Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 33 of 378
Found at i:8080769 original size:17 final size:17
Alignment explanation
Indices: 8080747--8080788 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
8080737 ATTAACACAA
8080747 AGTAAGCTTCATAGCTT
1 AGTAAGCTTCATAGCTT
8080764 AGTAAGCTTCATAGCTT
1 AGTAAGCTTCATAGCTT
8080781 AGTAAGCT
1 AGTAAGCT
8080789 CGTATGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (17 bp):
AGTAAGCTTCATAGCTT
Found at i:8082656 original size:89 final size:89
Alignment explanation
Indices: 8082533--8082756 Score: 288
Period size: 89 Copynumber: 2.5 Consensus size: 89
8082523 TTAGAAAATT
* * * * * *
8082533 AATAATACGCAAC-AAATTAAATTTGCAAACACAAGAAAATACAAACATTCTAGAATATTAATAC
1 AATAATAC-AAACAAAATTAAATTTACAGATACAAGAAAATACAAACATTCTAAAAAATTAATAC
8082597 ACAAAAATATAAAATTCGAACAACA
65 ACAAAAATATAAAATTCGAACAACA
* * * *
8082622 AATAATACAAACTAAATTAAATTTATAGATACAAGAAAATAAAAACTTTCTAAAAAATTAATACA
1 AATAATACAAACAAAATTAAATTTACAGATACAAGAAAATACAAACATTCTAAAAAATTAATACA
*
8082687 CGAAAATATAAAATTCGAACAACA
66 CAAAAATATAAAATTCGAACAACA
* ** *
8082711 AATAATACAGACAAAATTTGATTTACAGATACAAAAATAATACAAA
1 AATAATACAAACAAAATTAAATTTACAGATACAAGAA-AATACAAA
8082757 AATTTTGAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
88 3 0.03
89 106 0.91
90 7 0.06
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.23
Consensus pattern (89 bp):
AATAATACAAACAAAATTAAATTTACAGATACAAGAAAATACAAACATTCTAAAAAATTAATACA
CAAAAATATAAAATTCGAACAACA
Found at i:8087256 original size:74 final size:74
Alignment explanation
Indices: 8087176--8087320 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
8087166 ACTAATTTGT
* *
8087176 GTTCATAAATAATTTGTATCTATGTTCATAAATAAATATAAAATTATATTAATATAAATAAAAAA
1 GTTCATAAATAATTTGTATCTACGTTCATAAATAAATATAAAATTATATTAAGATAAATAAAAAA
*
8087241 TTAATTTAC
66 ATAATTTAC
* *
8087250 GTTCATAAATAATTTGTATCTACGTTCCTAAATAAATATATAATTATATTAAGATAAATAAAAAA
1 GTTCATAAATAATTTGTATCTACGTTCATAAATAAATATAAAATTATATTAAGATAAATAAAAAA
8087315 ATAATT
66 ATAATT
8087321 GTAATATATT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (74 bp):
GTTCATAAATAATTTGTATCTACGTTCATAAATAAATATAAAATTATATTAAGATAAATAAAAAA
ATAATTTAC
Found at i:8093862 original size:56 final size:56
Alignment explanation
Indices: 8093801--8093921 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 56
8093791 TAAGAAAAAA
* * * *
8093801 ATAAATTTATGTAGCATATACATATAAATTTTTTTGAATGTTGATTTATCATTTAT
1 ATAAATTTATGTAGCAGACACATATAAATTGTTTTGAATGTTCATTTATCATTTAT
* * * * *
8093857 ATAAATTTGTGTAGTAGACATATATAAATTGTTTTGAATTTTCATTTATCATTTTT
1 ATAAATTTATGTAGCAGACACATATAAATTGTTTTGAATGTTCATTTATCATTTAT
8093913 ATATAATTT
1 ATA-AATTT
8093922 TTAAAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
56 50 0.91
57 5 0.09
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (56 bp):
ATAAATTTATGTAGCAGACACATATAAATTGTTTTGAATGTTCATTTATCATTTAT
Found at i:8099797 original size:41 final size:41
Alignment explanation
Indices: 8099698--8099857 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 41
8099688 TGTGTGATTC
* * * **
8099698 GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAAT
1 GTGTAAGACCATGTCTGGGACATTGACATCGTA-T-ATAATTT
*
8099741 GTGTAAGACCATGTCTGGGACATTGACATCTTATATAATTT
1 GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
* * *
8099782 GTGTAAGACCCTGTCTGGGACATTGATATCGTATATAATTC
1 GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
* * * *
8099823 ATGTAAGACCCTGTCTGGGACAGTGGCATCG-ATAT
1 GTGTAAGACCATGTCTGGGACATTGACATCGTATAT
8099858 GTGATAACAT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
40 4 0.04
41 68 0.66
42 1 0.01
43 30 0.29
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGGACATTGACATCGTATATAATTT
Found at i:8105876 original size:17 final size:18
Alignment explanation
Indices: 8105850--8105883 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8105840 GTTTATTCAG
*
8105850 GATAATTACATG-AAATT
1 GATAAGTACATGTAAATT
8105867 GATAAGTACATGTAAAT
1 GATAAGTACATGTAAAT
8105884 GTATGTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (18 bp):
GATAAGTACATGTAAATT
Found at i:8122376 original size:6 final size:6
Alignment explanation
Indices: 8122367--8122407 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
8122357 TAAGATTGAG
8122367 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACA
8122408 CTTCTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:8123638 original size:21 final size:22
Alignment explanation
Indices: 8123596--8123646 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
8123586 TTTTCACACA
*
8123596 AAAGTCCTCTCATAATTCTCTT
1 AAAGTTCTCTCATAATTCTCTT
* *
8123618 AAATTTCTCTCA-AATTTTCTT
1 AAAGTTCTCTCATAATTCTCTT
8123639 AAAGTTCT
1 AAAGTTCT
8123647 TTTTAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAGTTCTCTCATAATTCTCTT
Found at i:8123834 original size:22 final size:22
Alignment explanation
Indices: 8123806--8123882 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 22
8123796 GTAATTTTAA
8123806 TTTTTCAATACTATTTAATATT
1 TTTTTCAATACTATTTAATATT
* * *
8123828 TTTTTCATTTACGCAATTTTAAT-TAA
1 TTTTTCA-ATA--CTA-TTTAATAT-T
8123854 TTTTTCAATACTATTTAATATT
1 TTTTTCAATACTATTTAATATT
8123876 TTTTTCA
1 TTTTTCA
8123883 TTTATGCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 20 0.47
23 5 0.12
25 5 0.12
26 13 0.30
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.58
Consensus pattern (22 bp):
TTTTTCAATACTATTTAATATT
Found at i:8123848 original size:26 final size:25
Alignment explanation
Indices: 8123819--8123898 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
8123809 TTCAATACTA
8123819 TTTAATATTTTTTTCATTTACGCAAT
1 TTTAATATTTTTTTCATTTA-GCAAT
* * *
8123845 TTTAAT-TAATTTTTCA-ATA-CTA-
1 TTTAATAT-TTTTTTCATTTAGCAAT
8123867 TTTAATATTTTTTTCATTTATGCAAT
1 TTTAATATTTTTTTCATTTA-GCAAT
8123893 TTTAAT
1 TTTAAT
8123899 TAATTTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 13 0.31
23 5 0.12
25 5 0.12
26 19 0.45
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.59
Consensus pattern (25 bp):
TTTAATATTTTTTTCATTTAGCAAT
Found at i:8123857 original size:25 final size:24
Alignment explanation
Indices: 8123829--8123910 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 24
8123819 TTTAATATTT
8123829 TTTTCATTTACGCAATTTTAATTAA
1 TTTTCATTTA-GCAATTTTAATTAA
* * **
8123854 TTTTTCA-ATA-CTA-TTTAATATTT
1 -TTTTCATTTAGCAATTTTAAT-TAA
8123877 TTTTCATTTATGCAATTTTAATTAA
1 TTTTCATTTA-GCAATTTTAATTAA
*
8123902 TTTTTATTT
1 TTTTCATTT
8123911 TATATTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 11
0.68 0.15 0.18
Matches are distributed among these distances:
22 12 0.29
23 5 0.12
25 13 0.31
26 12 0.29
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTCATTTAGCAATTTTAATTAA
Found at i:8123905 original size:26 final size:26
Alignment explanation
Indices: 8123828--8123910 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
8123818 ATTTAATATT
*
8123828 TTTTTCATTTACGCAATTTTAATTAA
1 TTTTTCATTTATGCAATTTTAATTAA
* * *
8123854 TTTTTCA---ATACTA-TTTAA-TATT
1 TTTTTCATTTATGCAATTTTAATTA-A
8123876 TTTTTCATTTATGCAATTTTAATTAA
1 TTTTTCATTTATGCAATTTTAATTAA
8123902 TTTTT-ATTT
1 TTTTTCATTT
8123911 TATATTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
21 2 0.05
22 12 0.27
23 3 0.07
25 8 0.18
26 17 0.39
27 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTCATTTATGCAATTTTAATTAA
Found at i:8123917 original size:48 final size:48
Alignment explanation
Indices: 8123802--8123906 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
8123792 AGTGGTAATT
8123802 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
1 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
*
8123850 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTATGCAATTTTAA
1 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
8123898 TTAATTTTT
1 TTAATTTTT
8123907 ATTTTATATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (48 bp):
TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
Found at i:8124796 original size:7 final size:7
Alignment explanation
Indices: 8124784--8124823 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
8124774 TTGTCGTTTC
8124784 GTATTTA
1 GTATTTA
8124791 GTATTTA
1 GTATTTA
8124798 GTATTTA
1 GTATTTA
8124805 GTATTTA
1 GTATTTA
8124812 GTATTTA
1 GTATTTA
8124819 GTATT
1 GTATT
8124824 ATGTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:8125461 original size:18 final size:18
Alignment explanation
Indices: 8125438--8125481 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8125428 ATGCTAAGTG
* *
8125438 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTACA
8125456 TGTATCCTAACCCTTACA
1 TGTATCCTAACCCTTACA
*
8125474 TGTTTCCT
1 TGTATCCT
8125482 TTTCTCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTACA
Found at i:8133262 original size:25 final size:26
Alignment explanation
Indices: 8133223--8133276 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
8133213 TGATACAAAT
8133223 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8133249 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8133274 TGA
1 TGA
8133277 ATGTTCCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8133280 original size:36 final size:36
Alignment explanation
Indices: 8133240--8133315 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
8133230 AGGTTAGGTA
*
8133240 AATGTTCCATGATAAT-GGTTAGGTAAATGTTTCAT
1 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCAT
8133275 GAATGTTCCATGATAATGGGTTAGGTAAATGTTCCAT
1 -AATGTTCCATGATAATGGGTTAGGTAAATGTTCCAT
8133312 AATG
1 AATG
8133316 GGAATTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (36 bp):
AATGTTCCATGATAATGGGTTAGGTAAATGTTCCAT
Found at i:8135072 original size:21 final size:21
Alignment explanation
Indices: 8135046--8135093 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8135036 ATTCCCCACA
8135046 TGGAGTGTAG-GGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
8135067 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
8135088 TTGAGT
1 TGGAGT
8135094 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.12, C:0.02, G:0.54, T:0.31
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:8140316 original size:126 final size:125
Alignment explanation
Indices: 8140069--8140416 Score: 491
Period size: 126 Copynumber: 2.8 Consensus size: 125
8140059 AAATGGCCAT
* * * *
8140069 TATTGTAGTCTAAGTACTTTATTTGTGGTTGTTATAATTAAATTATAGTTCATTTTGA-TAATTT
1 TATTGTAGTCTAAGTAC-TTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTATTTT
*
8140133 TTTGTGATAACGTGAATCAAACCTGGACCACATCTTTATATCAATATTTTAGTTAGATTAC
65 TTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATTAC
* * * *
8140194 TGTTGTAGTCGAAGTATCTTATTTGTGATTGTTATGATTAAATTGTAGTTCATTTTAATTGTTTT
1 TATTGTAGTCTAAGTA-CTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTATTTT
** * * * *
8140259 TTTGTGATAACGTGAATCAAATTTAGACCACATTTTTATATTAATATTTTTGTTAGATTAT
65 TTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATTAC
* ** *
8140320 TATTGTAGTCTATGTACCTTATTTGTGGTTGTTATGACCAAATTGTAGTTCATTTTAATTTTTTT
1 TATTGTAGTCTAAGTA-CTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTATTTT
8140385 TTTGTGATAACGTGAATCAAACCTAGACCACA
65 TTTGTGATAACGTGAATCAAACCTAGACCACA
8140417 CTTAAGGCAG
Statistics
Matches: 196, Mismatches: 25, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
125 50 0.26
126 146 0.74
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (125 bp):
TATTGTAGTCTAAGTACTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTATTTTT
TTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATTAC
Found at i:8145677 original size:40 final size:39
Alignment explanation
Indices: 8145632--8145761 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
8145622 CGGAATATAA
8145632 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
8145672 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
8145712 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
8145752 CCGGATATAA
1 CCGGATATAA
8145762 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:8145776 original size:40 final size:40
Alignment explanation
Indices: 8145648--8145798 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
8145638 ATAACCATGT
* * *
8145648 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
8145688 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
8145728 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
8145768 GCATAATTGTCTTCGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
8145799 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:8145782 original size:80 final size:79
Alignment explanation
Indices: 8145648--8145796 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
8145638 ATAACCATGT
* *
8145648 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGAT-TTAGCC
8145713 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
8145728 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGATTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGATTTAGC
8145791 CCGGAT
64 CCGGAT
8145797 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGATTTAGCCC
GGATGTAGCCACTA
Found at i:8153740 original size:40 final size:40
Alignment explanation
Indices: 8153612--8153760 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
8153602 ATATAACCGT
* * *
8153612 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
8153652 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
8153692 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
8153732 GCATAATTGTCTTC-GG--TTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
8153761 CATTCAATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
37 12 0.13
39 4 0.04
40 71 0.80
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:8153746 original size:80 final size:77
Alignment explanation
Indices: 8153612--8153758 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 77
8153602 ATATAACCGT
*
8153612 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTC-GG--TTAGCC
8153677 CGGATGTAGCCACTA
63 CGGATGTAGCCACTA
* * * * *
8153692 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGTTAGCCC
8153755 GGAT
64 GGAT
8153759 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
77 11 0.19
79 5 0.08
80 43 0.73
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGTTAGCCCGG
ATGTAGCCACTA
Found at i:8161580 original size:40 final size:39
Alignment explanation
Indices: 8161535--8161664 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 39
8161525 CGGAATATAA
8161535 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * * *
8161575 CCGGATAGAATGTC-TCGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
8161615 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
8161655 CCGGATATAA
1 CCGGATATAA
8161665 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:8161679 original size:40 final size:40
Alignment explanation
Indices: 8161551--8161702 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
8161541 ATAACCATGT
* * *
8161551 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* * ** * *
8161591 GCACGAA-TGCCTTTGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
8161631 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
8161671 GCATAATTGTCTTCGAGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCG-GGTCTTAGCCCGGATAT
8161703 CATTCAATTT
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
39 2 0.02
40 82 0.93
41 4 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:8164035 original size:5 final size:5
Alignment explanation
Indices: 8164025--8164050 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8164015 TGAGCATTCG
8164025 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
8164051 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:8165085 original size:9 final size:9
Alignment explanation
Indices: 8165071--8165107 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8165061 TATAGTTTGA
8165071 TATTCGAAT
1 TATTCGAAT
8165080 TATTCGAAT
1 TATTCGAAT
*
8165089 TATTCGAGT
1 TATTCGAAT
8165098 TATTCGAAT
1 TATTCGAAT
8165107 T
1 T
8165108 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8165178 original size:9 final size:9
Alignment explanation
Indices: 8165159--8165191 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
8165149 ATTTGAGTTG
8165159 ACTCGAATA
1 ACTCGAATA
8165168 ACTC-AATTA
1 ACTCGAA-TA
8165177 ACTCGAATA
1 ACTCGAATA
8165186 ACTCGA
1 ACTCGA
8165192 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:8170659 original size:20 final size:20
Alignment explanation
Indices: 8170628--8170675 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8170618 TAAATATTAA
*
8170628 AATATAAATATTTATAGAATT
1 AATAT-AATATTTACAGAATT
* *
8170649 AATATAATATTTACGGGATT
1 AATATAATATTTACAGAATT
8170669 AATATAA
1 AATATAA
8170676 AAATGTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (20 bp):
AATATAATATTTACAGAATT
Found at i:8181304 original size:31 final size:31
Alignment explanation
Indices: 8181269--8181334 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
8181259 AATTTAGAGC
8181269 TTTGTTGTAGCTAGGGGTGAGCAAAATACGA
1 TTTGTTGTAGCTAGGGGTGAGCAAAATACGA
8181300 TTTGTTGTAGCTAGGGGTGAGCAAAATACGA
1 TTTGTTGTAGCTAGGGGTGAGCAAAATACGA
8181331 TTTG
1 TTTG
8181335 ATTCAAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (31 bp):
TTTGTTGTAGCTAGGGGTGAGCAAAATACGA
Found at i:8182154 original size:27 final size:27
Alignment explanation
Indices: 8182117--8182170 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
8182107 CGTGACATGT
8182117 AAAATTGCTTGTGTTGACAACTAGGGA
1 AAAATTGCTTGTGTTGACAACTAGGGA
*
8182144 AAAATTGCTTGTGTTGACAATTAGGGA
1 AAAATTGCTTGTGTTGACAACTAGGGA
8182171 CTAGGACTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (27 bp):
AAAATTGCTTGTGTTGACAACTAGGGA
Found at i:8182202 original size:227 final size:227
Alignment explanation
Indices: 8181807--8182253 Score: 840
Period size: 227 Copynumber: 2.0 Consensus size: 227
8181797 CCTAAAATAG
*
8181807 GATTTGTTAACTTGACTAACTTAAAAATTTTTAATTCGATTCGACTCAATTCAATCGAATATTCA
1 GATTTGTTAACTTAACTAACTTAAAAATTTTTAATTCGATTCGACTCAATTCAATCGAATATTCA
8181872 CCCCTAGTCGTGACATGTAAAATTACTTGTGTTGACAACTAGGGAAAAATTGCTTGTGTTGACAA
66 CCCCTAGTCGTGACATGTAAAATTACTTGTGTTGACAACTAGGGAAAAATTGCTTGTGTTGACAA
8181937 CTACGGACTAGGACTGTCGAGCCATGGAACCTATTGGTCATGAAGAAATGGGGATCCGGTCCAAT
131 CTACGGACTAGGACTGTCGAGCCATGGAACCTATTGGTCATGAAGAAATGGGGATCCGGTCCAAT
8182002 CACGTATAGGCCTAACAAGCCCAAGTCAACAA
196 CACGTATAGGCCTAACAAGCCCAAGTCAACAA
* *
8182034 GATTTGTTAACTTAACTAACTTGAAAATTTTTAATTCGATTCGACTCAATTCAATCGAATATTTA
1 GATTTGTTAACTTAACTAACTTAAAAATTTTTAATTCGATTCGACTCAATTCAATCGAATATTCA
*
8182099 CCCCTAGTCGTGACATGTAAAATTGCTTGTGTTGACAACTAGGGAAAAATTGCTTGTGTTGACAA
66 CCCCTAGTCGTGACATGTAAAATTACTTGTGTTGACAACTAGGGAAAAATTGCTTGTGTTGACAA
* *
8182164 TTAGGGACTAGGACTGTCGAGCCATGGAACCTATTGGTCATGAAGAAATGGGGATCCGGTCCAAT
131 CTACGGACTAGGACTGTCGAGCCATGGAACCTATTGGTCATGAAGAAATGGGGATCCGGTCCAAT
8182229 CACGTATAGGCCTAACAAGCCCAAG
196 CACGTATAGGCCTAACAAGCCCAAG
8182254 CCATGTCTCC
Statistics
Matches: 214, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 214 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (227 bp):
GATTTGTTAACTTAACTAACTTAAAAATTTTTAATTCGATTCGACTCAATTCAATCGAATATTCA
CCCCTAGTCGTGACATGTAAAATTACTTGTGTTGACAACTAGGGAAAAATTGCTTGTGTTGACAA
CTACGGACTAGGACTGTCGAGCCATGGAACCTATTGGTCATGAAGAAATGGGGATCCGGTCCAAT
CACGTATAGGCCTAACAAGCCCAAGTCAACAA
Found at i:8185849 original size:21 final size:21
Alignment explanation
Indices: 8185818--8185873 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
8185808 GAATTTTTTT
*
8185818 ATTATTTTTAA-AAAATTTCA
1 ATTATTATTAATAAAATTTCA
**
8185838 ATATATTATTAATTGAATTTCA
1 AT-TATTATTAATAAAATTTCA
8185860 ATTATTA--AATAAAA
1 ATTATTATTAATAAAA
8185874 AGTCTTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.17
20 2 0.07
21 13 0.45
22 9 0.31
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTATTATTAATAAAATTTCA
Found at i:8187955 original size:93 final size:93
Alignment explanation
Indices: 8187843--8188014 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
8187833 CGCCCATAAG
* *
8187843 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8187908 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
8187936 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
8188001 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
8188015 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:8188011 original size:46 final size:46
Alignment explanation
Indices: 8187836--8188011 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
8187826 TGTAACCCGC
* *
8187836 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
8187882 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
8187932 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
8187975 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
8188012 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 64 0.58
47 28 0.25
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):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:8197328 original size:10 final size:10
Alignment explanation
Indices: 8197315--8197357 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
8197305 AAAATTAGTC
8197315 TAATTAACTA
1 TAATTAACTA
8197325 TAATTAACTA
1 TAATTAACTA
*
8197335 -AACTTAATTA
1 TAA-TTAACTA
8197345 TAATTAA-TA
1 TAATTAACTA
8197354 TAAT
1 TAAT
8197358 CAATGGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTAACTA
Found at i:8208090 original size:23 final size:24
Alignment explanation
Indices: 8208062--8208107 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
8208052 GATGGGTTGT
*
8208062 GAAGGGGAGGAAGGGAGA-GAAGG
1 GAAGGGGAGGAAAGGAGATGAAGG
8208085 GAAGGGGAGGAAAGGAGATGAAG
1 GAAGGGGAGGAAAGGAGATGAAG
8208108 AGATGGAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (24 bp):
GAAGGGGAGGAAAGGAGATGAAGG
Found at i:8214347 original size:17 final size:19
Alignment explanation
Indices: 8214308--8214348 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
8214298 TTAAAATTTG
8214308 TAAATAAATATAGTGAATT
1 TAAATAAATATAGTGAATT
8214327 TAAA-AAAT-TAGT-AATT
1 TAAATAAATATAGTGAATT
8214343 CTAAAT
1 -TAAAT
8214349 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 4 0.20
19 4 0.20
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAATAAATATAGTGAATT
Found at i:8216294 original size:18 final size:20
Alignment explanation
Indices: 8216257--8216297 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8216247 TAATATAATA
8216257 ATATATAATGTACTACTATT
1 ATATATAATGTACTACTATT
*
8216277 ATATATAAT-TATTA-TATT
1 ATATATAATGTACTACTATT
8216295 ATA
1 ATA
8216298 GATTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATATAATGTACTACTATT
Found at i:8217288 original size:21 final size:21
Alignment explanation
Indices: 8217260--8217306 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
8217250 CTATATTACA
8217260 TTTA-AATTTGAGATTTAAGC
1 TTTATAATTTGAGATTTAAGC
8217280 TTTATAATTTGAGATTTAAGC
1 TTTATAATTTGAGATTTAAGC
8217301 TTTATA
1 TTTATA
8217307 CTTTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTATAATTTGAGATTTAAGC
Found at i:8221465 original size:26 final size:25
Alignment explanation
Indices: 8221421--8221471 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8221411 AGTAATTTAA
*
8221421 AAAAAAGATAAATAAAGATAAAAGT
1 AAAAAAGAAAAATAAAGATAAAAGT
*
8221446 AAAAAATAAAAATAATAGATAAAAGT
1 AAAAAAGAAAAATAA-AGATAAAAGT
8221472 CTTCAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (25 bp):
AAAAAAGAAAAATAAAGATAAAAGT
Found at i:8222798 original size:29 final size:30
Alignment explanation
Indices: 8222766--8222822 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
8222756 ACCATGAATA
* *
8222766 TAATTAAACTAA-AAAATTCAACCAAAAAC
1 TAATGAAACTAACAAAACTCAACCAAAAAC
* *
8222795 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAAACTCAACCAAAA
8222823 GCAATCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.18
Consensus pattern (30 bp):
TAATGAAACTAACAAAACTCAACCAAAAAC
Found at i:8231822 original size:42 final size:42
Alignment explanation
Indices: 8231759--8231915 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 42
8231749 TCATGTTCAT
* *
8231759 TTTCCGTTTAGCTCTCATGAGCTTCTGTTCAACTCATT-TGAG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTC-TTATGGG
* * * *
8231801 TTTCCGTTTAGCTTTTTTGAGCTTTTGGTCAACTCTTATGGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTATGGG
* * *
8231843 TTTCCATTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTATGGG
* * *
8231885 TTTCTGTTTAGCACTTATGTGCTTCTGTTCA
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCA
8231916 GCCTTCAGGC
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
41 2 0.02
42 94 0.98
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTATGGG
Found at i:8231889 original size:21 final size:21
Alignment explanation
Indices: 8231829--8231915 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
8231819 GAGCTTTTGG
* **
8231829 TCAACTCTTATGGGTTTCCAT
1 TCAACTCTTATGGGCTTCTGT
* *
8231850 TCAGCTCTTATGAGCTTCTGT
1 TCAACTCTTATGGGCTTCTGT
* *
8231871 TCAACCCTTATGGGTTTCTGT
1 TCAACTCTTATGGGCTTCTGT
* * * *
8231892 TTAGCACTTATGTGCTTCTGT
1 TCAACTCTTATGGGCTTCTGT
8231913 TCA
1 TCA
8231916 GCCTTCAGGC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (21 bp):
TCAACTCTTATGGGCTTCTGT
Found at i:8233642 original size:42 final size:42
Alignment explanation
Indices: 8233585--8233721 Score: 229
Period size: 42 Copynumber: 3.3 Consensus size: 42
8233575 TTTGAATGCG
* *
8233585 CACACGGCCTGAGACACGGGCATGTCTCCTGACCGTGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
* *
8233627 CATATGGCCTGAGACACGGGCGTGTCTCCTAACCGTGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
*
8233669 TACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
8233711 CACATGGCCTG
1 CACATGGCCTG
8233722 GCCACACGGC
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.22
Consensus pattern (42 bp):
CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
Found at i:8243508 original size:34 final size:34
Alignment explanation
Indices: 8243434--8243508 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
8243424 ATACTGCATG
* *
8243434 ACTGC-TACTGATACTGTGATGGTCTAAGGCCCT
1 ACTGCATACTGATACTGTGATGGGCTAAGCCCCT
**
8243467 AAAGCATACTGATACTGTGATGGGCTAAGCCCCT
1 ACTGCATACTGATACTGTGATGGGCTAAGCCCCT
8243501 ACTGCATA
1 ACTGCATA
8243509 TTTGTCACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (34 bp):
ACTGCATACTGATACTGTGATGGGCTAAGCCCCT
Found at i:8244532 original size:21 final size:21
Alignment explanation
Indices: 8244508--8244561 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
8244498 CCAACCTGTG
*
8244508 ACACGGGCGTGTCCTATGGTC
1 ACACGGGCGTGTCCTATGATC
* * * *
8244529 ACACGGGCATATGCTTTGATC
1 ACACGGGCGTGTCCTATGATC
8244550 ACACGGGCGTGT
1 ACACGGGCGTGT
8244562 GTGTCGTGCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTCCTATGATC
Found at i:8245321 original size:6 final size:6
Alignment explanation
Indices: 8245310--8245374 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
8245300 TAATTTAGCC
* * * *
8245310 ATTTTT ATTTTT A-TTGT A-TTTT ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
8245356 ATTTTCT AATTTTT CTTTT
1 ATTTT-T -ATTTTT ATTTT
8245375 GTTTGCTTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
5 8 0.17
6 32 0.68
7 2 0.04
8 5 0.11
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:8248749 original size:5 final size:5
Alignment explanation
Indices: 8248741--8248816 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
8248731 GCCATCCCAT
*
8248741 TTTTA TTTTA TTTTA TTTTA -TTTA TTATTA TTTGTTA TATTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA -TT-TTA TTTTA TTTTA
* *
8248787 TTTTTA TTTTA -CTAA TTTTTA TTTTA TTTT
1 -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT
8248817 TTTATTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 9 0.16
5 33 0.58
6 10 0.18
7 5 0.09
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:8248761 original size:15 final size:16
Alignment explanation
Indices: 8248739--8248826 Score: 85
Period size: 15 Copynumber: 5.6 Consensus size: 16
8248729 AAGCCATCCC
8248739 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
8248755 A-TTTTA-TTTATTATT
1 ATTTTTATTTTATT-TT
*
8248770 ATTTGTTATATTA-TTT
1 ATTT-TTATTTTATTTT
* *
8248786 ATTTTTATTTTA-CTA
1 ATTTTTATTTTATTTT
8248801 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
*
8248817 TTTATTTATT
1 ATT-TTTATT
8248827 ATTCTTATAC
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.10
15 28 0.47
16 12 0.20
17 10 0.17
18 3 0.05
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:8248778 original size:22 final size:20
Alignment explanation
Indices: 8248742--8248864 Score: 79
Period size: 19 Copynumber: 6.4 Consensus size: 20
8248732 CCATCCCATT
*
8248742 TTTATTTTA-TTTTATTTTA
1 TTTATTTTATTTTTATATTA
8248761 TTTATTATTATTTGTTATATTA
1 TTTATT-TTATTT-TTATATTA
8248783 TTTATTTT-TATTTTACTAATT-
1 TTTATTTTAT-TTTTA-T-ATTA
8248804 TTTATTTTA-TTTT-T-TTA
1 TTTATTTTATTTTTATATTA
*
8248821 TTTA--TTATTCTTATACTTA
1 TTTATTTTATTTTTATA-TTA
**
8248840 --TATTTTAAATTTAT-TTA
1 TTTATTTTATTTTTATATTA
8248857 TTTATTTT
1 TTTATTTT
8248865 TTGCCATTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 32
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.04
16 5 0.06
17 10 0.12
18 1 0.01
19 22 0.27
20 11 0.13
21 15 0.18
22 16 0.19
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTATTTTATTTTTATATTA
Found at i:8248828 original size:15 final size:15
Alignment explanation
Indices: 8248740--8248866 Score: 68
Period size: 15 Copynumber: 8.3 Consensus size: 15
8248730 AGCCATCCCA
8248740 TTTTTATTTTATT-TT
1 TTTTTA-TTTATTATT
*
8248755 ATTTTATTTATTATT
1 TTTTTATTTATTATT
*
8248770 ATTTGTTATATTATT-TA
1 -TTT-TTAT-TTATTATT
* *
8248787 TTTTTATTTTACTA-A
1 TTTTTA-TTTATTATT
8248802 TTTTTA-TT-TTATT
1 TTTTTATTTATTATT
8248815 TTTTTATTTATTATT
1 TTTTTATTTATTATT
* * *
8248830 CTTATACTTA-TATT
1 TTTTTATTTATTATT
8248844 TTAAATTTATTTATTTATT
1 TT---TTTATTTA-TTATT
8248863 TTTT
1 TTTT
8248867 GCCATTCTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
12 2 0.02
13 8 0.09
14 13 0.15
15 33 0.38
16 8 0.09
17 11 0.13
18 5 0.06
19 6 0.07
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTTATTTATTATT
Found at i:8248866 original size:60 final size:62
Alignment explanation
Indices: 8248739--8248855 Score: 152
Period size: 60 Copynumber: 1.9 Consensus size: 62
8248729 AAGCCATCCC
* **
8248739 ATTTTTATTTTATTTTATTTTATTTATTATTATTTGTTATATTATTTATTTTTATTTTACTA
1 ATTTTTATTTTATTTTATTTTATTTATTATTATTTCTTATATTATTTAAATTTATTTTACTA
*
8248801 ATTTTTATTTTA-TTT-TTTTATTTATTATTCTTATACTTATA-T-TTTAAATTTATTT
1 ATTTTTATTTTATTTTATTTTATTTATTATTATT-T-CTTATATTATTTAAATTTATTT
8248856 ATTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
60 27 0.55
61 5 0.10
62 17 0.35
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.72
Consensus pattern (62 bp):
ATTTTTATTTTATTTTATTTTATTTATTATTATTTCTTATATTATTTAAATTTATTTTACTA
Found at i:8251387 original size:25 final size:27
Alignment explanation
Indices: 8251350--8251402 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8251340 TCAAACATGC
8251350 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8251376 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8251402 A
1 A
8251403 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8252926 original size:26 final size:26
Alignment explanation
Indices: 8252890--8253035 Score: 283
Period size: 26 Copynumber: 5.6 Consensus size: 26
8252880 CATGATATTC
8252890 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
8252916 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
*
8252942 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACACA
8252968 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
8252994 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
8253020 TTATCATGAAACATTT
1 TTATCATGAAACATTT
8253036 TGTCTACATT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 118 1.00
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACACA
Found at i:8259791 original size:18 final size:17
Alignment explanation
Indices: 8259759--8259792 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8259749 AATTTGGGCA
*
8259759 GTGTGGGCTACACGGGT
1 GTGTGGGCCACACGGGT
8259776 GTGTGGGCCCACACGGG
1 GTGTGGG-CCACACGGG
8259793 CAGGCCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GTGTGGGCCACACGGGT
Found at i:8293848 original size:16 final size:15
Alignment explanation
Indices: 8293825--8293865 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
8293815 TACTTTAGCC
8293825 ATTTATTTTATTTCA
1 ATTTATTTTATTTCA
*
8293840 ATTTAATTTTATTTTA
1 ATTT-ATTTTATTTCA
8293856 ATTT-TTTTAT
1 ATTTATTTTAT
8293866 ATCACTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 14 0.58
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATTTTATTTCA
Found at i:8297369 original size:15 final size:16
Alignment explanation
Indices: 8297332--8297370 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
8297322 CTCCCTTTCC
*
8297332 ATTCTTTCTTTTTCTT
1 ATTCTTTCTTTTCCTT
8297348 ATTCTTTC-TTTCCTT
1 ATTCTTTCTTTTCCTT
*
8297363 CTTCTTTC
1 ATTCTTTC
8297371 CCTTTCTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTCTTTCTTTTCCTT
Found at i:8298927 original size:21 final size:21
Alignment explanation
Indices: 8298887--8298927 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8298877 ACTGTGCTTA
* * *
8298887 GAGGTTCGACGGTCTTGATGC
1 GAGGTTCGACAGTATCGATGC
8298908 GAGGTTCGACAGTATCGATG
1 GAGGTTCGACAGTATCGATG
8298928 AGACTTTGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.27
Consensus pattern (21 bp):
GAGGTTCGACAGTATCGATGC
Found at i:8299046 original size:17 final size:18
Alignment explanation
Indices: 8299019--8299080 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 18
8299009 AGTCCATCTA
8299019 TTTTATCTTTTTTTTATTT
1 TTTTAT-TTTTTTTTATTT
8299038 TTTTATTTTTTATTTATTTT
1 TTTTATTTTTT-TTTA-TTT
*
8299058 CATTTTATCTTTCTTTTATTT
1 --TTTTAT-TTTTTTTTATTT
8299079 TT
1 TT
8299081 CTTGAAGACT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 5 0.14
19 12 0.32
20 3 0.08
21 3 0.08
22 10 0.27
23 4 0.11
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTTTTTATTT
Found at i:8299048 original size:15 final size:16
Alignment explanation
Indices: 8299028--8299080 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 16
8299018 ATTTTATCTT
8299028 TTTTTTATTT-TTTTA
1 TTTTTTATTTATTTTA
8299043 TTTTTTATTTATTTTCA
1 TTTTTTATTTATTTT-A
* * *
8299060 TTTTATCTTTCTTTTA
1 TTTTTTATTTATTTTA
8299076 TTTTT
1 TTTTT
8299081 CTTGAAGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 10 0.31
16 9 0.28
17 13 0.41
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTATTTTA
Found at i:8299081 original size:11 final size:11
Alignment explanation
Indices: 8299017--8299083 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
8299007 TGAGTCCATC
8299017 TATTTTATCTTT
1 TATTTT-TCTTT
* *
8299029 TTTTTATTTTTT
1 TATTT-TTCTTT
8299041 TATTTTT-TATT
1 TATTTTTCT-TT
8299052 TA-TTTTCATTT
1 TATTTTTC-TTT
*
8299063 TATCTTTCTTT
1 TATTTTTCTTT
8299074 TATTTTTCTT
1 TATTTTTCTT
8299084 GAAGACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
10 5 0.11
11 22 0.49
12 17 0.38
13 1 0.02
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTTCTTT
Found at i:8299083 original size:15 final size:14
Alignment explanation
Indices: 8299029--8299080 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
8299019 TTTTATCTTT
8299029 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
8299043 TTTTTTATTTATTTTCA
1 -TTTTTATTT-TTTT-A
*
8299060 TTTTATCTTTCTTTTA
1 TTTT-TATTT-TTTTA
8299076 TTTTT
1 TTTTT
8299081 CTTGAAGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 10 0.31
16 13 0.41
17 9 0.28
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:8300335 original size:46 final size:46
Alignment explanation
Indices: 8300268--8300360 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
8300258 TGATTAGTTA
8300268 AAGAAAATAACGAAATGGGTGGTCCAAATATTACTATTTATTGTCC
1 AAGAAAATAACGAAATGGGTGGTCCAAATATTACTATTTATTGTCC
8300314 AAGAAAATAACGAAATGGGTGGTCCAAATATTACTATTTATTGTCC
1 AAGAAAATAACGAAATGGGTGGTCCAAATATTACTATTTATTGTCC
8300360 A
1 A
8300361 TCTCTATCGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (46 bp):
AAGAAAATAACGAAATGGGTGGTCCAAATATTACTATTTATTGTCC
Found at i:8307609 original size:31 final size:31
Alignment explanation
Indices: 8307571--8307632 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8307561 ACTTGTCAGT
8307571 TGAAAGCATCGTAAGAAAGAGGATACCCCCC
1 TGAAAGCATCGTAAGAAAGAGGATACCCCCC
8307602 TGAAAGCATCGTAAGAAAGAGGATACCCCCC
1 TGAAAGCATCGTAAGAAAGAGGATACCCCCC
8307633 CCCCCCCCCA
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:0.39, C:0.26, G:0.23, T:0.13
Consensus pattern (31 bp):
TGAAAGCATCGTAAGAAAGAGGATACCCCCC
Found at i:8323956 original size:26 final size:24
Alignment explanation
Indices: 8323921--8323969 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
8323911 ATTTTATTGG
8323921 ATTTTAAATTTATGTTTATATTTTAT
1 ATTTTAAATTTA-GTTTAT-TTTTAT
*
8323947 ATTTTCAATTTAGTTTATTTTTA
1 ATTTTAAATTTAGTTTATTTTTA
8323970 GTAAGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTAGTTTATTTTTAT
Found at i:8330612 original size:17 final size:17
Alignment explanation
Indices: 8330590--8330623 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8330580 GTATGTTTAC
8330590 TTTTAATTAGTATAAAA
1 TTTTAATTAGTATAAAA
8330607 TTTTAATTAGTATAAAA
1 TTTTAATTAGTATAAAA
8330624 ACAGTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTAATTAGTATAAAA
Found at i:8335303 original size:18 final size:19
Alignment explanation
Indices: 8335280--8335331 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
8335270 ATTTTTATTT
*
8335280 AAAATAAATATTATTTAA-
1 AAAATAAATATGATTTAAG
*
8335298 AAAATAAGTA-GA-TTAAG
1 AAAATAAATATGATTTAAG
8335315 AAAATAAATATGATTTA
1 AAAATAAATATGATTTA
8335332 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 11 0.39
19 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
AAAATAAATATGATTTAAG
Found at i:8335477 original size:19 final size:20
Alignment explanation
Indices: 8335442--8335480 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8335432 GGCATTATTT
8335442 TTATTTAGAATAAATAAATA
1 TTATTTAGAATAAATAAATA
8335462 TTATTTAGAA-AAATAAATA
1 TTATTTAGAATAAATAAATA
8335481 GATTAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATTTAGAATAAATAAATA
Found at i:8357493 original size:30 final size:30
Alignment explanation
Indices: 8357452--8357512 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
8357442 TGATACCCTC
* *
8357452 AACATCCTTGAAATGAATAGAAGAATGAAG
1 AACAACCTTGAAATAAATAGAAGAATGAAG
8357482 AACAACCTTGAAATAAATAGAAGAATGAAG
1 AACAACCTTGAAATAAATAGAAGAATGAAG
8357512 A
1 A
8357513 CCATCTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.10, G:0.18, T:0.18
Consensus pattern (30 bp):
AACAACCTTGAAATAAATAGAAGAATGAAG
Found at i:8358730 original size:37 final size:37
Alignment explanation
Indices: 8358680--8358756 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
8358670 TTGCGCGTTA
8358680 TTAGCTAAAATTCACACAATCACTGACTCATGTGGGT
1 TTAGCTAAAATTCACACAATCACTGACTCATGTGGGT
8358717 TTAGCTAAAATTCACACAATCACTGACTCATGTGGGT
1 TTAGCTAAAATTCACACAATCACTGACTCATGTGGGT
8358754 TTA
1 TTA
8358757 ACCCTTGGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (37 bp):
TTAGCTAAAATTCACACAATCACTGACTCATGTGGGT
Found at i:8361256 original size:19 final size:18
Alignment explanation
Indices: 8361229--8361303 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 18
8361219 TTAAACTCTT
*
8361229 TATAAATTATTTATTTTCA
1 TATATATTATTTATTTT-A
*
8361248 TATATATTATTTATATTA
1 TATATATTATTTATTTTA
*
8361266 -AAATATT-TTTATTTTA
1 TATATATTATTTATTTTA
* *
8361282 TGTATATTATTTACTTTA
1 TATATATTATTTATTTTA
8361300 -ATAT
1 TATAT
8361304 TTTTTTCTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.17
17 14 0.30
18 9 0.20
19 15 0.33
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (18 bp):
TATATATTATTTATTTTA
Found at i:8361520 original size:22 final size:20
Alignment explanation
Indices: 8361495--8361537 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
8361485 TACTTAGACA
8361495 AAATTGTTTCATTATTTATTTC
1 AAATTGTTTCA-TA-TTATTTC
*
8361517 AAATTGTTTTATATTATTTC
1 AAATTGTTTCATATTATTTC
8361537 A
1 A
8361538 TTCTTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (20 bp):
AAATTGTTTCATATTATTTC
Found at i:8363504 original size:16 final size:16
Alignment explanation
Indices: 8363483--8363514 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8363473 TGAGAAGTAT
8363483 CAATATTCAAGTTTCA
1 CAATATTCAAGTTTCA
*
8363499 CAATATTCAATTTTCA
1 CAATATTCAAGTTTCA
8363515 AGTGAAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (16 bp):
CAATATTCAAGTTTCA
Found at i:8365360 original size:29 final size:29
Alignment explanation
Indices: 8365318--8365375 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
8365308 CCGATGATAC
*
8365318 GACAAAAGACAATCAATGATTATTTATTA
1 GACAAAAAACAATCAATGATTATTTATTA
8365347 GACAAAAAACAATCAATGATTATTTATTA
1 GACAAAAAACAATCAATGATTATTTATTA
8365376 ATCTCTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (29 bp):
GACAAAAAACAATCAATGATTATTTATTA
Found at i:8369657 original size:19 final size:19
Alignment explanation
Indices: 8369629--8369682 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
8369619 AAAAAAAAAG
8369629 AAAGTGTTAAAATATATTTA
1 AAAGT-TTAAAATATATTTA
*
8369649 ACAA-TTTAAAAACATATTTA
1 A-AAGTTT-AAAATATATTTA
*
8369669 AAAGTTTAAGATAT
1 AAAGTTTAAAATAT
8369683 TGTTAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.32
20 17 0.61
21 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (19 bp):
AAAGTTTAAAATATATTTA
Found at i:8370871 original size:23 final size:22
Alignment explanation
Indices: 8370820--8370877 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
8370810 CTTCACACAC
*
8370820 TAATTTCATTATTTTTATAATTT
1 TAATTTTATTA-TTTTATAATTT
*
8370843 TAATTTTATTATTTTATTATTCT
1 TAATTTTATTATTTTATAATT-T
* *
8370866 TTATTTTTTTAT
1 TAATTTTATTAT
8370878 AGAAAAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (22 bp):
TAATTTTATTATTTTATAATTT
Found at i:8371094 original size:19 final size:19
Alignment explanation
Indices: 8371070--8371108 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8371060 ACTTTTAACA
8371070 ATGGGATAATTACATTTAT
1 ATGGGATAATTACATTTAT
8371089 ATGGGATAATTACATTTAT
1 ATGGGATAATTACATTTAT
8371108 A
1 A
8371109 GTCCCTCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
ATGGGATAATTACATTTAT
Found at i:8371371 original size:5 final size:5
Alignment explanation
Indices: 8371364--8371402 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
8371354 AAATTTAAAT
* *
8371364 TTAAT TTAAT TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
1 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
8371403 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (5 bp):
TTAAC
Found at i:8371487 original size:17 final size:18
Alignment explanation
Indices: 8371447--8371489 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
8371437 AATTAAAATA
8371447 AATTTTT-AAATAGTTTT
1 AATTTTTAAAATAGTTTT
*
8371464 AACTTTTAAAAT-GTTTT
1 AATTTTTAAAATAGTTTT
*
8371481 AGTTTTTAA
1 AATTTTTAA
8371490 CATATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (18 bp):
AATTTTTAAAATAGTTTT
Found at i:8371602 original size:2 final size:2
Alignment explanation
Indices: 8371595--8371632 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8371585 AGCATTTTTA
*
8371595 AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8371633 TGATTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8372989 original size:5 final size:5
Alignment explanation
Indices: 8372981--8373008 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8372971 GAAATAAAAG
8372981 AGCAC AGCAC AGCAC AGCAC AGCAC AGC
1 AGCAC AGCAC AGCAC AGCAC AGCAC AGC
8373009 CGTAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.39, G:0.21, T:0.00
Consensus pattern (5 bp):
AGCAC
Found at i:8374082 original size:9 final size:9
Alignment explanation
Indices: 8374068--8374107 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
8374058 GGAAATAGAA
8374068 AAGAATAAG
1 AAGAATAAG
8374077 AAGAATAAG
1 AAGAATAAG
*
8374086 AGGAA-AAG
1 AAGAATAAG
*
8374094 AAGAAAAAG
1 AAGAATAAG
8374103 AAGAA
1 AAGAA
8374108 GAGAAGCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (9 bp):
AAGAATAAG
Found at i:8374095 original size:23 final size:23
Alignment explanation
Indices: 8374065--8374110 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8374055 CTAGGAAATA
* * *
8374065 GAAAAGAATAAGAAGAATAAGAG
1 GAAAAGAAGAAAAAGAAGAAGAG
8374088 GAAAAGAAGAAAAAGAAGAAGAG
1 GAAAAGAAGAAAAAGAAGAAGAG
8374111 AAGCAATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (23 bp):
GAAAAGAAGAAAAAGAAGAAGAG
Found at i:8374096 original size:17 final size:17
Alignment explanation
Indices: 8374068--8374113 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
8374058 GGAAATAGAA
*
8374068 AAGAATAAGAAGAATAAG
1 AAGAA-AAGAAGAAAAAG
*
8374086 AGGAAAAGAAGAAAAAG
1 AAGAAAAGAAGAAAAAG
*
8374103 AAGAAGAGAAG
1 AAGAAAAGAAG
8374114 CAATGGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (17 bp):
AAGAAAAGAAGAAAAAG
Found at i:8378408 original size:19 final size:19
Alignment explanation
Indices: 8378384--8378420 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8378374 CAGTTACGGG
8378384 TAATTAGCAATTTAATTGC
1 TAATTAGCAATTTAATTGC
**
8378403 TAATTAGGGATTTAATTG
1 TAATTAGCAATTTAATTG
8378421 ATCATAGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (19 bp):
TAATTAGCAATTTAATTGC
Found at i:8380051 original size:24 final size:24
Alignment explanation
Indices: 8380023--8380075 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
8380013 TTTCTAGAAG
*
8380023 ATTTAGTATTTATGAGTAAAATAT
1 ATTTAGTATTTATGAGCAAAATAT
* *
8380047 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATGAGCAAAATAT
8380071 ATTTA
1 ATTTA
8380076 ACTTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCAAAATAT
Found at i:8383590 original size:21 final size:21
Alignment explanation
Indices: 8383564--8383604 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8383554 AGATGATGAG
8383564 ATTGAGTACATGTCACATGTA
1 ATTGAGTACATGTCACATGTA
8383585 ATTGAGTACATGTCACATGT
1 ATTGAGTACATGTCACATGT
8383605 GTCATACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (21 bp):
ATTGAGTACATGTCACATGTA
Found at i:8384474 original size:24 final size:24
Alignment explanation
Indices: 8384413--8384462 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
8384403 TTCTAGAAGA
* * *
8384413 TTAGTATTTATGAGTATAATATAT
1 TTAGCATTTATTAGCATAATATAT
8384437 TTAGCATTTATTAGCATAATATAT
1 TTAGCATTTATTAGCATAATATAT
8384461 TT
1 TT
8384463 GACTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
TTAGCATTTATTAGCATAATATAT
Found at i:8385131 original size:22 final size:21
Alignment explanation
Indices: 8385106--8385165 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
8385096 ATTGATAATT
8385106 ATAAAATATAAATATAGAACTA
1 ATAAAATATAAATATA-AACTA
* *
8385128 ATAAAATATAATATATACATTA
1 ATAAAATATAA-ATATAAACTA
8385150 A-AAAATATAAA-ATAAA
1 ATAAAATATAAATATAAA
8385166 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 9 0.26
22 15 0.44
23 5 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAAAATATAAATATAAACTA
Found at i:8385142 original size:21 final size:22
Alignment explanation
Indices: 8385106--8385159 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
8385096 ATTGATAATT
8385106 ATAAAATATAAATATAGA-ACTA
1 ATAAAATAT-AATATAGACACTA
* *
8385128 ATAAAATATAATATATACATTA
1 ATAAAATATAATATAGACACTA
8385150 A-AAAATATAA
1 ATAAAATATAA
8385160 AATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATATAATATAGACACTA
Found at i:8390306 original size:2 final size:2
Alignment explanation
Indices: 8390299--8390341 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8390289 ACAATAGAAC
8390299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8390341 A
1 A
8390342 ATACCAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8390973 original size:39 final size:39
Alignment explanation
Indices: 8390925--8391002 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
8390915 GTAAGAATTG
8390925 AAGTCACATGAAGAAAAAATGGAAGAACAAGCTTAAGCT
1 AAGTCACATGAAGAAAAAATGGAAGAACAAGCTTAAGCT
*
8390964 AAGTCACATGAAGAAAAAATTGAAGAACAAGCTTAAGCT
1 AAGTCACATGAAGAAAAAATGGAAGAACAAGCTTAAGCT
8391003 CAGCTCTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (39 bp):
AAGTCACATGAAGAAAAAATGGAAGAACAAGCTTAAGCT
Found at i:8391360 original size:12 final size:12
Alignment explanation
Indices: 8391343--8391367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8391333 GACACTTCGT
8391343 AAATATTTATAA
1 AAATATTTATAA
8391355 AAATATTTATAA
1 AAATATTTATAA
8391367 A
1 A
8391368 TATTTACAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:8391706 original size:103 final size:103
Alignment explanation
Indices: 8391595--8391800 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
8391585 CAATAACACC
8391595 ATATTTTAATAATTTGGGGAATGCTGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
1 ATATTTTAATAATTTGGGGAATGCTGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
8391660 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
66 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
*
8391698 ATATTTTAATAATTTGGGGAATGTTGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
1 ATATTTTAATAATTTGGGGAATGCTGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
8391763 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
66 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
8391801 TGTTGTTCAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (103 bp):
ATATTTTAATAATTTGGGGAATGCTGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
Found at i:8393958 original size:27 final size:27
Alignment explanation
Indices: 8393919--8393985 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
8393909 ATAGTTGAAT
8393919 TATGGCAAAGTGATAAAGTGTGCCAAAC
1 TATGGCAAAGTGATAAAGTGTGCC-AAC
8393947 -ATGGCAAAGTGATAAAGTGTGCCAAC
1 TATGGCAAAGTGATAAAGTGTGCCAAC
8393973 TATGGCAAAGTGA
1 TATGGCAAAGTGA
8393986 AATGTGACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (27 bp):
TATGGCAAAGTGATAAAGTGTGCCAAC
Found at i:8400023 original size:15 final size:14
Alignment explanation
Indices: 8400003--8400041 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
8399993 TATACTTACT
8400003 TATTATTTAAAAATA
1 TATTA-TTAAAAATA
*
8400018 TATTATT-AAATTA
1 TATTATTAAAAATA
8400031 TATTATTAAAA
1 TATTATTAAAA
8400042 TAATAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTATTAAAAATA
Found at i:8400075 original size:19 final size:20
Alignment explanation
Indices: 8400053--8400090 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8400043 AATAGTTAAA
*
8400053 AGAAATAATA-AAACAAAAT
1 AGAAATAAAAGAAACAAAAT
8400072 AGAAATAAAAGAAACAAAA
1 AGAAATAAAAGAAACAAAA
8400091 GATAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (20 bp):
AGAAATAAAAGAAACAAAAT
Found at i:8400113 original size:18 final size:18
Alignment explanation
Indices: 8400078--8400128 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
8400068 AAATAGAAAT
*
8400078 AAAAGAAACA-AAAGATAG
1 AAAAGAAACAGAGA-ATAG
*
8400096 AAAAGAAATAGAGAATAG
1 AAAAGAAACAGAGAATAG
* *
8400114 GAACGAAACAGAGAA
1 AAAAGAAACAGAGAA
8400129 GGAGCAAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.67, C:0.06, G:0.22, T:0.06
Consensus pattern (18 bp):
AAAAGAAACAGAGAATAG
Found at i:8401713 original size:2 final size:2
Alignment explanation
Indices: 8401706--8401746 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8401696 AATGGGTTGA
8401706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8401747 ACATATGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8402274 original size:19 final size:20
Alignment explanation
Indices: 8402242--8402280 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8402232 TAAAGGGACA
8402242 TTATGATTAAATTATGATAT
1 TTATGATTAAATTATGATAT
* *
8402262 TTAT-ATTATATTATTATAT
1 TTATGATTAAATTATGATAT
8402281 GATTATTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTATGATTAAATTATGATAT
Found at i:8403733 original size:33 final size:34
Alignment explanation
Indices: 8403661--8403736 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
8403651 AGTGTTAAAT
*
8403661 GTAAGACCATAGCTAGGCTATGGCATTTCAGTGAA
1 GTAAGACCATAACTAGGCTATGGCA-TTCAGTGAA
*
8403696 --AAGACCATAACTAGGTTATGGCA-TC-GTGAA
1 GTAAGACCATAACTAGGCTATGGCATTCAGTGAA
8403726 CGTAAGACCAT
1 -GTAAGACCAT
8403737 GGTTGGACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
30 5 0.14
31 2 0.06
33 29 0.81
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (34 bp):
GTAAGACCATAACTAGGCTATGGCATTCAGTGAA
Found at i:8403805 original size:105 final size:102
Alignment explanation
Indices: 8403626--8403823 Score: 256
Period size: 105 Copynumber: 1.9 Consensus size: 102
8403616 AATTTACGGA
*
8403626 TAAGACCATAGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTAGGCTATGGCATTTCA
1 TAAGACCATAGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTAGGCTATGGCATCTCA
*
8403691 GTGAAAAGACCATAACTAGGTTATGGCATCGTGAACG
66 ATGAAAAGACCATAACTAGGTTATGGCATCGTGAACG
* * * *
8403728 TAAGACCATGGTTGGACCATGGTAGTATA-TGTATAAATGTAAGACCATAGCTGGGTTATGGCAT
1 TAAGACCATAGTTGGACCATGGCA--A-AGTGT-TAAATGTAAGACCATAGCTAGGCTATGGCAT
* * *
8403792 C-CTAATGATAAGACTATAACTGGGTTATGGCA
62 CTC-AATGAAAAGACCATAACTAGGTTATGGCA
8403824 CTACGAGTGT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
102 22 0.27
104 5 0.06
105 55 0.67
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (102 bp):
TAAGACCATAGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTAGGCTATGGCATCTCA
ATGAAAAGACCATAACTAGGTTATGGCATCGTGAACG
Found at i:8403836 original size:105 final size:101
Alignment explanation
Indices: 8403626--8403857 Score: 247
Period size: 105 Copynumber: 2.2 Consensus size: 101
8403616 AATTTACGGA
* *
8403626 TAAGACCATAGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTAGGCTATGGCATTTCA
1 TAAGACCATGGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTAGGCTATGGCATCTCA
*
8403691 GTGAAAAGACCATAACTAGGTTATGGCATCGTGAACG
66 ATGAAAAGACCATAACTAGGTTATGGCATCG-GAACG
* * *
8403728 TAAGACCATGGTTGGACCATGGTAGTATA-TGTATAAATGTAAGACCATAGCTGGGTTATGGCAT
1 TAAGACCATGGTTGGACCATGGCA--A-AGTGT-TAAATGTAAGACCATAGCTAGGCTATGGCAT
* * * **
8403792 C-CTAATGATAAGACTATAACTGGGTTATGGCACTAC-GAGTG
62 CTC-AATGAAAAGACCATAACTAGGTTATGGCA-T-CGGAACG
*
8403833 TAAGACCATGGTAAGG-CCATGGCAA
1 TAAGACCATGGT-TGGACCATGGCAA
8403858 TATACGTGTA
Statistics
Matches: 109, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
102 22 0.20
103 1 0.01
104 5 0.05
105 77 0.71
106 3 0.03
107 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTAGGCTATGGCATCTCA
ATGAAAAGACCATAACTAGGTTATGGCATCGGAACG
Found at i:8403837 original size:33 final size:32
Alignment explanation
Indices: 8403763--8403841 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
8403753 TATATGTATA
* * *
8403763 AATGTAAGACCATAGCTGGGTTATGGCATCCT
1 AATGTAAGACCATAACTGGGTTATGGCATACG
*
8403795 AATGATAAGACTATAACTGGGTTATGGCACTACG
1 AATG-TAAGACCATAACTGGGTTATGGCA-TACG
*
8403829 AGTGTAAGACCAT
1 AATGTAAGACCAT
8403842 GGTAAGGCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 4 0.10
33 30 0.77
34 5 0.13
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (32 bp):
AATGTAAGACCATAACTGGGTTATGGCATACG
Found at i:8411166 original size:68 final size:68
Alignment explanation
Indices: 8411083--8411218 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
8411073 GGTAACAACG
8411083 GTTCCGGTGCGGGTGCTAAGATAACCATTGGTCCATCCGAGTTCGATTGCATGTGGACTTACTGA
1 GTTCCGGTGCGGGTGCTAAGATAACCATTGGTCCATCCGAGTTCGATTGCATGTGGACTTACTGA
8411148 TCA
66 TCA
8411151 GTTCCGGTGCGGGTGCTAAGATAACCATTGGTCCATCCGAGTTCGATTGCATGTGGACTTACTGA
1 GTTCCGGTGCGGGTGCTAAGATAACCATTGGTCCATCCGAGTTCGATTGCATGTGGACTTACTGA
8411216 TCA
66 TCA
8411219 AACTACAACT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (68 bp):
GTTCCGGTGCGGGTGCTAAGATAACCATTGGTCCATCCGAGTTCGATTGCATGTGGACTTACTGA
TCA
Found at i:8413647 original size:19 final size:19
Alignment explanation
Indices: 8413623--8413659 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8413613 AGATTAACAA
*
8413623 AAAATAAATTACATATAAT
1 AAAATAAATTACAAATAAT
8413642 AAAATAAATTACAAATAA
1 AAAATAAATTACAAATAA
8413660 AACGATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAAATTACAAATAAT
Found at i:8419365 original size:18 final size:16
Alignment explanation
Indices: 8419338--8419384 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 16
8419328 ATGAAATAAT
8419338 TAAACATATAAAAAATTA
1 TAAA-ATATAAAAAA-TA
8419356 TAAAATTATAAAAAATA
1 TAAAA-TATAAAAAATA
8419373 TAAAATATAAAA
1 TAAAATATAAAA
8419385 CTTTCCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 13 0.46
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATATAAAAAATA
Found at i:8419487 original size:20 final size:19
Alignment explanation
Indices: 8419462--8419505 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
8419452 CAACCATTTA
8419462 TATTTTCATAAAAATATTAT
1 TATTTTCATAAAAATA-TAT
**
8419482 TATTTTTGTTAAAAATATAT
1 TA-TTTTCATAAAAATATAT
8419502 TATT
1 TATT
8419506 AATAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 7 0.33
21 12 0.57
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTTTCATAAAAATATAT
Found at i:8420375 original size:21 final size:21
Alignment explanation
Indices: 8420331--8420378 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
8420321 ATTTCTATTT
8420331 TTCTT-TAA-AAATTGTAAAA
1 TTCTTATAATAAATTGTAAAA
*
8420350 -T-TTATAATAAATTTTAAAA
1 TTCTTATAATAAATTGTAAAA
8420369 TTCTTATAAT
1 TTCTTATAAT
8420379 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 4 0.17
19 10 0.42
20 1 0.04
21 7 0.29
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
TTCTTATAATAAATTGTAAAA
Found at i:8420437 original size:20 final size:18
Alignment explanation
Indices: 8420412--8420486 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
8420402 TTAACCATTT
8420412 AAATTTTTAATGATTTTAAC
1 AAATTTTTAAT-ATTTT-AC
*
8420432 AAATTTTTAAT-TTTTTC
1 AAATTTTTAATATTTTAC
*
8420449 AAGTTTTTTAAATAGATTTTAC
1 AA-ATTTTT-AAT--ATTTTAC
*
8420471 AACTTTTTAATATTTT
1 AAATTTTTAATATTTT
8420487 TAATAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.07
18 14 0.30
19 3 0.07
20 14 0.30
21 5 0.11
22 7 0.15
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (18 bp):
AAATTTTTAATATTTTAC
Found at i:8420497 original size:20 final size:20
Alignment explanation
Indices: 8420412--8420497 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
8420402 TTAACCATTT
8420412 AAATTTTTAATGA-TTTTAAC
1 AAATTTTTAAT-ATTTTTAAC
8420432 AAATTTTTAAT-TTTTT--C
1 AAATTTTTAATATTTTTAAC
* *
8420449 AAGTTTTTTAAATAGATTTT-AC
1 AA-ATTTTT-AATA-TTTTTAAC
* *
8420471 AACTTTTTAATATTTTTAAT
1 AAATTTTTAATATTTTTAAC
8420491 AAATTTT
1 AAATTTT
8420498 AAAATTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.06
18 5 0.09
19 11 0.21
20 22 0.42
21 9 0.17
22 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AAATTTTTAATATTTTTAAC
Found at i:8420641 original size:42 final size:42
Alignment explanation
Indices: 8420594--8420677 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
8420584 TTTTTATATT
* * *
8420594 AATTTTA-ATAATTTATATGTTTTT-CTAGTTATATATATTTGA
1 AATTTTATAT-ATTTAGAT-TTTTTAATAGTTATATACATTTGA
*
8420636 AATTTTATATATTTAGATTTTTTAATATTTATATACATTTGA
1 AATTTTATATATTTAGATTTTTTAATAGTTATATACATTTGA
8420678 TTTTTTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 5 0.14
42 29 0.81
43 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (42 bp):
AATTTTATATATTTAGATTTTTTAATAGTTATATACATTTGA
Found at i:8420657 original size:16 final size:17
Alignment explanation
Indices: 8420625--8420666 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
8420615 TTTCTAGTTA
8420625 TATATATTT-GAAATTT
1 TATATATTTAGAAATTT
**
8420641 TATATATTTAGATTTTT
1 TATATATTTAGAAATTT
8420658 TA-ATATTTA
1 TATATATTTA
8420667 TATACATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TATATATTTAGAAATTT
Found at i:8422305 original size:27 final size:27
Alignment explanation
Indices: 8422275--8422330 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8422265 CAAAGCAACG
8422275 GCCAAATCACCATTTCAATCGCCGTTA
1 GCCAAATCACCATTTCAATCGCCGTTA
8422302 GCCAAATCACCATTTCAATCGCCGTTA
1 GCCAAATCACCATTTCAATCGCCGTTA
8422329 GC
1 GC
8422331 AAACGCCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.25
Consensus pattern (27 bp):
GCCAAATCACCATTTCAATCGCCGTTA
Found at i:8423486 original size:27 final size:27
Alignment explanation
Indices: 8423440--8423491 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
8423430 ATTTTTTATG
8423440 AAATGAGCTATTTGGGCTAAATTGTAA
1 AAATGAGCTATTTGGGCTAAATTGTAA
8423467 AAATGAG-T-TTTGGAGACTAAATTGT
1 AAATGAGCTATTTGG-G-CTAAATTGT
8423492 GAATTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 16 0.70
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (27 bp):
AAATGAGCTATTTGGGCTAAATTGTAA
Found at i:8424070 original size:42 final size:43
Alignment explanation
Indices: 8423969--8424106 Score: 115
Period size: 43 Copynumber: 3.2 Consensus size: 43
8423959 TGAGATATCG
* * *
8423969 TGTAAGACCGTGTCTAGGACATAGGGC-TCG--ATTGAAATTTACA
1 TGTAAGACCATGTCTGGGACAGA-GGCATCGATATTG-AATTT-CA
* * **
8424012 TATAAGACCATTTCTGGGACATCGGCATCG-TATCTG-ATTTCA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTTCA
* *
8424054 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTTCA
*
8424097 AGTAAGACCA
1 TGTAAGACCA
8424107 CGTCCGGAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 32 0.42
43 41 0.53
44 2 0.03
45 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTTCA
Found at i:8425373 original size:22 final size:21
Alignment explanation
Indices: 8425347--8425388 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8425337 TTAGTGATTA
8425347 TTATT-TTTTACAATATATTTAT
1 TTATTCTTTTA-AATA-ATTTAT
8425369 TTATTCTTTTAAATAATTTA
1 TTATTCTTTTAAATAATTTA
8425389 GTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTCTTTTAAATAATTTAT
Found at i:8428793 original size:3 final size:3
Alignment explanation
Indices: 8428785--8428909 Score: 69
Period size: 3 Copynumber: 41.3 Consensus size: 3
8428775 AGTCTTATAT
* *
8428785 TTA TTA TTA TCA TGT- TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA
* * * * * * * *
8428830 TTA TTG CTA TTA CTA TTG TTT TTA TT- TGTA TTA TTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
8428875 TCA TTA CTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
8428910 GTTTAAACTT
Statistics
Matches: 90, Mismatches: 23, Indels: 18
0.69 0.18 0.14
Matches are distributed among these distances:
2 5 0.06
3 79 0.88
4 6 0.07
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Done.