Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 45 of 253
Found at i:11762250 original size:39 final size:39
Alignment explanation
Indices: 11762207--11762293 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
11762197 CCGGCAATTA
* *
11762207 GCCTGCTAGGTATAAACCTGAAATTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAAATTATCACAGGCACAAG
*
11762246 GCCTGCTAGGTATAAACCTGAACTTATCACAGGCACAAG
1 GCCTGCTAGGTATAAACCTGAAATTATCACAGGCACAAG
*
11762285 GCCTACTAG
1 GCCTGCTAG
11762294 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAAATTATCACAGGCACAAG
Found at i:11768588 original size:47 final size:47
Alignment explanation
Indices: 11768506--11768781 Score: 428
Period size: 47 Copynumber: 5.9 Consensus size: 47
11768496 GCAGTAGCCG
* * * * *
11768506 TTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCA
* *
11768553 TTCTGCCTTGTCACATATATGCATGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
11768600 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
*
11768647 TTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
11768694 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
* * **
11768741 TTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 TTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
11768782 AAAATCCTAA
Statistics
Matches: 213, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 212 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCA
Found at i:11773920 original size:39 final size:39
Alignment explanation
Indices: 11773866--11773947 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
11773856 CCGGCAATTA
11773866 GCCTGCTAGGTATAAACCTGAACTTATCA-CTGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCATC-GGCACGAG
11773905 GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
11773944 GCCT
1 GCCT
11773948 TTTAGACATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 41 0.98
40 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
Found at i:11779863 original size:26 final size:26
Alignment explanation
Indices: 11779827--11779934 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
11779817 TGAAATTCTC
11779827 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
11779853 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
11779879 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
11779905 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
11779931 ATCA
1 ATCA
11779935 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:11788282 original size:13 final size:13
Alignment explanation
Indices: 11788263--11788293 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11788253 ATTATTTTTT
11788263 AATTAAATTAAAA
1 AATTAAATTAAAA
*
11788276 TATTAAATTAAAA
1 AATTAAATTAAAA
11788289 AATTA
1 AATTA
11788294 TAAACCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTAAATTAAAA
Found at i:11792875 original size:13 final size:13
Alignment explanation
Indices: 11792858--11792888 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11792848 AAAATTATTT
11792858 AATTAAATTAAAA
1 AATTAAATTAAAA
*
11792871 TATTAAATTAAAA
1 AATTAAATTAAAA
11792884 AATTA
1 AATTA
11792889 TAAACCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTAAATTAAAA
Found at i:11796849 original size:161 final size:164
Alignment explanation
Indices: 11796660--11797451 Score: 443
Period size: 170 Copynumber: 4.9 Consensus size: 164
11796650 AATCATTTTG
** * ** * *
11796660 TTTTTGTTTTAATACCTAAATTGGTTTTCAAATTATCCATCTTTCAACTATGCTTAAAGTTTATA
1 TTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATAAATCTTTCAACGATACTTAAAGTTTATA
* * * * * * *
11796725 TTTTATGAGTGTTA-TATAATTGTTTATTTTGCTTCGATTATCCGAATCATATGCCTTTTACTAT
66 TTTCAT-AGTG-TACTATAAATGTTTATTTTGCTTCGATTATCAGAACCATACGCCTTTCACCAT
* *
11796789 ATCTAAACCTCTA-TTTAAT-TAAATGC-TTATTT-
129 ACCTAAACCTCTATTTTAATATAAATGCGTAATTTA
* * *
11796821 TTTTTGTTTTAGTAAGTAAAATGGTTTTCGAATTATAAATCTTTTAACGATACTTAAAGTTTATA
1 TTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATAAATCTTTCAACGATACTTAAAGTTTATA
* * *
11796886 TTTCATTGTGTACTATAAATGTTTATTTTGCTTTGGTTATCAGAACCATACGCCTTTCACCATAC
66 TTTCATAGTGTACTATAAATGTTTATTTTGCTTCGATTATCAGAACCATACGCCTTTCACCATAC
* *
11796951 CTATACCTCTATTTTATTATAAATGCGTAATTTA
131 CTAAACCTCTATTTTAATATAAATGCGTAATTTA
*** ** * *
11796985 TTTTTGTTTTAATAAGTACAAACAATTTTTGAATTATATATCTTT-AACGATA--T---GTTT-C
1 TTTTTGTTTTAATAAGTA-AAATGGTTTTCAAATTATAAATCTTTCAACGATACTTAAAGTTTAT
** * * * * * * * *
11797043 A-TGGAT-GT-TA-TATAAATGCTTATTTT-CTTTGGTTATCGGAA-TATTCGTACACCTTCACT
65 ATTTCATAGTGTACTATAAATGTTTATTTTGCTTCGATTATCAGAACCATACG--C-CTTTCACC
*
11797102 ATACCTAAACCTC-----T-ATAT--A----T--TTTG
127 ATACCTAAACCTCTATTTTAATATAAATGCGTAATTTA
* *
11797126 TTTTTGTTTTAATAAGT-AAATAGGTTTTCAAATTAGATATCTCTT-AACGATACTTAAAGTTTA
1 TTTTTGTTTTAATAAGTAAAAT-GGTTTTCAAATTATAAATCT-TTCAACGATACTTAAAGTTTA
** * * * * * * * *
11797189 TA-TTCTATGAGTGTTA-TATAAATACTTATTTTTCTTTGGTTATCGGAATCATACACCTTCCGC
64 TATTTC-AT-AGTG-TACTATAAATGTTTATTTTGCTTCGATTATCAGAACCATACGCCTTTCAC
* * * *
11797252 CATACCTAAACCTCTATTTTATTATAAATGCTTATTTTG
126 CATACCTAAACCTCTATTTTAATATAAATGCGTAATTTA
* * * * *
11797291 TTTCTATTTTAATAAGTAAAACGGTTTTCGAATTATATATATCTTTTAACGATCGATACTTAAAG
1 TTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATA-A-ATC-TTT--C-AACGATACTTAAAG
* * ** ** * * * ** *
11797356 TTTATATTCCATCGTGTTTTATAAATACTTATTTTACTTTCG-TTATCGGAATCATACATCTTTT
60 TTTATATTTCATAGTGTACTATAAATGTTTATTTTGC-TTCGATTATCAGAACCATACGCCTTTC
** * * *
11797420 ATTATACTTAAACCTATATTTTATTATAAATG
124 ACCATACCTAAACCTCTATTTTAATATAAATG
11797452 ATTATTTTGT
Statistics
Matches: 502, Mismatches: 80, Indels: 89
0.75 0.12 0.13
Matches are distributed among these distances:
139 3 0.01
140 15 0.03
141 29 0.06
143 2 0.00
146 4 0.01
147 3 0.01
148 2 0.00
149 3 0.01
150 3 0.01
151 17 0.03
152 22 0.04
153 29 0.06
154 19 0.04
155 20 0.04
156 3 0.01
157 6 0.01
158 1 0.00
159 7 0.01
160 56 0.11
161 65 0.13
162 8 0.02
163 6 0.01
164 24 0.05
165 53 0.11
166 3 0.01
167 5 0.01
168 1 0.00
169 1 0.00
170 66 0.13
171 24 0.05
172 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (164 bp):
TTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATAAATCTTTCAACGATACTTAAAGTTTATA
TTTCATAGTGTACTATAAATGTTTATTTTGCTTCGATTATCAGAACCATACGCCTTTCACCATAC
CTAAACCTCTATTTTAATATAAATGCGTAATTTA
Found at i:11797411 original size:170 final size:163
Alignment explanation
Indices: 11797119--11797666 Score: 567
Period size: 161 Copynumber: 3.3 Consensus size: 163
11797109 AACCTCTATA
* * * * *
11797119 TATTTTGTTTTTGTTTTAATAAGTAAATAGGTTTTCAAATTAGATATCTCTTA-ACGATACTTAA
1 TATTTTGTTTCTATTTTAATAAGTAAA-AGGTTTTCGAATTATATATCTTTTAGACGATACTTAA
* * *
11797183 AGTTTATATTCTATGAGTGTTATATAAATACTTATTTTTCTTTGGTTATCGGAATCATACACCTT
65 AGTTTATATTCCAT-CGTGTTTTATAAATACTTA-TTTTCTTTGGTTATCGGAATCATACACCTT
** *
11797248 CCGCCATACCTAAACCTCTATTTTATTATAAATGCT
128 TTGCCATACCTAAACCTATATTTTATTATAAATGCT
11797284 TATTTTGTTTCTATTTTAATAAGTAAAACGGTTTTCGAATTATATATATCTTTTAACGATCGATA
1 TATTTTGTTTCTATTTTAATAAGTAAAA-GGTTTTCGAA-T-TATATATCTTTT-A-GA-CGATA
*
11797349 CTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATTTTACTTTCGTTATCGGAATCATACA
60 CTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATTTT-CTTTGGTTATCGGAATCATACA
* *** * *
11797414 TCTTTTATTATACTTAAACCTATATTTTATTATAAATGAT
124 CCTTTTGCCATACCTAAACCTATATTTTATTATAAATGCT
* * * * *
11797454 TATTTTG--TCT-TTATTATTAAGTAAAATGGTTTCCGAATTATATACCTTTTAG-CGATGCCTA
1 TATTTTGTTTCTATT-TTAATAAGTAAAA-GGTTTTCGAATTATATATCTTTTAGACGATACTTA
* * * * * *
11797515 AA-TTTACACTCCATCGTGTTTTATAAATGCTTATGTTTCTTTGGTTATTGAAATCATACACTTT
64 AAGTTTATATTCCATCGTGTTTTATAAATACTTAT-TTTCTTTGGTTATCGGAATCATACACCTT
* *
11797579 TTGCCATACCTAAATC-AGTATTTTATTATAAATACT
128 TTGCCATACCTAAACCTA-TATTTTATTATAAATGCT
* * *
11797615 TATTTTGTATT-TA-TTTAATATGTAAATTA-ATTTTCAAATTATATATCTTTTA
1 TATTTTGT-TTCTATTTTAATAAGTAAA--AGGTTTTCGAATTATATATCTTTTA
11797667 CTATACATGT
Statistics
Matches: 321, Mismatches: 45, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
160 1 0.00
161 84 0.26
162 41 0.13
163 2 0.01
164 4 0.01
165 35 0.11
166 12 0.04
167 13 0.04
168 25 0.08
169 4 0.01
170 77 0.24
171 23 0.07
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (163 bp):
TATTTTGTTTCTATTTTAATAAGTAAAAGGTTTTCGAATTATATATCTTTTAGACGATACTTAAA
GTTTATATTCCATCGTGTTTTATAAATACTTATTTTCTTTGGTTATCGGAATCATACACCTTTTG
CCATACCTAAACCTATATTTTATTATAAATGCT
Found at i:11798464 original size:15 final size:16
Alignment explanation
Indices: 11798444--11798477 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11798434 GATACTTAAA
*
11798444 TTTATATTTAT-CATG
1 TTTATATTCATGCATG
11798459 TTTATATTCATGCATG
1 TTTATATTCATGCATG
11798475 TTT
1 TTT
11798478 GTTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTATATTCATGCATG
Found at i:11802923 original size:26 final size:26
Alignment explanation
Indices: 11802887--11802970 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11802877 CATGAAATTC
11802887 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11802913 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11802939 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11802965 TTATCA
1 TTATCA
11802971 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11810545 original size:20 final size:20
Alignment explanation
Indices: 11810498--11810545 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11810488 GCCACATCAA
* *
11810498 TATTCTTATCCTGAATTTTAG
1 TATT-TTATCCTAAATTTCAG
* *
11810519 GAGTTTATCCTAAATTTCAG
1 TATTTTATCCTAAATTTCAG
11810539 TATTTTA
1 TATTTTA
11810546 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (20 bp):
TATTTTATCCTAAATTTCAG
Found at i:11813769 original size:38 final size:37
Alignment explanation
Indices: 11813727--11813898 Score: 177
Period size: 38 Copynumber: 4.6 Consensus size: 37
11813717 TAGAAATGTA
*
11813727 ATGATATTCGGGCTATGTACCTAGCAGGCTTTGTGTCG
1 ATGATATTCGGGCTATGTGCCTAGCAGGCTTTGTG-CG
* * *
11813765 ATGATATTCGGGCTATGTGCCTAGTAGGCTGTGTGCC
1 ATGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCG
* *
11813802 AGTGATATTCGAGCTATGTGCCTAGCAGCCTTT-TGCTG
1 A-TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGC-G
* * * * *
11813840 GTGATATTCGAGCTATATGCCTAACAGGCTATGTGTCG
1 ATGATATTCGGGCTATGTGCCTAGCAGGCTTTGTG-CG
*
11813878 GTGATATTCGGGC-ATTGTGCC
1 ATGATATTCGGGCTA-TGTGCC
11813899 GATGTTATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
37 33 0.29
38 79 0.70
39 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (37 bp):
ATGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCG
Found at i:11813897 original size:75 final size:76
Alignment explanation
Indices: 11813728--11813898 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 76
11813718 AGAAATGTAA
* * * * **
11813728 TGATATTCGGGCTATGTACCTAGCAGGCTTTGTGTCGATGATATTCGGGCTATGTGCCTAGTAGG
1 TGATATTCGGGCTATGTGCCTAGCAGCCTTTGTGTCGATGATATTCGAGCTATATGCCTAACAGG
*
11813793 CTGTGTGCCAG
66 CTATGTGCCAG
* *
11813804 TGATATTCGAGCTATGTGCCTAGCAGCCTTT-TG-CTGGTGATATTCGAGCTATATGCCTAACAG
1 TGATATTCGGGCTATGTGCCTAGCAGCCTTTGTGTC-GATGATATTCGAGCTATATGCCTAACAG
* *
11813867 GCTATGTGTCGG
65 GCTATGTGCCAG
11813879 TGATATTCGGGC-ATTGTGCC
1 TGATATTCGGGCTA-TGTGCC
11813899 GATGTTATTC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
74 2 0.02
75 51 0.63
76 28 0.35
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.33
Consensus pattern (76 bp):
TGATATTCGGGCTATGTGCCTAGCAGCCTTTGTGTCGATGATATTCGAGCTATATGCCTAACAGG
CTATGTGCCAG
Found at i:11813943 original size:38 final size:38
Alignment explanation
Indices: 11813892--11813979 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
11813882 TATTCGGGCA
* * **
11813892 TTGTGCCGATGTTATTCGGGCTTCGGGCCTAGCAGGCT
1 TTGTGCCGATGTTATTCAGGCTCCAAGCCTAGCAGGCT
11813930 TTGTGCC-AGTGTTATTCAGGCTCCAAGCCTAGCAGGCT
1 TTGTGCCGA-TGTTATTCAGGCTCCAAGCCTAGCAGGCT
*
11813968 TTGTGCTGATGT
1 TTGTGCCGATGT
11813980 ATTGAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 1 0.02
38 41 0.95
39 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.31, T:0.33
Consensus pattern (38 bp):
TTGTGCCGATGTTATTCAGGCTCCAAGCCTAGCAGGCT
Found at i:11817810 original size:26 final size:27
Alignment explanation
Indices: 11817754--11817810 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11817744 AATATTATAT
*
11817754 TTTTAAAATAGTTTTAATAATTGTTAT
1 TTTTAAAATAGTTTTAATAATTGTTAA
* * *
11817781 TTTTAAAATATTTTTTATCATT-TTAA
1 TTTTAAAATAGTTTTAATAATTGTTAA
11817807 TTTT
1 TTTT
11817811 TTTAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTAAAATAGTTTTAATAATTGTTAA
Found at i:11819299 original size:31 final size:29
Alignment explanation
Indices: 11819257--11819319 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
11819247 TGATTAATAG
11819257 TAAAAAATAATTTAA-AATTCAATTTTTTTAT
1 TAAAAAATAA-TTAATAA-TCAA-TTTTTTAT
*
11819288 TAAATAATAATTAATTAATCAATTTTTTAT
1 TAAAAAATAATTAA-TAATCAATTTTTTAT
11819318 TA
1 TA
11819320 GTAATGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 14 0.48
31 13 0.45
32 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAAAATAATTAATAATCAATTTTTTAT
Found at i:11820472 original size:21 final size:20
Alignment explanation
Indices: 11820398--11820474 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
11820388 ACCTGTCCCT
* *
11820398 ACGGCCATGTTCCTGGTCCAC
1 ACGGCCATGTGCCT-CTCCAC
* *
11820419 GCGGACATGTGCCTCTCTTCAC
1 ACGGCCATGTGCCTCTC--CAC
*
11820441 ACTGG-CGTGTGCCTCATCCAC
1 AC-GGCCATGTGCCTC-TCCAC
11820462 ACGGCCATGTGCC
1 ACGGCCATGTGCC
11820475 CTTCCTCATA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 23 0.52
22 13 0.30
23 4 0.09
ACGTcount: A:0.14, C:0.38, G:0.25, T:0.23
Consensus pattern (20 bp):
ACGGCCATGTGCCTCTCCAC
Found at i:11824892 original size:25 final size:25
Alignment explanation
Indices: 11824862--11824912 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
11824852 ACACAATTCA
11824862 AACAGAACAAAACCGAATAGAGCAG
1 AACAGAACAAAACCGAATAGAGCAG
* **
11824887 AACAGAATAAAATGGAATAGAGCAG
1 AACAGAACAAAACCGAATAGAGCAG
11824912 A
1 A
11824913 GCAATGCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.57, C:0.14, G:0.22, T:0.08
Consensus pattern (25 bp):
AACAGAACAAAACCGAATAGAGCAG
Found at i:11825639 original size:19 final size:18
Alignment explanation
Indices: 11825615--11825668 Score: 83
Period size: 17 Copynumber: 2.9 Consensus size: 18
11825605 ATAATCTTCA
11825615 ATGATATGCAATCTTAGAT
1 ATGATAT-CAATCTTAGAT
11825634 ATGATA-CAATCTTAGAT
1 ATGATATCAATCTTAGAT
11825651 ATGATATACAATCTTAGA
1 ATGATAT-CAATCTTAGA
11825669 AGATATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (18 bp):
ATGATATCAATCTTAGAT
Found at i:11825673 original size:17 final size:17
Alignment explanation
Indices: 11825617--11825674 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
11825607 AATCTTCAAT
*
11825617 GATATGCAATCTTAG-A
1 GATATACAATCTTAGAA
*
11825633 TATGATACAATCTTAGATA
1 GAT-ATACAATCTTAGA-A
11825652 TGATATACAATCTTAGAA
1 -GATATACAATCTTAGAA
11825670 GATAT
1 GATAT
11825675 GATTTTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 16 0.46
18 1 0.03
19 14 0.40
20 2 0.06
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (17 bp):
GATATACAATCTTAGAA
Found at i:11825989 original size:12 final size:12
Alignment explanation
Indices: 11825974--11826007 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11825964 TATTTTTAAT
11825974 TTATTATATATA
1 TTATTATATATA
*
11825986 TTATTATATATG
1 TTATTATATATA
11825998 TTATT-TATAT
1 TTATTATATAT
11826008 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTATATATA
Found at i:11826040 original size:7 final size:7
Alignment explanation
Indices: 11826023--11826129 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
11826013 AAATTTGTAA
11826023 ATTAT-T
1 ATTATAT
11826029 ATTATAT
1 ATTATAT
11826036 ATTATAT
1 ATTATAT
11826043 -TT-TA-
1 ATTATAT
11826047 ACTTATAT
1 A-TTATAT
11826055 ATCTTATAT
1 A--TTATAT
*
11826064 ATTTATTT
1 A-TTATAT
11826072 ATT-TAT
1 ATTATAT
*
11826078 ATTATAC
1 ATTATAT
11826085 ATTAT-T
1 ATTATAT
* *
11826091 -TTAAAA
1 ATTATAT
*
11826097 ACTTACAT
1 A-TTATAT
*
11826105 -TTTTAT
1 ATTATAT
11826111 ATTATAT
1 ATTATAT
*
11826118 ATTATAA
1 ATTATAT
11826125 ATTAT
1 ATTAT
11826130 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:11826073 original size:21 final size:21
Alignment explanation
Indices: 11826031--11826165 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
11826021 AAATTATTAT
*
11826031 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
11826052 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
11826073 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
11826092 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
11826113 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
11826134 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
11826150 TATACTATCATATATT
1 TATA-TATTATATATT
11826166 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 20 0.24
20 17 0.20
21 36 0.43
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:11826685 original size:35 final size:35
Alignment explanation
Indices: 11826644--11826723 Score: 133
Period size: 35 Copynumber: 2.2 Consensus size: 35
11826634 TATATTTTAC
*
11826644 TTATTTAAAATTTTCCATATTTTATATTTCTTATA
1 TTATTTAAAATTTGCCATATTTTATATTTCTTATA
11826679 TTATTTAAAATTTGCCATATTTTATATTTCTTATA
1 TTATTTAAAATTTGCCATATTTTATATTTCTTATA
11826714 TATATATTAA
1 T-TAT-TTAA
11826724 TTAATGTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
35 35 0.83
36 3 0.07
37 4 0.10
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (35 bp):
TTATTTAAAATTTGCCATATTTTATATTTCTTATA
Found at i:11828102 original size:24 final size:21
Alignment explanation
Indices: 11828075--11828120 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
11828065 ACTCCATAAA
11828075 AATCATACAAAAGAATGAGAAATG
1 AATCAT-CAAAA-AATGA-AAATG
*
11828099 AATCATTAAAAAATGAAAATG
1 AATCATCAAAAAATGAAAATG
11828120 A
1 A
11828121 TAAAGAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 5 0.24
23 4 0.19
24 6 0.29
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.20
Consensus pattern (21 bp):
AATCATCAAAAAATGAAAATG
Found at i:11828547 original size:42 final size:42
Alignment explanation
Indices: 11828488--11828602 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
11828478 TTACATGGCG
* *
11828488 TGGACACACACTCATGTCCTTGCCCGTATGGCTCACACAGCC
1 TGGACACACGCCCATGTCCTTGCCCGTATGGCTCACACAGCC
* * *
11828530 TGGACACACGCCCATGTCCTTGCTCGTATGGCTCACACGGCT
1 TGGACACACGCCCATGTCCTTGCCCGTATGGCTCACACAGCC
* *
11828572 TGGGCACATGCCCATGTCCCTTG-CCGTATGG
1 TGGACACACGCCCATGT-CCTTGCCCGTATGG
11828603 TTCTAAAGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 59 0.92
43 5 0.08
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (42 bp):
TGGACACACGCCCATGTCCTTGCCCGTATGGCTCACACAGCC
Found at i:11831380 original size:104 final size:104
Alignment explanation
Indices: 11831094--11831457 Score: 600
Period size: 104 Copynumber: 3.6 Consensus size: 104
11831084 TAACCGTTAT
* *
11831094 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
11831159 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11831197 ---TGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11831258 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
11831297 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11831362 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
11831401 TGGTGGATCA-CGCACATAGCACCACC-AT-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11831458 TTATATACAA
Statistics
Matches: 248, Mismatches: 7, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
99 56 0.23
100 40 0.16
102 26 0.10
103 31 0.12
104 94 0.38
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11831813 original size:29 final size:29
Alignment explanation
Indices: 11831780--11831843 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11831770 TAATCCACCA
11831780 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11831809 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11831839 CCCAA
1 CCCAA
11831844 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11831817 original size:30 final size:30
Alignment explanation
Indices: 11831787--11831843 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11831777 CCACCCAACT
11831787 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11831816 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11831844 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11838827 original size:26 final size:26
Alignment explanation
Indices: 11838797--11838847 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11838787 ACCAATGAAC
*
11838797 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
11838823 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
11838848 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:11838921 original size:103 final size:103
Alignment explanation
Indices: 11838664--11839026 Score: 587
Period size: 103 Copynumber: 3.6 Consensus size: 103
11838654 TAACCGTTAT
* * *
11838664 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
*
11838729 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11838767 ---TGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
11838829 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11838867 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
11838932 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
11838970 TGGTGGATCA-CGCACATAGCACCACC-AT-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
11839027 TTATATACAA
Statistics
Matches: 247, Mismatches: 8, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
99 28 0.11
100 67 0.27
101 26 0.11
102 2 0.01
103 123 0.50
104 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11838930 original size:26 final size:26
Alignment explanation
Indices: 11838900--11838950 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11838890 ACCAATGAAC
*
11838900 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
11838926 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
11838951 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:11839383 original size:29 final size:29
Alignment explanation
Indices: 11839350--11839413 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11839340 TAATCCACCA
11839350 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11839379 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11839409 CCCAA
1 CCCAA
11839414 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11839387 original size:30 final size:30
Alignment explanation
Indices: 11839357--11839413 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11839347 CCACCCAACT
11839357 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11839386 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11839414 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11842450 original size:9 final size:9
Alignment explanation
Indices: 11842436--11842677 Score: 119
Period size: 9 Copynumber: 27.6 Consensus size: 9
11842426 TACATGATAT
11842436 CATAACTTA
1 CATAACTTA
11842445 CATAACTTA
1 CATAACTTA
11842454 CATAA--TA
1 CATAACTTA
*
11842461 CATAA-ATA
1 CATAACTTA
* * *
11842469 TATATCATA
1 CATAACTTA
11842478 CAATAACTTA
1 C-ATAACTTA
*
11842488 CTTAACTTA
1 CATAACTTA
11842497 CATAACTTA
1 CATAACTTA
11842506 CATAA--TA
1 CATAACTTA
*
11842513 CATAA-ATA
1 CATAACTTA
** *
11842521 TTTATCATATA
1 CATAAC-T-TA
11842532 -ATAACTTA
1 CATAACTTA
*
11842540 TATAACTTA
1 CATAACTTA
11842549 CATAACTTA
1 CATAACTTA
*
11842558 CTTAACTTA
1 CATAACTTA
*
11842567 CGTAA--TA
1 CATAACTTA
*
11842574 CATAA-ATA
1 CATAACTTA
* ** *
11842582 TATTTCATA
1 CATAACTTA
*
11842591 TCATAATTTA
1 -CATAACTTA
11842601 CATAACTTA
1 CATAACTTA
*
11842610 CATACCTTA
1 CATAACTTA
* *
11842619 CAGAAATT-
1 CATAACTTA
* * *
11842627 TATATCATA
1 CATAACTTA
*
11842636 TCATAGCTTA
1 -CATAACTTA
11842646 CATAACTTA
1 CATAACTTA
*
11842655 CAAAACTTA
1 CATAACTTA
*
11842664 CTTAACTTA
1 CATAACTTA
11842673 CATAA
1 CATAA
11842678 TACATAAATA
Statistics
Matches: 177, Mismatches: 43, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
7 20 0.11
8 18 0.10
9 117 0.66
10 20 0.11
11 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:11842494 original size:52 final size:51
Alignment explanation
Indices: 11842436--11842689 Score: 238
Period size: 52 Copynumber: 4.7 Consensus size: 51
11842426 TACATGATAT
11842436 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAC-ATAACTTA
* *
11842488 CTTAACTTACATAACTTACATAATACATAAATATTTATCATATAATAACTTATATAACTTA
1 CATAACTTACATAACTTACATAATACAT-AA-A--TAT-ATATCAT-AC----ATAACTTA
* * * *
11842549 CATAACTTACTTAACTTACGTAATACATAAATATATTTCATATCATAATTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATA-CATAACTTA
* * ** * * *
11842601 CATAACTTACATACCTTACAGAAATTTATATCATATCATAGCTTACATAACTTA
1 CATAACTTACATAACTTACA-TAATACATA-AATAT-ATATCATACATAACTTA
* *
11842655 CAAAACTTACTTAACTTACATAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
11842690 CACTTGAAAA
Statistics
Matches: 162, Mismatches: 27, Indels: 27
0.75 0.12 0.12
Matches are distributed among these distances:
51 1 0.01
52 55 0.34
53 14 0.09
54 30 0.19
55 6 0.04
56 9 0.06
57 9 0.06
58 2 0.01
59 1 0.01
60 2 0.01
61 33 0.20
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (51 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATACATAACTTA
Found at i:11842504 original size:61 final size:61
Alignment explanation
Indices: 11842436--11842620 Score: 212
Period size: 61 Copynumber: 3.2 Consensus size: 61
11842426 TACATGATAT
11842436 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACTTAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACTTAACTTA
*
11842497 CATAACTTACATAA--TACAT-A-A-AT--AT-T-TATCATATAATAACTTA-TATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACT-TAACTTA
* * * * *
11842549 CATAACTTACTTAACTTACGTAATACATAAATATATTTCATATC-ATAATTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATA-CAATAACTTACTTAACTTA
*
11842610 CATACCTTACA
1 CATAACTTACA
11842621 GAAATTTATA
Statistics
Matches: 103, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
51 1 0.01
52 36 0.35
53 1 0.01
54 6 0.06
55 1 0.01
56 3 0.03
57 3 0.03
58 1 0.01
59 7 0.07
60 1 0.01
61 43 0.42
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (61 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACTTAACTTA
Found at i:11842680 original size:106 final size:104
Alignment explanation
Indices: 11842494--11842689 Score: 295
Period size: 106 Copynumber: 1.9 Consensus size: 104
11842484 CTTACTTAAC
* * *
11842494 TTACATAACTTACATAATACATAAATATTTATCATATAATAACTTATATAACTTACATAACTTAC
1 TTACATAACTTACATAATACAGAAATATTTATCATATAATAACTTACATAACTTACAAAACTTAC
*
11842559 TTAACTTACGTAATACATAAATATATTTCATATCATAAT
66 TTAACTTACATAATACATAAATATATTTCATATCATAAT
* * *
11842598 TTACATAACTTACATACCTTACAGAAAT-TTATATCATATCATAGCTTACATAACTTACAAAACT
1 TTACATAACTTACATA--ATACAGAAATATT-TATCATATAATAACTTACATAACTTACAAAACT
11842662 TACTTAACTTACATAATACATAAATATA
63 TACTTAACTTACATAATACATAAATATA
11842690 CACTTGAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
104 16 0.20
105 2 0.02
106 64 0.78
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (104 bp):
TTACATAACTTACATAATACAGAAATATTTATCATATAATAACTTACATAACTTACAAAACTTAC
TTAACTTACATAATACATAAATATATTTCATATCATAAT
Found at i:11849025 original size:73 final size:73
Alignment explanation
Indices: 11848889--11849101 Score: 383
Period size: 73 Copynumber: 2.9 Consensus size: 73
11848879 ATGAAGATAT
*
11848889 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTAT-CCCGAGTTTCATTTGTATTA
1 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
11848953 AAAGCTAA
66 AAAGCTAA
* *
11848961 TTTTTACAAGCATGTATATGTACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
1 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
11849026 AAAGCTAA
66 AAAGCTAA
*
11849034 TTTTTGCATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
1 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
11849099 AAA
66 AAA
11849102 ATAAACATTT
Statistics
Matches: 134, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 42 0.31
73 92 0.69
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (73 bp):
TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
AAAGCTAA
Found at i:11852826 original size:130 final size:130
Alignment explanation
Indices: 11852530--11853151 Score: 642
Period size: 130 Copynumber: 4.8 Consensus size: 130
11852520 TATTATTGTG
* * * * * * *
11852530 AATCAAC-AACTTAG-GAAGGATTATTCATGATTGTAAATAAATAAACTTTGGCTGTTATCGTAA
1 AATCAACTAACTTAGAGAA-GATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAA
** * ** * * *
11852593 ATCAGTGAGCCTTAATAATATCAACTGTGATATTATATCA-CAAGTTGTTTGGAGTAGCAATAGT
65 ATCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGT
11852657 A
130 A
* * * * * *** * *
11852658 AATCAACTAACTTAAAGATGATTATTCGTAATAGTAAATCAATGAATTTAGGCCATGATTATAAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
** * * * *
11852723 TCAACGAGCCTTAATAATATCTGCCGTGATATTAAA-CTAGTGAGTTGTTTGGAGTAGCGATAAT
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATC-AGTGAGCTATTTGGAGTAGCGATAGT
11852787 A
130 A
* * * * * *
11852788 AATCAGCAAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTT-GAGTTGTGACCATAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAG-GTTGTAATCATAA
* *** * * * * *
11852852 ATCAACGAGCTTTAATAATATCAACTGTGGCCTTAAATCAGTGAGCTATCTGAAATAACTATAGT
65 ATCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGT
11852917 A
130 A
*
11852918 AATCAACTAACTTAGAGAATATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
* * * * *** *
11852983 TCAACGTGCCTTAATAAAATCAACTATTATATTAAATCAACAAGCTATTTGGAGTAGCGATACTA
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGTA
* *
11853048 AATCAACTAACTTAGAGAAGATTGTTTATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
** *
11853113 TCAGTGAGCCTTAATAATATCAACTATGATATTAAATCA
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCA
11853152 ACTATTGCAC
Statistics
Matches: 402, Mismatches: 85, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
128 8 0.02
129 72 0.18
130 320 0.80
131 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (130 bp):
AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGTA
Found at i:11861311 original size:3 final size:3
Alignment explanation
Indices: 11861303--11861394 Score: 56
Period size: 3 Copynumber: 33.3 Consensus size: 3
11861293 AGAATATTAG
* * * *
11861303 AAT AAT AAT AAT AAT ATT TAC AAT AA- AA- AAG AA- AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11861347 AAT -GT ACT AAT AAT -GT AAT AAT AAT AAT AAT AGT AAT AA- AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11861391 AAT A
1 AAT A
11861395 GTTCATATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
2 14 0.20
3 55 0.80
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11861526 original size:26 final size:27
Alignment explanation
Indices: 11861479--11861531 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
11861469 AATATATTAA
* *
11861479 TAATATTAAAAAAGTAGCAAATAATAAG
1 TAATAATAAAAAAG-AGAAAATAATAAG
11861507 TAATAATAAAAAAG-GAAAATAATAA
1 TAATAATAAAAAAGAGAAAATAATAA
11861532 AATAATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
28 13 0.57
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (27 bp):
TAATAATAAAAAAGAGAAAATAATAAG
Found at i:11861530 original size:188 final size:188
Alignment explanation
Indices: 11861322--11861886 Score: 992
Period size: 188 Copynumber: 3.0 Consensus size: 188
11861312 AATAATATTT
11861322 ACAATAAAAAA-GAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
* * *
11861386 AATATAATAGTTCATATAATATTAAAGCAATACTAAATATAATATGATAATAATAATTATAATGC
66 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
*
11861451 AGTACAAGAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
131 AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
* *
11861509 ATAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTGATAATAATAATAATAGTAATAA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
* *
11861574 AATATAATAGTTAACGTAATATTAAAGCAATACTAAATATAATGTGATAATAAAAATTATAATGC
66 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
*
11861639 AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATGATAAGTA
131 AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
11861697 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAAT-A
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
* *
11861761 AATATAATACTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTGTAATGC
66 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
*
11861826 AGTACAAAAAAATAAATAGAATGTATTAATAATATT-AAAAAGTAGCAAATAATAAGTA
131 AGTAC-AAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
11861884 ACA
1 ACA
11861887 TAATCATATT
Statistics
Matches: 359, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
187 101 0.28
188 258 0.72
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (188 bp):
ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
Found at i:11861577 original size:17 final size:18
Alignment explanation
Indices: 11861542--11861584 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
11861532 AATAATGTAC
*
11861542 TAATAAT-GTGATAATAA
1 TAATAATAGTAATAATAA
11861559 TAATAATAGTAATAA-AA
1 TAATAATAGTAATAATAA
11861576 T-ATAATAGT
1 TAATAATAGT
11861585 TAACGTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
TAATAATAGTAATAATAA
Found at i:11861768 original size:27 final size:27
Alignment explanation
Indices: 11861712--11861769 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
11861702 AAAAAAGGAA
* *
11861712 AATAATAAAATAATGTACTAATAATGT
1 AATAATAAAATAATGTAATAATAATAT
11861739 AATAATAATAATAATAGTAAT-A-AATAT
1 AATAATAA-AATAAT-GTAATAATAATAT
11861766 AATA
1 AATA
11861770 CTTAACATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.59
28 7 0.26
29 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (27 bp):
AATAATAAAATAATGTAATAATAATAT
Found at i:11862007 original size:21 final size:21
Alignment explanation
Indices: 11861933--11861994 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
11861923 ATAAACCTAA
* * *
11861933 TAATAATAAAAAAAATAATAT
1 TAATATTAAAAATAATTATAT
* *
11861954 TAAATATGATATAATAATTATAT
1 T-AATATTA-AAAATAATTATAT
11861977 TAATATTAAAAATAATTA
1 TAATATTAAAAATAATTA
11861995 ATTTAATGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 10 0.31
22 11 0.34
23 11 0.34
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATATTAAAAATAATTATAT
Found at i:11863113 original size:16 final size:16
Alignment explanation
Indices: 11863080--11863219 Score: 153
Period size: 17 Copynumber: 8.6 Consensus size: 16
11863070 AAGGTTAAAA
*
11863080 GGGTTTTGGG-TTGTT
1 GGGTTTTGGGATAGTT
11863095 GGGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTT
* *
11863111 GGGTTTAAGGGATAACTT
1 GGGTTT-TGGGAT-AGTT
11863129 -GGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTT
*
11863144 -GGTTTAAGGGATAGTT
1 GGGTTT-TGGGATAGTT
11863160 GGGTTTAAT-GGATAGTT
1 GGGTTT--TGGGATAGTT
11863177 GGGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTT
*
11863193 GGGTTTAAGGGATAGTT
1 GGGTTT-TGGGATAGTT
11863210 GGGTTTTGGG
1 GGGTTTTGGG
11863220 CCGGGCAAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
15 19 0.18
16 41 0.38
17 44 0.41
18 4 0.04
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.41
Consensus pattern (16 bp):
GGGTTTTGGGATAGTT
Found at i:11863124 original size:17 final size:17
Alignment explanation
Indices: 11863092--11863215 Score: 159
Period size: 17 Copynumber: 7.5 Consensus size: 17
11863082 GTTTTGGGTT
*
11863092 GTTGGGTTT-TGGGATA
1 GTTGGGTTTAAGGGATA
11863108 GTTGGGTTTAAGGGATAA
1 GTTGGGTTTAAGGGAT-A
* *
11863126 CTT-GGTTT-TGGGATA
1 GTTGGGTTTAAGGGATA
11863141 GTT-GGTTTAAGGGATA
1 GTTGGGTTTAAGGGATA
*
11863157 GTTGGGTTTAATGGATA
1 GTTGGGTTTAAGGGATA
*
11863174 GTTGGGTTT-TGGGATA
1 GTTGGGTTTAAGGGATA
11863190 GTTGGGTTTAAGGGATA
1 GTTGGGTTTAAGGGATA
11863207 GTTGGGTTT
1 GTTGGGTTT
11863216 TGGGCCGGGC
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.09
16 37 0.39
17 46 0.49
18 3 0.03
ACGTcount: A:0.19, C:0.01, G:0.40, T:0.41
Consensus pattern (17 bp):
GTTGGGTTTAAGGGATA
Found at i:11863134 original size:33 final size:34
Alignment explanation
Indices: 11863092--11863215 Score: 161
Period size: 33 Copynumber: 3.8 Consensus size: 34
11863082 GTTTTGGGTT
11863092 GTTGGGTTT-TGGGATAGTTGGGTTTAAGGGATAA
1 GTTGGGTTTATGGGATAGTTGGGTTTAAGGGAT-A
*
11863126 CTT-GGTTT-TGGGATAGTT-GGTTTAAGGGATA
1 GTTGGGTTTATGGGATAGTTGGGTTTAAGGGATA
*
11863157 GTTGGGTTTAAT-GGATAGTTGGGTTT-TGGGATA
1 GTTGGGTTT-ATGGGATAGTTGGGTTTAAGGGATA
*
11863190 GTTGGGTTTAAGGGATAGTTGGGTTT
1 GTTGGGTTTATGGGATAGTTGGGTTT
11863216 TGGGCCGGGC
Statistics
Matches: 81, Mismatches: 4, Indels: 11
0.84 0.04 0.11
Matches are distributed among these distances:
31 3 0.04
32 18 0.22
33 52 0.64
34 8 0.10
ACGTcount: A:0.19, C:0.01, G:0.40, T:0.41
Consensus pattern (34 bp):
GTTGGGTTTATGGGATAGTTGGGTTTAAGGGATA
Found at i:11863159 original size:49 final size:50
Alignment explanation
Indices: 11863080--11863215 Score: 199
Period size: 49 Copynumber: 2.8 Consensus size: 50
11863070 AAGGTTAAAA
* *
11863080 GGGTTTTGGG-TTGTTGGGTTT-TGGGATAGTTGGGTTTAAGGGATAACTT
1 GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTTGGGTTTAAGGGAT-ACTT
* *
11863129 -GGTTTTGGGATAGTT-GGTTTAAGGGATAGTTGGGTTTAATGGATAGTT
1 GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTTGGGTTTAAGGGATACTT
11863177 GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTTGGGTTT
1 GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTTGGGTTT
11863216 TGGGCCGGGC
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
48 17 0.22
49 40 0.51
50 22 0.28
ACGTcount: A:0.17, C:0.01, G:0.40, T:0.42
Consensus pattern (50 bp):
GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTTGGGTTTAAGGGATACTT
Found at i:11863216 original size:33 final size:32
Alignment explanation
Indices: 11863080--11863219 Score: 151
Period size: 33 Copynumber: 4.3 Consensus size: 32
11863070 AAGGTTAAAA
* *
11863080 GGGTTTTGGG-TTGTTGGGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTTGGGTTTAGGGATAGTT
* * *
11863111 GGGTTTAAGGGATAACTT-GGTTTTGGGATAGTT
1 GGGTTT-TGGGAT-AGTTGGGTTTAGGGATAGTT
* *
11863144 -GGTTTAAGGGATAGTTGGGTTTAATGGATAGTT
1 GGGTTT-TGGGATAGTTGGGTTT-AGGGATAGTT
11863177 GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTT
1 GGGTTTTGGGATAGTTGGGTTT-AGGGATAGTT
11863210 GGGTTTTGGG
1 GGGTTTTGGG
11863220 CCGGGCAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
31 9 0.09
32 20 0.21
33 59 0.62
34 7 0.07
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.41
Consensus pattern (32 bp):
GGGTTTTGGGATAGTTGGGTTTAGGGATAGTT
Found at i:11863672 original size:66 final size:66
Alignment explanation
Indices: 11863590--11863785 Score: 320
Period size: 66 Copynumber: 3.0 Consensus size: 66
11863580 CAATCTACTC
* * * * * *
11863590 CGCTGAAACTTCAAGGAGATCTGCTGTGACTTCGAGCCGCTCCAATGCTATTTCAGGGAGAAGAT
1 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
11863655 T
66 T
11863656 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
1 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
11863721 T
66 T
* *
11863722 TGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCTGCTCCAACGCCATTTCAGGGAGAAGA
1 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGA
11863786 GAGTTGTAAT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (66 bp):
CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
T
Found at i:11863953 original size:88 final size:88
Alignment explanation
Indices: 11863793--11863967 Score: 197
Period size: 88 Copynumber: 2.0 Consensus size: 88
11863783 AGAGAGTTGT
* * *
11863793 AATTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACCGTATTTGACCTACTCCACTA
1 AATTTCTAGCCTGTTACCCTACTACTTAGGGAGTTAAGGCTTACCGTATTCGACCTACTCCACTA
* * *
11863858 TTGCTTAGGGAGGTAAGATCTGA
66 CTACTTAGGGAGATAAGATCTGA
* * * ** * * ** *
11863881 AATTTTTAGCTTGTTACCCTATTACTTAGGGAGTTAAGGCTTATTGTCTTCGATCTGTTCCCCTA
1 AATTTCTAGCCTGTTACCCTACTACTTAGGGAGTTAAGGCTTACCGTATTCGACCTACTCCACTA
*
11863946 CTACTTAGGGTGATAAGATCTG
66 CTACTTAGGGAGATAAGATCTG
11863968 CGAATTCACT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (88 bp):
AATTTCTAGCCTGTTACCCTACTACTTAGGGAGTTAAGGCTTACCGTATTCGACCTACTCCACTA
CTACTTAGGGAGATAAGATCTGA
Found at i:11875550 original size:13 final size:13
Alignment explanation
Indices: 11875532--11875557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11875522 AATAATGAAA
11875532 AATATTAAAATAT
1 AATATTAAAATAT
11875545 AATATTAAAATAT
1 AATATTAAAATAT
11875558 TAAAATAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTAAAATAT
Found at i:11875615 original size:11 final size:11
Alignment explanation
Indices: 11875601--11875645 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
11875591 GAAATAATAA
*
11875601 AATAATGTACT
1 AATAATGTAAT
11875612 AATAATGTAAT
1 AATAATGTAAT
11875623 AATAATAGTAAT
1 AATAAT-GTAAT
*
11875635 AA-AATATAAT
1 AATAATGTAAT
11875645 A
1 A
11875646 GTTAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 5 0.16
11 19 0.61
12 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (11 bp):
AATAATGTAAT
Found at i:11875658 original size:17 final size:16
Alignment explanation
Indices: 11875614--11875699 Score: 57
Period size: 17 Copynumber: 4.9 Consensus size: 16
11875604 AATGTACTAA
*
11875614 TAATGTAATAATAATAG
1 TAATATAAT-ATAATAG
*
11875631 TAATAAAATATAATAG
1 TAATATAATATAATAG
11875647 TTAATATAATATTAA-AG
1 -TAATATAATA-TAATAG
*
11875664 CAATACTAAATATAATATG
1 TAATA-T-AATATAATA-G
11875683 ATAATAATAATTATAAT
1 -TAAT-ATAA-TATAAT
11875700 CCAGTACAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 11 0.20
17 22 0.40
18 8 0.15
19 3 0.05
20 10 0.18
21 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (16 bp):
TAATATAATATAATAG
Found at i:11875985 original size:3 final size:3
Alignment explanation
Indices: 11875964--11876016 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
11875954 AAAAAAGGAA
* *
11875964 AAT AAT AA- AAT AAT -GT AAT AAT AAT -GT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11876008 AAT -AT AAT A
1 AAT AAT AAT A
11876017 CTTAACATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11875988 original size:11 final size:11
Alignment explanation
Indices: 11875972--11876007 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
11875962 AAAATAATAA
11875972 AATAATGTAAT
1 AATAATGTAAT
11875983 AATAATGTAAT
1 AATAATGTAAT
11875994 AATAA--TAAT
1 AATAATGTAAT
11876003 AATAA
1 AATAA
11876008 AATATAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (11 bp):
AATAATGTAAT
Found at i:11876011 original size:11 final size:12
Alignment explanation
Indices: 11875964--11876016 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
11875954 AAAAAAGGAA
11875964 AATAATAA-AAT
1 AATAATAATAAT
*
11875975 AAT-GTAATAAT
1 AATAATAATAAT
*
11875986 AAT-GTAATAAT
1 AATAATAATAAT
11875997 AATAATAATAA-
1 AATAATAATAAT
11876008 AAT-ATAATA
1 AATAATAATA
11876017 CTTAACATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
10 9 0.24
11 23 0.61
12 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (12 bp):
AATAATAATAAT
Found at i:11876058 original size:182 final size:182
Alignment explanation
Indices: 11875580--11876133 Score: 880
Period size: 189 Copynumber: 3.0 Consensus size: 182
11875570 AATAATATTT
*
11875580 ACAATAAAAAA-G-AAATAATAAAATAATGTACTAATAATGTAATAATAATAGTAATAAAATATA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAAAATATA
* * *
11875643 ATAGTTAATATAATATTAAAGCAATACTAAATATAATATGATAATAATAATTATAATCCAGTACA
66 ATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGCAGTACA
*
11875708 AGAAATAAATAGAATATATTAATAATATTAAAAAAAGTAGCAAATAATAAGTA
131 AAAAATAAATAGAATATATTAATAATATT-AAAAAAGTAGCAAATAATAAGTA
* * *
11875761 ACAATAAAAAAGAAAAATATTAAAATAATGTACTAAGAATGTGATAATAATAATAATAGTAATAA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAA--TG-TAATAATAAT-A-A-TAATAA
*
11875826 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATGTGATAATAAAAATTATAATGC
60 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
* *
11875891 AGTACAAAAAATAAAAAGAATATATTAATAATATTAAAAAAGTAGCAAATGATAAGTA
125 AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
*
11875949 ACAATAAAAAAGGAAAATAATAAAATAATGTAATAATAATGTAATAATAATAATAATAAAATATA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAAAATATA
* *
11876014 ATACTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTGTAATGCAGTACA
66 ATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGCAGTAC-
*
11876079 AAAAAATAAATAGAATGTATTAATAATATT-AAAAAGTAGCAAATAATAAGTA
130 AAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
11876131 ACA
1 ACA
11876134 TAATCATATT
Statistics
Matches: 343, Mismatches: 21, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
181 11 0.03
182 97 0.28
183 52 0.15
184 1 0.00
185 12 0.03
186 12 0.03
187 1 0.00
188 57 0.17
189 100 0.29
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (182 bp):
ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAAAATATA
ATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGCAGTACA
AAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
Found at i:11877401 original size:17 final size:17
Alignment explanation
Indices: 11877375--11877413 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11877365 ATTTTAGGTT
* *
11877375 GTTGGGTTTAAGGGATA
1 GTTGGATTTAAAGGATA
11877392 GTTGGATTTAAAGGATA
1 GTTGGATTTAAAGGATA
*
11877409 ATTGG
1 GTTGG
11877414 GTTTTGGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (17 bp):
GTTGGATTTAAAGGATA
Found at i:11885522 original size:17 final size:19
Alignment explanation
Indices: 11885500--11885538 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11885490 GTGGTGTGGA
11885500 AAAGTTTA-A-TAAAATTC
1 AAAGTTTACAGTAAAATTC
11885517 AAAGTTTACGAGTAAAATTC
1 AAAGTTTAC-AGTAAAATTC
11885537 AA
1 AA
11885539 TCACATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAGTTTACAGTAAAATTC
Found at i:11885590 original size:53 final size:53
Alignment explanation
Indices: 11885527--11885633 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
11885517 AAAGTTTACG
11885527 AGTAAAATTCAATCACATAAAAGTGGAATGACAAATTTATTCATAGTTTAAAA
1 AGTAAAATTCAATCACATAAAAGTGGAATGACAAATTTATTCATAGTTTAAAA
11885580 AGTAAAATTCAATCACATAAAAGTGGAATGACAAATTTATTCATAGTTTAAAA
1 AGTAAAATTCAATCACATAAAAGTGGAATGACAAATTTATTCATAGTTTAAAA
11885633 A
1 A
11885634 TATAAGGCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (53 bp):
AGTAAAATTCAATCACATAAAAGTGGAATGACAAATTTATTCATAGTTTAAAA
Found at i:11886438 original size:15 final size:16
Alignment explanation
Indices: 11886404--11886440 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11886394 AACTGGCCCC
11886404 TTTAATTCTTAAATTT
1 TTTAATTCTTAAATTT
11886420 TTTAATT-TT-AATTT
1 TTTAATTCTTAAATTT
11886434 ATTTAAT
1 -TTTAAT
11886441 AATTTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTCTTAAATTT
Found at i:11888287 original size:12 final size:12
Alignment explanation
Indices: 11888270--11888296 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11888260 TTAGTCCCTA
11888270 ACACATAGGAAC
1 ACACATAGGAAC
11888282 ACACATAGGAAC
1 ACACATAGGAAC
11888294 ACA
1 ACA
11888297 TTTAGTCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.15, T:0.07
Consensus pattern (12 bp):
ACACATAGGAAC
Found at i:11894933 original size:7 final size:7
Alignment explanation
Indices: 11894921--11895016 Score: 57
Period size: 7 Copynumber: 13.7 Consensus size: 7
11894911 TATATATATA
11894921 TAGGGTT
1 TAGGGTT
11894928 TAGGGTT
1 TAGGGTT
* *
11894935 TAGGATG
1 TAGGGTT
* *
11894942 TATGATT
1 TAGGGTT
* *
11894949 CAAGGTT
1 TAGGGTT
*
11894956 TAGGATT
1 TAGGGTT
*
11894963 TAGGGTA
1 TAGGGTT
* *
11894970 TATGATT
1 TAGGGTT
*
11894977 TAGGATT
1 TAGGGTT
*
11894984 TAGGGTA
1 TAGGGTT
*
11894991 TAGTGTT
1 TAGGGTT
**
11894998 TAGACTT
1 TAGGGTT
11895005 TAGGGTT
1 TAGGGTT
11895012 TAGGG
1 TAGGG
11895017 ATAAAATTTG
Statistics
Matches: 65, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (7 bp):
TAGGGTT
Found at i:11894956 original size:28 final size:27
Alignment explanation
Indices: 11894924--11894989 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
11894914 ATATATATAG
*
11894924 GGTTTAGGGTTTAGGATGTATGATTCAA
1 GGTTTAGGGTTTAGGATATATGATT-AA
* * *
11894952 GGTTTAGGATTTAGGGTATATGATTTA
1 GGTTTAGGGTTTAGGATATATGATTAA
11894979 GGATTTAGGGT
1 GG-TTTAGGGT
11894990 ATAGTGTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (27 bp):
GGTTTAGGGTTTAGGATATATGATTAA
Found at i:11894978 original size:21 final size:21
Alignment explanation
Indices: 11894953--11895010 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
11894943 ATGATTCAAG
11894953 GTTTAGGATTTAGGGTATA-T
1 GTTTAGGATTTAGGGTATAGT
11894973 GATTTAGGATTTAGGGTATAGT
1 G-TTTAGGATTTAGGGTATAGT
11894995 GTTTA-GACTTTAGGGT
1 GTTTAGGA-TTTAGGGT
11895011 TTAGGGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.09
21 30 0.86
22 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.43
Consensus pattern (21 bp):
GTTTAGGATTTAGGGTATAGT
Found at i:11901808 original size:23 final size:23
Alignment explanation
Indices: 11901782--11901839 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
11901772 TTTGGTGGCG
11901782 TGTCATACATGTGAATGGTCGCA
1 TGTCATACATGTGAATGGTCGCA
* * *
11901805 TGTCATACATGTGGATGTTCGCG
1 TGTCATACATGTGAATGGTCGCA
11901828 TGT-ATGACATGT
1 TGTCAT-ACATGT
11901840 TAGCAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTCATACATGTGAATGGTCGCA
Found at i:11902091 original size:53 final size:53
Alignment explanation
Indices: 11902018--11902121 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
11902008 TTAATAAAAG
11902018 TTAATTTTTCCATCCATTTTGGATAATTTGACAAATAATATAATTTTAAAATT
1 TTAATTTTTCCATCCATTTTGGATAATTTGACAAATAATATAATTTTAAAATT
11902071 TTAATTTTTCCATCCATTTTGGATAATTTGACAAATAATATAATTTTAAAA
1 TTAATTTTTCCATCCATTTTGGATAATTTGACAAATAATATAATTTTAAAA
11902122 GTTAAAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (53 bp):
TTAATTTTTCCATCCATTTTGGATAATTTGACAAATAATATAATTTTAAAATT
Found at i:11903568 original size:29 final size:29
Alignment explanation
Indices: 11903531--11903595 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
11903521 TGATTAATAG
* *
11903531 TAAAAAATAATTTAA-AATTCAATTTTTAT
1 TAAATAATAA-TTAATAATTCAAATTTTAT
*
11903560 TAAATAATAATTAATTATTCAAATTTTAT
1 TAAATAATAATTAATAATTCAAATTTTAT
11903589 T-AATAAT
1 TAAATAAT
11903596 GAAAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAATAATAATTAATAATTCAAATTTTAT
Found at i:11904949 original size:18 final size:16
Alignment explanation
Indices: 11904936--11904969 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
11904926 AATTTTAACC
11904936 TTTTTATATTTTTTCGAA
1 TTTTTATATTTTTT--AA
11904954 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
11904970 AAATGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
18 14 0.88
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:11905003 original size:20 final size:19
Alignment explanation
Indices: 11904978--11905035 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
11904968 AAAAATGTAA
11904978 ATTTTGAAATTTTTACAAAT
1 ATTTTGAAATTTTTA-AAAT
*
11904998 ATTTTGAAA-TTTAAAAATT
1 ATTTTGAAATTTTTAAAA-T
*
11905017 ATTTTGAATTTTTTAAAAT
1 ATTTTGAAATTTTTAAAAT
11905036 TATTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 14 0.42
20 16 0.48
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTTTGAAATTTTTAAAAT
Found at i:11905454 original size:22 final size:23
Alignment explanation
Indices: 11905412--11905469 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
11905402 TCACTTAACT
* *
11905412 TTAATTTTAATAACAAAATAATCAC
1 TTAATTTT--TAACAAAATAATAAA
11905437 TTAATTTTTAA-AAAATAATAAA
1 TTAATTTTTAACAAAATAATAAA
*
11905459 TTAATTATTAA
1 TTAATTTTTAA
11905470 TGTTATCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.63
23 3 0.10
25 8 0.27
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAATTTTTAACAAAATAATAAA
Found at i:11911639 original size:10 final size:10
Alignment explanation
Indices: 11911607--11911648 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
11911597 TTTAATGTTT
11911607 TAATTTCTTTA
1 TAATTT-TTTA
11911618 TATATTTTTTA
1 TA-ATTTTTTA
*
11911629 TAATATTTTA
1 TAATTTTTTA
11911639 TAATTTTTTA
1 TAATTTTTTA
11911649 AAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:11911676 original size:18 final size:19
Alignment explanation
Indices: 11911655--11911691 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11911645 TTTAAAAAAA
11911655 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
11911673 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
11911692 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:11911730 original size:19 final size:19
Alignment explanation
Indices: 11911660--11911723 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
11911650 AAAAATATAA
11911660 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AATTTTTA-AAATT
* *
11911680 ATTTTGAATTTTAAAAATT
1 ATTTTAAATTTTTAAAATT
*
11911699 ATTTTAAAATTTTAAAATT
1 ATTTTAAATTTTTAAAATT
11911718 ATTTTA
1 ATTTTA
11911724 TTTTTTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
18 3 0.08
19 30 0.79
20 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAATT
Found at i:11914166 original size:29 final size:29
Alignment explanation
Indices: 11914133--11914190 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11914123 CAAGCATCCA
11914133 CGGTACGTAGTTCGGATTGTGTGACTATC
1 CGGTACGTAGTTCGGATTGTGTGACTATC
*
11914162 CGGTACGTAGTTTGGATTGTGTGACTATC
1 CGGTACGTAGTTCGGATTGTGTGACTATC
11914191 TGTGTAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (29 bp):
CGGTACGTAGTTCGGATTGTGTGACTATC
Found at i:11916852 original size:21 final size:21
Alignment explanation
Indices: 11916812--11916867 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
11916802 GGAGCAGAGA
**
11916812 TATCAATACTTGCT-AAAAGG
1 TATCAATACTTTTTGAAAAGG
11916832 TAT-AGATACTTTTTGAAAAGG
1 TATCA-ATACTTTTTGAAAAGG
11916853 TATCAATACTTTTTG
1 TATCAATACTTTTTG
11916868 TCATTGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 10 0.32
21 19 0.61
22 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
TATCAATACTTTTTGAAAAGG
Found at i:11917293 original size:32 final size:32
Alignment explanation
Indices: 11917250--11917316 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
11917240 ATTTTAAAAA
*
11917250 TTATATTTAATACAATATAACAATTATTATAT
1 TTATATTTAATACAATAAAACAATTATTATAT
* * * * *
11917282 TTATTTTTAATATAATAAAATATTTATTTTAT
1 TTATATTTAATACAATAAAACAATTATTATAT
11917314 TTA
1 TTA
11917317 CAATAGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (32 bp):
TTATATTTAATACAATAAAACAATTATTATAT
Found at i:11917571 original size:26 final size:26
Alignment explanation
Indices: 11917531--11917591 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
11917521 GAGCTACTAT
11917531 TATCCAAATGCTAATGAAAGTCTTGA
1 TATCCAAATGCTAATGAAAGTCTTGA
* *
11917557 TATCCAAATGTTAATGAAAGTCTTGT
1 TATCCAAATGCTAATGAAAGTCTTGA
11917583 TATCCAAAT
1 TATCCAAAT
11917592 TCCCTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
TATCCAAATGCTAATGAAAGTCTTGA
Found at i:11919245 original size:13 final size:13
Alignment explanation
Indices: 11919223--11919254 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11919213 CAAAAACTGT
*
11919223 TATTTCTTTTTAC
1 TATTTTTTTTTAC
11919236 TATTTTTTTTTAC
1 TATTTTTTTTTAC
11919249 TATTTT
1 TATTTT
11919255 GTTGCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTTTTTTAC
Found at i:11919254 original size:11 final size:11
Alignment explanation
Indices: 11919229--11919288 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
11919219 CTGTTATTTC
11919229 TTTTTACTATTTT
1 TTTTTACTA--TT
11919242 TTTTTACTATT
1 TTTTTACTATT
* *
11919253 TTGTTGCTATT
1 TTTTTACTATT
* *
11919264 TTCTTATTATT
1 TTTTTACTATT
11919275 TTTTTCACTATT
1 TTTTT-ACTATT
11919287 TT
1 TT
11919289 ACTACAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
11 23 0.59
12 7 0.18
13 9 0.23
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (11 bp):
TTTTTACTATT
Found at i:11921127 original size:69 final size:68
Alignment explanation
Indices: 11921052--11921198 Score: 177
Period size: 68 Copynumber: 2.1 Consensus size: 68
11921042 AGTGAAAATC
* * * *
11921052 AACACATTTGAACAGCTTAATTAATTAAATAAAACCACATAATTGACAGCACATTTGGACAGTGA
1 AACACATTTGAACAGCTTAATTAACT-AATAAAACAACATAAATGACAGCACATTAGGACAGTGA
11921117 ATTT
65 ATTT
* * * * * * *
11921121 AGCACATTTGGATAGCTTTATTGACTAATAAAACAACATAAATGACGGGACATTAGGACAGTGAA
1 AACACATTTGAACAGCTTAATTAACTAATAAAACAACATAAATGACAGCACATTAGGACAGTGAA
11921186 TTT
66 TTT
*
11921189 AACAAATTTG
1 AACACATTTG
11921199 CACAAGCAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
68 45 0.69
69 20 0.31
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (68 bp):
AACACATTTGAACAGCTTAATTAACTAATAAAACAACATAAATGACAGCACATTAGGACAGTGAA
TTT
Found at i:11924394 original size:24 final size:24
Alignment explanation
Indices: 11924341--11924394 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
11924331 AATCAAAAAA
* **
11924341 AGAAAAAGCATTCCAAAATCAATG
1 AGAAAAAGCAATCCAAAAGAAATG
11924365 AGAAAAAGCAATCCAAAAGAAAT-
1 AGAAAAAGCAATCCAAAAGAAATG
11924388 AGAAAAA
1 AGAAAAA
11924395 TATGAATTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.11
Consensus pattern (24 bp):
AGAAAAAGCAATCCAAAAGAAATG
Found at i:11927417 original size:14 final size:13
Alignment explanation
Indices: 11927390--11927427 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
11927380 GGGTATATAA
*
11927390 TTAATTAAATTAT
1 TTAATTATATTAT
11927403 TTAATTTATATTAT
1 TTAA-TTATATTAT
11927417 TTAATTATATT
1 TTAATTATATT
11927428 GTACATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:11929979 original size:21 final size:21
Alignment explanation
Indices: 11929954--11930002 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11929944 GAAGGGTAGT
*
11929954 ACACGGCCGTGTGACAG-AGGC
1 ACACGGCCGAGTGA-AGTAGGC
* *
11929975 ACACGTCCGAGTGAAGTAGGG
1 ACACGGCCGAGTGAAGTAGGC
11929996 ACACGGC
1 ACACGGC
11930003 TGTTTGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (21 bp):
ACACGGCCGAGTGAAGTAGGC
Found at i:11930288 original size:60 final size:59
Alignment explanation
Indices: 11930109--11930294 Score: 171
Period size: 60 Copynumber: 3.1 Consensus size: 59
11930099 GCCACAGCCA
* * * *
11930109 TGTGTCCCATAACACACGCCCGTGTGGAATCCCT-A-GGCCCCAAATCAGTCACATGGTCA
1 TGTGTCCCATAACACACGCCCGTGT-GAAACCCTAATTG-CCCAAATCAGTCACATGGCCG
* * * * ** * * * *
11930168 TGTGTCCCGA-AGCATAGGCTCGTGTGAGAACCCTAATTTTCAAAATTAGTTACATAGCCG
1 TGTGTCCC-ATAACACACGCCCGTGTGA-AACCCTAATTGCCCAAATCAGTCACATGGCCG
*
11930228 TGTGTCCCATAACACACGCCCGTGTGAAAGCCCTAATTGCCCAAATCAGTCACACGGCCG
1 TGTGTCCCATAACACACGCCCGTGTGAAA-CCCTAATTGCCCAAATCAGTCACATGGCCG
11930288 TGTGTCC
1 TGTGTCC
11930295 AATGGACACG
Statistics
Matches: 96, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
58 2 0.02
59 27 0.28
60 67 0.70
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (59 bp):
TGTGTCCCATAACACACGCCCGTGTGAAACCCTAATTGCCCAAATCAGTCACATGGCCG
Found at i:11930830 original size:3 final size:3
Alignment explanation
Indices: 11930822--11930861 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11930812 AAAGATAACC
11930822 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11930862 GCAAAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11939243 original size:18 final size:18
Alignment explanation
Indices: 11939201--11939243 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
11939191 AAATCAGGAT
*
11939201 ATTACAAGGTTACAGAGC
1 ATTACAGGGTTACAGAGC
11939219 ATTACAGGGTTACAGAGC
1 ATTACAGGGTTACAGAGC
11939237 ATTACAG
1 ATTACAG
11939244 TGCATAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (18 bp):
ATTACAGGGTTACAGAGC
Found at i:11948034 original size:30 final size:30
Alignment explanation
Indices: 11947988--11948081 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
11947978 TTTTATTATG
*
11947988 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
11948019 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
11948049 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11948079 CCA
1 CCA
11948082 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11948043 original size:15 final size:15
Alignment explanation
Indices: 11947998--11948075 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
11947988 CCAATATCTC
11947998 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11948013 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11948028 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
11948043 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
11948058 GATACCCATATCTTT
1 GATACCCATATCTTT
11948073 GAT
1 GAT
11948076 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11952700 original size:30 final size:30
Alignment explanation
Indices: 11952649--11952772 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
11952639 TTTTATTATG
*
11952649 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
11952680 CCAATATTTGATACCTATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11952710 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
11952740 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11952770 CCA
1 CCA
11952773 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11952704 original size:15 final size:15
Alignment explanation
Indices: 11952659--11952766 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
11952649 CCAATATCTC
11952659 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11952674 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
*
11952689 GATACCTATATCTTT
1 GATACCCATATCTTT
** *
11952704 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11952719 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
11952734 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
11952749 GATACCCATATCTTT
1 GATACCCATATCTTT
11952764 GAT
1 GAT
11952767 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11955148 original size:18 final size:18
Alignment explanation
Indices: 11955125--11955178 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 18
11955115 GAAAGTTAAA
11955125 AATAT-ATTTAAAAATTTT
1 AATATAATTTAAAAA-TTT
11955143 AATATAATTATATATAAATTT
1 AATATAATT-TA-A-AAATTT
11955164 AATATAATTTAAAAA
1 AATATAATTTAAAAA
11955179 ATCTAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 8 0.25
19 4 0.12
20 4 0.12
21 13 0.41
22 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATAATTTAAAAATTT
Found at i:11956344 original size:22 final size:18
Alignment explanation
Indices: 11956291--11956344 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
11956281 CCCTATTATT
11956291 TTTTATTTTATTAAAAAA
1 TTTTATTTTATTAAAAAA
* *
11956309 TTATATATTTTTAATTTAATAA
1 TT-T-TA-TTTT-ATTAAAAAA
11956331 TTTTATTTTATTAA
1 TTTTATTTTATTAA
11956345 GTTTTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 6 0.21
19 5 0.17
20 4 0.14
21 5 0.17
22 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATTTTATTAAAAAA
Found at i:11956573 original size:2 final size:2
Alignment explanation
Indices: 11956566--11956590 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11956556 AGATACTAAT
11956566 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11956591 TAGAAGGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11959674 original size:17 final size:16
Alignment explanation
Indices: 11959644--11959706 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
11959634 TAGTTTACCC
11959644 TTTA-ATTTTATAAAT
1 TTTATATTTTATAAAT
* *
11959659 ATTTTTATTTTTTAAAT
1 -TTTATATTTTATAAAT
11959676 TTTATATTTTA-AAAT
1 TTTATATTTTATAAAT
*
11959691 TTATAAATATTTATAA
1 TT-TATAT-TTTATAA
11959707 CATATATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 6 0.16
16 16 0.42
17 14 0.37
18 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATATTTTATAAAT
Found at i:11959680 original size:14 final size:14
Alignment explanation
Indices: 11959661--11959695 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11959651 TTATAAATAT
*
11959661 TTTTATTTTTTAAA
1 TTTTATATTTTAAA
11959675 TTTTATATTTTAAA
1 TTTTATATTTTAAA
*
11959689 ATTTATA
1 TTTTATA
11959696 AATATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTATATTTTAAA
Found at i:11960763 original size:14 final size:15
Alignment explanation
Indices: 11960744--11960772 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11960734 ATGTAATTTT
11960744 TTTATATTAT-TGAA
1 TTTATATTATATGAA
11960758 TTTATATTATATGAA
1 TTTATATTATATGAA
11960773 AATTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTATATTATATGAA
Found at i:11962900 original size:21 final size:20
Alignment explanation
Indices: 11962876--11962915 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11962866 ACTTGTTTAA
11962876 CTATCAATAAACATTCAAAAT
1 CTATC-ATAAACATTCAAAAT
* *
11962897 CTATCATCAATATTCAAAA
1 CTATCATAAACATTCAAAA
11962916 CTCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (20 bp):
CTATCATAAACATTCAAAAT
Found at i:11966494 original size:18 final size:19
Alignment explanation
Indices: 11966464--11966500 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
11966454 TAAACATGTA
11966464 AAATTATATACATA-AAAT
1 AAATTATATACATATAAAT
11966482 AAATTAT-TAACATATAAAT
1 AAATTATAT-ACATATAAAT
11966501 TCACAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 12 0.71
19 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTATATACATATAAAT
Found at i:11971971 original size:14 final size:14
Alignment explanation
Indices: 11971945--11971979 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11971935 ATTTTTCTGA
11971945 ATTTTTATATTTAT
1 ATTTTTATATTTAT
* *
11971959 ATTTATATTTTTAT
1 ATTTTTATATTTAT
11971973 ATTTTTA
1 ATTTTTA
11971980 ATGTGTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTATATTTAT
Found at i:11973603 original size:30 final size:32
Alignment explanation
Indices: 11973567--11973633 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 32
11973557 AATAGTTTAT
*
11973567 ATTTTTATAATTTTTAA-AAGATTAAATTA-A
1 ATTTTTATAATTTTTAAGAAGATTAAAATACA
** *
11973597 ATTTTTATTGTTTTTAAGAGGATTAAAATACA
1 ATTTTTATAATTTTTAAGAAGATTAAAATACA
11973629 ATTTT
1 ATTTT
11973634 ACCCCTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTTATAATTTTTAAGAAGATTAAAATACA
Found at i:11976659 original size:43 final size:43
Alignment explanation
Indices: 11976576--11976680 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
11976566 GATATATCTG
** * ** * *
11976576 AACTTAAACTAAAATAAATTTGGACAGAGTCTACACATGGTTA
1 AACTTAAACTAAAATAAATTTAAACAAAACCCACACATGGTGA
* *
11976619 AACTTAAACTAGAATAAATTTAAACAAAACCCACATATGGTGA
1 AACTTAAACTAAAATAAATTTAAACAAAACCCACACATGGTGA
* *
11976662 AACTTGAACCAAAATAAAT
1 AACTTAAACTAAAATAAAT
11976681 ATGGAAAGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (43 bp):
AACTTAAACTAAAATAAATTTAAACAAAACCCACACATGGTGA
Found at i:11981213 original size:21 final size:20
Alignment explanation
Indices: 11981181--11981219 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11981171 TTTAAAAATT
*
11981181 TTAAAAATTCTATAAAAACA
1 TTAAAAAATCTATAAAAACA
11981201 TTAAAGAAATCTATAAAAA
1 TTAAA-AAATCTATAAAAA
11981220 ATCAGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (20 bp):
TTAAAAAATCTATAAAAACA
Found at i:11981414 original size:21 final size:22
Alignment explanation
Indices: 11981372--11981417 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
11981362 AAATTTTAAT
11981372 TATTTACATAATAATTGATTTTA
1 TATTTACATAATAATT-ATTTTA
11981395 TATTT-CATATATAATT-TTTTA
1 TATTTACATA-ATAATTATTTTA
11981416 TA
1 TA
11981418 AATAATACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
22 4 0.18
23 11 0.50
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTACATAATAATTATTTTA
Found at i:11981782 original size:29 final size:30
Alignment explanation
Indices: 11981750--11981808 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
11981740 TCACGTGTAT
*
11981750 AATTAC-ACCAAATTAAAATTCATGTATAC
1 AATTACAACCAAATCAAAATTCATGTATAC
**
11981779 AATTACATATTAAATCAAAATTCATGTATA
1 AATTACA-ACCAAATCAAAATTCATGTATA
11981809 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
31 19 0.76
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (30 bp):
AATTACAACCAAATCAAAATTCATGTATAC
Found at i:11982957 original size:22 final size:22
Alignment explanation
Indices: 11982932--11982985 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
11982922 TACTGAAATG
11982932 ATAGCAAAATAAT-GGAAAAACA
1 ATAGCAAAATAATGGGAAAAA-A
*
11982954 ATAGCAAAATAGTGGGAAAAAA
1 ATAGCAAAATAATGGGAAAAAA
11982976 A-A-CAAAATAA
1 ATAGCAAAATAA
11982986 CAAGGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.24
21 1 0.03
22 14 0.48
23 7 0.24
ACGTcount: A:0.65, C:0.07, G:0.15, T:0.13
Consensus pattern (22 bp):
ATAGCAAAATAATGGGAAAAAA
Found at i:11983463 original size:9 final size:9
Alignment explanation
Indices: 11983449--11983474 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11983439 TATTTTTTAG
11983449 ACAATCCTA
1 ACAATCCTA
11983458 ACAATCCTA
1 ACAATCCTA
11983467 ACAATCCT
1 ACAATCCT
11983475 TGTGATCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (9 bp):
ACAATCCTA
Found at i:11983709 original size:17 final size:18
Alignment explanation
Indices: 11983677--11983711 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11983667 GAAAGCCAAA
*
11983677 AAACTTTATGGTATCGTT
1 AAACTTGATGGTATCGTT
11983695 AAACTTGAT-GTATCGTT
1 AAACTTGATGGTATCGTT
11983712 GCCGTGAAGC
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:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (18 bp):
AAACTTGATGGTATCGTT
Found at i:11999249 original size:51 final size:51
Alignment explanation
Indices: 11999168--11999282 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
11999158 GCAAGGAGTA
* * *
11999168 GCCGTAGATAGCCCCCTACATTCAGTTGTTTACTCTTTGCATTGTGAAATG
1 GCCGTGGATAGCCCCCTACATTCAGCTGTTTACTCTTCGCATTGTGAAATG
11999219 GCCGTGGATAGCCCCCTACATTCAGCTGTTTACTCTTCGCATTGTGAAATG
1 GCCGTGGATAGCCCCCTACATTCAGCTGTTTACTCTTCGCATTGTGAAATG
* *
11999270 GTCATGGATAGCC
1 GCCGTGGATAGCC
11999283 TCCATTGATT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (51 bp):
GCCGTGGATAGCCCCCTACATTCAGCTGTTTACTCTTCGCATTGTGAAATG
Found at i:11999556 original size:7 final size:7
Alignment explanation
Indices: 11999544--11999573 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
11999534 ATCTGGGAAG
11999544 AGGTAAT
1 AGGTAAT
11999551 AGGTAAT
1 AGGTAAT
11999558 AGGTAAT
1 AGGTAAT
11999565 AGGTAAT
1 AGGTAAT
11999572 AG
1 AG
11999574 ACGTAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (7 bp):
AGGTAAT
Found at i:12001971 original size:22 final size:22
Alignment explanation
Indices: 12001946--12001988 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12001936 TTTAAACTTT
* *
12001946 TTAAAATATTTAAAATTTTAAA
1 TTAAAAAATATAAAATTTTAAA
*
12001968 TTAAAAAATATAATATTTTAA
1 TTAAAAAATATAAAATTTTAA
12001989 CTCCTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAAATATAAAATTTTAAA
Found at i:12002026 original size:28 final size:28
Alignment explanation
Indices: 12001995--12002057 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
12001985 TTAACTCCTA
12001995 AAAATAATAAAAATTAA-TTTAATTTTTT
1 AAAATAATAAAAATTAATTTTAA-TTTTT
* *
12002023 AAAA-ATTAAAATTTAATTTTAATTTTT
1 AAAATAATAAAAATTAATTTTAATTTTT
12002050 AAAATAAT
1 AAAATAAT
12002058 TTTCCCGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAAATAATAAAAATTAATTTTAATTTTT
Found at i:12002027 original size:20 final size:21
Alignment explanation
Indices: 12002002--12002042 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12001992 CTAAAAATAA
12002002 TAAAAATT-AATTTAATTTTT
1 TAAAAATTAAATTTAATTTTT
12002022 TAAAAATTAAAATTTAATTTT
1 TAAAAATT-AAATTTAATTTT
12002043 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAAAATTAAATTTAATTTTT
Found at i:12002044 original size:20 final size:19
Alignment explanation
Indices: 12002002--12002042 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 19
12001992 CTAAAAATAA
12002002 TAAAAATTAATTTAATTTTT
1 TAAAAATTAATTTAA-TTTT
12002022 TAAAAATTAAAATTTAATTTT
1 TAAAAATT--AATTTAATTTT
12002043 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAAATTAATTTAATTTT
Found at i:12002454 original size:16 final size:16
Alignment explanation
Indices: 12002433--12002487 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
12002423 GTTTGGTTCA
*
12002433 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
12002449 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
12002465 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
12002481 CTGTAAT
1 CTGTAAT
12002488 CAGTAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:12002756 original size:61 final size:59
Alignment explanation
Indices: 12002614--12002755 Score: 180
Period size: 61 Copynumber: 2.4 Consensus size: 59
12002604 TCTTGTTATT
* * * * *
12002614 AAATTTTAATAAAATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATC
1 AAATTTTAATATAATTATTATTAAATAAAATTTAATAAAAAT--AAATAAATAATTTAATA
* *
12002675 ATATTTTAATATAATTATTATTAAATAAAATTTAAT-AAAAT-AATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAATAAAATTTAATAAAAATAAATAAATAATTTAATA
12002732 AAATTCTTAATATAATTATTATTA
1 AAATT-TTAATATAATTATTATTA
12002756 TATGAATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 18 0.25
58 18 0.25
60 5 0.07
61 31 0.43
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (59 bp):
AAATTTTAATATAATTATTATTAAATAAAATTTAATAAAAATAAATAAATAATTTAATA
Found at i:12016908 original size:11 final size:11
Alignment explanation
Indices: 12016878--12016910 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12016868 TTGATATGTT
12016878 AATGAAGAGAA
1 AATGAAGAGAA
12016889 AAT-AAGAGAA
1 AATGAAGAGAA
*
12016899 AGTGAAGAGAA
1 AATGAAGAGAA
12016910 A
1 A
12016911 TAGTGTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Done.