Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 51
Found at i:13370 original size:2 final size:2
Alignment explanation
Indices: 13295--13358 Score: 76
Period size: 2 Copynumber: 32.0 Consensus size: 2
13285 TGTATGTGTG
* *
13295 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TG CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
13336 TA AA TA TA TA TA GTA GA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA
13359 CAAGTGTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:14548 original size:21 final size:20
Alignment explanation
Indices: 14524--14573 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
14514 CACAAAAACA
*
14524 TCATTCTTGGGGGTAAAATAT
1 TCATTCTTGGGGATAAAAT-T
* *
14545 TCATT-TAGGGGATACAATT
1 TCATTCTTGGGGATAAAATT
14564 TC-TTCTTGGG
1 TCATTCTTGGG
14574 AAATTTACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 7 0.29
20 10 0.42
21 5 0.21
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (20 bp):
TCATTCTTGGGGATAAAATT
Found at i:15420 original size:15 final size:15
Alignment explanation
Indices: 15400--15433 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
15390 CCTGACATCT
15400 CATCTGTGACATCAA
1 CATCTGTGACATCAA
15415 CATCTGTGACATCAA
1 CATCTGTGACATCAA
15430 CATC
1 CATC
15434 CTATCCCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (15 bp):
CATCTGTGACATCAA
Found at i:17545 original size:32 final size:32
Alignment explanation
Indices: 17463--17537 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
17453 ATTGCTTTGC
* * ** *
17463 ATTATTTAAATATAACACTAACACTTTTATAA
1 ATTATCTAAATAAAACACTGCCACTATTATAA
*
17495 ATTATCTAAATAAAACACTGCCACTATTATGA
1 ATTATCTAAATAAAACACTGCCACTATTATAA
17527 ATTATCTAAAT
1 ATTATCTAAAT
17538 GCAACACTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (32 bp):
ATTATCTAAATAAAACACTGCCACTATTATAA
Found at i:18974 original size:17 final size:17
Alignment explanation
Indices: 18952--18996 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
18942 ATAAAGAGCT
18952 AGTTTAATTAATGAACC
1 AGTTTAATTAATGAACC
* *
18969 AGTTTAAATGAATGAACT
1 AGTTT-AATTAATGAACC
*
18987 ACTTTAATTA
1 AGTTTAATTA
18997 GAGAACTAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (17 bp):
AGTTTAATTAATGAACC
Found at i:19157 original size:20 final size:20
Alignment explanation
Indices: 19119--19157 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19109 CAACTTAATG
* *
19119 TCATGAAAATTTATTAACAC
1 TCATGAAAATTCATGAACAC
*
19139 TCATGCAAATTCATGAACA
1 TCATGAAAATTCATGAACA
19158 AGTAAAAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGAAAATTCATGAACAC
Found at i:21060 original size:13 final size:13
Alignment explanation
Indices: 21042--21066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21032 CTCTTTCAAT
21042 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
21055 TTTTCTTTTTTT
1 TTTTCTTTTTTT
21067 TCAATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:22025 original size:17 final size:17
Alignment explanation
Indices: 21975--22043 Score: 70
Period size: 17 Copynumber: 4.0 Consensus size: 17
21965 ATATAAAGAG
21975 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
* *
21992 C-AATTTAAATGAATGAA
1 CTAGTTT-AATTAATGAA
*
22009 CTAGTTTAATTAGTGAA
1 CTAGTTTAATTAATGAA
22026 CTAGCTTT-ATTGAATGAA
1 CTAG-TTTAATT-AATGAA
22044 AGATGATACT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
16 4 0.10
17 26 0.62
18 12 0.29
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:22181 original size:20 final size:20
Alignment explanation
Indices: 22143--22181 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22133 CAACTTAATG
* *
22143 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
22163 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
22182 AGTAAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:22465 original size:22 final size:22
Alignment explanation
Indices: 22437--22487 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
22427 ACTAGTTGTA
* * *
22437 TCTAAAGATGTCTTTGTGTGTC
1 TCTAAAGAGGTCTCTATGTGTC
22459 TCTAAAGAGGTCTCTATGTGTC
1 TCTAAAGAGGTCTCTATGTGTC
*
22481 TTTAAAG
1 TCTAAAG
22488 GGTATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (22 bp):
TCTAAAGAGGTCTCTATGTGTC
Found at i:25643 original size:29 final size:29
Alignment explanation
Indices: 25590--25854 Score: 294
Period size: 29 Copynumber: 9.2 Consensus size: 29
25580 TCATTTTACA
* * * *
25590 AAAATAGCATCTTTTTAAAAT-AATTACC
1 AAAATAGCACCTTTTTGAATTAAATTCCC
*
25618 AAACTAGCACCTTTTTGAATTAAATTCCC
1 AAAATAGCACCTTTTTGAATTAAATTCCC
*
25647 AAAATACCA-CTTTTTCGAATTAAATTCCC
1 AAAATAGCACCTTTTT-GAATTAAATTCCC
*
25676 AAAATACCACCTTTTTCCGAA-TAAATTCCC
1 AAAATAGCACCTTTTT--GAATTAAATTCCC
25706 AAAATAGCACC-TTTTGAATT-AATTCCC
1 AAAATAGCACCTTTTTGAATTAAATTCCC
*
25733 AAAATAGCTCCTTTTTCGAATTAAATTCCC
1 AAAATAGCACCTTTTT-GAATTAAATTCCC
**
25763 AAAATAGCACCTCTTAAGAA-TAAATTCCC
1 AAAATAGCACCT-TTTTGAATTAAATTCCC
25792 AAAATAGCACCTTTTTTGAATT-AATTCCC
1 AAAATAGCACC-TTTTTGAATTAAATTCCC
* **
25821 AAAATAGCACCCATTTCAAATT-AATTCCC
1 AAAATAGCA-CCTTTTTGAATTAAATTCCC
25850 AAAAT
1 AAAAT
25855 GTCACCGGGT
Statistics
Matches: 208, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
27 20 0.10
28 28 0.13
29 104 0.50
30 50 0.24
31 6 0.03
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAATAGCACCTTTTTGAATTAAATTCCC
Found at i:25747 original size:87 final size:86
Alignment explanation
Indices: 25604--25854 Score: 332
Period size: 87 Copynumber: 2.9 Consensus size: 86
25594 TAGCATCTTT
* *
25604 TTAA-AAT-AATTACCAAACTAGCACCTTTTTGAATTAAATTCCCAAAATA-CCACTTTTTCGAA
1 TTAAGAATAAATTCCCAAAATAGCACCTTTTTGAATT-AATTCCCAAAATAGCC-CTTTTTCGAA
*
25666 TTAAATTCCCAAAATACCACCTTT
64 TTAAATTCCCAAAATACCACC-TC
**
25690 TTCCGAATAAATTCCCAAAATAGCACC-TTTTGAATTAATTCCCAAAATAGCTCCTTTTTCGAAT
1 TTAAGAATAAATTCCCAAAATAGCACCTTTTTGAATTAATTCCCAAAATAGC-CCTTTTTCGAAT
*
25754 TAAATTCCCAAAATAGCACCTC
65 TAAATTCCCAAAATACCACCTC
** *
25776 TTAAGAATAAATTCCCAAAATAGCACCTTTTTTGAATTAATTCCCAAAATAGCACCCATTTCAAA
1 TTAAGAATAAATTCCCAAAATAGCACC-TTTTTGAATTAATTCCCAAAATAGC-CCTTTTTCGAA
25841 TT-AATTCCCAAAAT
64 TTAAATTCCCAAAAT
25855 GTCACCGGGT
Statistics
Matches: 147, Mismatches: 12, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
86 41 0.28
87 55 0.37
88 51 0.35
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (86 bp):
TTAAGAATAAATTCCCAAAATAGCACCTTTTTGAATTAATTCCCAAAATAGCCCTTTTTCGAATT
AAATTCCCAAAATACCACCTC
Found at i:25874 original size:7 final size:7
Alignment explanation
Indices: 25862--25886 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25852 AATGTCACCG
25862 GGTCAAC
1 GGTCAAC
25869 GGTCAAC
1 GGTCAAC
25876 GGTCAAC
1 GGTCAAC
25883 GGTC
1 GGTC
25887 GGGTCGGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (7 bp):
GGTCAAC
Found at i:25909 original size:13 final size:13
Alignment explanation
Indices: 25891--25916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25881 ACGGTCGGGT
25891 CGGGTCTGGTCAA
1 CGGGTCTGGTCAA
25904 CGGGTCTGGTCAA
1 CGGGTCTGGTCAA
25917 AACCGGTCAA
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:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
CGGGTCTGGTCAA
Found at i:33068 original size:29 final size:29
Alignment explanation
Indices: 33015--33252 Score: 231
Period size: 29 Copynumber: 8.3 Consensus size: 29
33005 CATTTTACAT
* * *
33015 AAATAGCACCCTTTTTAAAAT-AATTACCA
1 AAATAGCA-CCTTTTTGAATTAAATTCCCA
* *
33044 AACTAGCACCTTTTTGAATTAAATTCCTA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
* **
33073 AAAAAGCA-C-TTTTGAATTAAATTTTCA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
33100 AAATAGCACCTTTTTTGAA-TAAATTCCCA
1 AAATAGCACC-TTTTTGAATTAAATTCCCA
* * *
33129 AAATAACACTATTTTTGAATT-AATTCCTA
1 AAATAGCAC-CTTTTTGAATTAAATTCCCA
*
33158 AAATAGCACTTTTTTGAATTAAATTCCCA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
33187 AAATAGCA-CTTTTTGAATT-AATTCCCA
1 AAATAGCACCTTTTTGAATTAAATTCCCA
* * * *
33214 AAATAACACCCATTTCGAATT-AATTCTCA
1 AAATAGCA-CCTTTTTGAATTAAATTCCCA
*
33243 AAATATCACC
1 AAATAGCACC
33253 CGATCAACGG
Statistics
Matches: 175, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
27 37 0.21
28 34 0.19
29 96 0.55
30 8 0.05
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.35
Consensus pattern (29 bp):
AAATAGCACCTTTTTGAATTAAATTCCCA
Found at i:33107 original size:56 final size:56
Alignment explanation
Indices: 33036--33245 Score: 216
Period size: 56 Copynumber: 3.7 Consensus size: 56
33026 TTTTTAAAAT
* *
33036 AATTACCAAACTAGCACCTTTTTGAATTAAATTCCTAAAAAAGCAC-TTTTGAATTA
1 AATT-CCAAAATAGCACCTTTTTGAATTAAATTCCCAAAAAAGCACTTTTTGAATTA
*
33092 AATTTTCAAAATAGCACCTTTTTTGAA-TAAATTCCCAAAATAA-CACTATTTTTGAATT-
1 AA-TTCCAAAATAGCACC-TTTTTGAATTAAATTCCCAAAA-AAGCAC--TTTTTGAATTA
* *
33150 AATTCCTAAAATAGCACTTTTTTGAATTAAATTCCCAAAATAGCACTTTTTGAATT-
1 AATTCC-AAAATAGCACCTTTTTGAATTAAATTCCCAAAAAAGCACTTTTTGAATTA
* * * *
33206 AATTCCCAAAATAACACCCATTTCGAATT-AATTCTCAAAA
1 AATT-CCAAAATAGCA-CCTTTTTGAATTAAATTCCCAAAA
33246 TATCACCCGA
Statistics
Matches: 132, Mismatches: 11, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
56 60 0.45
57 35 0.27
58 28 0.21
59 9 0.07
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (56 bp):
AATTCCAAAATAGCACCTTTTTGAATTAAATTCCCAAAAAAGCACTTTTTGAATTA
Found at i:33246 original size:85 final size:87
Alignment explanation
Indices: 33015--33247 Score: 266
Period size: 85 Copynumber: 2.7 Consensus size: 87
33005 CATTTTACAT
* * * * * * *
33015 AAATAGCACCCTTTTT-AAAATAATTACCAAACTAGCACC-TTTTTGAATTAAATTCCTAAAAAA
1 AAATAGCACCTTTTTTGAATA-AATTCCCAAAATAACACCATTTTCGAATT-AATTCCTAAAATA
**
33078 GCAC--TTTTGAATTAAATTTTCA
64 GCACTTTTTTGAATTAAATTCCCA
* *
33100 AAATAGCACCTTTTTTGAATAAATTCCCAAAATAACACTATTTTTGAATTAATTCCTAAAATAGC
1 AAATAGCACCTTTTTTGAATAAATTCCCAAAATAACACCATTTTCGAATTAATTCCTAAAATAGC
33165 ACTTTTTTGAATTAAATTCCCA
66 ACTTTTTTGAATTAAATTCCCA
*
33187 AAATAGCA-C-TTTTTGAATTAATTCCCAAAATAACACCCA-TTTCGAATTAATT-CTCAAAATA
1 AAATAGCACCTTTTTTGAATAAATTCCCAAAATAACA-CCATTTTCGAATTAATTCCT-AAAATA
33248 TCACCCGATC
Statistics
Matches: 130, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
84 2 0.02
85 88 0.68
86 16 0.12
87 24 0.18
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.36
Consensus pattern (87 bp):
AAATAGCACCTTTTTTGAATAAATTCCCAAAATAACACCATTTTCGAATTAATTCCTAAAATAGC
ACTTTTTTGAATTAAATTCCCA
Found at i:36711 original size:21 final size:23
Alignment explanation
Indices: 36659--36726 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
36649 GCATTTTTGT
36659 AAGAGTACTTTGTGTACTATGGC
1 AAGAGTACTTTGTGTACTATGGC
36682 AAGAGTACTTTGTGTACT-T-G-
1 AAGAGTACTTTGTGTACTATGGC
*
36702 TAGTAGTACTTTGTGTACTATGGC
1 AAG-AGTACTTTGTGTACTATGGC
36726 A
1 A
36727 CATTGTGTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 2 0.05
23 19 0.49
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (23 bp):
AAGAGTACTTTGTGTACTATGGC
Found at i:40993 original size:45 final size:44
Alignment explanation
Indices: 40869--40993 Score: 187
Period size: 45 Copynumber: 2.8 Consensus size: 44
40859 TATAAAATTT
* * *
40869 CTTATCATTTTTCCTATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTTTCC-ATAAGCTCGTAAGCTTATTTTACCAATACA
*
40914 CTAACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTT-TTCCATAAGCTCGTAAGCTTATTTTACCAATACA
40959 CTTACCATTTTCTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTT-TCCATAAGCTCGTAAGCTTATTT
40994 GCATGGTTAC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 1 0.01
45 68 0.93
46 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (44 bp):
CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACCAATACA
Found at i:41153 original size:40 final size:40
Alignment explanation
Indices: 41098--41219 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
41088 ACCATAGTGC
41098 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
**
41138 TACACATAAGGTCGTGCCCATAATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
41178 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
41218 TA
1 TA
41220 TAAACCTACA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:45184 original size:20 final size:20
Alignment explanation
Indices: 45159--45220 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
45149 ACCAGATTGT
45159 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
45179 CCA-GGGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
* *
45198 CCAGGGGGTACCGATTCTCC
1 CCAGGGGGTACAGATTCCCC
45218 CCA
1 CCA
45221 CGCTCCAAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 18 0.49
20 19 0.51
ACGTcount: A:0.21, C:0.37, G:0.27, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:45190 original size:19 final size:19
Alignment explanation
Indices: 45163--45204 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
45153 GATTGTCCAG
*
45163 GGGGTACAGATTCCCCCCA
1 GGGGAACAGATTCCCCCCA
45182 GGGGAACAGATTCCCCCCA
1 GGGGAACAGATTCCCCCCA
45201 GGGG
1 GGGG
45205 GTACCGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.12
Consensus pattern (19 bp):
GGGGAACAGATTCCCCCCA
Found at i:48523 original size:22 final size:22
Alignment explanation
Indices: 48495--48537 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48485 TATTGTCCAG
48495 GGGGTACAGATTCCCCCCCCCA
1 GGGGTACAGATTCCCCCCCCCA
*
48517 GGGGTACCGATTCCCCCCCCC
1 GGGGTACAGATTCCCCCCCCC
48538 CCCACTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.49, G:0.23, T:0.14
Consensus pattern (22 bp):
GGGGTACAGATTCCCCCCCCCA
Found at i:52649 original size:45 final size:44
Alignment explanation
Indices: 52527--52651 Score: 169
Period size: 45 Copynumber: 2.8 Consensus size: 44
52517 TATAATATTT
* * *
52527 CTTATCATTTTTCCTATAAGCTCGTAAGCTTACTCTACAAATATA
1 CTTATCATTTTTCC-ATAAGCTCGTAAGCTTATTTTACAAATACA
* * *
52572 CTTAACATTTATTCCATAAGCTCGTATGCTTATTTTACCAATACA
1 CTTATCATTT-TTCCATAAGCTCGTAAGCTTATTTTACAAATACA
52617 CTTATCATTTGTTCCATAAGCTCGTAAGCTTATTT
1 CTTATCATTT-TTCCATAAGCTCGTAAGCTTATTT
52652 GCATGGTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
45 66 0.94
46 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (44 bp):
CTTATCATTTTTCCATAAGCTCGTAAGCTTATTTTACAAATACA
Found at i:52876 original size:40 final size:39
Alignment explanation
Indices: 52756--52877 Score: 190
Period size: 40 Copynumber: 3.1 Consensus size: 39
52746 ACCGTAGTGC
*
52756 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTG-CCGCCATATACACCGAAGTGTAT
*
52796 AACACATAAGGTCGTGCCAGCCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCC-GCCATATACACCGAAGTGTAT
*
52836 TACACATAAGGTCGTGCTCGCCATATACTCCGAAGTGTAT
1 TACACATAAGGTCGTGC-CGCCATATACACCGAAGTGTAT
52876 TA
1 TA
52878 TAAACCTGCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.03
40 73 0.96
41 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (39 bp):
TACACATAAGGTCGTGCCGCCATATACACCGAAGTGTAT
Found at i:54453 original size:17 final size:17
Alignment explanation
Indices: 54431--54463 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
54421 TGTTAGATAC
54431 ATTTAATCTTAATTTAT
1 ATTTAATCTTAATTTAT
54448 ATTTAATCTTAATTTA
1 ATTTAATCTTAATTTA
54464 AATGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTAATCTTAATTTAT
Found at i:58151 original size:23 final size:23
Alignment explanation
Indices: 58097--58164 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 23
58087 GCATTTTTGT
58097 AAGAGTACTTTGTGTACT-TGG-
1 AAGAGTACTTTGTGTACTATGGC
58118 -AGTAGTACTTTGTGTACTATGGC
1 AAG-AGTACTTTGTGTACTATGGC
58141 AAGAGTACTTTGTGTACTATGGC
1 AAGAGTACTTTGTGTACTATGGC
58164 A
1 A
58165 CTTTGTGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.05
21 15 0.35
22 3 0.07
23 21 0.49
24 2 0.05
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (23 bp):
AAGAGTACTTTGTGTACTATGGC
Found at i:59166 original size:2 final size:2
Alignment explanation
Indices: 59159--59188 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59149 TGTAGTTTTA
59159 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
59189 TATTTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59373 original size:2 final size:2
Alignment explanation
Indices: 59366--59391 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59356 ATAAACTTTA
59366 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
59392 CCAAATATTT
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:61689 original size:15 final size:15
Alignment explanation
Indices: 61658--61699 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
61648 GGATAATTAA
61658 GAAATGAAATGGAAATG
1 GAAA-GAAAT-GAAATG
61675 GAAAGAAATGAAATG
1 GAAAGAAATGAAATG
*
61690 GATAGAAATG
1 GAAAGAAATG
61700 TTATCAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 15 0.62
16 5 0.21
17 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.17
Consensus pattern (15 bp):
GAAAGAAATGAAATG
Found at i:64642 original size:45 final size:45
Alignment explanation
Indices: 64531--64642 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
64521 CACCTATATG
* * * * *
64531 CATTTCAATTATGTCATCCTTGCTTGTCTCTTATGCACTATTATA
1 CATTTCATTTATGGCATCCTTTCTTGCCTCTTATACACTATTATA
* *
64576 CTTTTCATTTGTGGCATCCTTTCTTGCCT-TTGATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCTTGCCTCTT-ATACACTATTATA
64621 CATTTCATTTATGGCATCCTTT
1 CATTTCATTTATGGCATCCTTT
64643 TATATAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 2 0.04
45 55 0.96
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (45 bp):
CATTTCATTTATGGCATCCTTTCTTGCCTCTTATACACTATTATA
Found at i:65426 original size:57 final size:57
Alignment explanation
Indices: 65357--65840 Score: 761
Period size: 57 Copynumber: 8.5 Consensus size: 57
65347 TCCAATACAT
* * *
65357 AAATTCATACACTTAGTATGATTTTTTAACATTTTAGCGTACGAAATGCCCTATATG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * * * *
65414 AAATTCATACACTTAGTATGATTTCATAACATTTTAGCGTACAAAATGTCCTATATG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
*
65471 AAATTCATACACATAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* *
65528 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * *
65585 AAATTCATACACTTAGTATAATTTCTTAATATTTTAGAGTACGAAACGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * *
65642 AAACTCATACACTTAGTATGAATTCTTAACATTTTAGCTTACGAAACGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
* * * *
65699 GAATTCATACACTTAGTATGATTTCTTAACATTTCAGCGTACGGAACGCCTTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
*
65756 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTTTCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
*
65813 AAATTCATACACTTAATATGATTTCTTA
1 AAATTCATACACTTAGTATGATTTCTTA
65841 TATTTTGCAC
Statistics
Matches: 390, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 390 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (57 bp):
AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTG
Found at i:65500 original size:114 final size:114
Alignment explanation
Indices: 65298--65840 Score: 759
Period size: 114 Copynumber: 4.8 Consensus size: 114
65288 TTCCCATACG
* * * * * *
65298 GAAATTCATACACATAGTATGGATTTCTTATC-TTTTAGCA-CCCAAGATGTCCAATACAT-AAA
1 GAAATTCATACACTTAGTAT-GATTTCTTAACATTTTAGCATACGAA-ATGCCCTAT-C-TGAAA
* * *
65360 TTCATACACTTAGTATGATTTTTTAACATTTTAGCGTACGAAATGCCCTATAT
62 TTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
65413 GAAATTCATACACTTAGTATGATTTCATAACATTTTAGCGTACAAAATGTCCTATATGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCA
*
65478 TACACATAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
66 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
65527 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCA
* * *
65592 TACACTTAGTATAATTTCTTAATATTTTAGAGTACGAAACGCCCTATCT
66 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
65641 GAAACTCATACACTTAGTATGAATTCTTAACATTTTAGCTTACGAAACGCCCTATCTGGAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCA
* * *
65706 TACACTTAGTATGATTTCTTAACATTTCAGCGTACGGAACGCCTTATCT
66 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
65755 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTTTCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCA
*
65820 TACACTTAATATGATTTCTTA
66 TACACTTAGTATGATTTCTTA
65841 TATTTTGCAC
Statistics
Matches: 387, Mismatches: 38, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
113 1 0.00
114 349 0.90
115 34 0.09
116 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (114 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCA
TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:65589 original size:171 final size:170
Alignment explanation
Indices: 65298--65840 Score: 759
Period size: 171 Copynumber: 3.2 Consensus size: 170
65288 TTCCCATACG
* * * * *
65298 GAAATTCATACACATAGTATGGATTTCTTATC-TTTTAGC-ACCCAAGATGTCCAATACAT-AAA
1 GAAATTCATACACATAGTAT-GATTTCTTAACATTTTAGCTA-CGAA-ACGCCCTAT-C-TGAAA
* *
65360 TTCATACACTTAGTATGATTTTTTAACATTTTAGCGTACGAAATGCCCTATATGAAATTCATACA
61 TTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCTGAAATTCATACA
* * * * *
65425 CTTAGTATGATTTCATAACATTTTAGCGTACAAAATGTCCTATAT
126 CTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
65470 GAAATTCATACACATAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
1 GAAATTCATACACATAGTATGATTTCTTAACATTTTAGC-TACGAAACGCCCTATCTGAAATTCA
*
65535 TACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCTATCTGAAATTCATACACTTA
65 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCTGAAATTCATACACTTA
* * *
65600 GTATAATTTCTTAATATTTTAGAGTACGAAACGCCCTATCT
130 GTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
65641 GAAACTCATACACTTAGTATGAATTCTTAACATTTTAGCTTACGAAACGCCCTATCTGGAATTCA
1 GAAATTCATACACATAGTATGATTTCTTAACATTTTAGC-TACGAAACGCCCTATCTGAAATTCA
* * * *
65706 TACACTTAGTATGATTTCTTAACATTTCAGCGTACGGAACGCCTTATCTGAAATTCATACACTTA
65 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCTGAAATTCATACACTTA
*
65771 GTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTTTCT
130 GTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
65812 GAAATTCATACACTTAATATGATTTCTTA
1 GAAATTCATACACATAGTATGATTTCTTA
65841 TATTTTGCAC
Statistics
Matches: 334, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
170 1 0.00
171 296 0.89
172 33 0.10
173 3 0.01
174 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (170 bp):
GAAATTCATACACATAGTATGATTTCTTAACATTTTAGCTACGAAACGCCCTATCTGAAATTCAT
ACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCTGAAATTCATACACTTAG
TATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:66308 original size:91 final size:95
Alignment explanation
Indices: 66198--66401 Score: 267
Period size: 96 Copynumber: 2.2 Consensus size: 95
66188 ATAGCCCTAT
* *
66198 CATGGTAT-GAATACTAC-TATACTATGGTACCGATACCCCTTCTAGTATCA-ATA-CTA-ATT-
1 CATGGTATCG-ATACTACATATACTATGGTACCGATACCCCTTCCAGTAT-AGATACCCATATTA
** *
66257 GATTCGATGTTGATTGGTATCGATACCCTTAC
64 GATTCGATGTAAACTGGTATCGATACCCTTAC
* * *
66289 CATGGTATCGATACTACTATATATTATGGTACCGATACCCCTTCCGGTATAGATACCCATTTTAG
1 CATGGTATCGATACTAC-ATATACTATGGTACCGATACCCCTTCCAGTATAGATACCCATATTAG
66354 ATTCGATGTAAACTGGTATCGATACCCTTAC
65 ATTCGATGTAAACTGGTATCGATACCCTTAC
66385 CATGGTATCGATACTAC
1 CATGGTATCGATACTAC
66402 CTTCTCGGTA
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
91 15 0.15
92 2 0.02
93 31 0.32
94 2 0.02
95 2 0.02
96 46 0.47
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (95 bp):
CATGGTATCGATACTACATATACTATGGTACCGATACCCCTTCCAGTATAGATACCCATATTAGA
TTCGATGTAAACTGGTATCGATACCCTTAC
Found at i:69101 original size:45 final size:46
Alignment explanation
Indices: 68990--69103 Score: 144
Period size: 45 Copynumber: 2.5 Consensus size: 46
68980 CACCTATATG
* * * * * *
68990 CATTTCAATTATGTCATCCTTACATGTTTCTTATACACTATTATAC
1 CATTTCATTTATGGCATCCTTTCATGCTTCTGATACAATATTATAC
69036 CA-TTCATTTATGGCATCCTTTCATGCCTT-TGATACAATATTATA-
1 CATTTCATTTATGGCATCCTTTCATG-CTTCTGATACAATATTATAC
69080 CATTTCATTTATGGCATCCTTTCA
1 CATTTCATTTATGGCATCCTTTCA
69104 CACAATTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 2 0.03
45 54 0.90
46 4 0.07
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (46 bp):
CATTTCATTTATGGCATCCTTTCATGCTTCTGATACAATATTATAC
Found at i:69904 original size:56 final size:56
Alignment explanation
Indices: 69833--70029 Score: 288
Period size: 56 Copynumber: 3.5 Consensus size: 56
69823 TCCAATACAT
* *
69833 AAATTCATACTCTTAGTATGATTTCTTAACATTTTAGCTACAAAACGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCTACGAAACGCCCTATCTG
* *
69889 AAATTCATACACTTAGTATGATTTCTTAACATTTTAACATACGAAACACCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGC-TACGAAACGCCCTATCTG
* * *
69946 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGTGTACGAAATG-CTTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAG-CTACGAAACGCCCTATCTG
**
70002 AAATTCATACACACAGTATGATTTCTTA
1 AAATTCATACACTTAGTATGATTTCTTA
70030 TATTTTGCAC
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
56 69 0.54
57 59 0.46
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.38
Consensus pattern (56 bp):
AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCTACGAAACGCCCTATCTG
Found at i:74668 original size:27 final size:29
Alignment explanation
Indices: 74625--74681 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 29
74615 TCACATCACT
74625 TTGTAAAACTTTTTTTC-ATTTGAA-AAC
1 TTGTAAAACTTTTTTTCAATTTGAACAAC
74652 TTGTAAAA-TTTTATTTCAATTTGAACAAC
1 TTGTAAAACTTTT-TTTCAATTTGAACAAC
74681 T
1 T
74682 ACAAAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 4 0.15
27 12 0.44
28 7 0.26
29 4 0.15
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (29 bp):
TTGTAAAACTTTTTTTCAATTTGAACAAC
Found at i:75787 original size:18 final size:18
Alignment explanation
Indices: 75760--75805 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
75750 ACCGGTCATA
*
75760 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
* *
75778 ACCTGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
75796 ACCCGACCCG
1 ACCCGACCCG
75806 TTGACCGGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.48, G:0.20, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:75797 original size:13 final size:13
Alignment explanation
Indices: 75781--75811 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
75771 CCCGTTTACC
*
75781 TGACCCGACCTGT
1 TGACCCGACCCGT
75794 TGACCCGACCCGT
1 TGACCCGACCCGT
75807 TGACC
1 TGACC
75812 GGCATTGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.42, G:0.23, T:0.19
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:78316 original size:24 final size:23
Alignment explanation
Indices: 78235--78330 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 23
78225 ATTTTCGAAT
* *
78235 TGAATTCTGTTATGATAC-GATA
1 TGAATTCTGTTCTGATTCTGATA
* *
78257 CCTGAATTCTGTTCAGATTCTGATC
1 --TGAATTCTGTTCTGATTCTGATA
*
78282 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGAT-TCTGATA
* *
78306 TGAATTTTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGA-TTCTGATA
78330 T
1 T
78331 CTCCGTTTAC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
23 14 0.24
24 41 0.69
25 4 0.07
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (23 bp):
TGAATTCTGTTCTGATTCTGATA
Found at i:80437 original size:21 final size:21
Alignment explanation
Indices: 80413--80464 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
80403 ATGGTCCAAA
80413 TGACCGGTTTTGGTGCATAGT
1 TGACCGGTTTTGGTGCATAGT
80434 TGACCGGTTTTGGTGCATAGT
1 TGACCGGTTTTGGTGCATAGT
80455 TGACCGGTTT
1 TGACCGGTTT
80465 GACCGGTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.15, G:0.33, T:0.38
Consensus pattern (21 bp):
TGACCGGTTTTGGTGCATAGT
Found at i:80512 original size:13 final size:13
Alignment explanation
Indices: 80480--80536 Score: 87
Period size: 13 Copynumber: 4.3 Consensus size: 13
80470 GTCATAACCC
80480 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
80493 TACCCCGACCTGTT
1 GA-CCCGACCCGTT
80507 GACCCGACCCGTT
1 GACCCGACCCGTT
80520 GACCCGACCCGTT
1 GACCCGACCCGTT
80533 GACC
1 GACC
80537 GGCGTTGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 28 0.72
14 11 0.28
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:83053 original size:24 final size:24
Alignment explanation
Indices: 82972--83067 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 24
82962 ATTTCCGAAT
* * *
82972 TGAATTCTGTTCTAATA-CGTTATC
1 TGAATTCTGTTCTGATATC-TGATA
* * *
82996 TGAATTCTATTCTTAT-TCTGATC
1 TGAATTCTGTTCTGATATCTGATA
* *
83019 TGGATTTTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATATCTGATA
* *
83043 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATATCTGATA
83067 T
1 T
83068 CTCCGTTTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
23 16 0.28
24 42 0.72
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATA
Found at i:84336 original size:29 final size:28
Alignment explanation
Indices: 84299--84387 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 28
84289 AGTCCACTAT
84299 TCTTTTACTCAACAGTGTTTAATCATTCA
1 TCTTTTACTCAACAGTGTTTAA-CATTCA
*
84328 TCTTTTACTCAATAGTGTTTAACAGTTCA
1 TCTTTTACTCAACAGTGTTTAACA-TTCA
*
84357 TCTTTTACTCAAC-GTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAA-CATTCA
84385 TCT
1 TCT
84388 AACTGGCATA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 17 0.31
29 38 0.69
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (28 bp):
TCTTTTACTCAACAGTGTTTAACATTCA
Found at i:84498 original size:81 final size:80
Alignment explanation
Indices: 84357--84569 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 80
84347 TAACAGTTCA
* * * * * *
84357 TCTTTTACTCAACGTGTTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTTCCAAATGCA
1 TCTTTTACTCAACGTATTTAACCATTCATCTAACTAGCATAAATGACACCTTTATGCCAAATACA
*
84422 CATCTATG-CCATTAT
66 CAGCTA-GACCATTAT
* *
84437 TCTTTTACTCAACGATATTTAACCATTCATCTAACTAACATAATTGACACCTTTATGCCAAATAC
1 TCTTTTACTCAACG-TATTTAACCATTCATCTAACTAGCATAAATGACACCTTTATGCCAAATAC
*
84502 ATAGCTAGACCATTAT
65 ACAGCTAGACCATTAT
* * *
84518 TCTTTTACTC-ACGGTATTTAACTATTCATTTAACTTGCATAAATGACACCTT
1 TCTTTTACTCAAC-GTATTTAACCATTCATCTAACTAGCATAAATGACACCTT
84570 CCGGTCAAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 50 0.43
81 65 0.57
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (80 bp):
TCTTTTACTCAACGTATTTAACCATTCATCTAACTAGCATAAATGACACCTTTATGCCAAATACA
CAGCTAGACCATTAT
Found at i:84732 original size:68 final size:68
Alignment explanation
Indices: 84542--84914 Score: 570
Period size: 68 Copynumber: 5.5 Consensus size: 68
84532 TATTTAACTA
* * * *
84542 TTCATTTAACTTGCATAAATGACACCTTCCGGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
84607 CCT
66 CCT
* *
84610 TTCATCTAACT-GTATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
84674 CCT
66 CCT
** *
84677 TTCATCTAACTAACATAAATGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
84742 CCT
66 CCT
* * * *
84745 TTCATCTAACTGTCATAATTGACGCCTTTCTGTCAAAT-CACAGTTAGGCCTCAAAGGCAGTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
84809 CCT
66 CCT
* * * *
84812 TTTATCTAACTGGCATAAATAACACCGTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
84877 CCT
66 CCT
*
84880 TTCATCTAACTGGCATAAATGACACCTTTATGTCA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCA
84915 TTATACATTC
Statistics
Matches: 276, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
67 123 0.45
68 153 0.55
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:84787 original size:135 final size:136
Alignment explanation
Indices: 84555--84914 Score: 571
Period size: 135 Copynumber: 2.7 Consensus size: 136
84545 ATTTAACTTG
* *
84555 CATAAATGACACCTTCCGGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
1 CATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
*
84620 TGT-ATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
66 TGTCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
84684 AACTAA
131 AACTAA
*
84690 CATAAATGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
1 CATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
* * * *
84755 TGTCATAATTGACGCCTTTCTGTCAAAT-CACAGTTAGGCCTCAAAGGCAGTTAGCCTTTTATCT
66 TGTCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
**
84819 AACTGG
131 AACTAA
* * *
84825 CATAAATAACACCGTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
1 CATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
* *
84890 TGGCATAAATGACACCTTTATGTCA
66 TGTCATAAATGACACCTTTCTGTCA
84915 TTATACATTC
Statistics
Matches: 206, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
135 185 0.90
136 21 0.10
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (136 bp):
CATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAAC
TGTCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
AACTAA
Found at i:85145 original size:55 final size:56
Alignment explanation
Indices: 85022--85172 Score: 177
Period size: 55 Copynumber: 2.8 Consensus size: 56
85012 ATATGTTTCT
* * * *
85022 CATACAAAAATTCATACACTTGGTATGAATTT-TTCA-TTTCGCACACATAGTGCC
1 CATACAGAAATTCGTACACTTAGTATGAATTTCTTAAGTTTCGCACACATAGTGCC
* * *
85076 CATACGGAGATTCGTACACTTAGTATGAATTTCTT-AGTTT-TCA-ACATAAAGTGCC
1 CATACAGAAATTCGTACACTTAGTATGAATTTCTTAAGTTTCGCACACAT--AGTGCC
*
85131 CATACAGAAATTCGTACAATTAGTATGAATTTCTTAAGTTTC
1 CATACAGAAATTCGTACACTTAGTATGAATTTCTTAAGTTTC
85173 TGTACACTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
53 4 0.05
54 30 0.37
55 43 0.52
56 5 0.06
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (56 bp):
CATACAGAAATTCGTACACTTAGTATGAATTTCTTAAGTTTCGCACACATAGTGCC
Found at i:89733 original size:29 final size:29
Alignment explanation
Indices: 89691--89778 Score: 142
Period size: 29 Copynumber: 3.0 Consensus size: 29
89681 ACAGCTAGTC
*
89691 CATTTACTCAACAGTGTTTAATCATTCAT
1 CATTTACTCAACAGTGTTTAATCGTTCAT
*
89720 -ATTTTACTCAACAGTGTTTAACCGTTCAT
1 CA-TTTACTCAACAGTGTTTAATCGTTCAT
89749 CATTTACTCAACAGTGTTTAATCGTTCAT
1 CATTTACTCAACAGTGTTTAATCGTTCAT
89778 C
1 C
89779 TAACTGGCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
28 1 0.02
29 52 0.96
30 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (29 bp):
CATTTACTCAACAGTGTTTAATCGTTCAT
Found at i:89890 original size:81 final size:80
Alignment explanation
Indices: 89748--89985 Score: 341
Period size: 81 Copynumber: 2.9 Consensus size: 80
89738 TAACCGTTCA
* * * *
89748 TCATTTACTCAACAGTGTTTAATCGTTCATCTAACTGGCAAAAATGACACATTTCCTCCAAATGC
1 TCATTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAAATGACACCTTT-CTCCAAATGC
89813 ACAGCTAGGCCATTAT
65 ACAGCTAGGCCATTAT
* * * * *
89829 TCATTTACTCAACGGTATTTAACCGTTCATATAACTGACATAACTGACACCTTTCTACCAAATAC
1 TCATTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAAATGACACCTTTCT-CCAAATGC
89894 ACAGCTAGGCCATTAT
65 ACAGCTAGGCCATTAT
* *
89910 TCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGC
1 TCATTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAAATGACACCTTTCT-CCAAATGC
*
89975 ACAGTTAGGCC
65 ACAGCTAGGCC
89986 TCAAAGGCTC
Statistics
Matches: 138, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
80 2 0.01
81 136 0.99
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (80 bp):
TCATTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAAATGACACCTTTCTCCAAATGCA
CAGCTAGGCCATTAT
Found at i:90033 original size:67 final size:68
Alignment explanation
Indices: 89935--90307 Score: 579
Period size: 68 Copynumber: 5.5 Consensus size: 68
89925 TATTTAATCG
*
89935 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCTCTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
90000 CCT
66 CCT
* * *
90003 TTCATCTAACT-GTATAAATGACACATTTCTGTCAAATGTACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
90067 CCT
66 CCT
* * *
90070 TTCATCTAATTGGCATAAATGACACCTTTCTGTCAAATGTACAGTTAGGCCTCAAAGGAACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
90135 TCT
66 CCT
* * * *
90138 TTAATCTAACT-GCATAAATGACACCTTTCTATCAAATGCACAATTAGGCCTCAAATGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
90202 ACT
66 CCT
* *
90205 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
90270 TCT
66 CCT
*
90273 TTCATCTAACTGACATAAATGACACCTTTCTGTCA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCA
90308 TTATACATTC
Statistics
Matches: 277, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
67 122 0.44
68 155 0.56
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:90159 original size:135 final size:135
Alignment explanation
Indices: 89935--90307 Score: 602
Period size: 135 Copynumber: 2.8 Consensus size: 135
89925 TATTTAATCG
*
89935 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCTCTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
* * * * *
90000 CCTTTCATCTAACTGTATAAATGACACATTTCTGTCAAATGTACAGTTAGGCCTCAAAGGCACTT
66 TCTTTCATCTAACTGCATAAATGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
*
90065 AGCCT
131 AGACT
* * *
90070 TTCATCTAATTGGCATAAATGACACCTTTCTGTCAAATGTACAGTTAGGCCTCAAAGGAACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
* * *
90135 TCTTTAATCTAACTGCATAAATGACACCTTTCTATCAAATGCACAATTAGGCCTCAAATGCACTT
66 TCTTTCATCTAACTGCATAAATGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
90200 AGACT
131 AGACT
* *
90205 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
90270 TCTTTCATCTAACTGACATAAATGACACCTTTCTGTCA
66 TCTTTCATCTAACTG-CATAAATGACACCTTTCTGTCA
90308 TTATACATTC
Statistics
Matches: 217, Mismatches: 20, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
135 196 0.90
136 21 0.10
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (135 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
TCTTTCATCTAACTGCATAAATGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
AGACT
Found at i:90527 original size:55 final size:55
Alignment explanation
Indices: 90456--90559 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
90446 TCCTATTTCA
* * * * *
90456 CACACATAGTGGCCATACGGAGATTCATACACTGAGTATGAATATCTTAGTTTTG
1 CACACAAAGTGCCCATACAGAAATTAATACACTGAGTATGAATATCTTAGTTTTG
* *
90511 CACACAAAGTGCCCATACAGAAATTAATACACTTAGTATGAATTTCTTA
1 CACACAAAGTGCCCATACAGAAATTAATACACTGAGTATGAATATCTTA
90560 AATTTTTGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (55 bp):
CACACAAAGTGCCCATACAGAAATTAATACACTGAGTATGAATATCTTAGTTTTG
Found at i:92736 original size:12 final size:12
Alignment explanation
Indices: 92718--92759 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
92708 TTTGTTGTTC
92718 TTGCTCCTCGGG
1 TTGCTCCTCGGG
*
92730 CTGCTCCTCGGG
1 TTGCTCCTCGGG
*
92742 TTTCTCCTCGGG
1 TTGCTCCTCGGG
92754 TTGCTC
1 TTGCTC
92760 AGGCTCATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.29, T:0.36
Consensus pattern (12 bp):
TTGCTCCTCGGG
Found at i:100152 original size:3 final size:3
Alignment explanation
Indices: 100144--100169 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
100134 AAAACCACGG
100144 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
100170 GTAAACTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:102931 original size:13 final size:12
Alignment explanation
Indices: 102905--102942 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
102895 TAATTAAATG
102905 TTATA-TTATTT
1 TTATATTTATTT
102916 TTATATTTAGTTT
1 TTATATTTA-TTT
102929 TTATATTATATTT
1 TTATATT-TATTT
102942 T
1 T
102943 GAATGTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 3 0.12
13 14 0.58
14 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TTATATTTATTT
Found at i:102965 original size:14 final size:15
Alignment explanation
Indices: 102931--102997 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
102921 TTTAGTTTTT
102931 ATATTATATTTTG-A
1 ATATTATATTTTGTA
*
102945 ATGTTATATTTTGTA
1 ATATTATATTTTGTA
*
102960 A-ATTATGTTATTTTTTA
1 ATATTA---TATTTTGTA
* *
102977 ATGTTATCTTTTGTA
1 ATATTATATTTTGTA
102992 A-ATTAT
1 ATATTAT
102998 TTATGTTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.46
15 10 0.24
17 9 0.22
18 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (15 bp):
ATATTATATTTTGTA
Found at i:102967 original size:19 final size:18
Alignment explanation
Indices: 102945--103010 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 18
102935 TATATTTTGA
102945 ATGTTATATTTTGTAAATT
1 ATGTTAT-TTTTGTAAATT
102964 ATGTTATTTTT-T--A--
1 ATGTTATTTTTGTAAATT
102977 ATGTTATCTTTTGTAAATT
1 ATGTTAT-TTTTGTAAATT
*
102996 AT-TTATGTTT-TAAAT
1 ATGTTATTTTTGTAAAT
103011 ATAAAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 2 0.05
16 5 0.12
17 5 0.12
18 8 0.20
19 9 0.22
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.61
Consensus pattern (18 bp):
ATGTTATTTTTGTAAATT
Found at i:102980 original size:32 final size:31
Alignment explanation
Indices: 102929--103008 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
102919 TATTTAGTTT
*
102929 TTATATTATATTTTGAATGTTATATTTTGTAAA
1 TTAT-TTAT-TTTTTAATGTTATATTTTGTAAA
*
102962 TTATGTTATTTTTTAATGTTATCTTTTGTAAA
1 TTAT-TTATTTTTTAATGTTATATTTTGTAAA
*
102994 TTATTTATGTTTTAA
1 TTATTTATTTTTTAA
103009 ATATAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 10 0.23
32 25 0.58
33 8 0.19
ACGTcount: A:0.29, C:0.01, G:0.09, T:0.61
Consensus pattern (31 bp):
TTATTTATTTTTTAATGTTATATTTTGTAAA
Found at i:109581 original size:20 final size:20
Alignment explanation
Indices: 109544--109582 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109534 AGATTGAGTG
* * *
109544 GATTTTGATGTTGTTTGCAT
1 GATTTTAATGATGATTGCAT
109564 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
109583 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAT
Found at i:109799 original size:22 final size:21
Alignment explanation
Indices: 109736--109818 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
109726 AACCAGAACC
* *
109736 CAAGGGGGTATCGATTCCCCT
1 CAAGGGGGAATCGGTTCCCCT
*
109757 -ATGGGGGGAATCGGTTCCCCTT
1 CA-AGGGGGAATCGGTTCCCC-T
*
109779 CGAAGGGGGAATTGGTT-CCCT
1 C-AAGGGGGAATCGGTTCCCCT
* *
109800 CAAGGGGGGATCGATTCCC
1 CAAGGGGGAATCGGTTCCC
109819 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
20 13 0.27
21 19 0.39
22 4 0.08
23 12 0.24
24 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (21 bp):
CAAGGGGGAATCGGTTCCCCT
Found at i:120151 original size:79 final size:77
Alignment explanation
Indices: 120008--120164 Score: 197
Period size: 79 Copynumber: 2.0 Consensus size: 77
119998 ATTAATATTT
* * * * ** * *
120008 TTTAACATTTCTGATAAAGTGATACTTAAAACATTATTTTTTCTGCCTGAAATGTTAATATTGGG
1 TTTAACATTTCCGATAAAGCGATACCTAAAACATTATTTTTTCTACCAAAAATATGAATATTGGG
120073 TGATACCTAAAATG
66 T--TACCTAAAATG
* * *
120087 TTTAACATTTCCGGTAAAGCGCTACCTAAAACATTATTTTTTCTACCAAAAATATGAATTTTGGG
1 TTTAACATTTCCGATAAAGCGATACCTAAAACATTATTTTTTCTACCAAAAATATGAATATTGGG
120152 TTACCTAAAATG
66 TTACCTAAAATG
120164 T
1 T
120165 AATTTTTTCT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
77 12 0.18
79 55 0.82
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (77 bp):
TTTAACATTTCCGATAAAGCGATACCTAAAACATTATTTTTTCTACCAAAAATATGAATATTGGG
TTACCTAAAATG
Found at i:121877 original size:31 final size:31
Alignment explanation
Indices: 121842--121941 Score: 191
Period size: 31 Copynumber: 3.2 Consensus size: 31
121832 AATAAATAAA
121842 ATTAATTGATTTTATTTTTAAAATTTAAGAT
1 ATTAATTGATTTTATTTTTAAAATTTAAGAT
121873 ATTAATTGATTTTATTTTTAAAATTTAAGAT
1 ATTAATTGATTTTATTTTTAAAATTTAAGAT
121904 ATTAATTGATTTTATTTTTAAAATTTAAGAT
1 ATTAATTGATTTTATTTTTAAAATTTAAGAT
*
121935 ACTAATT
1 ATTAATT
121942 AAATTTTGAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (31 bp):
ATTAATTGATTTTATTTTTAAAATTTAAGAT
Found at i:121961 original size:62 final size:62
Alignment explanation
Indices: 121842--121962 Score: 163
Period size: 62 Copynumber: 2.0 Consensus size: 62
121832 AATAAATAAA
* * * ****
121842 ATTAATTGATTTTATTTTTAAAATTTAAGATATTAATTGATTTTATTTTTAAAATTTAAGAT
1 ATTAATTGATTTTATTTTTAAAATTTAAGATACTAATTAAATTTATGAGAAAAATTTAAGAT
121904 ATTAATTGATTTTATTTTTAAAATTTAAGATACTAATTAAATTT-TGAGAAAATATTTAA
1 ATTAATTGATTTTATTTTTAAAATTTAAGATACTAATTAAATTTATGAGAAAA-ATTTAA
121963 ATTGTTAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 4 0.08
62 47 0.92
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (62 bp):
ATTAATTGATTTTATTTTTAAAATTTAAGATACTAATTAAATTTATGAGAAAAATTTAAGAT
Found at i:122626 original size:41 final size:41
Alignment explanation
Indices: 122551--122631 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
122541 TCTTTTGGTA
*
122551 AAAGAGATCGATTATTTCTCAAATAATTTGATCGTTGCAAT
1 AAAGAGATCGATTATTTCTCAAATAATTCGATCGTTGCAAT
* * * * *
122592 AAAGGGATTGATTCTTTTTCAAATAGTTCGATCGTTGCAA
1 AAAGAGATCGATTATTTCTCAAATAATTCGATCGTTGCAA
122632 GAAATGAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (41 bp):
AAAGAGATCGATTATTTCTCAAATAATTCGATCGTTGCAAT
Found at i:123222 original size:14 final size:15
Alignment explanation
Indices: 123191--123223 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
123181 GACTTAATTA
*
123191 ATTTTTGAAATATAT
1 ATTTTTAAAATATAT
123206 ATTTTTAAAATAT-T
1 ATTTTTAAAATATAT
123220 ATTT
1 ATTT
123224 ATTTTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTTTAAAATATAT
Found at i:123723 original size:16 final size:16
Alignment explanation
Indices: 123690--123730 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
123680 GTTTACTTCA
123690 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
*
123705 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
123721 GAATGATTCA
1 GAATGATTCA
123731 GATACTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:123837 original size:23 final size:23
Alignment explanation
Indices: 123807--123872 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
123797 TGTACTTCTG
*
123807 TGCTGAATCATTCACCACTGCTT
1 TGCTGAATCATTCAACACTGCTT
*
123830 TGCTGAATCATTCAACACTGTTT
1 TGCTGAATCATTCAACACTGCTT
* *
123853 TGCTGAATCAGTCAGCACTG
1 TGCTGAATCATTCAACACTG
123873 AATAAATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (23 bp):
TGCTGAATCATTCAACACTGCTT
Found at i:124062 original size:106 final size:107
Alignment explanation
Indices: 123860--124073 Score: 272
Period size: 106 Copynumber: 2.0 Consensus size: 107
123850 TTTTGCTGAA
** * *
123860 TCAGTCAGCACTGAATAAATTCAGAGGTGCGAAACAAACGTGCTGAATGATGAATGGTTCAGCAT
1 TCAGTCAGCACTGAATAAATTCAGAGGTGAAAAACAAACGTGCTGAATGATGAACGGTTCAACAT
** * * * * *
123925 TCAGTGTTGAATGATTCCATTAAGAGGCAAACAAATAGCCCC
66 TCAACGCTAAATAATTCCATTAAGAGCCAAACAAACAGCCCC
*
123967 TCAGTCAGCACTGAAT-CATTCAGAGGTGAAAAACAAACAGT-CTGAATGATGAACGGTTCAACA
1 TCAGTCAGCACTGAATAAATTCAGAGGTGAAAAACAAAC-GTGCTGAATGATGAACGGTTCAACA
*
124030 TTCAACGCTAAATAATTCGATTTAA-AGCCAAACAAACAGCCCC
65 TTCAACGCTAAATAATTCCA-TTAAGAGCCAAACAAACAGCCCC
124073 T
1 T
124074 AATCAAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
106 70 0.76
107 22 0.24
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (107 bp):
TCAGTCAGCACTGAATAAATTCAGAGGTGAAAAACAAACGTGCTGAATGATGAACGGTTCAACAT
TCAACGCTAAATAATTCCATTAAGAGCCAAACAAACAGCCCC
Found at i:124351 original size:22 final size:21
Alignment explanation
Indices: 124297--124382 Score: 138
Period size: 21 Copynumber: 4.1 Consensus size: 21
124287 AAAAATGTTA
*
124297 AAAAATATTAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
*
124318 AAAAATATTAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
124339 AAATAATAATAATATTTTAAAT
1 AAA-AATAATAATATTTTAAAT
124361 AAAAATAATAAT-TTTTAAAT
1 AAAAATAATAATATTTTAAAT
124381 AA
1 AA
124383 TTTTTTATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
20 10 0.16
21 33 0.52
22 20 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAAT
Found at i:124363 original size:43 final size:42
Alignment explanation
Indices: 124295--124382 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 42
124285 TTAAAAATGT
* *
124295 TAAAAAATATTAATATTTTAAATAAAAATATTAATATTTTAAA
1 TAAAAAATAATAATATTTTAAATAAAAATAATAAT-TTTTAAA
*
124338 TAAATAATAATAATATTTTAAATAAAAATAATAATTTTTAAA
1 TAAAAAATAATAATATTTTAAATAAAAATAATAATTTTTAAA
124380 TAA
1 TAA
124383 TTTTTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 10 0.24
43 32 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (42 bp):
TAAAAAATAATAATATTTTAAATAAAAATAATAATTTTTAAA
Found at i:127091 original size:20 final size:20
Alignment explanation
Indices: 127066--127104 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
127056 ACGTTAATTG
**
127066 ATATGTATTGTTAATTGATA
1 ATATGTATCATTAATTGATA
127086 ATATGTATCATTAATTGAT
1 ATATGTATCATTAATTGAT
127105 GTGTTACGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (20 bp):
ATATGTATCATTAATTGATA
Found at i:128965 original size:2 final size:2
Alignment explanation
Indices: 128958--129003 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
128948 AGAGAATGCA
128958 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
129000 AT AT
1 AT AT
129004 TCAACGACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130397 original size:191 final size:189
Alignment explanation
Indices: 130088--130436 Score: 529
Period size: 191 Copynumber: 1.8 Consensus size: 189
130078 CTTAAATATG
* * *
130088 TATTATTTTAATTTAAAATATACAAAAATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTA
1 TATTATTTTAATTTAAAATATACAAAAATATATAAGTATCTTTAATATTCAAAATTAAAAAGATA
* * * *
130153 ACAAATACGTTTCTAAGTTGACATATTCAAAGAGTAATTATCTTACTAATATTCAAATTAAATAA
66 ACAAATACCTTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAA-AA
* *
130218 TATA-TTTAATTTGTAATGGTCAAAAGGTAAACTCCTTTTATTACTCAAATTTAAAAAAAA
130 T-TACTTTAATTTGCAATAGTCAAAAGGTAAACTCCTTTTATTACTCAAATTTAAAAAAAA
* *
130278 TATTATTTTAATTTGAAATATACAAAAGTATATAAGTATCTTTTAATATTCAAAATTAAAAAGAT
1 TATTATTTTAATTTAAAATATACAAAAATATATAAGTATC-TTTAATATTCAAAATTAAAAAGAT
* *
130343 AACAAATACCTTTTTAAATTGACTTATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAA
65 AACAAATACCTTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAA
130408 TTAGCTTTTAATTTGCAATAGTCAAAAGG
130 TTA-C-TTTAATTTGCAATAGTCAAAAGG
130437 ACTATGAATT
Statistics
Matches: 142, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
189 2 0.01
190 40 0.28
191 79 0.56
192 21 0.15
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (189 bp):
TATTATTTTAATTTAAAATATACAAAAATATATAAGTATCTTTAATATTCAAAATTAAAAAGATA
ACAAATACCTTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAAT
TACTTTAATTTGCAATAGTCAAAAGGTAAACTCCTTTTATTACTCAAATTTAAAAAAAA
Found at i:132992 original size:120 final size:120
Alignment explanation
Indices: 132774--133000 Score: 382
Period size: 120 Copynumber: 1.9 Consensus size: 120
132764 ATTTTGATTG
* * * * *
132774 AAGGGAAATATTCAAATTTTACCTACCTTATTGAATTCATCATTGTCAATCAAAACTTGAATTTT
1 AAGGAAAATATTCAAATTTCACCAACCTAATTGAATTCATCATTGTCAATCAAAACTTGAATTCT
* *
132839 TTATCATTAACTTCACCATTGTTAATCAAAGCCCTAACCATCTAATTTCAAATTA
66 TGATCATTAACTTCACCATTGTTAATCAAAGCCCAAACCATCTAATTTCAAATTA
*
132894 AAGGAAAATATTCAAATTTCACCAACCTAATTGACTTCATCATTGTCAATCAAAACTTGAATTCT
1 AAGGAAAATATTCAAATTTCACCAACCTAATTGAATTCATCATTGTCAATCAAAACTTGAATTCT
132959 TGATCATTAACTTCACCATTGTTAATCAAAGCCCAAACCATC
66 TGATCATTAACTTCACCATTGTTAATCAAAGCCCAAACCATC
133001 AAGATTCAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.34
Consensus pattern (120 bp):
AAGGAAAATATTCAAATTTCACCAACCTAATTGAATTCATCATTGTCAATCAAAACTTGAATTCT
TGATCATTAACTTCACCATTGTTAATCAAAGCCCAAACCATCTAATTTCAAATTA
Found at i:133320 original size:25 final size:25
Alignment explanation
Indices: 133288--133343 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
133278 ATCATCTTGG
*
133288 AAAAAAATAAAATAAGATTGTTAGA
1 AAAAAAATAAAATAAGATGGTTAGA
133313 AAAAAAATAAAATAAGATGGTTAGA
1 AAAAAAATAAAATAAGATGGTTAGA
133338 AAAAAA
1 AAAAAA
133344 TGCGCACACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAAAAATAAAATAAGATGGTTAGA
Found at i:134276 original size:190 final size:190
Alignment explanation
Indices: 133930--134334 Score: 523
Period size: 190 Copynumber: 2.1 Consensus size: 190
133920 TAACAGTATC
* * * * * *
133930 TTTTAATTTGA-AATATTCAAATGATAAAACTTCTTTTACCATTCAAACTTAAATAGGTATTATT
1 TTTTAATTT-ACAATAGTCAAAAGGT-AAACTCCTTTTACCATTCAAACTTAAACAGATATTATT
* * * * *
133994 TTAATTTGAAGTATACAAAAGTATATAATTATCTTTAATATACAAAGTTAAAAAGGTAACAAATA
64 TTAATTTGAAATATAAAAAAATATATAATTATCTTTAATATACAAAATTAAAAAGATAACAAATA
* *
134059 CCTTTCTAAGTTGACATATTCAAAGAGTAATTATCCTACTAATATTCAAATTAAATAA-TATA
129 CCTTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAA-AATTATA
* * ** * *
134121 -TTTAATTTGCAATGGTCAAAAGGTAAACTCCTTTTATTATTCAAACTTAAACATATTTTATTTT
1 TTTTAATTTACAATAGTCAAAAGGTAAACTCCTTTTACCATTCAAACTTAAACAGATATTATTTT
*
134185 AATTTGAAATATAAAAAAATATATAATTATCTTTTAATATTCAAAATTAAAAAGATAACAAATAC
66 AATTTGAAATATAAAAAAATATATAATTATC-TTTAATATACAAAATTAAAAAGATAACAAATAC
* *
134250 CTTT-TAAAATTGAC-TCTTTAAAAGAGTAATTCTCCTACTAATATTCAAATTAAAAATTATA
130 CTTTCT-AAATTGACAT-ATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAATTATA
134311 TTTTAATTTACAATAGTCAAAAGG
1 TTTTAATTTACAATAGTCAAAAGG
134335 ACTATGAATT
Statistics
Matches: 184, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
189 65 0.35
190 98 0.53
191 21 0.11
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (190 bp):
TTTTAATTTACAATAGTCAAAAGGTAAACTCCTTTTACCATTCAAACTTAAACAGATATTATTTT
AATTTGAAATATAAAAAAATATATAATTATCTTTAATATACAAAATTAAAAAGATAACAAATACC
TTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAATTATA
Found at i:136874 original size:119 final size:120
Alignment explanation
Indices: 136663--136892 Score: 435
Period size: 119 Copynumber: 1.9 Consensus size: 120
136653 AATCGTTTTG
*
136663 ATTAAAGGGAAATATTCAAATTTCACCTACCTGATTGACTTCATCATTGTCAATCAAAACTTGAA
1 ATTAAAGGAAAATATTCAAATTTCACCTACCTGATTGACTTCATCATTGTCAATCAAAACTTGAA
*
136728 TTCTTGATCATTAACTTCACCATTGTTAATCAAA-CCCAAACCATCTAACTTCGA
66 TTCTTGATCATTAACTTCACCATTGTTAATCAAAGCACAAACCATCTAACTTCGA
136782 ATTAAAGGAAAATATTCAAATTTCACCTACCTGATTGACTTCATCATTGTCAATCAAAACTTGAA
1 ATTAAAGGAAAATATTCAAATTTCACCTACCTGATTGACTTCATCATTGTCAATCAAAACTTGAA
136847 TTCTTGATCATTAACTTCACCATTGTTAATCAAAGCACAAACCATC
66 TTCTTGATCATTAACTTCACCATTGTTAATCAAAGCACAAACCATC
136893 AAGATTCAAG
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 98 0.91
120 10 0.09
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (120 bp):
ATTAAAGGAAAATATTCAAATTTCACCTACCTGATTGACTTCATCATTGTCAATCAAAACTTGAA
TTCTTGATCATTAACTTCACCATTGTTAATCAAAGCACAAACCATCTAACTTCGA
Found at i:145765 original size:2 final size:2
Alignment explanation
Indices: 145758--145803 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
145748 CGAAACTTGA
* *
145758 AT AT AT AT AT AT AT AT AA AT AT AT AA 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
145800 AT AT
1 AT AT
145804 TTAAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:146566 original size:2 final size:2
Alignment explanation
Indices: 146559--146623 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
146549 TAATTAAAAC
146559 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
*
146601 AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
146624 ATACATACAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:148168 original size:21 final size:21
Alignment explanation
Indices: 148143--148211 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
148133 ATAACTCAAC
*
148143 ATTTCTAGTTGAACGTAAGTT
1 ATTTCTAGTTGAACATAAGTT
148164 ATTTCTAGTTGAACATAAGTT
1 ATTTCTAGTTGAACATAAGTT
*
148185 ATTTATAGTTGAACATAAGTT
1 ATTTCTAGTTGAACATAAGTT
148206 ATTTCT
1 ATTTCT
148212 TGTATCTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
ATTTCTAGTTGAACATAAGTT
Found at i:155095 original size:3 final size:3
Alignment explanation
Indices: 155061--155150 Score: 73
Period size: 3 Copynumber: 30.7 Consensus size: 3
155051 TTTTTTTTAC
*
155061 TAT TAT AAT TAT T-T TAT T-T TAT T-T GT-T TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * *
155103 TAA TAT TAT TA- TAT TAT TATT TAT TTT TAT TAAT AAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT
155149 TA
1 TA
155151 CAAAACAGGC
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 8 0.11
3 57 0.81
4 5 0.07
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:156553 original size:29 final size:30
Alignment explanation
Indices: 156520--156576 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
156510 GGTTGTAAAT
156520 TTTAATATTT-TATATTTTAATC-CTATTAC
1 TTTAAT-TTTATATATTTTAATCACTATTAC
* *
156549 TTTAATTTTATATGTTTTAGTCACTATT
1 TTTAATTTTATATATTTTAATCACTATT
156577 TAATTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTAATTTTATATATTTTAATCACTATTAC
Found at i:156866 original size:17 final size:18
Alignment explanation
Indices: 156846--156879 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
156836 GCTTAGGAAA
156846 ATTTATTATT-AATATTT
1 ATTTATTATTCAATATTT
*
156863 ATTTATTTTTCAATATT
1 ATTTATTATTCAATATT
156880 AAGAAAGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATTATTCAATATTT
Found at i:157597 original size:19 final size:19
Alignment explanation
Indices: 157569--157615 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
157559 TCTTTTCAAA
*
157569 ATTTTTATATATACTTATT
1 ATTTTCATATATACTTATT
157588 ATTTTCATATATACTTATT
1 ATTTTCATATATACTTATT
157607 ATTTTCATA
1 ATTTTCATA
157616 ATATTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTCATATATACTTATT
Found at i:157624 original size:26 final size:25
Alignment explanation
Indices: 157595--157663 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
157585 ATTATTTTCA
157595 TATATACTTATTATTTTCATAATATT
1 TATATA-TTATTATTTTCATAATATT
* ** *
157621 TATATGTATATTATTTTTTTTATATT
1 TATATAT-TATTATTTTCATAATATT
*
157647 T-TATATTTTTATTTTCA
1 TATATATTATTATTTTCA
157664 AGTATTAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 8 0.24
25 5 0.15
26 21 0.62
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (25 bp):
TATATATTATTATTTTCATAATATT
Found at i:159074 original size:43 final size:44
Alignment explanation
Indices: 159013--159099 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
159003 TGGCTTTAAA
* *
159013 GAAGTTAGGATGGAAAGTTATCCCCTATATGT-AAAGTTTTGTT
1 GAAGTTAGAATGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
* * *
159056 GAAGTTAGAATTGAAAGTTGTCTCCTACATGTAAAAGTTTTGTT
1 GAAGTTAGAATGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
159100 TGATGCACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (44 bp):
GAAGTTAGAATGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
Found at i:166597 original size:22 final size:22
Alignment explanation
Indices: 166571--166628 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
166561 TATATCTACG
*
166571 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCC
166593 CTCTTCAAAGATGATAGATTCC
1 CTCTTCAAAGATGATAGATTCC
*
166615 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
166629 AGGCTCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCC
Found at i:167218 original size:113 final size:113
Alignment explanation
Indices: 167027--167787 Score: 1057
Period size: 113 Copynumber: 6.7 Consensus size: 113
167017 TGCCAGGTAT
167027 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
167092 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
66 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
*
167140 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * *
167205 AACCTTTTTCTTTAATTCATCACCCAATGGATTAGCATTGCGAGAGAA
66 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
* * *
167253 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAATTCATAACGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
** *
167318 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGGAAGAAAA
66 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
*
167366 AGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
167431 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
66 AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
* **
167479 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* ** * * * *
167544 AAACTTTTG-TTTGAATTCATCATTCGATGGATCAACTTTTCCAGAG-A
66 AACCTTTTGCTTT-AATTCATCACCCGATGGATTAGCATTGCCAGAGAA
* *
167591 AGTTCATAATGAGAAGAACTCATGTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * ** * * *
167656 AACCTTTTGC-ATGACTCTATCA-TAGAAGGAGATATATCATCATCAACTTTTCTAGAG-A
66 AACCTTTTGCTTTAATTC-ATCACCCG-ATG-GAT-TAGCAT--T--GC----C-AGAGAA
* *
167714 AGTTCATAATGAGAAGAACTCATCTGAAGAA-AAAGAAAAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
167778 AACCTTTTGC
66 AACCTTTTGC
167788 ATGACTCTGT
Statistics
Matches: 585, Mismatches: 48, Indels: 21
0.89 0.07 0.03
Matches are distributed among these distances:
111 5 0.01
112 79 0.14
113 418 0.71
114 3 0.01
116 1 0.00
118 1 0.00
122 43 0.07
123 35 0.06
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAA
Found at i:167792 original size:122 final size:123
Alignment explanation
Indices: 167574--167899 Score: 528
Period size: 122 Copynumber: 2.7 Consensus size: 123
167564 CATTCGATGG
*
167574 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATGTGAAGAAGGAAGAAAAAGTTCATA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATA
* *
167639 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATATATCATC
66 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAAC
* *
167697 ATCAACTTTTCTAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-AAAGAAAAAGTTCATA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATA
* *
167761 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTGTCATAGAAGGAGATGGATCAAC
66 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAAC
* * * * *
167819 ATCAATTTTTCCAGAGAAGTTTATAATGAGAAGAACTCATTTGGAGAAGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATA
*
167884 ATGAGAAGAACTTGTT
66 ATGAGAAGAGCTTGTT
167900 TAATTGTTTT
Statistics
Matches: 187, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
122 112 0.60
123 75 0.40
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (123 bp):
ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATA
ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAAC
Found at i:168233 original size:3 final size:3
Alignment explanation
Indices: 168225--168284 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
168215 TTTTTACTAA
* *
168225 TAT TAT TAT T-T TAT T-T TAT CTGTT TAT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT TAT TAT
*
168270 TAAT TAT TTT TAT TA
1 T-AT TAT TAT TAT TA
168285 ATAAATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 5 0.11
5 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:168297 original size:22 final size:21
Alignment explanation
Indices: 168248--168297 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
168238 TTTTATCTGT
*
168248 TTATTATTATTATTAATATTA
1 TTATTATTATTATTAATAATA
*
168269 TTAATTATTTTTATTAATAAATA
1 TT-ATTATTATTATTAAT-AATA
168292 TTATTA
1 TTATTA
168298 CTACAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATTATTATTAATAATA
Found at i:169629 original size:29 final size:30
Alignment explanation
Indices: 169596--169652 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
169586 GGTTGTAAAT
169596 TTTAATATTT-TATATTTTAATC-CTATTAC
1 TTTAAT-TTTATATATTTTAATCACTATTAC
* *
169625 TTTAATTTTATATGTTTTAGTCACTATT
1 TTTAATTTTATATATTTTAATCACTATT
169653 TAATTGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTAATTTTATATATTTTAATCACTATTAC
Found at i:170146 original size:118 final size:116
Alignment explanation
Indices: 169929--170146 Score: 258
Period size: 118 Copynumber: 1.9 Consensus size: 116
169919 GGAAAAATTA
* * * * * *
169929 TTATTAATATTTATTTATTTTTCAATATTAAGAAAGGACAGTCTTAAAGTAACTGGATGTCCATT
1 TTATAAATATTTATTTATTTTTCAATATTAAGAAAAGACAGTCTTAAAGCAACTAGAAGCCCATT
* * *
169994 TTCTGATATTTTTAAATAAATAAATATTTTTTATTATTTTTAGATAAATGTT
66 TTATGATATTTCTAAATAAATAAATA-TTCTTATTATTTTTAGATAAATGTT
* * *
170046 TTATAAATATTTATTTATTTTTTTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCCT
1 TTATAAATATTTATTTA-TTTTTCAATATTAAGAAAAGA-CAGTCTTAAAGCAACTAGAAGCCC-
* * *
170111 TTTTTATGATATTTCTAAGTAAATAAGTA-TCTTATT
63 ATTTTATGATATTTCTAAATAAATAAATATTCTTATT
170147 TAAAAATATA
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
117 16 0.19
118 25 0.30
119 18 0.22
120 24 0.29
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.47
Consensus pattern (116 bp):
TTATAAATATTTATTTATTTTTCAATATTAAGAAAAGACAGTCTTAAAGCAACTAGAAGCCCATT
TTATGATATTTCTAAATAAATAAATATTCTTATTATTTTTAGATAAATGTT
Found at i:175114 original size:49 final size:49
Alignment explanation
Indices: 175059--175163 Score: 167
Period size: 49 Copynumber: 2.1 Consensus size: 49
175049 TGCATTGAGA
* *
175059 ATAAAAGGTGCCACTAATGAAAGTTAAATACATAACA-GTGCATTTTGGC
1 ATAAAAGGTGCCACAAATGAAAGTTAAATACATAA-AGGTGCATTTCGGC
*
175108 ATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAAGGTGCATTTCGGC
1 ATAAAAGGTGCCACAAATGAAAGTTAAATACATAAAGGTGCATTTCGGC
175157 ATAAAAG
1 ATAAAAG
175164 TTACCACTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.98
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (49 bp):
ATAAAAGGTGCCACAAATGAAAGTTAAATACATAAAGGTGCATTTCGGC
Found at i:187091 original size:21 final size:21
Alignment explanation
Indices: 187066--187106 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
187056 CTTTGAGTTA
* *
187066 TCAATACAGGAATTCATGGCC
1 TCAATAAAAGAATTCATGGCC
*
187087 TCAATAAAAGATTTCATGGC
1 TCAATAAAAGAATTCATGGC
187107 TTCCACAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (21 bp):
TCAATAAAAGAATTCATGGCC
Found at i:195674 original size:21 final size:21
Alignment explanation
Indices: 195648--195688 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
195638 CTTTATGAAA
*
195648 TCATTAA-ATTATTTTCTTAGT
1 TCATTAATATTA-GTTCTTAGT
195669 TCATTAATATTAGTTCTTAG
1 TCATTAATATTAGTTCTTAG
195689 GATAATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (21 bp):
TCATTAATATTAGTTCTTAGT
Found at i:202322 original size:25 final size:25
Alignment explanation
Indices: 202286--202347 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
202276 ACTAATTATT
*
202286 TAACATTA-AATGTAACATGAATTAA
1 TAACA-TACAATGCAACATGAATTAA
202311 TAACATACAATGCAACATGAATTAA
1 TAACATACAATGCAACATGAATTAA
* *
202336 TAATATGCAATG
1 TAACATACAATG
202348 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 2 0.06
25 31 0.94
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (25 bp):
TAACATACAATGCAACATGAATTAA
Found at i:205749 original size:78 final size:78
Alignment explanation
Indices: 205586--205768 Score: 219
Period size: 78 Copynumber: 2.4 Consensus size: 78
205576 AGTCAGTTTG
* * * * * *
205586 TCTAATTC-TAATCTATGGATATTGTTTCTACATAATTGATATGTCTAAACTCTAATTTCTTGCT
1 TCTAATTCATGATCTCTGGATATCGTTTCTACATAATTGATATATCTAAACTCTAATTTATTACT
*
205650 ACAGCTCTGCATG
66 ACAGCTCTGCATC
* *
205663 TCTGATTCATGATCTCTGGATATCGTTTCTAC-TGAATTGATATATCTGAACTCTAATTTATTAC
1 TCTAATTCATGATCTCTGGATATCGTTTCTACAT-AATTGATATATCTAAACTCTAATTTATTAC
* *
205727 TACCA-CTTTGCCTC
65 TA-CAGCTCTGCATC
*
205741 TCTAATTCATGATCTCTGGATACCGTTT
1 TCTAATTCATGATCTCTGGATATCGTTT
205769 ATAATAAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
77 8 0.09
78 80 0.89
79 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (78 bp):
TCTAATTCATGATCTCTGGATATCGTTTCTACATAATTGATATATCTAAACTCTAATTTATTACT
ACAGCTCTGCATC
Found at i:211521 original size:25 final size:25
Alignment explanation
Indices: 211487--211534 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
211477 ACCCCCCAAT
*
211487 TTTCCCAATTTTCTCAAAATCCCTA
1 TTTCCCAATTTTCACAAAATCCCTA
*
211512 TTTCCTAATTTTCACAAAATCCC
1 TTTCCCAATTTTCACAAAATCCC
211535 ATGCCCTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTCCCAATTTTCACAAAATCCCTA
Found at i:212148 original size:14 final size:14
Alignment explanation
Indices: 212129--212174 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
212119 CTCGACCAAG
212129 CAACTCATCTGAGT
1 CAACTCATCTGAGT
212143 CAACTCATCTGAGT
1 CAACTCATCTGAGT
* *
212157 CAACTCGTTTGAGT
1 CAACTCATCTGAGT
212171 CAAC
1 CAAC
212175 CCGTTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (14 bp):
CAACTCATCTGAGT
Found at i:212179 original size:14 final size:14
Alignment explanation
Indices: 212138--212180 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
212128 GCAACTCATC
* *
212138 TGAGTCAACTCATC
1 TGAGTCAACTCGTT
212152 TGAGTCAACTCGTT
1 TGAGTCAACTCGTT
*
212166 TGAGTCAACCCGTT
1 TGAGTCAACTCGTT
212180 T
1 T
212181 ACTATAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (14 bp):
TGAGTCAACTCGTT
Found at i:212788 original size:78 final size:78
Alignment explanation
Indices: 212640--212863 Score: 333
Period size: 78 Copynumber: 2.9 Consensus size: 78
212630 TAAGTCTGCT
* * * *
212640 TGTCTAATTCATGATCTTTAGATACCGTTTCTACTGAA-TGATATGTCTGAACTCTGATTTCTTG
1 TGTCTGATTCATGATCTCTAGATATCGTTTCTACTGAATTGATATGTCTGAACTCTGATTTCCTG
212704 CTACCACTATGCA
66 CTACCACTATGCA
* * *
212717 TGTCTGATTCATGATCTCTGGATATCGTTTCTACTGAATTGATATGTTTGAACTCTTATTTCCTG
1 TGTCTGATTCATGATCTCTAGATATCGTTTCTACTGAATTGATATGTCTGAACTCTGATTTCCTG
* *
212782 CTACCACTTTGCT
66 CTACCACTATGCA
* * *
212795 TGTCTGATTCATGATCTCTCGATATTGTTTCTACTGAATTGATATGTCTAAACTCTGATTTCCTG
1 TGTCTGATTCATGATCTCTAGATATCGTTTCTACTGAATTGATATGTCTGAACTCTGATTTCCTG
212860 CTAC
66 CTAC
212864 TACTTGTTAT
Statistics
Matches: 132, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
77 34 0.26
78 98 0.74
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.43
Consensus pattern (78 bp):
TGTCTGATTCATGATCTCTAGATATCGTTTCTACTGAATTGATATGTCTGAACTCTGATTTCCTG
CTACCACTATGCA
Found at i:214492 original size:39 final size:39
Alignment explanation
Indices: 214443--214523 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
214433 GACCTTACCG
* * *
214443 CTTTCCGCAGGCTCCTCTGCTTTGTGTACAGGATAAGAC
1 CTTTCCGCAGGCTCCCCTACTTTGTGCACAGGATAAGAC
* * *
214482 CTTTCTGCAGGCTCCCCTACTTTGTGCACAGGGTAAGTC
1 CTTTCCGCAGGCTCCCCTACTTTGTGCACAGGATAAGAC
214521 CTT
1 CTT
214524 ACTGGGTGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.16, C:0.30, G:0.22, T:0.32
Consensus pattern (39 bp):
CTTTCCGCAGGCTCCCCTACTTTGTGCACAGGATAAGAC
Found at i:216741 original size:15 final size:15
Alignment explanation
Indices: 216723--216751 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
216713 TTTTATGTTG
216723 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
216738 TTTTTAATTTTTTA
1 TTTTTAATTTTTTA
216752 TTATTGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:219202 original size:20 final size:20
Alignment explanation
Indices: 219159--219202 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
219149 ATTCCTTGTT
* *
219159 GTATTTTCATATTTGCATTT
1 GTATGTTCATATTTGCATTA
* *
219179 GTATGTTCATCTTTGTATTA
1 GTATGTTCATATTTGCATTA
219199 GTAT
1 GTAT
219203 ATATACATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (20 bp):
GTATGTTCATATTTGCATTA
Found at i:221279 original size:28 final size:28
Alignment explanation
Indices: 221219--221280 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
221209 TGCTAGAAGC
*
221219 CAACCTGTAACACATTACCTCCCCAAAT
1 CAACCTGAAACACATTACCTCCCCAAAT
* * *
221247 TAACCTGAAACACATTACCTTCCCAAGT
1 CAACCTGAAACACATTACCTCCCCAAAT
221275 CAACCT
1 CAACCT
221281 AAGCCTTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.37, G:0.05, T:0.23
Consensus pattern (28 bp):
CAACCTGAAACACATTACCTCCCCAAAT
Found at i:227730 original size:62 final size:61
Alignment explanation
Indices: 227653--227775 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 61
227643 GTCCTGACCA
227653 TCTCGATTTTAGCTAGCTTGGGAATAACTTAAGGCGTGAATTGTAGAGCAGTACTTGTTGT
1 TCTCGATTTTAGCTAGCTTGGGAATAACTTAAGGCGTGAATTGTAGAGCAGTACTTGTTGT
227714 TCTCGATTTTTAGCTAGCTTGGGAATAACTTAAGGCGTGAATTGTAGAGCAGTACTTGTTGT
1 TCTCGA-TTTTAGCTAGCTTGGGAATAACTTAAGGCGTGAATTGTAGAGCAGTACTTGTTGT
227776 CTAGAATAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 6 0.10
62 55 0.90
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (61 bp):
TCTCGATTTTAGCTAGCTTGGGAATAACTTAAGGCGTGAATTGTAGAGCAGTACTTGTTGT
Found at i:228967 original size:155 final size:155
Alignment explanation
Indices: 228685--228995 Score: 622
Period size: 155 Copynumber: 2.0 Consensus size: 155
228675 TAGCCTAGAC
228685 AAATGGTCTGCCACTTGATTTTCTAAACCTTTTCTATCCTTGATCTCTAAATTGAATTCTTGTAG
1 AAATGGTCTGCCACTTGATTTTCTAAACCTTTTCTATCCTTGATCTCTAAATTGAATTCTTGTAG
228750 TAATAATATCCATCGAATTAGTCTAGGCTTAGCATCTTTTTTATTAATCAGATATTTAATGGTTG
66 TAATAATATCCATCGAATTAGTCTAGGCTTAGCATCTTTTTTATTAATCAGATATTTAATGGTTG
228815 AGTGATACGTGTGCACAATTACCTT
131 AGTGATACGTGTGCACAATTACCTT
228840 AAATGGTCTGCCACTTGATTTTCTAAACCTTTTCTATCCTTGATCTCTAAATTGAATTCTTGTAG
1 AAATGGTCTGCCACTTGATTTTCTAAACCTTTTCTATCCTTGATCTCTAAATTGAATTCTTGTAG
228905 TAATAATATCCATCGAATTAGTCTAGGCTTAGCATCTTTTTTATTAATCAGATATTTAATGGTTG
66 TAATAATATCCATCGAATTAGTCTAGGCTTAGCATCTTTTTTATTAATCAGATATTTAATGGTTG
228970 AGTGATACGTGTGCACAATTACCTT
131 AGTGATACGTGTGCACAATTACCTT
228995 A
1 A
228996 GTGCCTATTA
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 156 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (155 bp):
AAATGGTCTGCCACTTGATTTTCTAAACCTTTTCTATCCTTGATCTCTAAATTGAATTCTTGTAG
TAATAATATCCATCGAATTAGTCTAGGCTTAGCATCTTTTTTATTAATCAGATATTTAATGGTTG
AGTGATACGTGTGCACAATTACCTT
Found at i:230124 original size:17 final size:17
Alignment explanation
Indices: 230102--230157 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
230092 CTTCATGATC
*
230102 GGGTTGAGCCATTTTTG
1 GGGTTGAGCCATCTTTG
**
230119 GGGTTGAGCTGTCTTTG
1 GGGTTGAGCCATCTTTG
230136 GGGTTGAGCCATCTTTG
1 GGGTTGAGCCATCTTTG
230153 GGGTT
1 GGGTT
230158 TCATCGAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.09, C:0.12, G:0.39, T:0.39
Consensus pattern (17 bp):
GGGTTGAGCCATCTTTG
Found at i:233667 original size:38 final size:39
Alignment explanation
Indices: 233610--233804 Score: 222
Period size: 39 Copynumber: 5.1 Consensus size: 39
233600 ACAGAGTTAT
* *
233610 AGATAGTTTCACTCGAAACATAAGA-TTTATCTCACTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTG
**
233648 AGATAGTTTCACTTAAAACA-ACAGATTTTATCTCGCTTG
1 AGATAGTTTCACTCGAAACAGA-AGATTTTATCTCGCTTG
* * *
233687 AGATAGTTTCTCTCGAAACAAAAGATTTTTATTTCGCTTG
1 AGATAGTTTCACTCGAAACAGAAGA-TTTTATCTCGCTTG
* *
233727 AG--A-TTTCACTCAAAAAAGAAGATTTTATCTCGCTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTG
* * *
233763 ATATAGTTTCACTCGAAACAGAAGA-TTTACCTCACTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTG
233801 AGAT
1 AGAT
233805 TTTTTTTTAA
Statistics
Matches: 132, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
36 14 0.11
37 16 0.12
38 37 0.28
39 49 0.37
40 16 0.12
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (39 bp):
AGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTG
Found at i:233769 original size:76 final size:78
Alignment explanation
Indices: 233610--233803 Score: 240
Period size: 76 Copynumber: 2.6 Consensus size: 78
233600 ACAGAGTTAT
* * *
233610 AGATAGTTTCACTCGAAACATAAGA--TTTATCTCACTTGAGATAGTTTCACTTAAAACAACAGA
1 AGATAGTTTCACTCGAAACAAAAGATTTTTATCTCACTTGAGA-AGTTTCACTCAAAACAAAAGA
233673 TTTTATCTCGCTTG
65 TTTTATCTCGCTTG
* * *
233687 AGATAGTTTCTCTCGAAACAAAAGATTTTTATTTCGCTTGAG-A-TTTCACTCAAAA-AAGAAGA
1 AGATAGTTTCACTCGAAACAAAAGATTTTTATCTCACTTGAGAAGTTTCACTCAAAACAA-AAGA
233749 TTTTATCTCGCTTG
65 TTTTATCTCGCTTG
* * *
233763 ATATAGTTTCACTCGAAACAGAAGA--TTTACCTCACTTGAGA
1 AGATAGTTTCACTCGAAACAAAAGATTTTTATCTCACTTGAGA
233804 TTTTTTTTTA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
74 12 0.12
75 2 0.02
76 50 0.50
77 24 0.24
79 13 0.13
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (78 bp):
AGATAGTTTCACTCGAAACAAAAGATTTTTATCTCACTTGAGAAGTTTCACTCAAAACAAAAGAT
TTTATCTCGCTTG
Found at i:239598 original size:198 final size:198
Alignment explanation
Indices: 239260--239653 Score: 700
Period size: 198 Copynumber: 2.0 Consensus size: 198
239250 TTTGAGAGTG
*
239260 GGGGTTTTATAGAAATCATATTTTGGATTTAGAATTTTAGTAAAGAAAAATTAGAAAGGGTAGAA
1 GGGGTTTTATAGAAATCATATTTTGGATTTAGAATTTTAATAAAGAAAAATTAGAAAGGGTAGAA
*
239325 ACAGGTAAGGAATCAGTAATTTAGATCGAATTGGAATTTTATAAAAATTTGAAGGATGGTATAAA
66 ACAGGTAAGGAATCAGTAATTCAGATCGAATTGGAATTTTATAAAAATTTGAAGGATGGTATAAA
*
239390 ATGGTTGGAAAGATTATTTTAATATTTTAGATCAGAGAAAATTTATTTGGAAATGTGCAATTTTT
131 ATGGTTGGAAAGATTATTTTAATATTTTAGATCAGAGAAAATTTATTTAGAAATGTGCAATTTTT
239455 CAA
196 CAA
*
239458 GGGGTTTTATAGAAATCATATTTTGGATTTGGAATTTTAATAAAGAAAAATTAGAAAGGGTAGAA
1 GGGGTTTTATAGAAATCATATTTTGGATTTAGAATTTTAATAAAGAAAAATTAGAAAGGGTAGAA
* *
239523 GTC-GGTAAGGAATCGGTAATTCAGATCGAATTGGAATTTTATAAAAATTTGAAGGATGGTATAA
66 -ACAGGTAAGGAATCAGTAATTCAGATCGAATTGGAATTTTATAAAAATTTGAAGGATGGTATAA
* *
239587 AATGGTTGGAAATATTATTTTAATATTTTAGATCAGAGAAAATTTGTTTAGAAATGTGCAATTTT
130 AATGGTTGGAAAGATTATTTTAATATTTTAGATCAGAGAAAATTTATTTAGAAATGTGCAATTTT
239652 TC
195 TC
239654 TTATTTAACC
Statistics
Matches: 187, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
198 186 0.99
199 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (198 bp):
GGGGTTTTATAGAAATCATATTTTGGATTTAGAATTTTAATAAAGAAAAATTAGAAAGGGTAGAA
ACAGGTAAGGAATCAGTAATTCAGATCGAATTGGAATTTTATAAAAATTTGAAGGATGGTATAAA
ATGGTTGGAAAGATTATTTTAATATTTTAGATCAGAGAAAATTTATTTAGAAATGTGCAATTTTT
CAA
Found at i:240834 original size:59 final size:59
Alignment explanation
Indices: 240763--241268 Score: 476
Period size: 59 Copynumber: 8.6 Consensus size: 59
240753 TTACCAAATG
* * *
240763 GCACTATATGTGCTAAAATGATAAGGAGATCATACTGAATGTATGAATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* *
240822 GCACCA-AGTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGA-TTCCATATGGA
1 GCACTATA-TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
*
240880 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATAGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* *
240939 GCACTATATGTGCTAAAATGATAAGGAAATCATACTTAGTGTATAGATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * * * * * * *
240998 ACACTGA-GTGTGCTAAAATAATAAGGAAATCATATTGAATATATGGATTTCCAGAT-AA
1 GCACT-ATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * * * ***
241056 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAAAAAAA
1 -GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * * * * * ** *
241116 GCACTA-AGGGTGCTACAAGGATAAGGAAATCATACTAACTATATGGATTTTTATAT-AA
1 GCACTATA-TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * **
241174 TGCACT-TCATGTGCTAAAAATGGTAAAGG-AATCATACT-AATGGTATGGATTTTTGA-ATAGG
1 -GCACTAT-ATGTGCT-AAAATGAT-AAGGAAATCATACTGAGT-GTATGGA-TTTCCATAT-GG
241235 -
59 A
* * * *
241235 GCACTTTGTGTGCAAAAATGAGAAGGAAATCATA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATA
241269 TTAAGTATAT
Statistics
Matches: 371, Mismatches: 57, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
58 64 0.17
59 261 0.70
60 36 0.10
61 10 0.03
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
Found at i:241145 original size:177 final size:176
Alignment explanation
Indices: 240763--241151 Score: 532
Period size: 176 Copynumber: 2.2 Consensus size: 176
240753 TTACCAAATG
* * *
240763 GCACTATATGTGCTAAAATGATAAGGAGATCATACTGAATGTATGAATTTCCATATGGAGCACCA
1 GCACTATAGGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAACACCA
* * * * *
240828 AGTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTCCATATGGAGCACTATATGTGC
66 AGTGTGCTAAAATAATAAGGAAATCATATTGAATATATGGATTCCAGATAGAGCACTATATGTGC
* * *
240893 TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATAGA
131 TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAAAAAAA
* * * *
240939 GCACTATATGTGCTAAAATGATAAGGAAATCATACTTAGTGTAT-AGATTTCCATATGGAACACT
1 GCACTATAGGTGCTAAAATGATAAGGAAATCATACTGAATGTATGA-ATTTCCATATGGAACACC
* *
241003 GAGTGTGCTAAAATAATAAGGAAATCATATTGAATATATGGATTTCCAGATA-AGGCATTATATG
65 AAGTGTGCTAAAATAATAAGGAAATCATATTGAATATATGGA-TTCCAGATAGA-GCACTATATG
* *
241067 TGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAAAAAAA
128 TGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAAAAAAA
* *
241116 GCACTA-AGGGTGCTACAAGGATAAGGAAATCATACT
1 GCACTATA-GGTGCTAAAATGATAAGGAAATCATACT
241152 AACTATATGG
Statistics
Matches: 189, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
175 1 0.01
176 97 0.51
177 91 0.48
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (176 bp):
GCACTATAGGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAACACCA
AGTGTGCTAAAATAATAAGGAAATCATATTGAATATATGGATTCCAGATAGAGCACTATATGTGC
TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAAAAAAA
Found at i:241239 original size:60 final size:60
Alignment explanation
Indices: 241138--241279 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
241128 CTACAAGGAT
*
241138 AAGGAAATCATACTAACTATATGGATTTTTATATAATGCACTTCATGTGCTAAAAATGGTA
1 AAGGAAATCATACTAACTATATGGATTTTTATATAAGGCACTTCATGTGC-AAAAATGGTA
* * **
241199 AAGG-AATCATACTAA-TGGTATGGATTTTTGA-ATAGGGCACTTTGTGTGCAAAAAT-G-A
1 AAGGAAATCATACTAACT-ATATGGATTTTT-ATATAAGGCACTTCATGTGCAAAAATGGTA
* *
241256 GAAGGAAATCATATTAAGTATATG
1 -AAGGAAATCATACTAACTATATG
241280 ATATTCCACA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
57 1 0.01
58 5 0.07
59 21 0.30
60 37 0.54
61 5 0.07
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (60 bp):
AAGGAAATCATACTAACTATATGGATTTTTATATAAGGCACTTCATGTGCAAAAATGGTA
Found at i:241468 original size:44 final size:44
Alignment explanation
Indices: 241405--241669 Score: 395
Period size: 44 Copynumber: 6.0 Consensus size: 44
241395 TCAGTGATAC
*
241405 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCATATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
241449 AAATTATAGTAAGTATATTGGTAAAACAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
241493 AAATTATAATAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
241537 AAATTATAGTAAGTATATTGGTAAAATAAGATTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * * *
241581 GAATAATGGTATGTATATTGGTAAAATAAACTTACGAGCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
241625 GATTTAATGGTAAGTATATTGGTAAAATAAGCTTGCGAGCTTATG
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
241670 GATTAAATGG
Statistics
Matches: 201, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
44 166 0.83
45 35 0.17
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:243668 original size:16 final size:16
Alignment explanation
Indices: 243647--243678 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
243637 ATTGATGAAA
*
243647 AAGTGATATCATCAAT
1 AAGTGATATCAGCAAT
243663 AAGTGATATCAGCAAT
1 AAGTGATATCAGCAAT
243679 GGTTACGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (16 bp):
AAGTGATATCAGCAAT
Found at i:246319 original size:198 final size:198
Alignment explanation
Indices: 245979--246374 Score: 720
Period size: 198 Copynumber: 2.0 Consensus size: 198
245969 TCTTGAGAGT
245979 GGGGGTTTTATAGAAATCATATTTTGGATTTGGAATTTTAGTAAAGAAAAATTAGAAAGGGTAGA
1 GGGGGTTTTATAGAAATCATATTTTGGATTTGGAATTTTAGTAAAGAAAAATTAGAAAGGGTAGA
*
246044 AGCCGATAAGGAATCGGTAATTCAGATCGAATTGGAAATTTATAAAAATTTGAAGGATGGTATAA
66 AACCGATAAGGAATCGGTAATTCAGATCGAATTGGAAATTTATAAAAATTTGAAGGATGGTATAA
* *
246109 AATGGGTGGAAAGATTATTTTAATATTTTAGATCAGAGAAATTTTGTTTGGAAATGTGTAATTTT
131 AATGGGTGGAAAGATTATTTTAATATTTTAGACCAGAGAAATTTTGTTTGGAAATGTGCAATTTT
246174 TCA
196 TCA
* *
246177 GGGGGTTTTATAGAAATCATATTTTGGATTTGGAATTTTAGTAAAGAAAGATTAGGAAGGGTAGA
1 GGGGGTTTTATAGAAATCATATTTTGGATTTGGAATTTTAGTAAAGAAAAATTAGAAAGGGTAGA
* *
246242 AACCGGTAAGGAATCGGTAATTCAGATCGAATTGGAATTTTATAAAAATTTGAAGGATGGTATAA
66 AACCGATAAGGAATCGGTAATTCAGATCGAATTGGAAATTTATAAAAATTTGAAGGATGGTATAA
*
246307 AATGGTTGGAAAGATTATTTTAATATTTTAGACCAGAGAAATTTTGTTTGGAAATGTGCAATTTT
131 AATGGGTGGAAAGATTATTTTAATATTTTAGACCAGAGAAATTTTGTTTGGAAATGTGCAATTTT
246372 TCA
196 TCA
246375 TATTTAACCG
Statistics
Matches: 190, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 190 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (198 bp):
GGGGGTTTTATAGAAATCATATTTTGGATTTGGAATTTTAGTAAAGAAAAATTAGAAAGGGTAGA
AACCGATAAGGAATCGGTAATTCAGATCGAATTGGAAATTTATAAAAATTTGAAGGATGGTATAA
AATGGGTGGAAAGATTATTTTAATATTTTAGACCAGAGAAATTTTGTTTGGAAATGTGCAATTTT
TCA
Done.