Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006526.1 Hibiscus syriacus cultivar Beakdansim tig00015905_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: 502317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1312 original size:19 final size:20
Alignment explanation
Indices: 1290--1329 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1280 ATGGAAAAGA
*
1290 TTAGGTTGTAGATAA-CAAT
1 TTAGGTTGTACATAATCAAT
1309 TTAGGTTGTACATAATCAAT
1 TTAGGTTGTACATAATCAAT
1329 T
1 T
1330 ACTATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (20 bp):
TTAGGTTGTACATAATCAAT
Found at i:4207 original size:19 final size:20
Alignment explanation
Indices: 4178--4215 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4168 TGAAAATGAT
4178 TTGATTTTTGAAAACCAAAG
1 TTGATTTTTGAAAACCAAAG
*
4198 TTGA-TTTTGAAAATCAAA
1 TTGATTTTTGAAAACCAAA
4216 ATGAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TTGATTTTTGAAAACCAAAG
Found at i:13606 original size:22 final size:22
Alignment explanation
Indices: 13550--13608 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
13540 AGAGGTACTT
* *
13550 ATACCCCTATGAATGGGTACCG
1 ATACCCCTATGACTGGGTACCA
* *
13572 ATAGCCCTATGACTGGGTATCA
1 ATACCCCTATGACTGGGTACCA
13594 ATACCCCTATGACTG
1 ATACCCCTATGACTG
13609 CTCAAACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (22 bp):
ATACCCCTATGACTGGGTACCA
Found at i:14124 original size:33 final size:33
Alignment explanation
Indices: 14064--14130 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
14054 CATTGTAAAG
* * * *
14064 GGGAAAGGTTCTTGTTGATCCCGTGAAAAGCTA
1 GGGAAAGGTTCTAGTTGAGCCCCTGAAAAACTA
*
14097 GGGAAAGGTTCTAGTTTAGCCCCTGAAAAACTA
1 GGGAAAGGTTCTAGTTGAGCCCCTGAAAAACTA
14130 G
1 G
14131 AGAGTTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTTGAGCCCCTGAAAAACTA
Found at i:14798 original size:15 final size:15
Alignment explanation
Indices: 14778--14814 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14768 AACTAGGCAG
14778 GGGGTTTAAAAACTA
1 GGGGTTTAAAAACTA
14793 GGGGTTCT-AAAACTA
1 GGGGTT-TAAAAACTA
14808 -GGGTTTA
1 GGGGTTTA
14815 GGAACTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.05
14 5 0.25
15 13 0.65
16 1 0.05
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (15 bp):
GGGGTTTAAAAACTA
Found at i:15142 original size:33 final size:32
Alignment explanation
Indices: 15124--15186 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
15114 TGGCTCATTG
*
15124 AAAAATCTCGACCAATCAACTAAAAACTCATA
1 AAAAATCTCGACCAATCAACCAAAAACTCATA
* *
15156 AAAAATCTCGAGCAATTAACCAACAAA-TCAT
1 AAAAATCTCGACCAATCAACCAA-AAACTCAT
15187 CAATATATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (32 bp):
AAAAATCTCGACCAATCAACCAAAAACTCATA
Found at i:15425 original size:41 final size:41
Alignment explanation
Indices: 15368--15449 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
15358 TCTTTTCTAT
*
15368 TAAACTTTGAGCATTATTTAACCCTAAATTTTATTTCCTGA
1 TAAACTTTGAGCATTATTTAACCCTAAAATTTATTTCCTGA
15409 TAAACTTTGAGCATTATTTAACCCTAAAATTTATTTCCTGA
1 TAAACTTTGAGCATTATTTAACCCTAAAATTTATTTCCTGA
15450 ATGCTATCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (41 bp):
TAAACTTTGAGCATTATTTAACCCTAAAATTTATTTCCTGA
Found at i:16550 original size:127 final size:126
Alignment explanation
Indices: 16299--16559 Score: 298
Period size: 127 Copynumber: 2.1 Consensus size: 126
16289 TCAAATAATT
16299 TTATATTTCTCAAACCAACATTATAATATTATAATCATGCCAAACAAACCAAACAAGGTAATGTA
1 TTATATTTCTCAAACCAACATTATAATATTATAATCATGCCAAACAAACCAAACAAGGTAATGTA
** * * * *
16364 ACATTCTTAGAACTACGTCATATAAAATTACGTTTCGAGAATCTTACTCCCATATGTAACC
66 ACATTCCCAGAACTACGTCATATAAAATTACATTTCGAGAATCCTACTCCCAAAGGTAACC
* * * *
16425 TTATATTCTCTC-AACCAAACATTGTAATCTTATAATCATGCCAAATAAATCAAACAAGGTAATG
1 TTATATT-TCTCAAACC-AACATTATAATATTATAATCATGCCAAACAAACCAAACAAGGTAATG
* ** * *
16489 TAACATTCCCAGTAAC-ATGTCAGT-TAATGTTACATTTC-AGGAATCCTATTCTCAAAGGTAA-
64 TAACATTCCCAG-AACTACGTCA-TATAAAATTACATTTCGA-GAATCCTACTCCCAAAGGTAAC
16550 C
126 C
*
16551 TTACATTTC
1 TTATATTTC
16560 GTGAACCAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
125 2 0.02
126 19 0.17
127 89 0.78
128 4 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (126 bp):
TTATATTTCTCAAACCAACATTATAATATTATAATCATGCCAAACAAACCAAACAAGGTAATGTA
ACATTCCCAGAACTACGTCATATAAAATTACATTTCGAGAATCCTACTCCCAAAGGTAACC
Found at i:20415 original size:35 final size:37
Alignment explanation
Indices: 20344--20416 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
20334 GTTGGAAAAT
* *
20344 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
20381 ATTTATATATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
20416 A
1 A
20417 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 6 0.18
36 14 0.42
37 13 0.39
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:22002 original size:17 final size:16
Alignment explanation
Indices: 21974--22013 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
21964 AACAAAAAAC
*
21974 ATTATGATATAATATAT
1 ATTAT-ATATAATAAAT
21991 ATATATATATAATAAAT
1 AT-TATATATAATAAAT
22008 ATTATA
1 ATTATA
22014 ACGAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTATATATAATAAAT
Found at i:22052 original size:16 final size:16
Alignment explanation
Indices: 22031--22068 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22021 AATAATAATT
22031 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
22047 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
22063 T-ATAAA
1 TAATAAA
22069 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:22316 original size:11 final size:11
Alignment explanation
Indices: 22236--22317 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
22226 TTATATACGT
*
22236 TAATAGTAAAA
1 TAATATTAAAA
*
22247 TAATAATAAATA
1 TAATATTAAA-A
22259 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
22272 T-ATATATATAA
1 TAATAT-TAAAA
22283 TAACT-TTAAAA
1 TAA-TATTAAAA
*
22294 -AACATTAAAA
1 TAATATTAAAA
*
22304 TAATATTAGAA
1 TAATATTAAAA
22315 TAA
1 TAA
22318 AAATAATTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 28 0.50
12 13 0.23
13 5 0.09
14 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:22805 original size:35 final size:36
Alignment explanation
Indices: 22734--22833 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 36
22724 GTGCTTGTGG
* * *
22734 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
**
22771 ATCCTATTTTAGGAG-TTGAATCCTAGCAGCATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
22806 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
22834 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.47
36 11 0.20
37 18 0.33
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:23691 original size:109 final size:104
Alignment explanation
Indices: 23288--24264 Score: 804
Period size: 109 Copynumber: 9.4 Consensus size: 104
23278 AATCCAAATA
* * ** *
23288 TTGTTTCGAG-TCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTT
1 TTGTCTCGAGTTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCGCTGAAACT-GGAAATTG-TT
**** * * * *
23352 GTTGATTGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTG
63 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * * * * * *
23394 CTATCTCGAG-TCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AAC---AAAATCTTGT
1 TTGTCTCGAGTTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCGCTGAAACTGGAAATTGTTGT
* *
23454 TGACAATCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTG
65 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * * *
23494 TTGTCTCGAG-TCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTT
1 TTGTCTCGAGTTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCGCTGAAA-CTGGAAATTG-TT
23558 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
63 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * * * * *
23600 TTGTCTCGAGTGGCACGATATCCTTCGTCGTGGAGTT-AAAATCGCGGATGAAACTGAAAAGTTG
1 TTGTCTCGAGT-TC-CAATATCCTTCG-CGTGAAGTTGAAATTGGC-GCTGAAACTGGAAA-TTG
*
23664 TTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAATTGAACTTGTG
61 TT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * * * * * * *
23709 TTATCTCGGGTAGCACGATATCC-TCTGTCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTG
1 TTGTCTCGAGT-TC-CAATATCCTTC-G-CGTGAAGTTGAAATTGGCGCTGAAACT-GGAAATTG
* *
23773 TTTGTTGACAACCAGCCGTCCATTCGCTGTGAAGTTGAACTTGTG
61 -TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* *
23818 TTGTCTCGAG-TCCAATATCCTTCGCTGTGAAGTTGAGATT-G-GCT----C-CGAAATTGCTTG
1 TTGTCTCGAGTTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCGCTGAAACTGGAAATTG-TTG
* ** ** * * *
23875 TCGACAGTCAGCCACCCCTTCGCTGTGAAGTAGAGCTTGTG
64 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * * *
23916 CTGTCTTG-GGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTATTG
1 TTGTCTCGAGTTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCGCTGAAACT-GGAAATTGTTG
23980 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
64 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * *
24021 TTGTCTCGAGTT-CAATATCCTTCGTTGTGAAGTTGAGATT-G-GCT----C-CGAAATTGTTTG
1 TTGTCTCGAGTTCCAATATCCTTCG-CGTGAAGTTGAAATTGGCGCTGAAACTGGAAATTG-TTG
* ** * * *
24078 TCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTG
64 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * * * *
24119 CTGTCTTG-GGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTG
1 TTGTCTCGAGTTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCGCTGAAACT-GGAAATTGTTG
24183 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
64 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
*
24224 TTGTCTCGAGTT-CAATATCCTTCGCCGTGAAGTCGAAATTG
1 TTGTCTCGAGTTCCAATATCCTTCG-CGTGAAGTTGAAATTG
24265 ACTCTAGATA
Statistics
Matches: 710, Mismatches: 118, Indels: 87
0.78 0.13 0.10
Matches are distributed among these distances:
97 9 0.01
98 146 0.21
99 3 0.00
100 83 0.12
101 6 0.01
103 2 0.00
104 5 0.01
105 146 0.21
106 127 0.18
107 3 0.00
108 17 0.02
109 151 0.21
110 12 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (104 bp):
TTGTCTCGAGTTCCAATATCCTTCGCGTGAAGTTGAAATTGGCGCTGAAACTGGAAATTGTTGTT
GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
Found at i:24037 original size:105 final size:104
Alignment explanation
Indices: 23293--24264 Score: 838
Period size: 98 Copynumber: 9.3 Consensus size: 104
23283 AAATATTGTT
* ** * * *
23293 TCGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACT-GGAAATT-ATTGTTGAC
*** * * * *
23358 TGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTATC
64 AACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * * * * *
23399 TCGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AAC---AAAATCTTGTTGACAA
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGAAATTATTGTTGACAA
* * * *
23460 TCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
66 CCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * * *
23499 TCGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT-TTGTTGA
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAA-CTG-GAAAT-TATTGTTGA
* *
23563 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
63 CAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * * * ** * *
23605 TCGAGTGGCACGATATCCTTCG-TCGTGGAGTT-AAAATCGCGGATGAAACTGAAAAGTTGTTCG
1 TCGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-CCTGAAACTGGAAA-TTATT-G
* * * *
23668 TTGACAACCAGCCGTCCCTTCGTTGTGAAATTGAACTTGTGTTATC
59 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * * * * * * *
23714 TCGGGTAGCACGATATCC-TCTG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTG
1 TCGAGT--C-CAATATCCTTC-GCT-GTGAAGTTGAAATTGGCCCTGAAACT-GGAAATT-ATTG
* *
23777 TTGACAACCAGCCGTCCATTCGCTGTGAAGTTGAACTTGTGTTGTC
59 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* ** *
23823 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCC-GAAA-T-----TGCTTGTCGACA
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAACTGGAAATTATTGTTGACA
** ** * *
23881 GTCAGCCACCCCTTCGCTGTGAAGTAGAGCTTGTGCTGTC
65 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* *
23921 TTGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTATTGTTGACA
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACT-GGAAATTATTGTTGACA
* *
23986 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
65 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * * * *
24026 TCGAGTTCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCC-GAAA-TTG----T-TTGTCGACA
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAACTGGAAATTATTGTTGACA
** * *
24084 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTC
65 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * *
24124 TTGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTGTTGACA
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACT-GGAAATTATTGTTGACA
* *
24189 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
65 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* * *
24229 TCGAGTTCAATATCCTTCGCCGTGAAGTCGAAATTG
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
24265 ACTCTAGATA
Statistics
Matches: 714, Mismatches: 113, Indels: 79
0.79 0.12 0.09
Matches are distributed among these distances:
97 4 0.01
98 157 0.22
99 4 0.01
100 80 0.11
101 6 0.01
103 1 0.00
104 2 0.00
105 154 0.22
106 120 0.17
107 11 0.02
108 15 0.02
109 149 0.21
110 11 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (104 bp):
TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGAAATTATTGTTGACAA
CCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
Found at i:24081 original size:203 final size:203
Alignment explanation
Indices: 23297--24264 Score: 1046
Period size: 203 Copynumber: 4.7 Consensus size: 203
23287 ATTGTTTCGA
* * * * ****
23297 GTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGATTGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATT-ATTGTTGACAACC
* * * * * *
23362 AGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTATCTCGAG-TCTAATATCCTTCGCTGTGAAG
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTC-AATATCCTTCGCTGTGAAG
* * * *** * * * *
23426 ATGAAATTGACTCTGAACAAAATCTTGTTGACAATCAGTCGTCCCTTCGTTGTGAAGTTGAACTT
129 TTGAAATTGGCTCCGAA-ATTGT-TTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTT
* *
23491 GTGTTGTCTCGA
192 GTGCTGTCTCGG
* * **
23503 GTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT-TTGTTGACAAC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-CTGGGAAAT-TATTGTTGACAAC
*
23567 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTTCG-TCGT
64 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-TCA--ATATCCTTCGCT-GT
* * * * * * * * * *
23631 GGAGTTAAAATCGCGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGA
125 GAAGTTGAAAT--TGGCT----CCG-AAA-TTGTTTGTCGACAATCAGCCGCCCCTTCGCTGTGA
* * *
23696 AATTGAACTTGTGTTATCTCGG
182 AGTTGAACTTGTGCTGTCTCGG
* * * * * *
23718 GTAGCACGATATCC-TCTG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGA
1 GT--C-CAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATT-ATTGTTGA
* * *
23781 CAACCAGCCGTCCATTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGT
60 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGT
* * * * * *
23846 GAAGTTGAGATTGGCTCCGAAATTGCTTGTCGACAGTCAGCCACCCCTTCGCTGTGAAGTAGAGC
125 GAAGTTGAAATTGGCTCCGAAATTGTTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAAC
*
23911 TTGTGCTGTCTTGG
190 TTGTGCTGTCTCGG
* *
23925 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTGTTGACAACCA
*
23990 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGTTGTGAAGTT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGTT
* * *
24055 GAGATTGGCTCCGAAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGC
131 GAAATTGGCTCCGAAATTGTTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGC
*
24120 TGTCTTGG
196 TGTCTCGG
* *
24128 GTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTGTTGACAACCA
* *
24193 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCCGTGAAGTC
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGTT
24258 GAAATTG
131 GAAATTG
24265 ACTCTAGATA
Statistics
Matches: 653, Mismatches: 84, Indels: 53
0.83 0.11 0.07
Matches are distributed among these distances:
203 275 0.42
204 36 0.06
205 4 0.01
206 81 0.12
207 52 0.08
208 6 0.01
209 22 0.03
211 2 0.00
213 3 0.00
215 73 0.11
216 5 0.01
217 13 0.02
218 81 0.12
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (203 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTGTTGACAACCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGTT
GAAATTGGCTCCGAAATTGTTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGC
TGTCTCGG
Found at i:24822 original size:65 final size:65
Alignment explanation
Indices: 24718--24898 Score: 308
Period size: 65 Copynumber: 2.8 Consensus size: 65
24708 GACAAAATTT
24718 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
24783 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
24848 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
24899 CTATCTCAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 95 0.87
66 14 0.13
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:24889 original size:102 final size:102
Alignment explanation
Indices: 24783--25138 Score: 595
Period size: 102 Copynumber: 3.5 Consensus size: 102
24773 TCAATGTTTA
* *
24783 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
24848 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
24885 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGCAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
24950 TGTTTCAAGAGAAATTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
24987 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
25052 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
25089 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
25139 CTGTCTCAAG
Statistics
Matches: 235, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 235 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:24899 original size:37 final size:37
Alignment explanation
Indices: 24848--25156 Score: 207
Period size: 37 Copynumber: 8.9 Consensus size: 37
24838 TCAATGTTTA
* *
24848 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
24885 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * * *
24921 CATTTCAAGGCAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * **
24949 ATGTTTCAAGAGAAATTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
24987 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
25023 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
25051 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
25089 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
25125 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
25157 TGGTGAGCAC
Statistics
Matches: 206, Mismatches: 37, Indels: 58
0.68 0.12 0.19
Matches are distributed among these distances:
28 3 0.01
29 27 0.13
30 6 0.03
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 68 0.33
37 86 0.42
38 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:25134 original size:36 final size:36
Alignment explanation
Indices: 25052--25156 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
25042 TCAATGTTTA
* * * *
25052 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
25089 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
25125 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
25157 TGGTGAGCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 38 0.59
37 26 0.41
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:26041 original size:22 final size:22
Alignment explanation
Indices: 26016--26066 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
26006 TTGTGTTTGG
26016 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
26038 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
26060 TCAAAGG
1 TCAAAGG
26067 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:26700 original size:21 final size:20
Alignment explanation
Indices: 26674--26731 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
26664 TTTTTGTCCC
*
26674 TTTTTTTTATTTTTG-TTCT
1 TTTTTTTTTTTTTTGCTTCT
*
26693 TGTTTTTTCCTTTTTTGCTTCT
1 T-TTTTTT-TTTTTTTGCTTCT
26715 TTTCTTTTTTTTTTTGC
1 TTT-TTTTTTTTTTTGC
26732 CCTTTTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 16 0.50
22 9 0.28
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTTTTTTGCTTCT
Found at i:32046 original size:22 final size:22
Alignment explanation
Indices: 32023--32084 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
32013 CAAAAAGGGC
32023 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
32046 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
32067 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
32085 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:32075 original size:20 final size:20
Alignment explanation
Indices: 32023--32092 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
32013 CAAAAAGGGC
*
32023 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
32046 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
32067 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
32087 AAAAAG
1 AAAAAG
32093 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:33686 original size:37 final size:37
Alignment explanation
Indices: 33592--33701 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
33582 GTGCTCACCA
*
33592 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA-ACAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
33628 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
33665 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
33702 ATTGAAAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 30 0.45
37 33 0.50
38 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:33789 original size:102 final size:102
Alignment explanation
Indices: 33610--33965 Score: 595
Period size: 102 Copynumber: 3.5 Consensus size: 102
33600 CTTGAGACAG
** * * *
33610 TTTCCCTTGAAAACAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
33675 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
33712 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
33777 TGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
33814 TTTGCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
33879 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
33916 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
33966 TAAACATTGA
Statistics
Matches: 235, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 235 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:33872 original size:37 final size:37
Alignment explanation
Indices: 33828--33900 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
33818 CCTTGAAATG
* *
33828 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAA
*
33865 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
33901 TAAACATTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAA
Found at i:33955 original size:65 final size:65
Alignment explanation
Indices: 33850--34030 Score: 308
Period size: 65 Copynumber: 2.8 Consensus size: 65
33840 CTTGAGATAG
** * *
33850 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
33915 A
65 A
*
33916 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
33981 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
34031 AAATTTTGTC
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 97 0.89
66 12 0.11
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (65 bp):
TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:33958 original size:167 final size:169
Alignment explanation
Indices: 33748--34065 Score: 525
Period size: 167 Copynumber: 1.9 Consensus size: 169
33738 CTTGAGATAG
33748 TTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAATTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAATTTCTCTTGAAACATAAACATTGAAAAC
* * *
33813 ATTTGCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCC
33878 TTGAGACAG-TTTCTCTTGAAACATAAACATTGAAAACA
131 TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
** * * *
33916 TTTCCCTTGAAA-TGAATTTCGTCTCTC-TTGAGATAGTTTCTCTTGAAACATAAACATTGAAAA
1 TTTCCCTTGAAACAAAATTCCGTCTC-CATTGAGACAATTTCTCTTGAAACATAAACATTGAAAA
*
33979 CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCC
65 CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCC
34044 CTTGAGACAGTTTTCTCTTGAA
130 CTTGAGACAGTTTTCTCTTGAA
34066 GCATCATCTT
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
167 115 0.83
168 24 0.17
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAATTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:34038 original size:204 final size:194
Alignment explanation
Indices: 33594--34065 Score: 552
Period size: 204 Copynumber: 2.3 Consensus size: 194
33584 GCTCACCATT
* *
33594 GTCTCTCTTGAGACAGTTTCCCTTGAAAACAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTT-CCTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
*
33659 AAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
65 AAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
* * * * *
33724 TGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAATTTC
130 TGAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTACATCTCCATTGAAACAATTTC
* ** *
33789 -TCTTGAAACATAAACATTGAAAACA-TTTGCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTT
1 GTC-T----C-T---C-TTG-AGACAGTTT-CCTTGAAAAAAATTTTGTCTCTCTTGAGACAGTT
33852 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
54 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
*
33917 TTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACAT
119 TTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAAC--AAA-ATT----ACAT
* * *
33982 TTCCCTTGAAATGAATTTC
177 CTCCATTGAAA-CAATTTC
* *
34001 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAA
1 GTCTCTCTTGAGACAGTTTC-CTTGAAA-AAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAA
34066 GCATCATCTT
Statistics
Matches: 231, Mismatches: 22, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
194 2 0.01
195 1 0.00
199 1 0.00
200 1 0.00
202 5 0.02
203 14 0.06
204 166 0.72
205 14 0.06
206 3 0.01
207 4 0.02
208 1 0.00
211 10 0.04
212 7 0.03
213 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (194 bp):
GTCTCTCTTGAGACAGTTTCCTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAAT
GAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTACATCTCCATTGAAACAATTTC
Found at i:34208 original size:37 final size:37
Alignment explanation
Indices: 34138--34209 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
34128 TGGAACTAAG
* * **
34138 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
34175 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAA
34210 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:34841 original size:203 final size:204
Alignment explanation
Indices: 34492--35451 Score: 1011
Period size: 203 Copynumber: 4.6 Consensus size: 204
34482 GTCAATTTCG
* *
34492 ACTTCACGGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
34557 GGTTGTCAACAATAATTTCCCAGTTTCAGGGCTAATTTTAACTTCACAACGAAGGATATTGGACC
66 GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * *
34622 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGTGGATGACTGTCGACAAACAATTTCG-GAG
131 CAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGATGACTGTCAACAAACAATTTCGTGAG
34686 CCAATCTCA
196 CCAATCTCA
34695 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * *
34760 GGTTGTCAACAATAATTTCCTAGTTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
66 GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * * *
34825 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCGACAAGCAATTTCG-GAG
131 CAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGATGACTGTCAACAAACAATTTCGTGAG
34889 CCAATCTCA
196 CCAATCTCA
* * *
34898 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAATGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
34963 AGTTGTCAACAAACAATTTCCCAATTCCAGAGCCGATTTCAACTCCAC-GAC-AGAGGATATCGT
66 GGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGA-AGGATAT--T
* * * * * * ** *
35026 GCTACCCGAGATAACACAAGTTCAATTTCACAACGAAGGGAC-GACTGGTTGTCAACGAACAACT
126 G-GACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGA-TGACTGTCAACAAACAA--
* * * * *
35090 TTTCAGTTTCATCCGCGATTTTA
187 TTTC-G--TGA-GC-CAATCTCA
* * *
35113 ACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 ACTTCACAG-CGAAGGATAT--TG-AACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* * * * *
35177 GGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCAACTTCGCAGCGAAGGATATT
62 GGCTGGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
* * * * * * *
35242 GGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC-AA-GATTTC
126 GGACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGATGACTGTCAACAAACAATTTC
* *
35305 GTTCAGAGTCAATTTCA
191 G-T--GAGCCAATCTCA
* * * * *
35322 TCTTCACAGCGAAGGATATT-AGACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGC
1 ACTTCACAGCGAAGGATATTGA-ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
**** * * *
35386 TGACAATCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGA
65 TGGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
35451 C
129 C
35452 TCGAAACAAT
Statistics
Matches: 647, Mismatches: 84, Indels: 49
0.83 0.11 0.06
Matches are distributed among these distances:
203 267 0.41
204 38 0.06
206 95 0.15
207 45 0.07
209 26 0.04
210 3 0.00
211 5 0.01
213 2 0.00
214 4 0.01
215 66 0.10
216 3 0.00
217 2 0.00
218 89 0.14
219 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (204 bp):
ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
CAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGATGACTGTCAACAAACAATTTCGTGAG
CCAATCTCA
Found at i:35284 original size:106 final size:105
Alignment explanation
Indices: 34479--35460 Score: 898
Period size: 109 Copynumber: 9.4 Consensus size: 105
34469 CGTTTTATCT
* * *
34479 AGAGTCAATTTCGACTTCACGGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
34544 CGAAGGGACGGCTGGTTGTCAAC-AATAATTTCCCAGTTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCAATTTC
* * * * * * * * *
34584 AGGGCTAATTTTAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
** * ** *
34649 CGAAGGGGTGGATGACTGTCGAC--A-AA----CAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
* * *
34682 GGAGCCAATCTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
34747 CGAAGGGACGGCTGGTTGTCAAC-AATAATTTCCTAGTTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTC-AATTTC
* * * * * *
34787 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* ** * *
34852 CGAAGGGGCGGCTGACTGT---C-GACAA---GCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
* * *
34885 GGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * * *
34950 CGAATGGACGGCTAGTTGTCAACAAACAATTTCCCAATTCC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCAATTTC
* * * * * *
34991 AGAGCCGATTTCAACTCCAC-GAC-AGAGGATATCGTGCTACCCGAGATAACACAAGTTCAATTT
1 AGAGCCAATTTCAACTTCACAG-CGA-AGGATAT--TG-GACTCGAGACAACACAAGTTCAACTT
* * *
35054 CACAACGAAGGGACGACTGGTTGTCAACGAACAACTTTTCAGTTTC
61 CACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTTCAATTTC
** * * * * *
35100 A-TCCGCGATTTTAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTT
1 AGAGC-CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTT
*
35163 CACAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTC
61 CACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTC-AATTTC
*
35209 AGAGCCAATTTCAACTTCGCAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
35274 CGAAGGGACGGCTGATTGTCAAC-AA-GA-TTTC--GTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
* * * * * *
35309 AGAGTCAATTTCATCTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* **** * * *
35374 CGAAGGGGCGGCTGACAATCAACAAACAATTTCCCAGTTCC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCAATTTC
* * *
35415 AGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTCGAAACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAA
35461 TATTTGGATT
Statistics
Matches: 714, Mismatches: 131, Indels: 63
0.79 0.14 0.07
Matches are distributed among these distances:
98 153 0.21
99 2 0.00
100 82 0.11
101 3 0.00
102 9 0.01
103 8 0.01
104 3 0.00
105 151 0.21
106 123 0.17
107 2 0.00
108 8 0.01
109 165 0.23
110 5 0.01
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (105 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
Found at i:35978 original size:35 final size:35
Alignment explanation
Indices: 35915--36014 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
35905 TTTCGTCCTA
*
35915 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
35952 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
35987 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
36015 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:36478 original size:11 final size:11
Alignment explanation
Indices: 36458--36539 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
36448 TTAATTATTT
*
36458 TTATTCTAATA
1 TTATTTTAATA
*
36469 TTATTTTAATG
1 TTATTTTAATA
36480 TT-TTTTAA-A
1 TTATTTTAATA
*
36489 GTTATTAT-ATA
1 -TTATTTTAATA
36500 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
36514 TTATATTTATTA
1 TTAT-TTTAATA
*
36526 TTATTTTACTA
1 TTATTTTAATA
36537 TTA
1 TTA
36540 ACGTATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 10 0.18
11 28 0.50
12 7 0.12
13 6 0.11
14 5 0.09
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:36731 original size:16 final size:16
Alignment explanation
Indices: 36710--36743 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36700 CATGTATTTA
36710 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
36726 TATTATTTTACTTTAT
1 TATTATATTACATTAT
36742 TA
1 TA
36744 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:36748 original size:21 final size:22
Alignment explanation
Indices: 36724--36774 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
36714 ATATTACATT
*
36724 ATTATTATTTTACTTTATTA-A
1 ATTATTATTTTACGTTATTATA
* *
36745 ATTATTTTTTTTCGTTATTATA
1 ATTATTATTTTACGTTATTATA
*
36767 TTTATTAT
1 ATTATTAT
36775 ATATATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTATTATTTTACGTTATTATA
Found at i:38563 original size:83 final size:82
Alignment explanation
Indices: 38417--38575 Score: 230
Period size: 83 Copynumber: 1.9 Consensus size: 82
38407 GGAAACCATT
* * * *
38417 ATTGAAGCTCGTAAAACCTCGAAATGAAAAAAAATCTTTAACTTAATTCGATTAAAGTCTCAAAC
1 ATTGAAGCTCGTAAAACCTCAAAATGAAAAAAAATATTAAACTTAACTCGATTAAAG-CTCAAAC
38482 TCAAACTCGAAAACATGA
65 TCAAACTCGAAAACATGA
*
38500 ATTGAAGCTCGTAAAAGCTCAAAATGAAAAAAAATATTAAACTTAACTCGATTTAAA-CATCAAA
1 ATTGAAGCTCGTAAAACCTCAAAATGAAAAAAAATATTAAACTTAACTCGA-TTAAAGC-TCAAA
*
38564 TTCAAACTCGAA
64 CTCAAACTCGAA
38576 CATGAAGCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
82 1 0.01
83 62 0.91
84 5 0.07
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (82 bp):
ATTGAAGCTCGTAAAACCTCAAAATGAAAAAAAATATTAAACTTAACTCGATTAAAGCTCAAACT
CAAACTCGAAAACATGA
Found at i:39007 original size:3 final size:3
Alignment explanation
Indices: 38999--39028 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38989 GATCCATTCT
38999 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39029 CCAAGAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:40780 original size:3 final size:3
Alignment explanation
Indices: 40774--40816 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
40764 TTTATTTTTT
*
40774 TTA TTA TTA TTAA TTA TTA TTAA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TT-A TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT
40817 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 31 0.86
4 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:40790 original size:13 final size:12
Alignment explanation
Indices: 40774--40816 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
40764 TTTATTTTTT
40774 TTATTATTATTAA
1 TTATTATTATT-A
*
40787 TTATTATTAACTA
1 TTATTATT-ATTA
40800 TTATTATTATTA
1 TTATTATTATTA
40812 TTATT
1 TTATT
40817 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 8 0.30
13 17 0.63
14 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:40791 original size:10 final size:10
Alignment explanation
Indices: 40776--40814 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
40766 TATTTTTTTT
40776 ATTATTATTA
1 ATTATTATTA
40786 ATTATTATTA
1 ATTATTATTA
*
40796 ACTATTATT-
1 ATTATTATTA
40805 ATTATTATTA
1 ATTATTATTA
40815 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATTATTA
Found at i:42436 original size:17 final size:18
Alignment explanation
Indices: 42404--42437 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42394 GTATAATTTA
42404 TTTTTACTTATGTTATTG
1 TTTTTACTTATGTTATTG
42422 TTTTTACTTAT-TTATT
1 TTTTTACTTATGTTATT
42438 TTATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTACTTATGTTATTG
Found at i:55350 original size:47 final size:46
Alignment explanation
Indices: 55284--55503 Score: 128
Period size: 47 Copynumber: 4.7 Consensus size: 46
55274 CTAAAGATGG
* * * *
55284 CCAGAGTTCTTCATTATGTATGAACCATGTCATCTACCCTTAGACGA
1 CCAGACTTCCTCATCATGTAGGAACCATGTCATC-ACCCTTAGACGA
* * **
55331 CCAGACTTCCTCATCATGTAGGAGA--GTGTCA--A-CATTAGGATAA
1 CCAGACTTCCTCATCATGTAGGA-ACCATGTCATCACCCTTA-GACGA
* * * * * *
55374 CCAGCCGTCCTCATCACGTAGGAACCGA-GTTATCACCCTTCCTAAAGATGG
1 CCAGACTTCCTCATCATGTAGGAACC-ATGTCATCACCC-T--T--AGACGA
* * *
55425 CCAGAGTTCTTCATCATGTATGAACCATGTCATCTACCCTTAGACGA
1 CCAGACTTCCTCATCATGTAGGAACCATGTCATC-ACCCTTAGACGA
* * *
55472 CCAGACTTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGACTTCCTCATCATGTAGGAACCATGTCA
55504 ACCTTAGATA
Statistics
Matches: 127, Mismatches: 31, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
42 5 0.04
43 24 0.19
44 3 0.02
46 6 0.05
47 50 0.39
48 2 0.02
49 1 0.01
50 2 0.02
51 29 0.23
52 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (46 bp):
CCAGACTTCCTCATCATGTAGGAACCATGTCATCACCCTTAGACGA
Found at i:55406 original size:141 final size:141
Alignment explanation
Indices: 55188--55628 Score: 641
Period size: 141 Copynumber: 3.2 Consensus size: 141
55178 AACATCAAAT
55188 GACCAGA-TCTCCTCGA-CACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACG
1 GACCAGACT-TCCTC-ATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACG
*
55251 TAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATTATGTATGAACCATGTCA
64 TAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCA
55316 TCTACCCTTAGAC
129 TCTACCCTTAGAC
*
55329 GACCAGACTTCCTCATCATGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
1 GACCAGACTTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
55394 GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
55459 TACCCTTAGAC
131 TACCCTTAGAC
* * * *
55470 GACCAGACTTCCTCATCACGTAGGAGCCGTGTCAACCTTA-GATAATCAGCCGTCCTCATTACGT
1 GACCAGACTTCCTCATCACGTAGGAG-AGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGT
* * * ** ** * *
55534 AGGAACCTAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCGCGTATGAGCCGTGTCA-
65 AGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCAT
55598 -T-CCCTT----
130 CTACCCTTAGAC
*
55604 GACCAGATTTCCTCATCACGTAGGA
1 GACCAGACTTCCTCATCACGTAGGA
55629 ATCGTGTTTC
Statistics
Matches: 280, Mismatches: 17, Indels: 13
0.90 0.05 0.04
Matches are distributed among these distances:
134 24 0.09
138 5 0.02
139 1 0.00
140 1 0.00
141 237 0.85
142 12 0.04
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (141 bp):
GACCAGACTTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
TACCCTTAGAC
Found at i:55852 original size:3 final size:3
Alignment explanation
Indices: 55846--55888 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
55836 TTTATTTTTT
*
55846 TTA TTA TTA TTAA TTA TTA TTAA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TT-A TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT
55889 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 31 0.86
4 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:55862 original size:13 final size:12
Alignment explanation
Indices: 55846--55888 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
55836 TTTATTTTTT
55846 TTATTATTATTAA
1 TTATTATTATT-A
*
55859 TTATTATTAACTA
1 TTATTATT-ATTA
55872 TTATTATTATTA
1 TTATTATTATTA
55884 TTATT
1 TTATT
55889 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 8 0.30
13 17 0.63
14 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:55863 original size:10 final size:10
Alignment explanation
Indices: 55848--55886 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
55838 TATTTTTTTT
55848 ATTATTATTA
1 ATTATTATTA
55858 ATTATTATTA
1 ATTATTATTA
*
55868 ACTATTATT-
1 ATTATTATTA
55877 ATTATTATTA
1 ATTATTATTA
55887 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATTATTA
Found at i:57509 original size:17 final size:18
Alignment explanation
Indices: 57477--57510 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57467 GTATAATTTA
57477 TTTTTACTTATGTTATTG
1 TTTTTACTTATGTTATTG
57495 TTTTTACTTAT-TTATT
1 TTTTTACTTATGTTATT
57511 TTATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTACTTATGTTATTG
Found at i:61294 original size:30 final size:29
Alignment explanation
Indices: 61163--61295 Score: 127
Period size: 29 Copynumber: 4.6 Consensus size: 29
61153 ATTAATTTTC
*
61163 AAAAAGTATATTTTATTTT-TATTTTGA-TT
1 AAAAA-TATATTTTATTTTAT-TTTTAACTT
61192 AAAAATATATTTTACTTTTATCTTTTAACTT
1 AAAAATATATTTTA-TTTTAT-TTTTAACTT
* *
61223 AAAAATATATATTATTATTA-GTTTAACTT
1 AAAAATATATTTTATT-TTATTTTTAACTT
*
61252 AAAAA-ATA---TATTTTATTTTTATCTT
1 AAAAATATATTTTATTTTATTTTTAACTT
61277 AAACAATATATTTTATTTT
1 AAA-AATATATTTTATTTT
61296 TATCTATATT
Statistics
Matches: 88, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
24 3 0.03
25 14 0.16
26 2 0.02
27 3 0.03
28 12 0.14
29 22 0.25
30 14 0.16
31 18 0.20
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
AAAAATATATTTTATTTTATTTTTAACTT
Found at i:61300 original size:25 final size:25
Alignment explanation
Indices: 61207--61297 Score: 119
Period size: 25 Copynumber: 3.4 Consensus size: 25
61197 TATATTTTAC
61207 TTTTATCTTTTAACTTAAAAATATATA
1 TTTTAT-TTTTAACTTAAAAA-ATATA
61234 TTATTATTAGTTTAACTTAAAAAATATA
1 TT-TTATT--TTTAACTTAAAAAATATA
* *
61262 TTTTATTTTTATCTTAAACAATATA
1 TTTTATTTTTAACTTAAAAAATATA
61287 TTTTATTTTTA
1 TTTTATTTTTA
61298 TCTATATTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
25 27 0.46
27 8 0.14
28 11 0.19
29 13 0.22
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (25 bp):
TTTTATTTTTAACTTAAAAAATATA
Found at i:61311 original size:86 final size:90
Alignment explanation
Indices: 61163--61372 Score: 218
Period size: 93 Copynumber: 2.3 Consensus size: 90
61153 ATTAATTTTC
* *
61163 AAAAAGTATATTTTATTTTTATTTTGATTAAAAATATATTTTACTTTTATCTTTTAACTTAAAAA
1 AAAAAATATATTTTATTTTTATCTT-A--AAAAATATATTTTACTTTTATCTTTT-ACTTAAAAA
*
61228 TA-TATAT-TA-TTATTAG-TTTAAC-TT
62 TATTATATCTATTTATTAGATTCAACATT
* * *
61252 AAAAAATATATTTTATTTTTATCTTAAACAATATATTTTATTTTTATCTATATT-TTTAAAAATA
1 AAAAAATATATTTTATTTTTATCTTAAAAAATATATTTTACTTTTATCT-T-TTACTTAAAAATA
* *
61316 TTTTTCTCTATTTTATTAGAATTCAACATT
64 -TTATATCTA-TTTATTAG-ATTCAACATT
61346 -AAAAATATATTTTATTTTTATCTTAAA
1 AAAAAATATATTTTATTTTTATCTTAAA
61373 TTATTAAATA
Statistics
Matches: 103, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
86 30 0.29
87 1 0.01
88 6 0.06
89 25 0.24
91 7 0.07
93 32 0.31
94 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (90 bp):
AAAAAATATATTTTATTTTTATCTTAAAAAATATATTTTACTTTTATCTTTTACTTAAAAATATT
ATATCTATTTATTAGATTCAACATT
Found at i:61316 original size:31 final size:31
Alignment explanation
Indices: 61275--61460 Score: 119
Period size: 31 Copynumber: 5.7 Consensus size: 31
61265 TATTTTTATC
61275 TTAAACAATATATTTTATTTTTATCTATATTT
1 TTAAA-AATATATTTTATTTTTATCTATATTT
* * * *
61307 TTAAAAATATTTTTCTCTATTTTAT-TAGAATTCAACA
1 TTAAAAATATATTT-TAT-TTTTATCTA-TATT----T
* *
61344 TTAAAAATATATTTTATTTTTATCTTAAATTA
1 TTAAAAATATATTTTATTTTTATC-TATATTT
* * *
61376 TTAAATATA-ATTTTATTCTTATCT-TAACTT
1 TTAAAAATATATTTTATTTTTATCTAT-ATTT
** *
61406 AAAAAAATATATGTTATTTTTATCT-TAATTT
1 TTAAAAATATATTTTATTTTTATCTAT-ATTT
*
61437 TTAAATAAAATATTTTATTTTTAT
1 TTAAA-AATATATTTTATTTTTAT
61461 ATTAGTTTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
30 9 0.07
31 42 0.35
32 34 0.28
33 9 0.07
35 6 0.05
36 6 0.05
37 15 0.12
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (31 bp):
TTAAAAATATATTTTATTTTTATCTATATTT
Found at i:62171 original size:12 final size:12
Alignment explanation
Indices: 62149--62190 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
62139 AATAAATTTT
*
62149 TATATTTTAAAA
1 TATAATTTAAAA
62161 T-TAAATTTAAAA
1 TAT-AATTTAAAA
62173 TATAATTTAAAAA
1 TATAATTT-AAAA
62186 TATAA
1 TATAA
62191 AAAATGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 1 0.04
12 15 0.58
13 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATTTAAAA
Found at i:62185 original size:13 final size:13
Alignment explanation
Indices: 62149--62190 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
62139 AATAAATTTT
* *
62149 TATATTTTAAAAT
1 TATAATTTAAAAA
62162 TA-AATTT-AAAA
1 TATAATTTAAAAA
62173 TATAATTTAAAAA
1 TATAATTTAAAAA
62186 TATAA
1 TATAA
62191 AAAATGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAATTTAAAAA
Found at i:62194 original size:22 final size:23
Alignment explanation
Indices: 62169--62218 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
62159 AATTAAATTT
*
62169 AAAATATAATT-TAAAA-ATATAA
1 AAAATAGAATTATAAAATAT-TAA
62191 AAAAT-GAATTATAAAATATTAA
1 AAAATAGAATTATAAAATATTAA
62213 AAAATA
1 AAAATA
62219 AAAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATAGAATTATAAAATATTAA
Found at i:62214 original size:29 final size:27
Alignment explanation
Indices: 62176--62242 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 27
62166 TTTAAAATAT
*
62176 AATTTAAAAATATAAAAAATGAATTATAA
1 AATTT-AAAATATAAAAAATAAATT-TAA
*
62205 AATATTAAAAAATAAAAAATAAATTTAA
1 AAT-TTAAAATATAAAAAATAAATTTAA
62233 AATTTAAAAT
1 AATTTAAAAT
62243 TTAAGGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 6 0.18
29 20 0.59
30 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (27 bp):
AATTTAAAATATAAAAAATAAATTTAA
Found at i:62323 original size:14 final size:14
Alignment explanation
Indices: 62304--62345 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
62294 TAATTGGTAT
*
62304 TAAAATATAAATTG
1 TAAAATATAAATTA
62318 TAAAAT-TAAATATA
1 TAAAATATAAAT-TA
62332 TAAAATATTAAATT
1 TAAAATA-TAAATT
62346 TAGTTCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 5 0.21
14 13 0.54
15 1 0.04
16 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAATATAAATTA
Found at i:62344 original size:21 final size:20
Alignment explanation
Indices: 62302--62345 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
62292 CCTAATTGGT
* *
62302 ATTAAAATATAAATTGTAAA
1 ATTAAAATATAAAATATAAA
*
62322 ATTAAATATATAAAATATTAA
1 ATTAAA-ATATAAAATATAAA
62343 ATT
1 ATT
62346 TAGTTCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTAAAATATAAAATATAAA
Found at i:62813 original size:20 final size:21
Alignment explanation
Indices: 62788--62839 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
62778 TTTTCCCAAT
*
62788 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
62808 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
62829 TCGCAATGCGA
1 TCGCAATGCGA
62840 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:62852 original size:41 final size:41
Alignment explanation
Indices: 62825--62902 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
62815 GCGAATTGGG
* * *
62825 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
*
62866 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
62903 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
Found at i:62853 original size:20 final size:20
Alignment explanation
Indices: 62828--62921 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
62818 AATTGGGAAA
*
62828 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
62848 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
62869 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
62889 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
62909 TTCGCAACGCGAT
1 ATCGCAACGCGAT
62922 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:63474 original size:19 final size:19
Alignment explanation
Indices: 63436--63502 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
63426 TTCGAGAATG
63436 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
63456 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
63475 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
63494 AAAATCGCA
1 AAAATCGCA
63503 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:63544 original size:20 final size:19
Alignment explanation
Indices: 63498--63629 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
63488 GAAACCAAAA
*
63498 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
63517 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
63536 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
63556 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
63572 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
63589 TCGCTTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
63608 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
63628 TC
1 TC
63630 AACCAAAAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 45 0.48
20 34 0.37
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:63579 original size:39 final size:39
Alignment explanation
Indices: 63503--63579 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
63493 CAAAATCGCA
* **
63503 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
63542 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
63580 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:65689 original size:42 final size:42
Alignment explanation
Indices: 65630--65713 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
65620 GCCCGACTCG
* * *
65630 CCTATCATCCCTCGAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
65672 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCC
65714 AATGTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.39, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:67127 original size:14 final size:14
Alignment explanation
Indices: 67108--67143 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
67098 TTTGTTTAAT
67108 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
67122 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
67136 TGATTTGT
1 TGATTTGT
67144 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:67345 original size:19 final size:19
Alignment explanation
Indices: 67323--67449 Score: 77
Period size: 19 Copynumber: 7.5 Consensus size: 19
67313 CGAAATTAAA
*
67323 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
67342 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
67358 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
67375 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
67389 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
67408 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
67424 CTCG--TTGCGATTTTTAT
1 TTCGCATTGCGATTTTCAT
67441 TTCGCATTG
1 TTCGCATTG
67450 TGATAGTAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 30
0.64 0.11 0.24
Matches are distributed among these distances:
14 23 0.29
16 12 0.15
17 13 0.16
19 31 0.39
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:67369 original size:33 final size:32
Alignment explanation
Indices: 67327--67449 Score: 176
Period size: 33 Copynumber: 3.8 Consensus size: 32
67317 ATTAAATTCG
67327 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
67360 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
67393 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
67426 CGTTGCGATTTTTATTTCGCATTG
1 CGTTGCGATTTTCATTTCGCATTG
67450 TGATAGTAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
31 3 0.04
33 75 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:67416 original size:66 final size:66
Alignment explanation
Indices: 67320--67449 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
67310 ACGCGAAATT
*
67320 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
67385 G
66 G
* *
67386 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATTTCGCATTG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
67450 TGATAGTAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:70936 original size:20 final size:20
Alignment explanation
Indices: 70911--70968 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
70901 ATTCATTTGA
70911 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
70931 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
70951 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
70969 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:71011 original size:14 final size:14
Alignment explanation
Indices: 70992--71082 Score: 92
Period size: 14 Copynumber: 5.8 Consensus size: 14
70982 GAAAATCGCA
70992 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
71006 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
71023 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
71039 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
71056 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
71072 TTGCGATTTTC
1 TTGCGATTTTC
71083 ATTTCGCATT
Statistics
Matches: 67, Mismatches: 0, Indels: 20
0.77 0.00 0.23
Matches are distributed among these distances:
14 33 0.49
16 6 0.09
17 6 0.09
19 22 0.33
ACGTcount: A:0.11, C:0.21, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:71011 original size:33 final size:33
Alignment explanation
Indices: 70987--71137 Score: 257
Period size: 33 Copynumber: 4.4 Consensus size: 33
70977 GAAATGAAAA
70987 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
71020 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
71053 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
71086 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
71124 TCGCATTGCGATTT
1 TCGCATTGCGATTT
71138 CCATTTCGTG
Statistics
Matches: 113, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
33 82 0.73
36 3 0.03
38 28 0.25
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.48
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:71062 original size:52 final size:54
Alignment explanation
Indices: 71006--71137 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 54
70996 GATTTTCTCG
71006 TTGCGATTTTCATTTCGCATTGCGATTTTC-TCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCTTCGATTGCGATTTTCATTTCGCA
71058 TTGCGATTTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTC--TTCG-ATTGCGATTTTCATTTCGCA
71110 TTGCGATTTTCATTTCGCATTGCGATTT
1 TTGCGATTTTCATTTCGCATTGCGATTT
71138 CCATTTCGTG
Statistics
Matches: 70, Mismatches: 0, Indels: 15
0.82 0.00 0.18
Matches are distributed among these distances:
47 11 0.16
49 3 0.04
50 3 0.04
52 41 0.59
55 3 0.04
57 9 0.13
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.48
Consensus pattern (54 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCTTCGATTGCGATTTTCATTTCGCA
Found at i:71154 original size:19 final size:19
Alignment explanation
Indices: 70987--71145 Score: 204
Period size: 19 Copynumber: 9.2 Consensus size: 19
70977 GAAATGAAAA
70987 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
71003 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71020 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
71036 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71053 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
71069 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71086 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71105 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
71124 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
71143 TCG
1 TCG
71146 TGTTGCGATA
Statistics
Matches: 127, Mismatches: 1, Indels: 27
0.82 0.01 0.17
Matches are distributed among these distances:
14 33 0.26
16 9 0.07
17 9 0.07
19 76 0.60
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:73190 original size:38 final size:35
Alignment explanation
Indices: 73126--73242 Score: 118
Period size: 32 Copynumber: 3.4 Consensus size: 35
73116 TAGTTTACTT
* *
73126 TCGCAACACGAAACTTAAAATCGCAACGCGAAATAACTA
1 TCGCAACGCGAAA-TGAAAATCGCAACGCGAAA-AA--A
* *
73165 TCGCAATGCGAAATGAAAATCGCAA--CGACAAAA
1 TCGCAACGCGAAATGAAAATCGCAACGCGAAAAAA
*
73198 TCGCAACGCGAAATG-AAATCGCAA--CGACAAAA
1 TCGCAACGCGAAATGAAAATCGCAACGCGAAAAAA
73230 TCGCAACGCGAAA
1 TCGCAACGCGAAA
73243 CACAAATCGC
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
32 30 0.41
33 15 0.21
35 2 0.03
36 4 0.05
38 11 0.15
39 11 0.15
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.12
Consensus pattern (35 bp):
TCGCAACGCGAAATGAAAATCGCAACGCGAAAAAA
Found at i:73199 original size:14 final size:14
Alignment explanation
Indices: 73180--73237 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
73170 ATGCGAAATG
73180 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
73194 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
73210 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
73226 AAAATCGCAACG
1 AAAATCGCAACG
73238 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:73222 original size:32 final size:33
Alignment explanation
Indices: 73164--73242 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
73154 CGAAATAACT
*
73164 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
73197 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
73229 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
73243 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:73249 original size:19 final size:18
Alignment explanation
Indices: 73126--73253 Score: 92
Period size: 19 Copynumber: 7.3 Consensus size: 18
73116 TAGTTTACTT
*
73126 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
* *
73146 TCGCAACGCGAAATAACTA
1 TCGCAACGCGAAACAA-AA
* *
73165 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
73184 TCGCAA--CG--ACAAAA
1 TCGCAACGCGAAACAAAA
**
73198 TCGCAACGCGAAATGAAA
1 TCGCAACGCGAAACAAAA
73216 TCGCAA--CG--ACAAAA
1 TCGCAACGCGAAACAAAA
73230 TCGCAACGCGAAACACAAA
1 TCGCAACGCGAAACA-AAA
73249 TCGCA
1 TCGCA
73254 TTGCGATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.23
15 1 0.01
16 6 0.07
17 2 0.02
18 15 0.17
19 28 0.33
20 14 0.16
ACGTcount: A:0.46, C:0.26, G:0.16, T:0.12
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:73271 original size:19 final size:17
Alignment explanation
Indices: 73249--73344 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
73239 GAAACACAAA
73249 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
73268 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
73284 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
73300 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
73316 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
73333 TCGCATTGCGAT
1 TCGC-TTGCGAT
73345 AGCCATTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:73290 original size:14 final size:14
Alignment explanation
Indices: 73271--73328 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
73261 TTTCATTTCG
73271 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
73285 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
73301 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
73317 CGTTGCGATTTT
1 CGTTGCGATTTT
73329 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:73335 original size:33 final size:33
Alignment explanation
Indices: 73254--73344 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
73244 ACAAATCGCA
73254 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
73287 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
73319 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
73345 AGCCATTTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:73356 original size:20 final size:20
Alignment explanation
Indices: 73331--73372 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
73321 GCGATTTTCA
73331 TTTCGCATTGCGATAGCCAT
1 TTTCGCATTGCGATAGCCAT
* *
73351 TTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATAGCCAT
73371 TT
1 TT
73373 CGTGTTGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
TTTCGCATTGCGATAGCCAT
Found at i:73379 original size:19 final size:19
Alignment explanation
Indices: 73317--73382 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
73307 GCGATTTTGT
**
73317 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
73336 CATTGCGATAGCCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
73356 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
73375 TGTTGCGA
1 CGTTGCGA
73383 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:73892 original size:18 final size:18
Alignment explanation
Indices: 73855--73894 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
73845 GTCGATCAGA
* * *
73855 TGATGGCTCTGGGTGGGG
1 TGATAGCTCTGGGCGAGG
73873 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
73891 TGAT
1 TGAT
73895 GACTCCCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.47, T:0.28
Consensus pattern (18 bp):
TGATAGCTCTGGGCGAGG
Found at i:75452 original size:22 final size:22
Alignment explanation
Indices: 75427--75470 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
75417 GATTTAGATA
75427 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
75449 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
75471 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:75681 original size:20 final size:20
Alignment explanation
Indices: 75658--75729 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
75648 GATTATGTAA
75658 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGT
75678 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGT
*
75698 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTCAGT
*
75718 ATCTCGTTGCGA
1 ATCGCGTTGCGA
75730 TTTTGTATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGT
Found at i:75756 original size:41 final size:41
Alignment explanation
Indices: 75638--75774 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 41
75628 CGCTTTGAAA
* * * *
75638 ATCGCATTGCGATTATGTA-AATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* ** * *
75678 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTGT-ATTATCGCATTGCGAAAGTAAGT
* * *
75718 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
75759 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
75775 CCCAATTCGC
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.04
39 1 0.01
40 41 0.51
41 34 0.42
42 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:75763 original size:20 final size:20
Alignment explanation
Indices: 75658--75771 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
75648 GATTATGTAA
* *
75658 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
* *
75678 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
75698 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* * *
75718 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTAAGT
*
75739 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
75759 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
75772 TTTCCCAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 65 0.79
21 12 0.15
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:75790 original size:41 final size:41
Alignment explanation
Indices: 75638--75792 Score: 127
Period size: 41 Copynumber: 3.8 Consensus size: 41
75628 CGCTTTGAAA
* ** * *
75638 ATCGCATTGCGATTATGTAA-ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
* *** * *
75678 ATCGCGTTGCGAAAGT-CAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
* * ** * *
75718 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
75759 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
75793 TTACTTATTC
Statistics
Matches: 91, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
39 1 0.01
40 43 0.47
41 45 0.49
42 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
Found at i:76959 original size:19 final size:18
Alignment explanation
Indices: 76935--76971 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
76925 ATCTAAACAA
*
76935 TAAATTGAATTTATTGAAT
1 TAAATTAAATTTA-TGAAT
76954 TAAATTAAATTTATGAAT
1 TAAATTAAATTTATGAAT
76972 AAGTTAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (18 bp):
TAAATTAAATTTATGAAT
Found at i:77586 original size:11 final size:11
Alignment explanation
Indices: 77570--77632 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
77560 AAAATTACAT
77570 TATTAAAAATA
1 TATTAAAAATA
77581 TATTAAAAATA
1 TATTAAAAATA
***
77592 TATTATTGATA
1 TATTAAAAATA
77603 -ATTATAAAAT-
1 TATTA-AAAATA
77613 T-TTAAAAATA
1 TATTAAAAATA
77623 TATTAAAAAT
1 TATTAAAAAT
77633 TCTATAATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.19
11 29 0.69
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:77822 original size:21 final size:21
Alignment explanation
Indices: 77751--77827 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
77741 CCCTAAGGCC
**
77751 TAAACCCTAAAAT-CTAAGTCA
1 TAAACCCT-AAATCCTAAACCA
* * * *
77772 TAAATCTTAAACCCTAAACCT
1 TAAACCCTAAATCCTAAACCA
* *
77793 TGAATCCTAAATCCTAAACCA
1 TAAACCCTAAATCCTAAACCA
77814 TAAACCCTAAATCC
1 TAAACCCTAAATCC
77828 AATTATATGA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.07
21 40 0.93
ACGTcount: A:0.44, C:0.29, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAATCCTAAACCA
Found at i:77826 original size:28 final size:28
Alignment explanation
Indices: 77749--77827 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
77739 AACCCTAAGG
** * *
77749 CCTAAACCCTAAAATCTAAGTCATAAAT
1 CCTAAACCCTAAACCCTAAATCCTAAAT
* * *
77777 CTTAAACCCTAAACCTTGAATCCTAAAT
1 CCTAAACCCTAAACCCTAAATCCTAAAT
*
77805 CCTAAACCATAAACCCTAAATCC
1 CCTAAACCCTAAACCCTAAATCC
77828 AATTATATGA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.24
Consensus pattern (28 bp):
CCTAAACCCTAAACCCTAAATCCTAAAT
Found at i:78520 original size:74 final size:74
Alignment explanation
Indices: 78399--78547 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
78389 TGGAGAAGAA
*
78399 CATTTCCTTTTGTTACAAAATTATTAATATTTTAAAAAATATACTTGAAATACATTTCATATAAT
1 CATTTCCTTTTATTACAAAATTATTAATATTTTAAAAAATATACTTGAAATACATTTCATATAAT
78464 ATTTTATTT
66 ATTTTATTT
78473 CATTTCCTTTTATTACAAAATTATTAATATTTTAAAAAATATACTTGAAATACATTTCATATAAT
1 CATTTCCTTTTATTACAAAATTATTAATATTTTAAAAAATATACTTGAAATACATTTCATATAAT
78538 ATTTTATTT
66 ATTTTATTT
78547 C
1 C
78548 TTAAAATTTG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (74 bp):
CATTTCCTTTTATTACAAAATTATTAATATTTTAAAAAATATACTTGAAATACATTTCATATAAT
ATTTTATTT
Found at i:78538 original size:37 final size:37
Alignment explanation
Indices: 78423--78543 Score: 120
Period size: 37 Copynumber: 3.3 Consensus size: 37
78413 ACAAAATTAT
78423 TAATATTTTAAAAAATATACTTGAAATACATTTCATA
1 TAATATTTTAAAAAATATACTTGAAATACATTTCATA
**** * * ** * *
78460 TAATATTTTATTTCATTTCCTTTTATTACAAAATT-AT-
1 TAATATTTTAAAAAATATACTTGAAATAC--ATTTCATA
78497 TAATATTTTAAAAAATATACTTGAAATACATTTCATA
1 TAATATTTTAAAAAATATACTTGAAATACATTTCATA
78534 TAATATTTTA
1 TAATATTTTA
78544 TTTCTTAAAA
Statistics
Matches: 60, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
35 3 0.05
36 2 0.03
37 50 0.83
38 2 0.03
39 3 0.05
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (37 bp):
TAATATTTTAAAAAATATACTTGAAATACATTTCATA
Found at i:89233 original size:21 final size:23
Alignment explanation
Indices: 89198--89258 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
89188 TTGGTACAGA
*
89198 GGGAATCGA-TCCCCCCATG-A-
1 GGGAACCGATTCCCCCCATGAAG
* **
89218 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATGAAG
89241 GGGAACCGATTCCCCCCA
1 GGGAACCGATTCCCCCCA
89259 CAGGGGAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 7 0.23
21 8 0.26
22 1 0.03
23 15 0.48
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCATGAAG
Found at i:89265 original size:21 final size:21
Alignment explanation
Indices: 89239--89278 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89229 CCCCCTTTGA
*
89239 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
89260 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
89279 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:92457 original size:23 final size:23
Alignment explanation
Indices: 92411--92471 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
92401 AGCTCGTATC
*
92411 ATTGCACCGAAGTG-CACGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
*
92433 ATTGCACCGTAGTGCCGCGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
*
92456 ATTGCACTGTAGTGCC
1 ATTGCACCGTAGTGCC
92472 CTATAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (23 bp):
ATTGCACCGTAGTGCCACGTAGA
Found at i:93063 original size:21 final size:21
Alignment explanation
Indices: 93037--93087 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
93027 GATTTCATAT
93037 ATTTACCTAATTACAAAGCTA
1 ATTTACCTAATTACAAAGCTA
93058 ATTTACCTAATTACAAAGCTA
1 ATTTACCTAATTACAAAGCTA
*
93079 ATTCACCTA
1 ATTTACCTA
93088 TACATGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (21 bp):
ATTTACCTAATTACAAAGCTA
Found at i:100577 original size:126 final size:125
Alignment explanation
Indices: 100353--100578 Score: 285
Period size: 125 Copynumber: 1.8 Consensus size: 125
100343 ATGATTTCAA
* * * **
100353 TATAGTCACATGCTGTTAACATTTAACAGAAGTGCTTACGTGACAGTTGAAAAATTGGTATAATT
1 TATAATCACATGCTGTTAACATTTAACAGAAGTACTTACGTGACAGTTAAAAAATTAATATAATT
* *
100418 AAGGCATGGGTCATTGTAAAGTTACGTGTTTGCGGTGCTGAAACCCTACTTTGGTTTTAG
66 AAGGCATGAGTCATTGTAAAGTTACGTATTTGCGGTGCTGAAACCCTACTTTGGTTTTAG
* * * *
100478 TATAATCACCTGCTGTTAACATTTAACGGAAGTATTTATGT-AGCAGTTAATAAAATTAATATAA
1 TATAATCACATGCTGTTAACATTTAACAGAAGTACTTACGTGA-CAGTTAA-AAAATTAATATAA
* * *
100542 TTAGGGCGTGAGTCCTTGTAACA-TTACGTATTTGCGG
64 TTAAGGCATGAGTCATTGTAA-AGTTACGTATTTGCGG
100579 CGCTAGAACC
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
124 1 0.01
125 41 0.49
126 41 0.49
127 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (125 bp):
TATAATCACATGCTGTTAACATTTAACAGAAGTACTTACGTGACAGTTAAAAAATTAATATAATT
AAGGCATGAGTCATTGTAAAGTTACGTATTTGCGGTGCTGAAACCCTACTTTGGTTTTAG
Found at i:100589 original size:126 final size:125
Alignment explanation
Indices: 100353--100582 Score: 284
Period size: 126 Copynumber: 1.8 Consensus size: 125
100343 ATGATTTCAA
* * * **
100353 TATAGTCACATGCTGTTAACATTTAACAGAAGTGCTTACGTGACAGTTGAAAAATTGGTATAATT
1 TATAATCACATGCTGTTAACATTTAACAGAAGTACTTACGTGACAGTTAAAAAATTAATATAATT
* * *
100418 AAGGCATGGGTCATTGTAAAGTTACGTGTTTGCGGTGCTGAAACCCTACTTTGGTTTTAG
66 AAGGCATGAGTCATTGTAAAGTTACGTATTTGCGGCGCTGAAACCCTACTTTGGTTTTAG
* * * *
100478 TATAATCACCTGCTGTTAACATTTAACGGAAGTATTTATGT-AGCAGTTAATAAAATTAATATAA
1 TATAATCACATGCTGTTAACATTTAACAGAAGTACTTACGTGA-CAGTTAA-AAAATTAATATAA
* * *
100542 TTAGGGCGTGAGTCCTTGTAACA-TTACGTATTTGCGGCGCT
64 TTAAGGCATGAGTCATTGTAA-AGTTACGTATTTGCGGCGCT
100583 AGAACCCAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
124 1 0.01
125 41 0.47
126 44 0.51
127 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (125 bp):
TATAATCACATGCTGTTAACATTTAACAGAAGTACTTACGTGACAGTTAAAAAATTAATATAATT
AAGGCATGAGTCATTGTAAAGTTACGTATTTGCGGCGCTGAAACCCTACTTTGGTTTTAG
Found at i:106898 original size:20 final size:20
Alignment explanation
Indices: 106870--106923 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
106860 CTTCATAGTA
106870 GTATCGGTACTACCTTGATG
1 GTATCGGTACTACCTTGATG
*
106890 GTATTGGTACTACCTTGATG
1 GTATCGGTACTACCTTGATG
106910 GTATCGGTACTACC
1 GTATCGGTACTACC
106924 CTTGCCTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
GTATCGGTACTACCTTGATG
Found at i:109605 original size:21 final size:21
Alignment explanation
Indices: 109580--109632 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
109570 AGAATAGGAA
109580 GTATCGGTACTCCTTCATAGG
1 GTATCGGTACTCCTTCATAGG
*
109601 GTATCGATACTCCTTCATAGG
1 GTATCGGTACTCCTTCATAGG
109622 GTATCGGTACT
1 GTATCGGTACT
109633 ACATTTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
GTATCGGTACTCCTTCATAGG
Found at i:109813 original size:20 final size:20
Alignment explanation
Indices: 109784--109879 Score: 70
Period size: 20 Copynumber: 4.5 Consensus size: 20
109774 CTTCATGGTA
* *
109784 GTATCAATACTACCTTCATG
1 GTATCGATACTACATTCATG
* *
109804 GTATCGATACTACCTTTGCCTAAG
1 GTATCGATACTA-CATT--C-ATG
*
109828 GTATCGATACTACATGT-AGG
1 GTATCGATACTACAT-TCATG
109848 GTATCGATACT-CATTCATGTG
1 GTATCGATACTACATTCA--TG
109869 GTATCGATACT
1 GTATCGATACT
109880 GCAAAGAACA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 4 0.06
20 24 0.39
21 15 0.24
23 3 0.05
24 15 0.24
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
GTATCGATACTACATTCATG
Found at i:109873 original size:21 final size:19
Alignment explanation
Indices: 109826--109879 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
109816 CCTTTGCCTA
109826 AGGTATCGATACTACATGT
1 AGGTATCGATACTACATGT
109845 AGGGTATCGATACTCATTCATGT
1 A-GGTATCGATACT-A--CATGT
109868 -GGTATCGATACT
1 AGGTATCGATACT
109880 GCAAAGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 13 0.42
23 5 0.16
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (19 bp):
AGGTATCGATACTACATGT
Found at i:110628 original size:16 final size:16
Alignment explanation
Indices: 110607--110637 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110597 GAGATTATTT
110607 CACACACACGCACACG
1 CACACACACGCACACG
110623 CACACACACGCACAC
1 CACACACACGCACAC
110638 ACATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.52, G:0.10, T:0.00
Consensus pattern (16 bp):
CACACACACGCACACG
Found at i:110630 original size:10 final size:10
Alignment explanation
Indices: 110607--110640 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
110597 GAGATTATTT
* *
110607 CACACACACG
1 CACACGCACA
110617 CACACGCACA
1 CACACGCACA
110627 CACACGCACA
1 CACACGCACA
110637 CACA
1 CACA
110641 TATATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.50, G:0.09, T:0.00
Consensus pattern (10 bp):
CACACGCACA
Found at i:112049 original size:2 final size:2
Alignment explanation
Indices: 112042--112101 Score: 59
Period size: 2 Copynumber: 30.0 Consensus size: 2
112032 CTATAATTTA
* * *
112042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GAA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* *
112085 A- AT TT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
112102 GTGTGAAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117583 original size:71 final size:71
Alignment explanation
Indices: 117440--117576 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 71
117430 ATCATGCAGA
*
117440 ATGCGAAGATGCAAATGCAGATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAAT
1 ATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAAT
117505 GCAAAG
66 GCAAAG
* * * * *
117511 ATGCAAAGATGCAAATGCATATGCAAAATTGATTATCCTCTGAAATGCAATGCATCATGCAGAAT
1 ATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAAT
117576 G
66 G
117577 TTAAGATACA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (71 bp):
ATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAAT
GCAAAG
Found at i:117610 original size:71 final size:71
Alignment explanation
Indices: 117445--117608 Score: 215
Period size: 71 Copynumber: 2.3 Consensus size: 71
117435 GCAGAATGCG
*
117445 AAGATGCAAATGCAGATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAATGCAAA
1 AAGATGCAAATGCAAATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAATGCAAA
*
117510 GATGCA
66 GATACA
* * * * * **
117516 AAGATGCAAATGCATATGCAAAATTGATTATCCTCTGAAATGCAATGCATCATGCAGAATGTTAA
1 AAGATGCAAATGCAAATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAATGCAAA
117581 GATAC-
66 GATACA
*
117586 AA-ATGCAGATGCAAAATGCAAAA
1 AAGATGCAAATGC-AAATGCAAAA
117609 ATGCAAATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
69 9 0.11
70 11 0.13
71 62 0.76
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (71 bp):
AAGATGCAAATGCAAATGCAAAATTGATGATCCTATGAAATACAATGCATCACGCAGAATGCAAA
GATACA
Found at i:119802 original size:30 final size:31
Alignment explanation
Indices: 119728--119821 Score: 120
Period size: 31 Copynumber: 3.1 Consensus size: 31
119718 ACGTGAACGT
* * *
119728 AAAGAATTAAAATAACAAAAACAT-GAATTCA
1 AAAGACTTAAAATAGCAAAAACATAAAATT-A
119759 AAAGACTTAAAATAGCAAAAACATAAAATTA
1 AAAGACTTAAAATAGCAAAAACATAAAATTA
* *
119790 AATGAC-TAAAATAGCAATAACATAAAATTA
1 AAAGACTTAAAATAGCAAAAACATAAAATTA
119820 AA
1 AA
119822 GGGCTAAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
30 25 0.44
31 28 0.49
32 4 0.07
ACGTcount: A:0.64, C:0.10, G:0.06, T:0.20
Consensus pattern (31 bp):
AAAGACTTAAAATAGCAAAAACATAAAATTA
Found at i:119829 original size:30 final size:30
Alignment explanation
Indices: 119735--119829 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 30
119725 CGTAAAGAAT
* * *
119735 TAAAATAACAAAAACAT-GAATTCAAAAGAC
1 TAAAATAGCAAAAACATAAAATT-AAAGGAC
*
119765 TTAAAATAGCAAAAACATAAAATTAAATGAC
1 -TAAAATAGCAAAAACATAAAATTAAAGGAC
* *
119796 TAAAATAGCAATAACATAAAATTAAAGGGC
1 TAAAATAGCAAAAACATAAAATTAAAGGAC
119826 TAAA
1 TAAA
119830 TCACAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 31 0.54
31 22 0.39
32 4 0.07
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.20
Consensus pattern (30 bp):
TAAAATAGCAAAAACATAAAATTAAAGGAC
Found at i:121008 original size:18 final size:18
Alignment explanation
Indices: 120965--121011 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
120955 GTGAAGAAGC
*
120965 GTTCGGCAGTGCTAAGGT
1 GTTCGGCGGTGCTAAGGT
*
120983 GTTCGGCGGTGCTGAGGT
1 GTTCGGCGGTGCTAAGGT
*
121001 GTTTGGCGGTG
1 GTTCGGCGGTG
121012 TTGGAAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.09, C:0.15, G:0.47, T:0.30
Consensus pattern (18 bp):
GTTCGGCGGTGCTAAGGT
Found at i:121262 original size:3 final size:3
Alignment explanation
Indices: 121242--121294 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
121232 GCAAAATTTG
* * * *
121242 TAA TAA TAT TAA -AT TAA TAA TAA TAA TAA TAA TAT TAA TAT TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
121290 TAA TA
1 TAA TA
121295 TTTTTTTGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.03
3 36 0.90
4 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:131693 original size:14 final size:12
Alignment explanation
Indices: 131668--131715 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
131658 AAATTTTGGC
131668 TTTTTTTGTTTT
1 TTTTTTTGTTTT
**
131680 TTTTTTTG--GC
1 TTTTTTTGTTTT
131690 TTTTTTTG-TTT
1 TTTTTTTGTTTT
131701 TTTTTTTGTTTT
1 TTTTTTTGTTTT
131713 TTT
1 TTT
131716 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.27
11 8 0.27
12 14 0.47
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:131715 original size:22 final size:22
Alignment explanation
Indices: 131661--131707 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
131651 TTTTTTGAAA
131661 TTTTGGCTTTTTTTGTTTTTTT
1 TTTTGGCTTTTTTTGTTTTTTT
131683 TTTTGGCTTTTTTTGTTTTTTT
1 TTTTGGCTTTTTTTGTTTTTTT
131705 TTT
1 TTT
131708 GTTTTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (22 bp):
TTTTGGCTTTTTTTGTTTTTTT
Found at i:132609 original size:20 final size:20
Alignment explanation
Indices: 132566--132611 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
132556 CAACCTTAAT
132566 TCCTAAAAATAATAAATCTGA
1 TCCTAAAAATAATAAATC-GA
*
132587 TCCTAAAAGATAATTAATC-A
1 TCCTAAAA-ATAATAAATCGA
132607 TCCTA
1 TCCTA
132612 TATTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 9 0.39
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (20 bp):
TCCTAAAAATAATAAATCGA
Found at i:134705 original size:12 final size:13
Alignment explanation
Indices: 134690--134718 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
134680 TATTAAGTAA
134690 TTAATATTTT-TT
1 TTAATATTTTATT
134702 TTAATATTTTATT
1 TTAATATTTTATT
134715 TTAA
1 TTAA
134719 AAAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAATATTTTATT
Found at i:138135 original size:20 final size:18
Alignment explanation
Indices: 138097--138135 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
138087 AAAGTATAAA
*
138097 TTTTAATATTTATATTAT
1 TTTTAATATTTAGATTAT
138115 TTTTAATAGTTTAGGATTAT
1 TTTTAATA-TTTA-GATTAT
138135 T
1 T
138136 ACAATATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTAATATTTAGATTAT
Done.