Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006293.1 Hibiscus syriacus cultivar Beakdansim tig00015038_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: 166650
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Found at i:6864 original size:26 final size:27
Alignment explanation
Indices: 6812--6865 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
6802 GAATCCGCTG
6812 CTAGAATATTAACTATTTTATCAGCTC
1 CTAGAATATTAACTATTTTATCAGCTC
6839 CTAGAATATTAACTA-TTTATCAGCTC
1 CTAGAATATTAACTATTTTATCAGCTC
6865 C
1 C
6866 ATTATCAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (27 bp):
CTAGAATATTAACTATTTTATCAGCTC
Found at i:13824 original size:9 final size:9
Alignment explanation
Indices: 13810--13835 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13800 ACATTGAAGG
13810 TATAGGTAC
1 TATAGGTAC
13819 TATAGGTAC
1 TATAGGTAC
13828 TATAGGTA
1 TATAGGTA
13836 ATACCTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (9 bp):
TATAGGTAC
Found at i:15313 original size:64 final size:64
Alignment explanation
Indices: 15197--15339 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 64
15187 TTTCAAAGTG
* *
15197 ATGCACCGATGCACCA-ATCCATGCATCGATGCACCATGGATTAAATTGAACATCGAATGCATTT
1 ATGCATCGATGCA-CATA-CCATGCATCGATGCACCATGGACTAAATTGAACATCGAATGCATTT
15261 T
64 T
* **
15262 ATGCATTGATGCACATACCATGCATCGATGCACTC-T-GACTATTTTGAAACATCGAATGCATTT
1 ATGCATCGATGCACATACCATGCATCGATGCAC-CATGGACTAAATTG-AACATCGAATGCATTT
15325 T
64 T
15326 ATGCATCGATGCAC
1 ATGCATCGATGCAC
15340 TCTTAGTGCA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 7 0.10
64 49 0.71
65 13 0.19
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGCATCGATGCACATACCATGCATCGATGCACCATGGACTAAATTGAACATCGAATGCATTTT
Found at i:18165 original size:21 final size:22
Alignment explanation
Indices: 18139--18195 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
18129 ACCCCCTTAC
*
18139 TATGTATTGATACA-CCTTGAA
1 TATGTATCGATACATCCTTGAA
*
18160 TGTGTATCGATACATTCCTTGAA
1 TATGTATCGATACA-TCCTTGAA
18183 TATGTATCGATAC
1 TATGTATCGATAC
18196 CCCTCGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 12 0.39
23 19 0.61
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (22 bp):
TATGTATCGATACATCCTTGAA
Found at i:20460 original size:13 final size:13
Alignment explanation
Indices: 20431--20465 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
20421 GGGGAGTAAT
20431 TTTTCAAAAATGA
1 TTTTCAAAAATGA
20444 -TTTCAAAAATGA
1 TTTTCAAAAATGA
20456 TTTTCAAAAA
1 TTTTCAAAAA
20466 GAAAATCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:20993 original size:17 final size:16
Alignment explanation
Indices: 20971--21039 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
20961 CCGTGTCCCG
*
20971 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
*
20988 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
* *
21003 ACCCGGATTTTGTGGGT
1 ACCCGGATATT-CGGGT
*
21020 ACCC-GATAATCGGGT
1 ACCCGGATATTCGGGT
21035 ACCCG
1 ACCCG
21040 ATACCCGGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
15 19 0.46
16 8 0.20
17 14 0.34
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:21007 original size:32 final size:32
Alignment explanation
Indices: 20971--21039 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
20961 CCGTGTCCCG
*
20971 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGATAATCGGGT
* **
21003 ACCCGGATTTTGTGGGTACCCGATAATCGGGT
1 ACCCGGATGTTACGGGTACCCGATAATCGGGT
21035 ACCCG
1 ACCCG
21040 ATACCCGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGATAATCGGGT
Found at i:21040 original size:15 final size:15
Alignment explanation
Indices: 20983--21042 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
20973 CCGGATGTTA
*
20983 CGGGTACCCGGTAAT
1 CGGGTACCCGATAAT
**
20998 CGGGTACCCGGATTTT
1 CGGGTACCC-GATAAT
*
21014 GTGGGTACCCGATAAT
1 -CGGGTACCCGATAAT
21030 CGGGTACCCGATA
1 CGGGTACCCGATA
21043 CCCGGTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 21 0.58
16 7 0.19
17 8 0.22
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGATAAT
Found at i:21263 original size:16 final size:16
Alignment explanation
Indices: 21239--21269 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21229 AAATAAAAAC
21239 TAACCGGGTACCCGGG
1 TAACCGGGTACCCGGG
*
21255 TAACTGGGTACCCGG
1 TAACCGGGTACCCGG
21270 AAAAACTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.16
Consensus pattern (16 bp):
TAACCGGGTACCCGGG
Found at i:27309 original size:125 final size:125
Alignment explanation
Indices: 27093--27506 Score: 562
Period size: 125 Copynumber: 3.3 Consensus size: 125
27083 CTTAGATGAC
* * * * *
27093 CAAGATTCATCATAGTATGAGCAATGTCATCCCTGACCGGATCTCCTCATCACGTAGGACCCGTG
1 CAAGATTCATCATAGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATCACGTAGGAGCTGTG
* *
27158 TCAACCCAGATAAGCA-ACCGTCCTCATCACGTAGGAACCTTATTATCACCCTTAAATGGA
66 TCAACCCAGATAACCAGA-CGTCCTCATCACGTAGGAACCTTGTTATCACCCTTAAATGGA
* * *
27218 CAAAATTCATCATAGTATGAGCAGTGTCATCCCCGACCAGATCTCTTCATCGCGTAGGAGCTGTG
1 CAAGATTCATCATAGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATCACGTAGGAGCTGTG
* * * *
27283 TTAACCCAGATAACCAGACGTACTCATCACGTAGGAA-CTGTGTTATCACCCTTAGATGGC
66 TCAACCCAGATAACCAGACGTCCTCATCACGTAGGAACCT-TGTTATCACCCTTAAATGGA
* *
27343 CAAGATTCATCATAGTATGAGTAGTGTCATCCCCGACCAGATATCCTCATCACGTAGGAGCTGTG
1 CAAGATTCATCATAGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATCACGTAGGAGCTGTG
* * * * *
27408 TCAACCCAGATAATCAGTCGTCCTCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGT
66 TCAACCCAGATAACCAGACGTCCTCATCACGTAGGAACCTTGTTATCACCC-T--T-AA-ATGGA
27473 CAAGATTCATCATAGTATGAGCAGTGTCATCCCC
1 CAAGATTCATCATAGTATGAGCAGTGTCATCCCC
27507 AAATCAAACA
Statistics
Matches: 253, Mismatches: 28, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
124 2 0.01
125 209 0.83
126 3 0.01
128 1 0.00
129 1 0.00
130 37 0.15
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (125 bp):
CAAGATTCATCATAGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATCACGTAGGAGCTGTG
TCAACCCAGATAACCAGACGTCCTCATCACGTAGGAACCTTGTTATCACCCTTAAATGGA
Found at i:27657 original size:3 final size:3
Alignment explanation
Indices: 27649--27746 Score: 196
Period size: 3 Copynumber: 32.7 Consensus size: 3
27639 GGTTTAAAAA
27649 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27697 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27745 TA
1 TA
27747 CTACATGTTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:34157 original size:12 final size:13
Alignment explanation
Indices: 34117--34159 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
34107 GAAAATATCT
34117 TATATTATAATATA
1 TATATTATAA-ATA
*
34131 TATATATATATATA
1 TATAT-TATAAATA
34145 TATATTA-AAATA
1 TATATTATAAATA
34157 TAT
1 TAT
34160 TAAAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 7 0.27
13 2 0.08
14 13 0.50
15 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATATTATAAATA
Found at i:34159 original size:2 final size:2
Alignment explanation
Indices: 34117--34149 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
34107 GAAAATATCT
34117 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34150 TAAAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40634 original size:13 final size:13
Alignment explanation
Indices: 40605--40639 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
40595 ATAACTAATA
*
40605 ATATTAAAT-ATT
1 ATATTAAATAAAT
40617 ATATTAAATAAAT
1 ATATTAAATAAAT
40630 ATATTAAATA
1 ATATTAAATA
40640 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:43644 original size:8 final size:8
Alignment explanation
Indices: 43631--43671 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
43621 CTCATTTTCA
43631 GAGAATTT
1 GAGAATTT
43639 GAGAATTT
1 GAGAATTT
*
43647 -AGAGTTT
1 GAGAATTT
*
43654 GGGAATTT
1 GAGAATTT
43662 GAGAATTT
1 GAGAATTT
43670 GA
1 GA
43672 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:49666 original size:18 final size:18
Alignment explanation
Indices: 49603--49666 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
49593 CATTTTTATG
* *
49603 TAAAATAAAATATTTA-A
1 TAAAATAAAATATATATT
* *
49620 AAAAATAAAAATATTATTTT
1 TAAAAT-AAAATA-TATATT
*
49640 TTAAA-AAAATATATATT
1 TAAAATAAAATATATATT
49657 TAAAATAAAA
1 TAAAATAAAA
49667 AATGATAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
17 14 0.40
18 16 0.46
19 2 0.06
20 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATAAAATATATATT
Found at i:49687 original size:21 final size:19
Alignment explanation
Indices: 49642--49689 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
49632 ATTATTTTTT
* *
49642 AAAAAAATATATATTTAAA
1 AAAAAAATATAGAATTAAA
*
49661 ATAAAAAATGATAGAATTACA
1 A-AAAAAAT-ATAGAATTAAA
49682 AAAAAAAT
1 AAAAAAAT
49690 GAGGAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 9 0.38
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAAAATATAGAATTAAA
Found at i:60519 original size:2 final size:2
Alignment explanation
Indices: 60514--60538 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60504 ACACACGCAC
60514 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60539 ATAACTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60884 original size:20 final size:21
Alignment explanation
Indices: 60846--60885 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
60836 TTTAAATAAA
60846 CAAATTAAAATTCAATAAAAT
1 CAAATTAAAATTCAATAAAAT
60867 CAAA-TAAAATT-AACTAAAA
1 CAAATTAAAATTCAA-TAAAA
60886 AAATAGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (21 bp):
CAAATTAAAATTCAATAAAAT
Found at i:66437 original size:2 final size:2
Alignment explanation
Indices: 66430--66459 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
66420 ACCCAAATTA
66430 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66460 CGAGAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68187 original size:17 final size:17
Alignment explanation
Indices: 68165--68199 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
68155 TATCCGTTCC
68165 TATATCCAACGACATCT
1 TATATCCAACGACATCT
68182 TATATCCAACGACATCT
1 TATATCCAACGACATCT
68199 T
1 T
68200 TCCCCTCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (17 bp):
TATATCCAACGACATCT
Found at i:69110 original size:12 final size:13
Alignment explanation
Indices: 69095--69127 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
69085 AGAAAAAAAA
69095 GAAGAAA-TCCCC
1 GAAGAAAGTCCCC
69107 GAAGAAAAGTCCCC
1 GAAG-AAAGTCCCC
69121 GAAGAAA
1 GAAGAAA
69128 ATGCCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.06
Consensus pattern (13 bp):
GAAGAAAGTCCCC
Found at i:69121 original size:14 final size:14
Alignment explanation
Indices: 69102--69128 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69092 AAAGAAGAAA
69102 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
69116 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
69129 TGCCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:71187 original size:18 final size:18
Alignment explanation
Indices: 71164--71198 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
71154 AGCAAAAGGC
*
71164 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
71182 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
71199 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:71399 original size:20 final size:20
Alignment explanation
Indices: 71369--71513 Score: 109
Period size: 20 Copynumber: 7.8 Consensus size: 20
71359 TTACACATTC
* * **
71369 ATTTGAATATCGCAATGTGA
1 ATTTGACTATCGCAACGCAA
*
71389 ATTTTACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCAA
71409 ATTTGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCAA
**
71429 A----A--ATCGCAACGTGA
1 ATTTGACTATCGCAACGCAA
71443 ATTTGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCAA
*
71463 A----A--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCAA
*
71477 ATTTGATTATCGCAACG-AGA
1 ATTTGACTATCGCAACGCA-A
71497 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
71514 AGAAAATCGC
Statistics
Matches: 99, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
14 23 0.23
16 2 0.02
18 2 0.02
20 72 0.73
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCAA
Found at i:71446 original size:34 final size:34
Alignment explanation
Indices: 71397--71493 Score: 167
Period size: 34 Copynumber: 2.9 Consensus size: 34
71387 GAATTTTACT
*
71397 ATCGCAACGCAAATTTGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCAAAA
*
71431 ATCGCAACGTGAATTTGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCAAAA
*
71465 ATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
71494 AGAATTTGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCAAAA
Found at i:71489 original size:54 final size:54
Alignment explanation
Indices: 71431--71546 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
71421 CAACGCAAAA
* * * *
71431 ATCGCAACGTGAATTTGACTATCGCAACGCA-AAAATCGCAACGCGAATTTGATT
1 ATCGCAACGAGAATTTGACTATCGCAACG-AGAAAATCGCAAAGCGAATTAGACT
*
71485 ATCGCAACGAGAATTTGACTATCGCAACGAGAAAATCGCAAAGCGTATTAGACT
1 ATCGCAACGAGAATTTGACTATCGCAACGAGAAAATCGCAAAGCGAATTAGACT
71539 ATCGCAAC
1 ATCGCAAC
71547 ACGAATTGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (54 bp):
ATCGCAACGAGAATTTGACTATCGCAACGAGAAAATCGCAAAGCGAATTAGACT
Found at i:71553 original size:54 final size:53
Alignment explanation
Indices: 71431--71566 Score: 159
Period size: 54 Copynumber: 2.5 Consensus size: 53
71421 CAACGCAAAA
* * * *
71431 ATCGCAACGTGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGATT
1 ATCGCAAC-AGAATTTGACTATCGCAACGCAAAAATCGCAAAGCGAATTAGACT
*
71485 ATCGCAACGAGAATTTGACTATCGCAACG-AGAAAATCGCAAAGCGTATTAGACT
1 ATCGCAAC-AGAATTTGACTATCGCAACGCA-AAAATCGCAAAGCGAATTAGACT
* *
71539 ATCGCAACACGAA-TTGACTTTCACAACG
1 ATCGCAACA-GAATTTGACTATCGCAACG
71567 GGAATTGACT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 15 0.21
54 58 0.79
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (53 bp):
ATCGCAACAGAATTTGACTATCGCAACGCAAAAATCGCAAAGCGAATTAGACT
Found at i:71565 original size:19 final size:19
Alignment explanation
Indices: 71543--71579 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71533 TAGACTATCG
71543 CAACACGAATTGACTTTCA
1 CAACACGAATTGACTTTCA
**
71562 CAACGGGAATTGACTTTC
1 CAACACGAATTGACTTTC
71580 GCGTTGCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (19 bp):
CAACACGAATTGACTTTCA
Found at i:71601 original size:20 final size:20
Alignment explanation
Indices: 71571--71628 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
71561 ACAACGGGAA
*
71571 TTGACTTTCGCGTTGCGATT
1 TTGAGTTTCGCGTTGCGATT
*
71591 TTG-GATTTCGCATTGCGATT
1 TTGAG-TTTCGCGTTGCGATT
*
71611 TTGAGTTTAGCGTTGCGA
1 TTGAGTTTCGCGTTGCGA
71629 AAGTGTACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.28, T:0.43
Consensus pattern (20 bp):
TTGAGTTTCGCGTTGCGATT
Found at i:71768 original size:14 final size:14
Alignment explanation
Indices: 71749--71785 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
71739 CATCAATTAA
71749 ACAAATCAACTTTT
1 ACAAATCAACTTTT
71763 ACAAATCAACTTTT
1 ACAAATCAACTTTT
71777 ACAAATCAA
1 ACAAATCAA
71786 TTAAACAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:73230 original size:21 final size:21
Alignment explanation
Indices: 73164--73278 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
73154 GTGAATCGGG
*
73164 CTCTTGAATGGTGGGAG-GGAC
1 CTCTTGAACGGTGGGAGAGG-C
* * ** *
73185 CTCTTCAACGATGACAAAGGC
1 CTCTTGAACGGTGGGAGAGGC
*
73206 CTCTTGAACGGTGGGAGAGGA
1 CTCTTGAACGGTGGGAGAGGC
* ** *
73227 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGAGGC
* *
73248 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGAGGC
73269 CTCTTGAACG
1 CTCTTGAACG
73279 ATGACAGGTG
Statistics
Matches: 68, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
20 3 0.04
21 61 0.90
22 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGAGGC
Found at i:73231 original size:42 final size:42
Alignment explanation
Indices: 73164--73284 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
73154 GTGAATCGGG
* *
73164 CTCTTGAATGGTGGGAG-GGACCTCTTCAACGATGACAAAGGC
1 CTCTTGAACGGTGGGAGAGGA-CTCTTGAACGATGACAAAGGC
** * **
73206 CTCTTGAACGGTGGGAGAGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGAGGACTCTTGAACGATGACAAAGGC
* * *
73248 CTCTTGAACGATAGGAGAGGCCTCTTGAACGATGACA
1 CTCTTGAACGGTGGGAGAGGACTCTTGAACGATGACA
73285 GGTGAGTCGG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 62 0.95
43 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGGACTCTTGAACGATGACAAAGGC
Found at i:73788 original size:20 final size:20
Alignment explanation
Indices: 73763--73806 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
73753 AATAGTTTCT
73763 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
73783 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
73803 GAAA
1 GAAA
73807 ATGACTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:73819 original size:20 final size:20
Alignment explanation
Indices: 73793--73840 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
73783 GAAACTTAAA
73793 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
73813 ATTGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
73833 ATCGCAAC
1 ATCGCAAC
73841 AAGATAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:73879 original size:19 final size:19
Alignment explanation
Indices: 73850--73903 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
73840 CAAGATAATT
*
73850 GCAATGCGAAATAAAAATC
1 GCAACGCGAAATAAAAATC
* **
73869 GCTACGCGAAACCAAAATC
1 GCAACGCGAAATAAAAATC
*
73888 GCAATGCGAAACTAAA
1 GCAACGCGAAA-TAAA
73904 TTCGGGTTGC
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (19 bp):
GCAACGCGAAATAAAAATC
Found at i:73969 original size:33 final size:34
Alignment explanation
Indices: 73909--73983 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
73899 CTAAATTCGG
* *
73909 GTTGCGATTTTCATTTTTGCATTGCGATTTTCAC
1 GTTGCGATTTTCATTTTCGCATTGCGATTATCAC
* *
73943 GTTGCGATTTTTA-TTTCGCATTGCGATTATCCC
1 GTTGCGATTTTCATTTTCGCATTGCGATTATCAC
73976 GTTGCGAT
1 GTTGCGAT
73984 AGTCAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.47
Consensus pattern (34 bp):
GTTGCGATTTTCATTTTCGCATTGCGATTATCAC
Found at i:75922 original size:20 final size:20
Alignment explanation
Indices: 75899--75954 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
75889 TCTGAAACTT
75899 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
75919 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
75939 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
75955 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:75960 original size:20 final size:20
Alignment explanation
Indices: 75902--75970 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
75892 GAAACTTAAA
* **
75902 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
75922 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
75942 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
75962 ATCACAACG
1 ATCGCAACG
75971 AGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:76429 original size:22 final size:21
Alignment explanation
Indices: 76402--76457 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
76392 GATGGAGATA
76402 GACGGATTTCGCAGGAGATGGG
1 GACGGATTTCGC-GGAGATGGG
*
76424 GACGGATTTCATCGGAGATGGG
1 GACGGATTTC-GCGGAGATGGG
*
76446 GACGGATGTCGC
1 GACGGATTTCGC
76458 CGTAGAGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.43, T:0.20
Consensus pattern (21 bp):
GACGGATTTCGCGGAGATGGG
Found at i:76691 original size:21 final size:21
Alignment explanation
Indices: 76667--76733 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
76657 TATTCGCATT
* *
76667 GCGATTTTCTAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
76688 GCGAATTTCGAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
* * *
76709 GTGAATTTGGAAAATCGCAAT
1 GCGAATTTCGAAAATCGCAAC
76730 GCGA
1 GCGA
76734 TAGTCAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (21 bp):
GCGAATTTCGAAAATCGCAAC
Found at i:76806 original size:19 final size:19
Alignment explanation
Indices: 76779--76834 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
76769 TGCGATACTG
76779 GAGATCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
*
76798 GAGACCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
*
76817 GAGATCGCATTGCGATTT
1 GAGATCGCGTTGCGATTT
76835 TGTTTGTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (19 bp):
GAGATCGCGTTGCGATTTA
Found at i:83224 original size:25 final size:26
Alignment explanation
Indices: 83178--83234 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
83168 ACTTAAATAA
* ** *
83178 TTTTCCACCGATCTTATTTCCCT-TT
1 TTTTCCACCCATAATATCTCCCTATT
83203 TTTTCCACCCATAATATCTCCCTAATT
1 TTTTCCACCCATAATATCTCCCT-ATT
83230 TTTTC
1 TTTTC
83235 TAAAATAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 19 0.73
27 7 0.27
ACGTcount: A:0.18, C:0.32, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTTCCACCCATAATATCTCCCTATT
Found at i:84253 original size:36 final size:36
Alignment explanation
Indices: 84204--84273 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
84194 TAGGTTCATA
* *
84204 AGGAATTATCAGCTTGATC-AGTGCTGAACCTGCATG
1 AGGAATTACCAGCTTGATCGA-AGCTGAACCTGCATG
84240 AGGAATTACCAGCTTGATCGAAGCTGAACCTGCA
1 AGGAATTACCAGCTTGATCGAAGCTGAACCTGCA
84274 GAGACTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (36 bp):
AGGAATTACCAGCTTGATCGAAGCTGAACCTGCATG
Found at i:85005 original size:17 final size:17
Alignment explanation
Indices: 84979--85012 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84969 CGAAAAACAT
84979 AAAATATGACTTTTTGG
1 AAAATATGACTTTTTGG
*
84996 AAAATTTGACTTTTTGG
1 AAAATATGACTTTTTGG
85013 TCAAAGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (17 bp):
AAAATATGACTTTTTGG
Found at i:85808 original size:47 final size:47
Alignment explanation
Indices: 85739--86024 Score: 491
Period size: 47 Copynumber: 6.1 Consensus size: 47
85729 AATATATATA
* * *
85739 TATGGAATCCTTTCATGCCTTAATGAATCCTTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
*
85786 TATGGCATCCTTTCATGCCTTAATGCATTATTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
* * *
85833 TATGCCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
85880 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
* *
85927 TATGTCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
85974 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
86021 TATG
1 TATG
86025 AATTCGATTT
Statistics
Matches: 224, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (47 bp):
TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
Found at i:86526 original size:20 final size:21
Alignment explanation
Indices: 86501--86556 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
86491 TGATGTTGCC
86501 TGGTATCGATACCCT-TACCA
1 TGGTATCGATACCCTATACCA
* *
86521 TGGTATCGATACTACTATACTA
1 TGGTATCGATAC-CCTATACCA
86543 TGGTATCGATACCC
1 TGGTATCGATACCC
86557 CCTTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.39
21 3 0.10
22 16 0.52
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (21 bp):
TGGTATCGATACCCTATACCA
Found at i:86573 original size:95 final size:96
Alignment explanation
Indices: 86434--86629 Score: 236
Period size: 95 Copynumber: 2.1 Consensus size: 96
86424 CCTGATACCT
* * * * * *
86434 ATACTTCTATACCATGGTACCGATACCCCATTTTGGTATTGATA-CAAAATTTAGCTTTGATG-T
1 ATACTACTATACCATGGTACCGATACCCCATTATGATATCGATACCAAAA-TTAGATTCGATGTT
* *
86497 TGCCTGGTATCGATACCCTTACCATGGTATCG
65 TACCTGGTATCGATACCCTTACAATGGTATCG
* * *
86529 ATACTACTATACTATGGTATCGATACCCCCTTAAT-ATATCGATACCAAAATTAGATTCGATGTT
1 ATACTACTATACCATGGTACCGATACCCCATT-ATGATATCGATACCAAAATTAGATTCGATGTT
* *
86593 TACTTGTTATCGATACCCTTACAATGGTATCG
65 TACCTGGTATCGATACCCTTACAATGGTATCG
86625 ATACT
1 ATACT
86630 GCCTCAATGG
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
95 45 0.53
96 40 0.47
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (96 bp):
ATACTACTATACCATGGTACCGATACCCCATTATGATATCGATACCAAAATTAGATTCGATGTTT
ACCTGGTATCGATACCCTTACAATGGTATCG
Found at i:90997 original size:36 final size:36
Alignment explanation
Indices: 90929--90999 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
90919 GCTTTAGGTC
** *
90929 CATAAGGAATTACCAACTTGATCAGTGCTGAACCTA
1 CATAAGGAATTACCAACTTGATCAAAGATGAACCTA
90965 CATAAGGAATTACCAGA-TTGATCAAAGATGAACCT
1 CATAAGGAATTACCA-ACTTGATCAAAGATGAACCT
91000 GAAGAGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (36 bp):
CATAAGGAATTACCAACTTGATCAAAGATGAACCTA
Found at i:105554 original size:18 final size:18
Alignment explanation
Indices: 105524--105561 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
105514 GAAAAAAAGG
*
105524 ATCTTAGATTCTCTTTCC
1 ATCTTAGATTCTCTCTCC
105542 ATCTT-GATCTCTCTCTCC
1 ATCTTAGAT-TCTCTCTCC
105560 AT
1 AT
105562 AAAGTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.16, C:0.32, G:0.05, T:0.47
Consensus pattern (18 bp):
ATCTTAGATTCTCTCTCC
Found at i:107513 original size:21 final size:22
Alignment explanation
Indices: 107480--107522 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
107470 AAAAAATTCA
* *
107480 TTATCATTTTATCGATTGAAAT
1 TTATCATTATATCGATAGAAAT
*
107502 TTAT-ATTATATCTATAGAAAT
1 TTATCATTATATCGATAGAAAT
107523 ACTACTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
TTATCATTATATCGATAGAAAT
Found at i:117725 original size:11 final size:10
Alignment explanation
Indices: 117707--117770 Score: 65
Period size: 10 Copynumber: 6.1 Consensus size: 10
117697 GCATCACTCA
*
117707 TCTTTTTTTC
1 TCTTTTTTTT
117717 TCTTTTTTTT
1 TCTTTTTTTT
*
117727 TCATTTTTTT
1 TCTTTTTTTT
*
117737 TCATTTTTTCT
1 TC-TTTTTTTT
*
117748 TCTTTTCATTT
1 TCTTTT-TTTT
117759 TCTGTTTTTTT
1 TCT-TTTTTTT
117770 T
1 T
117771 ATTCTTTCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
10 24 0.55
11 17 0.39
12 3 0.07
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:117760 original size:32 final size:32
Alignment explanation
Indices: 117710--117786 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
117700 TCACTCATCT
*
117710 TTTTTTC-TCTTTT-TTTTTCAT-TTTTTTTCA
1 TTTTTTCTTCTTTTCATTTTC-TGTTTTTTTCA
*
117740 TTTTTTCTTCTTTTCATTTTCTGTTTTTTTTA
1 TTTTTTCTTCTTTTCATTTTCTGTTTTTTTCA
* *
117772 TTCTTTCTTTTTTTC
1 TTTTTTCTTCTTTTC
117787 TTAGCTCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 7 0.17
31 7 0.17
32 26 0.65
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (32 bp):
TTTTTTCTTCTTTTCATTTTCTGTTTTTTTCA
Found at i:117769 original size:10 final size:9
Alignment explanation
Indices: 117707--117785 Score: 61
Period size: 10 Copynumber: 8.0 Consensus size: 9
117697 GCATCACTCA
117707 TCTTTTTTT
1 TCTTTTTTT
117716 CTCTTTTTTTT
1 -TC-TTTTTTT
117727 TCATTTTTTT
1 TC-TTTTTTT
117737 TCATTTTTTCT
1 TC-TTTTTT-T
117748 TCTTTTCATTT
1 TCTTTT--TTT
117759 TCTGTTTTTT
1 TCT-TTTTTT
* *
117769 T-TATTCTT
1 TCTTTTTTT
117777 TCTTTTTTT
1 TCTTTTTTT
117786 CTTAGCTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
8 5 0.09
9 6 0.10
10 28 0.48
11 14 0.24
12 5 0.09
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.80
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:117769 original size:16 final size:16
Alignment explanation
Indices: 117731--117786 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
117721 TTTTTTTCAT
*
117731 TTTTTTTCATTTTTTC
1 TTTTTTTCATTTTCTC
* *
117747 TTCTTTTCATTTTCTG
1 TTTTTTTCATTTTCTC
*
117763 TTTTTTTTATTCTT-TC
1 TTTTTTTCATT-TTCTC
117779 TTTTTTTC
1 TTTTTTTC
117787 TTAGCTCTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTCATTTTCTC
Found at i:119304 original size:64 final size:62
Alignment explanation
Indices: 119235--119413 Score: 193
Period size: 64 Copynumber: 2.8 Consensus size: 62
119225 TGGGACACTT
*
119235 AGTGCATCGGTGCACTAAGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAA-ATAGCCT
1 AGTGCATCGATGCA-T-AGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAT-GCC-
119299 G
62 G
* * *
119300 -GTGCATCGATGCATTGCTTG-TGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTCCG
1 AGTGCATCGATGCATAG---GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATATGCCG
* * *
119363 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAG-GA-TGCATCGATGCATAAAATGCATTCGATGTT
119414 CAATTAAATC
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 92 0.93
65 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATAGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATATGCCG
Found at i:119653 original size:20 final size:21
Alignment explanation
Indices: 119630--119669 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
119620 GAATCAAATA
119630 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
119650 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
119670 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:120064 original size:2 final size:2
Alignment explanation
Indices: 120057--120083 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
120047 GTCAAACCAA
120057 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
120084 AGTTCAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127943 original size:64 final size:62
Alignment explanation
Indices: 127874--128052 Score: 193
Period size: 64 Copynumber: 2.8 Consensus size: 62
127864 TGGGACACTT
*
127874 AGTGCATCGGTGCACTAAGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAA-ATAGCCT
1 AGTGCATCGATGCA-T-AGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAT-GCC-
127938 G
62 G
* * *
127939 -GTGCATCGATGCATTGCTTG-TGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTCCG
1 AGTGCATCGATGCATAG---GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATATGCCG
* * *
128002 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAG-GA-TGCATCGATGCATAAAATGCATTCGATGTT
128053 CAATTAAATC
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 92 0.93
65 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATAGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATATGCCG
Found at i:128071 original size:64 final size:61
Alignment explanation
Indices: 127895--128082 Score: 180
Period size: 64 Copynumber: 2.9 Consensus size: 61
127885 GCACTAAGGA
* * * ***
127895 TGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATTGCTTG
1 TGCATCGATGCATAAAATGCATTCGATG-TTCAAAAAT--CATGGTGCATCGATGCATGGAGAG
* * *
127959 TGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTC-CGAGTGCATCGATGCATGGAGAG
1 TGCATCGATGCATAAAATGCATTCGATG-TTCAAAA-A-TCATG-GTGCATCGATGCATGGAGAG
* *
128023 TGCATCGGTGCATGAAATGCATTCGATGTTCAATTAAATCATAGGTGCATCGATGCATGG
1 TGCATCGATGCATAAAATGCATTCGATGTTCAA--AAATCAT-GGTGCATCGATGCATGG
128083 TTTGATGCAT
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
63 7 0.07
64 95 0.89
65 4 0.04
66 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (61 bp):
TGCATCGATGCATAAAATGCATTCGATGTTCAAAAATCATGGTGCATCGATGCATGGAGAG
Found at i:128292 original size:20 final size:21
Alignment explanation
Indices: 128269--128308 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
128259 GAATCGAATA
128269 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
128289 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
128309 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:130650 original size:61 final size:61
Alignment explanation
Indices: 130543--130664 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 61
130533 GTAGTGCTAA
* * * *
130543 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCAGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGCCGTACCCACC
*
130604 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGATACATAAGGCCGTACCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGCCGTACCCACC
130665 TTCCCGCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGCCGTACCCACC
Found at i:131022 original size:24 final size:24
Alignment explanation
Indices: 130990--131038 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
130980 AGTCGTCCTG
130990 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
*
131014 ATGATGTATAAAACTTCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
131038 A
1 A
131039 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:141575 original size:32 final size:32
Alignment explanation
Indices: 141538--141603 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
141528 CTACAATCGT
*
141538 TGTTGTCGGTTTCTTCCAATTTTTCTATTTTA
1 TGTTGTCGGTTTCTTCCAATTTTTCTAATTTA
141570 TGTTGTCGGTTTCTTCCAATTTTTCTAATTTA
1 TGTTGTCGGTTTCTTCCAATTTTTCTAATTTA
141602 TG
1 TG
141604 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.14, C:0.15, G:0.14, T:0.58
Consensus pattern (32 bp):
TGTTGTCGGTTTCTTCCAATTTTTCTAATTTA
Found at i:144250 original size:28 final size:27
Alignment explanation
Indices: 144219--144274 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
144209 ATTCCAGGGC
*
144219 TTAGAGGTACTTTAGATCATTTTACACT
1 TTAGAGGCA-TTTAGATCATTTTACACT
* * *
144247 TTAGGGGCATTTTGGTCATTTTACACT
1 TTAGAGGCATTTAGATCATTTTACACT
144274 T
1 T
144275 AAGGGATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (27 bp):
TTAGAGGCATTTAGATCATTTTACACT
Found at i:145608 original size:45 final size:45
Alignment explanation
Indices: 145552--145808 Score: 405
Period size: 45 Copynumber: 5.8 Consensus size: 45
145542 TATAAAATTT
*
145552 CTTATCATTTA-TCCTATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
145597 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAA-ATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
145641 CTTACCA-TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
145685 CTTACCATTTATTCTATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
145730 CTTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
145775 CTTGCCA-TTATTCCATAAGTTCGTAAACTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
145809 GCGTGATTAC
Statistics
Matches: 197, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
43 32 0.16
44 44 0.22
45 118 0.60
46 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:145716 original size:88 final size:90
Alignment explanation
Indices: 145552--145808 Score: 405
Period size: 88 Copynumber: 2.9 Consensus size: 90
145542 TATAAAATTT
*
145552 CTTATCATTTA-TCCTATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAA
*
145616 GCTCGTAAGCTTATTTTACCAA-ATA
65 GCTCGTAAGCTTATTTTACCAATACA
* *
145641 CTTACCA-TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTTATTCTATAAG
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAG
145705 CTCGTAAGCTTATTTTACCAATACA
66 CTCGTAAGCTTATTTTACCAATACA
* *
145730 CTTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATACTTGCCA-TTATTCCATAAG
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAG
* *
145794 TTCGTAAACTTATTT
66 CTCGTAAGCTTATTT
145809 GCGTGATTAC
Statistics
Matches: 155, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
88 72 0.46
89 42 0.27
90 41 0.26
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (90 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAG
CTCGTAAGCTTATTTTACCAATACA
Found at i:146046 original size:61 final size:61
Alignment explanation
Indices: 145925--146046 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
145915 GTAGTGCTAA
* * ** * * *
145925 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCAAACATGACACATAAGGCCGTACCCACC
* * *
145986 ACCTACACTAAGCTTACACTATAGTGCTAATCCAAACATGATACATAAGGCCGTATCCACC
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCAAACATGACACATAAGGCCGTACCCACC
146047 TTCCCGCACT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACCATAGTGCTAATCCAAACATGACACATAAGGCCGTACCCACC
Found at i:147738 original size:37 final size:37
Alignment explanation
Indices: 147697--147794 Score: 144
Period size: 37 Copynumber: 2.6 Consensus size: 37
147687 AACTAACATA
*
147697 CTTATCCTTATCATCATTCAAATCATATCATATGAAC
1 CTTATCCTTATCATCATTCAAATCATATCACATGAAC
*
147734 CTTATCCTTATCATCATTCAAATCATATCACCTGAAC
1 CTTATCCTTATCATCATTCAAATCATATCACATGAAC
*
147771 CTTAT-CTTCATCCATAATTCAAAT
1 CTTATCCTT-AT-CATCATTCAAAT
147795 ATGAACAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
36 3 0.05
37 42 0.75
38 11 0.20
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (37 bp):
CTTATCCTTATCATCATTCAAATCATATCACATGAAC
Found at i:148027 original size:30 final size:29
Alignment explanation
Indices: 147993--148066 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
147983 AAAATTACAT
** *
147993 TTTGGTCCCTAAATTTTTCAAAGTTTATAC
1 TTTGGTCCCTAAATTTAACAAA-TTTATAA
148023 TTTGGTCACC-AAACTTTAACAAATTTATAA
1 TTTGGTC-CCTAAA-TTTAACAAATTTATAA
*
148053 TTTGGTCACTAAAT
1 TTTGGTCCCTAAAT
148067 AAATCCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 2 0.05
30 26 0.70
31 9 0.24
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.42
Consensus pattern (29 bp):
TTTGGTCCCTAAATTTAACAAATTTATAA
Found at i:149720 original size:11 final size:10
Alignment explanation
Indices: 149706--149788 Score: 53
Period size: 10 Copynumber: 7.9 Consensus size: 10
149696 TTTTTCATTC
149706 TTTTCTTTTCT
1 TTTTCTTTT-T
* *
149717 TTTTC-TATA
1 TTTTCTTTTT
*
149726 TTTTCTCTTT
1 TTTTCTTTTT
*
149736 ATTTCTTTTT
1 TTTTCTTTTT
149746 CTTTATCTTTTCT
1 -TTT-TCTTTT-T
149759 TTTTCTTCTTT
1 TTTTCTT-TTT
149770 TTTT-TTGTTT
1 TTTTCTT-TTT
*
149780 TCTTCTTTT
1 TTTTCTTTT
149789 CTGTATTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
9 5 0.09
10 21 0.38
11 18 0.32
12 11 0.20
13 1 0.02
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:149788 original size:27 final size:26
Alignment explanation
Indices: 149697--149788 Score: 89
Period size: 25 Copynumber: 3.5 Consensus size: 26
149687 TTTATCATTT
*
149697 TTTTCATTCTTTTCTTTTCTTTTTCTATA
1 TTTTC-TTC-TTT-TTTTCTTTTTCTTTA
*
149726 TTTTC-TCTTTATTTCTTTTTCTTTA
1 TTTTCTTCTTTTTTTCTTTTTCTTTA
* * *
149751 TCTT-TTCTTTTTCTTCTTTTTTTTTG
1 TTTTCTTCTTTTT-TTCTTTTTCTTTA
149777 TTTTCTTCTTTT
1 TTTTCTTCTTTT
149789 CTGTATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
25 22 0.42
26 17 0.32
27 9 0.17
29 5 0.09
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.77
Consensus pattern (26 bp):
TTTTCTTCTTTTTTTCTTTTTCTTTA
Found at i:150299 original size:179 final size:179
Alignment explanation
Indices: 149999--150342 Score: 643
Period size: 179 Copynumber: 1.9 Consensus size: 179
149989 TACAAACCAC
*
149999 CTCCAATTAATCATTGTAAAATTGAAATACTCGATTCATCAAGTCTATGAATGCTGCCAGAGCAT
1 CTCCAATTAATAATTGTAAAATTGAAATACTCGATTCATCAAGTCTATGAATGCTGCCAGAGCAT
150064 TTGTCAAACCAAACAGCATTACTACGAACTCATAGTATTCATACCGTTTTCTGAAAACTATCTTT
66 TTGTCAAACCAAACAGCATTACTACGAACTCATAGTATTCATACCGTTTTCTGAAAACTATCTTT
150129 AGAACATCTTCCTTAAGTTAATCAAACAAGTCATCTTCCTTGATAGTTA
131 AGAACATCTTCCTTAAGTTAATCAAACAAGTCATCTTCCTTGATAGTTA
* *
150178 CTCCAATTAATAATTGTAAAATTGAAATACTCGATTCATCAAGTCTATTAATGCTGTCAGAGCAT
1 CTCCAATTAATAATTGTAAAATTGAAATACTCGATTCATCAAGTCTATGAATGCTGCCAGAGCAT
* *
150243 TTGTCAAACCAAACAGCATTACTACGAACTCGTAGTATTCATATCGTTTTCTGAAAACTATCTTT
66 TTGTCAAACCAAACAGCATTACTACGAACTCATAGTATTCATACCGTTTTCTGAAAACTATCTTT
150308 AGAACATCTTCCTTAAGTTAATCAAACAAGTCATC
131 AGAACATCTTCCTTAAGTTAATCAAACAAGTCATC
150343 AATCATCGGA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 160 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (179 bp):
CTCCAATTAATAATTGTAAAATTGAAATACTCGATTCATCAAGTCTATGAATGCTGCCAGAGCAT
TTGTCAAACCAAACAGCATTACTACGAACTCATAGTATTCATACCGTTTTCTGAAAACTATCTTT
AGAACATCTTCCTTAAGTTAATCAAACAAGTCATCTTCCTTGATAGTTA
Found at i:152662 original size:45 final size:45
Alignment explanation
Indices: 152606--152862 Score: 405
Period size: 45 Copynumber: 5.8 Consensus size: 45
152596 TATAAAATTT
* * *
152606 CTTATCATTTA-TCCTATAAGCTAGTAAGTTTATTTTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
152651 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAA-ATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
152695 CTTATCA-TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
152739 CTTACCATTTATTCCATAAGCTAGTAAGTTTATTTTACCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
152784 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
152829 CTTACCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
152863 GCATGGTTAC
Statistics
Matches: 198, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
43 32 0.16
44 45 0.23
45 118 0.60
46 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:152732 original size:88 final size:89
Alignment explanation
Indices: 152606--152862 Score: 412
Period size: 88 Copynumber: 2.9 Consensus size: 89
152596 TATAAAATTT
*
152606 CTTATCATT-TATCCTATAAGCTAGTAAGTTTATTTTACCAATATACTTACCATTTATTCCATAA
1 CTTATCATTAT-TCC-ATAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTTATTCCATAA
*
152670 GCTCGTAAGCTTATTTTACCAA-ATA
64 GCTCGTAAGCTTATTTTACCAATACA
152695 CTTATCATTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTTATTCCATAAGC
1 CTTATCATTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTTATTCCATAAGC
* *
152760 TAGTAAGTTTATTTTACCAATACA
66 TCGTAAGCTTATTTTACCAATACA
* *
152784 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCCATAAG
1 CTTATCA-TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTTATTCCATAAG
152848 CTCGTAAGCTTATTT
65 CTCGTAAGCTTATTT
152863 GCATGGTTAC
Statistics
Matches: 157, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
88 68 0.43
89 45 0.29
90 44 0.28
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (89 bp):
CTTATCATTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTACCATTTATTCCATAAGC
TCGTAAGCTTATTTTACCAATACA
Found at i:153086 original size:61 final size:61
Alignment explanation
Indices: 152979--153093 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 61
152969 GTAGTGCTAA
* * * * *
152979 ACCTCCACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACACCATAGTACTAATCCAGACATGACACATAAGGTCGTGCCCACC
* *
153040 ACCTACACTAAGCTTACACTATAGTACTAATCCAGACATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACACCATAGTACTAATCCAGACATGACACATAAGGTCGT
153094 ATCCACCTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACCATAGTACTAATCCAGACATGACACATAAGGTCGTGCCCACC
Found at i:155030 original size:30 final size:30
Alignment explanation
Indices: 154990--155068 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
154980 CTTTTTAAAA
* *
154990 TTATATTTTGGTC-CTTAAACTTT-TCAAAGT
1 TTATAATTTGGTCAC-TAAACTTTAACAAA-T
*
155020 TTATACTTTGGTCACTAAACTTTAACAAAT
1 TTATAATTTGGTCACTAAACTTTAACAAAT
155050 TTATAATTTGGTCACTAAA
1 TTATAATTTGGTCACTAAA
155069 TAAATCCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 39 0.89
31 5 0.11
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (30 bp):
TTATAATTTGGTCACTAAACTTTAACAAAT
Found at i:160195 original size:5 final size:5
Alignment explanation
Indices: 160185--160213 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
160175 ATTATTTTAA
160185 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
160214 CTTATCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:161203 original size:41 final size:41
Alignment explanation
Indices: 161117--161201 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 41
161107 TTATCTTACC
* *
161117 TTTATCCTTATCTTATAATTATTATTTATTTATTTTATTAT
1 TTTATCCTTATCTTATAATTATTAATGATTTATTTTATTAT
*
161158 TTTATCCTTATCTT-TCATT-TTAAATGATTTATATTTAATTAT
1 TTTATCCTTATCTTATAATTATT-AATGATTTAT-TTT-ATTAT
161200 TT
1 TT
161202 ATTTATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 2 0.05
40 12 0.32
41 17 0.45
42 7 0.18
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (41 bp):
TTTATCCTTATCTTATAATTATTAATGATTTATTTTATTAT
Found at i:165511 original size:6 final size:6
Alignment explanation
Indices: 165502--165539 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
165492 GAGTGATTCT
*
165502 GATGAA GATGAC GATGAC GATGAC GATGAC GATGAC GA
1 GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC GA
165540 AGAAATGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.34, T:0.16
Consensus pattern (6 bp):
GATGAC
Done.