Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 58 of 65
Found at i:11468168 original size:42 final size:42
Alignment explanation
Indices: 11468040--11468168 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
11468030 GGGCCATCAA
*
11468040 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTG
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
* * * * ** *
11468082 TAAGCCTTTAGAGCAAGATGA-TAAGTCCTTCAGGCCATCAG
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
* *
11468123 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTG
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
11468165 TAAG
1 TAAG
11468169 CCTTCACCAA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 34 0.49
42 36 0.51
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
Found at i:11469083 original size:218 final size:217
Alignment explanation
Indices: 11468705--11469144 Score: 817
Period size: 218 Copynumber: 2.0 Consensus size: 217
11468695 GAAGATGCCA
11468705 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
11468770 TAAGAAGATGAAAATTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
66 TAAGAAGATGAAAATTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
11468835 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAAATCCTTCAGGTCATCTGTAAGCCTTTAG
131 CGGGCCATCAATAAGTCTTTCGAGCATGATGATT-AAATCCTTCAGGTCATCTGTAAGCCTTTAG
*
11468900 AGCAAGATGATAAGTCTTTCAGG
195 AGCAAGATGATAAGTCCTTCAGG
*
11468923 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAATGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
* * *
11468988 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAATTTTCATAATTTATAAGTCCCT
66 TAAGAAGATGAAAATTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
*
11469053 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTGTAAGCCTTTAGA
131 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTAGA
11469118 GCAAGATGATAAGTCCTTCAGG
196 GCAAGATGATAAGTCCTTCAGG
11469140 CCATC
1 CCATC
11469145 AGTAAGTCTT
Statistics
Matches: 216, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
217 56 0.26
218 160 0.74
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (217 bp):
CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
TAAGAAGATGAAAATTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTAGA
GCAAGATGATAAGTCCTTCAGG
Found at i:11469150 original size:41 final size:42
Alignment explanation
Indices: 11469055--11469178 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 42
11469045 AAGTCCCTCG
*
11469055 GGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCA
1 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA
** * * * * *
11469097 GGTTATCTGTAAGCCTTTAGAGCAAGATGA-TAAGTCCTTCA
1 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA
11469138 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
1 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
11469179 GGGTAATTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 34 0.52
42 32 0.48
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (42 bp):
GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA
Found at i:11469169 original size:83 final size:83
Alignment explanation
Indices: 11469043--11469196 Score: 254
Period size: 83 Copynumber: 1.9 Consensus size: 83
11469033 TTCATAATTT
* *
11469043 ATAAGTCCCTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTGTA
1 ATAAGTCCCTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
11469108 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* * * *
11469126 ATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTA
1 ATAAGTCCCTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
11469191 AGCCTT
66 AGCCTT
11469197 CACCAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
ATAAGTCCCTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:11469192 original size:42 final size:42
Alignment explanation
Indices: 11469064--11469192 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
11469054 GGGCCATCAA
*
11469064 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTG
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
* * * * ** *
11469106 TAAGCCTTTAGAGCAAGATGA-TAAGTCCTTCAGGCCATCAG
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
* *
11469147 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTG
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
11469189 TAAG
1 TAAG
11469193 CCTTCACCAA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 34 0.49
42 36 0.51
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTG
Found at i:11470107 original size:218 final size:217
Alignment explanation
Indices: 11469729--11470168 Score: 817
Period size: 218 Copynumber: 2.0 Consensus size: 217
11469719 GAAGATGCCA
11469729 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
11469794 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
66 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
11469859 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAAATCCTTCAGGTCATCTGTAAGCCTTTAG
131 CGGGCCATCAATAAGTCTTTCGAGCATGATGATT-AAATCCTTCAGGTCATCTGTAAGCCTTTAG
*
11469924 AGCAAGATGATAAGTCTTTCAGG
195 AGCAAGATGATAAGTCCTTCAGG
*
11469947 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAATGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
* *
11470012 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAATTTTCATAATTTATAAGTCCCT
66 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
*
11470077 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTGTAAGCCTTTAGA
131 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTAGA
*
11470142 GCAAGATGATAAGTCCTTCGGG
196 GCAAGATGATAAGTCCTTCAGG
11470164 CCATC
1 CCATC
11470169 AGTAAGTCTT
Statistics
Matches: 216, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
217 55 0.25
218 161 0.75
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (217 bp):
CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTAGA
GCAAGATGATAAGTCCTTCAGG
Found at i:11470174 original size:41 final size:42
Alignment explanation
Indices: 11470076--11470205 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
11470066 TATAAGTCCC
*
11470076 TCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCT
1 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCT
* ** * * * * *
11470118 TCAGGTTATCTGTAAGCCTTTAGAGCAAGATGA-TAAGTCCT
1 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCT
11470159 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCT
1 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCT
11470201 TCGGG
1 TCGGG
11470206 TAATTTGTAA
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
41 33 0.47
42 37 0.53
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (42 bp):
TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCT
Found at i:11470193 original size:83 final size:83
Alignment explanation
Indices: 11470067--11470220 Score: 263
Period size: 83 Copynumber: 1.9 Consensus size: 83
11470057 TTCATAATTT
*
11470067 ATAAGTCCCTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTGTA
1 ATAAGTCCCTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
11470132 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* * * *
11470150 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTA
1 ATAAGTCCCTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
11470215 AGCCTT
66 AGCCTT
11470221 CACCAAAGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
ATAAGTCCCTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:11476257 original size:36 final size:35
Alignment explanation
Indices: 11476162--11476271 Score: 125
Period size: 36 Copynumber: 3.2 Consensus size: 35
11476152 CGTACGACGA
* *
11476162 AAGAAGAAGGGTTAACTGCCACGTCAGC--AGAAG
1 AAGAAGAAGGGTCAACTGCCACGTCAGCAAAAAAG
** *
11476195 AAGAAGAAGGGTCAACCACCATGTCAGCAAAATAAG
1 AAGAAGAAGGGTCAACTGCCACGTCAGCAAAA-AAG
** *
11476231 AAGAAGAAGGGTCAACTGTTACGTCAGCAAAAATG
1 AAGAAGAAGGGTCAACTGCCACGTCAGCAAAAAAG
11476266 AAGAAG
1 AAGAAG
11476272 GTTAATAGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 24 0.38
35 9 0.14
36 30 0.48
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (35 bp):
AAGAAGAAGGGTCAACTGCCACGTCAGCAAAAAAG
Found at i:11490320 original size:2 final size:2
Alignment explanation
Indices: 11490313--11490359 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
11490303 GAAAATTGTT
11490313 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11490355 TC TC T
1 TC TC T
11490360 GGGCTTTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11490648 original size:60 final size:60
Alignment explanation
Indices: 11490578--11490695 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
11490568 TGTACCACAC
* * * * *
11490578 ATCCTTAAACTATGAGTATCATTTTAAATTGGTCCTTAAACTTTTGAATATTCT-AATTTT
1 ATCCTCAAACTATGACTATCATTTTAAATTGATCC-CAAACTTTTGAACATTCTGAATTTT
*
11490638 ATCCTCAAACTATGACTCTCATTTTAAATTGATCCCAAACTTTTGAACATTCTGAATT
1 ATCCTCAAACTATGACTATCATTTTAAATTGATCCCAAACTTTTGAACATTCTGAATT
11490696 GATTCCCTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 16 0.31
60 35 0.69
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (60 bp):
ATCCTCAAACTATGACTATCATTTTAAATTGATCCCAAACTTTTGAACATTCTGAATTTT
Found at i:11491291 original size:19 final size:20
Alignment explanation
Indices: 11491267--11491319 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
11491257 ACATATCTAT
*
11491267 ATATTATTTTTTCAAT-TAA
1 ATATTATTTTTTCAATAAAA
11491286 ATATTATTTTTATTCAATAAAA
1 ATATTA-TTTT-TTCAATAAAA
*
11491308 ATAATATTTTTT
1 ATATTATTTTTT
11491320 ATTATTTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 10 0.34
22 7 0.24
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTATTTTTTCAATAAAA
Found at i:11491301 original size:21 final size:21
Alignment explanation
Indices: 11491267--11491319 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
11491257 ACATATCTAT
*
11491267 ATATTA-TTTTTTCAAT-TAA
1 ATATTATTTTTTTCAATAAAA
11491286 ATATTATTTTTATTCAATAAAA
1 ATATTATTTTT-TTCAATAAAA
*
11491308 ATAATATTTTTT
1 ATATTATTTTTT
11491320 ATTATTTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 7 0.24
22 12 0.41
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTATTTTTTTCAATAAAA
Found at i:11491709 original size:61 final size:61
Alignment explanation
Indices: 11491644--11491831 Score: 143
Period size: 61 Copynumber: 3.1 Consensus size: 61
11491634 TTCAAAATTA
11491644 TACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCGTTTAG
1 TACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCGTTTAG
* * * * ** * ** * **** **
11491705 TACCTCAACTATCA-ATTTTGGTTCGTTTTAGTACATAAACTTTTAATTTTTTCAA---AATTA-
1 TACCTAAAGT-TTAGTTTTTATTTCATTTTAGTAC--CCACTATTAAAAACTT-AACGCGTTTAG
*
11491765 TACCTAAAGTTTAGTTTTTTTTTTCATTTTAGTACCCACTATTAAAAACTTAACGCGTTTAG
1 TACCTAAAGTTTAG-TTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCGTTTAG
11491827 TACCT
1 TACCT
11491832 CAACTATCAA
Statistics
Matches: 85, Mismatches: 32, Indels: 19
0.62 0.24 0.14
Matches are distributed among these distances:
58 2 0.02
59 11 0.13
60 8 0.09
61 46 0.54
62 7 0.08
63 9 0.11
64 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (61 bp):
TACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCGTTTAG
Found at i:11491779 original size:121 final size:122
Alignment explanation
Indices: 11491580--11491882 Score: 497
Period size: 122 Copynumber: 2.5 Consensus size: 122
11491570 AAATTACGTA
* * * * *
11491580 TTTAGTACCTAAACTATTAATTTTAGTT--TATTAGTACCTAAACTTTTAATTTTTTTCAAAATT
1 TTTAGTACCTCAACTATCAATTTTGGTTCGTTTTAGTACATAAACTTTTAA-TTTTTTCAAAATT
11491643 ATACCTAAAGTTTAG-TTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCG
65 ATACCTAAAGTTTAGTTTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCG
11491700 TTTAGTACCTCAACTATCAATTTTGGTTCGTTTTAGTACATAAACTTTTAATTTTTTCAAAATTA
1 TTTAGTACCTCAACTATCAATTTTGGTTCGTTTTAGTACATAAACTTTTAATTTTTTCAAAATTA
*
11491765 TACCTAAAGTTTAGTTTTTTTTTTCATTTTAGTACCCACTATTAAAAACTTAACGCG
66 TACCTAAAGTTTAGTTTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCG
* *
11491822 TTTAGTACCTCAACTATCAATTTTGGTTCGTTTTAGTACATAAACTTTCAAATTTTT-AAAA
1 TTTAGTACCTCAACTATCAATTTTGGTTCGTTTTAGTACATAAACTTTTAATTTTTTCAAAA
11491883 GTTAACGTTA
Statistics
Matches: 172, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
120 25 0.15
121 32 0.19
122 115 0.67
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.46
Consensus pattern (122 bp):
TTTAGTACCTCAACTATCAATTTTGGTTCGTTTTAGTACATAAACTTTTAATTTTTTCAAAATTA
TACCTAAAGTTTAGTTTTTTATTTCATTTTAGTACCCACTATTAAAAACTTAACGCG
Found at i:11491857 original size:61 final size:61
Alignment explanation
Indices: 11491669--11491860 Score: 160
Period size: 61 Copynumber: 3.1 Consensus size: 61
11491659 TTTTATTTCA
11491669 TTTTAGTACCCACTATTAAAAACTTAACGCGTTTAGTACCTCAACTATCAATTTTGGTTCG
1 TTTTAGTACCCACTATTAAAAACTTAACGCGTTTAGTACCTCAACTATCAATTTTGGTTCG
** * **** ** * * * * **
11491730 TTTTAGTACATAAACTTTTAATTTTTTCAA---AATTA-TACCTAAAGT-TTAGTTTTTTTTTTC
1 TTTTAGTAC--CCACTATTAAAAACTT-AACGCGTTTAGTACCTCAACTATCA--ATTTTGGTTC
*
11491790 A
61 G
11491791 TTTTAGTACCCACTATTAAAAACTTAACGCGTTTAGTACCTCAACTATCAATTTTGGTTCG
1 TTTTAGTACCCACTATTAAAAACTTAACGCGTTTAGTACCTCAACTATCAATTTTGGTTCG
11491852 TTTTAGTAC
1 TTTTAGTAC
11491861 ATAAACTTTC
Statistics
Matches: 89, Mismatches: 32, Indels: 20
0.63 0.23 0.14
Matches are distributed among these distances:
58 2 0.02
59 11 0.12
60 8 0.09
61 47 0.53
62 8 0.09
63 11 0.12
64 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (61 bp):
TTTTAGTACCCACTATTAAAAACTTAACGCGTTTAGTACCTCAACTATCAATTTTGGTTCG
Found at i:11494658 original size:24 final size:25
Alignment explanation
Indices: 11494621--11494669 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
11494611 TTTTTAGGTT
11494621 AGAAGAATGAATTTATAAAATTTTA
1 AGAAGAATGAATTTATAAAATTTTA
*
11494646 AGAA-AATTAATTTATAAAATTTTA
1 AGAAGAATGAATTTATAAAATTTTA
11494670 GGGGACGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (25 bp):
AGAAGAATGAATTTATAAAATTTTA
Found at i:11495311 original size:364 final size:364
Alignment explanation
Indices: 11494874--11495606 Score: 1430
Period size: 364 Copynumber: 2.0 Consensus size: 364
11494864 GGCAAACAGC
*
11494874 TGATAGCTTGTAGTTTATTCCAGTAGTTGATTTGATCAACTAATTTGATTAATTGTTTATATAGA
1 TGATAGCTTGTAGTTTATTACAGTAGTTGATTTGATCAACTAATTTGATTAATTGTTTATATAGA
11494939 AGTGTTTGGTAAAATTTAGCTGATATTTGATATGGGTAAAATGACAAATAAGGGTAAGATACATT
66 AGTGTTTGGTAAAATTTAGCTGATATTTGATATGGGTAAAATGACAAATAAGGGTAAGATACATT
11495004 TAGTTGTTAATTACATATATGTTTTATAATACTTTAGTCTTTATTGGGGTGATTATTCGGATTAA
131 TAGTTGTTAATTACATATATGTTTTATAATACTTTAGTCTTTATTGGGGTGATTATTCGGATTAA
11495069 ATGCTTTTGACAATGAATTAAAAATTCCTTAATAAAATTAGTGAATATTTTTGAAAATTTTGAAT
196 ATGCTTTTGACAATGAATTAAAAATTCCTTAATAAAATTAGTGAATATTTTTGAAAATTTTGAAT
11495134 ATATTTTTTAAATTTAAAATTTACGAATATTAACCTTGTGTGATTGATTCATACTATTAACTTTG
261 ATATTTTTTAAATTTAAAATTTACGAATATTAACCTTGTGTGATTGATTCATACTATTAACTTTG
11495199 TATAAAATATCAACAGTATATTTTTTTACTTTCATAATT
326 TATAAAATATCAACAGTATATTTTTTTACTTTCATAATT
11495238 TGATAGCTTGTAGTTTATTACAGTAGTTGATTTGATCAACTAATTTGATTAATTGTTTATATAGA
1 TGATAGCTTGTAGTTTATTACAGTAGTTGATTTGATCAACTAATTTGATTAATTGTTTATATAGA
*
11495303 AGTGTTTGGTAAAATTTAGCTGATATTTGATATGGGTAAAATGACAAATAAGGGTATGATACATT
66 AGTGTTTGGTAAAATTTAGCTGATATTTGATATGGGTAAAATGACAAATAAGGGTAAGATACATT
11495368 TAGTTGTTAATTACATATATGTTTTATAATACTTTAGTCTTTATTGGGGTGATTATTCGGATTAA
131 TAGTTGTTAATTACATATATGTTTTATAATACTTTAGTCTTTATTGGGGTGATTATTCGGATTAA
* *
11495433 ATGCTTTTTACAATGAATTAAAAATTCTTTAATAAAATTAGTGAATATTTTTGAAAATTTTGAAT
196 ATGCTTTTGACAATGAATTAAAAATTCCTTAATAAAATTAGTGAATATTTTTGAAAATTTTGAAT
11495498 ATATTTTTTAAATTTAAAATTTACGAATATTAACCTTGTGTGATTGATTCATACTATTAACTTTG
261 ATATTTTTTAAATTTAAAATTTACGAATATTAACCTTGTGTGATTGATTCATACTATTAACTTTG
11495563 TATAAAATATCAACAGTATATTTTTTTACTTTCATAATT
326 TATAAAATATCAACAGTATATTTTTTTACTTTCATAATT
11495602 TGATA
1 TGATA
11495607 TATTTTCTTA
Statistics
Matches: 365, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
364 365 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.45
Consensus pattern (364 bp):
TGATAGCTTGTAGTTTATTACAGTAGTTGATTTGATCAACTAATTTGATTAATTGTTTATATAGA
AGTGTTTGGTAAAATTTAGCTGATATTTGATATGGGTAAAATGACAAATAAGGGTAAGATACATT
TAGTTGTTAATTACATATATGTTTTATAATACTTTAGTCTTTATTGGGGTGATTATTCGGATTAA
ATGCTTTTGACAATGAATTAAAAATTCCTTAATAAAATTAGTGAATATTTTTGAAAATTTTGAAT
ATATTTTTTAAATTTAAAATTTACGAATATTAACCTTGTGTGATTGATTCATACTATTAACTTTG
TATAAAATATCAACAGTATATTTTTTTACTTTCATAATT
Found at i:11499683 original size:22 final size:21
Alignment explanation
Indices: 11499658--11499698 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11499648 TCAACGGTCG
*
11499658 GGTCGGGTCGGGTTGGGTCAAC
1 GGTCGGGTC-GGTCGGGTCAAC
11499680 GGTCGGGTCGGTCGGGTCA
1 GGTCGGGTCGGTCGGGTCA
11499699 GACCGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.07, C:0.20, G:0.51, T:0.22
Consensus pattern (21 bp):
GGTCGGGTCGGTCGGGTCAAC
Found at i:11499740 original size:19 final size:19
Alignment explanation
Indices: 11499694--11499740 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
11499684 GGGTCGGTCG
11499694 GGTCAG-ACCGGTCAAACC
1 GGTCAGAACCGGTCAAACC
11499712 GGTC-GAAACCGGTCAAACC
1 GGTCAG-AACCGGTCAAACC
11499731 GGTCAGAACC
1 GGTCAGAACC
11499741 TGTTGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 4 0.15
19 20 0.77
20 1 0.04
ACGTcount: A:0.30, C:0.32, G:0.28, T:0.11
Consensus pattern (19 bp):
GGTCAGAACCGGTCAAACC
Found at i:11499764 original size:9 final size:9
Alignment explanation
Indices: 11499694--11499763 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
11499684 GGGTCGGTCG
*
11499694 GGTCAGACC
1 GGTCAAACC
11499703 GGTCAAACC
1 GGTCAAACC
11499712 GGTCGAAACC
1 GGTC-AAACC
11499722 GGTCAAACC
1 GGTCAAACC
11499731 GGTCAGAACC
1 GGTCA-AACC
* *
11499741 TGTTGAAAACC
1 -GGT-CAAACC
*
11499752 GGTTAAACC
1 GGTCAAACC
11499761 GGT
1 GGT
11499764 TTCCAGCAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 30 0.58
10 15 0.29
11 6 0.12
12 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:11506959 original size:22 final size:21
Alignment explanation
Indices: 11506933--11506998 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 21
11506923 GAAAGTCAAC
*
11506933 GGTCAACGGTCAGGTCAGGTCG
1 GGTCAACGGTCGGGTC-GGTCG
11506955 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTC-GGTCG
11506977 GGTCAACGGTCGGGTCGGTCG
1 GGTCAACGGTCGGGTCGGTCG
11506998 G
1 G
11506999 TCGGGTCAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
21 6 0.14
22 36 0.86
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.18
Consensus pattern (21 bp):
GGTCAACGGTCGGGTCGGTCG
Found at i:11507028 original size:19 final size:19
Alignment explanation
Indices: 11507004--11507149 Score: 98
Period size: 19 Copynumber: 8.1 Consensus size: 19
11506994 GTCGGTCGGG
11507004 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
11507023 TCAGACCGGTCAAACTGGT
1 TCAGACCGGTCAAACCGGT
*
11507042 TC-GAACCAGTC-AA-----
1 TCAG-ACCGGTCAAACCGGT
11507055 --A-ACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
11507071 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
11507090 TCAAACCGGTCGAAACTGG-
1 TCAGACCGGTC-AAACCGGT
* *
11507109 TCAAACCGGTCAGAACCAGT
1 TCAGACCGGTCA-AACCGGT
* * *
11507129 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
11507149 T
1 T
11507150 TCCAGCAGCC
Statistics
Matches: 102, Mismatches: 10, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
10 6 0.06
11 2 0.02
18 5 0.05
19 66 0.65
20 14 0.14
21 9 0.09
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:11507059 original size:29 final size:28
Alignment explanation
Indices: 11507027--11507148 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 28
11507017 ACCGGTTCAG
* *
11507027 ACCGGTCAAACTGGTTCGAACCAGTCAAA
1 ACCGGTCAAACCGGTTCGAACCGGTC-AA
11507056 ACCGGTCAAACCGGTTC-AGACCGGTCAA
1 ACCGGTCAAACCGGTTCGA-ACCGGTCAA
*
11507084 ACCGGTTCAAACCGG-TCGAAACTGGTCAA
1 ACCGG-TCAAACCGGTTCG-AACCGGTCAA
* *
11507113 ACCGGTCAGAACCAGTT-GAAAACCGGTTAA
1 ACCGGTCA-AACCGGTTCG--AACCGGTCAA
11507143 ACCGGT
1 ACCGGT
11507149 TTCCAGCAGC
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
28 13 0.16
29 50 0.62
30 17 0.21
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (28 bp):
ACCGGTCAAACCGGTTCGAACCGGTCAA
Found at i:11507061 original size:48 final size:48
Alignment explanation
Indices: 11507008--11507122 Score: 178
Period size: 48 Copynumber: 2.4 Consensus size: 48
11506998 GTCGGGTCAG
* *
11507008 ACCGGTCAAACCGGTTCAGACCGGTCAAACTGGTTCGAACCAGTCAAA
1 ACCGGTCAAACCGGTTCAGACCGGTCAAACCGGTTCAAACCAGTCAAA
* *
11507056 ACCGGTCAAACCGGTTCAGACCGGTCAAACCGGTTCAAACCGGTCGAA
1 ACCGGTCAAACCGGTTCAGACCGGTCAAACCGGTTCAAACCAGTCAAA
*
11507104 ACTGGTCAAACCGG-TCAGA
1 ACCGGTCAAACCGGTTCAGA
11507123 ACCAGTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
47 5 0.08
48 57 0.92
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (48 bp):
ACCGGTCAAACCGGTTCAGACCGGTCAAACCGGTTCAAACCAGTCAAA
Found at i:11508753 original size:43 final size:43
Alignment explanation
Indices: 11508706--11508831 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
11508696 AAAAATGCCG
* *
11508706 CAATATGTGTTGATATTTAGCGGCATTTGTCCT-ACAAACGCCA
1 CAATAGGTGTTGAAATTTAGCGGCATTT-TCCTCACAAACGCCA
** * * * *
11508749 CAATAGGTGTTGAGGTTTAGCGGCGTTTTTCTCACAAATGCCG
1 CAATAGGTGTTGAAATTTAGCGGCATTTTCCTCACAAACGCCA
* * * * *
11508792 TAATAGGTGTTGAAATTTAGCGACGTTTTCCCCTCAAACG
1 CAATAGGTGTTGAAATTTAGCGGCATTTTCCTCACAAACG
11508832 TCGTAAAATG
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 3 0.04
43 64 0.96
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (43 bp):
CAATAGGTGTTGAAATTTAGCGGCATTTTCCTCACAAACGCCA
Found at i:11508964 original size:44 final size:43
Alignment explanation
Indices: 11508900--11509012 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
11508890 TTTCGCTGTG
* * * *
11508900 TTTTTTGGATGCAAACGCCGCTAAAGGTCTGGTATATAGCGGCA
1 TTTTTT-GATACAAACGCCGCTAAAGGTATAGTATATAGCAGCA
* * * * *
11508944 TTTTTATGATACAAATGCCGCAAAATGTATAGTATATAGCATCG
1 TTTTT-TGATACAAACGCCGCTAAAGGTATAGTATATAGCAGCA
*
11508988 TTTTTTGTTACAAACGCCGCTAAAG
1 TTTTTTGATACAAACGCCGCTAAAG
11509013 AACACAGAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
43 16 0.29
44 38 0.69
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (43 bp):
TTTTTTGATACAAACGCCGCTAAAGGTATAGTATATAGCAGCA
Found at i:11509472 original size:21 final size:21
Alignment explanation
Indices: 11509333--11509469 Score: 157
Period size: 21 Copynumber: 6.5 Consensus size: 21
11509323 ACTGATATGT
* *
11509333 TGCTTCACTCTGTGCTGCCAC
1 TGCTTCTCTCTGTGCTGCCGC
*
11509354 TGCTTCTCTTTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
*
11509375 TGCTTCTCTTTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
* *
11509396 TGCTTCTCTTTGTACTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
* ** *
11509417 TGCTTCTCTCTGTGTTATCGT
1 TGCTTCTCTCTGTGCTGCCGC
* *
11509438 TGCTTCTCTCTCTGCTTCCGC
1 TGCTTCTCTCTGTGCTGCCGC
*
11509459 TGCTGCTCTCT
1 TGCTTCTCTCT
11509470 CTGATTCCCT
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 100 1.00
ACGTcount: A:0.03, C:0.34, G:0.20, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:11509483 original size:21 final size:22
Alignment explanation
Indices: 11509437--11509483 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
11509427 TGTGTTATCG
* *
11509437 TTGCTTCTCTCTCTGCTTCCGC
1 TTGCTGCTCTCTCTGATTCCGC
11509459 -TGCTGCTCTCTCTGATTCC-C
1 TTGCTGCTCTCTCTGATTCCGC
11509479 TTGCT
1 TTGCT
11509484 TCATTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.02, C:0.38, G:0.15, T:0.45
Consensus pattern (22 bp):
TTGCTGCTCTCTCTGATTCCGC
Found at i:11517893 original size:41 final size:40
Alignment explanation
Indices: 11517841--11517924 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
11517831 TTTGTAAACC
* * *
11517841 AAACGCCACTACTTGCCAATTCTATTA-CGGCGTTTACTATA
1 AAACACCACTACTGGCCAACTCTA-TAGCGGCGTTTA-TATA
**
11517882 AAACACCACTACTGGCTTACTCTATAGCGGCGTTTATATA
1 AAACACCACTACTGGCCAACTCTATAGCGGCGTTTATATA
11517922 AAA
1 AAA
11517925 AAACGCCGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 9 0.24
41 28 0.76
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (40 bp):
AAACACCACTACTGGCCAACTCTATAGCGGCGTTTATATA
Found at i:11519385 original size:22 final size:22
Alignment explanation
Indices: 11519355--11519403 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11519345 CATGTTTTCA
*
11519355 AAAGCTATTCTTTTCCTATTCG
1 AAAGCTATTATTTTCCTATTCG
* * *
11519377 AAAGTTATTATTTTTCTATTTG
1 AAAGCTATTATTTTCCTATTCG
11519399 AAAGC
1 AAAGC
11519404 AGAAAAATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (22 bp):
AAAGCTATTATTTTCCTATTCG
Found at i:11519986 original size:82 final size:83
Alignment explanation
Indices: 11519821--11520054 Score: 260
Period size: 83 Copynumber: 2.8 Consensus size: 83
11519811 CATTTTTTGC
* * * * * *
11519821 ACAAACACCACTAGAAACAACCCTATTGCGGCATTTGTTTGATAAACGCCGCTAAATTACTTCTC
1 ACAAACGCCACTATAAACAACCCTATTGCGGCGTTTGTAT-AAAAACGCCGCTAAATTACTACTC
11519886 TA-TAGCGTCGTTTGTTGG
65 TATTAGCGTCGTTTGTTGG
*
11519904 ACAAACGCCACTATAAACAACCCTGTTGCGGCGTTTGTATAAAAACGCCGCTAAATTACTACTCT
1 ACAAACGCCACTATAAACAACCCTATTGCGGCGTTTGTATAAAAACGCCGCTAAATTACTACTCT
11519969 ATTA-CAGT-GTTTGTTGG
66 ATTAGC-GTCGTTTGTTGG
* * * * * * * * *
11519986 AAAAACGTCATTATAAACGACCCTATTCCGACGTTTG-AGCTACAAACGCCGCTATATTACCACT
1 ACAAACGCCACTATAAACAACCCTATTGCGGCGTTTGTA--TAAAAACGCCGCTAAATTACTACT
11520050 CTATT
64 CTATT
11520055 GCAAAGTTTG
Statistics
Matches: 130, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
81 1 0.01
82 64 0.49
83 65 0.50
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (83 bp):
ACAAACGCCACTATAAACAACCCTATTGCGGCGTTTGTATAAAAACGCCGCTAAATTACTACTCT
ATTAGCGTCGTTTGTTGG
Found at i:11521184 original size:24 final size:24
Alignment explanation
Indices: 11521152--11521198 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
11521142 TCCCAAAATA
11521152 AAAAATTAAAATTAAAAAAATTAG
1 AAAAATTAAAATTAAAAAAATTAG
*
11521176 AAAAATTAAAATTAAAATAATTA
1 AAAAATTAAAATTAAAAAAATTA
11521199 TTTAATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATTAAAATTAAAAAAATTAG
Found at i:11521186 original size:15 final size:15
Alignment explanation
Indices: 11521153--11521198 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
11521143 CCCAAAATAA
*
11521153 AAAATTAAAATTAA-A
1 AAAATTAAAA-TAATT
11521168 AAAATTAGAAA-AATT
1 AAAATTA-AAATAATT
11521183 AAAATTAAAATAATT
1 AAAATTAAAATAATT
11521198 A
1 A
11521199 TTTAATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 19 0.70
16 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAATTAAAATAATT
Found at i:11522533 original size:3 final size:3
Alignment explanation
Indices: 11522525--11522603 Score: 149
Period size: 3 Copynumber: 26.0 Consensus size: 3
11522515 ACCTTGACTC
11522525 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11522573 TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
11522604 GGAAGCCTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11523649 original size:21 final size:22
Alignment explanation
Indices: 11523611--11523654 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
11523601 ATTGTAATAG
*
11523611 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGATTACCCTGCTACA
11523633 GGGAACCGA-TACCCTGCTACA
1 GGGAACCGATTACCCTGCTACA
11523654 G
1 G
11523655 TACTGCAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (22 bp):
GGGAACCGATTACCCTGCTACA
Found at i:11524410 original size:21 final size:21
Alignment explanation
Indices: 11524365--11524463 Score: 120
Period size: 21 Copynumber: 5.0 Consensus size: 21
11524355 TCACTGAAAT
11524365 TTGTCCCGAAGGACCAC--TA
1 TTGTCCCGAAGGACCACTGTA
*
11524384 -TGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
*
11524404 TTGTCCCGAAGGACCATTGTA
1 TTGTCCCGAAGGACCACTGTA
*
11524425 TTGTCCTGAAGGACCAC--TA
1 TTGTCCCGAAGGACCACTGTA
*
11524444 -TGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
11524464 ACCCTCGACT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
18 29 0.43
19 2 0.03
20 4 0.06
21 33 0.49
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTGTA
Found at i:11524448 original size:39 final size:39
Alignment explanation
Indices: 11524365--11524463 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 39
11524355 TCACTGAAAT
* *
11524365 TTGTCCCGAAGGACCA-CTATGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCATGTATGTCCCGAAGGACCAC-GTA
*
11524404 TTGTCCCGAAGGACCATTGTATTGTCCTGAAGGACCAC-TA
1 TTGTCCCGAAGGACCA-TGTA-TGTCCCGAAGGACCACGTA
*
11524444 -TGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCA-TGTA
11524464 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
39 34 0.65
40 2 0.04
41 2 0.04
42 14 0.27
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
TTGTCCCGAAGGACCATGTATGTCCCGAAGGACCACGTA
Found at i:11524953 original size:2 final size:2
Alignment explanation
Indices: 11524946--11525001 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
11524936 TTATGTAAGC
11524946 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
11524988 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
11525002 CAAACAACGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11526075 original size:19 final size:19
Alignment explanation
Indices: 11526051--11526120 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
11526041 AGAATGTCCA
11526051 GGGGGTA-CAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
11526070 GGGGGTATCGATTCCCC--
1 GGGGGTATCGATTCCCCTG
* *
11526087 --GAG-AACAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
11526104 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
11526121 CCTAAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
19 25 0.62
20 3 0.08
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCTG
Found at i:11527110 original size:31 final size:31
Alignment explanation
Indices: 11527072--11527213 Score: 230
Period size: 31 Copynumber: 4.6 Consensus size: 31
11527062 AGGGTCGAGG
*
11527072 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
11527103 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
11527134 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
11527165 ATTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
11527196 GATTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
11527214 AAATCTATGG
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:11527732 original size:21 final size:21
Alignment explanation
Indices: 11527707--11527749 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11527697 AAAGAATATA
11527707 TTGTATAA-GCTTTGAATAATT
1 TTGTA-AATGCTTTGAATAATT
*
11527728 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTTTGAATAATT
11527749 T
1 T
11527750 AAATGTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (21 bp):
TTGTAAATGCTTTGAATAATT
Found at i:11529324 original size:2 final size:2
Alignment explanation
Indices: 11529317--11529342 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11529307 GACTGAAAGA
11529317 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
11529343 GGATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11530332 original size:19 final size:19
Alignment explanation
Indices: 11530265--11530334 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
11530255 AGAATGTCCA
11530265 GGGGGTA-CAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
11530284 GGGGGTATCGATTCCCC--
1 GGGGGTATCGATTCCCCTG
* * *
11530301 --GAGAATAGATTCCCCTG
1 GGGGGTATCGATTCCCCTG
11530318 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
11530335 CCTAAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
15 12 0.30
19 27 0.68
20 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCTG
Found at i:11531321 original size:31 final size:31
Alignment explanation
Indices: 11531283--11531361 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
11531273 AGGGTCGAGG
11531283 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
11531314 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
11531345 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
11531362 AGAATCTATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:11531372 original size:31 final size:31
Alignment explanation
Indices: 11531285--11531376 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 31
11531275 GGTCGAGGGT
* * * * *
11531285 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTAGGTTCTTCAGAATATATGGACTGA
* * *
11531316 TTACCTATGTTCTTCGGGATATATGGACTGA
1 TTACCTAGGTTCTTCAGAATATATGGACTGA
*
11531347 TTACCTAGGTTCTTCAGAATCTATGGACTG
1 TTACCTAGGTTCTTCAGAATATATGGACTG
11531377 GTCGTTCGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (31 bp):
TTACCTAGGTTCTTCAGAATATATGGACTGA
Found at i:11531882 original size:21 final size:21
Alignment explanation
Indices: 11531857--11531899 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11531847 AAAGAATATA
11531857 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
11531878 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
11531899 T
1 T
11531900 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:11539717 original size:21 final size:21
Alignment explanation
Indices: 11539693--11539745 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
11539683 TACTTAGGGA
11539693 ACCGATTCCCCATGAAGGGGT
1 ACCGATTCCCCATGAAGGGGT
*
11539714 ACCGATTCCGCATGAAGGGGT
1 ACCGATTCCCCATGAAGGGGT
11539735 ACCGATTCCCC
1 ACCGATTCCCC
11539746 TCACGGTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (21 bp):
ACCGATTCCCCATGAAGGGGT
Found at i:11540832 original size:21 final size:21
Alignment explanation
Indices: 11540808--11540858 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11540798 TACTTAGGGA
*
11540808 ACCGATTCCTCATGAAGGGGT
1 ACCGATTCCGCATGAAGGGGT
11540829 ACCGATTCCGCATGAAGGGGT
1 ACCGATTCCGCATGAAGGGGT
11540850 ACCGATTCC
1 ACCGATTCC
11540859 CCTCACGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (21 bp):
ACCGATTCCGCATGAAGGGGT
Found at i:11545001 original size:22 final size:22
Alignment explanation
Indices: 11544973--11545016 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11544963 AACAGTACCG
*
11544973 TATGAACAGTAATTAACAATAC
1 TATGAACAGTAATGAACAATAC
11544995 TATGAACAGTAATGAACAATAC
1 TATGAACAGTAATGAACAATAC
11545017 CGTGAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (22 bp):
TATGAACAGTAATGAACAATAC
Found at i:11545022 original size:22 final size:22
Alignment explanation
Indices: 11544974--11545024 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
11544964 ACAGTACCGT
* *
11544974 ATGAACAGTAATTAACAATACT
1 ATGAACAGTAATGAACAATACC
11544996 ATGAACAGTAATGAACAATACC
1 ATGAACAGTAATGAACAATACC
*
11545018 GTGAACA
1 ATGAACA
11545025 ATACCCGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (22 bp):
ATGAACAGTAATGAACAATACC
Found at i:11545850 original size:18 final size:18
Alignment explanation
Indices: 11545827--11545861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11545817 CACTGAAGTT
11545827 TGTCCCAAATGACCACTA
1 TGTCCCAAATGACCACTA
**
11545845 TGTCCCGTATGACCACT
1 TGTCCCAAATGACCACT
11545862 GTATTATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (18 bp):
TGTCCCAAATGACCACTA
Found at i:11545895 original size:21 final size:21
Alignment explanation
Indices: 11545826--11545903 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
11545816 GCACTGAAGT
*
11545826 TTGTCCCAAATGACCAC--TA
1 TTGTCCCGAATGACCACTGTA
*
11545845 -TGTCCCGTATGACCACTGTA
1 TTGTCCCGAATGACCACTGTA
* ** *
11545865 TTATTTCGAATGACCATTGTA
1 TTGTCCCGAATGACCACTGTA
*
11545886 TTGTCCCGAAGGACCACT
1 TTGTCCCGAATGACCACT
11545904 ATGTCCCCGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
18 14 0.32
20 2 0.05
21 28 0.64
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (21 bp):
TTGTCCCGAATGACCACTGTA
Found at i:11546415 original size:2 final size:2
Alignment explanation
Indices: 11546408--11546435 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11546398 CTTATGTAAG
11546408 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11546436 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11546819 original size:21 final size:22
Alignment explanation
Indices: 11546793--11546852 Score: 83
Period size: 20 Copynumber: 2.9 Consensus size: 22
11546783 TTTTTTCTTT
*
11546793 AGGGGGAAT-TGATACCCCCCC
1 AGGGGGTATCTGATACCCCCCC
11546814 AGGGGGTATCT-ATA-CCCCCC
1 AGGGGGTATCTGATACCCCCCC
11546834 AGGGGGTATCTG-TACCCCC
1 AGGGGGTATCTGATACCCCC
11546853 TGCATAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 19 0.54
21 15 0.43
22 1 0.03
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.18
Consensus pattern (22 bp):
AGGGGGTATCTGATACCCCCCC
Found at i:11547339 original size:14 final size:14
Alignment explanation
Indices: 11547320--11547350 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11547310 AGCTTCCGCG
*
11547320 GAAAGGAGGAAGAA
1 GAAAGGAAGAAGAA
11547334 GAAAGGAAGAAGAA
1 GAAAGGAAGAAGAA
11547348 GAA
1 GAA
11547351 GAAGATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
GAAAGGAAGAAGAA
Found at i:11547970 original size:5 final size:5
Alignment explanation
Indices: 11547960--11547984 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11547950 ATTTATATAA
11547960 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
11547985 GAAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:11548219 original size:3 final size:3
Alignment explanation
Indices: 11548211--11548236 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11548201 ACTCTTTGTA
11548211 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
11548237 ATTTTATAAG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11552710 original size:20 final size:21
Alignment explanation
Indices: 11552687--11552737 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
11552677 CCCTAAGTGG
*
11552687 AGTATCGATACTC-AAGGGCC
1 AGTACCGATACTCGAAGGGCC
*
11552707 AGTACCGATA-TCGAGGGGCC
1 AGTACCGATACTCGAAGGGCC
11552727 AGTACCGATAC
1 AGTACCGATAC
11552738 CAATGTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
AGTACCGATACTCGAAGGGCC
Found at i:11557871 original size:5 final size:5
Alignment explanation
Indices: 11557864--11557909 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
11557854 GTCCGTCCGT
*
11557864 CTCGT CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG C
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG C
11557910 ACGTGGTCGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.00, C:0.41, G:0.37, T:0.22
Consensus pattern (5 bp):
CTCGG
Found at i:11557922 original size:6 final size:6
Alignment explanation
Indices: 11557911--11558078 Score: 336
Period size: 6 Copynumber: 28.0 Consensus size: 6
11557901 CGGCTCGGCA
11557911 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
11557959 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
11558007 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
11558055 CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT
11558079 AATGGTAATA
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 162 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
CGTGGT
Found at i:11558380 original size:22 final size:22
Alignment explanation
Indices: 11558355--11558409 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
11558345 TCAGGAGTTA
* *
11558355 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
11558377 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
11558399 CGGGAGTTATA
1 CAGGAGTTATA
11558410 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:11559712 original size:14 final size:14
Alignment explanation
Indices: 11559693--11559725 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
11559683 AAGGTAGCAC
11559693 GCATACTCATATAG
1 GCATACTCATATAG
11559707 GCATACTCATATAG
1 GCATACTCATATAG
11559721 GCATA
1 GCATA
11559726 TGGCATGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (14 bp):
GCATACTCATATAG
Found at i:11560271 original size:19 final size:19
Alignment explanation
Indices: 11560234--11560321 Score: 90
Period size: 19 Copynumber: 4.6 Consensus size: 19
11560224 CGCGAAAGTA
* *
11560234 AAATTCGCAACGCGAATTTGT
1 AAATTCGCAAC-TGAATTT-C
11560255 AAATT-GCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
11560273 AAATTCGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
* *
11560292 AAATTCTCAACGCGAATTT-
1 AAATTCGCAAC-TGAATTTC
*
11560311 AATTTCGCAAC
1 AAATTCGCAAC
11560322 AGGTTTTAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.08
19 38 0.64
20 11 0.19
21 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (19 bp):
AAATTCGCAACTGAATTTC
Found at i:11561241 original size:24 final size:24
Alignment explanation
Indices: 11561214--11561291 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
11561204 GTATTCGAAA
11561214 TTTGATCTTGGTCAATACCCGGAT
1 TTTGATCTTGGTCAATACCCGGAT
* *
11561238 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCGGAT
*
11561262 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAT
11561286 TTTGAT
1 TTTGAT
11561292 GATGTGATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAT
Found at i:11564031 original size:18 final size:18
Alignment explanation
Indices: 11564010--11564056 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11564000 GTAATTGGAG
11564010 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
11564028 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
11564046 TATCAATTTAA
1 TTTGAATTTAA
11564057 CCTTGATGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:11564054 original size:24 final size:24
Alignment explanation
Indices: 11564002--11564054 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
11563992 TTTCATATGT
* *
11564002 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
11564026 AATTTGAGTTTGAATTTCAATATC
1 AATTTGAGTTTGAATTTAAATATC
11564050 AATTT
1 AATTT
11564055 AACCTTGATG
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:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:11564062 original size:24 final size:24
Alignment explanation
Indices: 11564011--11564062 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11564001 TAATTGGAGT
* * **
11564011 TTGAATTTAAATTTCAATTTGAGT
1 TTGAATTTAAATATCAATTTAACC
*
11564035 TTGAATTTCAATATCAATTTAACC
1 TTGAATTTAAATATCAATTTAACC
11564059 TTGA
1 TTGA
11564063 TGTTGTATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (24 bp):
TTGAATTTAAATATCAATTTAACC
Found at i:11564107 original size:20 final size:20
Alignment explanation
Indices: 11564079--11564121 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11564069 ATGTTGCGAT
11564079 CAACACGAAAGTAAAATTCG
1 CAACACGAAAGTAAAATTCG
* * *
11564099 CAACGCGAAATTCAAATTCG
1 CAACACGAAAGTAAAATTCG
11564119 CAA
1 CAA
11564122 ACCGAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (20 bp):
CAACACGAAAGTAAAATTCG
Found at i:11564358 original size:60 final size:65
Alignment explanation
Indices: 11564224--11564363 Score: 191
Period size: 66 Copynumber: 2.2 Consensus size: 65
11564214 TTTTAGAAAC
11564224 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAA-CAAAAAAATAATTCTTATTTACAAATCAAATT
11564289 A
65 A
* * * **
11564290 AACAAATCAACTTTTACAAATCAATTAATC-A-AAAAAGA-AA-TCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAACAAAAAAATAATTCTTATTTACAAATCAAATTA
11564350 AACAAATCAACTTT
1 AACAAATCAACTTT
11564364 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 19 0.28
61 12 0.17
62 2 0.03
63 6 0.09
65 1 0.01
66 29 0.42
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.30
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAACAAAAAAATAATTCTTATTTACAAATCAAATTA
Found at i:11565764 original size:21 final size:21
Alignment explanation
Indices: 11565740--11565835 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
11565730 GGTGGGACCA
*
11565740 CTTGAACGATGACAGGGGCCT
1 CTTGAACGATGAGAGGGGCCT
* * *
11565761 CTTGAACGGTGGGAGGGGCTT
1 CTTGAACGATGAGAGGGGCCT
*
11565782 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAACGATGAGAGGGGCCT
*
11565803 CTTGAACGAT-AGGAGAGGCCT
1 CTTGAACGATGA-GAGGGGCCT
* *
11565824 CTTAAATGATGA
1 CTTGAACGATGA
11565836 TAGGTGCATC
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (21 bp):
CTTGAACGATGAGAGGGGCCT
Found at i:11565833 original size:42 final size:42
Alignment explanation
Indices: 11565747--11565835 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
11565737 CCACTTGAAC
* * * * **
11565747 GATGACAGGGGCCTCTTGAACGGTGGGAGGGGCTTCTTCGAT
1 GATGACAGGGGCCTCTTGAACGATAGGAGAGGCCTCTTAAAT
*
11565789 GATGAGAGGGGCCTCTTGAACGATAGGAGAGGCCTCTTAAAT
1 GATGACAGGGGCCTCTTGAACGATAGGAGAGGCCTCTTAAAT
11565831 GATGA
1 GATGA
11565836 TAGGTGCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATAGGAGAGGCCTCTTAAAT
Found at i:11566011 original size:4 final size:4
Alignment explanation
Indices: 11565979--11566028 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
11565969 GGGCCACTGA
* * * *
11565979 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
11566027 AA
1 AA
11566029 TGCTGAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:11568340 original size:22 final size:22
Alignment explanation
Indices: 11568312--11568362 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
11568302 GATGGAGATA
11568312 GACGGATTTCGTCGGAAATGAG
1 GACGGATTTCGTCGGAAATGAG
* *
11568334 GACGGATTTCGTCGGAGATGTG
1 GACGGATTTCGTCGGAAATGAG
11568356 GACGGAT
1 GACGGAT
11568363 GTCGCTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.39, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGAG
Found at i:11569910 original size:31 final size:31
Alignment explanation
Indices: 11569849--11569912 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
11569839 GAACAAACCA
*
11569849 ATAACGTTAGAGATTGAAATCTGATAGACCG
1 ATAACGTTAGAGATTGAAATCGGATAGACCG
11569880 ATAACGTTAGAGACTT-AAATCGGA-AGGACCG
1 ATAACGTTAGAGA-TTGAAATCGGATA-GACCG
11569911 AT
1 AT
11569913 GGTGTTAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 1 0.03
31 27 0.90
32 2 0.07
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (31 bp):
ATAACGTTAGAGATTGAAATCGGATAGACCG
Found at i:11571097 original size:22 final size:23
Alignment explanation
Indices: 11571071--11571116 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
11571061 TTAAAATTTT
*
11571071 ACTAAATTTCTATGTA-TTAAAA
1 ACTAAATTTCTATATACTTAAAA
11571093 ACTAAATTTCTATATACTTAAAA
1 ACTAAATTTCTATATACTTAAAA
11571116 A
1 A
11571117 TAATTGTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (23 bp):
ACTAAATTTCTATATACTTAAAA
Found at i:11571765 original size:19 final size:19
Alignment explanation
Indices: 11571738--11571777 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11571728 TCTCATGTTT
* *
11571738 AAGTTCTTGTGTATGTAGA
1 AAGTACTTGCGTATGTAGA
11571757 AAGTACTTGCGTATGTAGA
1 AAGTACTTGCGTATGTAGA
11571776 AA
1 AA
11571778 ATTCATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (19 bp):
AAGTACTTGCGTATGTAGA
Found at i:11572391 original size:15 final size:15
Alignment explanation
Indices: 11572371--11572402 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11572361 ATAGAAGAGA
11572371 TTAAAGAAAATGAGT
1 TTAAAGAAAATGAGT
11572386 TTAAAGAAAATGAGT
1 TTAAAGAAAATGAGT
11572401 TT
1 TT
11572403 TTAGATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (15 bp):
TTAAAGAAAATGAGT
Found at i:11572724 original size:21 final size:21
Alignment explanation
Indices: 11572698--11572738 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11572688 TCTGGGCAAA
11572698 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
*
11572719 GTGTATCGATGCACTTTCAA
1 GTGTATCGATGCACATTCAA
11572739 ATAAATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:11574429 original size:23 final size:23
Alignment explanation
Indices: 11574399--11574458 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
11574389 CATTTTATAT
11574399 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
11574422 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
11574445 GGCACTTTGGTGCA
1 GGCACTTCGGTGCA
11574459 TTTATATGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:11577493 original size:12 final size:12
Alignment explanation
Indices: 11577476--11577507 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11577466 TAATAAGTGA
*
11577476 AATTTGAGAAGG
1 AATTTGACAAGG
11577488 AATTTGACAAGG
1 AATTTGACAAGG
11577500 AATTTGAC
1 AATTTGAC
11577508 TTGTCATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATTTGACAAGG
Found at i:11579439 original size:23 final size:23
Alignment explanation
Indices: 11579375--11579431 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
11579365 TTTATATGGA
*
11579375 ACTTCGGTGCAATTCTATGCGGC
1 ACTTCGGTGCAATTCTACGCGGC
* *
11579398 ACTTTGGTGCAATTCTACGTGGC
1 ACTTCGGTGCAATTCTACGCGGC
11579421 ACTTCGGTGCA
1 ACTTCGGTGCA
11579432 TTTATACGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.32
Consensus pattern (23 bp):
ACTTCGGTGCAATTCTACGCGGC
Found at i:11583003 original size:21 final size:21
Alignment explanation
Indices: 11582977--11583017 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11582967 TCTGGGCAAA
11582977 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
*
11582998 GTGTATCGATGCACTTTCAA
1 GTGTATCGATGCACATTCAA
11583018 ATAAATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:11590459 original size:29 final size:30
Alignment explanation
Indices: 11590427--11590511 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
11590417 TTGTCTTATT
11590427 ACTAAAATATAAATTTTG-AAAGTTT-GGTG
1 ACTAAAATATAAATTTTGAAAAGTTTAGG-G
* * *
11590456 ACTAAAGTGTAAACTTTGAAAAGTTTAGGG
1 ACTAAAATATAAATTTTGAAAAGTTTAGGG
*
11590486 ACTAAAA-ATATAATTTTTAAAA-TTTA
1 ACTAAAATATA-AATTTTGAAAAGTTTA
11590512 TATATTTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 21 0.46
30 23 0.50
31 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (30 bp):
ACTAAAATATAAATTTTGAAAAGTTTAGGG
Found at i:11590481 original size:30 final size:29
Alignment explanation
Indices: 11590427--11590498 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
11590417 TTGTCTTATT
*
11590427 ACTAAAATATAAATTTTGAAAGTTT-GGTG
1 ACTAAAATATAAACTTTGAAAGTTTAGG-G
* *
11590456 ACTAAAGTGTAAACTTTGAAAAGTTTAGGG
1 ACTAAAATATAAACTTTG-AAAGTTTAGGG
11590486 ACTAAAAATATAA
1 ACT-AAAATATAA
11590499 TTTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 15 0.43
30 11 0.31
31 9 0.26
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.32
Consensus pattern (29 bp):
ACTAAAATATAAACTTTGAAAGTTTAGGG
Found at i:11594298 original size:30 final size:30
Alignment explanation
Indices: 11594262--11594382 Score: 169
Period size: 29 Copynumber: 4.1 Consensus size: 30
11594252 CTCTAGGATG
*
11594262 AGATTTTTTACACTTAGGTCTCTAGACTTT
1 AGATTTTTTACACTTAGGTCCCTAGACTTT
* *
11594292 AGATTTTTTTACACATAGGT-CCTATACTTT
1 AGA-TTTTTTACACTTAGGTCCCTAGACTTT
11594322 AG-TTTTTTACACTTAGGTCCCTAGACTTT
1 AGATTTTTTACACTTAGGTCCCTAGACTTT
11594351 AG-TTTTTTACACTCTA-GTCCCTAGACTTT
1 AGATTTTTTACACT-TAGGTCCCTAGACTTT
11594380 AGA
1 AGA
11594383 GTTCTCACAT
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
28 15 0.18
29 37 0.45
30 15 0.18
31 15 0.18
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (30 bp):
AGATTTTTTACACTTAGGTCCCTAGACTTT
Found at i:11596485 original size:21 final size:20
Alignment explanation
Indices: 11596439--11596715 Score: 106
Period size: 20 Copynumber: 13.8 Consensus size: 20
11596429 CATTCTGACT
11596439 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTCCCAA
* *
11596459 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGA-TTTCCCAA
* * ****
11596481 ATCGCAATGCGAATAAGTAA
1 ATCGCATTGCGATTTCCCAA
* * **
11596501 ATCGCAATGCGATTACGTAA
1 ATCGCATTGCGATTTCCCAA
* * * **
11596521 ATCACAATGCGA-TTACGTA
1 ATCGCATTGCGATTTCCCAA
* * **
11596540 TTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTCCCAA
* *
11596560 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTCCCAA
* * **
11596580 TTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTCCCAA
* *
11596600 TTCGCATTGCGATTTTCCTAA
1 ATCGCATTGCGA-TTTCCCAA
* * * **
11596621 TTCGCATTGCGAATTACGTA
1 ATCGCATTGCGATTTCCCAA
* **
11596641 ATCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTCCCAA
* * **
11596661 TTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTCCCAA
* * **
11596681 TTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTCCCAA
*
11596701 TTCGCATTGCGATTT
1 ATCGCATTGCGATTT
11596716 AGTAAATCGC
Statistics
Matches: 218, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.05
20 163 0.75
21 36 0.17
22 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATTTCCCAA
Found at i:11596533 original size:20 final size:20
Alignment explanation
Indices: 11596478--11596727 Score: 149
Period size: 20 Copynumber: 12.5 Consensus size: 20
11596468 GCGATTTTCC
* *
11596478 TAAATCGCAATGCGAATAAG
1 TAAATCGCAATGCGATTACG
11596498 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
*
11596518 TAAATCACAATGCGATTACG
1 TAAATCGCAATGCGATTACG
* *
11596538 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
* * *
11596558 T-AATCGCATTGCGATTTTCC
1 TAAATCGCAATGCGA-TTACG
* *
11596578 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
* * * *
11596598 T-ATTCGCATTGCGATTTTCC
1 TAAATCGCAATGCGA-TTACG
* *
11596618 TAATTCGCATTGCGAATTACG
1 TAAATCGCAATGCG-ATTACG
*
11596639 T-AATCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
* *
11596659 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
* *
11596679 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
* *
11596699 T-ATTCGCATTGCGATTTA-G
1 TAAATCGCAATGCGA-TTACG
11596718 TAAATCGCAA
1 TAAATCGCAA
11596728 CGAGATTCTG
Statistics
Matches: 205, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.06
20 175 0.85
21 16 0.08
22 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (20 bp):
TAAATCGCAATGCGATTACG
Found at i:11596582 original size:40 final size:40
Alignment explanation
Indices: 11596439--11596726 Score: 314
Period size: 40 Copynumber: 7.2 Consensus size: 40
11596429 CATTCTGACT
* ** * * *
11596439 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAA
1 ATCGCATTGCGATTT-ACGTATTCGCATTGCGATTTACGT-A
* * * * *
11596481 ATCGCAATGCGA-ATAAGTAAATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTACGT-ATTCGCATTGCGATTTACGT-A
* *
11596521 ATCACAATGCGA-TTACGTATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA
* *
11596560 ATCGCATTGCGATTTTCCTATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA
* * * *
11596600 TTCGCATTGCGATTTTCCTAATTCGCATTGCGAATTACGTA
1 ATCGCATTGCGATTTACGT-ATTCGCATTGCGATTTACGTA
11596641 ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA
*
11596681 TTCGCATTGCGATTTACGTATTCGCATTGCGATTTA-GTAA
1 ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT-A
11596721 ATCGCA
1 ATCGCA
11596727 ACGAGATTCT
Statistics
Matches: 213, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
39 24 0.11
40 131 0.62
41 47 0.22
42 11 0.05
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (40 bp):
ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA
Found at i:11596640 original size:101 final size:100
Alignment explanation
Indices: 11596439--11596716 Score: 335
Period size: 101 Copynumber: 2.8 Consensus size: 100
11596429 CATTCTGACT
* ** * * * * * *
11596439 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAAATCGCAATGCGA-ATAAGTAAAT
1 ATCGCATTGCGATTTACGTAA-TCGCATTGCGATTTTCCT-ATTCGCATTGCGATTTACGT-ATT
* *
11596503 CGCAATGCGA-TTACGTAAATCACAATGCGATTACGTA
63 CGCATTGCGATTTACCTAAATCACAATGCGATTACGTA
*
11596540 TTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTATTCGCATTGCGATTTACGTATTCGC
1 ATCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTATTCGCATTGCGATTTACGTATTCGC
* * * *
11596605 ATTGCGATTTTCCTAATTCGCATTGCGAATTACGTA
66 ATTGCGATTTACCTAAATCACAATGCG-ATTACGTA
* * *
11596641 ATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGC
1 ATCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTATTCGCATTGCGATTTACGTATTCGC
11596706 ATTGCGATTTA
66 ATTGCGATTTA
11596717 GTAAATCGCA
Statistics
Matches: 153, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
99 22 0.14
100 35 0.23
101 96 0.63
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (100 bp):
ATCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTATTCGCATTGCGATTTACGTATTCGC
ATTGCGATTTACCTAAATCACAATGCGATTACGTA
Found at i:11596765 original size:101 final size:101
Alignment explanation
Indices: 11596532--11596767 Score: 239
Period size: 101 Copynumber: 2.3 Consensus size: 101
11596522 TCACAATGCG
* * * * *
11596532 ATTACGTATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTTCCTATTCGCATTGCGATTTA
1 ATTACGTAATCGCAATACGATTTAC-AAATTCGCATTGCGATTTACCTATTCGCATTGCGATTTA
* * ** *
11596596 CGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGA
65 CGTATTCGCATTGCGATTTTACTAAATCGCAACGAGA
* * ** *
11596633 ATTACGTAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTAC
1 ATTACGTAATCGCAATACGATTTACAAATTCGCATTGCGATTTACCTATTCGCATTGCGATTTAC
*
11596698 GTATTCGCATTGCGA-TTTAGTAAATCGCAACGAGA
66 GTATTCGCATTGCGATTTTACTAAATCGCAACGAGA
*
11596733 TTCTGAC-T-ATCGCAATACTGAATTT-CAAATTCGCA
1 AT-T-ACGTAATCGCAATAC-G-ATTTACAAATTCGCA
11596768 ACTCAATTTC
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
100 24 0.21
101 84 0.74
102 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (101 bp):
ATTACGTAATCGCAATACGATTTACAAATTCGCATTGCGATTTACCTATTCGCATTGCGATTTAC
GTATTCGCATTGCGATTTTACTAAATCGCAACGAGA
Found at i:11597614 original size:24 final size:24
Alignment explanation
Indices: 11597587--11597640 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11597577 GTATTCGAAA
11597587 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
11597611 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
11597635 TTTGAT
1 TTTGAT
11597641 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:11600163 original size:19 final size:20
Alignment explanation
Indices: 11600121--11600164 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11600111 CAATCATCTT
*
11600121 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
11600141 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
11600160 AATGA
1 AATGA
11600165 AAATCACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:11600193 original size:33 final size:33
Alignment explanation
Indices: 11600148--11600241 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
11600138 GGAAATGACT
*
11600148 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
11600181 ATTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
11600214 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
11600242 CAAATTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:11600237 original size:19 final size:19
Alignment explanation
Indices: 11600128--11600239 Score: 55
Period size: 19 Copynumber: 6.4 Consensus size: 19
11600118 CTTAATGTCT
* **
11600128 ATCGCAACGCGGAAATGACT
1 ATCGCAAAGC-GAAATGAAA
*
11600148 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
* *
11600167 ATCAC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
* *
11600181 ATTGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
**
11600200 ATCGC-AA-CG--A-GGGA
1 ATCGCAAAGCGAAATGAAA
11600214 ATCGCAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
11600233 ATCGCAA
1 ATCGCAA
11600240 CGCAAATTTA
Statistics
Matches: 66, Mismatches: 16, Indels: 21
0.64 0.16 0.20
Matches are distributed among these distances:
14 13 0.20
15 5 0.08
16 4 0.06
17 4 0.06
18 4 0.06
19 27 0.41
20 9 0.14
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:11600275 original size:14 final size:13
Alignment explanation
Indices: 11600251--11600281 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11600241 GCAAATTTAG
11600251 TTTTGCGTTGCGA
1 TTTTGCGTTGCGA
11600264 TTTTGTCGTTGCGA
1 TTTTG-CGTTGCGA
11600278 TTTT
1 TTTT
11600282 CATTTCGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (13 bp):
TTTTGCGTTGCGA
Found at i:11600292 original size:19 final size:19
Alignment explanation
Indices: 11600270--11600316 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
11600260 GCGATTTTGT
11600270 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
11600289 CGTTGCGATTTTCATTTTG
1 CGTTGCGATTTTCATTTCG
*
11600308 CATTGCGAT
1 CGTTGCGAT
11600317 AGTCATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:11600322 original size:19 final size:19
Alignment explanation
Indices: 11600281--11600325 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
11600271 GTTGCGATTT
* * **
11600281 TCATTTCGCGTTGCGATTT
1 TCATTTTGCATTGCGATAG
11600300 TCATTTTGCATTGCGATAG
1 TCATTTTGCATTGCGATAG
11600319 TCATTTT
1 TCATTTT
11600326 TGCCTTCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (19 bp):
TCATTTTGCATTGCGATAG
Found at i:11600444 original size:14 final size:14
Alignment explanation
Indices: 11600423--11600459 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11600413 CATCAATTAA
11600423 ACAAATCAACTTTT
1 ACAAATCAACTTTT
* *
11600437 AGAAATCATCTTTT
1 ACAAATCAACTTTT
11600451 ACAAATCAA
1 ACAAATCAA
11600460 TTAAACAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:11601853 original size:21 final size:21
Alignment explanation
Indices: 11601829--11601904 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
11601819 GTGGGAGGGA
11601829 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * **
11601850 CCTCTTGAACGGTGGGAGTGG
1 CCTCTTCAACGATGACAGTGG
* * * * *
11601871 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
11601892 CCTCTTCAACGAT
1 CCTCTTCAACGAT
11601905 AGGAGTGGAC
Statistics
Matches: 38, Mismatches: 15, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
20 3 0.08
21 31 0.82
22 4 0.11
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:11601894 original size:42 final size:41
Alignment explanation
Indices: 11601809--11601929 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 41
11601799 GTGAATCGGG
* * * *
11601809 CTCTTGAATGGTGGGAG-GGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGTGGA-CTC-TCGAGGATGACAGGGGC
*
11601851 CTCTTGAACGGTGGGAGTGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGTGGACTCTCGAGG-ATGACAGGGGC
* * * *
11601893 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACA
1 CTCTTGAACGGTGGGAGTGGACTCTCGA-GGATGACA
11601930 AGCGAGTCGG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.86
43 5 0.08
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGTGGACTCTCGAGGATGACAGGGGC
Found at i:11602374 original size:19 final size:19
Alignment explanation
Indices: 11602352--11602440 Score: 142
Period size: 19 Copynumber: 4.6 Consensus size: 19
11602342 AAAAATGGTT
11602352 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
11602371 ATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGA-AATGAAA
*
11602391 ATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAATGAAA
*
11602410 ATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAATGAAA
11602429 ATCGCAACGCGA
1 ATCGCAACGCGA
11602441 TTATAGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 45 0.71
20 18 0.29
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.09
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:11602402 original size:39 final size:38
Alignment explanation
Indices: 11602352--11602440 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 38
11602342 AAAAATGGTT
*
11602352 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGAAACGAAAATCGCAACGAGA-AATGAAA
11602391 ATCGCAACGCGAAACGAAAATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAACGAAAATCGCAACGAGAAATGAAA
11602429 ATCGCAACGCGA
1 ATCGCAACGCGA
11602441 TTATAGTTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 19 0.39
39 30 0.61
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.09
Consensus pattern (38 bp):
ATCGCAACGCGAAACGAAAATCGCAACGAGAAATGAAA
Found at i:11602491 original size:39 final size:39
Alignment explanation
Indices: 11602447--11602541 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 39
11602437 GCGATTATAG
* *
11602447 TTTCGCGTTGCGATTTTTGGTTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTTCGTTTCGCGTTGCAATTTTCA
* **
11602486 TTTCGCGTTGTGA-TTTTCGTTTCTTGTTGCAATTTTCA
1 TTTCGCGTTGCGATTTTTCGTTTCGCGTTGCAATTTTCA
*
11602524 TTCTCTCGTTGCGATTTT
1 TT-TCGCGTTGCGATTTT
11602542 CATTTCAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 23 0.49
39 21 0.45
40 3 0.06
ACGTcount: A:0.08, C:0.18, G:0.21, T:0.53
Consensus pattern (39 bp):
TTTCGCGTTGCGATTTTTCGTTTCGCGTTGCAATTTTCA
Found at i:11602542 original size:20 final size:19
Alignment explanation
Indices: 11602447--11602547 Score: 103
Period size: 19 Copynumber: 5.2 Consensus size: 19
11602437 GCGATTATAG
* **
11602447 TTTCGCGTTGCGATTTTTGG
1 TTTCTCGTTGCGA-TTTTCA
*
11602467 TTTCGCGTTGCGATTTTCA
1 TTTCTCGTTGCGATTTTCA
* * *
11602486 TTTCGCGTTGTGATTTTCG
1 TTTCTCGTTGCGATTTTCA
* *
11602505 TTTCTTGTTGCAATTTTCA
1 TTTCTCGTTGCGATTTTCA
11602524 TTCTCTCGTTGCGATTTTCA
1 TT-TCTCGTTGCGATTTTCA
11602544 TTTC
1 TTTC
11602548 AACCAAAAGA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 39 0.57
20 30 0.43
ACGTcount: A:0.09, C:0.19, G:0.20, T:0.52
Consensus pattern (19 bp):
TTTCTCGTTGCGATTTTCA
Found at i:11602807 original size:94 final size:93
Alignment explanation
Indices: 11602642--11602943 Score: 505
Period size: 94 Copynumber: 3.2 Consensus size: 93
11602632 ATTTATTGCA
* * *
11602642 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTAAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
11602707 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
* * * *
11602735 TTACTTTCAACCAAAATACAAAACAAAGACATATATTAACTTCACAGTGTTAAAGAATATACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
11602800 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
11602829 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
11602894 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
11602923 TTACTTCAACCAAAAGACAAA
1 TTACTTCAACCAAAAGACAAA
11602944 TACTAACTTC
Statistics
Matches: 195, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 21 0.11
94 174 0.89
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:11602996 original size:78 final size:79
Alignment explanation
Indices: 11602853--11603005 Score: 254
Period size: 78 Copynumber: 1.9 Consensus size: 79
11602843 AAGACAAAAC
*
11602853 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
11602918 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
*
11602935 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
11602999 ATTTACT
66 ATTTACT
11603006 AAGCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 42 0.61
82 27 0.39
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:11604756 original size:19 final size:19
Alignment explanation
Indices: 11604692--11604771 Score: 106
Period size: 20 Copynumber: 4.1 Consensus size: 19
11604682 TCTTTTAGTT
*
11604692 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
11604711 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
11604731 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
11604751 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
11604770 GA
1 GA
11604772 TTTTGGTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 20 0.38
20 31 0.58
21 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:11604783 original size:19 final size:19
Alignment explanation
Indices: 11604761--11604800 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11604751 GAAATGAAAA
*
11604761 TCGCAATGCGATTTTGGTT
1 TCGCAATGCGATTTTCGTT
**
11604780 TCGCGTTGCGATTTTCGTT
1 TCGCAATGCGATTTTCGTT
11604799 TC
1 TC
11604801 TTGTTGCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.20, G:0.25, T:0.45
Consensus pattern (19 bp):
TCGCAATGCGATTTTCGTT
Found at i:11604832 original size:20 final size:19
Alignment explanation
Indices: 11604767--11604839 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
11604757 AAAATCGCAA
** *
11604767 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCTCGT
* *
11604786 TGCGATTTTCGTTTCTTGT
1 TGCGATTTTCATTTCTCGT
*
11604805 TGCAATTTTCATTCTCTCGT
1 TGCGATTTTCATT-TCTCGT
11604825 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
11604840 AACCAAAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
19 29 0.63
20 17 0.37
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (19 bp):
TGCGATTTTCATTTCTCGT
Found at i:11605047 original size:94 final size:93
Alignment explanation
Indices: 11604930--11605231 Score: 505
Period size: 94 Copynumber: 3.2 Consensus size: 93
11604920 ATGGATTGCA
* * * *
11604930 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTAAGAGTATTAAAAAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
11604995 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
* * *
11605023 TTACTTTCAACCAAAAGACAAAACAAAGACATATATTAACTTCACAATGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
11605088 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
11605117 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
11605182 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
11605211 TTACTTCAACCAAAAGACAAA
1 TTACTTCAACCAAAAGACAAA
11605232 TACTAACTTC
Statistics
Matches: 196, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 21 0.11
94 175 0.89
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:11605284 original size:78 final size:79
Alignment explanation
Indices: 11605141--11605293 Score: 254
Period size: 78 Copynumber: 1.9 Consensus size: 79
11605131 AAGACAAAAC
*
11605141 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
11605206 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
*
11605223 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
11605287 ATTTACT
66 ATTTACT
11605294 AAGCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 42 0.61
82 27 0.39
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:11607012 original size:20 final size:20
Alignment explanation
Indices: 11606987--11607082 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
11606977 TTTTAGTTGA
11606987 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
11607007 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
11607026 AAATGACTATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
11607045 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
11607060 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
11607080 AAT
1 AAT
11607083 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.13
16 4 0.06
17 2 0.03
18 1 0.02
19 14 0.23
20 33 0.53
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:11607053 original size:14 final size:14
Alignment explanation
Indices: 11607034--11607089 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
11607024 GGAAATGACT
11607034 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
11607048 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
11607067 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
11607081 ATCGCAACG
1 ATCGCAACG
11607090 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:11607071 original size:33 final size:33
Alignment explanation
Indices: 11606985--11607106 Score: 163
Period size: 33 Copynumber: 3.5 Consensus size: 33
11606975 TCTTTTAGTT
11606985 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
11607024 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
11607058 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
11607091 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
11607107 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
33 47 0.60
34 11 0.14
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.19
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:11607170 original size:20 final size:20
Alignment explanation
Indices: 11607118--11607195 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
11607108 GCGATTTTGG
*
11607118 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
11607138 TTCTC-TCGTTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
11607159 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
* *
11607179 TTTCATGTTGCGGTTTT
1 TTTCGTGTTGCGATTTT
11607196 AAGTTTAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.10, C:0.18, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:11607770 original size:20 final size:20
Alignment explanation
Indices: 11607747--11607941 Score: 293
Period size: 20 Copynumber: 9.7 Consensus size: 20
11607737 CGATAGTCAG
11607747 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
11607767 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
11607787 ATTTCGCATTGCGATTTACGT
1 A-TTCGCATTGCGATTTACGT
11607808 AATT-GCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
11607828 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
11607848 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
11607868 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
11607888 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
* **
11607909 AATCGTGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
11607929 ATTCGCATTGCGA
1 ATTCGCATTGCGA
11607942 ATTAGGAAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
19 3 0.02
20 116 0.74
21 37 0.24
22 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:11607824 original size:61 final size:60
Alignment explanation
Indices: 11607747--11607941 Score: 293
Period size: 61 Copynumber: 3.2 Consensus size: 60
11607737 CGATAGTCAG
* *
11607747 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTATTTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA-TTCGCATTGCGATTTACGT
11607808 AATT-GCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
* * * **
11607868 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGTGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
11607929 ATTCGCATTGCGA
1 ATTCGCATTGCGA
11607942 ATTAGGAAAA
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
59 3 0.02
60 33 0.27
61 85 0.69
62 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (60 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
Found at i:11607897 original size:81 final size:81
Alignment explanation
Indices: 11607747--11607941 Score: 311
Period size: 81 Copynumber: 2.4 Consensus size: 81
11607737 CGATAGTCAG
* *
11607747 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTATTTCGCATTGCGATTTACGTAATT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTATTTCGCATTGCGATTTACCTAATT
11607812 GCATTGCGATTTACGT
66 GCATTGCGATTTACGT
* *
11607828 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTA-TTCGCATTGCGATTTTCCTAATT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTATTTCGCATTGCGATTTACCTAATT
11607892 CGCATTGCGATTTACGT
66 -GCATTGCGATTTACGT
* **
11607909 AATCGTGTTGCGATTTACGTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
11607942 ATTAGGAAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 21 0.20
81 85 0.80
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (81 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTATTTCGCATTGCGATTTACCTAATT
GCATTGCGATTTACGT
Found at i:11607904 original size:101 final size:101
Alignment explanation
Indices: 11607747--11607941 Score: 354
Period size: 101 Copynumber: 1.9 Consensus size: 101
11607737 CGATAGTCAG
* *
11607747 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTATTTCGCATTGCGATTTACGTAATT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATC
11607812 GCATTGCGATTTACGTATTCGCATTGCGATTTACGT
66 GCATTGCGATTTACGTATTCGCATTGCGATTTACGT
11607848 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATC
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATC
**
11607913 GTGTTGCGATTTACGTATTCGCATTGCGA
66 GCATTGCGATTTACGTATTCGCATTGCGA
11607942 ATTAGGAAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (101 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATC
GCATTGCGATTTACGTATTCGCATTGCGATTTACGT
Done.