Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 257 of 343
Found at i:84855089 original size:22 final size:22
Alignment explanation
Indices: 84855061--84855105 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
84855051 AGATTATGGT
*
84855061 AGGCCCACAGTCGATCGGAACA
1 AGGCCCACAGTCGATCAGAACA
*
84855083 AGGCCCACAGTCTATCAGAACA
1 AGGCCCACAGTCGATCAGAACA
84855105 A
1 A
84855106 CCCGTGCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (22 bp):
AGGCCCACAGTCGATCAGAACA
Found at i:84862822 original size:131 final size:129
Alignment explanation
Indices: 84862588--84862927 Score: 445
Period size: 131 Copynumber: 2.6 Consensus size: 129
84862578 TAACTATTTA
*
84862588 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGGTGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
** * * *
84862653 GTGCTGGGTTGTAATTTGCCGCTTGTTCGAAATAATCGAATATTC-CTTTGGAATTTCACTCATG
65 GTGCTGGGTTGCGATTTGCCGCTTGTTCAAAATAATCGAATATTCTC-TTAGAATTTCACTCACG
84862717 T
129 T
* *
84862718 CTTTAAAAATTCTTCAAAACGAGGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * *
84862783 CGTGCTGGGCTGCGATTT-CCTGTTTGTTCAAAATAATCGAATATTCTCTTAGAATTTCACTTAC
64 CGTGCTGGGTTGCGATTTGCC-GCTTGTTCAAAATAATCGAATATTCTCTTAGAATTTCACTCAC
84862847 GT
128 GT
** * * * *
84862849 TTTCTAAATTC-TAAAAC-AAGGCAATGTTCAATGTTTGGAAATCCGGGGAATCGTGCCCTACCG
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
*
84862912 TGCTGGGTTTCGATTT
66 TGCTGGGTTGCGATTT
84862928 TTCTTTGGAC
Statistics
Matches: 185, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
127 54 0.29
128 5 0.03
129 1 0.01
130 13 0.07
131 111 0.60
132 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (129 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTGCCGCTTGTTCAAAATAATCGAATATTCTCTTAGAATTTCACTCACGT
Found at i:84874537 original size:89 final size:89
Alignment explanation
Indices: 84874423--84875076 Score: 890
Period size: 89 Copynumber: 7.4 Consensus size: 89
84874413 TAGTGAATTC
84874423 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
* *
84874488 TAGCAGGGTAACAGGCCGAAGATT
66 TAGTAGGGTAACAGGCTGAAGATT
* *
84874512 ACAAATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCTTTAACCCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
* * *
84874577 TAGCAGGGTAACAAGCCGAAGATT
66 TAGTAGGGTAACAGGCTGAAGATT
* * ** ** *
84874601 ACAGATCTTGTCTCTCTGAAGTCGCAGTGGAACAGATCGAAGACGGTGAGCTTTAACCCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
* *
84874666 TTGTAGGGTAACAGGCCGAAGATT
66 TAGTAGGGTAACAGGCTGAAGATT
* * *
84874690 GA-AGATCTTGTCTCCCTGAAGTTACAGTAGAGCAGATCGAAGAAAGCAAGCCTTAACCCCCTAA
1 -ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAA
*
84874754 GTAGTAGGGTAATAGGCTGAAGATT
65 GTAGTAGGGTAACAGGCTGAAGATT
* * *
84874779 GCAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAG-AAGCAAGCCTTAACCCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
84874843 TAGTAGGGTAACAGGCTGAAGATT
66 TAGTAGGGTAACAGGCTGAAGATT
* * * ** **
84874867 ACAAATTTTGTCTCCCTGAAGTTTCAGTGGAACAGATCGAAGACGGTGAGCCTTAACCCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
84874932 TAGTAGGGTAACAGGCTG-A-ATT
66 TAGTAGGGTAACAGGCTGAAGATT
* ** *
84874954 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGTGAGCCTTAACTCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
*
84875019 TGGTAGGGTAACAGGCTG-A-ATT
66 TAGTAGGGTAACAGGCTGAAGATT
* * * *
84875041 AC-GAGTCTTATCTCCCTGAAGTGGCAGAGGAGCAGA
1 ACAGA-TCTTGTCTCCCTGAAGTTGCAGTGGAACAGA
84875077 CTAAATATAA
Statistics
Matches: 513, Mismatches: 48, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
86 2 0.00
87 113 0.22
88 83 0.16
89 314 0.61
90 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (89 bp):
ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAG
TAGTAGGGTAACAGGCTGAAGATT
Found at i:84874598 original size:44 final size:44
Alignment explanation
Indices: 84874460--84874598 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 44
84874450 TGGAACAGAT
* *
84874460 CGAAGAAAGCAAGCCTTAACCCCCTAAGTAGCAGGGTAACAGGC
1 CGAAGAAAGCAAGCTTTAACCCCCTAAGTAGCAGGGTAACAAGC
* * * * *
84874504 CGAAGATTA-CAAATCTTGT--CTCCCTGAAGTTGCAGTGG-AAC-AGAT
1 CGAAGA-AAGC-AAGCTT-TAACCCCCT-AAGTAGCAG-GGTAACAAG-C
84874549 CGAAGAAAGCAAGCTTTAACCCCCTAAGTAGCAGGGTAACAAGC
1 CGAAGAAAGCAAGCTTTAACCCCCTAAGTAGCAGGGTAACAAGC
84874593 CGAAGA
1 CGAAGA
84874599 TTACAGATCT
Statistics
Matches: 72, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
43 3 0.04
44 36 0.50
45 30 0.42
46 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (44 bp):
CGAAGAAAGCAAGCTTTAACCCCCTAAGTAGCAGGGTAACAAGC
Found at i:84875057 original size:42 final size:43
Alignment explanation
Indices: 84874925--84875064 Score: 112
Period size: 43 Copynumber: 3.3 Consensus size: 43
84874915 AGCCTTAACC
* *
84874925 CCCT-AAGTAGTAGGGTAACAGGCTGAATTAC-AGATCTTGTCT
1 CCCTGAAGTGGTAGGGTAACAGGCTGAATTACGAG-TCTTATCT
* * * * * *
84874967 CCCTGAAGTTGCAGTGG-AACA-GATCGAA-GACAGTGAGCCTTAACT
1 CCCTGAAGTGGTAG-GGTAACAGGCT-GAATTAC---GAGTCTTATCT
84875012 CCCT-AAGTGGTAGGGTAACAGGCTGAATTACGAGTCTTATCT
1 CCCTGAAGTGGTAGGGTAACAGGCTGAATTACGAGTCTTATCT
84875054 CCCTGAAGTGG
1 CCCTGAAGTGG
84875065 CAGAGGAGCA
Statistics
Matches: 74, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
42 21 0.28
43 22 0.30
44 16 0.22
45 13 0.18
46 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (43 bp):
CCCTGAAGTGGTAGGGTAACAGGCTGAATTACGAGTCTTATCT
Found at i:84875881 original size:21 final size:21
Alignment explanation
Indices: 84875835--84875882 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
84875825 TGGTCTTCAA
*
84875835 TTTTTTTTCTTTTGCATGTAT
1 TTTTTTTTCTTTTGAATGTAT
*
84875856 CTTTTTTTCTTTTAGAAT-T-T
1 TTTTTTTTCTTTT-GAATGTAT
84875876 TTTTTTT
1 TTTTTTT
84875883 AAAAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.30
21 13 0.57
22 3 0.13
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTTTTTTCTTTTGAATGTAT
Found at i:84876773 original size:40 final size:40
Alignment explanation
Indices: 84876729--84876808 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
84876719 ATTTTATACA
84876729 TATAATTCCTTTTTAATTTATTCTTATATTTTATTATATG
1 TATAATTCCTTTTTAATTTATTCTTATATTTTATTATATG
84876769 TATAATTCCTTTTTAATTTATTCTTATATTTTATTATATG
1 TATAATTCCTTTTTAATTTATTCTTATATTTTATTATATG
84876809 ATCCTACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (40 bp):
TATAATTCCTTTTTAATTTATTCTTATATTTTATTATATG
Found at i:84877921 original size:131 final size:129
Alignment explanation
Indices: 84877683--84878022 Score: 407
Period size: 131 Copynumber: 2.6 Consensus size: 129
84877673 TAACTATTCA
* * *
84877683 TTTAAAAATTCTTTAAAACGAATGCAATATTCGGTGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * * * * *
84877748 GTGCTGGGTTGCAATTTTTCGCTTGTTCGAAATAATCAAATATTCCTTTGGAATTTCACTCATGT
65 GTGCTGGGTTACGATTTCTCACTTGTTCAAAATAATCAAATATTCCCTTAGAATTTCACTCACGT
* * *
84877813 CTTTAAAAATTCTTCAAAACGAGGGTAATGTTCGATGTTTGGCAGTTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* *
84877878 CGTGCTGGGTTACGATTTC-CTATTTGTTCAAAATAATCGAATATTCCCTTAGAATTTCACTCAC
64 CGTGCTGGGTTACGATTTCTC-ACTTGTTCAAAATAATCAAATATTCCCTTAGAATTTCACTCAC
84877942 GT
128 GT
** * * * * *
84877944 TTTCTAAATTC-TAAAAC-AAGGCAATGTTCAATGTTTAGAAATCCGGGGAATCGTGCCCTACCG
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
*
84878007 TGCTGGGTTTCGATTT
66 TGCTGGGTTACGATTT
84878023 TTCGTTAGAC
Statistics
Matches: 180, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
127 53 0.29
128 5 0.03
129 1 0.01
130 12 0.07
131 109 0.61
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (129 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
TGCTGGGTTACGATTTCTCACTTGTTCAAAATAATCAAATATTCCCTTAGAATTTCACTCACGT
Found at i:84880408 original size:85 final size:85
Alignment explanation
Indices: 84880265--84880434 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
84880255 CAATTAAACC
84880265 CCGAATTAATCGCTTAATTTGATACCAAATCAAACTACATTGAAATAGACAAAAACGAAATTCAA
1 CCGAATTAATCGCTTAATTTGATACCAAATCAAACTACATTGAAATAGACAAAAACGAAATTCAA
84880330 ATGTTCAATGCTTACCCGAT
66 ATGTTCAATGCTTACCCGAT
84880350 CCGAATTAATCGCTTAATTTGATACCAAATCAAACTACATTGAAATAGACAAAAACGAAATTCAA
1 CCGAATTAATCGCTTAATTTGATACCAAATCAAACTACATTGAAATAGACAAAAACGAAATTCAA
84880415 ATGTTCAATGCTTACCCGAT
66 ATGTTCAATGCTTACCCGAT
84880435 TCCCCAAAAC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (85 bp):
CCGAATTAATCGCTTAATTTGATACCAAATCAAACTACATTGAAATAGACAAAAACGAAATTCAA
ATGTTCAATGCTTACCCGAT
Found at i:84893466 original size:15 final size:17
Alignment explanation
Indices: 84893446--84893482 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
84893436 AAAGGTTGAG
84893446 ATGAATATAT-TTGG-A
1 ATGAATATATATTGGTA
*
84893461 ATGAATGTATATTGGTA
1 ATGAATATATATTGGTA
84893478 ATGAA
1 ATGAA
84893483 ATTGATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 4 0.21
17 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATGAATATATATTGGTA
Found at i:84898032 original size:13 final size:13
Alignment explanation
Indices: 84898000--84898032 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
84897990 GTGCGCATAG
*
84898000 GACACGAGTGCAT
1 GACACGGGTGCAT
84898013 GACACGGGTGCAT
1 GACACGGGTGCAT
84898026 GACACGG
1 GACACGG
84898033 CCGTGTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.36, T:0.12
Consensus pattern (13 bp):
GACACGGGTGCAT
Found at i:84898183 original size:17 final size:18
Alignment explanation
Indices: 84898158--84898191 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84898148 CATTTGGGCC
84898158 GTGTGGG-CCACACGGGT
1 GTGTGGGCCCACACGGGT
*
84898175 GTGTTGGCCCACACGGG
1 GTGTGGGCCCACACGGG
84898192 CAGGCCACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.26, G:0.44, T:0.18
Consensus pattern (18 bp):
GTGTGGGCCCACACGGGT
Found at i:84906586 original size:17 final size:17
Alignment explanation
Indices: 84906564--84906596 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
84906554 TTAATTCAAG
84906564 ATAAATCAATCAAAATC
1 ATAAATCAATCAAAATC
*
84906581 ATAAATCAATTAAAAT
1 ATAAATCAATCAAAAT
84906597 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAATCAATCAAAATC
Found at i:84907170 original size:39 final size:38
Alignment explanation
Indices: 84907096--84907170 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
84907086 TAAAATCTAC
*
84907096 TAAAAAATAAAAAATAAAAAAATAAAAAGTAGTTTTAA
1 TAAAAAATAAAAAATAAAAAAATAAAAAATAGTTTTAA
* *
84907134 TAAAAATTAAAAACATAAAATAATAAATAAAT-GTTTT
1 TAAAAAATAAAAA-ATAAAAAAATAAA-AAATAGTTTT
84907171 TAAACATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 12 0.38
39 17 0.53
40 3 0.09
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (38 bp):
TAAAAAATAAAAAATAAAAAAATAAAAAATAGTTTTAA
Found at i:84929636 original size:10 final size:10
Alignment explanation
Indices: 84929623--84929648 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
84929613 AAGAGTAGGT
84929623 TAATAAATAA
1 TAATAAATAA
84929633 TAATAAATAA
1 TAATAAATAA
84929643 TAATAA
1 TAATAA
84929649 TAAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:84929646 original size:13 final size:13
Alignment explanation
Indices: 84929628--84929653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84929618 TAGGTTAATA
84929628 AATAATAATAAAT
1 AATAATAATAAAT
84929641 AATAATAATAAAT
1 AATAATAATAAAT
84929654 TAAATTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:84931687 original size:19 final size:19
Alignment explanation
Indices: 84931632--84931692 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
84931622 ATCAAAACAC
* *
84931632 GATTTTCCTAAAAACTAA-
1 GATTTTCCTAAATACAAAT
* *
84931650 GGTTTTCCTAAATATAAAT
1 GATTTTCCTAAATACAAAT
84931669 GATTTTACCTAAA-ACAAAT
1 GATTTT-CCTAAATACAAAT
*
84931688 TATTT
1 GATTT
84931693 GGGTTTCCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 14 0.41
19 14 0.41
20 6 0.18
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (19 bp):
GATTTTCCTAAATACAAAT
Found at i:84935924 original size:19 final size:19
Alignment explanation
Indices: 84935889--84935926 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
84935879 TTGCAATTTA
*
84935889 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
84935908 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
84935927 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:84948449 original size:5 final size:5
Alignment explanation
Indices: 84948441--84948467 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
84948431 ATTTCATTTG
84948441 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
84948468 CCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:84956886 original size:18 final size:18
Alignment explanation
Indices: 84956863--84956900 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
84956853 TGCTTCAGTG
*
84956863 GTTAAGTGTTCTTTGTGT
1 GTTAAGTGTTCTTGGTGT
84956881 GTTAAGTGTTCTTGGTGT
1 GTTAAGTGTTCTTGGTGT
84956899 GT
1 GT
84956901 GTGTGTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.32, T:0.53
Consensus pattern (18 bp):
GTTAAGTGTTCTTGGTGT
Found at i:84959590 original size:27 final size:27
Alignment explanation
Indices: 84959552--84959605 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
84959542 CATATATACG
84959552 TGTTAGAATGCCTAAAAACTTAAAAAT
1 TGTTAGAATGCCTAAAAACTTAAAAAT
84959579 TGTTAGAATGCCTAAAAACTTAAAAAT
1 TGTTAGAATGCCTAAAAACTTAAAAAT
84959606 CATGTTTTTC
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:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (27 bp):
TGTTAGAATGCCTAAAAACTTAAAAAT
Found at i:84961326 original size:94 final size:94
Alignment explanation
Indices: 84961193--84961433 Score: 317
Period size: 94 Copynumber: 2.6 Consensus size: 94
84961183 GCTGGACCAG
* *
84961193 GGTTACAGAGCATTACTAGACGAACAAAATAATAAACCATTCAAATCATACATCCAAATGTAAAA
1 GGTTACAGAGCATTACTAGACAAACAAAATAGTAAACCATTCAAATCATACATCCAAATGTAAAA
** * * *
84961258 TCC-CTAACCTTTATCCGTCG-TCGGAACAA
66 -CCTCTAACCCGTATACATCGCT-GAAACAA
* * *
84961287 GGTTA-AGTAGCATTACCAGACAAACAGAATAGTAAACCATTCAAATCATACATCCAAATGTAAC
1 GGTTACAG-AGCATTACTAGACAAACAAAATAGTAAACCATTCAAATCATACATCCAAATGTAAA
*
84961351 ACCTCTAACCCGTATACATCGCTGAAACAG
65 ACCTCTAACCCGTATACATCGCTGAAACAA
* *
84961381 GGTTACAGAGCATTACTGGACAAACATAATAGTAAACCATTCAAATCATACAT
1 GGTTACAGAGCATTACTAGACAAACAAAATAGTAAACCATTCAAATCATACAT
84961434 AAATACAAAC
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
93 4 0.03
94 122 0.95
95 3 0.02
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (94 bp):
GGTTACAGAGCATTACTAGACAAACAAAATAGTAAACCATTCAAATCATACATCCAAATGTAAAA
CCTCTAACCCGTATACATCGCTGAAACAA
Found at i:84962705 original size:33 final size:33
Alignment explanation
Indices: 84962681--84962798 Score: 200
Period size: 33 Copynumber: 3.6 Consensus size: 33
84962671 CACTTGAGTC
*
84962681 AATCCATCCATCACACCAATGCTCATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
*
84962714 AATCCAACCATCACACCAATGTTCATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
*
84962747 AAACCAACCATCACACCAATGCTCATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
*
84962780 AATCCAACCAACACACCAA
1 AATCCAACCATCACACCAA
84962799 ATAAAGAGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.42, C:0.34, G:0.08, T:0.17
Consensus pattern (33 bp):
AATCCAACCATCACACCAATGCTCATAAGAGCT
Found at i:84972354 original size:22 final size:22
Alignment explanation
Indices: 84972313--84972354 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
84972303 ATACAGTGAT
* *
84972313 AAAATTACATTTTAACTTTAAA
1 AAAATTACAATTCAACTTTAAA
*
84972335 AAAATTACAATTCAATTTTA
1 AAAATTACAATTCAACTTTA
84972355 GTGTTTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTACAATTCAACTTTAAA
Found at i:84973533 original size:31 final size:30
Alignment explanation
Indices: 84973490--84973549 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
84973480 TGATATATAC
*
84973490 ACAATATGGTA-TTAAGAATATATATACATAT
1 ACAATATAGTATTTAA-AA-ATATATACATAT
84973521 ACAATATAGTATTTAAAAATATATACATA
1 ACAATATAGTATTTAAAAATATATACATA
84973550 AGATGGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.41
31 12 0.44
32 4 0.15
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (30 bp):
ACAATATAGTATTTAAAAATATATACATAT
Found at i:84973561 original size:24 final size:23
Alignment explanation
Indices: 84973534--84973641 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 23
84973524 ATATAGTATT
84973534 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
84973558 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
* * *
84973582 TAAGAAATATATATAAT-TAATAATA
1 TAA-AAATATATA-CATGAAAT-GTA
* *
84973607 TTAAAAATATATACATGACATATA
1 -TAAAAATATATACATGAAATGTA
84973631 TAAAACATATA
1 TAAAA-ATATA
84973642 CAATATATAC
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
23 5 0.07
24 33 0.49
25 23 0.34
26 7 0.10
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:84973742 original size:23 final size:23
Alignment explanation
Indices: 84973715--84973810 Score: 106
Period size: 23 Copynumber: 4.2 Consensus size: 23
84973705 ACACACATAT
* *
84973715 ATATATAAATAATAGTATTAGAA
1 ATATATAAATAATAGTATAAAAA
* *
84973738 ATATACATATAATAGTATAAAAA
1 ATATATAAATAATAGTATAAAAA
* * *
84973761 ATATATAACTAATAATAT-TAAA
1 ATATATAAATAATAGTATAAAAA
84973783 ATATATATAATAATA-TATAAAAA
1 ATATATA-AATAATAGTATAAAAA
84973806 ATATA
1 ATATA
84973811 ATATTGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 13 0.22
23 47 0.78
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATATAAATAATAGTATAAAAA
Found at i:84973811 original size:43 final size:46
Alignment explanation
Indices: 84973715--84973810 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
84973705 ACACACATAT
*
84973715 ATATATAAATAATAGTATTAGAAATATACATATAATAGTATAAAAA
1 ATATATAAATAATAATATTAGAAATATACATATAATAGTATAAAAA
* *
84973761 ATATATAACTAATAATATTA-AAATATATATAATAATA-TATAAAAA
1 ATATATAAATAATAATATTAGAAATATACAT-ATAATAGTATAAAAA
84973806 ATATA
1 ATATA
84973811 ATATTGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 22 0.48
46 24 0.52
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (46 bp):
ATATATAAATAATAATATTAGAAATATACATATAATAGTATAAAAA
Found at i:84973960 original size:35 final size:35
Alignment explanation
Indices: 84973878--84973953 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
84973868 ACATTTACAT
*
84973878 AATATATACATATTAGAAATAAATAACGAGTAATAAT
1 AATA-ATA-ATATTAGAAATAAATAACGAGTAATAAA
* *
84973915 AATAATAATATTAGAAA-GAATAATGAAGTATATAAA
1 AATAATAATATTAGAAATAAATAACG-AGTA-ATAAA
84973951 AAT
1 AAT
84973954 CAAATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 6 0.18
35 14 0.41
36 10 0.29
37 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (35 bp):
AATAATAATATTAGAAATAAATAACGAGTAATAAA
Found at i:84974037 original size:17 final size:16
Alignment explanation
Indices: 84974011--84974043 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
84974001 CTATATATAA
84974011 ATATATATACATACAT
1 ATATATATACATACAT
84974027 ATATAATATACATACAT
1 ATAT-ATATACATACAT
84974044 TAATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:84974058 original size:3 final size:3
Alignment explanation
Indices: 84974044--84974207 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
84974034 ATACATACAT
* *
84974044 TAA TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA
* * * ** * *
84974090 TAA TAA TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG
1 TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * *
84974135 TAA TGAA -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA
* *
84974180 TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
84974208 TGTAAAAAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 13 0.11
3 94 0.79
4 11 0.09
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:84976164 original size:28 final size:30
Alignment explanation
Indices: 84976101--84976164 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
84976091 GTTACAAAAA
* *
84976101 ATTTTTTATACTTTTTAAATAATTTTAATG
1 ATTTTTTATAATTTTAAAATAATTTTAATG
*
84976131 A-TTTTTA-AATTTTAAAATAATTTTTAT-
1 ATTTTTTATAATTTTAAAATAATTTTAATG
84976158 ATTTTTT
1 ATTTTTT
84976165 TTGAAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
29 6 0.20
30 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
ATTTTTTATAATTTTAAAATAATTTTAATG
Found at i:84982171 original size:11 final size:11
Alignment explanation
Indices: 84982155--84982187 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
84982145 CTTAGTCAAG
84982155 TTGTTTTGCAC
1 TTGTTTTGCAC
*
84982166 TTGTTTTGCAG
1 TTGTTTTGCAC
84982177 TTGTTTTGCAC
1 TTGTTTTGCAC
84982188 ATGTGCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.55
Consensus pattern (11 bp):
TTGTTTTGCAC
Found at i:84989043 original size:33 final size:32
Alignment explanation
Indices: 84989005--84989094 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 32
84988995 GAGATGTACA
84989005 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGT-GTACACACAAAGTATACCT
* *
84989038 TTCCTTTTCATA-TAGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGT-GTACACACAAAGTATACCT
** *
84989071 AACATTTCCAAGTGTACACACAAA
1 TTCCTTTCCAAGTGTACACACAAA
84989095 TTGTACATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
32 11 0.23
33 35 0.74
34 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (32 bp):
TTCCTTTCCAAGTGTACACACAAAGTATACCT
Found at i:84989115 original size:32 final size:33
Alignment explanation
Indices: 84989007--84989120 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
84988997 GATGTACATT
* * **
84989007 CCTTTCCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTCCAAGTAGTACACACAAAGTATACATAA
* * *
84989040 CCTTTTCATA-TAGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTAGTACACACAAAGTATACATAA
* * *
84989073 CATTTCCAAGT-GTACACACAAATTGTACATAA
1 CCTTTCCAAGTAGTACACACAAAGTATACATAA
* *
84989105 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTAGTAC
84989121 CATTTGGGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
32 27 0.42
33 37 0.57
34 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTAGTACACACAAAGTATACATAA
Found at i:84991880 original size:26 final size:26
Alignment explanation
Indices: 84991842--84991899 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
84991832 CATGAAATTC
84991842 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84991868 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84991894 TTATCA
1 TTATCA
84991900 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84991910 original size:10 final size:10
Alignment explanation
Indices: 84991895--84991961 Score: 55
Period size: 10 Copynumber: 6.2 Consensus size: 10
84991885 CCTAACCTAT
84991895 TATCAATTTG
1 TATCAATTTG
84991905 TATCAATTTG
1 TATCAATTTG
*
84991915 TACCATAAATTATGG
1 T---ATCAATT-T-G
*
84991930 ATATCAA-GTG
1 -TATCAATTTG
84991940 TATCAATTTG
1 TATCAATTTG
84991950 TATCAATTTG
1 TATCAATTTG
84991960 TA
1 TA
84991962 CCATAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 6 0.13
10 26 0.57
11 1 0.02
13 10 0.22
14 1 0.02
15 1 0.02
16 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (10 bp):
TATCAATTTG
Found at i:84991959 original size:45 final size:45
Alignment explanation
Indices: 84991895--84991994 Score: 184
Period size: 45 Copynumber: 2.2 Consensus size: 45
84991885 CCTAACCTAT
84991895 TATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTG
1 TATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTG
84991940 TATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTG
1 TATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTG
*
84991985 TA-CATTTTGT
1 TATCAATTTGT
84991995 CTACAACAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 7 0.13
45 47 0.87
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (45 bp):
TATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTG
Found at i:84991986 original size:25 final size:25
Alignment explanation
Indices: 84991913--84991987 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
84991903 TGTATCAATT
84991913 TGTACCATAAATTATGGATATCAAG
1 TGTACCATAAATTATGGATATCAAG
* *
84991938 TGT---ATCAATT-T-G-TATCAATT
1 TGTACCATAAATTATGGATATCAA-G
84991958 TGTACCATAAATTATGGATATCAAG
1 TGTACCATAAATTATGGATATCAAG
84991983 TGTAC
1 TGTAC
84991988 ATTTTGTCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 6 0.15
20 4 0.10
21 1 0.03
22 6 0.15
23 6 0.15
24 1 0.03
25 9 0.23
26 6 0.15
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (25 bp):
TGTACCATAAATTATGGATATCAAG
Found at i:84997353 original size:25 final size:27
Alignment explanation
Indices: 84997316--84997368 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
84997306 TCAAACATGC
84997316 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
84997342 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
84997368 A
1 A
84997369 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:84998893 original size:26 final size:26
Alignment explanation
Indices: 84998857--84998940 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84998847 CATGAAATTC
84998857 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84998883 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84998909 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84998935 TTATCA
1 TTATCA
84998941 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85001174 original size:26 final size:26
Alignment explanation
Indices: 85001137--85001203 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
85001127 TATTCTGACC
* *
85001137 CACAGCTTGTGTGAGCAGGCTCATTT
1 CACAGCTCGTGTGAGCAGACTCATTT
85001163 CACAGCTCGTGTGAGCAGACTCATTT
1 CACAGCTCGTGTGAGCAGACTCATTT
*
85001189 CATAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
85001204 TAACGATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACTCATTT
Found at i:85005149 original size:15 final size:15
Alignment explanation
Indices: 85005130--85005169 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
85005120 ATGAGCCTTC
*
85005130 AAAAATAAATAGAAAT
1 AAAAATAAAGA-AAAT
*
85005146 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
85005161 AAAAATAAA
1 AAAAATAAA
85005170 ATGAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:85014486 original size:46 final size:47
Alignment explanation
Indices: 85014411--85014546 Score: 181
Period size: 46 Copynumber: 3.0 Consensus size: 47
85014401 TTATCTTCAA
* * * *
85014411 CATGATGCCATAGTATCTTTCAACTATGGTCTTACT-CGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTGC-ATTTCATGT
85014457 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TGCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTGCATTTCATGT
* *
85014503 CACGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTGCATTTCAT
85014547 TTCAGAGAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
45 5 0.06
46 76 0.94
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTGCATTTCATGT
Found at i:85014969 original size:23 final size:23
Alignment explanation
Indices: 85014937--85015052 Score: 119
Period size: 23 Copynumber: 5.0 Consensus size: 23
85014927 CAAAGAACTA
*
85014937 TATCGTGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
*
85014960 TATCGGGAAGCTC-CGAATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
85014982 ATATATCGGGAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
* *
85015008 TATCGGGAGGCTCACAAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
85015031 TATCGGGAAGCTCACGAAGAGC
1 TATCGGGAAGCTCACGAAGAGC
85015053 TGTATTTCGG
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
22 8 0.11
23 45 0.61
24 4 0.05
25 15 0.20
26 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.16
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:85014982 original size:71 final size:72
Alignment explanation
Indices: 85014907--85015048 Score: 164
Period size: 71 Copynumber: 2.0 Consensus size: 72
85014897 AACTCAATAG
* * *
85014907 AGCCA-AAATCAGGTAGTTCACAAAGAACTA-TATCGTGAAGCTCACGAAGAGCCTATCGGGAAG
1 AGCCATAAATCAGGAAGTTCA-AAAGAAC-ACTATCGGGAAGCTCACAAAGAGCCTATCGGGAAG
85014970 CTC-CGAAT
64 CTCACGAAT
* * ** * *
85014978 AGCCATATATCGGGAAGTTCAAGCGAGCACTATCGGGAGGCTCACAAAGAGCCTATCGGGAAGCT
1 AGCCATAAATCAGGAAGTTCAAAAGAACACTATCGGGAAGCTCACAAAGAGCCTATCGGGAAGCT
85015043 CACGAA
66 CACGAA
85015049 GAGCTGTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
70 1 0.02
71 42 0.71
72 16 0.27
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (72 bp):
AGCCATAAATCAGGAAGTTCAAAAGAACACTATCGGGAAGCTCACAAAGAGCCTATCGGGAAGCT
CACGAAT
Found at i:85016649 original size:18 final size:18
Alignment explanation
Indices: 85016601--85016649 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
85016591 ATAATATAAT
85016601 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
85016620 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
85016641 TATTTAATA
1 TATTTAATA
85016650 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:85016816 original size:26 final size:24
Alignment explanation
Indices: 85016758--85016816 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
85016748 ATATCTTATA
85016758 ATATAA-TTATAATAAATTAATTT
1 ATATAATTTATAATAAATTAATTT
*
85016781 AATATCATTTATTAATAAATATATATTT
1 -ATATAATTTA-TAATAAAT-TA-ATTT
85016809 -TATAATTT
1 ATATAATTT
85016817 GAAATCTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 15 0.52
27 2 0.07
28 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATAATTTATAATAAATTAATTT
Found at i:85017839 original size:59 final size:59
Alignment explanation
Indices: 85017747--85017869 Score: 228
Period size: 59 Copynumber: 2.1 Consensus size: 59
85017737 GGCATATATG
85017747 TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
1 TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
* *
85017806 TATTAGAATCTAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTATAAT
1 TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
85017865 TATTA
1 TATTA
85017870 ATTAATATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (59 bp):
TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
Found at i:85017862 original size:22 final size:20
Alignment explanation
Indices: 85017832--85017880 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
85017822 TTTATTTAGG
85017832 TTATATATAAATATTATATATAA
1 TTAT-TATAAATATTA-AT-TAA
*
85017855 TTATTATAATTATTAATTAA
1 TTATTATAAATATTAATTAA
85017875 -TATTAT
1 TTATTAT
85017881 GGTTTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 2 0.08
22 10 0.40
23 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATAAATATTAATTAA
Found at i:85017873 original size:13 final size:13
Alignment explanation
Indices: 85017832--85017862 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
85017822 TTTATTTAGG
*
85017832 TTATATATAAATA
1 TTATATATAATTA
85017845 TTATATATAATTA
1 TTATATATAATTA
85017858 TTATA
1 TTATA
85017863 ATTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:85018841 original size:22 final size:21
Alignment explanation
Indices: 85018816--85018856 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
85018806 AAAAGCTAAT
*
85018816 TAAATAAAAAGTAAAGGAAATA
1 TAAATAAAAAG-AAACGAAATA
85018838 TAAATAAAAAGAAACGAAA
1 TAAATAAAAAGAAACGAAA
85018857 GAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (21 bp):
TAAATAAAAAGAAACGAAATA
Found at i:85019923 original size:41 final size:40
Alignment explanation
Indices: 85019875--85019974 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 40
85019865 TCGACCTCAA
* *
85019875 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
85019915 ATTCGATGAGTTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
85019953 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
85019975 ACTTTGCTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 10 0.22
38 18 0.39
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:85022027 original size:2 final size:2
Alignment explanation
Indices: 85022020--85022044 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85022010 GACATGCAAA
85022020 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
85022045 CTTTCGCGCC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85029104 original size:105 final size:101
Alignment explanation
Indices: 85028981--85029178 Score: 272
Period size: 105 Copynumber: 1.9 Consensus size: 101
85028971 ACACTCGTAA
*
85028981 TGCCATAACCCAGCTATGGCCTTATCA-TCAAGATGCCATAGCCTAGCTATGGTCTTACACTTAT
1 TGCCATAACCCAGCTATGGCCTTATCACTCAA-ATGCCATAGCCCAGCTATGGTCTTACA-TT-T
85029045 ACATATACTGCCATGGTCCAACCATGGTCTTATGTTCACGG
63 A-A-ATACTGCCATGGTCCAACCATGGTCTTATGTTCACGG
* * * *
85029086 TGCCATAACCCAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACATTTAAA
1 TGCCATAACCCAGCTATGGCCTTATCACTCAAATGCCATAGCCCAGCTATGGTCTTACATTTAAA
* * *
85029151 TATTTCCGTGGTCCAACCATGGTCTTAT
66 TACTGCCATGGTCCAACCATGGTCTTAT
85029179 CCGTCAATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
101 26 0.31
102 1 0.01
103 2 0.02
104 2 0.02
105 50 0.60
106 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (101 bp):
TGCCATAACCCAGCTATGGCCTTATCACTCAAATGCCATAGCCCAGCTATGGTCTTACATTTAAA
TACTGCCATGGTCCAACCATGGTCTTATGTTCACGG
Found at i:85031527 original size:46 final size:45
Alignment explanation
Indices: 85031444--85031588 Score: 161
Period size: 46 Copynumber: 3.2 Consensus size: 45
85031434 TCCCATCCAC
* *
85031444 GGTCTTATTTATTT-TCGGCATGA-TGCCATAGTGTCTTTCAATAAT
1 GGTCTTATTCATTTCTCGTCAT-ATTGCCATAGTGTCTTTCAAT-AT
* *
85031489 GGTCTTATTCATTTCTCGTCATATTGTCATAGTTTCTTTCAATCAT
1 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAAT-AT
** *
85031535 TATCTTATTCATTTC-CTGTCATGTTGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTCTC-GTCATATTGCCATAGTGTCTTTCAA-TAT
85031581 GGTCTTAT
1 GGTCTTAT
85031589 ACGCCTGAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
45 15 0.18
46 68 0.81
47 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (45 bp):
GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAATAT
Found at i:85031626 original size:45 final size:44
Alignment explanation
Indices: 85031559--85031716 Score: 158
Period size: 45 Copynumber: 3.5 Consensus size: 44
85031549 CCTGTCATGT
* * *
85031559 TGCCATAGTGTCTTTCAACTATGGTCTTATACGCCTGAATCGTGA
1 TGCCATAGAGTCTTTCAGCTATGGTCTTAT-CGTCTGAATCGTGA
* * * *
85031604 TGCCATAGAGTCTCTCAGCTATGGTCTTACTCATTTAAATCGTGA
1 TGCCATAGAGTCTTTCAGCTATGGTCTTA-TCGTCTGAATCGTGA
* * *
85031649 TGCCATA-ACGTCTTTCAGCGATGGTCTTACCCGTCTGAATTGTGA
1 TGCCATAGA-GTCTTTCAGCTATGGTCTTA-TCGTCTGAATCGTGA
*
85031694 TGCCATA-ACGCCTTTCAGCTATG
1 TGCCATAGA-GTCTTTCAGCTATG
85031717 ATATTACTCG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 93 0.98
46 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (44 bp):
TGCCATAGAGTCTTTCAGCTATGGTCTTATCGTCTGAATCGTGA
Found at i:85031712 original size:90 final size:90
Alignment explanation
Indices: 85031559--85031725 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
85031549 CCTGTCATGT
** * * *
85031559 TGCCATAGTGTCTTTCAACTATGGTCTTATACGCCTGAATCGTGATGCCATAGAGTCTCTCAGCT
1 TGCCATAACGTCTTTCAACGATGGTCTTACACGCCTGAATCGTGATGCCATAGAGCCTCTCAGCT
* *
85031624 ATGGTCTTACTCATTTAAATCGTGA
66 ATGATATTACTCATTTAAATCGTGA
* * * * *
85031649 TGCCATAACGTCTTTCAGCGATGGTCTTACCCGTCTGAATTGTGATGCCATA-ACGCCTTTCAGC
1 TGCCATAACGTCTTTCAACGATGGTCTTACACGCCTGAATCGTGATGCCATAGA-GCCTCTCAGC
85031713 TATGATATTACTC
65 TATGATATTACTC
85031726 GTTTCTGGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
89 1 0.02
90 63 0.98
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (90 bp):
TGCCATAACGTCTTTCAACGATGGTCTTACACGCCTGAATCGTGATGCCATAGAGCCTCTCAGCT
ATGATATTACTCATTTAAATCGTGA
Found at i:85032764 original size:9 final size:9
Alignment explanation
Indices: 85032747--85032803 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
85032737 TATATGTTTT
*
85032747 TTAATCGAA
1 TTAACCGAA
85032756 TTAACCGAA
1 TTAACCGAA
*
85032765 TTAATCGAA
1 TTAACCGAA
85032774 TTAACCGAA
1 TTAACCGAA
85032783 TT-ACCAGAA
1 TTAACC-GAA
* *
85032792 CTAACAGAA
1 TTAACCGAA
85032801 TTA
1 TTA
85032804 TTTGTATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 3 0.08
9 35 0.88
10 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.26
Consensus pattern (9 bp):
TTAACCGAA
Found at i:85032770 original size:18 final size:18
Alignment explanation
Indices: 85032747--85032785 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
85032737 TATATGTTTT
85032747 TTAATCGAATTAACCGAA
1 TTAATCGAATTAACCGAA
85032765 TTAATCGAATTAACCGAA
1 TTAATCGAATTAACCGAA
85032783 TTA
1 TTA
85032786 CCAGAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (18 bp):
TTAATCGAATTAACCGAA
Found at i:85032837 original size:5 final size:6
Alignment explanation
Indices: 85032822--85032862 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
85032812 AAATTATATT
*
85032822 TTTTTA TTTTTA TTTTTA GTTTTAA TTTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTTA TTT
85032863 ATTAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:85032844 original size:13 final size:12
Alignment explanation
Indices: 85032822--85032862 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
85032812 AAATTATATT
85032822 TTTTTATTTTTA
1 TTTTTATTTTTA
*
85032834 TTTTTAGTTTTAA
1 TTTTTA-TTTTTA
85032847 TTTTTTATTTTTA
1 -TTTTTATTTTTA
85032860 TTT
1 TTT
85032863 ATTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 9 0.36
13 10 0.40
14 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:85043697 original size:6 final size:6
Alignment explanation
Indices: 85043668--85043698 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
85043658 ACCGCTGTCG
*
85043668 CTGCCG CTGCCT CTGCCT CTGCCT CTGCCT C
1 CTGCCT CTGCCT CTGCCT CTGCCT CTGCCT C
85043699 CACACGTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.52, G:0.19, T:0.29
Consensus pattern (6 bp):
CTGCCT
Found at i:85047595 original size:17 final size:16
Alignment explanation
Indices: 85047573--85047614 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
85047563 GAAAATTCTG
85047573 ATAAATATATAACAATT
1 ATAAATATATAA-AATT
85047590 ATAAATATAT-AAATT
1 ATAAATATATAAAATT
85047605 -TAAATATATA
1 ATAAATATATA
85047615 TATAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 1 0.04
17 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAATATATAAAATT
Found at i:85047671 original size:8 final size:9
Alignment explanation
Indices: 85047645--85047692 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
85047635 TTACACACGT
85047645 AAATACATA
1 AAATACATA
*
85047654 AAATAGATA
1 AAATACATA
85047663 AAATA-ATA
1 AAATACATA
85047671 AAATA-AT-
1 AAATACATA
85047678 AAATACATA
1 AAATACATA
85047687 ACAATA
1 A-AATA
85047693 AGAATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 5 0.14
8 12 0.34
9 14 0.40
10 4 0.11
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATACATA
Found at i:85047671 original size:17 final size:17
Alignment explanation
Indices: 85047645--85047693 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
85047635 TTACACACGT
85047645 AAATACATAAAATAGATA
1 AAATACATAAAATA-ATA
85047663 AAATA-ATAAAATAAT-
1 AAATACATAAAATAATA
85047678 AAATACATAACAATAA
1 AAATACATAA-AATAA
85047694 GAATTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
17 13 0.45
18 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATACATAAAATAATA
Found at i:85056570 original size:44 final size:44
Alignment explanation
Indices: 85056519--85056606 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
85056509 GATCATGCTT
* *
85056519 ACGAATGTGATTAATTTAATGATTTTAATAATATAACTCACCTA
1 ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
85056563 ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
1 ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
85056607 GATGTGGCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (44 bp):
ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
Found at i:85057194 original size:27 final size:27
Alignment explanation
Indices: 85057140--85057194 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
85057130 ACGGGTCGAG
* **
85057140 CCTGTCAGGCAGGCACAACTAGTCGCA
1 CCTGACAGGCAGGCACAACTACCCGCA
85057167 CCTGACAGGCAGGCACAAC-ACCCTGCA
1 CCTGACAGGCAGGCACAACTACCC-GCA
85057194 C
1 C
85057195 ATTTCCCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.27, C:0.38, G:0.24, T:0.11
Consensus pattern (27 bp):
CCTGACAGGCAGGCACAACTACCCGCA
Found at i:85057589 original size:109 final size:108
Alignment explanation
Indices: 85057468--85057710 Score: 382
Period size: 108 Copynumber: 2.2 Consensus size: 108
85057458 AACAAAATTG
* *
85057468 TATTCCAACTTAACTAATAT-TTTGTTTAAAAAAAC-ACGTCAAAAATTTTATCAGAGTAATTAA
1 TATTCCAACTTAAC--ATATCATTGTTTAAAAAAACTA-ATCAAAAATTTTATCAGAGTAATTAA
85057531 CAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACT
63 CAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACT
****
85057577 TATTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAAAAATTTTATCAGAGTAATTAACAA
1 TATTCCAACTTAACATATCATTGTTTAAAAAAACTAATCAAAAATTTTATCAGAGTAATTAACAA
85057642 AAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACT
66 AAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACT
*
85057685 TATTCTAACTTAACATATCATTGTTT
1 TATTCCAACTTAACATATCATTGTTT
85057711 TGTTAAACTA
Statistics
Matches: 125, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
107 4 0.03
108 106 0.85
109 15 0.12
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (108 bp):
TATTCCAACTTAACATATCATTGTTTAAAAAAACTAATCAAAAATTTTATCAGAGTAATTAACAA
AAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACT
Found at i:85057621 original size:108 final size:108
Alignment explanation
Indices: 85057506--85057722 Score: 425
Period size: 108 Copynumber: 2.0 Consensus size: 108
85057496 AAAAAACACG
85057506 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
85057571 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
85057614 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
*
85057679 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
85057722 T
1 T
85057723 ATTTTGTTTA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:85068231 original size:15 final size:16
Alignment explanation
Indices: 85068201--85068242 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
85068191 AAAATTTTGA
85068201 AAAATATATAACAA-TT
1 AAAATATAT-ACAATTT
85068217 ATAAATATATA-AATTT
1 A-AAATATATACAATTT
85068233 AAAATATATA
1 AAAATATATA
85068243 TAAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATATACAATTT
Found at i:85068243 original size:17 final size:16
Alignment explanation
Indices: 85068200--85068246 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
85068190 CAAAATTTTG
85068200 AAAAATATATAACAATT
1 AAAAATATATAA-AATT
* *
85068217 ATAAATATATAAATTT
1 AAAAATATATAAAATT
85068233 AAAATATATATAAA
1 AAAA-ATATATAAA
85068247 CACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATATAAAATT
Found at i:85072752 original size:23 final size:23
Alignment explanation
Indices: 85072724--85072772 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
85072714 GGGTCTAACA
85072724 TGTGATTGAGTGATGTAGGGACG
1 TGTGATTGAGTGATGTAGGGACG
85072747 TGTGATTGAGTGATGTAGGGACG
1 TGTGATTGAGTGATGTAGGGACG
85072770 TGT
1 TGT
85072773 TGGAGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.04, G:0.43, T:0.33
Consensus pattern (23 bp):
TGTGATTGAGTGATGTAGGGACG
Found at i:85075197 original size:1 final size:1
Alignment explanation
Indices: 85075191--85075215 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
85075181 CTCAATTGTG
85075191 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
85075216 ATATATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:85077864 original size:6 final size:6
Alignment explanation
Indices: 85077850--85077888 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
85077840 CAGCACTAAG
* *
85077850 TTGTGC TTGTAC TTGTGC TTGTGC TTGTGC TTGTAC TTG
1 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTG
85077889 CGAGAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.05, C:0.15, G:0.28, T:0.51
Consensus pattern (6 bp):
TTGTGC
Found at i:85077867 original size:12 final size:12
Alignment explanation
Indices: 85077850--85077888 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
85077840 CAGCACTAAG
85077850 TTGTGCTTGTAC
1 TTGTGCTTGTAC
*
85077862 TTGTGCTTGTGC
1 TTGTGCTTGTAC
85077874 TTGTGCTTGTAC
1 TTGTGCTTGTAC
85077886 TTG
1 TTG
85077889 CGAGAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.15, G:0.28, T:0.51
Consensus pattern (12 bp):
TTGTGCTTGTAC
Found at i:85079270 original size:7 final size:7
Alignment explanation
Indices: 85079260--85079301 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
85079250 TTAATTTTTT
85079260 TTTTTAC
1 TTTTTAC
85079267 TTTTTAC
1 TTTTTAC
85079274 TTTTTAC
1 TTTTTAC
85079281 TTTTTGAC
1 TTTTT-AC
85079289 TTTTTTAC
1 -TTTTTAC
85079297 TTTTT
1 TTTTT
85079302 TTTGTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 24 0.73
8 4 0.12
9 5 0.15
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTTAC
Found at i:85079278 original size:8 final size:8
Alignment explanation
Indices: 85079259--85079302 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
85079249 CTTAATTTTT
85079259 TTTTTTAC
1 TTTTTTAC
85079267 -TTTTTAC
1 TTTTTTAC
85079274 -TTTTTAC
1 TTTTTTAC
*
85079281 TTTTTGAC
1 TTTTTTAC
85079289 TTTTTTAC
1 TTTTTTAC
85079297 TTTTTT
1 TTTTTT
85079303 TTGTCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTTTAC
Found at i:85079305 original size:19 final size:19
Alignment explanation
Indices: 85079281--85079318 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
85079271 TACTTTTTAC
85079281 TTTTTGACTTTTTTACTTT
1 TTTTTGACTTTTTTACTTT
* *
85079300 TTTTTGTCTTTTTTTCTTT
1 TTTTTGACTTTTTTACTTT
85079319 ATTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTGACTTTTTTACTTT
Found at i:85079439 original size:20 final size:22
Alignment explanation
Indices: 85079410--85079456 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
85079400 ATATTTTGAA
*
85079410 ATTACTTTTTTAAA-ATTTAAAT
1 ATTA-TTTTTAAAATATTTAAAT
85079432 ATTATTTTTAAAATATTTAAAT
1 ATTATTTTTAAAATATTTAAAT
85079454 ATT
1 ATT
85079457 TTAAACTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATTTTTAAAATATTTAAAT
Found at i:85079539 original size:14 final size:15
Alignment explanation
Indices: 85079514--85079546 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
85079504 TTAATTTATT
85079514 TTATAATATTTTAAA
1 TTATAATATTTTAAA
85079529 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
85079543 TTAT
1 TTAT
85079547 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:85079957 original size:21 final size:21
Alignment explanation
Indices: 85079920--85079972 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
85079910 GAAAGTTTAA
85079920 AATATTTAAATATTTAAAAAAT
1 AATATTTAAA-ATTTAAAAAAT
85079942 AATATTTAAAATTTAAAAAAT
1 AATATTTAAAATTTAAAAAAT
*
85079963 TA-ATTTAAAA
1 AATATTTAAAA
85079973 ATATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 8 0.27
21 12 0.40
22 10 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATTTAAAATTTAAAAAAT
Found at i:85079972 original size:34 final size:34
Alignment explanation
Indices: 85079931--85079996 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 34
85079921 ATATTTAAAT
85079931 ATTTAAAAA-ATAATATTTAAAATTTAAAAAATTA
1 ATTTAAAAATAT-ATATTTAAAATTTAAAAAATTA
85079965 ATTTAAAAATATATATTTAAAATTTAAAAAAT
1 ATTTAAAAATATATATTTAAAATTTAAAAAAT
85079997 ATATATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTAAAAAATTA
Found at i:85080009 original size:24 final size:21
Alignment explanation
Indices: 85079964--85080042 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 21
85079954 TTAAAAAATT
85079964 AATTTAAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
85079985 AATTTAAAAAATATATATTAATAA
1 AATTT-AAAAATATATATT--TAA
**
85080009 AATATTTCAAATATATATTTTAA
1 AAT-TTAAAAATATATA-TTTAA
*
85080032 AATTTTAAAAT
1 AATTTAAAAAT
85080043 TTAATAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
21 5 0.10
22 20 0.40
23 6 0.12
24 15 0.30
25 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:85080098 original size:8 final size:8
Alignment explanation
Indices: 85080087--85080132 Score: 83
Period size: 8 Copynumber: 5.8 Consensus size: 8
85080077 TAAAAGATAA
85080087 AAAAAAGT
1 AAAAAAGT
85080095 AAAAAAGT
1 AAAAAAGT
*
85080103 CAAAAAGT
1 AAAAAAGT
85080111 AAAAAAGT
1 AAAAAAGT
85080119 AAAAAAGT
1 AAAAAAGT
85080127 AAAAAA
1 AAAAAA
85080133 AAAAAACAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAAGT
Found at i:85080138 original size:16 final size:16
Alignment explanation
Indices: 85080085--85080138 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
85080075 AATAAAAGAT
85080085 AAAAAAAAGTAAAAAA
1 AAAAAAAAGTAAAAAA
***
85080101 GTCAAAAAGTAAAAAA
1 AAAAAAAAGTAAAAAA
**
85080117 GTAAAAAAGTAAAAAA
1 AAAAAAAAGTAAAAAA
85080133 AAAAAA
1 AAAAAA
85080139 CAAGGACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAAAAGTAAAAAA
Found at i:85080138 original size:24 final size:24
Alignment explanation
Indices: 85080085--85080138 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
85080075 AATAAAAGAT
*
85080085 AAAAAAAAGTAAAAAAGTCAAAAA
1 AAAAAAAAGTAAAAAAGTAAAAAA
**
85080109 GTAAAAAAGTAAAAAAGTAAAAAA
1 AAAAAAAAGTAAAAAAGTAAAAAA
85080133 AAAAAA
1 AAAAAA
85080139 CAAGGACTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (24 bp):
AAAAAAAAGTAAAAAAGTAAAAAA
Found at i:85081409 original size:73 final size:73
Alignment explanation
Indices: 85081290--85081436 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
85081280 TGGAACGGCT
*
85081290 ACCGAATGTAATAATTCACCGATTCAGGTCAGTTTCACAAAATGAATAATTCACTTATAAATCTA
1 ACCGAATGTAATAATTCACCGATTCAGCTCAGTTTCACAAAATGAATAATTCACTTATAAATCTA
85081355 AATGATAA
66 AATGATAA
85081363 ACCGAATGTAATAATTCACCGATTCAGCTCAGTTTCACAAAATGAATAATTCACTTATAAATCTA
1 ACCGAATGTAATAATTCACCGATTCAGCTCAGTTTCACAAAATGAATAATTCACTTATAAATCTA
85081428 AATGATAA
66 AATGATAA
85081436 A
1 A
85081437 TTTTCTTTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (73 bp):
ACCGAATGTAATAATTCACCGATTCAGCTCAGTTTCACAAAATGAATAATTCACTTATAAATCTA
AATGATAA
Found at i:85081416 original size:35 final size:36
Alignment explanation
Indices: 85081294--85081416 Score: 106
Period size: 35 Copynumber: 3.4 Consensus size: 36
85081284 ACGGCTACCG
*
85081294 AATGTAATAATTCACCGATTCAGGTCAGTTTCACAA
1 AATGTAATAATTCACCGATTCAGCTCAGTTTCACAA
** ** * * * ** **
85081330 AATG-AATAATTCACTTATAAATCTAAATGATAAACCG
1 AATGTAATAATTCACCGATTCAGCT-CA-GTTTCACAA
85081367 AATGTAATAATTCACCGATTCAGCTCAGTTTCACAA
1 AATGTAATAATTCACCGATTCAGCTCAGTTTCACAA
85081403 AATG-AATAATTCAC
1 AATGTAATAATTCAC
85081417 TTATAAATCT
Statistics
Matches: 61, Mismatches: 23, Indels: 7
0.67 0.25 0.08
Matches are distributed among these distances:
35 24 0.39
36 13 0.21
37 9 0.15
38 15 0.25
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (36 bp):
AATGTAATAATTCACCGATTCAGCTCAGTTTCACAA
Found at i:85083397 original size:19 final size:20
Alignment explanation
Indices: 85083374--85083412 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85083364 CAAAAATTAA
*
85083374 AAAAAATAAAAATAATTTTC
1 AAAAATTAAAAATAATTTTC
*
85083394 AAAAATTGAAAATAATTTT
1 AAAAATTAAAAATAATTTT
85083413 TAAAGTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATTAAAAATAATTTTC
Found at i:85083426 original size:19 final size:20
Alignment explanation
Indices: 85083382--85083448 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
85083372 AAAAAAAATA
*
85083382 AAAATAATTTTCAAAAATTG
1 AAAATAATTTTCAAAAATTC
* *
85083402 AAAATAATTTT-TAAAGTTC
1 AAAATAATTTTCAAAAATTC
85083421 AAAAT-ATTTAT-AAAAATTC
1 AAAATAATTT-TCAAAAATTC
*
85083440 TAAA-AATTT
1 AAAATAATTT
85083449 GGACTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.10
19 24 0.62
20 11 0.28
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (20 bp):
AAAATAATTTTCAAAAATTC
Found at i:85083481 original size:19 final size:17
Alignment explanation
Indices: 85083468--85083519 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
85083458 AAAAAAATTG
85083468 TAAATTTTTTAAAAAAT
1 TAAATTTTTTAAAAAAT
*
85083485 CTAAAGTTTATATAAAAAAGT
1 -TAAA-TTT-TTTAAAAAA-T
85083506 TAAA-TTTTTAAAAA
1 TAAATTTTTTAAAAA
85083520 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
19 3 0.10
20 12 0.41
21 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (17 bp):
TAAATTTTTTAAAAAAT
Found at i:85085957 original size:12 final size:12
Alignment explanation
Indices: 85085940--85085964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85085930 AACAATTTAA
85085940 TTTTTTTATTTT
1 TTTTTTTATTTT
85085952 TTTTTTTATTTT
1 TTTTTTTATTTT
85085964 T
1 T
85085965 CATTATCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:85086109 original size:23 final size:24
Alignment explanation
Indices: 85086083--85086130 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
85086073 GGAGAAGCAG
* *
85086083 AAGAAAATGAAA-AAAAAAGTTAA
1 AAGAAAATAAAAGAAAAAAATTAA
*
85086106 AAGAATATAAAAGAAAAAAATTAA
1 AAGAAAATAAAAGAAAAAAATTAA
85086130 A
1 A
85086131 TTGCTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (24 bp):
AAGAAAATAAAAGAAAAAAATTAA
Found at i:85088356 original size:38 final size:36
Alignment explanation
Indices: 85088133--85088603 Score: 151
Period size: 38 Copynumber: 12.9 Consensus size: 36
85088123 TAAACCTGTA
* * *
85088133 TAAGGCAAC-TATAAAAAGGTTG-GTATAGTTCTTGTC
1 TAAGGCAACTTTTAAAAAAGTTGAG-ATAG-ACTTGTC
* * *
85088169 TAAGGCAACTTTTAAGAATAGTTGGGATAGA-TCCGTC
1 TAAGGCAACTTTTAA-AAAAGTTGAGATAGACT-TGTC
* * * * * ** *
85088206 TATGGCAACCTTT-AAAAGGTTGGGATTGACTCATT
1 TAAGGCAACTTTTAAAAAAGTTGAGATAGACTTGTC
* * * *
85088241 TAAGGCAAC-CTTAAAAAGGTTGGGATATGCCTTGTC
1 TAAGGCAACTTTTAAAAAAGTTGAGATA-GACTTGTC
* ** * * *
85088277 TAAAGCAACCCTTAAAAAAAAATTG-GTATAAACCTTATC
1 TAAGGCAA--CTTTTAAAAAAGTTGAG-ATAGA-CTTGTC
*
85088316 TAAAGCAACTTTTTAAAAAAGTTGAGATAGATCTTGTC
1 TAAGGCAAC-TTTTAAAAAAGTTGAGATAGA-CTTGTC
* * * * * * *
85088354 TAAGGCAACCTTTAGGAAAGGTTGGGATAGGCATGTT
1 TAAGGCAACTTTTA-AAAAAGTTGAGATAGACTTGTC
*
85088391 TAAGGCAACCTTTTAAAAATGTT-AGAATAGACATTGTC
1 TAAGGCAA-CTTTTAAAAAAGTTGAG-ATAGAC-TTGTC
* * *
85088429 TAAGGCAAC-CTTAAAATAAGGTTGGGATAGACTTGTT
1 TAAGGCAACTTTTAAAA-AA-GTTGAGATAGACTTGTC
* * * *
85088466 TAAAGCAAC-GTTAAAAAGGTT-ATGATAGA-TTCTTC
1 TAAGGCAACTTTTAAAAAAGTTGA-GATAGACTT-GTC
* * * * *
85088501 TAAGGTAAC-CTTAAAAACGTTG-GTATATATCTTATC
1 TAAGGCAACTTTTAAAAAAGTTGAG-ATAGA-CTTGTC
* * * * *
85088537 TAAGGCGACTTTTAGCAAAGGTTGAGATTGACCTGTC
1 TAAGGCAACTTTTA-AAAAAGTTGAGATAGACTTGTC
** * * *
85088574 TAAGATAAC-GTTAAAAATGTTGAAATAGAC
1 TAAGGCAACTTTTAAAAAAGTTGAGATAGAC
85088604 CTGTTTACAG
Statistics
Matches: 323, Mismatches: 82, Indels: 61
0.69 0.18 0.13
Matches are distributed among these distances:
34 5 0.02
35 79 0.24
36 43 0.13
37 81 0.25
38 87 0.27
39 28 0.09
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (36 bp):
TAAGGCAACTTTTAAAAAAGTTGAGATAGACTTGTC
Found at i:85088400 original size:37 final size:36
Alignment explanation
Indices: 85088101--85088486 Score: 176
Period size: 38 Copynumber: 10.5 Consensus size: 36
85088091 TAGTCAAGAC
* ** * * *
85088101 CAACCTTTGAAAAATGTTGTTATAAACCTGTATAAGG
1 CAACCTTT-AAAAAGGTTGGGATAGACATGTTTAAGG
* * * * *
85088138 CAA-CTATAAAAAGGTTGGTATAGTTCTTGTCTAAGG
1 CAACCTTTAAAAAGGTTGGGATAG-ACATGTTTAAGG
* * * *
85088174 CAACTTTTAAGAATA-GTTGGGATAGATC-CGTCTATGG
1 CAACCTTTAA-AA-AGGTTGGGATAGA-CATGTTTAAGG
* *
85088211 CAACCTTT-AAAAGGTTGGGATTGAC-TCATTTAAGG
1 CAACCTTTAAAAAGGTTGGGATAGACAT-GTTTAAGG
* * * *
85088246 CAACC-TTAAAAAGGTTGGGATATGCCTTGTCTAAAG
1 CAACCTTTAAAAAGGTTGGGATA-GACATGTTTAAGG
* ** * * * *
85088282 CAACCCTTAAAAAAAAATTGGTATAAACCT-TATCTAAAG
1 CAA-CCTT-TAAAAAGGTTGGGATAGACATGT-T-TAAGG
* * * * *
85088321 CAACTTTTTAAAAAAGTTGAGATAGATCTTGTCTAAGG
1 CAAC-CTTTAAAAAGGTTGGGATAGA-CATGTTTAAGG
* *
85088359 CAACCTTTAGGAAAGGTTGGGATAGGCATGTTTAAGG
1 CAACCTTTA-AAAAGGTTGGGATAGACATGTTTAAGG
* * * *
85088396 CAACCTTTTAAAAATGTTAGAATAGACATTGTCTAAGG
1 CAACC-TTTAAAAAGGTTGGGATAGACA-TGTTTAAGG
* * *
85088434 CAACCTTAAAATAAGGTTGGGATAGACTTGTTTAAAG
1 CAACCTTTAAA-AAGGTTGGGATAGACATGTTTAAGG
*
85088471 CAA-CGTTAAAAAGGTT
1 CAACCTTTAAAAAGGTT
85088487 ATGATAGATT
Statistics
Matches: 264, Mismatches: 63, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
34 4 0.02
35 54 0.20
36 31 0.12
37 71 0.27
38 78 0.30
39 25 0.09
40 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
CAACCTTTAAAAAGGTTGGGATAGACATGTTTAAGG
Found at i:85088421 original size:75 final size:75
Alignment explanation
Indices: 85088316--85088474 Score: 207
Period size: 75 Copynumber: 2.1 Consensus size: 75
85088306 AAACCTTATC
* **
85088316 TAAAGCAACTTTTTAAAAAAGTTGAGATAGATC-TTGTCTAAGGCAACCTTTAGGA-AAGGTTGG
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGA-CATTGTCTAAGGCAACC-TTAAAATAAGGTTGG
*
85088379 GATAGGCATGTT
64 GATAGACATGTT
* *
85088391 TAAGGCAACCTTTTAAAAATGTT-AGAATAGACATTGTCTAAGGCAACCTTAAAATAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAG-ATAGACATTGTCTAAGGCAACCTTAAAATAAGGTTGGG
*
85088455 ATAGACTTGTT
65 ATAGACATGTT
85088466 TAAAGCAAC
1 TAAAGCAAC
85088475 GTTAAAAAGG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
74 7 0.10
75 66 0.90
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (75 bp):
TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATTGTCTAAGGCAACCTTAAAATAAGGTTGGGA
TAGACATGTT
Found at i:85092813 original size:17 final size:17
Alignment explanation
Indices: 85092791--85092823 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
85092781 TGCATATTTG
85092791 AATAAAAACAACCCAAA
1 AATAAAAACAACCCAAA
*
85092808 AATAAAAACAGCCCAA
1 AATAAAAACAACCCAA
85092824 GGAAATATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (17 bp):
AATAAAAACAACCCAAA
Found at i:85100796 original size:7 final size:7
Alignment explanation
Indices: 85100775--85100883 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
85100765 AAATCCTAAG
85100775 CCTTAAA
1 CCTTAAA
**
85100782 CCACAAA
1 CCTTAAA
85100789 CCTTAAA
1 CCTTAAA
*
85100796 CCTCAAGA
1 CCTTAA-A
*
85100804 CCATAAAA
1 CC-TTAAA
85100812 TCC-TAAA
1 -CCTTAAA
85100819 CCTTAAAA
1 CCTT-AAA
* *
85100827 CCATACA
1 CCTTAAA
85100834 CCTTAAA
1 CCTTAAA
*
85100841 CCCTAAA
1 CCTTAAA
85100848 CTCTTAAA
1 C-CTTAAA
*
85100856 CCATAAA
1 CCTTAAA
*
85100863 CCCTAAA
1 CCTTAAA
*
85100870 CCCTAAA
1 CCTTAAA
*
85100877 CCCTAAA
1 CCTTAAA
85100884 ACCTAAATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
6 2 0.02
7 58 0.72
8 16 0.20
9 5 0.06
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (7 bp):
CCTTAAA
Found at i:85100825 original size:15 final size:13
Alignment explanation
Indices: 85100769--85100890 Score: 82
Period size: 14 Copynumber: 8.5 Consensus size: 13
85100759 TTATCAAAAT
*
85100769 CCTAAGCCTTAAA
1 CCTAAACCTTAAA
*
85100782 CCACAAACCTTAAA
1 CC-TAAACCTTAAA
*
85100796 CCTCAAGACCATAAAA
1 CCT-AA-ACC-TTAAA
85100812 TCCTAAACCTTAAAA
1 -CCTAAACCTT-AAA
*
85100827 CCATACACCTTAAA
1 CC-TAAACCTTAAA
85100841 CCCTAAACTCTTAAA
1 -CCTAAAC-CTTAAA
*
85100856 CCATAAACCCTAAA
1 CC-TAAACCTTAAA
*
85100870 CCCTAAACCCTAAAA
1 -CCTAAA-CCTTAAA
85100885 CCTAAA
1 CCTAAA
85100891 TATAGAAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 40 0.46
15 36 0.41
16 6 0.07
17 3 0.03
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.19
Consensus pattern (13 bp):
CCTAAACCTTAAA
Found at i:85100847 original size:22 final size:23
Alignment explanation
Indices: 85100815--85100890 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 23
85100805 CATAAAATCC
* * *
85100815 TAAACCTTAAAAC-CATACACCT
1 TAAACCCTAAAACTCATAAACCA
*
85100837 TAAACCCT-AAACTCTTAAACCA
1 TAAACCCTAAAACTCATAAACCA
* *
85100859 TAAACCCT-AAAC-CCTAAACCC
1 TAAACCCTAAAACTCATAAACCA
*
85100880 TAAAACCTAAA
1 TAAACCCTAAA
85100891 TATAGAAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
21 18 0.40
22 27 0.60
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (23 bp):
TAAACCCTAAAACTCATAAACCA
Found at i:85100856 original size:29 final size:28
Alignment explanation
Indices: 85100778--85100883 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 28
85100768 TCCTAAGCCT
*
85100778 TAAACCAC-AAACCTTAAACC-TCAAGACCA
1 TAAACC-CTAAACCTTAAACCAT-AA-ACCC
* * *
85100807 TAAAATCCTAAACCTTAAAACCATACACCT
1 T-AAACCCTAAACCTT-AAACCATAAACCC
85100837 TAAACCCTAAACTCTTAAACCATAAACCC
1 TAAACCCTAAAC-CTTAAACCATAAACCC
*
85100866 TAAACCCTAAACCCTAAA
1 TAAACCCTAAACCTTAAA
85100884 ACCTAAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
28 5 0.08
29 35 0.54
30 18 0.28
31 6 0.09
32 1 0.02
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (28 bp):
TAAACCCTAAACCTTAAACCATAAACCC
Found at i:85100885 original size:29 final size:29
Alignment explanation
Indices: 85100813--85100890 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
85100803 ACCATAAAAT
* * *
85100813 CCTAAACCTTAAAACCATACACCTTAAAC
1 CCTAAACCCTAAAACCATAAACCCTAAAC
* *
85100842 CCTAAACTCTTAAACCATAAACCCTAAAC
1 CCTAAACCCTAAAACCATAAACCCTAAAC
85100871 CCTAAACCCTAAAACC-TAAA
1 CCTAAACCCTAAAACCATAAA
85100891 TATAGAAGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 4 0.10
29 38 0.90
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (29 bp):
CCTAAACCCTAAAACCATAAACCCTAAAC
Found at i:85101060 original size:7 final size:7
Alignment explanation
Indices: 85101050--85101100 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
85101040 TCTTAAATCT
85101050 TAAACCC
1 TAAACCC
*
85101057 TAAACCA
1 TAAACCC
85101064 TAAACCC
1 TAAACCC
*
85101071 TAAACCT
1 TAAACCC
85101078 TAAACCC
1 TAAACCC
85101085 TAAACACCC
1 T-AA-ACCC
85101094 TAAACCC
1 TAAACCC
85101101 ATTAGGCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 29 0.76
8 4 0.11
9 5 0.13
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:85101396 original size:130 final size:134
Alignment explanation
Indices: 85101210--85101679 Score: 382
Period size: 130 Copynumber: 3.5 Consensus size: 134
85101200 GGCATAGTGT
* * * * *
85101210 TGGACAAAGCTC-ACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATATAAAA
1 TGGACAAAGC-CAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
* * * *
85101274 AGTTAACCT-AAGCGTATGTCGGCAAGTCTATCCCAACACTT-AGGAA-A-ATATA-TATCGTCT
65 AGTT-ACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTTCAGAAAGACAAAAACTATCGTCT
*
85101334 TAGGAC
129 TAGAAC
*
85101340 TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTTGGCATGCATATCCCAACCCTTATACAAAGA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGA
** * * *
85101405 GTTGGCTAAAGCATATGTTGGCCAGTCTATCCCAACACTTCAGAAAGTGTCGCACAAAAACTGTC
66 GTTACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTTCAGAAA-----G-ACAAAAACTATC
85101470 GTCTTAGAAC
125 GTCTTAGAAC
* *
85101480 -GAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAA
1 TG-GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* *
85101544 GAGTTGGCC-AAAGC--A--T-----AGTCTATCCCAACACTT-AGGAAAGTGTCACCAAAAAGT
64 GAGTT-ACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTTCA-GAAA--G--A-CAAAAACT
* *
85101598 GTCGTCTTAGGAC
122 ATCGTCTTAGAAC
** * * * * * *
85101611 TATACAAAAGCTAACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAACCTTTATACAAAG
1 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
85101676 AGTT
65 AGTT
85101680 GGCCAAAGCA
Statistics
Matches: 291, Mismatches: 30, Indels: 37
0.81 0.08 0.10
Matches are distributed among these distances:
129 4 0.01
130 91 0.31
131 86 0.30
132 21 0.07
137 1 0.00
138 1 0.00
139 5 0.02
140 15 0.05
141 65 0.22
142 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (134 bp):
TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGA
GTTACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTTCAGAAAGACAAAAACTATCGTCTTA
GAAC
Found at i:85101778 original size:263 final size:266
Alignment explanation
Indices: 85101328--85101931 Score: 871
Period size: 263 Copynumber: 2.3 Consensus size: 266
85101318 AAAATATATA
* * * *
85101328 TCGTCTTAGGACTGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTTGGCATGCATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* *
85101392 CCTTATACAAAGAGTTGGCTAAAGCATATGTTGGCCAGTCTATCCCAACACTTCAGAAAGTGTCG
66 CCTTATACAAAGAGTTGGCCAAAGCA-A--TT---CAGTCTATCCCAACACTTCAGAAAATGTCG
*
85101457 CACAAAAACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATA
125 CACAAAAACTGTCGTATTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATA
*
85101522 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGT
190 CATATACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAA-TGT
85101587 CACCA-AAAAGTG
254 CACCACAAAAGTG
* * * *
85101599 TCGTCTTAGGACTATACAAAAGCTAACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
*
85101664 CTTTATACAAAGAGTTGGCCAAAGC-A-T-AGTCTATCCCAACACTT-AGTAAAATGTCGC-CAC
66 CCTTATACAAAGAGTTGGCCAAAGCAATTCAGTCTATCCCAACACTTCAG-AAAATGTCGCACA-
* * * * *
85101724 AAAAGTGTCGTATTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGGCATACATA
129 AAAACTGTCGTATTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATA
**
85101789 TACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTTGCCA
194 TACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTCACCA
85101854 CAAAAGTG
259 CAAAAGTG
* * *
85101862 TCGTCTTAGGACTAGATAAAAACCAACTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
85101927 CCTTA
66 CCTTA
85101932 GGAAAGTGTT
Statistics
Matches: 301, Mismatches: 28, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
262 10 0.03
263 210 0.70
267 1 0.00
270 1 0.00
271 15 0.05
272 64 0.21
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (266 bp):
TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCAATTCAGTCTATCCCAACACTTCAGAAAATGTCGCACAAA
AACTGTCGTATTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATA
CCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTCACCACA
AAAGTG
Found at i:85101932 original size:91 final size:91
Alignment explanation
Indices: 85101827--85102022 Score: 313
Period size: 91 Copynumber: 2.2 Consensus size: 91
85101817 AAGCATAGTC
*
85101827 TATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTC
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGA-AAAAACCAACTC
85101891 TTATTCAAGCGTTGCTTTAGGCATACA
65 TTATTCAAGCGTTGCTTTAGGCATACA
* * *
85101918 TATCCCAACCCTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCT
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGAAAAAACCAACTCT
* *
85101983 TATTTAAGCGTTGCTTTAGGCATGCA
66 TATTCAAGCGTTGCTTTAGGCATACA
*
85102009 TATACCAACCCTTA
1 TATCCCAACCCTTA
85102023 TACAAAGAGT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
91 66 0.68
92 31 0.32
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (91 bp):
TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGAAAAAACCAACTCT
TATTCAAGCGTTGCTTTAGGCATACA
Found at i:85101949 original size:131 final size:132
Alignment explanation
Indices: 85101428--85101931 Score: 791
Period size: 131 Copynumber: 3.8 Consensus size: 132
85101418 TATGTTGGCC
* * *
85101428 AGTCTATCCCAACACTTCA-GAAAGTGTCG-CACAAAAACTGTCGTCTTAGAACGAGACAAAAGC
1 AGTCTATCCCAACACTT-AGGAAAGTGTCGCCAC-AAAAGTGTCGTCTTAGGACTAGACAAAAGC
85101491 CAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAA
64 CAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAA
85101556 GCAT
129 GCAT
* * *
85101560 AGTCTATCCCAACACTTAGGAAAGTGTCACCA-AAAAGTGTCGTCTTAGGACTATACAAAAGCTA
1 AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* * *
85101624 ACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAACCTTTATACAAAGAGTTGGCCAAAGC
66 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
85101689 AT
131 AT
* * * *
85101691 AGTCTATCCCAACACTTAGTAAAATGTCGCCACAAAAGTGTCGTATTAGGACTATACAAAAGCCA
1 AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* *
85101756 ACTTTTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGC
66 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
85101821 AT
131 AT
* * *
85101823 AGTCTATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCA
1 AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
*
85101887 ACTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAACCCTTA
66 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTA
85101932 GGAAAGTGTT
Statistics
Matches: 343, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
131 199 0.58
132 142 0.41
133 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (132 bp):
AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
AT
Found at i:85102154 original size:119 final size:120
Alignment explanation
Indices: 85101940--85102160 Score: 329
Period size: 120 Copynumber: 1.9 Consensus size: 120
85101930 TAGGAAAGTG
* **
85101940 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCTTTAGGCA
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCA
*
85102005 TGCATATACCAACCCTTATACAAAGAGTTG-CTAAAGTCCAGTCTATACCAACAC
66 TGCATATACCAACACTTATACAAAGAGTTGCCTAAAGTCCAGTCTATACCAACAC
***
85102059 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACTTTTGCCAACTCCTATAAAAGCGTTGCTTTAGGC
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCCTATAAAAGCGTTGCTTTAGGC
* * *
85102124 TTGCATATCCCAACACTTAT-GAAAGAGTTGCCTAAAG
65 ATGCATATACCAACACTTATACAAAGAGTTGCCTAAAG
85102161 CGTATTTTGG
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 40 0.44
120 50 0.56
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (120 bp):
TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCA
TGCATATACCAACACTTATACAAAGAGTTGCCTAAAGTCCAGTCTATACCAACAC
Found at i:85102370 original size:25 final size:24
Alignment explanation
Indices: 85102318--85102387 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 24
85102308 ATATGTACGT
* *
85102318 AAAAATAATATAATATAAAGAGGA
1 AAAAATAATATAATATAAAAAAGA
85102342 AAAAATAATGATAATATAATAAAAGA
1 AAAAATAAT-ATAATATAA-AAAAGA
85102368 AAAATATATATATACATATA
1 AAAA-ATA-ATATA-ATATA
85102388 CCAGAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 9 0.23
25 9 0.23
26 8 0.21
27 6 0.15
28 7 0.18
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAAATAATATAATATAAAAAAGA
Found at i:85102685 original size:21 final size:21
Alignment explanation
Indices: 85102627--85102670 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
85102617 ATACTAGTAC
* *
85102627 TAATAATAGTGATAATGAATA
1 TAATAATAATGATAATAAATA
85102648 TAATAATAATGATAATAAATA
1 TAATAATAATGATAATAAATA
85102669 TA
1 TA
85102671 TATATACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (21 bp):
TAATAATAATGATAATAAATA
Found at i:85102776 original size:26 final size:26
Alignment explanation
Indices: 85102746--85102864 Score: 94
Period size: 26 Copynumber: 4.8 Consensus size: 26
85102736 ATAATAATAA
* * * *
85102746 TAAAAGTATGTACGTAATATAG-TGT
1 TAAAAATATATACATAATATAGTTAT
*
85102771 TAAAAATACATACATAATATAGTTAT
1 TAAAAATATATACATAATATAGTTAT
85102797 TAAAAATATATACATAATATA---A-
1 TAAAAATATATACATAATATAGTTAT
*
85102819 T-AAAATATATGA-ATAATAT-GATATTT
1 TAAAAATATAT-ACATAATATAG-T-TAT
85102845 TAAAAA-ATATACATAATATA
1 TAAAAATATATACATAATATA
85102865 TAAAAATAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
21 16 0.21
22 2 0.03
23 1 0.01
25 19 0.25
26 34 0.45
27 4 0.05
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (26 bp):
TAAAAATATATACATAATATAGTTAT
Found at i:85102824 original size:21 final size:21
Alignment explanation
Indices: 85102799--85102869 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
85102789 ATAGTTATTA
85102799 AAAATATATACATAATATAAT
1 AAAATATATACATAATATAAT
85102820 AAAATATATGA-ATAATATGATATTTT
1 AAAATATAT-ACATAATAT-A-A---T
*
85102846 AAAAAATATACATAATAT-AT
1 AAAATATATACATAATATAAT
85102866 AAAA
1 AAAA
85102870 ATAATATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
20 5 0.12
21 16 0.38
22 2 0.05
23 2 0.05
25 1 0.02
26 16 0.38
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAATATATACATAATATAAT
Found at i:85102870 original size:21 final size:22
Alignment explanation
Indices: 85102771--85102877 Score: 76
Period size: 26 Copynumber: 4.5 Consensus size: 22
85102761 AATATAGTGT
*
85102771 TAAAAATACATACATAATATAGTTA
1 TAAAAA-ATATACATAATATA--TA
85102796 TTAAAAATATATACATAATATA-A
1 -TAAAAA-ATATACATAATATATA
*
85102819 TAAAATATATGA-ATAATATGATA
1 TAAAAAATAT-ACATAATAT-ATA
85102842 TTTTAAAAAATATACATAATATATA
1 ---TAAAAAATATACATAATATATA
85102867 -AAAATAATATA
1 TAAAA-AATATA
85102878 AAAATACATA
Statistics
Matches: 70, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
21 15 0.21
22 13 0.19
23 2 0.03
25 4 0.06
26 36 0.51
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (22 bp):
TAAAAAATATACATAATATATA
Found at i:85102900 original size:26 final size:27
Alignment explanation
Indices: 85102810--85102903 Score: 72
Period size: 26 Copynumber: 3.5 Consensus size: 27
85102800 AAATATATAC
85102810 ATAATA-TAATA-AAATATATGA-ATAAT
1 ATAATATTAATATAAA-ATAT-ACATAAT
* * *
85102836 ATGATATT-TTAAAAAATATACATAATAT
1 ATAATATTAATATAAAATATACAT-A-AT
* *
85102864 ATAAAAATAATATAAAA-ATACATAAT
1 ATAATATTAATATAAAATATACATAAT
85102890 ATAATATTAATATA
1 ATAATATTAATATA
85102904 TATGCATAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 1 0.02
26 27 0.51
27 6 0.11
28 13 0.25
29 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
ATAATATTAATATAAAATATACATAAT
Found at i:85103079 original size:15 final size:16
Alignment explanation
Indices: 85103059--85103113 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
85103049 AATGAAATGC
85103059 TAATAAATAAAAATA-
1 TAATAAATAAAAATAG
*
85103074 TAAT-AATAATAATAG
1 TAATAAATAAAAATAG
*
85103089 TAATAAA-ATATAATAG
1 TAATAAATA-AAAATAG
85103105 T-ATAAATAA
1 TAATAAATAA
85103114 TATTAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 9 0.26
15 15 0.43
16 11 0.31
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
TAATAAATAAAAATAG
Found at i:85103112 original size:25 final size:25
Alignment explanation
Indices: 85103059--85103136 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
85103049 AATGAAATGC
85103059 TAATAAATAAAAATATAATAATAATAA
1 TAAT-AAT-AAAATATAATAATAATAA
* *
85103086 TAGTAATAAAATATAATAGT-ATAAA
1 TAATAATAAAATATAATAATAAT-AA
* *
85103111 TAATATTAAAATTAGAATAA-AATAA
1 TAATAATAAAA-TATAATAATAATAA
85103136 T
1 T
85103137 GAGAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 2 0.05
25 26 0.62
26 11 0.26
27 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
TAATAATAAAATATAATAATAATAA
Found at i:85105946 original size:16 final size:18
Alignment explanation
Indices: 85105920--85105972 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 18
85105910 TATAAAATAG
*
85105920 ATTAT-ATAATTTTATTA
1 ATTATAATAATTTTATAA
85105937 A-TA-AATAATTTTGATAA
1 ATTATAATAATTTT-ATAA
85105954 ATTATAATAATTTTATAA
1 ATTATAATAATTTTATAA
85105972 A
1 A
85105973 AAATATCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.32
17 5 0.16
18 7 0.23
19 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTATAATAATTTTATAA
Found at i:85105989 original size:35 final size:34
Alignment explanation
Indices: 85105904--85105990 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
85105894 ACTATTAATT
* *
85105904 AAATATTATAAAATAGATTATATAATTTTATTAAT
1 AAATATTAT-AAATAAATTATATAATTTTATTAAA
**
85105939 AAATAATT-TTGATAAATTATAATAATTTTA-TAAA
1 AAAT-ATTATAAATAAATTAT-ATAATTTTATTAAA
85105973 AAATATCTATAAATAAAT
1 AAATAT-TATAAATAAAT
85105991 AACATATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
33 2 0.05
34 16 0.38
35 21 0.50
36 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (34 bp):
AAATATTATAAATAAATTATATAATTTTATTAAA
Found at i:85123112 original size:3 final size:3
Alignment explanation
Indices: 85123106--85123198 Score: 93
Period size: 3 Copynumber: 32.0 Consensus size: 3
85123096 TTTTTTTTTC
* * *
85123106 TCT TCT TCT TCT TCT TCT TTT TCT TC- TCC TAT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * * *
85123153 CCT TC- TCC TAT TCT TTT TCT TCT TCT TCT T-T TCC TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
85123199 ACTGCCCAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
2 6 0.08
3 67 0.92
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Done.