Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008594.1 Hibiscus syriacus cultivar Beakdansim tig00111543_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: 1173925
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2906 original size:35 final size:35
Alignment explanation
Indices: 2860--2929 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
2850 AACATATTCA
2860 AAATCAAATACAATCGGAATTGAGATAGTATGCAG
1 AAATCAAATACAATCGGAATTGAGATAGTATGCAG
2895 AAATCAAATACAATCGGAATTGAGATAGTATGCAG
1 AAATCAAATACAATCGGAATTGAGATAGTATGCAG
2930 TGAGATTCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (35 bp):
AAATCAAATACAATCGGAATTGAGATAGTATGCAG
Found at i:2959 original size:32 final size:32
Alignment explanation
Indices: 2918--2985 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
2908 TCGGAATTGA
*
2918 GATAGTATGCAGTGAGATTCTGGGAGGAGTGT
1 GATAGTATGCAGTGAGATTCCGGGAGGAGTGT
2950 GATAGTATGCAGTGAGATTCCGGGAGGAGTGT
1 GATAGTATGCAGTGAGATTCCGGGAGGAGTGT
2982 GATA
1 GATA
2986 CAATATTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.26, C:0.07, G:0.40, T:0.26
Consensus pattern (32 bp):
GATAGTATGCAGTGAGATTCCGGGAGGAGTGT
Found at i:13156 original size:96 final size:96
Alignment explanation
Indices: 13038--13226 Score: 211
Period size: 96 Copynumber: 2.0 Consensus size: 96
13028 AGTAGTAACT
* * * * *
13038 AGTAGGTTCCAAGTTCCATAAATCAGGAACA-ATCATATTTTCCAATGAAAACATGAAACCATAT
1 AGTAGATTCCAAGATCCATAAATAAGGAA-ATATCATATTTTCCAATGAAAACAGGAAACCAGAT
* *
13102 TACATATTTC-AGGTAACCATAGTTCATAAACC
65 AACATA-TACAAGGTAACCATAGTTCATAAACC
* * * * * *
13134 AGTAGATTCCATGATCCTTAAATAATGAAATTTTATATTTTCCAATGAAAACAGGTAACCAGATA
1 AGTAGATTCCAAGATCCATAAATAAGGAAATATCATATTTTCCAATGAAAACAGGAAACCAGATA
* *
13199 ACATATACAATGTAGCCATAGTTCATAA
66 ACATATACAAGGTAACCATAGTTCATAA
13227 GTCTGTAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
95 3 0.04
96 73 0.96
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (96 bp):
AGTAGATTCCAAGATCCATAAATAAGGAAATATCATATTTTCCAATGAAAACAGGAAACCAGATA
ACATATACAAGGTAACCATAGTTCATAAACC
Found at i:13776 original size:11 final size:11
Alignment explanation
Indices: 13760--13786 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13750 TACTTCACTA
13760 TTATTCACTTT
1 TTATTCACTTT
13771 TTATTCACTTT
1 TTATTCACTTT
13782 TTATT
1 TTATT
13787 ACTGAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTCACTTT
Found at i:15239 original size:15 final size:14
Alignment explanation
Indices: 15204--15240 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15194 AAGTCAACGG
*
15204 GTTGACTTGGATGA
1 GTTGACTCGGATGA
15218 GTTGACTCGGATGA
1 GTTGACTCGGATGA
15232 GTTTGACTC
1 G-TTGACTC
15241 AGTTTGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.19, C:0.14, G:0.32, T:0.35
Consensus pattern (14 bp):
GTTGACTCGGATGA
Found at i:24976 original size:20 final size:20
Alignment explanation
Indices: 24951--25003 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
24941 ACAAGGGTTT
* *
24951 TGTTTACTTTCCTTATAACA
1 TGTTTAATTTCCTTAGAACA
24971 TGTTTAATTTTCCTTAGAACA
1 TGTTTAA-TTTCCTTAGAACA
24992 TGTTTAATTTCC
1 TGTTTAATTTCC
25004 ACCATACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.51
Consensus pattern (20 bp):
TGTTTAATTTCCTTAGAACA
Found at i:31212 original size:20 final size:21
Alignment explanation
Indices: 31161--31213 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
31151 ATGCGTATTA
*
31161 AAATTTCTGAACTTCCTTTTT
1 AAATTTCTGATCTTCCTTTTT
31182 AAATTTCTGATCTTCCTTTTT
1 AAATTTCTGATCTTCCTTTTT
31203 AAATTT-TGATC
1 AAATTTCTGATC
31214 CGCGATGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (21 bp):
AAATTTCTGATCTTCCTTTTT
Found at i:32404 original size:21 final size:21
Alignment explanation
Indices: 32380--32420 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32370 TCGGAAAATG
32380 TTTTCT-GAAAAGTAAATTTTA
1 TTTTCTGGAAAA-TAAATTTTA
32401 TTTTCTGGAAAATAAATTTT
1 TTTTCTGGAAAATAAATTTT
32421 CAAAAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTCTGGAAAATAAATTTTA
Found at i:35746 original size:20 final size:20
Alignment explanation
Indices: 35721--35793 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
35711 GTACTTAAAC
35721 GAGTATCAATACCATGAGTA
1 GAGTATCAATACCATGAGTA
35741 GAGTATCAATACCATGAGTA
1 GAGTATCAATACCATGAGTA
* *
35761 GAGTATCAATACCCTAAGTGA
1 GAGTATCAATACCATGAGT-A
*
35782 GAGTATCGATAC
1 GAGTATCAATAC
35794 TGAGCTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 37 0.76
21 12 0.24
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (20 bp):
GAGTATCAATACCATGAGTA
Found at i:41436 original size:23 final size:23
Alignment explanation
Indices: 41406--41451 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
41396 GACTATATAT
* *
41406 ATGTCCCGAAGGACCTCGTAGAA
1 ATGTCCCGAAGGAACACGTAGAA
41429 ATGTCCCGAAGGAACACGTAGAA
1 ATGTCCCGAAGGAACACGTAGAA
41452 CCCTCGACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (23 bp):
ATGTCCCGAAGGAACACGTAGAA
Found at i:41576 original size:15 final size:15
Alignment explanation
Indices: 41535--41581 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
41525 GCTCTCACAA
41535 CTTATT-TCACATAG
1 CTTATTATCACATAG
*
41549 -GTATGTAATCACATAG
1 CTTAT-T-ATCACATAG
41565 CTTATTATCACATAG
1 CTTATTATCACATAG
41580 CT
1 CT
41582 CATGTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.11
14 1 0.04
15 11 0.41
16 9 0.33
17 3 0.11
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (15 bp):
CTTATTATCACATAG
Found at i:41630 original size:14 final size:14
Alignment explanation
Indices: 41556--41630 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
41546 TAGGTATGTA
*
41556 ATCACATAGCTTATT
1 ATCACATAGCTCA-T
41571 ATCACATAGCTCAT
1 ATCACATAGCTCAT
* *
41585 GTCACAT-TCTCAT
1 ATCACATAGCTCAT
* *
41598 ATGGTCACATAGATTAT
1 A---TCACATAGCTCAT
*
41615 ATCACATAGCTGAT
1 ATCACATAGCTCAT
41629 AT
1 AT
41631 ATTGTTCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
13 5 0.11
14 20 0.43
15 12 0.26
16 6 0.13
17 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (14 bp):
ATCACATAGCTCAT
Found at i:51218 original size:33 final size:34
Alignment explanation
Indices: 51181--51251 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
51171 ACCTTACAAC
*
51181 TCCCTAG-TTTTTCACGGG-TTAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGCTT-AACTAGAACCTT
* *
51214 TCCCTAGCTTTTACAGGGGCTTAACTAGAACTTT
1 TCCCTAGCTTTTACACGGGCTTAACTAGAACCTT
51248 TCCC
1 TCCC
51252 CTTTACAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 24 0.73
35 2 0.06
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGCTTAACTAGAACCTT
Found at i:51711 original size:21 final size:21
Alignment explanation
Indices: 51645--51765 Score: 106
Period size: 21 Copynumber: 5.7 Consensus size: 21
51635 TCGAAATGGA
*
51645 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCACAG
* *
51665 GTGCATCGATGCACTAATG-GCAG
1 GTGCATGGATGCAC---TGCACAG
51688 GTGCATGGATGCACTGCACAG
1 GTGCATGGATGCACTGCACAG
* * **
51709 GTGCATGGATGAACTACAGGG
1 GTGCATGGATGCACTGCACAG
51730 GTGCATGGATGCACT--ACAGG
1 GTGCATGGATGCACTGCACA-G
51750 AGTGCATGGATGCACT
1 -GTGCATGGATGCACT
51766 TTGACACCCT
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.01
20 16 0.20
21 49 0.60
23 16 0.20
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (21 bp):
GTGCATGGATGCACTGCACAG
Found at i:51755 original size:42 final size:41
Alignment explanation
Indices: 51639--51761 Score: 135
Period size: 42 Copynumber: 2.9 Consensus size: 41
51629 TTGCATTCGA
* * *
51639 AATGGA-GTGCATGGATGCACTGCATGGTGCATCGATGCACT
1 AATGGAGGTGCATGGATGCACTACA-GGTGCATGGATGAACT
51680 AATGGCAGGTGCATGGATGCACTGCACAGGTGCATGGATGAACT
1 AATGG-AGGTGCATGGATGCACT--ACAGGTGCATGGATGAACT
51724 ACA-GG-GGTGCATGGATGCACTACAGGAGTGCATGGATG
1 A-ATGGAGGTGCATGGATGCACTACA-G-GTGCATGGATG
51762 CACTTTGACA
Statistics
Matches: 72, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
40 3 0.04
41 6 0.08
42 28 0.39
43 15 0.21
44 17 0.24
45 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (41 bp):
AATGGAGGTGCATGGATGCACTACAGGTGCATGGATGAACT
Found at i:54093 original size:34 final size:33
Alignment explanation
Indices: 54044--54109 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
54034 CTTACAACTT
*
54044 CCTAGTTTTTCACGGG-TTAAACTAGAACCTTTC
1 CCTAGTTTTACACGGGCTT-AACTAGAACCTTTC
*
54077 CCTAGCTTTTACACGGGCTTAGCTAGAACCTTT
1 CCTAG-TTTTACACGGGCTTAACTAGAACCTTT
54110 TCCCCTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 22 0.76
35 2 0.07
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (33 bp):
CCTAGTTTTACACGGGCTTAACTAGAACCTTTC
Found at i:54599 original size:21 final size:21
Alignment explanation
Indices: 54530--54650 Score: 147
Period size: 21 Copynumber: 5.7 Consensus size: 21
54520 TCGAAATAGA
*
54530 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
* * * *
54550 GTACATCGATGCACT-AATGGAAA
1 GTGCATGGATGCACTGCA-GG--G
54573 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
54594 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
*
54615 GTGCATGGATGCACTGCAGGA
1 GTGCATGGATGCACTGCAGGG
54636 GTGCATGGATGCACT
1 GTGCATGGATGCACT
54651 TTGACACCCT
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
19 1 0.01
20 13 0.15
21 56 0.65
23 15 0.17
24 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:55627 original size:64 final size:63
Alignment explanation
Indices: 55559--55739 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
55549 TTGGAACACT
* ***
55559 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
55623 TGATGCATCGATGCATGGCTTGTGCATCGATGCATTAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
55687 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
55740 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:55711 original size:19 final size:19
Alignment explanation
Indices: 55687--55737 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
55677 GAAAATATTC
55687 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
55706 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
55725 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
55738 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:55713 original size:65 final size:65
Alignment explanation
Indices: 55580--55739 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
55570 TGCACCAAGT
* ***
55580 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
55644 GTGCATCGATGCATTAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
55708 A
65 A
* *
55709 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
55740 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:55779 original size:65 final size:64
Alignment explanation
Indices: 55581--55788 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 64
55571 GCACCAAGTG
* * * * *
55581 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTGATGCATCGATGCATGGCTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCATGATGCATCGATGCATGAC-TG
55645 -
64 A
* * *
55645 TGCATCGATGCATTAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCATGA-TGCATCGATGCAT-GACT
55707 GA
63 GA
* *
55709 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA-TGATGCATCGATGCATG-AC
55772 TGA
62 TGA
55775 TGCATCGGTGCATG
1 TGCATCGGTGCATG
55789 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
62 3 0.02
63 9 0.07
64 43 0.35
65 63 0.51
66 5 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCATGATGCATCGATGCATGACTGA
Found at i:64210 original size:64 final size:63
Alignment explanation
Indices: 64142--64322 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
64132 TTGGAACACT
* ***
64142 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
64206 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * *
64270 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGTATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
64323 CAATTAATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
64 54 0.55
65 44 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:64294 original size:19 final size:19
Alignment explanation
Indices: 64270--64308 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
64260 GAAAATATTC
64270 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
64289 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
64308 A
1 A
64309 ATGTATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:64296 original size:65 final size:65
Alignment explanation
Indices: 64163--64322 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
64153 TGCACCAAGT
* ***
64163 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
64227 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
64291 A
65 A
* * *
64292 GTGCATCGGTGCATGGAATGTATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
64323 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.45
65 46 0.55
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:65949 original size:11 final size:11
Alignment explanation
Indices: 65920--65957 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
65910 ACTTTAGCAT
65920 TTTTAGAATTA
1 TTTTAGAATTA
*
65931 TATTTAGATTTA
1 T-TTTAGAATTA
65943 TTTTAGAA-TA
1 TTTTAGAATTA
65953 TTTTA
1 TTTTA
65958 CATCATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.29
11 7 0.29
12 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTTTAGAATTA
Found at i:69100 original size:21 final size:21
Alignment explanation
Indices: 69071--69110 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
69061 TTAATGAAGT
69071 AAATATATAAGAAAATAAAACG
1 AAATATATAA-AAAATAAAACG
*
69093 AAAT-TATAAAAATTAAAA
1 AAATATATAAAAAATAAAA
69111 ACATGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATATATAAAAAATAAAACG
Found at i:71252 original size:50 final size:49
Alignment explanation
Indices: 71189--71362 Score: 213
Period size: 50 Copynumber: 3.5 Consensus size: 49
71179 TAAAATATTG
* * *
71189 GGAGATGTGCATACTTACACCGGTGTAAATATGTGTTTATTTTTAGGTT
1 GGAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAGGTT
* * * *
71238 GAGAGATGTACATACTTACACCGATATGAGTATATGTTTATTTTTAGGCTG
1 G-GAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAGG-TT
* * *
71289 GGAGATGTACATACTTATACTGGTATAAATATATGTTTATTTTTAGATTT
1 GGAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAG-GTT
* *
71339 GGAGATGTATATACTTACATCGGT
1 GGAGATGTACATACTTACACCGGT
71363 GTAAGTATGT
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 101 0.97
51 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (49 bp):
GGAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAGGTT
Found at i:71370 original size:100 final size:100
Alignment explanation
Indices: 71187--71375 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 100
71177 TCTAAAATAT
* * *
71187 TGGGAGATGTGCATACTTACACCGGTGTAAATATGTGTTTATTTTTAGGTTGAGAGATGTACATA
1 TGGGAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAGGTTGAGAGATGTACATA
*
71252 CTTACACCGATATGAGTATATGTTTATTTTTAGGC
66 CTTACACCGATATAAGTATATGTTTATTTTTAGGC
* * * *
71287 TGGGAGATGTACATACTTATACTGGTATAAATATATGTTTATTTTTAGATTTG-GAGATGTATAT
1 TGGGAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAG-GTTGAGAGATGTACAT
* * * *
71351 ACTTACATCGGTGTAAGTATGTGTT
65 ACTTACACCGATATAAGTATATGTT
71376 AATTGTTAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
100 73 0.96
101 3 0.04
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (100 bp):
TGGGAGATGTACATACTTACACCGGTATAAATATATGTTTATTTTTAGGTTGAGAGATGTACATA
CTTACACCGATATAAGTATATGTTTATTTTTAGGC
Found at i:72381 original size:30 final size:30
Alignment explanation
Indices: 72342--72399 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
72332 TAACATGTAA
*
72342 TTAATATAATTATTATATTAAATTTATATTT
1 TTAATATAATTATCATATT-AATTTATATTT
*
72373 TTAA-ATAATTATCATATTTATTTATAT
1 TTAATATAATTATCATATTAATTTATAT
72400 AAAATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 13 0.52
31 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TTAATATAATTATCATATTAATTTATATTT
Found at i:72517 original size:18 final size:18
Alignment explanation
Indices: 72489--72529 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
72479 AAACTCAAAA
72489 TTTTA-AATAATTAT-ATT
1 TTTTACAATAA-TATCATT
72506 TTTTACAATAATATCATT
1 TTTTACAATAATATCATT
72524 TTTTAC
1 TTTTAC
72530 CTCATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTACAATAATATCATT
Found at i:76061 original size:13 final size:14
Alignment explanation
Indices: 76033--76091 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
76023 CAAGCTAAAT
*
76033 AATAAAAACAATTA
1 AATACAAACAATTA
76047 AATACAAAC-ATTA
1 AATACAAACAATTA
*
76060 AATACAAACTA-TA
1 AATACAAACAATTA
* *
76073 CAATTCAAATAATTA
1 -AATACAAACAATTA
76088 AATA
1 AATA
76092 ATAAAAACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 15 0.41
14 20 0.54
15 2 0.05
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (14 bp):
AATACAAACAATTA
Found at i:76574 original size:21 final size:21
Alignment explanation
Indices: 76550--76639 Score: 117
Period size: 21 Copynumber: 4.3 Consensus size: 21
76540 CCTACGGTAA
* *
76550 TGGCATCTGAACCGGTTGTAG
1 TGGCATCTGAAACGGATGTAG
*
76571 TGGCATCTGAAATGGATGTAG
1 TGGCATCTGAAACGGATGTAG
* * *
76592 TGGCATCTGAACCGGTTGTGG
1 TGGCATCTGAAACGGATGTAG
*
76613 TGGCATCTGAAATGGATGTAG
1 TGGCATCTGAAACGGATGTAG
76634 TGGCAT
1 TGGCAT
76640 TTGGGCCGAC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.29
Consensus pattern (21 bp):
TGGCATCTGAAACGGATGTAG
Found at i:76609 original size:42 final size:42
Alignment explanation
Indices: 76550--76639 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
76540 CCTACGGTAA
76550 TGGCATCTGAACCGGTTGTAGTGGCATCTGAAATGGATGTAG
1 TGGCATCTGAACCGGTTGTAGTGGCATCTGAAATGGATGTAG
*
76592 TGGCATCTGAACCGGTTGTGGTGGCATCTGAAATGGATGTAG
1 TGGCATCTGAACCGGTTGTAGTGGCATCTGAAATGGATGTAG
76634 TGGCAT
1 TGGCAT
76640 TTGGGCCGAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.29
Consensus pattern (42 bp):
TGGCATCTGAACCGGTTGTAGTGGCATCTGAAATGGATGTAG
Found at i:76657 original size:42 final size:42
Alignment explanation
Indices: 76570--76669 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
76560 ACCGGTTGTA
** **
76570 GTGGCATCTGAAATGGATGTAGTGGCATCTGAACCGGTTGTG
1 GTGGCATCTGAAATGGATGTAGTGGCATCTGAACCGACTACG
* **
76612 GTGGCATCTGAAATGGATGTAGTGGCATTTGGGCCGACTACG
1 GTGGCATCTGAAATGGATGTAGTGGCATCTGAACCGACTACG
*
76654 GTGGCATCTAAAATGG
1 GTGGCATCTGAAATGG
76670 TTGTGAAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (42 bp):
GTGGCATCTGAAATGGATGTAGTGGCATCTGAACCGACTACG
Found at i:77250 original size:22 final size:24
Alignment explanation
Indices: 77198--77254 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
77188 CTATTGAAAC
*
77198 TAAAAATAAATATATATAATTCTTA
1 TAAAAAT-AATATATATAATTCATA
* *
77223 TCAAAATAATAT-TTTAATT-ATA
1 TAAAAATAATATATATAATTCATA
77245 TAAAAATAAT
1 TAAAAATAAT
77255 TAAAGGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 11 0.39
23 6 0.21
24 5 0.18
25 6 0.21
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAAATAATATATATAATTCATA
Found at i:82207 original size:111 final size:111
Alignment explanation
Indices: 82065--82389 Score: 614
Period size: 111 Copynumber: 2.9 Consensus size: 111
82055 ATTACAAAAA
*
82065 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
82130 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
82176 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
82241 AATTAAAACATTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
82287 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
82352 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
82390 AGAAATATAT
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 208 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:82794 original size:50 final size:50
Alignment explanation
Indices: 82686--82796 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 50
82676 ATAGCACGGA
* ** * * * * *
82686 TCAAGGGACGCGCTATACCCACGTGGTGCTAGATCACCGTATATCGCGGG
1 TCAAGGGGCGCGCTATACCCACGTGGCACCAAATCAACGTATAGCGCGAG
* * *
82736 ACAGGGGGCGCGCTATACCCACGTGGCACCAAATCAACGTATAGCGCGAT
1 TCAAGGGGCGCGCTATACCCACGTGGCACCAAATCAACGTATAGCGCGAG
82786 TCAAGGGGCGC
1 TCAAGGGGCGC
82797 ACTTTACTAC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.16
Consensus pattern (50 bp):
TCAAGGGGCGCGCTATACCCACGTGGCACCAAATCAACGTATAGCGCGAG
Found at i:84015 original size:18 final size:18
Alignment explanation
Indices: 83992--84031 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
83982 ATTAAATCCG
83992 ATAAAATGTAA-AAAAATA
1 ATAAAAT-TAATAAAAATA
84010 ATAAAATTAATAAAAATA
1 ATAAAATTAATAAAAATA
84028 ATAA
1 ATAA
84032 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
ATAAAATTAATAAAAATA
Found at i:90965 original size:31 final size:31
Alignment explanation
Indices: 90927--91033 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 31
90917 AACGTCAACC
90927 GATCAATTTATTATAATTCAATAATATTAGT
1 GATCAATTTATTATAATTCAATAATATTAGT
* ** * ** *
90958 GATCAATTTGTTATTTTTAAAACTTAAGTGAGAACT
1 GATCAATTTATTATAATT-CAA--TAA-T-ATTAGT
* *
90994 GATCAATTTATTATAAATCAATATTATTAGT
1 GATCAATTTATTATAATTCAATAATATTAGT
91025 GATCAATTT
1 GATCAATTT
91034 GTTACTTTTA
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
31 27 0.49
32 3 0.05
33 2 0.04
34 3 0.05
35 3 0.05
36 17 0.31
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (31 bp):
GATCAATTTATTATAATTCAATAATATTAGT
Found at i:91002 original size:67 final size:67
Alignment explanation
Indices: 90927--91058 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 67
90917 AACGTCAACC
* *
90927 GATCAATTTATTATAATTCAATAATATTAGTGATCAATTTGTTATTTTTAAAACTTAAGTGAGAA
1 GATCAATTTATTATAAATCAATAATATTAGTGATCAATTTGTTACTTTTAAAACTTAAGTGAGAA
90992 CT
66 CT
* * *
90994 GATCAATTTATTATAAATCAATATTATTAGTGATCAATTTGTTACTTTTAAAATTTCAGTGAGAA
1 GATCAATTTATTATAAATCAATAATATTAGTGATCAATTTGTTACTTTTAAAACTTAAGTGAGAA
91059 AAAACAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (67 bp):
GATCAATTTATTATAAATCAATAATATTAGTGATCAATTTGTTACTTTTAAAACTTAAGTGAGAA
CT
Found at i:92121 original size:37 final size:37
Alignment explanation
Indices: 92037--92121 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 37
92027 ATTAAACTTT
92037 TTTTATAATTTTAATTTTATAAAAAAATTATATAAATA
1 TTTTATAA-TTTAATTTTATAAAAAAATTATATAAATA
* * *
92075 --TTACGAATTTAATTTTTTGAAGAAAA-TATATAAATA
1 TTTTA-TAATTTAATTTTAT-AAAAAAATTATATAAATA
92111 TTTTATAATTT
1 TTTTATAATTT
92122 GTAATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
36 23 0.59
37 13 0.33
38 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (37 bp):
TTTTATAATTTAATTTTATAAAAAAATTATATAAATA
Found at i:92433 original size:52 final size:52
Alignment explanation
Indices: 92355--92460 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
92345 TATCGTTATT
92355 AATTATTATATTTGATATAAAGCTGTTTTTAATATTTTAGTTTACCTTTAAC
1 AATTATTATATTTGATATAAAGCTGTTTTTAATATTTTAGTTTACCTTTAAC
92407 AATTATTATATTTGATATAAAGCTGTTTTTAATATTTTAGTTTACCTTTAAC
1 AATTATTATATTTGATATAAAGCTGTTTTTAATATTTTAGTTTACCTTTAAC
92459 AA
1 AA
92461 AGCCTCTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (52 bp):
AATTATTATATTTGATATAAAGCTGTTTTTAATATTTTAGTTTACCTTTAAC
Found at i:92993 original size:72 final size:72
Alignment explanation
Indices: 92896--93032 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
92886 TTTTGAGTGG
* * * * *
92896 AGCTTGAAACTTTTAATCTCGTGAGCTTTCGAGTGGAGTCGAGCTTCAATTTTTTATTTCGAATT
1 AGCTTGAAAATTTTAATCTCGTGAGCTTACGAGTCGAGTCGAACTTCAATTTTTTATTTCAAATT
92961 TAAGCCA
66 TAAGCCA
*
92968 AGCTTGAAAATTTT-ATGCTCTTGAGCTTACGAGTCGAGTCGAACTTCAATTTTTTATTTCAAAT
1 AGCTTGAAAATTTTAAT-CTCGTGAGCTTACGAGTCGAGTCGAACTTCAATTTTTTATTTCAAAT
93032 T
65 T
93033 CAAGTTTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 2 0.03
72 56 0.97
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (72 bp):
AGCTTGAAAATTTTAATCTCGTGAGCTTACGAGTCGAGTCGAACTTCAATTTTTTATTTCAAATT
TAAGCCA
Found at i:93602 original size:23 final size:23
Alignment explanation
Indices: 93567--93625 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
93557 ATCAAGAACA
* *
93567 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
93590 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
93613 ATAATGTAATAGG
1 ATAATATAATAGG
93626 CATTTAACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:93687 original size:87 final size:87
Alignment explanation
Indices: 93539--93701 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
93529 AATGTTATAT
*
93539 CATTTAATCGGAAATATTATCAAGAACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
1 CATTTAACCGGAAATATTATCAAGAACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
93604 AGCGCTTATATAATGTAATAGG
66 AGCGCTTATATAATGTAATAGG
* * *
93626 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGAACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
93691 AGCGCTTATAT
66 AGCGCTTATAT
93702 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGAACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
AGCGCTTATATAATGTAATAGG
Found at i:98657 original size:4 final size:4
Alignment explanation
Indices: 98648--99744 Score: 2094
Period size: 4 Copynumber: 277.2 Consensus size: 4
98638 AATGTCCTTT
98648 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98696 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98744 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98792 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98840 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98888 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98936 CATA CATA -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
98983 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99031 C-TA CAT- -ATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99075 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99123 CATA CATA CATAA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA
99172 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99219 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99266 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99314 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99362 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99410 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99458 CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99504 -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99551 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99599 CATA CATA CATA CATA CATA CATA -ATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99646 CATA CATA CATA CATA -ATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99693 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
99740 CATA C
1 CATA C
99745 CAATCTCTTA
Statistics
Matches: 1079, Mismatches: 0, Indels: 28
0.97 0.00 0.03
Matches are distributed among these distances:
2 4 0.00
3 27 0.03
4 1044 0.97
5 4 0.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:100976 original size:33 final size:33
Alignment explanation
Indices: 100939--101004 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
100929 CATCTTAAGA
* *
100939 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCATCAACACCTCAACTTCTTTCACCACT
*
100972 TCACCCATCAACACCTCTACTTCTTTCACCACT
1 TCACCCATCAACACCTCAACTTCTTTCACCACT
101005 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCATCAACACCTCAACTTCTTTCACCACT
Found at i:101062 original size:21 final size:21
Alignment explanation
Indices: 101038--101081 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
101028 CCCCTTATGC
101038 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
101059 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
101080 CT
1 CT
101082 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:101186 original size:15 final size:15
Alignment explanation
Indices: 101166--101194 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101156 CTGTTTTCCC
101166 TCACCGTCATCCCCT
1 TCACCGTCATCCCCT
101181 TCACCGTCATCCCC
1 TCACCGTCATCCCC
101195 CAATACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.55, G:0.07, T:0.24
Consensus pattern (15 bp):
TCACCGTCATCCCCT
Found at i:103378 original size:19 final size:20
Alignment explanation
Indices: 103331--103384 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
103321 GATAGCGCTT
103331 TACCGGTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
103351 TACCGGTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
103371 TA-CGGTTTTATCAT
1 TACCGGTTTTATCAT
103385 ATTTTTACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 12 0.35
20 22 0.65
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (20 bp):
TACCGGTTTTATCATTTTGA
Found at i:110645 original size:30 final size:30
Alignment explanation
Indices: 110611--110831 Score: 153
Period size: 30 Copynumber: 7.2 Consensus size: 30
110601 TTTATGATTG
110611 AGTCCTTTAAATGTT-TGTTTTTACTATTTT
1 AGTCCTTTAAAT-TTCTGTTTTTACTATTTT
* * ** *
110641 AGTCCTTTAAATTTTTGTATTTGTTATTGT
1 AGTCCTTTAAATTTCTGTTTTTACTATTTT
* * * *
110671 GGTCCTTTAACTTTCTGTATTTAC-AATTT
1 AGTCCTTTAAATTTCTGTTTTTACTATTTT
* *
110700 AGCTTAGCATTTTAACTTTCTGTTTTT-CTATTTT
1 AG--T--C-CTTTAAATTTCTGTTTTTACTATTTT
* * * *
110734 AATCCTTTAACTTTCTATTTTTATTATTTT
1 AGTCCTTTAAATTTCTGTTTTTACTATTTT
* * ** *
110764 AGTCATTTAATTTTCTGTTTTTGTTGTTTT
1 AGTCCTTTAAATTTCTGTTTTTACTATTTT
*
110794 AGTCCTGTAAATTTCTGTTTATTACTA-TTT
1 AGTCCTTTAAATTTCTGTTT-TTACTATTTT
110824 AGTTCCTT
1 AG-TCCTT
110832 ATTTTATTAA
Statistics
Matches: 149, Mismatches: 32, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
29 22 0.15
30 95 0.64
31 8 0.05
32 1 0.01
33 2 0.01
34 21 0.14
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.59
Consensus pattern (30 bp):
AGTCCTTTAAATTTCTGTTTTTACTATTTT
Found at i:114793 original size:2 final size:2
Alignment explanation
Indices: 114786--114830 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
114776 TATAGCCATA
114786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114828 AT A
1 AT A
114831 CAATAAAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116734 original size:63 final size:66
Alignment explanation
Indices: 116661--116783 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
116651 GTCTGTCTCT
* *
116661 CTTGAGACAGTTTTTCTTG-AA-ATA-ATCTTTGAGTCTGTTTCATTTGAAACAAATCTTGTTTC
1 CTTGAGACAGTTTCTCATGAAACATATATCTTTGAGTCTGTTTCATTTGAAACAAATCTTGTTTC
116723 C
66 C
* *
116724 CTTGAGACAGTTTCTCATGAAACATATATCTTTGAGTCTGTTTCTTTTGAAATAAATCTT
1 CTTGAGACAGTTTCTCATGAAACATATATCTTTGAGTCTGTTTCATTTGAAACAAATCTT
116784 TGAGTCAGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 17 0.32
64 2 0.04
65 3 0.06
66 31 0.58
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (66 bp):
CTTGAGACAGTTTCTCATGAAACATATATCTTTGAGTCTGTTTCATTTGAAACAAATCTTGTTTC
C
Found at i:116767 original size:30 final size:28
Alignment explanation
Indices: 116725--116797 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
116715 CTTGTTTCCC
* *
116725 TTGAGACAGTTTCTCATGAAACATATATCT
1 TTGAGTCAGTTTCTCATG-AA-ATAAATCT
* **
116755 TTGAGTCTGTTTCTTTTGAAATAAATCT
1 TTGAGTCAGTTTCTCATGAAATAAATCT
116783 TTGAGTCAGTTTCTC
1 TTGAGTCAGTTTCTC
116798 TTAAAACCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 20 0.56
29 2 0.06
30 14 0.39
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (28 bp):
TTGAGTCAGTTTCTCATGAAATAAATCT
Found at i:116892 original size:40 final size:42
Alignment explanation
Indices: 116827--117065 Score: 166
Period size: 43 Copynumber: 5.6 Consensus size: 42
116817 AGATGGTCAG
* * *
116827 CCATACTCATCACGTAGGAATCGTGTCATCCCT-CGACCAGA
1 CCATCCTCATCACGTAGGAACCGTGTCATCCCTAAGACCAGA
* * *
116868 CC-TCCTCATCACGTAGGAGCCGTGTCAACCCTATATAACCAG-
1 CCATCCTCATCACGTAGGAACCGTGTCATCCCTA-A-GACCAGA
* * * *
116910 CCATCCTCATCACGTAGGAACTGTGTTATCATCCTAAAGATGGCATA
1 CCATCCTCATCACGTAGGAACCGTGTCATC--CCT-AAGA--CCAGA
* * * *
116957 CCGTCCTCATCACGTAGGAACTGTGTCATTCAT-AGACCAGA
1 CCATCCTCATCACGTAGGAACCGTGTCATCCCTAAGACCAGA
* * * *
116998 CC-TCCTCATCACATAGGAGCCGTGTCACCCCTAGATTACCAG-
1 CCATCCTCATCACGTAGGAACCGTGTCATCCCTA-A-GACCAGA
* * *
117040 TCATCCTCATCGCGTAGGAACTGTGT
1 CCATCCTCATCACGTAGGAACCGTGT
117066 TATCACCCCT
Statistics
Matches: 153, Mismatches: 31, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
40 50 0.33
41 7 0.05
42 4 0.03
43 55 0.36
44 1 0.01
45 6 0.04
46 3 0.02
47 27 0.18
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (42 bp):
CCATCCTCATCACGTAGGAACCGTGTCATCCCTAAGACCAGA
Found at i:116923 original size:43 final size:40
Alignment explanation
Indices: 116824--116935 Score: 118
Period size: 40 Copynumber: 2.7 Consensus size: 40
116814 TAAAGATGGT
* * * *
116824 CAGCCATACTCATCACGTAGGAATCGTGTCATCCCTCGAC
1 CAGCCATCCTCATCACGTAGGAACCGTGTCAACCCTCAAC
* *
116864 CAGACC-TCCTCATCACGTAGGAGCCGTGTCAACCCTATATAAC
1 CAG-CCATCCTCATCACGTAGGAACCGTGTCAACCC--T-CAAC
*
116907 CAGCCATCCTCATCACGTAGGAACTGTGT
1 CAGCCATCCTCATCACGTAGGAACCGTGT
116936 TATCATCCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 28 0.47
41 2 0.03
42 3 0.05
43 26 0.44
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (40 bp):
CAGCCATCCTCATCACGTAGGAACCGTGTCAACCCTCAAC
Found at i:117045 original size:130 final size:131
Alignment explanation
Indices: 116832--117160 Score: 412
Period size: 130 Copynumber: 2.5 Consensus size: 131
116822 GTCAGCCATA
* *
116832 CTCATCACGTAGGAA-TCGTGTCATCCCTCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAA
1 CTCATCACGTAGGAACT-GTGTCATCCATCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAC
* * *
116896 CCCTATATAACCAGCCATCCTCATCACGTAGGAACTGTGTTATCA-TCCTAAAGATGG-CATACC
65 CCCTAGATAACCAGCCATCCTCATCACGTAGGAACTGTGTTATCACTCCTAAAGATGGCCAGAAC
116959 GTC
130 -TC
* * *
116962 CTCATCACGTAGGAACTGTGTCATTCATAGACCAGACCTCCTCATCACATAGGAGCCGTGTCACC
1 CTCATCACGTAGGAACTGTGTCATCCATCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCACC
* * *
117027 CCTAGATTACCAGTCATCCTCATCGCGTAGGAACTGTGTTATCACCCCTTCCTAAAGATGGCCAG
66 CCTAGATAACCAGCCATCCTCATCACGTAGGAACTGTGTTATCA---C-TCCTAAAGATGGCCAG
117092 AACTC
127 AACTC
* * * * * * **
117097 TTCATCACGTATGAGCAGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAATCGTGTCAC
1 CTCATCACGTAGGAACTGTGTCATCCATCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAC
117161 TTTTAAACGA
Statistics
Matches: 170, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
130 98 0.58
131 1 0.01
135 67 0.39
136 4 0.02
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (131 bp):
CTCATCACGTAGGAACTGTGTCATCCATCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCACC
CCTAGATAACCAGCCATCCTCATCACGTAGGAACTGTGTTATCACTCCTAAAGATGGCCAGAACT
C
Found at i:117143 original size:40 final size:41
Alignment explanation
Indices: 117088--117200 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 41
117078 CTAAAGATGG
* * *
117088 CCAGAACTCTTCATCACGTATGAGCAGTGTCA-TCCACCGA
1 CCAGATCTCTTCATCACGTATGAGCAGTGTCATTCAAACGA
* * * *
117128 CCAGATCTCCTCATCACGTAGGAATC-GTGTCACTTTTAAACGA
1 CCAGATCTCTTCATCACGTATG-AGCAGTGTCA--TTCAAACGA
*
117171 CCAGATCTCTTCATCACGTATGAGTAGTGT
1 CCAGATCTCTTCATCACGTATGAGCAGTGT
117201 GGACTCCAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
40 25 0.44
41 2 0.04
42 1 0.02
43 29 0.51
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (41 bp):
CCAGATCTCTTCATCACGTATGAGCAGTGTCATTCAAACGA
Found at i:117372 original size:3 final size:3
Alignment explanation
Indices: 117364--117392 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
117354 AATATTATAA
117364 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
117393 ATTTACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:119069 original size:29 final size:30
Alignment explanation
Indices: 119037--119096 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
119027 ATATTTACAG
119037 TTTAGCCCTTTAACTTTCTATTTTT-TTAT
1 TTTAGCCCTTTAACTTTCTATTTTTATTAT
*
119066 TTTAGTCCTTTAACTTTCTATTTTTATTAT
1 TTTAGCCCTTTAACTTTCTATTTTTATTAT
119096 T
1 T
119097 ATTTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTAGCCCTTTAACTTTCTATTTTTATTAT
Found at i:119106 original size:29 final size:28
Alignment explanation
Indices: 119045--119128 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
119035 AGTTTAGCCC
*
119045 TTTAACTTTCTATTTTTTTATTTTAGTCC
1 TTTAACTTTCTATTTTTTTATTTTA-TCA
*
119074 TTTAACTTTCTATTTTTATTATTATT-TTA
1 TTTAACTTTCTATTTTT-TTATT-TTATCA
* * *
119103 TTTAATTTTGTGTTTTTGTTATTTTA
1 TTTAACTTTCTATTTTT-TTATTTTA
119129 GTCCTGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.04
29 37 0.80
30 5 0.11
31 2 0.04
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (28 bp):
TTTAACTTTCTATTTTTTTATTTTATCA
Found at i:121816 original size:14 final size:14
Alignment explanation
Indices: 121797--121826 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
121787 ACTCCTCCTC
121797 AAGTTGGGAAGTGA
1 AAGTTGGGAAGTGA
121811 AAGTTGGGAAGTGA
1 AAGTTGGGAAGTGA
121825 AA
1 AA
121827 TACATCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (14 bp):
AAGTTGGGAAGTGA
Found at i:126793 original size:4 final size:4
Alignment explanation
Indices: 126784--126818 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
126774 ACGTAAAATT
126784 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TATTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT
126819 ATTATTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:128024 original size:10 final size:10
Alignment explanation
Indices: 127995--128027 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
127985 GACCGACATG
*
127995 TCAACCCATC
1 TCAACCCATT
128005 TCAACCCATT
1 TCAACCCATT
128015 TCAACCCATT
1 TCAACCCATT
128025 TCA
1 TCA
128028 TGTATCTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.30, C:0.42, G:0.00, T:0.27
Consensus pattern (10 bp):
TCAACCCATT
Found at i:135386 original size:164 final size:164
Alignment explanation
Indices: 135109--135437 Score: 473
Period size: 164 Copynumber: 2.0 Consensus size: 164
135099 GGATGTTAGT
* *
135109 TGAAAGGTCTAATGAAAAATCTACTATAGGTACTAAATGCGTATTTAGGAATAAATTAGATGAAA
1 TGAAAGGCCTAATGAAAAACCTACTATAGGTACTAAATGCGTATTTAGGAATAAATTAGATGAAA
* * * * * * *
135174 GTGGTAACATCATGAAGAACAAGGTTGGACTTGTTGCTCAAGGGTATACTTAAGAAGAAGGAATA
66 GTGATAACATCATGAAGAAAAAGGCTAGACTTGTTGCTCAAAGGTATACTAAAGAAAAAGGAATA
* *
135239 TATTTTGATGAAACTTATGCACCCGTAGCTAGGA
131 GAATTTGATGAAACTTATGCACCCGTAGCTAGGA
* * *
135273 TGAAAGGCCTAGTGACAAACCTACTATGGGTACTAAATGTC-TATTTAGGAATAAATTAGATGAA
1 TGAAAGGCCTAATGAAAAACCTACTATAGGTACTAAATG-CGTATTTAGGAATAAATTAGATGAA
* *
135337 AGTGATAACAT-AGTGAGGAAAAAGGCTAGACTTGTTGCTCAAAGGTATACTAAAGAAAAATGAA
65 AGTGATAACATCA-TGAAGAAAAAGGCTAGACTTGTTGCTCAAAGGTATACTAAAGAAAAAGGAA
*
135401 TAGAATTTGATGAAACTTATGCGCCCGTAGCTAGGA
129 TAGAATTTGATGAAACTTATGCACCCGTAGCTAGGA
135437 T
1 T
135438 AGAGTCAATT
Statistics
Matches: 146, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
163 1 0.01
164 144 0.99
165 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (164 bp):
TGAAAGGCCTAATGAAAAACCTACTATAGGTACTAAATGCGTATTTAGGAATAAATTAGATGAAA
GTGATAACATCATGAAGAAAAAGGCTAGACTTGTTGCTCAAAGGTATACTAAAGAAAAAGGAATA
GAATTTGATGAAACTTATGCACCCGTAGCTAGGA
Found at i:138203 original size:82 final size:82
Alignment explanation
Indices: 137870--138205 Score: 377
Period size: 83 Copynumber: 4.1 Consensus size: 82
137860 TTTTCCCATT
* * * ** * *** *
137870 TTCAGAGAATATTTGTCATGTCATAGTGTTCTTTCCCATCCAAAATGAAGGGCGCGCTCCAAGGG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCAAAATGAAAGGC-ATTTCCAGGGG
*
137935 AAACATTTTCCATTATTA
65 AAGCATTTTCCATTATTA
* * * *
137953 TTCAGAGAATCTCTGCCATGTCGTAGTGTTTCATCCAATCCAAAATGAAAGGCGTATTCCAGGGG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCAAAATGAAAGGCAT-TTCCAGGGG
*
138018 AAGTATTTTCCATTATTA
65 AAGCATTTTCCATTATTA
* * * * * *
138036 TTTAGAGAATATTTGCCATGTCATAGTGTTCCATCCCATCCGAAATAAAAGACGATTTCCAGGGG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCAAAATGAAAGGC-ATTTCCAGGGG
138101 AAGCATTTTCCATTATTA
65 AAGCATTTTCCATTATTA
* * * *
138119 TTCAGAGAATCTCTGCCGTGTCATTGTGTTCCA-CCCATCCAAAATGAAAGGCATGTTCTAGTGG
1 TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCAAAATGAAAGGCAT-TTCCAGGGG
**
138183 AAGCATTTTTTATTATTA
65 AAGCATTTTCCATTATTA
138201 TTCAG
1 TTCAG
138206 CTCATCCGAA
Statistics
Matches: 212, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
81 2 0.01
82 44 0.21
83 165 0.78
84 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (82 bp):
TTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCAAAATGAAAGGCATTTCCAGGGGA
AGCATTTTCCATTATTA
Found at i:138238 original size:54 final size:54
Alignment explanation
Indices: 138154--138256 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
138144 GTGTTCCACC
* * * **
138154 CATCCAAAATGAAAGGCATGTTCTAGTGGAAGCATTTTTTATTATTATTCAGCT
1 CATCCAAAATGAAAGGCACGTTCCAATGGAAGCATTTTCCATTATTATTCAGCT
* *
138208 CATCCGAAATGAAAGGCGCGTTCCAATGGAAGCATTTTCCATTATTATT
1 CATCCAAAATGAAAGGCACGTTCCAATGGAAGCATTTTCCATTATTATT
138257 TAGAGAATCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (54 bp):
CATCCAAAATGAAAGGCACGTTCCAATGGAAGCATTTTCCATTATTATTCAGCT
Found at i:138345 original size:83 final size:83
Alignment explanation
Indices: 138208--138389 Score: 256
Period size: 83 Copynumber: 2.2 Consensus size: 83
138198 TTATTCAGCT
* * * * * *
138208 CATCCGAAATGAAAGGCGCGTTCCAATGGAAGCATTTTCCATTATTATTTAGAGAATCTATGTCA
1 CATCCGAAATGAAAGACGCATTCCAAGGGAAGCATTTTCCATTATTATTAAGAGAATATATATCA
*
138273 TTTCATAGTGTTCCATCC
66 TGTCATAGTGTTCCATCC
* *
138291 CATCTGAAATGAAAGATGCATTCCAAGGGAAGCATTTTCCATTATTATTAAGAGAATATATATCA
1 CATCCGAAATGAAAGACGCATTCCAAGGGAAGCATTTTCCATTATTATTAAGAGAATATATATCA
*
138356 TGTCATAGTGTTCCATCT
66 TGTCATAGTGTTCCATCC
*
138374 CATCCAAAAATGAAAG
1 CATCC-GAAATGAAAG
138390 GGGCGTGTTC
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 77 0.90
84 9 0.10
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (83 bp):
CATCCGAAATGAAAGACGCATTCCAAGGGAAGCATTTTCCATTATTATTAAGAGAATATATATCA
TGTCATAGTGTTCCATCC
Found at i:141963 original size:21 final size:21
Alignment explanation
Indices: 141937--141981 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
141927 ATAAAAATTT
141937 AAAAAA-TAACACCCTTTCAAA
1 AAAAAATTAACACCCTTT-AAA
*
141958 AAAAAATTGACACCCTTTAAA
1 AAAAAATTAACACCCTTTAAA
141979 AAA
1 AAA
141982 TGGGTCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.58, C:0.20, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATTAACACCCTTTAAA
Found at i:144698 original size:45 final size:45
Alignment explanation
Indices: 144660--144931 Score: 304
Period size: 45 Copynumber: 6.0 Consensus size: 45
144650 ATGCATTTTA
* *
144660 AATTCTAACAT-CTTTTCTGTTGATAATGCACCCATATGCATTTC
1 AATTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * *
144704 AACTATAGTATAC-TTTCATGTTGATAATGTACCCATATACATTTC
1 AATTCTAGCATACTTTTC-TGTTGATAATGCACCCATATACATTTC
* * * *
144749 AA-CCATAGTATACTTTTATGTTGATAATGTACCCATATACATTTC
1 AATTC-TAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * *
144794 AA-CCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTC
1 AATTC-TAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * *
144839 AACTCTAGCATACTTTTCTGTTGACAATGCACCCATATTTCATTTC
1 AATTCTAGCATACTTTTCTGTTGATAATGCACCCATA-TACATTTC
144885 AACTT-TAGCATACTTTTCTGTTGATAATGCACCCATATGA-ATTTC
1 AA-TTCTAGCATACTTTTCTGTTGATAATGCACCCATAT-ACATTTC
144930 AA
1 AA
144932 ATATGGCATC
Statistics
Matches: 202, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
44 11 0.05
45 146 0.72
46 44 0.22
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (45 bp):
AATTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
Found at i:144784 original size:90 final size:90
Alignment explanation
Indices: 144663--144931 Score: 375
Period size: 90 Copynumber: 3.0 Consensus size: 90
144653 CATTTTAAAT
* *
144663 TCTAACAT-CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC-TTTCATGTT
1 TCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTC-TGTT
144726 GATAATGTACCCATATACATTTCAAC
65 GATAATGTACCCATATACATTTCAAC
* * * *
144752 -CATAGTATACTTTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTGTT
1 TC-TAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTT
144816 GATAATGTACCCATATACATTTCAAC
65 GATAATGTACCCATATACATTTCAAC
* * * *
144842 TCTAGCATACTTTTCTGTTGACAATGCACCCATATTTCATTTCAACTTTAGCATACTTTTCTGTT
1 TCTAGCATACTTTTCTGTTGATAATGCACCCATA-TACATTTCAACTATAGTATACTTTTCTGTT
*
144907 GATAATGCACCCATATGA-ATTTCAA
65 GATAATGTACCCATAT-ACATTTCAA
144932 ATATGGCATC
Statistics
Matches: 159, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
88 1 0.01
89 4 0.03
90 100 0.63
91 53 0.33
92 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (90 bp):
TCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTG
ATAATGTACCCATATACATTTCAAC
Found at i:144873 original size:135 final size:136
Alignment explanation
Indices: 144671--144931 Score: 375
Period size: 135 Copynumber: 1.9 Consensus size: 136
144661 ATTCTAACAT
* * * *
144671 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTCATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTTGACAATGCAC
* *
144736 CCATA-TACATTTCAACCATAGTATACTTTTATGTTGATAATGTACCCATAT-ACATTTCAACCA
66 CCATATTACATTTCAACCATAGCATACTTTTATGTTGATAATGCACCCATATGA-ATTTCAACCA
144799 TAGTATA
130 TAGTATA
* *
144806 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCATACTTTTC-TGTTGACAATGCA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-TTTCATGTTGACAATGCA
* ** *
144870 CCCATATTTCATTTCAACTTTAGCATACTTTTCTGTTGATAATGCACCCATATGAATTTCAA
65 CCCATATTACATTTCAACCATAGCATACTTTTATGTTGATAATGCACCCATATGAATTTCAA
144932 ATATGGCATC
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
135 59 0.53
136 51 0.46
137 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.40
Consensus pattern (136 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTTGACAATGCAC
CCATATTACATTTCAACCATAGCATACTTTTATGTTGATAATGCACCCATATGAATTTCAACCAT
AGTATA
Found at i:144959 original size:91 final size:90
Alignment explanation
Indices: 144668--144972 Score: 348
Period size: 90 Copynumber: 3.4 Consensus size: 90
144658 TAAATTCTAA
* *
144668 CATCTTTTC-TGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC-TTTCATGTTGATAA
1 CATCCTTTCATGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTC-TGTTGATAA
*
144731 TGTACCCATATACATTTCAACCATAG
65 TGTACCCATATACATTTCAACTATAG
* * * * *
144757 TATACTTTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTGTTGATAAT
1 CATCCTTTCATGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAAT
*
144822 GTACCCATATACATTTCAACTCTAG
66 GTACCCATATACATTTCAACTATAG
* * * * *
144847 CATACTTTTC-TGTTGACAATGCACCCATATTTCATTTCAACTTTAGCATACTTTTCTGTTGATA
1 CAT-CCTTTCATGTTGATAATGCACCCATA-TACATTTCAACTATAGTATACTTTTCTGTTGATA
* * *
144911 ATGCACCCATATGA-ATTTCAAATATGG
64 ATGTACCCATAT-ACATTTCAACTATAG
*** * *
144938 CATCCTTTCATGCCAATAATGCATCCATATGCATT
1 CATCCTTTCATGTTGATAATGCACCCATATACATT
144973 ATTCTTTTAC
Statistics
Matches: 180, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
89 5 0.03
90 99 0.55
91 75 0.42
92 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (90 bp):
CATCCTTTCATGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAAT
GTACCCATATACATTTCAACTATAG
Found at i:148433 original size:17 final size:17
Alignment explanation
Indices: 148413--148449 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
148403 ATTATGAAAC
148413 AAATAAAATAAAATTTA
1 AAATAAAATAAAATTTA
* *
148430 AAATTAAATTAAATTTA
1 AAATAAAATAAAATTTA
148447 AAA
1 AAA
148450 ATATGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAATAAAATTTA
Found at i:150443 original size:18 final size:18
Alignment explanation
Indices: 150420--150468 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
150410 CCACTATGAA
150420 ATGTCCCGAAGGACAACT
1 ATGTCCCGAAGGACAACT
*
150438 ATGTCCCGAAGGACCACT
1 ATGTCCCGAAGGACAACT
150456 ATGTCCCGAAGGA
1 ATGTCCCGAAGGA
150469 TCACGTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (18 bp):
ATGTCCCGAAGGACAACT
Found at i:154791 original size:18 final size:18
Alignment explanation
Indices: 154768--154802 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
154758 CCACTATGAA
*
154768 ATGTCCCGAAGGACCACT
1 ATGTCCCAAAGGACCACT
154786 ATGTCCCAAAGGACCAC
1 ATGTCCCAAAGGACCAC
154803 GTAGAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (18 bp):
ATGTCCCAAAGGACCACT
Found at i:160962 original size:32 final size:32
Alignment explanation
Indices: 160924--160991 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
160914 CCTTTGATAT
160924 TTGGGAAAATATACTATTCCAAGCCGCTAATA
1 TTGGGAAAATATACTATTCCAAGCCGCTAATA
160956 TTGGGAAAATATACTATTCCAAGCCGCTAATA
1 TTGGGAAAATATACTATTCCAAGCCGCTAATA
160988 TTGG
1 TTGG
160992 ACTCCTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (32 bp):
TTGGGAAAATATACTATTCCAAGCCGCTAATA
Found at i:162090 original size:161 final size:161
Alignment explanation
Indices: 161824--162146 Score: 603
Period size: 161 Copynumber: 2.0 Consensus size: 161
161814 ATATATTGAA
161824 AATACCCCCAACACCTTTCCAAAGCTGAAAACTCAAAATCACAAGTCTCAAAATTCTTAACAAAC
1 AATACCCCCAACACCTTTCCAAAGCTGAAAACTCAAAATCACAAGTCTC-AAATTCTTAACAAAC
*
161889 AGAAAGAAGGCAAATGTGGACCCTTGCAGATGAGCTTACCCTCTCACCATCCTACCAACCAAAAG
65 AGAAAGAAGGCAAAAGTGGACCCTTGCAGATGAGCTTACCCTCTCACCATCCTACCAACCAAAAG
161954 CACCTGAAAGGAACTACACAACTGCATGAGAT
130 CACCTGAAAGGAACTACACAACTGCATGAGAT
161986 AATACCCCCAACACCTTTTCCAAAGCTGAAAACTCAAAATCACAAGTCTC-AATTCTTAACAAAC
1 AATACCCCCAACACC-TTTCCAAAGCTGAAAACTCAAAATCACAAGTCTCAAATTCTTAACAAAC
*
162050 AGAAAGAAGGCAAAAGTGGACCCTTGCATATGAGCTTACCCTCTCACCATCCTACCAACCAAAAG
65 AGAAAGAAGGCAAAAGTGGACCCTTGCAGATGAGCTTACCCTCTCACCATCCTACCAACCAAAAG
162115 CACCTGAAAGGAACTACACAACTGCATGAGAT
130 CACCTGAAAGGAACTACACAACTGCATGAGAT
162147 TGTCATTGTG
Statistics
Matches: 158, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
161 109 0.69
162 15 0.09
163 34 0.22
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.18
Consensus pattern (161 bp):
AATACCCCCAACACCTTTCCAAAGCTGAAAACTCAAAATCACAAGTCTCAAATTCTTAACAAACA
GAAAGAAGGCAAAAGTGGACCCTTGCAGATGAGCTTACCCTCTCACCATCCTACCAACCAAAAGC
ACCTGAAAGGAACTACACAACTGCATGAGAT
Found at i:185323 original size:2 final size:2
Alignment explanation
Indices: 185316--185345 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
185306 TGATTTTCTG
185316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
185346 GTTTATCGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:190096 original size:20 final size:22
Alignment explanation
Indices: 190058--190098 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
190048 TATATAAAAT
*
190058 TATATATGTTCATCGATATAAG
1 TATATATGTTCATCAATATAAG
190080 TATATATG-TCAT-AATATAA
1 TATATATGTTCATCAATATAA
190099 CCATATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (22 bp):
TATATATGTTCATCAATATAAG
Found at i:190183 original size:23 final size:24
Alignment explanation
Indices: 190156--190200 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
190146 GCATAACTAA
190156 ATATAA-TAACTAATAAT-TAACTC
1 ATATAATTAA-TAATAATATAACTC
190179 ATATAATTAATAATAATATAAC
1 ATATAATTAATAATAATATAAC
190201 ATATGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATAATTAATAATAATATAACTC
Found at i:190210 original size:28 final size:25
Alignment explanation
Indices: 190155--190239 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 25
190145 CGCATAACTA
* *
190155 AATATAATAACTAATAAT-TAA-CT
1 AATATAATAAATAATAATATAATAT
* *
190178 CATATAATTAATAATAATATAACATAT
1 AATATAATAAATAATAATAT-A-ATAT
*
190205 GAATATAAAAAATAATAATATAATAT
1 -AATATAATAAATAATAATATAATAT
190231 AATATAATA
1 AATATAATA
190240 TATATACCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
23 15 0.31
24 1 0.02
25 9 0.18
26 5 0.10
27 2 0.04
28 17 0.35
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (25 bp):
AATATAATAAATAATAATATAATAT
Found at i:190229 original size:5 final size:5
Alignment explanation
Indices: 190179--190245 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
190169 TAATTAACTC
*
190179 ATATA AT-TA ATAATA ATATAA CATATGA ATATA A-AAA ATAATA ATATA
1 ATATA ATATA AT-ATA ATAT-A -ATAT-A ATATA ATATA AT-ATA ATATA
190227 ATATA ATATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA
190246 CCTATGTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
4 11 0.21
5 23 0.44
6 13 0.25
7 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:190234 original size:13 final size:13
Alignment explanation
Indices: 190155--190245 Score: 52
Period size: 13 Copynumber: 7.1 Consensus size: 13
190145 CGCATAACTA
190155 AATATAATAACTAAT
1 AATATAATAA-T-AT
*
190170 AAT-TAACTCATAT
1 AATATAA-TAATAT
190183 AAT-TAAT-A-AT
1 AATATAATAATAT
*
190193 AATATAA-CATAT
1 AATATAATAATAT
*
190205 GAATATAA-AAAAT
1 -AATATAATAATAT
190218 AATA-ATATAATAT
1 AATATA-ATAATAT
190231 AATATAATATATAT
1 AATATAATA-ATAT
190245 A
1 A
190246 CCTATGTAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.08
11 6 0.10
12 8 0.13
13 29 0.46
14 10 0.16
15 5 0.08
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:205447 original size:19 final size:19
Alignment explanation
Indices: 205423--205469 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
205413 GGCGAGATAA
205423 ATTTGTTCCTCACGTTCTC
1 ATTTGTTCCTCACGTTCTC
205442 ATTTGTTCCTCACGTTCTC
1 ATTTGTTCCTCACGTTCTC
*
205461 ATTTATTCC
1 ATTTGTTCC
205470 GTTGGCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.30, G:0.09, T:0.49
Consensus pattern (19 bp):
ATTTGTTCCTCACGTTCTC
Found at i:214514 original size:3 final size:3
Alignment explanation
Indices: 214506--214544 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
214496 TAAATTTCTA
*
214506 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
214545 AGGGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:223820 original size:19 final size:18
Alignment explanation
Indices: 223793--223830 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
223783 GTTGATTCAC
*
223793 AAGGTGGTCATAAAAGTGG
1 AAGGCGGTCATAAAA-TGG
223812 AAGGCGGTCATAAAATGG
1 AAGGCGGTCATAAAATGG
223830 A
1 A
223831 CAAGAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.39, C:0.08, G:0.34, T:0.18
Consensus pattern (18 bp):
AAGGCGGTCATAAAATGG
Found at i:233631 original size:8 final size:8
Alignment explanation
Indices: 233618--233673 Score: 63
Period size: 8 Copynumber: 7.9 Consensus size: 8
233608 AAAATGAGTG
233618 AAAATGAA
1 AAAATGAA
233626 AAAATGAA
1 AAAATGAA
233634 AAAAT--A
1 AAAATGAA
233640 AAAAT-AA
1 AAAATGAA
233647 AAAATG--
1 AAAATGAA
233653 --AATGAA
1 AAAATGAA
233659 AAAATGAA
1 AAAATGAA
233667 AAAATGA
1 AAAATGA
233674 GGGTTCAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.10
6 6 0.14
7 6 0.14
8 26 0.62
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (8 bp):
AAAATGAA
Found at i:233649 original size:39 final size:40
Alignment explanation
Indices: 233592--233673 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 40
233582 TTTGCTTGAA
* *
233592 GAAAAAAGAAGAAGAAAAAATGAGTG-AAAATGAAAAAAT
1 GAAAAAAGAAAAAGAAAAAATGAATGAAAAATGAAAAAAT
* *
233631 GAAAAAATAAAAATAAAAAATGAATGAAAAAATGAAAAAAT
1 GAAAAAAGAAAAAGAAAAAATGAATG-AAAAATGAAAAAAT
233672 GA
1 GA
233674 GGGTTCAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 22 0.59
41 15 0.41
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (40 bp):
GAAAAAAGAAAAAGAAAAAATGAATGAAAAATGAAAAAAT
Found at i:234850 original size:55 final size:55
Alignment explanation
Indices: 234681--235109 Score: 400
Period size: 55 Copynumber: 7.9 Consensus size: 55
234671 AATGATTATT
* * * * * **
234681 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGAA
* * * * * **
234736 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGAA
* *
234791 GAAGATTGTTCGAGTTTCATACTCCCT-AGAGAAAGAGAGAGCAAACCCGTTTGAA
1 GAAGATTGTTCGAGTTTCATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAA
* * *
234846 GAAGA-TATTCGAG-TTCTATTCTCCCTGAAGAAAGAGGGAGTGAACCCGTTT--A
1 GAAGATTGTTCGAGTTTC-ATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * ** * *
234898 -AAGA-CGTTCGAGTTCCACACTCCCTAGAA-AAAGAGGGAATGAACCCGCTTGCA
1 GAAGATTGTTCGAGTTTCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAA
*
234951 GAAGATTGTTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
235006 GAAGA-TGTTCGAG-TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTGTTCGAGTTTC-ATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* *
235060 GAAGATTATTCGAG-TTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGT
1 GAAGATTGTTCGAGTTTC-ATACTCCCTGAAGA-AAGAGGGAGCGAACCCGT
235110 CCCCAGAAGA
Statistics
Matches: 327, Mismatches: 33, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
51 36 0.11
52 6 0.02
53 6 0.02
54 91 0.28
55 187 0.57
56 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:235117 original size:55 final size:55
Alignment explanation
Indices: 234681--235163 Score: 390
Period size: 55 Copynumber: 8.9 Consensus size: 55
234671 AATGATTATT
* * * **
234681 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATT-GTT
1 GAAGATTGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCG-TTAGCA
* * * **
234736 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATT-GTT
1 GAAGATTGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCG-TTAGCA
* * * *
234791 GAAGATTGTTCGAGTT-TCATACTCCCT-AGAGAAAGAGAGAGCAAACCCGTTTGAA
1 GAAGATTGTTCGAGTTCT-ATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTAGCA
* * * *
234846 GAAGA-TATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGTGAACCCGTT--TA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCA
* * * **
234898 -AAGA-CGTTCGAGTTCCACACTCCCTAGAA-AAAGAGGGAATGAACCCGCTT-GCA
1 GAAGATTGTTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCG-TTAGCA
* * *
234951 GAAGATTGTTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCA
*
235006 GAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCA
* * ***
235060 GAAGATTATTCGAGTTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGTCCCCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGA-AAGAGGGAGCGAACCCGTTAGCA
* * ** * *
235115 GAAGATTCTTCAAGTTCTATGTTCCCTGAA-ACGATAGGGAGCGAACCCG
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGA-AAGAGGGAGCGAACCCG
235164 ATTTTGAAGA
Statistics
Matches: 374, Mismatches: 39, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
51 37 0.10
52 6 0.02
53 1 0.00
54 99 0.26
55 229 0.61
56 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCA
Found at i:235173 original size:109 final size:108
Alignment explanation
Indices: 234809--235161 Score: 294
Period size: 109 Copynumber: 3.3 Consensus size: 108
234799 TTCGAGTTTC
* * * * *
234809 ATACTCCCT-AGAGAAAGAGAGAGCAAACCCGTTTGA-AGAAGA-TATTCGAGTTCTATTCTCCC
1 ATACTCCCTGA-AGAAAGAGGGAGCGAACCAG-TT-ACAGAAGATTATTCGAGTTCCATACTCCC
* ** * *
234871 TGAAGAAAGAGGGAGTGAACCCGT--TTA-AAGA-CGTTCGAGTTCC
63 TGAAGAAAGAGGGAGCGAACCCGTCCCAAGAAGATC-TTCAAGTTCT
* ** * * *
234914 ACACTCCCTAGAA-AAAGAGGGAATGAACCCGCTTGCAGAAGATTGTTCGAGTTCCATACTCCCT
1 ATACTCCCT-GAAGAAAGAGGGAGCGAACCAG-TTACAGAAGATTATTCGAGTTCCATACTCCCT
*** * *
234978 GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
64 GAAGAAAGAGGGAGCGAACCCGTCCCAAGAAGATCTTCAAGTTCT
*
235023 ATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCAGAAGATTATTCGAGTTCTATACTCCCTG
1 ATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTA-CAGAAGATTATTCGAGTTCCATACTCCCTG
* *
235088 AA-ACAATAGGGAGCGAACCCGTCCCCAGAAGATTCTTCAAGTTCT
65 AAGA-AAGAGGGAGCGAACCCGTCCCAAGAAGA-TCTTCAAGTTCT
** * *
235133 ATGTTCCCTGAA-ACGATAGGGAGCGAACC
1 ATACTCCCTGAAGA-AAGAGGGAGCGAACC
235162 CGATTTTGAA
Statistics
Matches: 202, Mismatches: 33, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
105 30 0.15
106 41 0.20
107 1 0.00
108 7 0.03
109 90 0.45
110 33 0.16
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (108 bp):
ATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTACAGAAGATTATTCGAGTTCCATACTCCCTGA
AGAAAGAGGGAGCGAACCCGTCCCAAGAAGATCTTCAAGTTCT
Found at i:238843 original size:28 final size:28
Alignment explanation
Indices: 238807--238863 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
238797 AATTTGACAG
238807 AACTCGTATCAGGACGGACATGATGAAC
1 AACTCGTATCAGGACGGACATGATGAAC
238835 AACTCGTATCAGGACGGACATGATGAAC
1 AACTCGTATCAGGACGGACATGATGAAC
238863 A
1 A
238864 TGTAATGTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (28 bp):
AACTCGTATCAGGACGGACATGATGAAC
Found at i:240603 original size:3 final size:3
Alignment explanation
Indices: 240595--240662 Score: 77
Period size: 3 Copynumber: 22.0 Consensus size: 3
240585 ATATTACGTT
*
240595 TTA TTA TTA TTA TATA TGTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
240642 -TA TTA TATA TATA TT- TTA TTA
1 TTA TTA T-TA T-TA TTA TTA TTA
240663 GCTGTTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.07
3 42 0.72
4 12 0.21
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:240610 original size:23 final size:22
Alignment explanation
Indices: 240583--240662 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 22
240573 ATTTCTTTTA
240583 ATATATTACGTTTTATTATTATT
1 ATATATTA-GTTTTATTATTATT
240606 ATATA-T-GTTTTATTATTATT
1 ATATATTAGTTTTATTATTATT
240626 AT-TATTA-TTATTATTA-TATT
1 ATATATTAGTT-TTATTATTATT
240646 ATATATATA-TTTTATTA
1 ATATAT-TAGTTTTATTA
240663 GCTGTTATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.04
20 25 0.48
21 15 0.29
22 5 0.10
23 5 0.10
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (22 bp):
ATATATTAGTTTTATTATTATT
Found at i:241119 original size:14 final size:14
Alignment explanation
Indices: 241100--241159 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
241090 TTACTATTGT
241100 TTTCTTTTTTATTA
1 TTTCTTTTTTATTA
* *
241114 TTTCTTTATTCTTA
1 TTTCTTTTTTATTA
241128 TTTCTTTCTTTATACTTA
1 TTTC-TT-TTT-TA-TTA
241146 TTTCTTTCTTTATT
1 TTTCTTT-TTTATT
241160 TTTATCCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
14 16 0.43
15 4 0.11
16 5 0.14
17 5 0.14
18 7 0.19
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTTTTTTATTA
Found at i:241137 original size:18 final size:18
Alignment explanation
Indices: 241114--241164 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
241104 TTTTTTATTA
241114 TTTCTTTATTCTTATTTC
1 TTTCTTTATTCTTATTTC
*
241132 TTTCTTTATACTTATTTC
1 TTTCTTTATTCTTATTTC
*
241150 TTTCTTTATTTTTAT
1 TTTCTTTATTCTTAT
241165 CCTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTCTTTATTCTTATTTC
Found at i:241200 original size:21 final size:20
Alignment explanation
Indices: 241177--241214 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
241167 TTATTTTTGT
241177 TTTTATTTCT-GTTATTTTCC
1 TTTTATTT-TAGTTATTTTCC
241197 TTTTATTTTAGTTATTTT
1 TTTTATTTTAGTTATTTT
241215 ACTTACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTATTTTAGTTATTTTCC
Found at i:242383 original size:22 final size:22
Alignment explanation
Indices: 242340--242384 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
242330 ATCTTTTTTC
* *
242340 CTTTAATTTTTATTTTCTTTTA
1 CTTTAATTTTTATTATCATTTA
242362 CTTTATATTTTT-TTATCATTTA
1 CTTTA-ATTTTTATTATCATTTA
242384 C
1 C
242385 ATCATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (22 bp):
CTTTAATTTTTATTATCATTTA
Found at i:246012 original size:110 final size:110
Alignment explanation
Indices: 245866--246374 Score: 737
Period size: 110 Copynumber: 4.7 Consensus size: 110
245856 TCGAGAAAAG
* *
245866 CTGACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAAGGATA
1 CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATA
* *
245931 TTGGACTCGAGACAACAC-AGACCCAACTTCATAGCGAAGGGGAGA
66 TTGGACTCGAGACAACACAAG-CTCAACTTCACAGCGAAGGGGAGA
* * * *
245976 CTGAATGTCAACAAATAACTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAGTGAAGGATA
1 CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATA
*
246041 TTGGACTCGAGACAACACAAGCTCAACTTCACAGTGAA-GGGACGA
66 TTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGA-GA
* *
246086 CTGACTGTCAACAAACAACTTTTCAG-TT--TT---ATTCAATTTCAACTTCACAACGAAGGATA
1 CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATA
* * *
246145 TTGGAATCGAGACAACACAAGCTCAACTTCACAGAGAAGGGGCGA
66 TTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGAGA
*
246190 CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATA
1 CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATA
* * * *
246255 TTGGACCCGGGACAACAAAAGCTCAACTTCACAGCGAAGGGGCGA
66 TTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGAGA
* * *
246300 CTGACTGTTAACAAACAACTTTTTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATT
1 CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATA
*
246365 TTGAACTCGA
66 TTGGACTCGA
246375 AGCGAAAAAA
Statistics
Matches: 361, Mismatches: 29, Indels: 18
0.88 0.07 0.04
Matches are distributed among these distances:
104 90 0.25
105 5 0.01
107 4 0.01
109 6 0.02
110 254 0.70
111 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (110 bp):
CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATA
TTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGAGA
Found at i:246253 original size:214 final size:214
Alignment explanation
Indices: 245866--246334 Score: 670
Period size: 214 Copynumber: 2.2 Consensus size: 214
245856 TCGAGAAAAG
* * **
245866 CTGACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAAGGATA
1 CTGACTGTCAACAAACAACTTTTCAG-TT--TT---ATTCAATTTCAACTTCACAACGAAGGATA
* * * *
245931 TTGGACTCGAGACAACACAGACCCAACTTCATAGCGAAGGGGAGACTGAATGTCAACAAATAACT
60 TTGGAATCGAGACAACACAGACCCAACTTCACAGAGAAGGGGAGACTGAATGTCAACAAACAACT
** * *
245996 TTTCAATTTCATTCAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAA
125 TTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACCCGAGACAACAAAA
*
246061 GCTCAACTTCACAGTGAAGGGACGA
190 GCTCAACTTCACAGCGAAGGGACGA
246086 CTGACTGTCAACAAACAACTTTTCAGTTTTATTCAATTTCAACTTCACAACGAAGGATATTGGAA
1 CTGACTGTCAACAAACAACTTTTCAGTTTTATTCAATTTCAACTTCACAACGAAGGATATTGGAA
* * *
246151 TCGAGACAACACA-AGCTCAACTTCACAGAGAAGGGGCGACTGACTGTCAACAAACAACTTTTCA
66 TCGAGACAACACAGA-CCCAACTTCACAGAGAAGGGGAGACTGAATGTCAACAAACAACTTTTCA
* *
246215 GTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACCCGGGACAACAAAAGCTCA
130 ATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACCCGAGACAACAAAAGCTCA
*
246280 ACTTCACAGCGAAGGGGCGA
195 ACTTCACAGCGAAGGGACGA
* * *
246300 CTGACTGTTAACAAACAACTTTTTAGTTTCATTCA
1 CTGACTGTCAACAAACAACTTTTCAGTTTTATTCA
246335 GAGTCAATTT
Statistics
Matches: 226, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
213 1 0.00
214 196 0.87
217 2 0.01
219 2 0.01
220 25 0.11
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (214 bp):
CTGACTGTCAACAAACAACTTTTCAGTTTTATTCAATTTCAACTTCACAACGAAGGATATTGGAA
TCGAGACAACACAGACCCAACTTCACAGAGAAGGGGAGACTGAATGTCAACAAACAACTTTTCAA
TTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACCCGAGACAACAAAAGCTCAA
CTTCACAGCGAAGGGACGA
Found at i:249096 original size:2 final size:2
Alignment explanation
Indices: 249089--249119 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
249079 TACATTTTAT
249089 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
249120 TTACTATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:249149 original size:14 final size:14
Alignment explanation
Indices: 249130--249171 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
249120 TTACTATTGT
249130 TTTCTTTTTTATTA
1 TTTCTTTTTTATTA
249144 TTTC-TTTTTACTTA
1 TTTCTTTTTTA-TTA
*
249158 TTTTTTTCTTTATT
1 TTTCTTT-TTTATT
249172 TTTATCCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 4 0.17
16 4 0.17
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTTATTA
Found at i:249212 original size:20 final size:20
Alignment explanation
Indices: 249189--249226 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
249179 TTAATTTTGT
249189 TTTTA-TTTATGTTATTTTCC
1 TTTTATTTTA-GTTATTTTCC
249209 TTTTATTTTAGTTATTTT
1 TTTTATTTTAGTTATTTT
249227 ACTTACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTATTTTAGTTATTTTCC
Found at i:249266 original size:19 final size:22
Alignment explanation
Indices: 249233--249272 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
249223 TTTTACTTAC
249233 TTTATCTTTTGTTA-TTATTTT
1 TTTATCTTTTGTTATTTATTTT
249254 TTTAT-TTTT-TTATTTATTT
1 TTTATCTTTTGTTATTTATTT
249273 CATTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (22 bp):
TTTATCTTTTGTTATTTATTTT
Found at i:254355 original size:22 final size:23
Alignment explanation
Indices: 254330--254372 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
254320 TTATTTGCTA
254330 TTATTAATTAATAC-TATTAATG
1 TTATTAATTAATACTTATTAATG
* *
254352 TTATTATTTATTACTTATTAA
1 TTATTAATTAATACTTATTAA
254373 CTACTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (23 bp):
TTATTAATTAATACTTATTAATG
Found at i:255683 original size:2 final size:2
Alignment explanation
Indices: 255676--255707 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
255666 TTGTGTACCA
*
255676 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
255708 TAAATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:257055 original size:20 final size:20
Alignment explanation
Indices: 257019--257056 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
257009 ATCCTATTCC
**
257019 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
257039 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
257057 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:261934 original size:4 final size:4
Alignment explanation
Indices: 261925--261992 Score: 82
Period size: 4 Copynumber: 17.0 Consensus size: 4
261915 GGTAATTCAG
** * ** *
261925 GTAT GTAT GTAT GTAT GTGC ATAT GTAT GTGC ATAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
261973 GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT
261993 CATAATGACT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:270848 original size:22 final size:22
Alignment explanation
Indices: 270820--270863 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
270810 GCACAGTGCT
270820 CGGGTAAATAGAGTGTGTCGAG
1 CGGGTAAATAGAGTGTGTCGAG
270842 CGGGTAAATAGAGTGTGTCGAG
1 CGGGTAAATAGAGTGTGTCGAG
270864 GGTGTCTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.41, T:0.23
Consensus pattern (22 bp):
CGGGTAAATAGAGTGTGTCGAG
Found at i:275722 original size:21 final size:21
Alignment explanation
Indices: 275671--275732 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
275661 AGGGTTACAT
*
275671 AAGTCCTTCGGGACGT--ATG
1 AAGTCCTTCGGGACATAGATG
*
275690 ACAGGTCATTCGGGACATAGATG
1 A-A-GTCCTTCGGGACATAGATG
275713 AAGTCCTTCGGGACATAGAT
1 AAGTCCTTCGGGACATAGAT
275733 TTCACATGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 29 0.81
22 1 0.03
23 4 0.11
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
AAGTCCTTCGGGACATAGATG
Found at i:278815 original size:25 final size:25
Alignment explanation
Indices: 278781--278833 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
278771 GTTGGAAATC
*
278781 TAAATTCTAAATGATATTAGGATAA
1 TAAATTCTAAATGAGATTAGGATAA
278806 TAAATTCTAAATGAGATTAGGATAA
1 TAAATTCTAAATGAGATTAGGATAA
278831 TAA
1 TAA
278834 TTACACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (25 bp):
TAAATTCTAAATGAGATTAGGATAA
Found at i:279112 original size:37 final size:38
Alignment explanation
Indices: 279031--279113 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
279021 ATAATATTAC
* * *
279031 TATAAAATATTTATATATTTTCTTTAAAAAATTTAAAT
1 TATAAAATATTTATAAATTTTCTTTAAAAAATTAAAAA
*
279069 TCATAAAAT-TTATATAAATTTT-TTTACAAAATTAAAAA
1 T-ATAAAATATT-TATAAATTTTCTTTAAAAAATTAAAAA
279107 TATAAAA
1 TATAAAA
279114 AGGTTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
37 6 0.15
38 17 0.44
39 16 0.41
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (38 bp):
TATAAAATATTTATAAATTTTCTTTAAAAAATTAAAAA
Found at i:280278 original size:2 final size:2
Alignment explanation
Indices: 280271--280316 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
280261 GTCTTGATTA
280271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
280313 AT AT
1 AT AT
280317 GCTTGTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:285586 original size:16 final size:16
Alignment explanation
Indices: 285549--285587 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
285539 GAAATTTTAA
*
285549 CTATTTAAATAAAAAT
1 CTATTTATATAAAAAT
*
285565 -TATTTATATAAAATT
1 CTATTTATATAAAAAT
285580 CTATTTAT
1 CTATTTAT
285588 TGATAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
CTATTTATATAAAAAT
Found at i:289306 original size:158 final size:154
Alignment explanation
Indices: 289003--289314 Score: 563
Period size: 158 Copynumber: 2.0 Consensus size: 154
288993 TAACTATAAG
*
289003 GAAACTATATCTCGAGGTTAACTTAATCACTACACTAATTTTTTAAAAAATTTAAATAAGTAAAA
1 GAAACTATATCTCGAGGTTAACTAAATCACTACACTAATTTTTTAAAAAATTTAAATAAGTAAAA
289068 TATTGTAAAGAAAGGGAGAAGAAGAAATCTTACAGGAGAACGATGAATTTTTCAGAGGGAGACAA
66 TATTGTAAAGAAAGGGAGAAGAAGAAATCTTACAGGAGAACGATGAATTTTTCAGAGGGAGACAA
289133 ACTCTTACTGAGAGAAGAA-ATAT
131 ACTCTTACTGAGAGAAGAAGATAT
289156 GAAACTATATCTCGAGGTTAACTAAATCAACTACACTAATTTTTTTAAAAAATTTAAATAAGTAA
1 GAAACTATATCTCGAGGTTAACTAAATC-ACTACACTAA-TTTTTTAAAAAATTTAAATAAGTAA
289221 AATATTGTAAAGAAAGGGAGAAGAGAAGAAATCTTATCAGGAGAACGATGAATTTTTCAGAGGGA
64 AATATTGTAAAGAAAGGGAG-A-AGAAGAAATCTTA-CAGGAGAACGATGAATTTTTCAGAGGGA
289286 GACAAACTCTTACTGAGAGAAGAAGATAT
126 GACAAACTCTTACTGAGAGAAGAAGATAT
289315 CACAGAGTTA
Statistics
Matches: 152, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
153 27 0.18
154 10 0.07
155 45 0.30
156 1 0.01
157 13 0.09
158 52 0.34
159 4 0.03
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (154 bp):
GAAACTATATCTCGAGGTTAACTAAATCACTACACTAATTTTTTAAAAAATTTAAATAAGTAAAA
TATTGTAAAGAAAGGGAGAAGAAGAAATCTTACAGGAGAACGATGAATTTTTCAGAGGGAGACAA
ACTCTTACTGAGAGAAGAAGATAT
Found at i:291688 original size:20 final size:21
Alignment explanation
Indices: 291663--291703 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
291653 CACCTAAAGT
291663 TATTTAAT-TATTTTTTTAAA
1 TATTTAATGTATTTTTTTAAA
291683 TATTTAATGTATTTTTTTAAA
1 TATTTAATGTATTTTTTTAAA
291704 ATAAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTAATGTATTTTTTTAAA
Found at i:293365 original size:133 final size:131
Alignment explanation
Indices: 293158--293602 Score: 493
Period size: 133 Copynumber: 3.4 Consensus size: 131
293148 AAAGTAGAAT
* * * * **
293158 CTCGAGCAAAAGCT-AGGACCAAATTAAGAATTATTCTAATTTAAGGATTAAAGGTAAAATTAGG
1 CTCGAGCATAAG-TGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAATATAAAATTAGG
* *
293222 ACTAAGATGGAGGTTCTAATATTAATCATAATTAATTTAATTATGGACTACCAAATAATTAATTG
65 CCTAAGATGGAGGATCTAATATTAATC-TAATTAA-TTAATTATGGACTACCAAATAATTAATT-
293287 GGAAC
127 GGAAC
* *
293292 CTCGAGCATAAGTGAGGATCAAATTAAGAAATT-TCCT-ATTTAAGGTCTAAATATAAAATTAGG
1 CTCGAGCATAAGTGAGGACCAAATTAAG-AATTCTCCTAATTTAAGGACTAAATATAAAATTAGG
* *
293355 CCTAAAATGGAGGCA-CTAA-ATCATAAT-TAATTTTAATTAATTATGGACTACCGAATAATTAA
65 CCTAAGATGGAGG-ATCTAATAT--TAATCTAA--TTAATTAATTATGGACTACCAAATAATTAA
293417 TTCGGAA-
125 TT-GGAAC
** ** *
293424 CTCGAGCATAAGCAATTACCAAATTAAGAATTCTCCTAATTTAAGGACTAAATATGAAATTAGGC
1 CTCGAGCATAAGTGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAATATAAAATTAGGC
* *
293489 CTAAGATGGAGGATCTAATATTAATCCTAATTAATT-ATT-T-GA-T-TCAAATAATTAAATTAG
66 CTAAGATGGAGGATCTAATATTAAT-CTAATTAATTAATTATGGACTACCAAATAATT-AATTGG
293549 AAC
129 AAC
* *
293552 CTCGAGCA-AAGTGAGGACCAAATTAAGAATTCACCTGATTTAAGGACTAAA
1 CTCGAGCATAAGTGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAA
293603 CCTAAAATAC
Statistics
Matches: 267, Mismatches: 29, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
127 48 0.18
128 13 0.05
129 2 0.01
130 1 0.00
131 7 0.03
132 43 0.16
133 109 0.41
134 40 0.15
135 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (131 bp):
CTCGAGCATAAGTGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAATATAAAATTAGGC
CTAAGATGGAGGATCTAATATTAATCTAATTAATTAATTATGGACTACCAAATAATTAATTGGAA
C
Found at i:294554 original size:26 final size:26
Alignment explanation
Indices: 294495--294553 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
294485 TAATATGAAG
294495 GAAGAAAATACAAGAGGATTTTGGTA
1 GAAGAAAATACAAGAGGATTTTGGTA
*
294521 GAAGAAAATATAAGAGGATTTTGGTA
1 GAAGAAAATACAAGAGGATTTTGGTA
294547 -AAGAAAA
1 GAAGAAAA
294554 ACTTGATTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.22
26 25 0.78
ACGTcount: A:0.51, C:0.02, G:0.25, T:0.22
Consensus pattern (26 bp):
GAAGAAAATACAAGAGGATTTTGGTA
Found at i:302892 original size:15 final size:15
Alignment explanation
Indices: 302857--302893 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
302847 GAAAGTGGGC
*
302857 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
*
302872 GAGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
302887 GGGCGGG
1 GGGCGGG
302894 TAATGTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Done.