
45011131 CTGAGGCACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.23
Consensus pattern (20 bp):
AAGCAGAAAAAGGTTTTGAG
Found at i:45029570 original size:40 final size:40
Alignment explanation
Indices: 45029515--45029595 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
45029505 AAATCCTTGA
45029515 GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
1 GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
*
45029555 GTAAAATCCTAGCTTGTATTTGTTGCTTTCAAAGCGAGGT
1 GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
45029595 G
1 G
45029596 CATTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (40 bp):
GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
Found at i:45030823 original size:29 final size:28
Alignment explanation
Indices: 45030768--45030888 Score: 118
Period size: 28 Copynumber: 4.2 Consensus size: 28
45030758 GTCCATACTT
* * *
45030768 ATTCATTTGGCCCCTATAGGCCCAATCTC
1 ATTCATATGGCCCAT-TAGGCCCAATCAC
*
45030797 ATTCATATGGCCCATTAGGCTCAAATCAC
1 ATTCATATGGCCCATTAGGC-CCAATCAC
* * *
45030826 TTTCATATGACCCA-TCGGCCCCAATCAC
1 ATTCATATGGCCCATTAGG-CCCAATCAC
* * *
45030854 ATTCATATGGCTCATCAGCCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
45030882 ATTCATA
1 ATTCATA
45030889 GTATGCAATC
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
28 42 0.56
29 33 0.44
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:45030860 original size:28 final size:28
Alignment explanation
Indices: 45030788--45030888 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
45030778 CCCCTATAGG
* *
45030788 CCCAATCTCATTCATATGGCCCATTAGGC
1 CCCAATCACATTCATATGGCCCA-TCGGC
* * * *
45030817 TCAAATCACTTTCATATGACCCATCGGC
1 CCCAATCACATTCATATGGCCCATCGGC
* *
45030845 CCCAATCACATTCATATGGCTCATCAGC
1 CCCAATCACATTCATATGGCCCATCGGC
45030873 CCCAATCACATTCATA
1 CCCAATCACATTCATA
45030889 GTATGCAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 42 0.70
29 18 0.30
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.27
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCGGC
Found at i:45031126 original size:16 final size:16
Alignment explanation
Indices: 45031105--45031137 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45031095 CAAACTTCTA
*
45031105 GCTTTTCGGCATTTTG
1 GCTTTTCGACATTTTG
45031121 GCTTTTCGACATTTTG
1 GCTTTTCGACATTTTG
45031137 G
1 G
45031138 GATTTGCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.48
Consensus pattern (16 bp):
GCTTTTCGACATTTTG
Found at i:45031310 original size:40 final size:40
Alignment explanation
Indices: 45031255--45031335 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
45031245 AAATCCTTGA
45031255 GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
1 GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
*
45031295 GTAAAATCCTAGCTTGTATTTGTTGCTTTCAAAGCGAGGT
1 GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
45031335 G
1 G
45031336 CATTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (40 bp):
GTAAAATCCTAGCTTGTATTTGTTGATTTCAAAGCGAGGT
Found at i:45032563 original size:29 final size:28
Alignment explanation
Indices: 45032508--45032628 Score: 127
Period size: 28 Copynumber: 4.2 Consensus size: 28
45032498 GTCCATACTT
* * *
45032508 ATTCATTTGGCCCCTATAGGCCCAATCTC
1 ATTCATATGGCCCAT-TAGGCCCAATCAC
*
45032537 ATTCATATGGCCCATTAGGCTCAAATCAC
1 ATTCATATGGCCCATTAGGC-CCAATCAC
* * *
45032566 TTTCATATGACCCA-TCGGCCCCAATCAC
1 ATTCATATGGCCCATTAGG-CCCAATCAC
* *
45032594 ATTCATATGGCCCATCAGCCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
45032622 ATTCATA
1 ATTCATA
45032629 GTATGCAATC
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
28 43 0.57
29 33 0.43
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:45032600 original size:28 final size:28
Alignment explanation
Indices: 45032528--45032628 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
45032518 CCCCTATAGG
* *
45032528 CCCAATCTCATTCATATGGCCCATTAGGC
1 CCCAATCACATTCATATGGCCCA-TCGGC
* * * *
45032557 TCAAATCACTTTCATATGACCCATCGGC
1 CCCAATCACATTCATATGGCCCATCGGC
*
45032585 CCCAATCACATTCATATGGCCCATCAGC
1 CCCAATCACATTCATATGGCCCATCGGC
45032613 CCCAATCACATTCATA
1 CCCAATCACATTCATA
45032629 GTATGCAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 43 0.70
29 18 0.30
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.26
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCGGC
Found at i:45032866 original size:16 final size:16
Alignment explanation
Indices: 45032845--45032877 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45032835 CAAACTTCTA
*
45032845 GCTTTTCGGCATTTTG
1 GCTTTTCGACATTTTG
45032861 GCTTTTCGACATTTTG
1 GCTTTTCGACATTTTG
45032877 G
1 G
45032878 GATTTGCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.48
Consensus pattern (16 bp):
GCTTTTCGACATTTTG
Found at i:45034604 original size:28 final size:29
Alignment explanation
Indices: 45034572--45034656 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
45034562 CATACATGCA
* *
45034572 TATGGCCCACTAGGCCC-AATCTCATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
45034600 TATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
*
45034629 GATGGCCCATTAGGCCCAAATCACATTC
1 TATGGCCCATTAGGCCCAAATCACATTC
45034657 ATATTCATGC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 16 0.30
29 37 0.70
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCG
Found at i:45034895 original size:16 final size:16
Alignment explanation
Indices: 45034874--45034928 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
45034864 CTAAACTTTC
45034874 GGCTTTTCGACATTTT
1 GGCTTTTCGACATTTT
45034890 GGCTTTTCTG-CATTTT
1 GGCTTTTC-GACATTTT
* *
45034906 GACTTTTCGACATTTC
1 GGCTTTTCGACATTTT
45034922 GGCTTTT
1 GGCTTTT
45034929 AGGCGTTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.11, C:0.20, G:0.18, T:0.51
Consensus pattern (16 bp):
GGCTTTTCGACATTTT
Found at i:45038923 original size:40 final size:40
Alignment explanation
Indices: 45038868--45038950 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
45038858 AAAACCTTGA
*
45038868 GTAAAATCCCAGCTTGTATTTGCTGCTTTCAAAGCGAGGT
1 GTAAAATCCCAGCTTGTATTTACTGCTTTCAAAGCGAGGT
*
45038908 GTAAAATCCCAGCTTGTATTTATTGCTTTCAAAGCGAGGT
1 GTAAAATCCCAGCTTGTATTTACTGCTTTCAAAGCGAGGT
45038948 GTA
1 GTA
45038951 TTTTAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (40 bp):
GTAAAATCCCAGCTTGTATTTACTGCTTTCAAAGCGAGGT
Found at i:45039939 original size:25 final size:23
Alignment explanation
Indices: 45039907--45040002 Score: 111
Period size: 24 Copynumber: 4.0 Consensus size: 23
45039897 GCTTTATCAT
*
45039907 ATAACTAGAGGCCTAGCCTCTTTTA
1 ATAACTAG-GGCATAGCC-CTTTTA
*
45039932 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTAGGGC-ATAGCCCTTTTA
*
45039956 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTAGGGCAT-AGCCCTTTTA
*
45039980 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTAGGGCAT-AGCCCTTTT
45040003 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
23 1 0.02
24 52 0.80
25 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (23 bp):
ATAACTAGGGCATAGCCCTTTTA
Found at i:45039958 original size:24 final size:24
Alignment explanation
Indices: 45039921--45040002 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
45039911 CTAGAGGCCT
* *
45039921 AGCCTCTTTTAATAACTAGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
45039946 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
45039970 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
45039994 AGCCCTTTT
1 AGCCCTTTT
45040003 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
24 51 0.93
25 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:45040077 original size:20 final size:20
Alignment explanation
Indices: 45040052--45040118 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
45040042 TTATGAGTAC
45040052 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
45040072 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
45040092 GTCATGTGCTTATCATACAT
1 ATCATGTGCATATCATACAT
*
45040112 ACCATGT
1 ATCATGT
45040119 TTATCAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:45043296 original size:29 final size:28
Alignment explanation
Indices: 45043241--45043358 Score: 139
Period size: 28 Copynumber: 4.1 Consensus size: 28
45043231 ATCCATACTT
* * *
45043241 ATTCATTTGGACCCTTTAGGCCCAATCTC
1 ATTCATAT-GACCCATTAGGCCCAATCAC
*
45043270 ATTCATATGACCCATTAGTCCCAAATCAC
1 ATTCATATGACCCATTAGGCCC-AATCAC
*
45043299 TTTCATATGACCCATT-GGCCCTAATCAC
1 ATTCATATGACCCATTAGGCCC-AATCAC
* *
45043327 ATTCATATGACCCATCAGTCCCAATCAC
1 ATTCATATGACCCATTAGGCCCAATCAC
45043355 ATTC
1 ATTC
45043359 GTAGTCATGC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 46 0.60
29 31 0.40
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (28 bp):
ATTCATATGACCCATTAGGCCCAATCAC
Found at i:45043596 original size:16 final size:16
Alignment explanation
Indices: 45043575--45043606 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45043565 ACCAAACTTC
45043575 TGGCTTTTCAGCATTT
1 TGGCTTTTCAGCATTT
*
45043591 TGGCTTTTCCGCATTT
1 TGGCTTTTCAGCATTT
45043607 CTGGATTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.22, G:0.19, T:0.50
Consensus pattern (16 bp):
TGGCTTTTCAGCATTT
Found at i:45051351 original size:47 final size:47
Alignment explanation
Indices: 45051282--45051433 Score: 277
Period size: 47 Copynumber: 3.2 Consensus size: 47
45051272 CCCTTCGGGA
* * *
45051282 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
45051329 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
45051376 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
45051423 CTTATCACATA
1 CTTATCACATA
45051434 ATTAGTACTA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 102 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:45054611 original size:39 final size:40
Alignment explanation
Indices: 45054564--45054734 Score: 247
Period size: 40 Copynumber: 4.3 Consensus size: 40
45054554 GGACTAAGAT
* * *
45054564 CCGAAGGCATTTATGCGAGATACTAATTCCGGGATAAG-C
1 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
45054603 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
* *
45054643 TCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
* * *
45054683 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTACTA-AATCCGGGTTAAGTC
45054723 CCGAAGGCATTT
1 CCGAAGGCATTT
45054735 GAACGAGGAG
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.29
40 85 0.70
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:45054715 original size:80 final size:79
Alignment explanation
Indices: 45054511--45054735 Score: 258
Period size: 80 Copynumber: 2.8 Consensus size: 79
45054501 TTGAATGATG
* * * * * * *
45054511 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCGAAGGCATT
* *
45054575 TATGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* *
45054591 TCCGGGATAAG-CCCGAAGGCATTTATGCGAGTTACTA-AATCCGGGTTAAGTCTCGAAGGCATT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTC-CGAAGGCATT
*
45054654 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
* *
45054670 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT-CCGAAGGCATTT
45054735 G
65 G
45054736 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.02
79 56 0.46
80 61 0.50
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:45054735 original size:40 final size:39
Alignment explanation
Indices: 45054512--45054735 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 39
45054502 TGAATGATGT
* * * * *
45054512 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
45054552 CCGGACTAAGAT-CCGAAGGCATTTATGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
45054592 CCGGGATAAG-CCCGAAGGCATTTATGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45054630 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45054670 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45054711 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45054736 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.22
40 117 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45054749 original size:40 final size:40
Alignment explanation
Indices: 45054592--45054754 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
45054582 GATACTAATT
* * *
45054592 CCGGGATAAG-CCCGAAGGCATTT-ATGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGA-ACGAGTGACTATAA
* * ** *
45054630 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
45054670 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
45054711 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
45054751 CCGG
1 CCGG
45054755 TTAAATTCCG
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
39 10 0.09
40 98 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:45054753 original size:80 final size:80
Alignment explanation
Indices: 45054550--45054768 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 80
45054540 AAGTGACCAT
* * * *
45054550 ATCCGGACTAAGAT-CCGAAGGCATTT-ATGCGAGAT-ACTAATTCCGGGATAAG-CCCGAAGGC
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGA-ACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGC
45054611 ATTTATGCGAGTTACTAA
63 ATTTATGCGAGTTACTAA
* * ** *
45054629 ATCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
45054694 TGTGCGAGTTACTATA
66 TATGCGAGTTACTA-A
* * * *
45054710 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
45054769 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.47
80 58 0.49
81 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
TATGCGAGTTACTAA
Found at i:45059069 original size:40 final size:40
Alignment explanation
Indices: 45059022--45059217 Score: 320
Period size: 40 Copynumber: 4.9 Consensus size: 40
45059012 GAATACACAT
* *
45059022 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
* * *
45059062 CATCGGCACGAATGCCCTTCAGGATTTTGCCTGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
*
45059102 CACCGGCACGAATGCCCTTCAGGATTTTGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
45059142 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
* *
45059182 CACCGGCACGAATGCCCTTGGGGATTTTTCCCGGAT
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGAT
45059218 CATCGTCGAG
Statistics
Matches: 146, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
Found at i:45061288 original size:47 final size:47
Alignment explanation
Indices: 45061219--45061370 Score: 277
Period size: 47 Copynumber: 3.2 Consensus size: 47
45061209 CCCATCGGGA
* *
45061219 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
45061266 CTTATCACATATATACACTTTCACATCCATCACAATGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
45061313 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
45061360 CTTATCACATA
1 CTTATCACATA
45061371 ATTAATACTA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:45073552 original size:40 final size:39
Alignment explanation
Indices: 45073498--45073721 Score: 141
Period size: 39 Copynumber: 5.7 Consensus size: 39
45073488 GAATTCAATC
* * *
45073498 ACCAACACAAAGCCTACGGGACTTTAAGCCCAGATAAAGT
1 ACCAGCACGAAGCCTAC-GGACCTTAAGCCCAGATAAAGT
* * * *
45073538 ACCAGTACGAAGCCTACGGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTACGGACCTTAAGCCCAGATAAAGT
* * * *
45073577 ACCAGCACGAAGCCTGCAGATCTTAA-CTCCGGATACAA-T
1 ACCAGCACGAAGCCTACGGACCTTAAGC-CCAGATA-AAGT
* * * * *
45073616 TCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA-T
1 ACCAGCACGAAGCCTAC-GGACCTTAAGCCCAGATA-AAGT
* * * * * *
45073656 TCCAGCAGGAAGCCTGCAGACCTTAAGTCCGGATACAA-T
1 ACCAGCACGAAGCCTACGGACCTTAAGCCCAGATA-AAGT
* * *
45073695 TCTAGCACGAAGCCTGCGGACCTTAAG
1 ACCAGCACGAAGCCTACGGACCTTAAG
45073722 TCCGGATATA
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 106 0.69
40 47 0.31
41 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
ACCAGCACGAAGCCTACGGACCTTAAGCCCAGATAAAGT
Found at i:45073578 original size:39 final size:39
Alignment explanation
Indices: 45073539--45073729 Score: 247
Period size: 39 Copynumber: 4.9 Consensus size: 39
45073529 AGATAAAGTA
* * * * *
45073539 CCAGTACGAAGCCTACGGACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
45073578 CCAGCACGAAGCCTGCAGATCTTAACTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
45073617 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* *
45073657 CCAGCAGGAAGCCTGCAGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
45073696 CTAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
45073730 TACATCAAAT
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 97 0.75
40 32 0.25
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:45073661 original size:79 final size:79
Alignment explanation
Indices: 45073560--45073713 Score: 236
Period size: 79 Copynumber: 1.9 Consensus size: 79
45073550 CCTACGGACC
* * * *
45073560 TTAAGTCCGGATATAGTACCAGCACGAAGCCTGCAGATCTTAACTCCGGATACAATTCCAGCACG
1 TTAAGCCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAACTCCGGATACAATTCCAGCACG
45073625 AAGCCTGCGGGTCT
66 AAGCCTGCGGGTCT
* * * *
45073639 TTAAGCCCGGATACAATTCCAGCAGGAAGCCTGCAGACCTTAAGTCCGGATACAATTCTAGCACG
1 TTAAGCCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAACTCCGGATACAATTCCAGCACG
45073704 AAGCCTGCGG
66 AAGCCTGCGG
45073714 ACCTTAAGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (79 bp):
TTAAGCCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAACTCCGGATACAATTCCAGCACG
AAGCCTGCGGGTCT
Found at i:45073720 original size:118 final size:118
Alignment explanation
Indices: 45073507--45073729 Score: 295
Period size: 118 Copynumber: 1.9 Consensus size: 118
45073497 CACCAACACA
* *
45073507 AAGCCTACGGGACTTTAAGCCCAGATAAAGTACCAGTACGAAGCCTACGGACCTTAAGTCCGGAT
1 AAGCCTACGGGACTTTAAGCCCAGATAAAGTACCAGCACGAAGCCTACAGACCTTAAGTCCGGAT
* * *
45073572 ATAGTACCAGCACGAAGCCTGCAGATCTTAACTCCGGATACAATTCCAGCACG
66 ACAATACCAGCACGAAGCCTGCAGACCTTAACTCCGGATACAATTCCAGCACG
* * * * * *
45073625 AAGCCTGCGGGTCTTTAAGCCCGGATACAA-TTCCAGCAGGAAGCCTGCAGACCTTAAGTCCGGA
1 AAGCCTACGGGACTTTAAGCCCAGATA-AAGTACCAGCACGAAGCCTACAGACCTTAAGTCCGGA
* * * *
45073689 TACAATTCTAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
65 TACAATACCAGCACGAAGCCTGCAGACCTTAACTCCGGATA
45073730 TACATCAAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
118 87 0.98
119 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (118 bp):
AAGCCTACGGGACTTTAAGCCCAGATAAAGTACCAGCACGAAGCCTACAGACCTTAAGTCCGGAT
ACAATACCAGCACGAAGCCTGCAGACCTTAACTCCGGATACAATTCCAGCACG
Found at i:45074461 original size:24 final size:24
Alignment explanation
Indices: 45074434--45074516 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
45074424 TAATTCACAT
* * *
45074434 ACATATTGACATTCCAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
**
45074458 ACATAGTGCCATAAAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
**
45074482 ACATAGTGCCATTCAAATTTGCAC
1 ACATAGTGCCATTCAAATCCGCAC
45074506 ACATAGTGCCA
1 ACATAGTGCCA
45074517 AAATCATTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (24 bp):
ACATAGTGCCATTCAAATCCGCAC
Found at i:45074486 original size:48 final size:48
Alignment explanation
Indices: 45074404--45074516 Score: 127
Period size: 48 Copynumber: 2.4 Consensus size: 48
45074394 CCATGTTAAC
* ** * * * *
45074404 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATAAAAATCCACACACATAGTGACATTCAAAT
* *
45074452 CCGCACACATAGTGCCATAAAAATCCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATAAAAATCCACACACATAGTGACATTCAAAT
**
45074500 TTGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
45074517 AAATCATTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (48 bp):
CCGCACACATAGTGCCATAAAAATCCACACACATAGTGACATTCAAAT
Found at i:45074525 original size:24 final size:24
Alignment explanation
Indices: 45074454--45074525 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
45074444 ATTCCAATCC
* **
45074454 GCACACATAGTGCCATAAA-AATCC
1 GCACACATAGTGCCA-AAATCATTT
*
45074478 GCACACATAGTGCC--ATTCAAATTT
1 GCACACATAGTGCCAAAATC--ATTT
45074502 GCACACATAGTGCCAAAATCATTT
1 GCACACATAGTGCCAAAATCATTT
45074526 CGTTTAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 1 0.03
24 34 0.89
26 3 0.08
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (24 bp):
GCACACATAGTGCCAAAATCATTT
Found at i:45075713 original size:17 final size:17
Alignment explanation
Indices: 45075691--45075732 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
45075681 CCCCACTTAA
*
45075691 TATATTATAACTTATTT
1 TATATTATAACATATTT
*
45075708 TATATTATAGCATATTT
1 TATATTATAACATATTT
45075725 TA-ATTATA
1 TATATTATA
45075733 TAATCTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:45077584 original size:15 final size:15
Alignment explanation
Indices: 45077564--45077593 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45077554 TCTTGACATG
45077564 CATAATCAAGCAAGT
1 CATAATCAAGCAAGT
45077579 CATAATCAAGCAAGT
1 CATAATCAAGCAAGT
45077594 TCTAGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
CATAATCAAGCAAGT
Found at i:45082711 original size:55 final size:55
Alignment explanation
Indices: 45082641--45082777 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
45082631 GCCCACACCG
* *
45082641 GTGTTAATTTAACAGGTTCGACCACGGGTGCTAGACAAGGGCGTGTCGCACGC-C
1 GTGTTAATTTGACAGGTTCGACCACGGGTGCAAGACAAGGGCGTGTCGCACGCTC
* * * *
45082695 TGTGTTAATTTGACAGGTTC-AGCCACAGGTTCAAGGCACGGGCGTGTCGCACGCTC
1 -GTGTTAATTTGACAGGTTCGA-CCACGGGTGCAAGACAAGGGCGTGTCGCACGCTC
* * * *
45082751 GTGCTATTTTGGCAGGTTCGCCCACGG
1 GTGTTAATTTGACAGGTTCGACCACGG
45082778 CTATGTCGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 1 0.01
55 66 0.97
56 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (55 bp):
GTGTTAATTTGACAGGTTCGACCACGGGTGCAAGACAAGGGCGTGTCGCACGCTC
Found at i:45086499 original size:14 final size:13
Alignment explanation
Indices: 45086476--45086507 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
45086466 GGGATATCAA
45086476 AACAATAATTAAG
1 AACAATAATTAAG
45086489 AACACATAATTAAG
1 AACA-ATAATTAAG
45086503 AACAA
1 AACAA
45086508 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:45092312 original size:13 final size:13
Alignment explanation
Indices: 45092294--45092320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45092284 CTAAAAGTAC
45092294 AAAAATCATCAAG
1 AAAAATCATCAAG
45092307 AAAAATCATCAAG
1 AAAAATCATCAAG
45092320 A
1 A
45092321 TCACTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:45094985 original size:37 final size:37
Alignment explanation
Indices: 45094898--45095000 Score: 95
Period size: 37 Copynumber: 2.8 Consensus size: 37
45094888 CCAACTGAAG
* *
45094898 CACGCCAATCGCTCGTAAGAGCTAATCCACCCAATAA
1 CACGCCAATTGCTCATAAGAGCTAATCCACCCAATAA
* *
45094935 CA---TAATTGATGCTCATAAGGGCTAATCCACCCAATAA
1 CACGCCAA-T--TGCTCATAAGAGCTAATCCACCCAATAA
** *
45094972 CACGCCAATTGCTCCGAAGAGCTAGTCCA
1 CACGCCAATTGCTCATAAGAGCTAATCCA
45095001 ACTGAAAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
34 2 0.04
35 1 0.02
37 45 0.88
39 1 0.02
40 2 0.04
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (37 bp):
CACGCCAATTGCTCATAAGAGCTAATCCACCCAATAA
Found at i:45103584 original size:44 final size:44
Alignment explanation
Indices: 45103441--45103686 Score: 245
Period size: 44 Copynumber: 5.6 Consensus size: 44
45103431 AGCTTATACA
* * * * *
45103441 ATGCTAACGTCCCAGACATGGTCTTACATGT-AATCA-AATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCG
* *
45103484 ATGTCATA-GCCCCAGACAG-GGTCTTACACG-AAATC--AAGTACG
1 ATGCCA-ACGTCCCAGAC-GTGGTCTTACACGTAAATCATAAGT-CG
45103526 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
*
45103570 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
* * * * *
45103614 ATGCCAATGTCCCAGACATGGTATTACATGATAAATCATAAGTCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAAATCATAAGTCG
* * * *
45103659 ATGCTAATGTCCCAGAAGTGGTATTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
45103687 TGATAACACA
Statistics
Matches: 174, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.02
42 27 0.16
43 31 0.18
44 71 0.41
45 42 0.24
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
Found at i:45103680 original size:89 final size:86
Alignment explanation
Indices: 45103441--45103686 Score: 277
Period size: 89 Copynumber: 2.8 Consensus size: 86
45103431 AGCTTATACA
* * * *
45103441 ATGCTAACGTCCCAGACATGGTCTTACATGT-AATCA-AATATCAATG-TCATAGCCCCAGACAG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCATAA-GTCAATGCTAAT-GTCCCAGA-AG
45103503 -GGTCTTACACGAAATCAAGTACG
63 TGGTCTTACACGAAATCAAGTACG
* * * * * *
45103526 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGATGTGG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCATAAGTCAATGCTAATGTCCCAGAAGTGG
45103591 TCTTACACGTAAATCATAAGT-CG
66 TCTTACACG-AAATC--AAGTACG
* *
45103614 ATGCCAATGTCCCAGACATGGTATTACATGATAAATCATAAGTCAATGCTAATGTCCCAGAAGTG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-TAAATCATAAGTCAATGCTAATGTCCCAGAAGTG
*
45103679 GTATTACA
65 GTCTTACA
45103687 TGATAACACA
Statistics
Matches: 134, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
85 29 0.22
86 28 0.21
87 8 0.06
88 28 0.21
89 41 0.31
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCATAAGTCAATGCTAATGTCCCAGAAGTGG
TCTTACACGAAATCAAGTACG
Found at i:45110998 original size:39 final size:39
Alignment explanation
Indices: 45110942--45111033 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
45110932 GACTTTAGGC
* *
45110942 CCGGATAT-ATTCTAGCACGTAGCCTGCGGACCTAAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTAAAGT
** *
45110980 TTGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTAAAGT
45111019 CCGGATATGTTTCCA
1 CCGGATATGTTTCCA
45111034 AATATCATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 6 0.13
39 40 0.87
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTAAAGT
Found at i:45111705 original size:21 final size:21
Alignment explanation
Indices: 45111679--45111719 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
45111669 TGCATATTCT
45111679 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
45111700 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
45111720 TAAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:45112030 original size:33 final size:33
Alignment explanation
Indices: 45111991--45112057 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
45111981 TATGTGGCTG
45111991 AATTTACAAGTTCAATTGGAACACCACATAAAT
1 AATTTACAAGTTCAATTGGAACACCACATAAAT
45112024 AATTTACAAGTTCAATTGGAACACCACATAAAT
1 AATTTACAAGTTCAATTGGAACACCACATAAAT
45112057 A
1 A
45112058 CTTACCTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (33 bp):
AATTTACAAGTTCAATTGGAACACCACATAAAT
Found at i:45115661 original size:39 final size:39
Alignment explanation
Indices: 45115594--45115733 Score: 226
Period size: 39 Copynumber: 3.5 Consensus size: 39
45115584 ACAAAGCATG
* *
45115594 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
45115635 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
45115674 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45115713 CGGGACTTAGCCCAGATATAA
1 CGGGACTTAGCCCGGATATAA
45115734 TTCTCCATTA
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 87 0.93
40 2 0.02
41 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:45119522 original size:19 final size:20
Alignment explanation
Indices: 45119498--45119535 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45119488 GGTACCACCA
45119498 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
45119517 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
45119536 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:45125724 original size:48 final size:48
Alignment explanation
Indices: 45125610--45125908 Score: 212
Period size: 48 Copynumber: 6.1 Consensus size: 48
45125600 TTACACATGT
* * ** ** *
45125610 TCACATATCGATGTCATATCCCAAATATGGT-TCTACACATAATCCCATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCT-TACAC-GGATCACATA
* *
45125659 TCACATATCGATACCATAGCCCAGCTATGGTCTTACACGGATCATATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
* *
45125707 TCACATATCGATGCCATAACCCAGCTATGGTCTTACACGAATCACATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
* * * * * * * * *
45125755 TCTCA-CT-GATGTCATATCCCAGATATGGTCTTATACAGTAGCATATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GGATCACATA
* * * * *
45125802 TCAC--ACCGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGG-ATCACAT-A
* * * *
45125850 TCACATCTCTCCGATGTCATAGCCCAACTATGGTCTTATACGGAAATCACATA
1 TCACA--TAT-CGATGCCATAGCCCAGCTATGGTCTTACACGG--ATCACATA
45125903 TCACAT
1 TCACAT
45125909 GTTGCCATGG
Statistics
Matches: 204, Mismatches: 35, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
46 26 0.13
47 45 0.22
48 59 0.29
49 31 0.15
50 1 0.00
51 1 0.00
53 34 0.17
54 7 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (48 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
Found at i:45125823 original size:93 final size:94
Alignment explanation
Indices: 45125673--45125893 Score: 232
Period size: 94 Copynumber: 2.3 Consensus size: 94
45125663 ATATCGATAC
* * * *
45125673 CATAGCCCAGCTATGGTCTTACACGGATCATATATCACATATCGATGCCATAACCCAGCTATGGT
1 CATAGCCCAGATATGGTCTTACACGGAGCATATATCACA-ACCGATGCCATAACCCAGATATGGT
*
45125738 CTTACAC-GAATCACATATCTCACTGATGT
65 CTTACACGGAAGCACATATCTCACTGATGT
* * * *
45125767 CATATCCCAGATATGGTCTTATACAGTAGCATATATCAC-ACCGATGCCATATCCCAGATATGGT
1 CATAGCCCAGATATGGTCTTACAC-GGAGCATATATCACAACCGATGCCATAACCCAGATATGGT
* *
45125831 CTTATACGGAAGCACATAATCACATCTCTCCGATGT
65 CTTACACGGAAGCACAT-AT--C-TCACT--GATGT
*
45125867 CATAGCCCA-ACTATGGTCTTATACGGA
1 CATAGCCCAGA-TATGGTCTTACACGGA
45125894 AATCACATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
93 28 0.27
94 29 0.28
95 14 0.13
97 1 0.01
98 4 0.04
99 3 0.03
100 26 0.25
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (94 bp):
CATAGCCCAGATATGGTCTTACACGGAGCATATATCACAACCGATGCCATAACCCAGATATGGTC
TTACACGGAAGCACATATCTCACTGATGT
Found at i:45125882 original size:53 final size:51
Alignment explanation
Indices: 45125747--45125908 Score: 172
Period size: 53 Copynumber: 3.1 Consensus size: 51
45125737 TCTTACACGA
* * *
45125747 ATCACATATCTCACTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATAT
1 ATCACAT-TCTC-C-GATGTCATATCCCAGATATGGTCTTATACGGAAGCACAT
*
45125801 ATCACA----CCGATGCCATATCCCAGATATGGTCTTATACGGAAGCACAT
1 ATCACATTCTCCGATGTCATATCCCAGATATGGTCTTATACGGAAGCACAT
* *
45125848 AATCACATCTCTCCGATGTCATAGCCCA-ACTATGGTCTTATACGGAAATCACAT
1 -ATCACAT-TCTCCGATGTCATATCCCAGA-TATGGTCTTATACGG-AAGCACAT
45125902 ATCACAT
1 ATCACAT
45125909 GTTGCCATGG
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
47 35 0.38
48 7 0.08
49 1 0.01
52 1 0.01
53 36 0.39
54 13 0.14
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (51 bp):
ATCACATTCTCCGATGTCATATCCCAGATATGGTCTTATACGGAAGCACAT
Found at i:45127886 original size:6 final size:6
Alignment explanation
Indices: 45127875--45127920 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
45127865 CATATATCTT
*
45127875 AATTAA AATTAA AATTAAA CCAATCAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATT-AA --AATTAA AATTAA AATTAA AATTAA A
45127921 CCAATCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 28 0.80
7 2 0.06
8 2 0.06
9 3 0.09
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (6 bp):
AATTAA
Found at i:45127913 original size:27 final size:27
Alignment explanation
Indices: 45127875--45127928 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45127865 CATATATCTT
45127875 AATTAAAATTAAAATTAAACCAATCAA
1 AATTAAAATTAAAATTAAACCAATCAA
45127902 AATTAAAATTAAAATTAAACCAATCAA
1 AATTAAAATTAAAATTAAACCAATCAA
45127929 TTCTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (27 bp):
AATTAAAATTAAAATTAAACCAATCAA
Found at i:45135776 original size:46 final size:46
Alignment explanation
Indices: 45135723--45135895 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
45135713 TGGTTGAGCA
45135723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
45135769 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
45135814 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
45135862 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45135896 GGGGCGGTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.55
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:45135879 original size:93 final size:93
Alignment explanation
Indices: 45135720--45135890 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
45135710 GAATGGTTGA
* *
45135720 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
45135785 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
45135813 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
45135878 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45135891 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45138885 original size:45 final size:45
Alignment explanation
Indices: 45138829--45138915 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
45138819 TAGTATCGTA
*
45138829 TCTTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTAT
1 TCTTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTAT
* * *
45138875 TCTT-GGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TCTTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
45138916 GTTATCTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 8 0.22
45 25 0.68
46 4 0.11
ACGTcount: A:0.09, C:0.17, G:0.15, T:0.59
Consensus pattern (45 bp):
TCTTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTAT
Found at i:45138905 original size:30 final size:31
Alignment explanation
Indices: 45138827--45138906 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
45138817 CATAGTATCG
* *
45138827 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* *
45138857 TAT-TCTGGATTTCTTTATTCTTGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC
45138887 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
45138907 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.57
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:45138913 original size:14 final size:15
Alignment explanation
Indices: 45138836--45138915 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
45138826 GTATCTTGGG
*
45138836 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
45138851 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
45138866 TTTCTTTATTCTTGG-
1 TTTCTTTATTC-TGGA
*
45138881 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
45138896 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
45138910 TTTCTT
1 TTTCTT
45138916 GTTATCTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
14 14 0.25
15 37 0.66
16 5 0.09
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:45141353 original size:46 final size:46
Alignment explanation
Indices: 45141303--45141475 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
45141293 TGGTTGAGCA
45141303 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
45141349 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTTGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-AT-G
* * *
45141394 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
45141441 ACCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
45141476 GGGGCGGTAC
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 7 0.07
46 55 0.53
47 28 0.27
48 2 0.02
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:45141459 original size:93 final size:93
Alignment explanation
Indices: 45141300--45141470 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
45141290 GGATGGTTGA
** *
45141300 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCACCCAACTCGTTGAGT
*
45141365 TGAGTCTGAGTTCGTGAGATGTAACTTG
66 TGAGTCCGAGTTCGTGAGATGTAACTTG
* *
45141393 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-CACCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCACCCAA-CTCGTTGAG
45141457 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
45141471 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCACCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTTG
Found at i:45147454 original size:8 final size:8
Alignment explanation
Indices: 45147441--45147465 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45147431 CATCTTATAG
45147441 AACAAAAC
1 AACAAAAC
45147449 AACAAAAC
1 AACAAAAC
45147457 AACAAAAC
1 AACAAAAC
45147465 A
1 A
45147466 CCTACTCACT
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:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAAAAC
Found at i:45165121 original size:19 final size:18
Alignment explanation
Indices: 45165096--45165137 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
45165086 TGTGTGGTTC
45165096 ACTCATGTAGGGCCCACACG
1 ACTCATGT--GGCCCACACG
45165116 -CTCATGTGGCCCACACG
1 ACTCATGTGGCCCACACG
45165133 ACTCA
1 ACTCA
45165138 ATTCGGCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.17
Consensus pattern (18 bp):
ACTCATGTGGCCCACACG
Found at i:45173399 original size:27 final size:26
Alignment explanation
Indices: 45173359--45173464 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
45173349 AGGAAGCATC
*
45173359 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
45173386 CTGGTGGCTCTGCCACATAAATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
45173413 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
45173441 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
45173465 TTCTAGCAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 50 0.72
28 17 0.25
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:45173464 original size:54 final size:54
Alignment explanation
Indices: 45173359--45173468 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
45173349 AGGAAGCATC
*
45173359 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATAAATCTGTT
* * * *
45173413 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATAAATCTGTT
45173467 CT
1 CT
45173469 AGCAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATAAATCTGTT
Found at i:45175523 original size:31 final size:31
Alignment explanation
Indices: 45175475--45175540 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
45175465 AACCCTTCCT
* *
45175475 GCATTAAATCCAGCCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
45175506 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
45175537 GCAT
1 GCAT
45175541 AAAAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.23, G:0.12, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:45175817 original size:21 final size:21
Alignment explanation
Indices: 45175793--45175847 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
45175783 TCTACTGCCA
*
45175793 TCGCTGCTGCCTCTGGATCCC
1 TCGCTGCTGCCTCTGCATCCC
* * *
45175814 TCGCTGCTGTCACTGCCTCCC
1 TCGCTGCTGCCTCTGCATCCC
*
45175835 TAGCTGCTGCCTC
1 TCGCTGCTGCCTC
45175848 CTCTCTAAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.05, C:0.44, G:0.22, T:0.29
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCATCCC
Found at i:45176283 original size:13 final size:14
Alignment explanation
Indices: 45176257--45176285 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45176247 ACTAACGACG
45176257 AATTAAACCATTAT
1 AATTAAACCATTAT
45176271 AATTAAA-CATTAT
1 AATTAAACCATTAT
45176284 AA
1 AA
45176286 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:45181288 original size:9 final size:9
Alignment explanation
Indices: 45181267--45181339 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
45181257 TATGTATTAC
*
45181267 GTAAGTTAA
1 GTAAGTTAT
45181276 GTAAGCTT-T
1 GTAAG-TTAT
45181285 GTAAGTTAT
1 GTAAGTTAT
45181294 GTAAGTTAT
1 GTAAGTTAT
* *
45181303 GTTA-TGAT
1 GTAAGTTAT
* *
45181311 ATACATTTAT
1 GTA-AGTTAT
*
45181321 GTAAGGTAT
1 GTAAGTTAT
45181330 GTAAGTTAT
1 GTAAGTTAT
45181339 G
1 G
45181340 ATATGATATA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 6 0.12
9 37 0.74
10 7 0.14
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:45181331 original size:36 final size:36
Alignment explanation
Indices: 45181284--45181359 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
45181274 AAGTAAGCTT
* *
45181284 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
*
45181320 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
45181356 TGTA
1 TGTA
45181360 TTATGTAGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATACATTTA
Found at i:45181405 original size:13 final size:13
Alignment explanation
Indices: 45181387--45181413 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45181377 GTAGTGATAA
45181387 GATATATATTTAT
1 GATATATATTTAT
45181400 GATATATATTTAT
1 GATATATATTTAT
45181413 G
1 G
45181414 TTTTATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (13 bp):
GATATATATTTAT
Found at i:45181406 original size:56 final size:56
Alignment explanation
Indices: 45181341--45181456 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 56
45181331 TAAGTTATGA
*
45181341 TATGATATATATTTATGTATTATGTAGGTTGTGCAAG-TAGTGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGCAAGTTA-TGATAAGATATATATT
* * *
45181397 TATGATATATATTTATGTTTTATGTAAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGCAAGTTATGATAAGATATATATT
45181453 TATG
1 TATG
45181457 TATTATGTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 53 0.96
57 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGCAAGTTATGATAAGATATATATT
Found at i:45181437 original size:99 final size:96
Alignment explanation
Indices: 45181316--45181545 Score: 331
Period size: 99 Copynumber: 2.4 Consensus size: 96
45181306 ATGATATACA
*
45181316 TTTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATG-TAGGTTGTGCAAG-T
1 TTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTTA-GTTGTGCAAGTT
* *
45181379 AGTGATAAGATATATATTTATGATATATATTTATG
65 A-TGATAAGATATATATTTATG-TAT-TATGTAAG
* *
45181414 TTTTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTATTATGTTAGTTGTGTAAGTT
1 -TTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTTAGTTGTGCAAGTT
*
45181479 ATGATATGATATATATTTATGTATTATGTAAG
65 ATGATAAGATATATATTTATGTATTATGTAAG
*
45181511 TTT-TGTAAGTTATGTAAGTTATTATATGATATATA
1 TTTATGTAAGTTATGTAAGTTATGATATGATATATA
45181546 ATAAACATTA
Statistics
Matches: 121, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
95 30 0.25
96 3 0.02
97 6 0.05
98 3 0.02
99 75 0.62
100 4 0.03
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (96 bp):
TTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTTAGTTGTGCAAGTTA
TGATAAGATATATATTTATGTATTATGTAAG
Found at i:45181519 original size:9 final size:9
Alignment explanation
Indices: 45181416--45181532 Score: 66
Period size: 9 Copynumber: 13.4 Consensus size: 9
45181406 TATTTATGTT
45181416 TTATGTAAG
1 TTATGTAAG
*
45181425 TTGTGTAAG
1 TTATGTAAG
*
45181434 TTATGATATG
1 TTATG-TAAG
* * *
45181444 ATATAT-AT
1 TTATGTAAG
45181452 TTATGT-A-
1 TTATGTAAG
*
45181459 TTATGTTAG
1 TTATGTAAG
*
45181468 TTGTGTAAG
1 TTATGTAAG
*
45181477 TTATGATATG
1 TTATG-TAAG
* * *
45181487 ATATAT-AT
1 TTATGTAAG
45181495 TTATGT-A-
1 TTATGTAAG
45181502 TTATGTAAG
1 TTATGTAAG
*
45181511 TTTTGTAAG
1 TTATGTAAG
45181520 TTATGTAAG
1 TTATGTAAG
45181529 TTAT
1 TTAT
45181533 TATATGATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
7 12 0.15
8 12 0.15
9 45 0.56
10 12 0.15
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:45181537 original size:43 final size:43
Alignment explanation
Indices: 45181317--45181524 Score: 211
Period size: 43 Copynumber: 4.5 Consensus size: 43
45181307 TGATATACAT
* *
45181317 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
* * *
45181360 TTATGTAGGTTGTGCAAG-TAGTGATAAGATATATATTTATGATATATA
1 TTATGTAAGTTGTGTAAGTTA-TGATATGATATATATTTATG-----TA
*
45181408 TTTATGTTTTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 -TTATG---TAAGT---T-GTGTAAGTTATGATATGATATATATTTATGTA
*
45181459 TTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
*
45181502 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTGTGTAAGTTATG
45181525 TAAGTTATTA
Statistics
Matches: 138, Mismatches: 12, Indels: 30
0.77 0.07 0.17
Matches are distributed among these distances:
42 2 0.01
43 86 0.62
44 1 0.01
47 3 0.02
48 2 0.01
49 5 0.04
50 5 0.04
51 2 0.01
52 4 0.03
55 1 0.01
56 25 0.18
57 2 0.01
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
Found at i:45184976 original size:59 final size:59
Alignment explanation
Indices: 45184879--45184999 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
45184869 GGGGAAAAAT
* ** * *
45184879 GGGTAATTATTTTAGGGTTTCAGATTAGGGAAAATGGGGGAAATAAACTAATGAGAAGG
1 GGGTAATTATTTTAGGGATTCAGAGGAGGGAAAATGGGGGAAATAAACCAAGGAGAAGG
* *
45184938 GGGTGATTATTTTAGGGATTC-GAAGGAGGGAAAATGGGGGAAATAAACCAGGGAGAAGG
1 GGGTAATTATTTTAGGGATTCAG-AGGAGGGAAAATGGGGGAAATAAACCAAGGAGAAGG
45184997 GGG
1 GGG
45185000 AAAATGAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 1 0.02
59 53 0.98
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.22
Consensus pattern (59 bp):
GGGTAATTATTTTAGGGATTCAGAGGAGGGAAAATGGGGGAAATAAACCAAGGAGAAGG
Found at i:45185235 original size:114 final size:116
Alignment explanation
Indices: 45185087--45185674 Score: 590
Period size: 114 Copynumber: 5.1 Consensus size: 116
45185077 GGCATTTTCT
* * * *
45185087 CCTAGCGGCGCTAAAGGCAAACCAATTGCGGCGTTTTAACAT-AAACGCCACTAAAAAT-CAAAC
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
* * * * * * *
45185150 AAAACGATGCCGTTTTGATATAAATAGAATAAAATTTAGTGGCATTTTTCC
66 AAAACGACGCCGTTTTGATATAAACAAAATAACATTTAGTGGCGTTTATAC
* * *
45185201 CCTAGCGCCGCTAAAGGCAAATCTATTGTGGCG-TTTAACCCTAAAATGCCACTAAAAATCCAAA
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAATCCAAA
* * * *
45185265 AAAAAAGACGGCATTTTCATATAAACAAAATAACATTTAGTGGCGTTT-TATC
65 AAAAACGACGCCGTTTTGATATAAACAAAATAACATTTAGTGGCGTTTATA-C
* * * * *
45185317 TCCAAGCGCCGCTAAAGGTGAAA-CTATTGTGGCGTTTTACCCTAAAATGCCACTAAAAATCC-A
1 -CCTAGCGCCGCTAAAGG-CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAA
* * *
45185380 ATAAAACTACACCGTTTTGATATAAACAAAATAACCA-TTAGTGGCGTTTATAC
64 AAAAAACGACGCCGTTTTGATATAAACAAAATAA-CATTTAGTGGCGTTTATAC
* ** * * *
45185433 CCTAGCGCTGCTAAA-TTAAACCTATTGCGGCGTTTTAACCAAAAACGCGACTAAAAATCC-ATA
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
* * * * *
45185496 AAAGCTACACCGTTTTGATATAAAAAAAATAACCA-TTAGTGGCGTTTATAA
66 AAAACGACGCCGTTTTGATATAAACAAAATAA-CATTTAGTGGCGTTTATAC
* *
45185547 CCTAGCGCCGCTAAA-TCAAACCTATTGCGGCGTTTTAACCTAAAAGGCCACTAAAAATCCAAAA
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
* * * * * * * * * *
45185611 AAAATGATGTCATCTAG-TAT-AATAGAATAACCTTTAGCGGCGTTTATAC
66 AAAACGACGCCGTTTTGATATAAACAAAATAACATTTAGTGGCGTTTATAC
45185660 CCTAGCGCCGCTAAA
1 CCTAGCGCCGCTAAA
45185675 TCCAATTTTT
Statistics
Matches: 401, Mismatches: 61, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
112 1 0.00
113 45 0.11
114 172 0.43
115 39 0.10
116 84 0.21
117 53 0.13
118 7 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (116 bp):
CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
AAAACGACGCCGTTTTGATATAAACAAAATAACATTTAGTGGCGTTTATAC
Found at i:45186081 original size:22 final size:21
Alignment explanation
Indices: 45186053--45186098 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
45186043 TCCAACCTTT
45186053 AAACCATACA-CCATAAACCCT
1 AAACCATA-ATCCATAAACCCT
*
45186074 AAACCCATAATCCATAAACCTT
1 AAA-CCATAATCCATAAACCCT
45186096 AAA
1 AAA
45186099 ATAGTAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCATAATCCATAAACCCT
Found at i:45186083 original size:15 final size:15
Alignment explanation
Indices: 45186052--45186093 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
45186042 CTCCAACCTT
*
45186052 TAAACCATACA-CCA
1 TAAACCATAAACCCA
*
45186066 TAAACCCTAAACCCA
1 TAAACCATAAACCCA
*
45186081 TAATCCATAAACC
1 TAAACCATAAACC
45186094 TTAAAATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAACCATAAACCCA
Found at i:45186153 original size:14 final size:14
Alignment explanation
Indices: 45186117--45186161 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
45186107 TCATACACTT
*
45186117 TAAACCCTAAACCA
1 TAAACCCTAAACTA
*
45186131 T-ACCTCCTAAACTA
1 TAAAC-CCTAAACTA
45186145 TAAACCCTAAACTA
1 TAAACCCTAAACTA
45186159 TAA
1 TAA
45186162 TGATAATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:45186497 original size:14 final size:14
Alignment explanation
Indices: 45186463--45186509 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
45186453 TTAAACCTCT
* *
45186463 AACCCCAAATCCCA
1 AACCACAAACCCCA
* *
45186477 AATCACAAACCCTA
1 AACCACAAACCCCA
45186491 AACCACAAACCCCA
1 AACCACAAACCCCA
45186505 AACCA
1 AACCA
45186510 TAAATCTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.45, G:0.00, T:0.06
Consensus pattern (14 bp):
AACCACAAACCCCA
Found at i:45186502 original size:35 final size:35
Alignment explanation
Indices: 45186449--45186542 Score: 91
Period size: 35 Copynumber: 2.7 Consensus size: 35
45186439 CACCATATTT
* *
45186449 ACCCTTAAACCTCTAACCCCAAATCC-CAAATCACAA
1 ACCC-TAAACCACAAACCCCAAA-CCACAAATCACAA
* *
45186485 ACCCTAAACCACAAACCCCAAACCATAAATCTCAA
1 ACCCTAAACCACAAACCCCAAACCACAAATCACAA
** * *
45186520 ACTATAAACCATAAACCCAAAAC
1 ACCCTAAACCACAAACCCCAAAC
45186543 TCTAAGCCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 2 0.04
35 43 0.88
36 4 0.08
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (35 bp):
ACCCTAAACCACAAACCCCAAACCACAAATCACAA
Done.