Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 91 of 259
Found at i:29801856 original size:24 final size:24
Alignment explanation
Indices: 29801824--29801873 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
29801814 ACTTGTGTGT
*
29801824 GTTTTCAATTTTTTTA-TAGATATC
1 GTTTTCAATTGTTTTATTAG-TATC
29801848 GTTTTCAATTGTTTTATTAGTATC
1 GTTTTCAATTGTTTTATTAGTATC
29801872 GT
1 GT
29801874 AGCTATCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.58
Consensus pattern (24 bp):
GTTTTCAATTGTTTTATTAGTATC
Found at i:29811113 original size:40 final size:40
Alignment explanation
Indices: 29810875--29811099 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
29810865 TTGAATGATG
* * * *
29810875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
29810915 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29810955 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29810994 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29811034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29811075 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29811100 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29811121 original size:119 final size:119
Alignment explanation
Indices: 29810875--29811132 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
29810865 TTGAATGATG
* *
29810875 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
29810940 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
29810994 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
29811057 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
29811114 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29811133 TATGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:29818595 original size:79 final size:81
Alignment explanation
Indices: 29818459--29818641 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
29818449 TTGAATGATG
* *
29818459 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29818523 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29818538 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29818600 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
29818618 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29818642 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:29818657 original size:40 final size:40
Alignment explanation
Indices: 29818460--29818643 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
29818450 TGAATGATGT
* * * *
29818460 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29818500 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
29818540 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29818578 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29818619 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29818644 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29818665 original size:79 final size:79
Alignment explanation
Indices: 29818512--29818676 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29818502 GGACTAAGAT
* **
29818512 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29818577 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
29818591 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
29818654 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29818670 CCGAAGG
1 CCGAAGG
29818677 TATGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29820312 original size:29 final size:28
Alignment explanation
Indices: 29820261--29820316 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
29820251 ATCAAGTGAT
*
29820261 TATATGTGACAAAGTATGAGAAAATATGC
1 TATATGTGACAAAGAATGAG-AAATATGC
*
29820290 TATATGTG-CAAATGAATGGGAAATATG
1 TATATGTGACAAA-GAATGAGAAATATG
29820317 TGAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.29
Consensus pattern (28 bp):
TATATGTGACAAAGAATGAGAAATATGC
Found at i:29826768 original size:43 final size:43
Alignment explanation
Indices: 29826710--29826880 Score: 220
Period size: 43 Copynumber: 4.0 Consensus size: 43
29826700 TATCGAAATG
29826710 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
*
29826754 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * * * *
29826797 TAATATTGGGCCTCTGGCCTAGCAGGCTATAATGCCGATGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
29826840 TGATATTGGGGTT-GAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCG-GGCCTAGCAGGCTATAATGCCGGTGAA
29826881 TGAATTCAGA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 11 0.10
43 95 0.85
44 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:29830743 original size:40 final size:40
Alignment explanation
Indices: 29830656--29830877 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
29830646 AATGATGTCT
* * * *
29830656 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * *
29830696 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
29830736 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
29830775 GAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
29830815 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
29830855 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
29830878 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:29830900 original size:119 final size:119
Alignment explanation
Indices: 29830660--29830883 Score: 265
Period size: 119 Copynumber: 1.9 Consensus size: 119
29830650 ATGTCTGGGC
*
29830660 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* * ** *
29830725 ATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCGAGT
* * * **
29830779 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * *
29830842 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAG
29830884 GAGCTATATC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
118 3 0.03
119 61 0.69
120 24 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCGAGT
Found at i:29844261 original size:40 final size:40
Alignment explanation
Indices: 29844206--29844347 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
29844196 TATTCGGATG
*
29844206 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
29844246 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
29844286 ATATTCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
29844326 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29844348 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.14
40 77 0.84
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:29862969 original size:40 final size:40
Alignment explanation
Indices: 29862914--29863095 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
29862904 TATTCGGATG
* *
29862914 ATATCCGAGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
29862954 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
29862994 CTATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
29863034 ATATTCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
29863074 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29863096 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:29869769 original size:39 final size:40
Alignment explanation
Indices: 29869655--29869839 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
29869645 GCTACTCGTT
*
29869655 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
29869695 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
29869735 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
29869774 CAAATGCCTGC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
29869815 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29869840 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29869823 original size:79 final size:80
Alignment explanation
Indices: 29869655--29869839 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
29869645 GCTACTCGTT
* * *
29869655 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTGCGGGACTTAACCCG
* *
29869719 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
29869736 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTGC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTGCGGGA-CTTAACCCGG
* *
29869799 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
29869815 CAAAGCCTTCAGGACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
29869840 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTGCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:29875463 original size:55 final size:55
Alignment explanation
Indices: 29875392--29875496 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
29875382 ACCATGGGTG
* *
29875392 TTCCACACGGGCGTGTCGA-ATGCCCGTGCTATTTTGGCAGGCTCGACCACGATTC
1 TTCCACACGAGCGTGTC-ACACGCCCGTGCTATTTTGGCAGGCTCGACCACGATTC
* *
29875447 TTCCACACGAGCGTGTCACACGCCCGTGTTGTTTTGGCAGGCTCGACCAC
1 TTCCACACGAGCGTGTCACACGCCCGTGCTATTTTGGCAGGCTCGACCAC
29875497 AGCCATATCG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.25
Consensus pattern (55 bp):
TTCCACACGAGCGTGTCACACGCCCGTGCTATTTTGGCAGGCTCGACCACGATTC
Found at i:29883605 original size:27 final size:28
Alignment explanation
Indices: 29883553--29883608 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
29883543 GATGCAATTA
* **
29883553 AGTTGTCTAAACTTAAGACACTTTAAAT
1 AGTTGTATAAACTTAAGACAAATTAAAT
29883581 AGTTGTATAAAC-TAAGACAAATTAAAT
1 AGTTGTATAAACTTAAGACAAATTAAAT
29883608 A
1 A
29883609 ACTCAAGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (28 bp):
AGTTGTATAAACTTAAGACAAATTAAAT
Found at i:29883616 original size:19 final size:18
Alignment explanation
Indices: 29883590--29883626 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
29883580 TAGTTGTATA
29883590 AACTAAGACAAATTAAAT
1 AACTAAGACAAATTAAAT
29883608 AACTCAAGACAAATTAAAT
1 AACT-AAGACAAATTAAAT
29883627 GGCCATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (18 bp):
AACTAAGACAAATTAAAT
Found at i:29883711 original size:46 final size:45
Alignment explanation
Indices: 29883585--29883719 Score: 128
Period size: 46 Copynumber: 2.9 Consensus size: 45
29883575 TTAAATAGTT
* * *
29883585 GTATAAACTAAGACAAATTAAATAACTCAAGACAAATTAAATGGCC
1 GTATATACTTAGACAAATTAAATAACTCAAGACAAATT-AATTGCC
* * * * * *
29883631 ATA-ACTAATTAGAACAAATTAATTATCTTAAGACATATTAATTGCC
1 GTATA-TACTTAG-ACAAATTAAATAACTCAAGACAAATTAATTGCC
* *
29883677 GTATATACTTAGACATATTAAATAAACTCAAGACACATTAATT
1 GTATATACTTAGACAAATTAAAT-AACTCAAGACAAATTAATT
29883720 ACTTAAACTA
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
45 10 0.14
46 36 0.52
47 23 0.33
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (45 bp):
GTATATACTTAGACAAATTAAATAACTCAAGACAAATTAATTGCC
Found at i:29886198 original size:29 final size:31
Alignment explanation
Indices: 29886116--29886198 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 31
29886106 CAGTACAATC
* *
29886116 TGGGCCAAAGCCCT-ATTCAGTAACAGTAAGTC
1 TGGGCCTAAGCCCTAATTCAGT-A-AGTAAGTA
* *
29886148 TGGGCCTTAGCCCTTAA-ACAGT-AGTAA-TA
1 TGGGCCTAAGCCC-TAATTCAGTAAGTAAGTA
29886177 TGGGCCTAAGCCCTAATTCAGT
1 TGGGCCTAAGCCCTAATTCAGT
29886199 CTCGACATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
28 3 0.07
29 17 0.40
30 5 0.12
32 11 0.26
33 5 0.12
34 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (31 bp):
TGGGCCTAAGCCCTAATTCAGTAAGTAAGTA
Found at i:29886280 original size:30 final size:31
Alignment explanation
Indices: 29886204--29886286 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
29886194 TCAGTCTCGA
* * * *
29886204 CATAT-ACTAGGCTGAAGACTTTTCATCAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
29886234 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
29886265 CATATCA-TTGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
29886287 ACTGTAAGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 19 0.40
31 28 0.60
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:29886537 original size:25 final size:25
Alignment explanation
Indices: 29886505--29886574 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
29886495 CTCTTTTAAT
29886505 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
29886530 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
29886555 AACTGGGCCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
29886575 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:29886674 original size:43 final size:43
Alignment explanation
Indices: 29886625--29886712 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
29886615 TGTCATGTAT
29886625 GTAGAATGTCATGCCCATATTTGAATCAAACAATCACAGTCAA
1 GTAGAATGTCATGCCCATATTTGAATCAAACAATCACAGTCAA
29886668 GTAGAATGTCATGCCCATATTTGAATCAAACAATCACAGTCAA
1 GTAGAATGTCATGCCCATATTTGAATCAAACAATCACAGTCAA
29886711 GT
1 GT
29886713 CATTCATATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (43 bp):
GTAGAATGTCATGCCCATATTTGAATCAAACAATCACAGTCAA
Found at i:29887658 original size:27 final size:26
Alignment explanation
Indices: 29887542--29887758 Score: 175
Period size: 27 Copynumber: 8.0 Consensus size: 26
29887532 TTAGTAAATC
*
29887542 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAA-CAAGGGTATTTTGGTAATTT
** * *
29887569 TGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAA-CAAGGGTATTT-TGGTAA-TTT
* *
29887597 TAGAAAGTCAAGGGTATTTTTGTAATTT
1 TACAAA--CAAGGGTATTTTGGTAATTT
**
29887625 TGTAAATCAAGGGTATTTTGGTAATTT
1 TACAAA-CAAGGGTATTTTGGTAATTT
** *
29887652 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAA-CAAGGGTATTTTGGTAATTT
* * *
29887679 CACAAACCAGTGGTATTTCGGTAATTT
1 TACAAACAAG-GGTATTTTGGTAATTT
*
29887706 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAAC-AAGGGTATTTTGGTAATTT
*
29887733 TACAAACTAGGGGTATTTTGGTAATT
1 TACAAAC-AAGGGTATTTTGGTAATT
29887759 CTATCCTACA
Statistics
Matches: 160, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.01
27 128 0.80
28 17 0.11
29 13 0.08
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
TACAAACAAGGGTATTTTGGTAATTT
Found at i:29887694 original size:54 final size:54
Alignment explanation
Indices: 29887635--29887791 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 54
29887625 TGTAAATCAA
*
29887635 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAG
* * * * *
29887689 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAG
* ** * *
29887743 GGGTATTTTGGTAATTCTATCCTAC-AGGGCTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
29887792 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 81 0.94
55 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAG
Found at i:29887777 original size:81 final size:81
Alignment explanation
Indices: 29887635--29887791 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
29887625 TGTAAATCAA
* *
29887635 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCAG
*
29887700 TAATTTTACAAACTAG
66 TAATTTCACAAACTAG
* **
29887716 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTATCCTA-CAG-GGCTATT
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTC-A-CAAACCAGTGG-TATT
29887777 TCAGTAATTTCACAA
62 TCAGTAATTTCACAA
29887792 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
80 5 0.08
81 57 0.86
82 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCAG
TAATTTCACAAACTAG
Found at i:29887824 original size:27 final size:27
Alignment explanation
Indices: 29887790--29887987 Score: 189
Period size: 27 Copynumber: 7.3 Consensus size: 27
29887780 GTAATTTCAC
* *
29887790 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
29887817 AATTGAGGGTAAAATGGTATTTTTCTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * **
29887844 AATTGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
29887871 AATCAAGGGCAAATTGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
29887898 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * **
29887925 AGTCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
29887952 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
29887979 ACTCGAGGG
1 AATCGAGGG
29887988 CATTTCAGTA
Statistics
Matches: 134, Mismatches: 37, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:29887987 original size:81 final size:81
Alignment explanation
Indices: 29887790--29887979 Score: 290
Period size: 81 Copynumber: 2.3 Consensus size: 81
29887780 GTAATTTCAC
* ** * *
29887790 AATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAATGGTATTTTTCTAAATTGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATTGAGGGTAAAATGGTAATTTTCTAAATCGAGGGTG
29887855 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
* * * * *
29887871 AATCAAGGGCAAATTGGTAATTCTACAAATTGAGGGTAAAATGGTAATTTTGTAAGTCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATTGAGGGTAAAATGGTAATTTTCTAAATCGAGGGTG
29887936 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
29887952 AATCGAGGGTAAAATGGTAATTCTACAA
1 AATCGAGGGTAAAATGGTAATTCTACAA
29887980 CTCGAGGGCA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATTGAGGGTAAAATGGTAATTTTCTAAATCGAGGGTG
AAACAGTAATTCTATA
Found at i:29896328 original size:30 final size:30
Alignment explanation
Indices: 29896294--29896460 Score: 171
Period size: 30 Copynumber: 5.7 Consensus size: 30
29896284 AGCTGAAGCT
29896294 ATCCCTTTTCATAATTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
**
29896324 ATCCCTTTTCATTGTT-GATGGTCGTCA-C
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
* * *** *
29896352 ATCCCTTTTCATAATTCAATAG-CCAAAGCT
1 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
* * * *
29896382 ATCCCTTTTCATATTTCAATGGTCATCACT
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
*
29896412 ATCCCTTTTCATTATT-GATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
*
29896441 ATCCCTTTTCATAGTTCGAT
1 ATCCCTTTTCATAATTCGAT
29896461 AGTTGATGCT
Statistics
Matches: 110, Mismatches: 22, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
28 17 0.15
29 38 0.35
30 53 0.48
31 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:29896477 original size:88 final size:89
Alignment explanation
Indices: 29896252--29896482 Score: 329
Period size: 88 Copynumber: 2.6 Consensus size: 89
29896242 TGGAATCACA
* * *
29896252 ATGGTTGTCACCATCCCTTTGCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCGATGGT
1 ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCAATGGT
* *
29896317 CGTCACCATCCCTTTTCATTGTTG
66 CATCACCATCCCTTTTCATTATTG
* ** *
29896341 ATGGTCGTCA-CATCCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATATTTCAATGGT
1 ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCAATGGT
*
29896405 CATCACTATCCCTTTTCATTATTG
66 CATCACCATCCCTTTTCATTATTG
* * * *
29896429 ATGGTCGTCACCATCCCTTTTCATAGTTCGATAGTTGATGCTATCCTTTTTCAT
1 ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCAT
29896483 TGGTCGATGA
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 79 0.64
89 45 0.36
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (89 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCAATGGT
CATCACCATCCCTTTTCATTATTG
Found at i:29904843 original size:6 final size:6
Alignment explanation
Indices: 29904815--29904879 Score: 53
Period size: 6 Copynumber: 10.3 Consensus size: 6
29904805 CACTTTTTCC
*
29904815 TTTCTT TTTCTCT ATTT-TCT TTTCTT TTTCTT TTTCATT CTT-TT TTTCTT
1 TTTCTT TTTCT-T -TTTCT-T TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT
*
29904865 TTTTTT TTTGCTT TT
1 TTTCTT TTT-CTT TT
29904880 CAACAGATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.08
6 29 0.59
7 13 0.27
8 3 0.06
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:29904845 original size:11 final size:11
Alignment explanation
Indices: 29904807--29904871 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
29904797 ACTTTTCTCA
*
29904807 CTTTTTCCTTT
1 CTTTTTCTTTT
29904818 CTTTTTC---T
1 CTTTTTCTTTT
29904826 CTATTTTCTTTT
1 CT-TTTTCTTTT
29904838 CTTTTTCTTTTT
1 CTTTTTC-TTTT
29904850 CATTCTTT-TTTT
1 C-TT-TTTCTTTT
29904862 CTTTTT-TTTT
1 CTTTTTCTTTT
29904872 TTGCTTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.06
9 5 0.11
10 7 0.15
11 14 0.30
12 13 0.28
13 2 0.04
14 3 0.06
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:29904855 original size:10 final size:8
Alignment explanation
Indices: 29904815--29904873 Score: 50
Period size: 8 Copynumber: 7.0 Consensus size: 8
29904805 CACTTTTTCC
29904815 TTTCTTTT
1 TTTCTTTT
*
29904823 TCTCTATTT
1 TTTCT-TTT
29904832 TCTT-TTCTT
1 T-TTCTT-TT
29904841 TTTCTTTT
1 TTTCTTTT
29904849 TCATTCTTTT
1 T--TTCTTTT
29904859 TTTCTTTT
1 TTTCTTTT
29904867 TTT-TTTT
1 TTTCTTTT
29904874 GCTTTTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
7 4 0.09
8 20 0.47
9 10 0.23
10 9 0.21
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTCTTTT
Found at i:29904858 original size:26 final size:24
Alignment explanation
Indices: 29904815--29904873 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
29904805 CACTTTTTCC
29904815 TTTCTTTTTCTCTATTTTCTTTTCTT
1 TTTCTTTTTCTCTA-TTT-TTTTCTT
*
29904841 TTTCTTTTTCAT-TCTTTTTTTCTT
1 TTTCTTTTTC-TCTATTTTTTTCTT
*
29904865 TTTTTTTTT
1 TTTCTTTTT
29904874 GCTTTTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 15 0.50
25 3 0.10
26 11 0.37
27 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTCTTTTTCTCTATTTTTTTCTT
Found at i:29904858 original size:36 final size:38
Alignment explanation
Indices: 29904807--29904879 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 38
29904797 ACTTTTCTCA
*
29904807 CTTTTTCCTTTCTTTTTCTCTATTTTCTTTT-CTTTTT
1 CTTTTTCCATTCTTTTTCTCTATTTTCTTTTGCTTTTT
* * *
29904844 CTTTTT-CATTCTTTTTTTCTTTTTTTTTTTGCTTTT
1 CTTTTTCCATTCTTTTTCTCTATTTTCTTTTGCTTTT
29904880 CAACAGATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (38 bp):
CTTTTTCCATTCTTTTTCTCTATTTTCTTTTGCTTTTT
Found at i:29904862 original size:18 final size:17
Alignment explanation
Indices: 29904816--29904867 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
29904806 ACTTTTTCCT
*
29904816 TTCTTTTTCTCTATTTTC
1 TTCTTTTTTTCT-TTTTC
29904834 TT-TTCTTTTTCTTTTTC
1 TTCTT-TTTTTCTTTTTC
29904851 ATTCTTTTTTTCTTTTT
1 -TTCTTTTTTTCTTTTT
29904868 TTTTTTGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 21 0.70
19 2 0.07
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTTCTTTTTC
Found at i:29904870 original size:21 final size:21
Alignment explanation
Indices: 29904815--29904858 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
29904805 CACTTTTTCC
*
29904815 TTTCTTTTTCTCTATT--TTCT
1 TTTCTTTTTCT-TTTTCATTCT
29904835 TTTCTTTTTCTTTTTCATTCT
1 TTTCTTTTTCTTTTTCATTCT
29904856 TTT
1 TTT
29904859 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCTTTTTCTTTTTCATTCT
Found at i:29904872 original size:11 final size:11
Alignment explanation
Indices: 29904808--29904872 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
29904798 CTTTTCTCAC
*
29904808 TTTTTCCTTTCT
1 TTTTTTCTTT-T
*
29904820 TTTTCTCTATTT
1 TTTTTTCT-TTT
*
29904832 TCTTTTCTTTT
1 TTTTTTCTTTT
*
29904843 TCTTTTTCATTCT
1 T-TTTTTC-TTTT
29904856 TTTTTTCTTTT
1 TTTTTTCTTTT
29904867 TTTTTT
1 TTTTTT
29904873 TGCTTTTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 13 0.30
12 24 0.56
13 6 0.14
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:29904879 original size:11 final size:10
Alignment explanation
Indices: 29904829--29904879 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
29904819 TTTTTCTCTA
29904829 TTTTCTTTTCT
1 TTTTCTTTT-T
29904840 TTTTCTTTTT
1 TTTTCTTTTT
**
29904850 CATTCTTTTT
1 TTTTCTTTTT
29904860 TTCTT-TTTTT
1 TT-TTCTTTTT
29904870 TTTTGCTTTT
1 TTTT-CTTTT
29904880 CAACAGATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.06
10 16 0.48
11 15 0.45
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:29912029 original size:40 final size:40
Alignment explanation
Indices: 29911985--29912066 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
29911975 AATTTCATAC
29911985 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
1 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
29912025 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
1 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
29912065 TA
1 TA
29912067 GTCCCTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (40 bp):
TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
Found at i:29914033 original size:15 final size:15
Alignment explanation
Indices: 29914013--29914041 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29914003 CCAATATACC
29914013 TCTCGAAGGTCTTGG
1 TCTCGAAGGTCTTGG
29914028 TCTCGAAGGTCTTG
1 TCTCGAAGGTCTTG
29914042 AAGGTCGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (15 bp):
TCTCGAAGGTCTTGG
Found at i:29920297 original size:27 final size:26
Alignment explanation
Indices: 29920127--29920300 Score: 204
Period size: 27 Copynumber: 6.5 Consensus size: 26
29920117 AGGGGCAAAA
* * *
29920127 CGGTAATTTTACCCCACAAGGGTATCT
1 CGGTAATTCTACCCTAC-AGGGTATTT
29920154 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACA-GGGTATTT
*
29920181 CGGTATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTAC-AGGGTATTT
* * *
29920208 CGATAATTCTATCCTATAGGAGTATTT
1 CGGTAATTCTACCCTACAGG-GTATTT
*
29920235 CAGTAATTCTACCCTACAGTGGTATTT
1 CGGTAATTCTACCCTACAG-GGTATTT
**
29920262 CAATAATTCTACCCTACAGTGGTATTT
1 CGGTAATTCTACCCTACAG-GGTATTT
29920289 CGGTAATTCTAC
1 CGGTAATTCTAC
29920301 AACTTATCCA
Statistics
Matches: 128, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.03
27 122 0.95
28 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (26 bp):
CGGTAATTCTACCCTACAGGGTATTT
Found at i:29922541 original size:40 final size:40
Alignment explanation
Indices: 29922445--29922616 Score: 240
Period size: 40 Copynumber: 4.3 Consensus size: 40
29922435 GCTCCTCGTT
* * * *
29922445 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
29922485 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
29922524 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
29922564 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
29922604 CAAATGCCTTCGG
1 CAAATGCCTTCGG
29922617 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 34 0.28
40 82 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29922629 original size:80 final size:79
Alignment explanation
Indices: 29922445--29922667 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 79
29922435 GCTCCTCGTT
* * * * *
29922445 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAAGCCTTCGGGACTTAACCCGGA
29922510 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* *
29922524 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
29922589 AATTT-GTATCTCGCA
65 -ATTTAATAACTCGCA
* * * * * *
29922604 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCATTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATCTCGCACAAAGCCTTCGGGACTTAACCCG
29922668 AACAGCATTC
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
79 41 0.33
80 68 0.55
81 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAAGCCTTCGGGACTTAACCCGGA
TTTAATAACTCGCA
Found at i:29922663 original size:40 final size:40
Alignment explanation
Indices: 29922445--29922667 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
29922435 GCTCCTCGTT
* * * * * * *
29922445 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATATATTATCTCGCA
* * *
29922485 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATATTATCTCGCA
* *
29922524 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATATTATCTCGCA
* * *
29922564 CAAAGGCCTTCGGGGCTTAACCCGGA-ATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAT-TATCTCGCA
** * *
29922604 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCATTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATATATT-ATCTCGCA
*
29922645 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
29922668 AACAGCATTC
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.66
41 16 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATATTATCTCGCA
Found at i:29929779 original size:40 final size:39
Alignment explanation
Indices: 29929688--29929910 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 39
29929678 TCCTCGTTCA
* * * *
29929688 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
29929727 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
29929766 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
29929806 AAAGGCCTTCAGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTC-GGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
29929846 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
29929887 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29929911 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 37 0.24
40 103 0.66
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:29929919 original size:41 final size:41
Alignment explanation
Indices: 29929842--29929919 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29929832 TTTGTATCTC
* * *
29929842 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29929883 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29929920 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29934702 original size:30 final size:30
Alignment explanation
Indices: 29934666--29934724 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
29934656 TTTACGAGCC
* *
29934666 TAAGGGT-TAAATCGTAAATATGTGAAAGTT
1 TAAGGGTCAAAAT-GTAAATATGTAAAAGTT
*
29934696 TAAGGGTCAAAATGTAAATTTGTAAAAGT
1 TAAGGGTCAAAATGTAAATATGTAAAAGT
29934725 ATGATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
TAAGGGTCAAAATGTAAATATGTAAAAGTT
Found at i:29935210 original size:43 final size:43
Alignment explanation
Indices: 29935161--29935244 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
29935151 GAGATATGTG
**
29935161 GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATTCTGGATGCAA
1 GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGCAA
** *
29935204 GCATCTGAGCTCGTTGATTGGTTCAAGTTCATGATGGATGC
1 GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGC
29935245 GATTCATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (43 bp):
GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGCAA
Found at i:29937294 original size:41 final size:40
Alignment explanation
Indices: 29937177--29937319 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 40
29937167 TACTTGATAT
* * *
29937177 CTCGCACAGTAAGTGCCAATACATAGCCGAAGCTATTATAA
1 CTCGCACATTAAGTGCC-ATACATAGTCGAAGCTATTCTAA
* * * * *
29937218 TCTCGTACATTAAGTGCCTTACATATTTGACGCTATCTCTAA
1 -CTCGCACATTAAGTGCCATACATAGTCGAAGCTAT-TCTAA
** *
29937260 CTCGCACATTAAGTGCCATGTATAGTCGAAGCTATTCCGAA
1 CTCGCACATTAAGTGCCATACATAGTCGAAGCTATT-CTAA
*
29937301 -TCGCACACTAAGTGCCATA
1 CTCGCACATTAAGTGCCATA
29937320 TATATATCTG
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 18 0.22
41 44 0.54
42 19 0.23
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (40 bp):
CTCGCACATTAAGTGCCATACATAGTCGAAGCTATTCTAA
Found at i:29945208 original size:40 final size:40
Alignment explanation
Indices: 29945163--29945301 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
29945153 AACTATTGAA
* * * *
29945163 TAAATGTACATACATGCCCCTGTTTGCACTTCAGTACCCC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGTACCCC
* **
29945203 TAAATGCACATACGTTCCCCTGTTTGTACTTTAGTACCTT
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGTACCCC
*
29945243 TGAATGCACATACGTGCCCCTGTTTGTACTTTAGTACCCC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGTACCCC
* *
29945283 TAAATACACTTACGTGCCC
1 TAAATGCACATACGTGCCC
29945302 TGCTTATACT
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (40 bp):
TAAATGCACATACGTGCCCCTGTTTGTACTTTAGTACCCC
Found at i:29957692 original size:118 final size:118
Alignment explanation
Indices: 29957500--29957748 Score: 376
Period size: 118 Copynumber: 2.1 Consensus size: 118
29957490 GCTCCTCGTT
* * *
29957500 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTAACCCGGAT
1 CAAATGCCTTCGGGACATAACCCGGATTTAGAAACTCACACAATGCCTTCGGGACTAACCCGGAT
29957565 TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
66 TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * *
29957618 CGAATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGAAACTCACAC-AATGCCTTCGGGAC-TAACCCGG
** *
29957682 ATTTAA-AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
64 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
29957736 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
29957749 ATCTTATCCG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
117 8 0.07
118 96 0.81
119 14 0.12
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGAAACTCACACAATGCCTTCGGGACTAACCCGGAT
TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:29957761 original size:39 final size:39
Alignment explanation
Indices: 29957502--29957748 Score: 363
Period size: 39 Copynumber: 6.3 Consensus size: 39
29957492 TCCTCGTTCA
* * * * *
29957502 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACG
29957541 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACG
29957580 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACG
29957620 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
29957659 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
* * *
29957698 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACG
*
29957738 AAGGCCTTCGG
1 AATGCCTTCGG
29957749 ATCTTATCCG
Statistics
Matches: 196, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
38 19 0.10
39 105 0.54
40 72 0.37
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
Found at i:29957784 original size:118 final size:118
Alignment explanation
Indices: 29957538--29957800 Score: 354
Period size: 118 Copynumber: 2.2 Consensus size: 118
29957528 TAGTAACTCA
29957538 CACAATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
* * * *
29957602 GATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAAACTCG
66 GATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAAACTAG
29957655 CACGAATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACGAATGCCTTCGGGACTTAACCC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCC
** * * **
29957719 GGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTT-ATCCGGATATATTCACTTAG
65 GGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATA-AAAC-TAG
* *
29957774 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
29957801 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
117 15 0.12
118 95 0.74
119 19 0.15
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (118 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
GATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAAACTAG
Found at i:29957792 original size:79 final size:78
Alignment explanation
Indices: 29957502--29957800 Score: 349
Period size: 79 Copynumber: 3.8 Consensus size: 78
29957492 TCCTCGTTCA
* * * *
29957502 AATGCCTTCGGGACATAGCCCGGTTTTAGTA-ACTCACAC-AATGCCTTCGGGAC-TAACCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTA--ACACTCGCACGAATGCCTTCGGGACTTAACCCGGA
29957564 TTTAACAACTCGCACG
64 TTTAA-AACTCGCACG
29957580 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAAC-ACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
29957645 TTAAAACTCGCACG
65 TTAAAACTCGCACG
*
29957659 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAACACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
* * *
29957724 TAGTATCTCGCACA
66 TA-AAACTCGCACG
* * * * * * *
29957738 AAGGCCTTC-GGATCTT-ATCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAC-TCGCACGAATGCCTTCGGGACTTAACCCGG
29957800 A
63 A
29957801 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
76 1 0.01
78 81 0.41
79 96 0.49
80 19 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
TAAAACTCGCACG
Found at i:29965571 original size:40 final size:40
Alignment explanation
Indices: 29965473--29965775 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
29965463 TCCTCGTTCA
* * * * * *
29965473 AATGCCTTCGAGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29965512 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29965552 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29965592 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29965632 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29965672 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
29965712 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29965752 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29965776 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 36 0.15
40 195 0.82
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29968408 original size:30 final size:30
Alignment explanation
Indices: 29968372--29968428 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
29968362 CTTACGAGCC
*
29968372 TAGGGGCAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAAATATAATTTTGACAAAGTT
* *
29968402 TAGGGGCAAAATTATAATTTTTACAAA
1 TAGGGGCAAAAATATAATTTTGACAAA
29968429 ATATGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTTTGACAAAGTT
Found at i:29968767 original size:27 final size:27
Alignment explanation
Indices: 29968726--29968779 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29968716 TGTCATGTGA
* *
29968726 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
29968753 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
29968780 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:29969259 original size:49 final size:50
Alignment explanation
Indices: 29969027--29969271 Score: 296
Period size: 49 Copynumber: 4.9 Consensus size: 50
29969017 TCTATTGTGG
* *
29969027 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
* * * *
29969076 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TTA
* * * * * **
29969127 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGCTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
* * *
29969177 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACTGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
* * *
29969226 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
29969272 GCCTTGTCTA
Statistics
Matches: 165, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 82 0.50
50 45 0.27
51 38 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
Found at i:29976402 original size:126 final size:126
Alignment explanation
Indices: 29976177--29976430 Score: 463
Period size: 126 Copynumber: 2.0 Consensus size: 126
29976167 AATTTCGCTT
*
29976177 AAATGAAGTAAACAGAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTAAGGGTTTTA
1 AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTAAGGGTTTTA
* *
29976242 ATAAATTAGCTAGTAATTAACTTAGTTATTACCTTTCGAGTTCTAACTAAACTAACTAGTC
66 ACAAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCTAACTAAACTAACTAGTC
*
29976303 AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTTAGGGTTTTA
1 AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTAAGGGTTTTA
*
29976368 ACGAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCTAACTAAACTAACTAGTC
66 ACAAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCTAACTAAACTAACTAGTC
29976429 AA
1 AA
29976431 GATAAGCTAC
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (126 bp):
AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTAAGGGTTTTA
ACAAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCTAACTAAACTAACTAGTC
Found at i:29980787 original size:6 final size:6
Alignment explanation
Indices: 29980776--29980808 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
29980766 TGATCAGGAC
*
29980776 TACTGT TACTGT TACTGT TACCGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
29980809 CGGTTTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:29981135 original size:18 final size:18
Alignment explanation
Indices: 29981112--29981163 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
29981102 AATTTAATTG
*
29981112 TTACTGTATATCTGATTT
1 TTACTGAATATCTGATTT
*
29981130 TTACTGAACAAT-TGATTT
1 TTACTGAA-TATCTGATTT
* *
29981148 TTACTGGATAACTGAT
1 TTACTGAATATCTGAT
29981164 CAATTGATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (18 bp):
TTACTGAATATCTGATTT
Found at i:29981168 original size:26 final size:26
Alignment explanation
Indices: 29981132--29981189 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
29981122 TCTGATTTTT
* **
29981132 ACTGAACAATTGATTTTTACTGGA-TA
1 ACTGATCAATTGATTGATACT-GACTA
29981158 ACTGATCAATTGATTGATACTGACTA
1 ACTGATCAATTGATTGATACTGACTA
29981184 ACTGAT
1 ACTGAT
29981190 TATTATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (26 bp):
ACTGATCAATTGATTGATACTGACTA
Found at i:29981219 original size:18 final size:18
Alignment explanation
Indices: 29981198--29981238 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
29981188 ATTATTATTG
* *
29981198 AATAATTGATTGTTACCA
1 AATAACTGACTGTTACCA
*
29981216 AATAACTGACTGTTACTA
1 AATAACTGACTGTTACCA
29981234 AATAA
1 AATAA
29981239 ATAATTGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (18 bp):
AATAACTGACTGTTACCA
Found at i:29988520 original size:30 final size:30
Alignment explanation
Indices: 29988486--29988574 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
29988476 CTACACAAGT
*
29988486 AACCTTGATATTATGTTAGCTTGTGTGAGC
1 AACCTTGATATTATGTCAGCTTGTGTGAGC
* *
29988516 AACCTTG-TTTTAATGTCAGCTTGTGTAAGC
1 AACCTTGATATT-ATGTCAGCTTGTGTGAGC
* *
29988546 AACCCTGATATAATGTCAGCTTGTGTGAG
1 AACCTTGATATTATGTCAGCTTGTGTGAG
29988575 TAATTTAATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.06
30 45 0.90
31 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (30 bp):
AACCTTGATATTATGTCAGCTTGTGTGAGC
Found at i:29992396 original size:40 final size:40
Alignment explanation
Indices: 29992312--29992481 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
29992302 TCCTCGTTCA
* * * *
29992312 AATGCCTTCGGGACATAGCCC-GATTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACG
* * *
29992351 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29992391 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
29992431 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29992471 AAGGCCTTCGG
1 AATGCCTTCGG
29992482 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 30 0.27
40 82 0.73
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29994605 original size:40 final size:40
Alignment explanation
Indices: 29994521--29994745 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
29994511 TTGAATGATG
* * * *
29994521 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
29994561 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29994601 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29994640 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29994680 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
29994721 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29994746 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29994763 original size:80 final size:80
Alignment explanation
Indices: 29994521--29994778 Score: 224
Period size: 80 Copynumber: 3.2 Consensus size: 80
29994511 TTGAATGATG
* * * * * * * *
29994521 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
29994584 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
29994601 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
29994665 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* * *
29994680 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
29994744 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
29994760 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29994779 TACGTGATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 73 0.48
80 75 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:30002646 original size:40 final size:40
Alignment explanation
Indices: 30002556--30002780 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
30002546 TTGAATGATG
* * * *
30002556 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
30002596 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30002636 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30002675 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30002715 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
30002756 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30002781 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 118 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30002798 original size:80 final size:80
Alignment explanation
Indices: 30002556--30002813 Score: 215
Period size: 80 Copynumber: 3.2 Consensus size: 80
30002546 TTGAATGATG
* * * * * * * *
30002556 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
30002619 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * *
30002636 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
30002700 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* * *
30002715 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
30002779 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
30002795 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30002814 TACGTGATTT
Statistics
Matches: 150, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.48
80 74 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:30002802 original size:119 final size:119
Alignment explanation
Indices: 30002556--30002813 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
30002546 TTGAATGATG
* * *
30002556 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
** ** *
30002621 GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAAACTCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
30002675 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
30002738 TTGTGCGAGTTACTATAACT-GGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTA-AACTCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
30002795 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30002814 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 1 0.01
119 81 0.70
120 33 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAACTCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:30007425 original size:41 final size:41
Alignment explanation
Indices: 30007373--30007535 Score: 209
Period size: 41 Copynumber: 4.0 Consensus size: 41
30007363 GAGTGTAAAT
* * *
30007373 AGAGGCACATATGTGCTATTTAGGGGCACCGAAGTACAAAC
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * **
30007414 AGGGGCTCATATGTGCAATTTAGGGGTACCAAAGTGTAAAC
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * *
30007455 AGAGGCACGTATGCGCAATTTAAGGGTACCAAAGTACAAAC
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * *
30007496 AGAGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAA
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAA
30007536 AGGGGATAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (41 bp):
AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
Found at i:30026084 original size:93 final size:93
Alignment explanation
Indices: 30025972--30026143 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30025962 CGCCCATAAG
* *
30025972 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30026037 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30026065 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30026130 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30026144 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30026140 original size:46 final size:46
Alignment explanation
Indices: 30025965--30026140 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30025955 TGTAACCCGC
* * *
30025965 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30026011 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30026061 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30026104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30026141 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30033603 original size:93 final size:93
Alignment explanation
Indices: 30033490--30033661 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30033480 CGCCCATAAG
* *
30033490 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30033555 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30033583 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30033648 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30033662 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30033658 original size:46 final size:46
Alignment explanation
Indices: 30033483--30033658 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30033473 TGTAACCCGC
* * *
30033483 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30033529 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30033579 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30033622 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30033659 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30042323 original size:40 final size:40
Alignment explanation
Indices: 30042268--30042581 Score: 547
Period size: 40 Copynumber: 7.8 Consensus size: 40
30042258 GAGCATTTGA
30042268 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
30042308 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
30042348 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
30042388 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
30042428 ATATATCCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
30042468 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
30042508 ATATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* ** * *
30042548 CTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30042582 TTGTGGTAAT
Statistics
Matches: 261, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:30044443 original size:46 final size:46
Alignment explanation
Indices: 30044376--30044547 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
30044366 TGTAACCCGC
* *
30044376 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30044422 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
30044472 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30044515 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
30044548 TGGATGCTCA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30044497 original size:93 final size:93
Alignment explanation
Indices: 30044384--30044554 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
30044374 GCCCATAAGA
* *
30044384 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30044449 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30044477 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30044542 CGAGTTTGGATGC
66 CGAGTTCGGATGC
30044555 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30051638 original size:41 final size:41
Alignment explanation
Indices: 30051482--30051638 Score: 160
Period size: 41 Copynumber: 3.8 Consensus size: 41
30051472 TCAGGGTCTA
*
30051482 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
1 AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTG-TAAT
* * *
30051524 AAT-CGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGTGTCAT
1 AATCCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGTGTAAT
* * * *
30051566 AA-CCG-GACTTAGTTTCGAAGGGCCTTCGAGCCAGTAGT-TT
1 AATCCGAG-CTTAGTCTCGAAGGGCTTTTGAGCCAGT-GTAAT
*
30051606 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
30051639 GGTGCTAAGA
Statistics
Matches: 96, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
40 11 0.11
41 45 0.47
42 31 0.32
43 9 0.09
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGTAAT
Found at i:30055415 original size:36 final size:36
Alignment explanation
Indices: 30055368--30055439 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
30055358 TATACCTCAA
30055368 GTTAATATCTCAGAACATACCATTTGTTTCAACTTT
1 GTTAATATCTCAGAACATACCATTTGTTTCAACTTT
30055404 GTTAATATCTCAGAACATACCATTTGTTTCAACTTT
1 GTTAATATCTCAGAACATACCATTTGTTTCAACTTT
30055440 CTTTGGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (36 bp):
GTTAATATCTCAGAACATACCATTTGTTTCAACTTT
Found at i:30055762 original size:31 final size:29
Alignment explanation
Indices: 30055704--30055767 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
30055694 GATAGTTCAA
* * *
30055704 GTACTACATTAGGCATTTTCAAAGTACAT
1 GTACCACATTAGGCATTTTAAAAGTACAG
30055733 GTACCACATTAGGCATTTTATAAAAGTACAG
1 GTACCACATTAGGCA-TTT-TAAAAGTACAG
30055764 GTAC
1 GTAC
30055768 TGTAATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 14 0.47
30 3 0.10
31 13 0.43
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (29 bp):
GTACCACATTAGGCATTTTAAAAGTACAG
Found at i:30057258 original size:62 final size:62
Alignment explanation
Indices: 30057148--30057373 Score: 231
Period size: 62 Copynumber: 3.6 Consensus size: 62
30057138 CTTCCATACA
* * * * * *
30057148 GCCTGGGCACATGCCCATGTACCTTGGTCGTGTGGTT-TTCAAGCACAAATAGTAAGTGACACG
1 GCCTGGGCACACGCCCGTGT-CCCTGGCCGTGTGGTTCTT-AAGTACAAATAGTAAGTTACACG
* *
30057211 GCCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAATAGTGAGTTACACA
1 GCCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAATAGTAAGTTACACG
* * * * * * *
30057273 GCCTAGGCACACACCTGTGTCCCTAGACGTGTGGTTCTTAAGTAAAAACAG-AGAGTTACACG
1 GCCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAATAGTA-AGTTACACG
* * * * *
30057335 GTCTGGGCACATGCACGTATCCCTTGCCGTGTGGTTCTT
1 GCCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTCTT
30057374 TCCCAGGCCA
Statistics
Matches: 135, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
62 115 0.85
63 20 0.15
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.26
Consensus pattern (62 bp):
GCCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAATAGTAAGTTACACG
Found at i:30065270 original size:79 final size:81
Alignment explanation
Indices: 30065134--30065316 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
30065124 TCGAATGATG
* *
30065134 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
30065198 GGTGCGAGTTACTA-A
66 GGTGCGAGTTACTATA
* * * **
30065213 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
30065275 TTTGTGCGAGTTACTATA
64 TTGGTGCGAGTTACTATA
* *
30065293 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30065317 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GGTGCGAGTTACTATA
Found at i:30065332 original size:40 final size:41
Alignment explanation
Indices: 30065134--30065318 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
30065124 TCGAATGATG
* * *
30065134 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
30065174 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30065214 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30065253 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30065294 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30065319 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 82 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30065349 original size:79 final size:79
Alignment explanation
Indices: 30065173--30065351 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
30065163 AAGTGACCAT
* *
30065173 ATCCGGACTAAGA-TCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATTCCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
**
30065237 GGTGCGAGTTACTAA
65 GGAACGAGTTACTAA
* * * * *
30065252 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
* *
30065316 TTGAACGAG-TAGCTAT
64 TGGAACGAGTTA-CTAA
30065332 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
30065352 TACGTAATTC
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.68
80 24 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGTTACTAA
Found at i:30068843 original size:24 final size:23
Alignment explanation
Indices: 30068799--30068841 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
30068789 TTGGATATAG
30068799 TAAAAAATATATATTATAAAATC
1 TAAAAAATATATATTATAAAATC
*
30068822 TAAAAACT-TATATTATAAAA
1 TAAAAAATATATATTATAAAA
30068842 AAAATTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAAAAATATATATTATAAAATC
Found at i:30072307 original size:3 final size:3
Alignment explanation
Indices: 30072291--30072353 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
30072281 ACCATATATA
*
30072291 AAT AAT AA- AA- AAT AAT AAT AAT AGT AATT AAT AGA- AAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A-AT AAT AA-T AAT
*
30072336 AAT AAAT AGT AAT AAT AA
1 AAT -AAT AAT AAT AAT AA
30072354 ATACACTACA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 5 0.10
3 35 0.70
4 10 0.20
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30072355 original size:13 final size:13
Alignment explanation
Indices: 30072291--30072356 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 13
30072281 ACCATATATA
* *
30072291 AATAATAAAAAAT
1 AATAATAAATAGT
30072304 AATAAT-AATAGT
1 AATAATAAATAGT
*
30072316 AATTAATAGAAATAATT
1 AA-TAAT--AAAT-AGT
30072333 AATAATAAATAGT
1 AATAATAAATAGT
30072346 AATAATAAATA
1 AATAATAAATA
30072357 CACTACAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 6 0.14
13 23 0.52
14 4 0.09
16 7 0.16
17 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
AATAATAAATAGT
Found at i:30072546 original size:43 final size:44
Alignment explanation
Indices: 30072471--30072577 Score: 180
Period size: 43 Copynumber: 2.5 Consensus size: 44
30072461 GCGTTTATTG
* *
30072471 AAAAAAACGCCGCTAAAAGTGCTGGCTTTTTAGCGGCGTTTGCT
1 AAAAATACGCCGCTAAAAGTGCTGGCCTTTTAGCGGCGTTTGCT
*
30072515 AAAAATGCGCCGCTAAAAGTGCT-GCCTTTTAGCGGCGTTTGCT
1 AAAAATACGCCGCTAAAAGTGCTGGCCTTTTAGCGGCGTTTGCT
30072558 AAAAATACGCCGCTAAAAGT
1 AAAAATACGCCGCTAAAAGT
30072578 CATAACTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 38 0.64
44 21 0.36
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
AAAAATACGCCGCTAAAAGTGCTGGCCTTTTAGCGGCGTTTGCT
Found at i:30072701 original size:31 final size:32
Alignment explanation
Indices: 30072666--30072747 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 32
30072656 CTTCCTGCAT
* *
30072666 TAAAATCCAACCAAATACAATAAATATA-ATA
1 TAAAATACAACCAAAAACAATAAATATACATA
* *
30072697 TAAAATACAGCCAAAAACAATAAATTTAGCATA
1 TAAAATACAACCAAAAACAATAAATATA-CATA
30072730 -AAAATACAACCAAAAACA
1 TAAAATACAACCAAAAACA
30072748 TTAATTCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
31 24 0.55
32 17 0.39
33 3 0.07
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.18
Consensus pattern (32 bp):
TAAAATACAACCAAAAACAATAAATATACATA
Found at i:30077111 original size:9 final size:9
Alignment explanation
Indices: 30077099--30077157 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
30077089 TCCGTAAGTT
*
30077099 GTTATGTAC
1 GTTATGTAA
*
30077108 GTTATGTGA
1 GTTATGTAA
30077117 GTTATGTAA
1 GTTATGTAA
*
30077126 ATTATGTAA
1 GTTATGTAA
*
30077135 GTTATGTGA
1 GTTATGTAA
30077144 GTTATGTAA
1 GTTATGTAA
30077153 GTTAT
1 GTTAT
30077158 TTTTTAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:30077131 original size:27 final size:27
Alignment explanation
Indices: 30077100--30077157 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
30077090 CCGTAAGTTG
*
30077100 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
30077127 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
30077154 TTAT
1 TTAT
30077158 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:30077733 original size:239 final size:240
Alignment explanation
Indices: 30077156--30077828 Score: 1179
Period size: 239 Copynumber: 2.8 Consensus size: 240
30077146 TATGTAAGTT
* *
30077156 ATTTTTTAATATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAACCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
* *
30077221 CGATATAAGGCAACCCGTCAGGTTTCTAAG-TTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTT-TCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
30077285 ATGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
130 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
30077350 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
195 ATTCAATAGTAAATGAGCTC-ATAGAACTTTTTTCAAGTCTTTTTGA
30077397 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
* * * *
30077462 CGATATAAGGCAACCTGTCAGGTTTCCAGCCTATATATTTTGAATCTTTAAAACATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
* *
30077527 GGCTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
30077592 TTCAATAGTAAATGAGCTC-TAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCATAGAACTTTTTTCAAGTCTTTTTGA
*
30077636 ATTTTCTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
30077701 CGATATAAGGCAACCCGTTAGGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
* *
30077766 GGTTAGAGAGAAGGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTAATAAA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
30077829 ATTAATTCAT
Statistics
Matches: 410, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
239 208 0.51
240 2 0.00
241 200 0.49
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (240 bp):
ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
TTCAATAGTAAATGAGCTCATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:30077895 original size:33 final size:33
Alignment explanation
Indices: 30077853--30077919 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
30077843 ATTCATAGTT
* *
30077853 AAGAACATACGCGTTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
*
30077886 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
30077919 A
1 A
30077920 TCCAAAGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAGTAGCAAAGAG
Found at i:30080657 original size:25 final size:25
Alignment explanation
Indices: 30080629--30080699 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
30080619 GAGAAGCAGC
30080629 AGAGGGATGCCGACGAAGATGTAGA
1 AGAGGGATGCCGACGAAGATGTAGA
* * * *
30080654 AGAGGGATGCCAATGGAGATGTAGC
1 AGAGGGATGCCGACGAAGATGTAGA
* *
30080679 AGAGGGCTGCCGACGACGATG
1 AGAGGGATGCCGACGAAGATG
30080700 CAGAGGACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.15, G:0.41, T:0.13
Consensus pattern (25 bp):
AGAGGGATGCCGACGAAGATGTAGA
Found at i:30082715 original size:20 final size:18
Alignment explanation
Indices: 30082670--30082707 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30082660 CTTAGGCTGA
*
30082670 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
30082688 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
30082707 G
1 G
30082708 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:30082941 original size:22 final size:20
Alignment explanation
Indices: 30082914--30082971 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 20
30082904 TGTTTGACTT
30082914 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
30082935 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
30082956 TTTTAAATAATTTTTA
1 TTTT--ATAATTTTTA
30082972 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.25
22 20 0.62
23 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:30082981 original size:21 final size:21
Alignment explanation
Indices: 30082957--30083000 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
30082947 TTATATTAAT
*
30082957 TTTAAATAATTTTTAAAAAAA
1 TTTAAATAATATTTAAAAAAA
* *
30082978 TTTAAGTAATATTTAAAATAA
1 TTTAAATAATATTTAAAAAAA
30082999 TT
1 TT
30083001 AGATAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTAAATAATATTTAAAAAAA
Found at i:30083344 original size:27 final size:26
Alignment explanation
Indices: 30083314--30083395 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
30083304 CCTAAATCAT
30083314 ATAACATAACCCTTAAACCCATAACCC
1 ATAACATAACCCTTAAACCC-TAACCC
* *
30083341 ATAACTCCTAACCCCT-AACCCTAACCC
1 ATAA--CATAACCCTTAAACCCTAACCC
* * *
30083368 CTAACACCTAAACCTTAAACCCCAACCC
1 ATAACA--TAACCCTTAAACCCTAACCC
30083396 TTAAACCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.02
27 19 0.44
28 15 0.35
29 8 0.19
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (26 bp):
ATAACATAACCCTTAAACCCTAACCC
Found at i:30083354 original size:14 final size:13
Alignment explanation
Indices: 30083329--30083378 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 13
30083319 ATAACCCTTA
*
30083329 AACCCATAACCCAT
1 AACCC-TAACCCCT
30083343 AACTCCTAACCCCT
1 AAC-CCTAACCCCT
30083357 AACCCTAACCCCT
1 AACCCTAACCCCT
30083370 AACACCTAA
1 AAC-CCTAA
30083379 ACCTTAAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 13 0.39
14 18 0.55
15 2 0.06
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTAACCCCT
Found at i:30083381 original size:21 final size:21
Alignment explanation
Indices: 30083339--30083452 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
30083329 AACCCATAAC
30083339 CCAT-AACTCCTAACCCCT-AA
1 CCATAAAC-CCTAACCCCTAAA
* * *
30083359 CCCTAACCCCTAACACCTAAA
1 CCATAAACCCTAACCCCTAAA
* * *
30083380 CCTTAAACCCCAACCCTTAAA
1 CCATAAACCCTAACCCCTAAA
** * * *
30083401 CCATAAACTATAAACCATAAT
1 CCATAAACCCTAACCCCTAAA
* * *
30083422 CCATAAACCCATAATCCATAAT
1 CCATAAACCC-TAACCCCTAAA
30083444 CCATAAACC
1 CCATAAACC
30083453 TTAAAATAGT
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 12 0.16
21 42 0.58
22 19 0.26
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (21 bp):
CCATAAACCCTAACCCCTAAA
Found at i:30083388 original size:28 final size:28
Alignment explanation
Indices: 30083324--30083427 Score: 88
Period size: 28 Copynumber: 3.7 Consensus size: 28
30083314 ATAACATAAC
* *
30083324 CCTTAAACCCATAACCCATAACTCCTAAC
1 CCTTAAACCC-TAACCCATAACACCTAAA
* *
30083353 CCCT-AACCCTAACCCCTAACACCTAAA
1 CCTTAAACCCTAACCCATAACACCTAAA
* *
30083380 CCTTAAACCCCAACCCTTAA-ACCATAAA
1 CCTTAAACCCTAACCCATAACACC-TAAA
* *
30083408 -CTATAAACCATAATCCATAA
1 CCT-TAAACCCTAACCCATAA
30083428 ACCCATAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
27 23 0.38
28 35 0.57
29 3 0.05
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.19
Consensus pattern (28 bp):
CCTTAAACCCTAACCCATAACACCTAAA
Found at i:30083396 original size:27 final size:27
Alignment explanation
Indices: 30083324--30083396 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 27
30083314 ATAACATAAC
* *
30083324 CCTTAAACCCATAACCCATAACTCCTAAC
1 CCTTAAACCC-TAACCC-TAACACCTAAA
*
30083353 CCCT-AACCCTAACCCCTAACACCTAAA
1 CCTTAAACCCTAA-CCCTAACACCTAAA
*
30083380 CCTTAAACCCCAACCCT
1 CCTTAAACCCTAACCCT
30083397 TAAACCATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 19 0.51
28 15 0.41
29 3 0.08
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.18
Consensus pattern (27 bp):
CCTTAAACCCTAACCCTAACACCTAAA
Found at i:30083435 original size:22 final size:22
Alignment explanation
Indices: 30083401--30083452 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
30083391 AACCCTTAAA
*
30083401 CCATAAA-CTATAAACCATAAT
1 CCATAAACCCATAAACCATAAT
*
30083422 CCATAAACCCATAATCCATAAT
1 CCATAAACCCATAAACCATAAT
30083444 CCATAAACC
1 CCATAAACC
30083453 TTAAAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAAACCCATAAACCATAAT
Found at i:30083457 original size:7 final size:7
Alignment explanation
Indices: 30083397--30083457 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
30083387 CCCCAACCCT
30083397 TAAACCA
1 TAAACCA
*
30083404 TAAACTA
1 TAAACCA
30083411 TAAACCA
1 TAAACCA
*
30083418 TAATCCA
1 TAAACCA
30083425 TAAACCCA
1 TAAA-CCA
*
30083433 TAATCCA
1 TAAACCA
*
30083440 TAATCCA
1 TAAACCA
*
30083447 TAAACCT
1 TAAACCA
30083454 TAAA
1 TAAA
30083458 ATAGTAACTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:30083769 original size:24 final size:23
Alignment explanation
Indices: 30083741--30083793 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
30083731 CCAAAATAAC
*
30083741 AATTAAATTTTATATAGACTTTT
1 AATTAAATTTTATATAAACTTTT
*
30083764 AAATTAATTTTTATATAAACTTTT
1 -AATTAAATTTTATATAAACTTTT
30083788 AATTAA
1 AATTAA
30083794 TATACGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTAAATTTTATATAAACTTTT
Found at i:30084495 original size:40 final size:40
Alignment explanation
Indices: 30084399--30084534 Score: 182
Period size: 41 Copynumber: 3.4 Consensus size: 40
30084389 GTTATATGAC
* *
30084399 TTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
*
30084439 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTTCTCTGT
1 -TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
* * ** *
30084480 TTTTAGCGGCGTTTTAACAAAAAACGTAGCTATTGCTCAGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCTGT
30084521 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
30084535 CCGCTATTGC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.18
41 70 0.82
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
Found at i:30084594 original size:12 final size:12
Alignment explanation
Indices: 30084579--30084604 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30084569 GTTTTTTGAT
30084579 AAAACGCCGCTA
1 AAAACGCCGCTA
30084591 AAAACGCCGCTA
1 AAAACGCCGCTA
30084603 AA
1 AA
30084605 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:30084932 original size:14 final size:14
Alignment explanation
Indices: 30084913--30084943 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30084903 ATATATTTAC
*
30084913 ATAATAAATATATA
1 ATAATAAATAAATA
30084927 ATAATAAATAAATA
1 ATAATAAATAAATA
30084941 ATA
1 ATA
30084944 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:30084944 original size:19 final size:18
Alignment explanation
Indices: 30084915--30084951 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
30084905 ATATTTACAT
30084915 AATAAATATATAATAATA
1 AATAAATATATAATAATA
30084933 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
30084952 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:30085000 original size:60 final size:60
Alignment explanation
Indices: 30084926--30085056 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 60
30084916 ATAAATATAT
* * *
30084926 AATAATAAATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAAT-AA-AAA-AATATAAAAATAATGAAA-ATAAAGCTCAAATAAATTAAATTAACAGTAA
* *
30084986 AATAATAAAAAAATATAAAAATAATGAGAATAAAGCTCAAATAAATTAATTTAACAGTAA
1 AATAATAAAAAAATATAAAAATAATGAAAATAAAGCTCAAATAAATTAAATTAACAGTAA
*
30085046 AATAACAAAAA
1 AATAATAAAAA
30085057 TAAAAAAGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
57 12 0.20
58 10 0.16
59 21 0.34
60 18 0.30
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (60 bp):
AATAATAAAAAAATATAAAAATAATGAAAATAAAGCTCAAATAAATTAAATTAACAGTAA
Found at i:30085389 original size:37 final size:37
Alignment explanation
Indices: 30085347--30085421 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
30085337 GATTTAGTTA
*
30085347 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
30085384 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
30085421 G
1 G
30085422 ATGGAGTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
Found at i:30087437 original size:31 final size:31
Alignment explanation
Indices: 30087399--30087460 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30087389 ATCTTAGATG
30087399 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
1 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
30087430 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
1 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
30087461 CTTATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (31 bp):
ATAGAAAGAATCCTTTTTATTGAGATGAAAT
Found at i:30090269 original size:13 final size:15
Alignment explanation
Indices: 30090239--30090271 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30090229 AATCTAAATT
*
30090239 AAAAATATTATATAA
1 AAAAACATTATATAA
30090254 AAAAACATTAT-TAA
1 AAAAACATTATATAA
30090268 AAAA
1 AAAA
30090272 TTATGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAACATTATATAA
Found at i:30093157 original size:18 final size:18
Alignment explanation
Indices: 30093134--30093178 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
30093124 AAACCATCCT
30093134 TAAAATCACTTGTAAAAC
1 TAAAATCACTTGTAAAAC
30093152 TAAAATCACTTGTAAAAC
1 TAAAATCACTTGTAAAAC
30093170 TAAAATCAC
1 TAAAATCAC
30093179 ATACATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (18 bp):
TAAAATCACTTGTAAAAC
Found at i:30095120 original size:30 final size:30
Alignment explanation
Indices: 30095053--30095120 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
30095043 TGATAGGAGG
** *
30095053 ATGGAAAATGGTAGCTCCGTTAAGTTTGTA
1 ATGGAAAACAGTAGCTCCGTTAAGTCTGTA
** * *
30095083 ACAGAAAACAGTAGCTTCGTTACGTCTGTA
1 ATGGAAAACAGTAGCTCCGTTAAGTCTGTA
30095113 ATGGAAAA
1 ATGGAAAA
30095121 GGGTTAGTGG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (30 bp):
ATGGAAAACAGTAGCTCCGTTAAGTCTGTA
Found at i:30095282 original size:17 final size:15
Alignment explanation
Indices: 30095257--30095294 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
30095247 ACTATTTTTT
30095257 ATTTTTTATTTATAAA
1 ATTTTTTATTT-TAAA
30095273 ATTTTATTATTTTAAA
1 ATTTT-TTATTTTAAA
30095289 ATTTTT
1 ATTTTT
30095295 GTATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTTTATTTTAAA
Found at i:30096401 original size:16 final size:16
Alignment explanation
Indices: 30096380--30096410 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30096370 TTTGAAAAAG
*
30096380 AATAAATAAAAATAAT
1 AATAAACAAAAATAAT
30096396 AATAAACAAAAATAA
1 AATAAACAAAAATAA
30096411 AAAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAACAAAAATAAT
Found at i:30097581 original size:24 final size:24
Alignment explanation
Indices: 30097527--30097588 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
30097517 TTGCAAAGTT
* * *
30097527 CACTATCACTATCATCATAGTTTA
1 CACTATTACTATCATCATAGCTCA
30097551 CACTATTACTATCATCATAGCTCA
1 CACTATTACTATCATCATAGCTCA
* *
30097575 CATTATTACCATCA
1 CACTATTACTATCA
30097589 ACTTCTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCA
Found at i:30107567 original size:49 final size:49
Alignment explanation
Indices: 30107510--30107608 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
30107500 ATATTCATCC
30107510 ATGGAAAAACTTTGATACTTTGATAACTTTTCAAATTAATCCCCGAAAT
1 ATGGAAAAACTTTGATACTTTGATAACTTTTCAAATTAATCCCCGAAAT
30107559 ATGGAAAAACTTTGATACTTTGATAACTTTTCAAATTAATCCCCGAAAT
1 ATGGAAAAACTTTGATACTTTGATAACTTTTCAAATTAATCCCCGAAAT
30107608 A
1 A
30107609 GATAGATTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (49 bp):
ATGGAAAAACTTTGATACTTTGATAACTTTTCAAATTAATCCCCGAAAT
Done.