Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 332 of 343
Found at i:106286850 original size:30 final size:30
Alignment explanation
Indices: 106286805--106286893 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
106286795 CAAAGATAAC
106286805 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
106286834 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
106286864 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
106286894 CGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:106286853 original size:15 final size:15
Alignment explanation
Indices: 106286805--106286884 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
106286795 CAAAGATAAC
*
106286805 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
106286819 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
106286834 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
106286849 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
106286864 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
106286879 AAGAAA
1 AAGAAA
106286885 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:106286893 original size:15 final size:15
Alignment explanation
Indices: 106286816--106286893 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
106286806 AGAAAACCGA
*
106286816 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
106286831 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
106286845 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
106286860 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
106286876 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
106286891 ATA
1 ATA
106286894 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:106298984 original size:18 final size:18
Alignment explanation
Indices: 106298961--106299048 Score: 104
Period size: 18 Copynumber: 4.9 Consensus size: 18
106298951 CCCAACTACT
*
106298961 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
106298979 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
106298997 ATATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* * *
106299015 ATATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
106299033 GTATACGTGAATAGTA
1 GTATACGTGAATAGTA
106299049 TCATAAACGG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:106299013 original size:36 final size:36
Alignment explanation
Indices: 106298962--106299053 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 36
106298952 CCAACTACTG
* * *
106298962 TATACGTGAACAGTACCGTATACGTGAATAGTGCCA
1 TATACGTGAATAGTACCATATACGTAAATAGTGCCA
* * *
106298998 TATACGTAAATAGTACTATATACGTAAATAGTGCCG
1 TATACGTGAATAGTACCATATACGTAAATAGTGCCA
*
106299034 TATACGTGAATAGTATCATA
1 TATACGTGAATAGTACCATA
106299054 AACGGTCGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (36 bp):
TATACGTGAATAGTACCATATACGTAAATAGTGCCA
Found at i:106300271 original size:30 final size:30
Alignment explanation
Indices: 106300237--106300346 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
106300227 TAAATAAAAA
*
106300237 TTCTAAATTAATTTATTATATTTTAATATT
1 TTCTAAATTAACTTATTATATTTTAATATT
* * *
106300267 TTCTAAATTAACTTATTATATTAAATAAAAAT
1 TTCTAAATTAACTTATTATATT--TTAATATT
* * * *
106300299 AT-TAAATTAATTTATTATGTTTTAGTATT
1 TTCTAAATTAACTTATTATATTTTAATATT
*
106300328 TTATAAATTAACTTATTAT
1 TTCTAAATTAACTTATTAT
106300347 TAACTATTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 5 0.08
30 36 0.56
31 17 0.27
32 6 0.09
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (30 bp):
TTCTAAATTAACTTATTATATTTTAATATT
Found at i:106300360 original size:61 final size:61
Alignment explanation
Indices: 106300223--106300346 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 61
106300213 ATTATTTCAA
*
106300223 ATATTAAATAAAAAT-TCTAAATTAATTTATTATATTTTAATATTTTCTAAATTAACTTATT
1 ATATTAAATAAAAATAT-TAAATTAATTTATTATATTTTAATATTTTATAAATTAACTTATT
* *
106300284 ATATTAAATAAAAATATTAAATTAATTTATTATGTTTTAGTATTTTATAAATTAACTTATT
1 ATATTAAATAAAAATATTAAATTAATTTATTATATTTTAATATTTTATAAATTAACTTATT
106300345 AT
1 AT
106300347 TAACTATTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 58 0.98
62 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (61 bp):
ATATTAAATAAAAATATTAAATTAATTTATTATATTTTAATATTTTATAAATTAACTTATT
Found at i:106300381 original size:32 final size:32
Alignment explanation
Indices: 106300344--106300410 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
106300334 ATTAACTTAT
* *
106300344 TATTAAC-TATTAAAATAAAATATTTGAAATAA
1 TATTAACTTATTAAAATAAAACACTTGAAA-AA
*
106300376 TATTAACTTATTAAAATATAACACTTGAAAAA
1 TATTAACTTATTAAAATAAAACACTTGAAAAA
106300408 TAT
1 TAT
106300411 AAAAGTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (32 bp):
TATTAACTTATTAAAATAAAACACTTGAAAAA
Found at i:106301041 original size:21 final size:20
Alignment explanation
Indices: 106301015--106301074 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
106301005 ATTTAAAAAT
106301015 ATTTTTATATTTACT-TTTAAA
1 ATTTTTATATTTA-TATTT-AA
106301036 ATTTTTA-ATTTATATTTAA
1 ATTTTTATATTTATATTTAA
*
106301055 CTTTTTATAATTTATATTTA
1 ATTTTTAT-ATTTATATTTA
106301075 CTTTTTCTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 9 0.26
20 8 0.23
21 18 0.51
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTATATTTATATTTAA
Found at i:106301068 original size:26 final size:26
Alignment explanation
Indices: 106301018--106301074 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
106301008 TAAAAATATT
106301018 TTTATATTTACTTTTAAAATTTT-TAA
1 TTTATATTTACTTTTAAAATTTTAT-A
*
106301044 TTTATATTTAACTTTTTATAA-TTTATA
1 TTTATATTT-AC-TTTTAAAATTTTATA
106301071 TTTA
1 TTTA
106301075 CTTTTTCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 9 0.33
27 10 0.37
28 8 0.30
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTATATTTACTTTTAAAATTTTATA
Found at i:106301080 original size:21 final size:20
Alignment explanation
Indices: 106301037--106301080 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
106301027 ACTTTTAAAA
106301037 TTTTTAATTTATATTTAACT
1 TTTTTAATTTATATTTAACT
106301057 TTTTATAATTTATATTT-ACT
1 TTTT-TAATTTATATTTAACT
106301077 TTTT
1 TTTT
106301081 CTCATAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAATTTATATTTAACT
Found at i:106303915 original size:38 final size:38
Alignment explanation
Indices: 106303863--106303935 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
106303853 GTTGAACCAT
*
106303863 TCCAGCGTTTACTTTGAAGTCTCCCATTATCATTTCTA
1 TCCAGCGTTGACTTTGAAGTCTCCCATTATCATTTCTA
106303901 TCCAGCGTTGACTTTGAAGTCTCCCATTATCATTT
1 TCCAGCGTTGACTTTGAAGTCTCCCATTATCATTT
106303936 TACTATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (38 bp):
TCCAGCGTTGACTTTGAAGTCTCCCATTATCATTTCTA
Found at i:106311327 original size:28 final size:26
Alignment explanation
Indices: 106311285--106311356 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 26
106311275 ATATATGTAA
106311285 ATTATTATATATTATATCATTTTTATTT
1 ATTATTATATATTATATCA-TTTTA-TT
* *
106311313 ATTATTTTATTTTATATCATTTTATT
1 ATTATTATATATTATATCATTTTATT
* *
106311339 ATTAACTATTTATTATAT
1 ATT-ATTATATATTATAT
106311357 ATAATTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.14
27 15 0.41
28 17 0.46
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTATTATATATTATATCATTTTATT
Found at i:106311336 original size:15 final size:15
Alignment explanation
Indices: 106311296--106311338 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
106311286 TTATTATATA
106311296 TTATATCATTTT-TAT
1 TTATATCATTTTAT-T
106311311 TTAT-T-ATTTTATT
1 TTATATCATTTTATT
106311324 TTATATCATTTTATT
1 TTATATCATTTTATT
106311339 ATTAACTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.40
14 3 0.12
15 12 0.48
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATCATTTTATT
Found at i:106311340 original size:18 final size:17
Alignment explanation
Indices: 106311216--106311341 Score: 71
Period size: 18 Copynumber: 7.1 Consensus size: 17
106311206 TTATATACGT
*
106311216 TTTTATAAATTTTATTA
1 TTTTATATATTTTATTA
*
106311233 -TATATATATTTT-TTA
1 TTTTATATATTTTATTA
*
106311248 CTTTATAATTCATTTTATTA
1 TTTTAT-A-T-ATTTTATTA
* *
106311268 TATTTATATATATGTA-AA
1 T-TTTATATAT-TTTATTA
* *
106311286 TTATTATATATTATATCA
1 TT-TTATATATTTTATTA
*
106311304 TTTTTATTTATTATT-TTA
1 -TTTTATATATT-TTATTA
106311322 TTTTATATCATTTTATTA
1 TTTTATAT-ATTTTATTA
106311340 TT
1 TT
106311342 AACTATTTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
15 3 0.04
16 14 0.17
17 14 0.17
18 32 0.38
19 12 0.14
20 4 0.05
21 5 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTTATATATTTTATTA
Found at i:106311352 original size:62 final size:61
Alignment explanation
Indices: 106311221--106311358 Score: 146
Period size: 62 Copynumber: 2.3 Consensus size: 61
106311211 TACGTTTTTA
106311221 TAAATTTTATTATATA-TATATTTTTTACTTTATAATTCATTTTATTATATTTATATATATG
1 TAAA-TTTATTATATATTATATTTTTTACTTTATAATTCATTTTATTATATTTATATATATG
* *
106311282 TAAA-TTATTATATATTATATCATTTTTA-TTTATTATTTTATTTTA-TATCATTT-TAT-TAT-
1 TAAATTTATTATATATTATAT--TTTTTACTTTA-TAATTCATTTTATTAT-ATTTATATATATG
106311341 TAACTATTTATTATATAT
1 TAA--ATTTATTATATAT
106311359 AATTTAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
59 13 0.19
60 8 0.12
61 15 0.22
62 31 0.46
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (61 bp):
TAAATTTATTATATATTATATTTTTTACTTTATAATTCATTTTATTATATTTATATATATG
Found at i:106316789 original size:36 final size:35
Alignment explanation
Indices: 106316712--106316790 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
106316702 GACAACTTGC
* *
106316712 ACTTAGTCAACCCTCTAGGCTTAAACAATACACCG
1 ACTTAGTCAACCCACTAGGCTTAAACAATACACAG
** * *
106316747 AGCTTAGTCAATGCACTAGGCTTAGACAATACGTCAG
1 A-CTTAGTCAACCCACTAGGCTTAAACAATAC-ACAG
106316784 ACTTAGT
1 ACTTAGT
106316791 AAATACAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.03
36 32 0.89
37 3 0.08
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (35 bp):
ACTTAGTCAACCCACTAGGCTTAAACAATACACAG
Found at i:106320721 original size:3 final size:3
Alignment explanation
Indices: 106320713--106320761 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
106320703 TATATATATA
*
106320713 AAT AAT AAT AAT AAT AAT AAT AAT AGT GAA- AAT AAT AA- ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT
106320758 AAT A
1 AAT A
106320762 GAAAAGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 3 0.08
3 35 0.88
4 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:106320771 original size:24 final size:25
Alignment explanation
Indices: 106320719--106320773 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
106320709 TATAAATAAT
*
106320719 AATAAT-AATAATAATAATAGTGAA
1 AATAATAAATAATAATAATAGTAAA
106320743 AATAATAAAT-ATAATAATAG-AAA
1 AATAATAAATAATAATAATAGTAAA
106320766 AGATAATA
1 A-ATAATA
106320774 CTATATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 22 0.79
25 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (25 bp):
AATAATAAATAATAATAATAGTAAA
Found at i:106320822 original size:20 final size:21
Alignment explanation
Indices: 106320789--106320836 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
106320779 TAAAAAGCAT
106320789 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
106320809 ATATATAC-TAATATTAATAATA
1 ATATATACAT-ATATTAATAA-A
106320831 A-ATATA
1 ATATATA
106320837 ATAGGGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 11 0.44
22 2 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:106320937 original size:25 final size:23
Alignment explanation
Indices: 106320889--106320951 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
106320879 TGAAAATAAT
106320889 AATAA-ATAATAATAATATAAAA
1 AATAATATAATAATAATATAAAA
* * *
106320911 AATATGATATAATAATAGTGTATAA
1 AATA--ATATAATAATAATATAAAA
106320936 AATAATAGTAATAATA
1 AATAATA-TAATAATA
106320952 TTTACAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.12
23 3 0.09
24 9 0.26
25 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (23 bp):
AATAATATAATAATAATATAAAA
Found at i:106320941 original size:15 final size:15
Alignment explanation
Indices: 106320904--106320944 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
106320894 ATAATAATAA
106320904 TATAAAA-AATA-TG
1 TATAAAATAATAGTG
*
106320917 -ATATAATAATAGTG
1 TATAAAATAATAGTG
106320931 TATAAAATAATAGT
1 TATAAAATAATAGT
106320945 AATAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 4 0.17
14 2 0.09
15 12 0.52
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
TATAAAATAATAGTG
Found at i:106321038 original size:3 final size:3
Alignment explanation
Indices: 106321030--106321137 Score: 71
Period size: 3 Copynumber: 36.7 Consensus size: 3
106321020 TATTAAAAAT
* * *
106321030 TAA TAA TAA TGA TAA TAA TGA TAA TAA T-A TAA TAA TAG TAA CT-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * * *
106321074 TAG TAA TAA T-A TAT TGA TAA -AA TGAA TAA AAA TAA TAG TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* *
106321118 TAA GAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
106321138 GTCATAAGGA
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
2 7 0.09
3 66 0.86
4 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:106321124 original size:24 final size:26
Alignment explanation
Indices: 106321077--106321161 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
106321067 GTAACTATAG
*
106321077 TAATAAT-ATATTGATAAAATGAATA
1 TAATAATAATAGTGATAAAATGAATA
106321102 -AA-AATAATAGTGATAATAA-GAATA
1 TAATAATAATAGTGATAA-AATGAATA
* *
106321126 TTAATAATAATAGTCATAAGGAT-AATA
1 -TAATAATAATAGTGATAA-AATGAATA
106321153 TAAATAATA
1 T-AATAATA
106321162 TTTAAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
23 3 0.06
24 16 0.33
25 2 0.04
26 3 0.06
27 25 0.51
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (26 bp):
TAATAATAATAGTGATAAAATGAATA
Found at i:106321152 original size:27 final size:27
Alignment explanation
Indices: 106321099--106321161 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
106321089 GATAAAATGA
* *
106321099 ATAAA-AATAATAGTGATAATAAGAAT
1 ATAAATAATAATAGTCATAAGAAGAAT
* * *
106321125 ATTAATAATAATAGTCATAAGGATAAT
1 ATAAATAATAATAGTCATAAGAAGAAT
106321152 ATAAATAATA
1 ATAAATAATA
106321162 TTTAAAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (27 bp):
ATAAATAATAATAGTCATAAGAAGAAT
Found at i:106323037 original size:91 final size:89
Alignment explanation
Indices: 106322746--106323084 Score: 427
Period size: 88 Copynumber: 3.8 Consensus size: 89
106322736 TTATTCTTTA
* * * *
106322746 CTCAGCATGTGATCTTG-AGCTCAACTCACTTCTCGCAATATAAGTTGATTCTTT-AAAAACAGA
1 CTCAGCATGTGAGC-CGAAGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAACAGA
* * *
106322809 CATT-AAAAACAGAAATTGAAAATAG
64 AATTGAAAAATAGAAATTGAAAATAC
* *
106322834 CTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG-AAAACAGAA
1 CTCAGCATGTGAGCCGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
* **
106322897 TTTGAAAAATAGATTTTGAAAATAC
65 ATTGAAAAATAGAAATTGAAAATAC
* * * * *
106322922 CTCAGCATGTGACCCGAGGCTCAACTCACCTTTCCCAATATGAGTTGATTTTTGAAAAACATAAA
1 CTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
106322987 TTGAAGAAAATAGAAATTGAAAATAC
66 TTG-A-AAAATAGAAATTGAAAATAC
* *
106323013 CTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 CTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
106323078 TTGAAAA
66 TTGAAAA
106323085 TACCTCAACG
Statistics
Matches: 215, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
87 14 0.07
88 104 0.48
89 15 0.07
90 2 0.01
91 80 0.37
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (89 bp):
CTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
TTGAAAAATAGAAATTGAAAATAC
Found at i:106323121 original size:73 final size:73
Alignment explanation
Indices: 106323000--106323154 Score: 217
Period size: 73 Copynumber: 2.1 Consensus size: 73
106322990 AAGAAAATAG
* *
106323000 AAATTGAAAATACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AAATTGAAAATACCTCA-CACGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
106323064 TTGACAAACAA
65 TTG--AAACAA
*
106323075 AAATTGAAAATACCTCA-ACGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AAATTGAAAATACCTCACACGTGAGCC-GAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
*
106323138 TTGAAACAT
65 TTGAAACAA
106323147 AAATTGAA
1 AAATTGAA
106323155 GAACAGAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
72 15 0.20
73 36 0.49
74 6 0.08
75 17 0.23
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (73 bp):
AAATTGAAAATACCTCACACGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
TGAAACAA
Found at i:106323201 original size:161 final size:163
Alignment explanation
Indices: 106322912--106323226 Score: 458
Period size: 161 Copynumber: 1.9 Consensus size: 163
106322902 AAAATAGATT
* * *
106322912 TTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTTTCCCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCA-CACGTGACCCGAGGCTCAACTCACCTCTCCCAATATGAGTTAATTTTTG-
* * * *
106322977 AAAACATAAATTGAAGAAAATAGAAATTGAAAATACCTCAGCATGTGAGCCGAAGCTCAACTCAC
64 AAAACATAAATTGAAG-AAACAGAAATTAAAAATACCTCAGCATGTAACCCGAAGCTCAACTCAC
*
106323042 CTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
128 CTATCGCAATATGAGTTGATTTTTGACAAACAAAAA
* *
106323078 TTGAAAATACCTCA-ACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTG-
1 TTGAAAATACCTCACACGTGACCCGAGGCTCAACTCACCTCTCCCAATATGAGTTAA-TTTTTGA
*
106323141 AAACATAAATTGAAG-AACAGAAATTAAAAATACCTC-GACATGTAACCCGAGGCTCAACTCACC
65 AAACATAAATTGAAGAAACAGAAATTAAAAATACCTCAG-CATGTAACCCGAAGCTCAACTCACC
106323204 TATCGCAATATGAGTTGATTTTT
129 TATCGCAATATGAGTTGATTTTT
106323227 TTGAAAAATA
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
160 1 0.01
161 63 0.46
163 15 0.11
164 37 0.27
165 6 0.04
166 14 0.10
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (163 bp):
TTGAAAATACCTCACACGTGACCCGAGGCTCAACTCACCTCTCCCAATATGAGTTAATTTTTGAA
AACATAAATTGAAGAAACAGAAATTAAAAATACCTCAGCATGTAACCCGAAGCTCAACTCACCTA
TCGCAATATGAGTTGATTTTTGACAAACAAAAA
Found at i:106323225 original size:88 final size:90
Alignment explanation
Indices: 106323063--106323328 Score: 362
Period size: 91 Copynumber: 3.0 Consensus size: 90
106323053 TGAGTTGATT
* * * *
106323063 TTTGACAAACAAAAATTGAAAATACCTC-A-ACGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* *
106323126 TGAGTTAATTTTTTGAAACATA-AA
66 TGAGTTGATTTTTTGAAAAATAGAA
* * * *
106323150 -TTGAAGAACAGAAATTAAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTATCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
106323214 TGAGTTGATTTTTTTGAAAAATAGAA
66 TGAGTTGA-TTTTTTGAAAAATAGAA
** * *
106323240 TTTGAAAAACAGATTTTGAAAATACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
106323305 TGAGTTGA-TTTTTGAAAAATAGAA
66 TGAGTTGATTTTTTGAAAAATAGAA
106323329 ATTAAAACAT
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
86 23 0.15
87 1 0.01
88 37 0.24
89 29 0.19
90 2 0.01
91 64 0.41
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (90 bp):
TTTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTGAAAAATAGAA
Found at i:106323245 original size:14 final size:14
Alignment explanation
Indices: 106323226--106323261 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
106323216 AGTTGATTTT
*
106323226 TTTGAAAAATAGAA
1 TTTGAAAAACAGAA
*
106323240 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
106323254 TTTGAAAA
1 TTTGAAAA
106323262 TACCTCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.31
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:106323295 original size:252 final size:253
Alignment explanation
Indices: 106322815--106323319 Score: 691
Period size: 252 Copynumber: 2.0 Consensus size: 253
106322805 CAGACATTAA
* * *
106322815 AAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAACAAAAATTGAAAATACCTCA-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * ** * *
106322880 GATTTTTGAAAACAGAATTTGAAAAATAGATTTTGAAAATACCTCAGCATGTGACCCGAGGCTCA
65 AATTTTTGAAAACAGAAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTAACCCGAGGCTCA
* * *
106322945 ACTCACCTTTCCCAATATGAGTTGATTTTTGAAAAACATAAATTGAAGAAAATAGAAATTGAAAA
130 ACTCACCTATCCCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAGAAAACAGAAATTGAAAA
*
106323010 TACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
195 TACCTCAGCATGTGAGCCCAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
*
106323069 AAACAAAAATTGAAAATACCTCA-ACGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAAAAATTGAAAATACCTCACACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
106323132 AATTTTTTG-AAACATAAATTGAAGAACAGAAATTAAAAATACCTC-GACATGTAACCCGAGGCT
65 AA-TTTTTGAAAACAGAAATTGAAAAACAGAAATTAAAAATACCTCAG-CATGTAACCCGAGGCT
* * * **
106323195 CAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAATAGAATTTG-A-AAAACAGATTTTG
128 CAACTCACCTATCCCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAGAAAACAGAAATTG
*
106323258 AAAATACCTCGGCATGTGA-CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
191 AAAATACCTCAGCATGTGAGCCCAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
106323320 AAAATAGAAA
Statistics
Matches: 222, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
251 7 0.03
252 170 0.77
253 7 0.03
254 38 0.17
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (253 bp):
AAACAAAAATTGAAAATACCTCACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTA
ATTTTTGAAAACAGAAATTGAAAAACAGAAATTAAAAATACCTCAGCATGTAACCCGAGGCTCAA
CTCACCTATCCCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAGAAAACAGAAATTGAAAAT
ACCTCAGCATGTGAGCCCAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
Found at i:106333468 original size:16 final size:17
Alignment explanation
Indices: 106333447--106333482 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
106333437 CGTTTTATTT
*
106333447 AAAAACT-AAACTATAA
1 AAAAACTAAAACCATAA
106333463 AAAAACTAAAACCATAA
1 AAAAACTAAAACCATAA
106333480 AAA
1 AAA
106333483 CTTAGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAACTAAAACCATAA
Found at i:106334381 original size:28 final size:27
Alignment explanation
Indices: 106334320--106334382 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
106334310 AAGAAAAGAG
106334320 TAAAAATAATATACATAATAATATACT
1 TAAAAATAATATACATAATAATATACT
* * *
106334347 AAGAAAATAATATATTTATAATAA-GTACT
1 TA-AAAATAATATA--CATAATAATATACT
106334376 TAAAAAT
1 TAAAAAT
106334383 GTCTATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.03
28 16 0.55
29 5 0.17
30 7 0.24
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
TAAAAATAATATACATAATAATATACT
Found at i:106334413 original size:3 final size:3
Alignment explanation
Indices: 106334407--106334464 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
106334397 ATATAAAAAA
* *
106334407 AAT AAT AAA AAT AAT AAT AAT AGT GAA- AAT AAT AA- ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT
106334452 CAAT -AT AAT AAT A
1 -AAT AAT AAT AAT A
106334465 GAAAAGATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
2 5 0.11
3 35 0.78
4 5 0.11
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:106334416 original size:9 final size:9
Alignment explanation
Indices: 106334399--106334450 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
106334389 ATGTATATAT
*
106334399 ATAAAAAAA
1 ATAATAAAA
106334408 ATAATAAAA
1 ATAATAAAA
*
106334417 ATAATAATA
1 ATAATAAAA
* *
106334426 ATAGTGAAA
1 ATAATAAAA
*
106334435 ATAATAAAT
1 ATAATAAAA
106334444 ATAATAA
1 ATAATAA
106334451 TCAATATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (9 bp):
ATAATAAAA
Found at i:106334440 original size:21 final size:22
Alignment explanation
Indices: 106334416--106334464 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
106334406 AAATAATAAA
* *
106334416 AATAATA-ATAATAGTGAAAAT
1 AATAATATATAATAATCAAAAT
*
106334437 AATAA-ATATAATAATCAATAT
1 AATAATATATAATAATCAAAAT
106334458 AATAATA
1 AATAATA
106334465 GAAAAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
AATAATATATAATAATCAAAAT
Found at i:106334644 original size:15 final size:15
Alignment explanation
Indices: 106334608--106334649 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
106334598 ATAATAATAA
*
106334608 TATAAAAAAATA-TG
1 TATAAAATAATAGTG
*
106334622 -ATATAATAATAGTG
1 TATAAAATAATAGTG
106334636 TATAAAATAATAGT
1 TATAAAATAATAGT
106334650 AATAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (15 bp):
TATAAAATAATAGTG
Found at i:106334740 original size:3 final size:3
Alignment explanation
Indices: 106334732--106334839 Score: 71
Period size: 3 Copynumber: 36.7 Consensus size: 3
106334722 TATTAAAAAT
* * *
106334732 TAA TAA TAA TGA TAA TAA TGA TAA TAA T-A TAA TAA TAG TAA CT-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * * *
106334776 TAG TAA TAA T-A TAT TGA TAA -AA TGAA TAA AAA TAA TAG TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* *
106334820 TAA GAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
106334840 GTCATAAGGA
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
2 7 0.09
3 66 0.86
4 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:106334826 original size:24 final size:26
Alignment explanation
Indices: 106334779--106334863 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
106334769 GTAACTATAG
*
106334779 TAATAAT-ATATTGATAAAATGAATA
1 TAATAATAATAGTGATAAAATGAATA
106334804 -AA-AATAATAGTGATAATAA-GAATA
1 TAATAATAATAGTGATAA-AATGAATA
* *
106334828 TTAATAATAATAGTCATAAGGAT-AATA
1 -TAATAATAATAGTGATAA-AATGAATA
106334855 TAAATAATA
1 T-AATAATA
106334864 TTTAAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
23 3 0.06
24 16 0.33
25 2 0.04
26 3 0.06
27 25 0.51
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (26 bp):
TAATAATAATAGTGATAAAATGAATA
Found at i:106334854 original size:27 final size:27
Alignment explanation
Indices: 106334801--106334863 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
106334791 GATAAAATGA
* *
106334801 ATAAA-AATAATAGTGATAATAAGAAT
1 ATAAATAATAATAGTCATAAGAAGAAT
* * *
106334827 ATTAATAATAATAGTCATAAGGATAAT
1 ATAAATAATAATAGTCATAAGAAGAAT
106334854 ATAAATAATA
1 ATAAATAATA
106334864 TTTAAAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (27 bp):
ATAAATAATAATAGTCATAAGAAGAAT
Found at i:106344167 original size:14 final size:14
Alignment explanation
Indices: 106344148--106344181 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
106344138 CTACTATTTC
*
106344148 ACTATTATGTTATT
1 ACTATTATATTATT
106344162 ACTATTATATTATT
1 ACTATTATATTATT
*
106344176 ATTATT
1 ACTATT
106344182 TGGATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (14 bp):
ACTATTATATTATT
Found at i:106345640 original size:23 final size:23
Alignment explanation
Indices: 106345614--106345658 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
106345604 TATATACTAA
* *
106345614 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTATTTCTAATC
*
106345637 ATATTTATATTTTATTTCTAAT
1 ATATATATATTTTATTTCTAAT
106345659 TTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTATTTCTAATC
Found at i:106345721 original size:28 final size:28
Alignment explanation
Indices: 106345674--106345746 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
106345664 TATAATCAAT
* **
106345674 TTTTATTATATTTTCAATTT-TTGTATTG
1 TTTTAATATATTTTTTATTTGTT-TATTG
*
106345702 TTTTAATATATTTTTTATTTGTTTCTTG
1 TTTTAATATATTTTTTATTTGTTTATTG
106345730 TTTTAATAT-TTGTTTTA
1 TTTTAATATATT-TTTTA
106345747 AATGTATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 2 0.05
28 35 0.90
29 2 0.05
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.70
Consensus pattern (28 bp):
TTTTAATATATTTTTTATTTGTTTATTG
Found at i:106347650 original size:29 final size:29
Alignment explanation
Indices: 106347608--106347663 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
106347598 GAATCTAGGT
106347608 AAGTGCCAAAATTTGCTTTTATTGGGTGC
1 AAGTGCCAAAATTTGCTTTTATTGGGTGC
*
106347637 AAGTGCCAAAATTTTCTTTTATTGGGT
1 AAGTGCCAAAATTTGCTTTTATTGGGT
106347664 CTTTCTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.41
Consensus pattern (29 bp):
AAGTGCCAAAATTTGCTTTTATTGGGTGC
Found at i:106351262 original size:14 final size:14
Alignment explanation
Indices: 106351225--106351263 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
106351215 TTATTATTTT
106351225 TTAAAGGAAAAAAA
1 TTAAAGGAAAAAAA
* *
106351239 TTAAAAGAAAAAAT
1 TTAAAGGAAAAAAA
*
106351253 TTCAAGGAAAA
1 TTAAAGGAAAA
106351264 TGAAAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.18
Consensus pattern (14 bp):
TTAAAGGAAAAAAA
Found at i:106352368 original size:92 final size:92
Alignment explanation
Indices: 106352211--106352383 Score: 328
Period size: 92 Copynumber: 1.9 Consensus size: 92
106352201 CGAAGGCACT
106352211 GATCCCCTTTCTTCGTGAAAGTCAAATCTCGCAAGCTTCCAATACATGCCTCTACTAGCTCCTTT
1 GATCCCCTTTCTTCGTGAAAGTCAAATCTCGCAAGCTTCCAATACATGCCTCTACTAGCTCCTTT
*
106352276 TTGCTTGATCTAGGCCACGAATTACTA
66 TTGCTTGATCCAGGCCACGAATTACTA
*
106352303 GATCCCCTTTCTTTGTGAAAGTCAAATCTCGCAAGCTTCCAATACATGCCTCTACTAGCTCCTTT
1 GATCCCCTTTCTTCGTGAAAGTCAAATCTCGCAAGCTTCCAATACATGCCTCTACTAGCTCCTTT
106352368 TTGCTTGATCCAGGCC
66 TTGCTTGATCCAGGCC
106352384 TCACAATGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (92 bp):
GATCCCCTTTCTTCGTGAAAGTCAAATCTCGCAAGCTTCCAATACATGCCTCTACTAGCTCCTTT
TTGCTTGATCCAGGCCACGAATTACTA
Found at i:106354687 original size:32 final size:32
Alignment explanation
Indices: 106354646--106354709 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
106354636 AAAAAAAGGG
106354646 ACCGAATATGAGGATAAAATATAAATATGTAT
1 ACCGAATATGAGGATAAAATATAAATATGTAT
106354678 ACCGAATATGAGGATAAAATATAAATATGTAT
1 ACCGAATATGAGGATAAAATATAAATATGTAT
106354710 GTCGAGACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (32 bp):
ACCGAATATGAGGATAAAATATAAATATGTAT
Found at i:106355392 original size:18 final size:18
Alignment explanation
Indices: 106355351--106355385 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
106355341 GTACTAGGTA
*
106355351 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
106355369 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
106355386 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:106355576 original size:3 final size:3
Alignment explanation
Indices: 106355568--106355613 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
106355558 AATACAACAT
* * *
106355568 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA TTT ATA ATA A-A ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
106355614 CTTATAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:106358606 original size:30 final size:30
Alignment explanation
Indices: 106358570--106358626 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
106358560 TTATACCATG
*
106358570 TATATATTTTTTATAA-ATATCATATATCTA
1 TATATATTTCTTA-AATATATCATATATCTA
106358600 TATATATTTCTTAAATATATCATATAT
1 TATATATTTCTTAAATATATCATATAT
106358627 ACTGTGTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (30 bp):
TATATATTTCTTAAATATATCATATATCTA
Found at i:106360538 original size:119 final size:119
Alignment explanation
Indices: 106360316--106360790 Score: 736
Period size: 119 Copynumber: 4.0 Consensus size: 119
106360306 TTTGAGTCTG
* * * * *
106360316 TTTGAGAACGTTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAT
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * * * *
106360381 TAAATCATCTTGGTTCTGTTTCAGTACAATCATGTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
106360435 TCTGAGAACATCTGAGAGTCAAATCTGCTATTTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
106360500 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
106360554 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
106360619 CAAATCATCTTGGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
106360673 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * **
106360738 CAAATCATCTTGGACCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCTAT
106360791 TTTCAATTTA
Statistics
Matches: 328, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
118 2 0.01
119 326 0.99
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:106365173 original size:32 final size:31
Alignment explanation
Indices: 106365116--106365175 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
106365106 TTATACCATG
*
106365116 TATATATTTTTTTATAAATATCATATATCTA
1 TATATATTTTCTTATAAATATCATATATCTA
106365147 TATATATATTTCTTA-AATATATCATATAT
1 TATATAT-TTTCTTATAA-ATATCATATAT
106365176 ACTGTGTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (31 bp):
TATATATTTTCTTATAAATATCATATATCTA
Found at i:106366108 original size:56 final size:56
Alignment explanation
Indices: 106366035--106366146 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
106366025 GCCTTTACGT
*
106366035 TTTACTATAAATCGCGTCACTTTTTGCTCAATATATTATAACAATTCTTTCATAAG
1 TTTACTATAAATAGCGTCACTTTTTGCTCAATATATTATAACAATTCTTTCATAAG
*
106366091 TTTAGTATAAATAGCGTCACTTTTTGCTCAATATATTATAACAATTCTTTCATAAG
1 TTTACTATAAATAGCGTCACTTTTTGCTCAATATATTATAACAATTCTTTCATAAG
106366147 AGTAATATCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (56 bp):
TTTACTATAAATAGCGTCACTTTTTGCTCAATATATTATAACAATTCTTTCATAAG
Found at i:106377673 original size:44 final size:43
Alignment explanation
Indices: 106377618--106377719 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
106377608 AATGTTATTG
* * *
106377618 CCCTAAACAGTAGGGAAACGAA-TCGAATATA-ATGAGCTTTAACC
1 CCCTAAGCAGTAGGGAAAC-AAGCCAAATATACA-GA-CTTTAACC
* *
106377662 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACTTTAACC
1 CCCTAAGCAGTAGGGAAACAAGCCAAATATACAGACTTTAACC
*
106377705 CCCTAAGTAGTAGGG
1 CCCTAAGCAGTAGGG
106377720 TAATAGGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 24 0.48
44 25 0.50
45 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAAACAAGCCAAATATACAGACTTTAACC
Found at i:106378011 original size:222 final size:221
Alignment explanation
Indices: 106377618--106378135 Score: 894
Period size: 222 Copynumber: 2.3 Consensus size: 221
106377608 AATGTTATTG
* *
106377618 CCCTAAACAGTAGGGAAAC-GAATCGAATATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACA
1 CCCTAAGCAGTAGGGAAACAG-ATCGAAGATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACA
* *
106377682 AGCCAAATTTACAGACTTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTACAGATTTTGT
65 AGCCAATTTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTACAGATTTTGT
*
106377747 CTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGTGAATCTTGTCTTCCTGAAGTTGCAGTGAA
130 CTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGTGAATCTTGTCTTCCTGAAGTTGCAGTAAA
106377812 GCAGATTGAAGATTTACAGATCTTAACC
195 GCAGATTGAAGATTTACAGATCTT-ACC
106377840 CCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAA
*
106377905 GCCAATTTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTATAGATTTTGTC
66 GCCAATTTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTACAGATTTTGTC
*
106377970 TCCCTGAAGTTGTAGTGGAACAGATCGAATCCAGTGAATCTTGTCTTCCTGAAGTTGCAGTAAAG
131 TCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGTGAATCTTGTCTTCCTGAAGTTGCAGTAAAG
106378035 CAGATTGAAGATTTACAGATCTTACC
196 CAGATTGAAGATTTACAGATCTTACC
* * * *
106378061 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAACGAGCTTTAACACTCCTAAGTAGTAGGGTAACA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC-CCCCTAAGCAGTAGGGTAACA
106378126 AGCCGAATTT
65 AGCC-AATTT
106378136 GCAGATCTTA
Statistics
Matches: 282, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
221 44 0.16
222 232 0.82
223 6 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (221 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAA
GCCAATTTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTACAGATTTTGTC
TCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGTGAATCTTGTCTTCCTGAAGTTGCAGTAAAG
CAGATTGAAGATTTACAGATCTTACC
Found at i:106378210 original size:87 final size:87
Alignment explanation
Indices: 106378045--106378210 Score: 201
Period size: 87 Copynumber: 1.9 Consensus size: 87
106378035 CAGATTGAAG
* * * * *
106378045 ATTTACAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAACGAGCTTTAACACTCCT
1 ATTTACAGATCTTACACCCTAAGCAGTAGGGAAACAGATCGAAAGAAACGAGCCTTAACACCCCT
*
106378110 AAGTAGTAGGGTAACAAGCCGA
66 AAGCAGTAGGGTAACAAGCCGA
* * * * *
106378132 ATTTGCAGATCTTATCACCTTAAGCAGTGGGGAAACAGATC-AAAGAAGATGGGCCTTAAC-CCC
1 ATTTACAGATCTTA-CACCCTAAGCAGTAGGGAAACAGATCGAAAGAA-ACGAGCCTTAACACCC
106378195 CTAAGCAGTAGGGTAA
64 CTAAGCAGTAGGGTAA
106378211 TAGGCTAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 34 0.52
88 32 0.48
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (87 bp):
ATTTACAGATCTTACACCCTAAGCAGTAGGGAAACAGATCGAAAGAAACGAGCCTTAACACCCCT
AAGCAGTAGGGTAACAAGCCGA
Found at i:106380193 original size:32 final size:31
Alignment explanation
Indices: 106380136--106380195 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
106380126 TTATACCATG
*
106380136 TATATATTTTTTTATAAATATCATATATCTA
1 TATATATTTTCTTATAAATATCATATATCTA
106380167 TATATATATTTCTTA-AATATATCATATAT
1 TATATAT-TTTCTTATAA-ATATCATATAT
106380196 ACTGTGTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (31 bp):
TATATATTTTCTTATAAATATCATATATCTA
Found at i:106381896 original size:23 final size:23
Alignment explanation
Indices: 106381866--106381912 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
106381856 AAAGAATGGT
106381866 TACGACACCAACCATTTTGAGTC
1 TACGACACCAACCATTTTGAGTC
106381889 TACGACACCAACCATTTTGAGTC
1 TACGACACCAACCATTTTGAGTC
106381912 T
1 T
106381913 GTTTGAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (23 bp):
TACGACACCAACCATTTTGAGTC
Found at i:106382136 original size:119 final size:119
Alignment explanation
Indices: 106381914--106382385 Score: 714
Period size: 119 Copynumber: 4.0 Consensus size: 119
106381904 TTTGAGTCTG
* * * * *
106381914 TTTGA-AACGTTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAT
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * * * *
106381978 TAAATCATCTTGGTTCTGTTTCAGTACAATCATGTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
106382032 TCTGAGAACATCTGAGAGTCAAATCTGCTATTTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
106382097 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
106382151 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
106382216 CAAATCATCTTGGATTTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
106382270 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * **
106382335 CAAATCATCTTGGACCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
106382386 GTTTTCAATT
Statistics
Matches: 323, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
118 6 0.02
119 317 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:106393823 original size:18 final size:18
Alignment explanation
Indices: 106393782--106393816 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
106393772 GTACTAGGTA
*
106393782 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
106393800 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
106393817 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:106404449 original size:45 final size:46
Alignment explanation
Indices: 106404352--106404455 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 46
106404342 AGCTTAAGAT
*
106404352 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
106404399 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
106404444 CGAATGACCAAT
1 CGAATGGCCAAT
106404456 TGCGAAAAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
45 28 0.53
46 1 0.02
47 24 0.45
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:106413572 original size:36 final size:36
Alignment explanation
Indices: 106413532--106413606 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
106413522 TAAAAAGAAA
106413532 CTTACAAATTAGAAAATATAATTATGATAATAATTT
1 CTTACAAATTAGAAAATATAATTATGATAATAATTT
106413568 CTTACAAATTAGAAAATATAATTATGATAATAATTT
1 CTTACAAATTAGAAAATATAATTATGATAATAATTT
106413604 CTT
1 CTT
106413607 CTCTCATCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (36 bp):
CTTACAAATTAGAAAATATAATTATGATAATAATTT
Found at i:106414279 original size:31 final size:32
Alignment explanation
Indices: 106414241--106414301 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
106414231 CAACAGATCT
*
106414241 TGAAAACACCTT-AAAAGTTAGGTGACTAAAA
1 TGAAAACACCTTAAAAAGTTAAGTGACTAAAA
106414272 TGAAAACACCTTAAAAAGTTAAGTGACTAA
1 TGAAAACACCTTAAAAAGTTAAGTGACTAA
106414302 CTAGGTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (32 bp):
TGAAAACACCTTAAAAAGTTAAGTGACTAAAA
Found at i:106421268 original size:12 final size:12
Alignment explanation
Indices: 106421246--106421280 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
106421236 GCCTGCGCCC
106421246 ATAAAAAATAAA
1 ATAAAAAATAAA
* *
106421258 CTAAGAAATAAA
1 ATAAAAAATAAA
106421270 ATAAAAAATAA
1 ATAAAAAATAA
106421281 TAATGATAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:106422700 original size:15 final size:15
Alignment explanation
Indices: 106422677--106422706 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
106422667 AATCCGTCCA
106422677 TTTAGTTTTATCCTT
1 TTTAGTTTTATCCTT
*
106422692 TTTATTTTTATCCTT
1 TTTAGTTTTATCCTT
106422707 ATTTGTCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTAGTTTTATCCTT
Found at i:106422939 original size:3 final size:3
Alignment explanation
Indices: 106422924--106423033 Score: 62
Period size: 3 Copynumber: 35.3 Consensus size: 3
106422914 TTTGCTACTG
* * * * *
106422924 TTA TTA TTG TTA TTA TTA TTG TTA CTA TTA TTA CTA CTTA TGTCA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-T-A TTA
* * * * *
106422972 TTA -TA GTTA TTA GTA TGA TTA TTG TTA TTA TTA TTA TTA -AA TTG
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106423016 TTA TTA TTTA TTTA TTA T
1 TTA TTA -TTA -TTA TTA T
106423034 AGTCCATTAT
Statistics
Matches: 80, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
2 3 0.04
3 63 0.79
4 13 0.16
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:106427107 original size:10 final size:10
Alignment explanation
Indices: 106427092--106427123 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
106427082 TAAATACATT
106427092 TAATTAAAGA
1 TAATTAAAGA
106427102 TAATTAAAGA
1 TAATTAAAGA
106427112 TAATTAAA-A
1 TAATTAAAGA
106427121 TAA
1 TAA
106427124 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:106427168 original size:15 final size:15
Alignment explanation
Indices: 106427148--106427177 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
106427138 ATAATCCTAA
*
106427148 TAATTATCTTAATAT
1 TAATTATCCTAATAT
106427163 TAATTATCCTAATAT
1 TAATTATCCTAATAT
106427178 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:106430769 original size:37 final size:37
Alignment explanation
Indices: 106430728--106430802 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
106430718 CTTGGGAGGT
106430728 TGGGTAGAATTTGAATTCTAGAGAAGATCTGATAGGA
1 TGGGTAGAATTTGAATTCTAGAGAAGATCTGATAGGA
106430765 TGGGTAGAATTTGAATTCTAGAGAAGATCTGATAGGA
1 TGGGTAGAATTTGAATTCTAGAGAAGATCTGATAGGA
106430802 T
1 T
106430803 AACTAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (37 bp):
TGGGTAGAATTTGAATTCTAGAGAAGATCTGATAGGA
Found at i:106432943 original size:72 final size:72
Alignment explanation
Indices: 106432826--106432967 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 72
106432816 ATGTATATCG
* * * * *
106432826 TCTAGCTTGCTCATTGGGGCAATATAACTTTCTTCACGAGGGATTCA-TCAAAAAATCACGTCAA
1 TCTAGCTTACTCATTGCGGCAAAATAACTTTATTCACGAGGGATTCATTC-AAAAATCACGCCAA
*
106432890 ACAATCCT
65 AAAATCCT
* * *
106432898 TCTAGCTTATTCATTGCGGTAAAATAACTTTATTCATG-GGTGATTCATTCAAAAATCACGCCAA
1 TCTAGCTTACTCATTGCGGCAAAATAACTTTATTCACGAGG-GATTCATTCAAAAATCACGCCAA
106432962 AAAATC
65 AAAATC
106432968 TTTTCTTACT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.03
72 55 0.93
73 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (72 bp):
TCTAGCTTACTCATTGCGGCAAAATAACTTTATTCACGAGGGATTCATTCAAAAATCACGCCAAA
AAATCCT
Found at i:106434280 original size:15 final size:16
Alignment explanation
Indices: 106434260--106434295 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
106434250 AGATAAGAAT
*
106434260 AATAAAAAT-GATAAG
1 AATAAAAATAAATAAG
106434275 AATAAAAATAAATAAG
1 AATAAAAATAAATAAG
106434291 AATAA
1 AATAA
106434296 TAAGAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (16 bp):
AATAAAAATAAATAAG
Found at i:106434299 original size:9 final size:9
Alignment explanation
Indices: 106434247--106434304 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
106434237 AGAGGAAAAT
106434247 AATAGATAAG
1 AATA-ATAAG
*
106434257 AATAATAAA
1 AATAATAAG
*
106434266 AATGATAAG
1 AATAATAAG
106434275 AAT-A-AA-
1 AATAATAAG
106434281 AATAAATAAG
1 AAT-AATAAG
106434291 AATAATAAG
1 AATAATAAG
106434300 AATAA
1 AATAA
106434305 GTAAAAAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 2 0.05
9 27 0.66
10 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (9 bp):
AATAATAAG
Found at i:106434494 original size:20 final size:21
Alignment explanation
Indices: 106434456--106434494 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
106434446 TAATGATAAT
*
106434456 AATAATAGTTGTAAAAGTAGA
1 AATAATAGTAGTAAAAGTAGA
*
106434477 AATAAT-GTAGTAATAGTA
1 AATAATAGTAGTAAAAGTA
106434495 ATAAAAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (21 bp):
AATAATAGTAGTAAAAGTAGA
Found at i:106434678 original size:25 final size:25
Alignment explanation
Indices: 106434659--106434713 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
106434649 AAAATGGTGG
106434659 TAATAATAATAATAATAAATAATGA
1 TAATAATAATAATAATAAATAATGA
*
106434684 TAATAATAATAATAAT-AATAATAA
1 TAATAATAATAATAATAAATAATGA
106434708 TAATAA
1 TAATAA
106434714 AGATGCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
TAATAATAATAATAATAAATAATGA
Found at i:106434682 original size:28 final size:28
Alignment explanation
Indices: 106434659--106434713 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
106434649 AAAATGGTGG
106434659 TAATAATAATAATAATAAATAATGATAA
1 TAATAATAATAATAATAAATAATGATAA
*
106434687 TAATAATAATAATAAT-AATAATAATAA
1 TAATAATAATAATAATAAATAATGATAA
106434714 AGATGCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
TAATAATAATAATAATAAATAATGATAA
Found at i:106434732 original size:3 final size:3
Alignment explanation
Indices: 106434659--106434713 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
106434649 AAAATGGTGG
*
106434659 TAA TAA TAA TAA TAA TAAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
106434705 TAA TAA TAA
1 TAA TAA TAA
106434714 AGATGCAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:106434747 original size:21 final size:22
Alignment explanation
Indices: 106434679--106434755 Score: 74
Period size: 21 Copynumber: 3.6 Consensus size: 22
106434669 AATAATAAAT
106434679 AATGATAATAATAATA-AT--AA
1 AATGATAATAATAA-AGATGCAA
*
106434699 TAATAATAATAATAAAGATGCAA
1 -AATGATAATAATAAAGATGCAA
106434722 AATGATAATAAGT-AAGATGC-A
1 AATGATAATAA-TAAAGATGCAA
*
106434743 AATGAAAATAATA
1 AATGATAATAATA
106434756 TATATAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 26 0.54
22 17 0.35
23 3 0.06
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.26
Consensus pattern (22 bp):
AATGATAATAATAAAGATGCAA
Found at i:106434829 original size:18 final size:19
Alignment explanation
Indices: 106434803--106434861 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
106434793 TACATAAATG
106434803 TAAATATAAATATAATACA
1 TAAATATAAATATAATACA
*
106434822 TAAA-ATAAA-GTAATAACA
1 TAAATATAAATATAAT-ACA
* *
106434840 TAAATTTAAATA-AATAAA
1 TAAATATAAATATAATACA
106434858 TAAA
1 TAAA
106434862 ATTAGATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.12
18 18 0.55
19 11 0.33
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAATATAAATATAATACA
Found at i:106437538 original size:11 final size:11
Alignment explanation
Indices: 106437524--106437549 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
106437514 ATATATTTTT
106437524 AATTTAATTTA
1 AATTTAATTTA
106437535 AATTTAATTTA
1 AATTTAATTTA
106437546 AATT
1 AATT
106437550 ACTTAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:106449229 original size:21 final size:21
Alignment explanation
Indices: 106449203--106449243 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106449193 ATCTGCTCAA
* *
106449203 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
106449224 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
106449244 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:106453799 original size:14 final size:15
Alignment explanation
Indices: 106453774--106453805 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
106453764 AATTCTTCTA
106453774 TTCTTATAATTTTTT
1 TTCTTATAATTTTTT
106453789 TTCTT-TAATTTTTT
1 TTCTTATAATTTTTT
106453803 TTC
1 TTC
106453806 CTTTCTTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTATAATTTTTT
Found at i:106453990 original size:19 final size:19
Alignment explanation
Indices: 106453966--106454005 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
106453956 TTTATTATTA
106453966 AGCTAATAAAACAGAGTTT
1 AGCTAATAAAACAGAGTTT
*
106453985 AGCTAATAAAACAGGGTTT
1 AGCTAATAAAACAGAGTTT
106454004 AG
1 AG
106454006 GTTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (19 bp):
AGCTAATAAAACAGAGTTT
Found at i:106459424 original size:11 final size:11
Alignment explanation
Indices: 106459408--106459433 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
106459398 AATATCACCG
106459408 TTAGTTAAAGC
1 TTAGTTAAAGC
106459419 TTAGTTAAAGC
1 TTAGTTAAAGC
106459430 TTAG
1 TTAG
106459434 CGGTGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (11 bp):
TTAGTTAAAGC
Found at i:106461242 original size:21 final size:21
Alignment explanation
Indices: 106461217--106461285 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
106461207 TATAATGATT
106461217 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
106461238 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
106461258 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
106461278 ATTATTAT
1 ATTATTAT
106461286 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:106461298 original size:15 final size:14
Alignment explanation
Indices: 106461272--106461302 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
106461262 TATGGTTTTA
106461272 TATTAGATTATTAT
1 TATTAGATTATTAT
106461286 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
106461301 TA
1 TA
106461303 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:106466258 original size:18 final size:19
Alignment explanation
Indices: 106466232--106466267 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
106466222 AATATCCCAC
*
106466232 CATCGTTGG-GGAACTTGT
1 CATCCTTGGAGGAACTTGT
106466250 CATCCTTGGAGGAACTTG
1 CATCCTTGGAGGAACTTG
106466268 GTTTGGAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (19 bp):
CATCCTTGGAGGAACTTGT
Found at i:106469960 original size:3 final size:3
Alignment explanation
Indices: 106469952--106470323 Score: 161
Period size: 3 Copynumber: 126.3 Consensus size: 3
106469942 GTTAATAAGG
* * *
106469952 ATA ATA ATA ATA ATA ATA ATAA ATA AT- ATG CTA ATG AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
106469996 GTA ATG ATA ATA ATA ATA GTA GTA AAA ATA AAA ATA AT- ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
106470043 GTA ATA A-A AAA AGA A-A AT- ATG ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
106470088 ATAA ACA ATA GTA ATA ATA ATA A-A AGGT- ATA ATA AT- ATA TTA GATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA -ATA
* * * *
106470134 GTA AAA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
106470181 AT- ATCA GTA GTA ATA GTA ATA A-A GTA ATA GTA ATA AAA ATA GTA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
106470225 CTA AT- GTCA ATA GTA ATA A-A ATA AGGA A-A ATA AAA ATT GTA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
106470269 ATA ATA ATA AT- GTAA ATA ATA ATA TATA CATA A-A AT- ATA TATA AT-
1 ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA ATA ATA ATA -ATA ATA
*
106470314 ATA ATG ATA A
1 ATA ATA ATA A
106470324 CGATATGAAA
Statistics
Matches: 275, Mismatches: 64, Indels: 60
0.69 0.16 0.15
Matches are distributed among these distances:
2 34 0.12
3 219 0.80
4 22 0.08
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:106470391 original size:3 final size:3
Alignment explanation
Indices: 106470385--106470410 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
106470375 AAAATGGTGG
106470385 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
106470411 GGATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:106478839 original size:9 final size:9
Alignment explanation
Indices: 106478819--106478883 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
106478809 AGCGGAGAAT
106478819 AATAAGTAAA
1 AATAA-TAAA
106478829 AATAATAAA
1 AATAATAAA
*
106478838 AATGATAAA
1 AATAATAAA
106478847 AATAA-AAA
1 AATAATAAA
* *
106478855 TA-AATAAG
1 AATAATAAA
* *
106478863 AATAATGAG
1 AATAATAAA
106478872 AATAAGTAAA
1 AATAA-TAAA
106478882 AA
1 AA
106478884 AGGAAACTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
7 2 0.05
8 7 0.16
9 26 0.59
10 9 0.20
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (9 bp):
AATAATAAA
Found at i:106478845 original size:25 final size:29
Alignment explanation
Indices: 106478817--106478883 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 29
106478807 TAAGCGGAGA
106478817 ATAATAAGTAAAAAT-AAT-A-AA-AATG
1 ATAATAAGTAAAAATAAATAAGAATAATG
*
106478842 ATAA-AAATAAAAATAAATAAGAATAATG
1 ATAATAAGTAAAAATAAATAAGAATAATG
*
106478870 AGAATAAGTAAAAA
1 ATAATAAGTAAAAA
106478884 AGGAAACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 9 0.26
25 7 0.21
26 1 0.03
27 2 0.06
28 7 0.21
29 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (29 bp):
ATAATAAGTAAAAATAAATAAGAATAATG
Found at i:106479125 original size:82 final size:83
Alignment explanation
Indices: 106478986--106479176 Score: 187
Period size: 82 Copynumber: 2.3 Consensus size: 83
106478976 TTAATAAGGA
* * * * * *
106478986 TAATAATAATAAAAATAAAT--AATATGCTAATAATATAATAGTAATGATAATAATAATAGTAGT
1 TAATAGTAATAAAAA-AAATAAAATATGATAATAATATAATAGTAATAACAATAATAATAATAAT
106479049 AAAA-ATAAAAATAATATAG
65 AAAAGAT-AAAATAATATAG
* *
106479068 TAATAGTAATAAAAAAAATAAAATATGATAAT-A-ATAGTAGTAATAAACAATAGTAATAATAAT
1 TAATAGTAATAAAAAAAATAAAATATGATAATAATATAATAGTAAT-AACAATAATAATAATAAT
* * *
106479131 AAAAGGTATAATAATATAT
65 AAAAGATAAAATAATATAG
106479150 TAGATAGTAA-AAAATAAAATAATAATA
1 TA-ATAGTAATAAAA-AAAATAA-AATA
106479177 ATAGTAATAA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
81 14 0.15
82 48 0.53
83 25 0.27
84 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (83 bp):
TAATAGTAATAAAAAAAATAAAATATGATAATAATATAATAGTAATAACAATAATAATAATAATA
AAAGATAAAATAATATAG
Found at i:106479130 original size:31 final size:29
Alignment explanation
Indices: 106479032--106479132 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 29
106479022 AATAGTAATG
*
106479032 ATAATAATAATAGTAGTAAAAATAAAAATA
1 ATAATAATAATAGTAGTAAAAA-AAATATA
* * *
106479062 AT-ATAGTAATAGTAATAAAAAAAATAAA
1 ATAATAATAATAGTAGTAAAAAAAATATA
*
106479090 ATATGATAATAATAGTAGTAATAAACAATAGTA
1 ATA--ATAATAATAGTAGTAA-AAAAAATA-TA
106479123 ATAATAATAA
1 ATAATAATAA
106479133 AAGGTATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.12
29 17 0.29
30 2 0.03
31 21 0.36
32 7 0.12
33 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.08, T:0.28
Consensus pattern (29 bp):
ATAATAATAATAGTAGTAAAAAAAATATA
Found at i:106479229 original size:109 final size:105
Alignment explanation
Indices: 106479032--106479240 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 105
106479022 AATAGTAATG
106479032 ATAATAATAATAGTAGTAAAAATAAAAATAATATAGTAATAGTAATAAAAAAAATAAAATATGAT
1 ATAATAATAATAGTAGTAAAAATAAAAATAATATAGTAATAGTAATAAAAAAAAT-AAATATGAT
* *
106479097 AATAATAGTAGTAATAAACAATAGTAATAATAATAAAAGGT
65 AATAATAATAGTAATAAACAATAGTAATAAAAATAAAAGGT
106479138 ATAATAATATATTAGATAGTAAAAA-ATAAAATAATA-A-TAATAGTAAT-AAAAAAAT-AATAG
1 ATAATAATA-A-TAG-TAGTAAAAATA-AAAATAATATAGTAATAGTAATAAAAAAAATAAATA-
* *
106479198 TGATATTAGTAGTAATAGTAATAAAGTAATAGTAATAAAAATA
61 TGATA--A-TAATAATAGTAATAAA-CAATAGTAATAAAAATA
106479241 GTACTAATGT
Statistics
Matches: 90, Mismatches: 4, Indels: 15
0.83 0.04 0.14
Matches are distributed among these distances:
104 4 0.04
105 5 0.06
106 17 0.19
107 12 0.13
108 19 0.21
109 33 0.37
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (105 bp):
ATAATAATAATAGTAGTAAAAATAAAAATAATATAGTAATAGTAATAAAAAAAATAAATATGATA
ATAATAATAGTAATAAACAATAGTAATAAAAATAAAAGGT
Found at i:106479232 original size:20 final size:19
Alignment explanation
Indices: 106478985--106479234 Score: 89
Period size: 19 Copynumber: 13.3 Consensus size: 19
106478975 GTTAATAAGG
*
106478985 ATAATAATAATAAA-AATAA
1 ATAATAGTAATAAATAAT-A
**
106479004 ATAATA-TGCT-AATAAT-
1 ATAATAGTAATAAATAATA
106479020 ATAATAGTAATGATAATAATA
1 ATAATAGTAAT-A-AATAATA
* *
106479041 ATAGTAGTAA-AAATAAAA
1 ATAATAGTAATAAATAATA
*
106479059 ATAATATAGTAATAGTAATAAAA
1 AT-A-ATAGTAATA--AATAATA
* * *
106479082 AAAATA-AAATATGATAATA
1 ATAATAGTAATA-AATAATA
* *
106479101 ATAGTAGTAATAAACAATA
1 ATAATAGTAATAAATAATA
* *
106479120 GTAATAATAATAAA-AGGTATA
1 ATAATAGTAATAAATA---ATA
* * *
106479141 ATAATA-TATTAGATAGTA
1 ATAATAGTAATAAATAATA
*
106479159 A-AA-AAT-A-AAATAATA
1 ATAATAGTAATAAATAATA
106479174 ATAATAGTAATAAA-AA-A
1 ATAATAGTAATAAATAATA
* * *
106479191 ATAATAGTGAT-ATTAGTA
1 ATAATAGTAATAAATAATA
*
106479209 GTAATAGTAATAAAGTAATA
1 ATAATAGTAATAAA-TAATA
*
106479229 GTAATA
1 ATAATA
106479235 AAAATAGTAC
Statistics
Matches: 172, Mismatches: 34, Indels: 49
0.67 0.13 0.19
Matches are distributed among these distances:
15 7 0.04
16 10 0.06
17 21 0.12
18 30 0.17
19 38 0.22
20 35 0.20
21 22 0.13
22 1 0.01
23 8 0.05
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (19 bp):
ATAATAGTAATAAATAATA
Found at i:106479480 original size:44 final size:44
Alignment explanation
Indices: 106479432--106479524 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 44
106479422 ATAGGATGAA
* * *
106479432 AATAAAAATAACAAT-ACTAATATATTA-AGTTACAATAGTGAAAT
1 AATAAAAATAACAATGA-TAATATATTAGA-TAAAAATAGTAAAAT
* * *
106479476 AATAATAATGATAATGATAATATATTAGATAAAAATAGTAAAAT
1 AATAAAAATAACAATGATAATATATTAGATAAAAATAGTAAAAT
106479520 AATAA
1 AATAA
106479525 CTAATAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (44 bp):
AATAAAAATAACAATGATAATATATTAGATAAAAATAGTAAAAT
Found at i:106479589 original size:3 final size:3
Alignment explanation
Indices: 106478985--106479576 Score: 128
Period size: 3 Copynumber: 199.7 Consensus size: 3
106478975 GTTAATAAGG
* * * *
106478985 ATA ATA ATA ATA AAA ATAA ATA AT- ATG CTA ATA AT- ATA ATA GTA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
106479029 ATG ATA ATA ATA ATA GTA GTA AAA ATA AAA ATA AT- ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
106479076 ATA AAA AAA ATA A-A AT- ATG ATA ATA ATA GTA GTA ATAA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
106479120 GTA ATA ATA ATA A-A AGGT- ATA ATA AT- ATA TTA GATA GTA A-A A-A
1 ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * *
106479163 ATA A-A ATA ATA ATA ATA GTA ATA A-A AAA ATA ATA GTG ATA TTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
106479209 GTA ATA GTA ATA A-A GTA ATA GTA ATA AAA ATA GTA CTA AT- GTCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * *
106479253 ATA GTA ATA A-A ATA AGGA A-A ATA AAA ATT GTA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
106479296 GTAA ATA ATA ACA TATA CATA ATA TATA TATA AT- ATA ATG ATA ACG
1 AT-A ATA ATA ATA -ATA -ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
* * * * * * * * *
106479342 AT- ATGA A-A TTT ATGG GT- TTA ATG CTA A-G ATA ATA ATA ATA GTA
1 ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
106479385 AAA ATA A-A A-A ATG GTG GTA ATA ATA ATA ATA ATA ATA ATA GGATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --AT-A
* * * * * * * *
106479431 A-A ATA AAA ATA ACA ATA CTA AT- ATA TTA AGTT ACA ATA GTG A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * *
106479474 ATA ATA ATA ATG ATA ATG ATA AT- ATA TTA GATA AAA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
106479518 ATA ATA ACTA ATA ATA ATA AGGT- ATAA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA A--TA AT-A ATA ATA ATA ATA ATA ATA ATA
106479566 ATA ATA ATA AT
1 ATA ATA ATA AT
106479577 GGTGGCAATA
Statistics
Matches: 419, Mismatches: 121, Indels: 98
0.66 0.19 0.15
Matches are distributed among these distances:
2 51 0.12
3 327 0.78
4 37 0.09
5 3 0.01
6 1 0.00
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:106479770 original size:3 final size:3
Alignment explanation
Indices: 106479762--106479800 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
106479752 AAGTACAAGT
106479762 ATA ATA ATA ATA ATA ATA ATA AT- ATAA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
106479801 CACAACCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.82
4 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106482704 original size:51 final size:51
Alignment explanation
Indices: 106482644--106482748 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
106482634 ATGGCATGAC
106482644 ATGTGTAACTGTGGTTATTTTATCAGCCATACTAGTTTTTTAATGGTAAAA
1 ATGTGTAACTGTGGTTATTTTATCAGCCATACTAGTTTTTTAATGGTAAAA
106482695 ATGTGTAACTGTGGTTATTTTATCAGCCATACTAGTTTTTTAATGGTAAAA
1 ATGTGTAACTGTGGTTATTTTATCAGCCATACTAGTTTTTTAATGGTAAAA
106482746 ATG
1 ATG
106482749 AATGATTTCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (51 bp):
ATGTGTAACTGTGGTTATTTTATCAGCCATACTAGTTTTTTAATGGTAAAA
Found at i:106485375 original size:27 final size:28
Alignment explanation
Indices: 106485323--106485377 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
106485313 TTTTTGGAAC
*
106485323 TTAAAATAATTATAAAAAATACAAAATA
1 TTAAAATAATTATAAAAAATAAAAAATA
*
106485351 TTAAAA-ATTTAT-AAAAATCAAAAAATA
1 TTAAAATAATTATAAAAAAT-AAAAAATA
106485378 ATTTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 12 0.50
28 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
TTAAAATAATTATAAAAAATAAAAAATA
Found at i:106489342 original size:21 final size:21
Alignment explanation
Indices: 106489316--106489357 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
106489306 AATAAAAATA
*
106489316 ATATATATAAAAATTATTATT
1 ATATATATAAAAACTATTATT
*
106489337 ATATATATATAAACTATTATT
1 ATATATATAAAAACTATTATT
106489358 TAATTGTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATATAAAAACTATTATT
Found at i:106490105 original size:7 final size:7
Alignment explanation
Indices: 106490081--106490137 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
106490071 CTAACTGTTG
106490081 ACTAACT
1 ACTAACT
106490088 ACATCAACT
1 AC-T-AACT
106490097 ACTAACT
1 ACTAACT
106490104 ACTAACT
1 ACTAACT
**
106490111 GTTAACT
1 ACTAACT
106490118 ACATAACT
1 AC-TAACT
**
106490126 GTTAACT
1 ACTAACT
106490133 ACTAA
1 ACTAA
106490138 TTGTTACAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
7 26 0.67
8 7 0.18
9 6 0.15
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.30
Consensus pattern (7 bp):
ACTAACT
Found at i:106490132 original size:29 final size:30
Alignment explanation
Indices: 106490083--106490143 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
106490073 AACTGTTGAC
106490083 TAACTACATCAACTACTAACTACTAACTGT
1 TAACTACATCAACTACTAACTACTAACTGT
** *
106490113 TAACTACAT-AACTGTTAACTACTAATTGT
1 TAACTACATCAACTACTAACTACTAACTGT
106490142 TA
1 TA
106490144 CAACCGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (30 bp):
TAACTACATCAACTACTAACTACTAACTGT
Found at i:106490587 original size:16 final size:16
Alignment explanation
Indices: 106490554--106490587 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106490544 AACAACTGTT
* *
106490554 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
106490570 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
106490586 AA
1 AA
106490588 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:106493411 original size:21 final size:21
Alignment explanation
Indices: 106493385--106493425 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106493375 AGACGAGCAA
* *
106493385 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
106493406 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
106493426 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:106495364 original size:16 final size:16
Alignment explanation
Indices: 106495331--106495364 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106495321 GGAGATTGTT
* *
106495331 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
106495347 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
106495363 AA
1 AA
106495365 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:106500079 original size:15 final size:13
Alignment explanation
Indices: 106500047--106500086 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
106500037 CATAAACTAC
*
106500047 TAACTACTAAATT
1 TAACTACTAACTT
106500060 TAACTACTTAACTGT
1 TAACTAC-TAACT-T
106500075 TAACTACTAACT
1 TAACTACTAACT
106500087 ATTACAATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 9 0.38
15 8 0.33
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (13 bp):
TAACTACTAACTT
Found at i:106501137 original size:113 final size:113
Alignment explanation
Indices: 106500933--106501140 Score: 285
Period size: 113 Copynumber: 1.8 Consensus size: 113
106500923 AAGGGACTGA
* * * * *
106500933 AATTAAATTGTATATTTTTACGATAGTAAAAATGTAATTTTACCTTTTTAATAGATTATATCTTT
1 AATTAAATTGTATATTTTTACGATAGAAAAAATGCAATTTCACCTTTTTAATAAACTATATCTTT
* *
106500998 ATAAATTTTAAATGATTAACTCAAATTTTTATCACTTTTGGGAGCTAG
66 ATAAATTTTAAATGATTAAATAAAATTTTTATCACTTTTGGGAGCTAG
***
106501046 AATTAAATTGTATATTTTTTTTATAGAAAAAAATGCAATTTCA-CTATTTTAATAAACTATATCT
1 AATTAAATTGTATATTTTTACGATAG-AAAAAATGCAATTTCACCT-TTTTAATAAACTATATCT
*
106501110 TTAT-AATTTTTAATGATTAAATAAAATTTTT
64 TTATAAATTTTAAATGATTAAATAAAATTTTT
106501141 GTCGTTTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
113 49 0.60
114 33 0.40
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (113 bp):
AATTAAATTGTATATTTTTACGATAGAAAAAATGCAATTTCACCTTTTTAATAAACTATATCTTT
ATAAATTTTAAATGATTAAATAAAATTTTTATCACTTTTGGGAGCTAG
Found at i:106502372 original size:25 final size:23
Alignment explanation
Indices: 106502323--106502387 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
106502313 TTAAGATGAC
*
106502323 TATATAAAAAATTAATAAATAAA
1 TATATAAAAAATTAAAAAATAAA
* * *
106502346 TATATTAAATATTAAAATAATATA
1 TATATAAAAAATTAAAA-AATAAA
* *
106502370 -ATATAAATATTTAAAAAA
1 TATATAAAAAATTAAAAAA
106502388 AAACAATCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
22 2 0.06
23 26 0.79
24 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TATATAAAAAATTAAAAAATAAA
Found at i:106502379 original size:22 final size:22
Alignment explanation
Indices: 106502339--106502385 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 22
106502329 AAAAATTAAT
106502339 AAATAAATATATTAAATA-TTA
1 AAATAAATATATTAAATATTTA
106502360 AAAT-AATATAATATAAATATTTA
1 AAATAAATAT-AT-TAAATATTTA
106502383 AAA
1 AAA
106502386 AAAAACAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 6 0.26
23 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAAATATATTAAATATTTA
Found at i:106508314 original size:18 final size:17
Alignment explanation
Indices: 106508261--106508352 Score: 60
Period size: 18 Copynumber: 5.2 Consensus size: 17
106508251 AACCTTTATA
106508261 AGCTTGCA-CTTTGATG
1 AGCTTGCATCTTTGATG
* * * *
106508277 AGCTTGTAACTTGGGTTG
1 AGCTTGCATCTT-TGATG
106508295 AGCTTGCATCTTTGAATG
1 AGCTTGCATCTTTG-ATG
* **
106508313 AGCTCGTGTCTTTGAATG
1 AGCTTGCATCTTTG-ATG
* *
106508331 AGCTCGCAGCTTTCGATG
1 AGCTTGCATCTTT-GATG
106508349 AGCT
1 AGCT
106508353 CATAGTTGTA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
16 7 0.12
17 4 0.07
18 47 0.80
19 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (17 bp):
AGCTTGCATCTTTGATG
Found at i:106509006 original size:88 final size:88
Alignment explanation
Indices: 106508857--106509037 Score: 362
Period size: 88 Copynumber: 2.1 Consensus size: 88
106508847 ACCTATACCA
106508857 ATTAAAAGGTCTCTTTTTTCTCTCGAACAACATGAATTTGCAAGCCAAAATTTAAAAGAATTTCT
1 ATTAAAAGGTCTCTTTTTTCTCTCGAACAACATGAATTTGCAAGCCAAAATTTAAAAGAATTTCT
106508922 TCTCCAATCTCTAAAACCGTCAG
66 TCTCCAATCTCTAAAACCGTCAG
106508945 ATTAAAAGGTCTCTTTTTTCTCTCGAACAACATGAATTTGCAAGCCAAAATTTAAAAGAATTTCT
1 ATTAAAAGGTCTCTTTTTTCTCTCGAACAACATGAATTTGCAAGCCAAAATTTAAAAGAATTTCT
106509010 TCTCCAATCTCTAAAACCGTCAG
66 TCTCCAATCTCTAAAACCGTCAG
106509033 ATTAA
1 ATTAA
106509038 CTTGGACCTA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (88 bp):
ATTAAAAGGTCTCTTTTTTCTCTCGAACAACATGAATTTGCAAGCCAAAATTTAAAAGAATTTCT
TCTCCAATCTCTAAAACCGTCAG
Found at i:106511315 original size:41 final size:41
Alignment explanation
Indices: 106511258--106511341 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
106511248 GTGTACAAAT
*
106511258 AACGTAACAATTAATTTATATAAGACAGATTTTACAGAAAC
1 AACGTAACAATTAATTTATATAAGACAGATTTTACAAAAAC
*
106511299 AACGTAACCATTAATTTATATAAGACAGATTTTACAAAAAC
1 AACGTAACAATTAATTTATATAAGACAGATTTTACAAAAAC
106511340 AA
1 AA
106511342 AATCATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (41 bp):
AACGTAACAATTAATTTATATAAGACAGATTTTACAAAAAC
Found at i:106512412 original size:26 final size:26
Alignment explanation
Indices: 106512383--106512434 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
106512373 AACATAAAGA
106512383 TTGAACCATAACAAACTAGTTTGACT
1 TTGAACCATAACAAACTAGTTTGACT
106512409 TTGAACCATAACAAACTAGTTTGACT
1 TTGAACCATAACAAACTAGTTTGACT
106512435 AGACTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (26 bp):
TTGAACCATAACAAACTAGTTTGACT
Found at i:106536702 original size:129 final size:135
Alignment explanation
Indices: 106536563--106536826 Score: 353
Period size: 129 Copynumber: 2.0 Consensus size: 135
106536553 CACTTTTTCC
* ** *
106536563 CATTGGGTTCGTTTCATTTTCGTGTTTCAATGGTGTTTTCTAAAGGATGCTTGAATCTTGATTTT
1 CATTGAGTTCGTTTCATTTTCGTGTTTCAATAATGTTTTCTAAAGGATACTTGAATCTTGATTTT
*
106536628 ATA-AATC-TTTT-TTT-TT-AAAA-GCTAGAAAATTGGATATTTAATGGA-AAATGTAAGCATT
66 ATAGAATCTTTTTCTTTCTTAAAAAGGCTAGAAAATTGGATATTTAATGGAGAAAT-TAACCATT
106536686 TTTTGG
130 TTTTGG
* *
106536692 CATTGAGTTCGTTTCATTTTCGTGTTTTAATAATGTTTTCTAAATGATACTTGAATCTTGATTTT
1 CATTGAGTTCGTTTCATTTTCGTGTTTCAATAATGTTTTCTAAAGGATACTTGAATCTTGATTTT
** * *
106536757 ATAGTTTCTTTTTCTTTCTTGAAAAAAGGGTAGAAAATTGGATATTTAATGGAGAACTTAACCAT
66 ATAGAATCTTTTTCTTTCTT--AAAAAGGCTAGAAAATTGGATATTTAATGGAGAAATTAACCAT
106536822 TTTTT
129 TTTTT
106536827 TTATAATGGA
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
129 62 0.54
130 2 0.02
131 4 0.03
132 3 0.03
133 2 0.02
136 4 0.03
137 35 0.30
138 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (135 bp):
CATTGAGTTCGTTTCATTTTCGTGTTTCAATAATGTTTTCTAAAGGATACTTGAATCTTGATTTT
ATAGAATCTTTTTCTTTCTTAAAAAGGCTAGAAAATTGGATATTTAATGGAGAAATTAACCATTT
TTTGG
Found at i:106546482 original size:31 final size:31
Alignment explanation
Indices: 106546444--106546504 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
106546434 ATGTCACAAC
106546444 AGGGACTAAAATTGACCAATTCAAAAAGTAT
1 AGGGACTAAAATTGACCAATTCAAAAAGTAT
106546475 AGGGACTAAAATTGACCAATTCAAAAAGTA
1 AGGGACTAAAATTGACCAATTCAAAAAGTA
106546505 CAAGTACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (31 bp):
AGGGACTAAAATTGACCAATTCAAAAAGTAT
Found at i:106546514 original size:31 final size:31
Alignment explanation
Indices: 106546446--106546516 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
106546436 GTCACAACAG
* *
106546446 GGACTAAAATTGACCAATTCAAAAAGTATAG
1 GGACTAAAATTGACCAATTCAAAAAGTACAA
106546477 GGACTAAAATTGACCAATTCAAAAAGTACAA
1 GGACTAAAATTGACCAATTCAAAAAGTACAA
*
106546508 GTACTAAAA
1 GGACTAAAA
106546517 ATGATCAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (31 bp):
GGACTAAAATTGACCAATTCAAAAAGTACAA
Found at i:106546542 original size:29 final size:29
Alignment explanation
Indices: 106546446--106546544 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 29
106546436 GTCACAACAG
* * *
106546446 GGACTAAAATTGACCAATTCAAAAAGTATAG
1 GGACTAAAAATGACAAATT--AAAAGTATAA
* * *
106546477 GGACTAAAATTGACCAATTCAAAAAGTACAA
1 GGACTAAAAATGACAAATT--AAAAGTATAA
*
106546508 GTACTAAAAATGATCAAATT-AAAGTATAA
1 GGACTAAAAATGA-CAAATTAAAAGTATAA
106546537 GGACTAAA
1 GGACTAAA
106546545 CCCATAACTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.25
31 40 0.67
32 5 0.08
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (29 bp):
GGACTAAAAATGACAAATTAAAAGTATAA
Found at i:106547738 original size:16 final size:17
Alignment explanation
Indices: 106547713--106547763 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
106547703 AACTTTATCC
106547713 TTTTTGTTTG-TTTTTT
1 TTTTTGTTTGCTTTTTT
* *
106547729 TTTTTTTTTGCTTTTTGGAA
1 TTTTTGTTTGCTTTTT---T
106547749 TTTTTGTTTGCTTTT
1 TTTTTGTTTGCTTTT
106547764 ATTATGGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 9 0.32
17 5 0.18
20 14 0.50
ACGTcount: A:0.04, C:0.04, G:0.14, T:0.78
Consensus pattern (17 bp):
TTTTTGTTTGCTTTTTT
Found at i:106548974 original size:24 final size:24
Alignment explanation
Indices: 106548942--106548992 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
106548932 TTTATCATCA
106548942 AGTGAGTATAATGATAAGATATAG
1 AGTGAGTATAATGATAAGATATAG
106548966 AGTGAGTATAATGATAAGATATAG
1 AGTGAGTATAATGATAAGATATAG
106548990 AGT
1 AGT
106548993 TAAATTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.29
Consensus pattern (24 bp):
AGTGAGTATAATGATAAGATATAG
Found at i:106550437 original size:20 final size:19
Alignment explanation
Indices: 106550394--106550444 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
106550384 ACTATGATAC
*
106550394 AAATTTTAAATTTATCGAT
1 AAATTTTAAATATATCGAT
106550413 AAATTTTAAATAT-TCGAATT
1 AAATTTTAAATATATCG-A-T
106550433 AAATTTTTAAAT
1 AAA-TTTTAAAT
106550445 GACCATGCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 13 0.46
20 4 0.14
21 8 0.29
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (19 bp):
AAATTTTAAATATATCGAT
Done.