Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:181633 original size:32 final size:33
Alignment explanation
Indices: 181573--181636 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
181563 TACAAGCCAA
** *
181573 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
181606 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
181637 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:185750 original size:21 final size:22
Alignment explanation
Indices: 185711--185751 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
185701 TAGCGACTGT
*
185711 ACAAAAAAAATAAGGATGAATA
1 ACAAAAAAAATAAGAATGAATA
*
185733 ACAAAAATAA-AAGAATGAA
1 ACAAAAAAAATAAGAATGAA
185752 CACCAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.12
Consensus pattern (22 bp):
ACAAAAAAAATAAGAATGAATA
Found at i:189879 original size:28 final size:28
Alignment explanation
Indices: 189812--190662 Score: 458
Period size: 28 Copynumber: 29.8 Consensus size: 28
189802 CACTAACTTA
* * *
189812 TGTGGGCTTTGAAAAGAGTTGCTACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* * *
189842 TGTGTAGGCTTTGAAAGGGTGCTACTAACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
* * *
189872 TTTAGGCTTTGAAAAAAGAGTTGCCA-TCGACTT
1 TGTGGGCTTTG---AAAG-GATGCCACT-GAC-T
*
189905 GTGTGGGCTTTAAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
189934 TGTAGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
189963 TGTGGGCTTTTGAAATGATG-CACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
189991 TGTGGGCTTCGAAAAGATGCCACT-ATCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
190019 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
190047 TGTGGGCTTTGAAAGGGTATGCCACTAACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
190077 TCTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
190105 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
190133 TATGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * **
190161 TGTGAGCTTT-AAATGGGTTGCCACCAACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * *
190191 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
*
190223 GTGTGGGCTTTGAAATGAGTTGCCA-TGAACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTG-ACT
* * *
190254 TGTGGGCTTTAAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
190282 TGTGGGATTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * ** *
190310 TGTGGGCTTTAAAAGGGTGCTGCCACAAAGT
1 TGTGGGCTTTGAAA--G-GATGCCACTGACT
* * * *
190341 TGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
190368 TGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * * * * *
190395 TGTGAAC-TTAAAAGGGTACCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
190422 GGTGGACTTT-AAAAGAGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGA-TGCCACTG-ACT
* * * * *
190450 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
190477 TGTGGAC-TTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * * *
190504 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
190532 TGTGGACTTT-AAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
190559 TGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
190586 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
190614 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
190642 TGTGGAC-TTAAAAGGATGCCA
1 TGTGGGCTTTGAAAGGATGCCA
190663 TGGAGTTATG
Statistics
Matches: 708, Mismatches: 73, Indels: 83
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.00
27 191 0.27
28 286 0.40
29 49 0.07
30 73 0.10
31 42 0.06
32 56 0.08
33 1 0.00
34 8 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:189892 original size:62 final size:62
Alignment explanation
Indices: 189792--189948 Score: 192
Period size: 62 Copynumber: 2.5 Consensus size: 62
189782 GGGCTTTTAA
* * *
189792 AAAATGGTGCCACTAACTTATGTGGGCTTTG--AAAAGAGTTGCTACCGACTTGTGTAGGCTTT
1 AAAAGGGTGCCACTAACTT-T-TAGGCTTTGAAAAAAGAGTTGCCACCGACTTGTGTAGGCTTT
* * * *
189854 GAAAGGGTGCTACTAACTTTTAGGCTTTGAAAAAAGAGTTGCCATCGACTTGTGTGGGCTTT
1 AAAAGGGTGCCACTAACTTTTAGGCTTTGAAAAAAGAGTTGCCACCGACTTGTGTAGGCTTT
* * *
189916 AAAAGGATGCCACTGACTTGTAGGCTTTGAAAA
1 AAAAGGGTGCCACTAACTTTTAGGCTTTGAAAA
189949 GGATGCCACT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 8 0.10
61 1 0.01
62 72 0.89
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (62 bp):
AAAAGGGTGCCACTAACTTTTAGGCTTTGAAAAAAGAGTTGCCACCGACTTGTGTAGGCTTT
Found at i:190099 original size:86 final size:85
Alignment explanation
Indices: 189906--190362 Score: 441
Period size: 86 Copynumber: 5.3 Consensus size: 85
189896 CATCGACTTG
*
189906 TGTGGGCTTTAAAAGGATGCCACTGACTTGTAGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTAAAAGGATGCCACT-ACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGC-
*
189971 TTTGAAA-TG-ATG-CACTAACT
63 TTTGAAAGGGTATGCCACTAACT
*
189991 TGTGGGCTTCGAAAA-GATGCCACTATCTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTT-TAAAAGGATGCCACTA-CTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
190055 TTGAAAGGGTATGCCACTAACT
64 TTGAAAGGGTATGCCACTAACT
* * *
190077 TCTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTATGGGCT
1 TGTGGGCTTTAAAAGGATGCCACT-ACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCT
* *
190141 TT-AAAAGG-ATGCCACTGACT
64 TTGAAAGGGTATGCCACTAACT
* * * * * * *
190161 TGTGAGCTTTAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTG
1 TGTGGGCTTTAAA-AGGATGCCA-CTAC-T-TGTGGGCTTTGAAA--AGGTGCCACTGAC-T-TG
*
190226 TGGGCTTTGAAATGAGT-TGCCA-TGAACT
58 TGGGCTTTGAAA-GGGTATGCCACT-AACT
* * *
190254 TGTGGGCTTTAAAATGATGCCACTAACTTGTGGGATTTG-AAAGGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTAAAAGGATGCCACT-ACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
* * * *
190318 TTAAAAGGGTGCTGCCACAAAGT
64 TTGAAAGGGT-ATGCCACTAACT
*
190341 TGTGGAC-TTAAAAGGATGCCAC
1 TGTGGGCTTTAAAAGGATGCCAC
190363 AGAGTTGTGG
Statistics
Matches: 309, Mismatches: 37, Indels: 51
0.78 0.09 0.13
Matches are distributed among these distances:
83 7 0.02
84 41 0.13
85 63 0.20
86 92 0.30
87 28 0.09
88 11 0.04
89 12 0.04
90 11 0.04
91 11 0.04
92 12 0.04
93 21 0.07
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTAAAAGGATGCCACTACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTT
GAAAGGGTATGCCACTAACT
Found at i:190139 original size:114 final size:113
Alignment explanation
Indices: 189906--190662 Score: 530
Period size: 109 Copynumber: 6.7 Consensus size: 113
189896 CATCGACTTG
* * *
189906 TGTGGGCTTTAAAAGGATGCCACTGACTTGTAGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTAACTTGTGGGC-
* * *
189971 TTTGAAATGATG-CACTAACTTGTGGGCTTCGAAAA-GATGCCACT-ATCT
65 TTTGAAAGGATGCCACTGACTTGTGGGCTT-TAAAAGGATGCCACTGA-CT
*
190019 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTATGCCACTAACTTCTGGG
1 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG-ATGCCACTAACTTGTGGG
*
190083 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
64 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
190133 TATGGGCTTTAAAAGGATGCCACTGACTTGTGAGCTTT-AAATGGGTTGCCACCAACTTGTGTGG
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGGATGCCACTAAC-T-TGTGG
* * * * *
190197 GCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCA-TGAACT
63 GCTTTGAAA-G-GATGCCACTGAC-T-TGTGGGCTTT-AAAAG-GATGCCACTG-ACT
* * *
190254 TGTGGGCTTTAAAATGATGCCACTAACTTGTGGGATTTGAAA-GGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTAACTTGTGGGCT
* * ** * * * *
190318 TTAAAAGGGTGCTGCCACAAAGTTGTGGAC-TTAAAAGGATGCCACAGAGT
66 TTGAAA--G-GATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * ** * * ** * * *
190368 TGTGGAC-TTAAAAGGATGCCACAGAGTTGTGAAC-TTAAAAGGG-TACCACGGAGTGGTGGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTAACTTGTGGGCT
* * * * * *
190430 TT-AAAAGAGTGCCAC-GAAGTTGTGGAC-TTAAAAGGGTGCCACGGAGT
66 TTGAAAGGA-TGCCACTG-ACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * * * ** * *
190477 TGTGGAC-TTAAAAGGGTGCCA-TGGAGTTGTGGACTTTAAAAGGG-TGCCACGGAGTTGTGGAC
1 TGTGGGCTTTAAAAGGATGCCACT-GACTTGTGGGCTTTGAAAGGGATGCCACTAACTTGTGGGC
* * * * * *
190539 TTT-AAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACAGAGT
65 TTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * * * * ** * *
190586 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGAC-
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTAACTTGTGGGCT
*
190649 TTAAAAGGATGCCA
66 TTGAAAGGATGCCA
190663 TGGAGTTATG
Statistics
Matches: 546, Mismatches: 69, Indels: 61
0.81 0.10 0.09
Matches are distributed among these distances:
108 1 0.00
109 112 0.21
110 89 0.16
111 3 0.01
112 20 0.04
113 91 0.17
114 96 0.18
115 18 0.03
116 3 0.01
117 16 0.03
118 15 0.03
119 20 0.04
120 17 0.03
121 42 0.08
122 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (113 bp):
TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTAACTTGTGGGCT
TTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACT
Found at i:190233 original size:205 final size:198
Alignment explanation
Indices: 189807--190329 Score: 560
Period size: 205 Copynumber: 2.6 Consensus size: 198
189797 GGTGCCACTA
* * *
189807 ACTTATGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTGTAGGCTTTGAAAGGG-TGCTACTAAC
1 ACTT-TGTGGGCTTTGAAAAG-G-TGCCACTGACTTGTG--GGCTTTGAAAGGGATGCCACTAAC
* * * *
189871 TTTTAGGCTTTGAAAAAAGAGTTGCCA-TCGACTTGTGTGGGCTTTAAAAGGATGCCACTGACTT
61 TTCTGGGCTTTG---AAAG-GATGCCACT-GAC-T-TGTGGGCTTTAAAAGGGTGCCACTGACTT
* * *
189935 GTAGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTTGAAATGATGCACTAACTTGTGGGCTT
119 ATAGGCTTTGAAAAGGATGCCACTGACTTGTGAGCTTTTGAAATGATGCACCAACTTGTGGGCTT
*
190000 CGAAAAGATGCCACT
184 CGAAAAGATGCCACG
190015 A-TCTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTATGCCACTAACTTC
1 ACT-TTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGG-ATGCCACTAACTTC
*
190079 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTATGGGCTTT-
64 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTATAGGCTTTG
*
190143 AAAAGGATGCCACTGACTTGTGAGC-TTT-AAATGGGTTGCCACCAACTTGTGTGGGCTTTC-AA
129 AAAAGGATGCCACTGACTTGTGAGCTTTTGAAAT--GATG-CACCAAC-T-TGTGGGC-TTCGAA
*
190205 ATGAGTTGCCACCG
188 A--AGATGCCA-CG
* **
190219 ACTTGTGTGGGCTTTGAAATGAGTTGCCA-TGAACTTGTGGGCTTT-AAAATGATGCCACTAACT
1 ACTT-TGTGGGCTTTGAAA--AGGTGCCACTG-ACTTGTGGGCTTTGAAAGGGATGCCACTAACT
* * *
190282 TGTGGGATTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGGTGC
62 TCTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGC
190330 TGCCACAAAG
Statistics
Matches: 277, Mismatches: 20, Indels: 39
0.82 0.06 0.12
Matches are distributed among these distances:
196 4 0.01
197 3 0.01
198 27 0.10
199 41 0.15
200 2 0.01
201 19 0.07
202 8 0.03
203 20 0.07
204 3 0.01
205 104 0.38
206 7 0.03
207 37 0.13
208 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (198 bp):
ACTTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTAACTTCTG
GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTATAGGCTTTGAA
AAGGATGCCACTGACTTGTGAGCTTTTGAAATGATGCACCAACTTGTGGGCTTCGAAAAGATGCC
ACG
Found at i:190255 original size:32 final size:32
Alignment explanation
Indices: 190161--190266 Score: 132
Period size: 32 Copynumber: 3.4 Consensus size: 32
190151 GCCACTGACT
* *
190161 TGTGAGCTTTAAATGGGTTGCCACC-AACTTG
1 TGTGGGCTTTAAATGAGTTGCCACCGAACTTG
190192 TGTGGGCTTTCAAATGAGTTGCCACCG-ACTTG
1 TGTGGGCTTT-AAATGAGTTGCCACCGAACTTG
*
190224 TGTGGGCTTTGAAATGAGTTGCCA-TGAAC-T-
1 TGTGGGCTTT-AAATGAGTTGCCACCGAACTTG
190254 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
190267 ATGATGCCAC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.04
30 10 0.15
31 11 0.16
32 44 0.65
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (32 bp):
TGTGGGCTTTAAATGAGTTGCCACCGAACTTG
Found at i:190368 original size:27 final size:27
Alignment explanation
Indices: 190338--190677 Score: 466
Period size: 27 Copynumber: 12.4 Consensus size: 27
190328 GCTGCCACAA
*
190338 AGTTGTGGACTTAAAAGGATGCCACAG
1 AGTTGTGGACTTAAAAGGATGCCACGG
*
190365 AGTTGTGGACTTAAAAGGATGCCACAG
1 AGTTGTGGACTTAAAAGGATGCCACGG
* * *
190392 AGTTGTGAACTTAAAAGGGTACCACGG
1 AGTTGTGGACTTAAAAGGATGCCACGG
* *
190419 AGTGGTGGACTTTAAAA-GAGTGCCACGA
1 AGTTGTGGAC-TTAAAAGGA-TGCCACGG
*
190447 AGTTGTGGACTTAAAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGATGCCACGG
* *
190474 AGTTGTGGACTTAAAAGGGTGCCATGG
1 AGTTGTGGACTTAAAAGGATGCCACGG
*
190501 AGTTGTGGACTTTAAAAGGGTGCCACGG
1 AGTTGTGGAC-TTAAAAGGATGCCACGG
* * *
190529 AGTTGTGGACTTTAAAGGGTGCCACAG
1 AGTTGTGGACTTAAAAGGATGCCACGG
*
190556 AGTTGTGGACTTAAAAGGATGCCACAG
1 AGTTGTGGACTTAAAAGGATGCCACGG
*
190583 AGTTGTGGACTTTAAAAGGGTGCCACGG
1 AGTTGTGGAC-TTAAAAGGATGCCACGG
190611 AGTTGTGGACTTTAAAAGGATGCCACGG
1 AGTTGTGGAC-TTAAAAGGATGCCACGG
*
190639 AGTTGTGGACTTAAAAGGATGCCATGG
1 AGTTGTGGACTTAAAAGGATGCCACGG
*
190666 AGTTATGGACTT
1 AGTTGTGGACTT
190678 TGAAAAGACA
Statistics
Matches: 285, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
27 185 0.65
28 100 0.35
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
AGTTGTGGACTTAAAAGGATGCCACGG
Found at i:190451 original size:82 final size:82
Alignment explanation
Indices: 190253--190685 Score: 480
Period size: 82 Copynumber: 5.2 Consensus size: 82
190243 TGCCATGAAC
* * * * * * *
190253 TTGTGGGCTTTAAAATGA-TGCCACTAACTTGTGGGATTTGAAAGGATGCCACTA-ACTTGTGGG
1 TTGTGGACTTTAAAA-GAGTGCCACGAAGTTGT-GGACTTAAAAGGATGCCAC-AGAGTTGTGGA
* **
190316 CTTTAAAAGGGTGCTGCCACAAAG
63 C-TTAAAA--G-GATGCCACGGAG
*
190340 TTGTGGAC-TTAAAAG-GATGCCAC-AGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGAAC
1 TTGTGGACTTTAAAAGAG-TGCCACGA-AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGAC
* *
190402 TTAAAAGGGTACCACGGAG
64 TTAAAAGGATGCCACGGAG
* * *
190421 TGGTGGACTTTAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTTAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
* *
190486 AAAAGGGTGCCATGGAG
66 AAAAGGATGCCACGGAG
* * * *
190503 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTT
1 TTGTGGACTTTAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
*
190568 AAAAGGATGCCACAGAG
66 AAAAGGATGCCACGGAG
* * *
190585 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
1 TTGTGGACTTTAAAAGAGTGCCACGAAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACT
*
190650 TAAAAGGATGCCATGGAG
65 TAAAAGGATGCCACGGAG
*
190668 TTATGGACTTTGAAAAGA
1 TTGTGGACTTT-AAAAGA
190686 CATGCCACTA
Statistics
Matches: 305, Mismatches: 32, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
81 15 0.05
82 175 0.57
83 53 0.17
84 12 0.04
85 26 0.09
86 17 0.06
87 7 0.02
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (82 bp):
TTGTGGACTTTAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
AAAAGGATGCCACGGAG
Found at i:190452 original size:55 final size:54
Alignment explanation
Indices: 190293--190677 Score: 459
Period size: 55 Copynumber: 7.0 Consensus size: 54
190283 GTGGGATTTG
** * * *
190293 AAAGGATGCCACTAACTTGTGGGCTTTAAAAGGGTGCTGCCACAAAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGAC-TTAAAA-GG-G-TGCCACGAAGTTGTGGACTTA
* * *
190351 AAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCAC-AGAGTTGTGAACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTA
* * * *
190405 AAAGGGTACCACGGAGTGGTGGACTTTAAAAGAGTGCCACGAAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTGTGGACTTA
* * *
190460 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTTA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTA
* *
190515 AAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCAC-AGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTA
* *
190569 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTGTGGAC-TTA
* * * *
190625 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTATGGACTT
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT
190678 TGAAAAGACA
Statistics
Matches: 290, Mismatches: 29, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
53 1 0.00
54 89 0.31
55 145 0.50
56 29 0.10
57 6 0.02
58 20 0.07
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (54 bp):
AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTA
Found at i:190678 original size:55 final size:54
Alignment explanation
Indices: 190338--190677 Score: 466
Period size: 55 Copynumber: 6.2 Consensus size: 54
190328 GCTGCCACAA
* *
190338 AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAG
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
* * * * *
190392 AGTTGTGAACTTAAAAGGGTACCACGGAGTGGTGGACTTTAAAA-GAGTGCCACGA
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGA-TGCCACGG
* * *
190447 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGG
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
* * * *
190501 AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAG
1 AGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
* *
190556 AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGG
*
190611 AGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGG
1 AGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
*
190666 AGTTATGGACTT
1 AGTTGTGGACTT
190678 TGAAAAGACA
Statistics
Matches: 256, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
54 83 0.32
55 147 0.57
56 26 0.10
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (54 bp):
AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
Found at i:192046 original size:20 final size:22
Alignment explanation
Indices: 192004--192050 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
191994 GTCCTCATTC
*
192004 TTTTTATTTTTATTGTTCCCTT
1 TTTTTATTTTTATTGTGCCCTT
*
192026 TTTTTATTTTT-TT-TGCGCTT
1 TTTTTATTTTTATTGTGCCCTT
192046 TTTTT
1 TTTTT
192051 TTCTTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 2 0.09
22 11 0.48
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (22 bp):
TTTTTATTTTTATTGTGCCCTT
Found at i:198554 original size:20 final size:20
Alignment explanation
Indices: 198531--198569 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
198521 TATTTTTTTT
*
198531 TTCTTTTTCTTCCTTTCTTC
1 TTCTTCTTCTTCCTTTCTTC
*
198551 TTCTTCTTCTTTCTTTCTT
1 TTCTTCTTCTTCCTTTCTT
198570 ATCGAACTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTCTTCTTCCTTTCTTC
Found at i:198568 original size:17 final size:18
Alignment explanation
Indices: 198530--198569 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
198520 ATATTTTTTT
*
198530 TTTCTTTTTCTTCCTTTC
1 TTTCTTCTTCTTCCTTTC
198548 -TTCTTCTTCTT-CTTTC
1 TTTCTTCTTCTTCCTTTC
198564 TTTCTT
1 TTTCTT
198570 ATCGAACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCTTCTTCTTCCTTTC
Found at i:203397 original size:13 final size:13
Alignment explanation
Indices: 203379--203404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
203369 GCAGGTAGTT
203379 TTGTATCGATACA
1 TTGTATCGATACA
203392 TTGTATCGATACA
1 TTGTATCGATACA
203405 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:210299 original size:51 final size:52
Alignment explanation
Indices: 210236--210373 Score: 167
Period size: 51 Copynumber: 2.7 Consensus size: 52
210226 AATGGTCTGC
** *
210236 ATGTATCGATACATTGAAGAATATATCGATACATTT-GAGTC-AAAACCCAGA
1 ATGTATCGATACAAAGAACAATATATCGATACATTTAG-GTCAAAAACCCAGA
* *
210287 ATGTATTGATACAAAGAACAATGTATCGATACATTTAGGTCAAAAACCCAGA
1 ATGTATCGATACAAAGAACAATATATCGATACATTTAGGTCAAAAACCCAGA
**
210339 ATGTATCGATACAATAG-A-AACGTATCGATACATTT
1 ATGTATCGATACAA-AGAACAATATATCGATACATTT
210374 TCCTTCCAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
51 50 0.65
52 25 0.32
53 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACAAAGAACAATATATCGATACATTTAGGTCAAAAACCCAGA
Found at i:210454 original size:20 final size:20
Alignment explanation
Indices: 210429--210483 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
210419 TTATTTTAGA
*
210429 CATGTATTGATACATTCACT
1 CATGTATCGATACATTCACT
*
210449 CATGTATCAATACATTCACT
1 CATGTATCGATACATTCACT
*
210469 TATTGTATCGATACA
1 CA-TGTATCGATACA
210484 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACATTCACT
Found at i:211281 original size:70 final size:70
Alignment explanation
Indices: 211201--212257 Score: 547
Period size: 70 Copynumber: 15.2 Consensus size: 70
211191 GCATTTTGCA
* *
211201 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCGTC
1 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGTGTC
*
211266 TTATT
66 CTATT
** * *
211271 CTTTGAGGACTAAAAATATAAAAGGAGTGCCACCAGCTTGTGTGGGCTTTAAAAGAGAAAAAGAA
1 CTTTGAGGACTAAAAGGAAAAAAAG-GTGCCACCAGCTTGTGTGGGCTTT-------AAAAAGAA
*
211336 AAAGTGTCCTGTT
58 AAAGTGTCCTATT
* * * *
211349 CTTTGAGGACTAAAAGG--AAAAAGGTGCCACTAGCTTATGTAGGCTTTAAAAAGGAAAAA-TAT
1 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAA-GAAAAAGTGT
* *
211411 CTTGCTT
65 CCT-ATT
211418 C-TTGAGGACTAAAAGGATAAAAGAA-GTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAAAGG
1 CTTTGAGGACTAAAAGGA-AAAA-AAGGTGCCACCAGCTTGTGTGGGC-TTTAAAAAGAAAAA-G
* **
211481 TGCCCTGCT
62 TGTCCTATT
* * *
211490 CTTTGAGGACTAAAAGGATAAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGAC
1 CTTTGAGGACTAAAAGGA-AAAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAAG-T
* * *
211555 ATCTTGTT
63 GTCCTATT
* * ** * * **
211563 CTTTAAAGACT--------AAAAA-GTGCTTCCCGCTTATGTGGGCTTTAAAAAGAAAAAAACGT
1 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAG-AAAAAGTGT
* *
211619 TCTACT
65 CCTATT
* * *
211625 CTTTGAGGACTAAAAGGATAAAAAAAAGTGCCACCAGCTTGTGTAGGCTTTAAAAAGGAAAAGGT
1 CTTTGAGGACTAAAAGG--AAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAA-GAAAAAGT
*
211690 GT-CT-TG
63 GTCCTATT
* * * * *
211696 CTTTATGAGGACTAAAAAGATAAAAAA--TGCCACCAACTTGTTTGGGCTTCAGAAA-AAAAAG-
1 C-TT-TGAGGACTAAAAGGA-AAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGT
211757 G--C--TT
63 GTCCTATT
** ** ** * * * * *
211761 -TTT--GCTCTTTAAGGACTAAAAGGTGACTCCAACTTGTAT-GGCTTTAAAAAGAAAAAATGTC
1 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGTGTC
**
211822 CTACC
66 CTATT
* * * * * *
211827 CTTTAAAGACTAAAAGGATAAAAGGAGTGCTACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAGTA
1 CTTTGAGGACTAAAAGGAAAAAAAG-GTGCCACCAGCTTGTGTGGGCTTTAAAAAG-AAAAAGTG
211892 TCCTATT
64 TCCTATT
* * * * * * *
211899 TTTTAAGGACTAAAAAGG-TAAAAA-GTGCCACCAACTTATGTGGGCTTT-AGAAGAAAAAGTGC
1 CTTTGAGGACT-AAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGTGT
211961 CCTACTT
65 CCTA-TT
** * * * * *
211968 -TTTTTGGACTAAAA--AAAGGTAAAAAGTGCCACTAGCTTGTATGGGCTGTAAAAGGAAAAAAG
1 CTTTGAGGACTAAAAGGAAA---AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAG-AAAAA-
*
212030 GTGCCCTATT
61 GTGTCCTATT
* * * *
212040 CTTTGAGAACT---------AAAAGGTGCCACTAGCTTATGTGGGCTTTAAAAAGAAAAAGGTAT
1 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAA-GTGT
**
212096 CCTGCT
65 CCTATT
* * * * * * **
212102 CTTTAAGGACTAAAAAGG--TAAATGGTGCCACCAACTTATGTGGGCTTT-AGAAGAAAAAACGT
1 CTTTGAGGACT-AAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGTGT
** *
212164 TTTACT
65 CCTATT
* * *
212170 CTTTAAGGACTAAAA--AAAGGTAAAAGATGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAGT
1 CTTTGAGGACTAAAAGGAAA---AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGT
*
212233 GTCGTACTT
63 GTCCTA-TT
212242 -TTTGAGGACTAAAAGG
1 CTTTGAGGACTAAAAGG
212258 TGCCACTAGC
Statistics
Matches: 756, Mismatches: 152, Indels: 155
0.71 0.14 0.15
Matches are distributed among these distances:
59 4 0.01
60 16 0.02
61 18 0.02
62 42 0.06
63 56 0.07
64 6 0.01
65 1 0.00
66 2 0.00
67 12 0.02
68 63 0.08
69 39 0.05
70 147 0.19
71 93 0.12
72 66 0.09
73 132 0.17
74 1 0.00
75 21 0.03
76 5 0.01
78 32 0.04
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (70 bp):
CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGTGTC
CTATT
Found at i:211402 original size:146 final size:142
Alignment explanation
Indices: 211201--212255 Score: 515
Period size: 146 Copynumber: 7.6 Consensus size: 142
211191 GCATTTTGCA
*
211201 CTTTGAGGACTAAAAGGAAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCGTC
1 CTTTGAGGACTAAAAGG-AAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCATC
* *
211266 TTATTCTTTGAGGACTAAAAATATAAAAGGAGTGCCACCAGCTTGTGTGGGC-TTTAAAAGAGAA
65 TTATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAA-AGAA
* *
211330 AAAGAAAAAGTGTCCTGTT
129 AAAG-----GTGCCCTGCT
* * * **
211349 CTTTGAGGACTAAAAGG-AAAAAGGTGCCACTAGCTTATGTAGGCTTTAAAAAGGAAAAATATCT
1 CTTTGAGGACTAAAAGGAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCATCT
* *
211413 TGCTTC-TTGAGGACTAAAAGGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAA
66 T-ATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAA
211477 AAGGTGCCCTGCT
130 AAGGTGCCCTGCT
* * *
211490 CTTTGAGGACTAAAAGGATAAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGAC
1 CTTTGAGGACTAAAAGG--AAAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAAGGAAAAG-C
* * * * * *
211555 ATCTTGTTCTTTAAAGACTAAAAAG-T----G--CT-TC-CC-GCTTATGTGGGC-TTTAAAAAG
62 ATCTTATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAG
*** ** *
211609 AAAAAAACGTTCTACT
127 AAAAAGGTGCCCTGCT
* * *
211625 CTTTGAGGACTAAAAGGATAAAAAAAAGTGCCACCAGCTTGTGTAGGCTTTAAAAAGGAAAAGGT
1 CTTTGAGGACTAAAAGG---AAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAA-GC
* * * * * * *
211690 GTCTTGCTT-TATGAGGACTAAAAAGATAAAA-AA-TGCCACCAACTTGTTTGGGC-TTCAGAAA
62 ATCTT-ATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAA
***
211751 -AAAAAGGCT-TTTTGCT
126 GAAAAAGG-TGCCCTGCT
* * * * * * *** *
211767 CTTTAAGGACT--------AAAAGGTGACTCCAACTTGTAT-GGCTTTAAAAAGAAAAAATGTCC
1 CTTTGAGGACTAAAAGGAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCATCT
** * * * * *
211823 TACCCTTTAAAGACTAAAAGGATAAAAGGAGTGCTACCAGCTTGTGTGGGC-TTTAAAAAGAAAA
66 TATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAA
* ** **
211887 AAGTATCCTATT
131 AGGTGCCCTGCT
* * * * * * * ***
211899 TTTTAAGGACTAAAAAGGTAAAAA-GTGCCACCAACTTATGTGGGCTTT-AGAAGAAAAAGTGCC
1 CTTTGAGGACT-AAAAGGAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCATC
* ** * * * * *
211962 CTACTT-TTTTTGGACTAAAAAAAGGT-AAA-AAGTGCCACTAGCTTGTATGGGC-TGTAAAAGG
65 TTA-TTCTTTGAGGACT--AAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAG
**
212023 AAAAAAGGTGCCCTATT
127 -AAAAAGGTGCCCTGCT
* * * * *
212040 CTTTGAGAACT--------AAAAGGTGCCACTAGCTTATGTGGGCTTTAAAAAGAAAAAGGTATC
1 CTTTGAGGACTAAAAGGAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAA-GCATC
* ** * * * * * *
212097 CTGCTCTTTAAGGACTAAAAAGGTAAATG--GTGCCACCAACTTATGTGGGC-TTT-AGAAGAAA
65 TTATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAG-AA
* ** *
212158 AAACGT--TTTACT
129 AAAGGTGCCCTGCT
* * * *
212170 CTTTAAGGACTAAAAAAAGG-TAAAAGATGCCACCAGCTTGTGTGGGCTTT-AAAAGGAAAAAGT
1 CTTTGAGGACT---AAAAGGAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGG-AAAAGC
* *
212233 GTCGTACTT-TTTGAGGACTAAAA
62 ATCTTA-TTCTTTGAGGACTAAAA
212256 GGTGCCACTA
Statistics
Matches: 707, Mismatches: 141, Indels: 127
0.73 0.14 0.13
Matches are distributed among these distances:
129 23 0.03
130 29 0.04
131 41 0.06
132 34 0.05
133 49 0.07
134 12 0.02
135 76 0.11
136 44 0.06
137 2 0.00
138 1 0.00
139 24 0.03
140 93 0.13
141 61 0.09
142 28 0.04
143 15 0.02
144 25 0.04
145 14 0.02
146 109 0.15
147 10 0.01
148 17 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (142 bp):
CTTTGAGGACTAAAAGGAAAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAAGCATCT
TATTCTTTGAGGACTAAAAAGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAA
AGGTGCCCTGCT
Found at i:211910 original size:201 final size:203
Alignment explanation
Indices: 211424--211957 Score: 642
Period size: 201 Copynumber: 2.6 Consensus size: 203
211414 GCTTCTTGAG
*
211424 GACTAAAAGGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAAAGGTGCCCTGC
1 GACTAAAAGGATAAAAGAAGTGCCACCAGCTTGTGTGGGC-TTTAAAAAGAAAAAGGTGTCCTGC
* * *
211489 TCTTTGAGGACTAAAAGGATAAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGA
65 TTTTTGAGGACTAAAAAGAT-AAAAAA-TGCCACCAACTTGTGTGGGC-TTAAGAAA-AAAAAGA
* ** *
211554 CATCTTGTTCTTTAAAGACTAAAAAGTGCTTCCCGCTTATGTGGGCTTTAAAAAGAAAAAAACGT
126 CATCTTGCTCTTTAAAGACTAAAAAGTGCTTCCAACTTATATGGGCTTTAAAAAGAAAAAAACGT
* * * *
211619 TCTACTCTTTGAG
191 CCTACCCTTTAAA
* * * *
211632 GACTAAAAGGATAAAAAAAAGTGCCACCAGCTTGTGTAGGCTTTAAAAAGGAAAAGGTGTCTTGC
1 GACTAAAAGGAT-AAAAGAAGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGTGTCCTGC
* * * * * *
211697 TTTATGAGGACTAAAAAGATAAAAAATGCCACCAACTTGTTTGGGCTTCAGAAAAAAAAGGCTTT
65 TTTTTGAGGACTAAAAAGATAAAAAATGCCACCAACTTGTGTGGGCTTAAGAAAAAAAAGACATC
* * * *
211762 TTGCTCTTTAAGGACTAAAAGGTGAC-TCCAACTTGTAT-GGCTTTAAAAAG-AAAAAATGTCCT
130 TTGCTCTTTAAAGACTAAAAAGTG-CTTCCAACTTATATGGGCTTTAAAAAGAAAAAAACGTCCT
211824 ACCCTTTAAA
194 ACCCTTTAAA
* * * * **
211834 GACTAAAAGGATAAAAGGAGTGCTACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAGTATCCTATT
1 GACTAAAAGGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGTGTCCTGCT
* * * * * *
211899 TTTTAAGGACTAAAAAGGTAAAAAGTGCCACCAACTTATGTGGGCTTTAGAAGAAAAAG
66 TTTTGAGGACTAAAAAGATAAAAAATGCCACCAACTTGTGTGGGCTTAAGAAAAAAAAG
211958 TGCCCTACTT
Statistics
Matches: 280, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
201 94 0.34
202 29 0.10
203 12 0.04
204 37 0.13
205 7 0.03
206 19 0.07
207 6 0.02
208 50 0.18
209 26 0.09
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (203 bp):
GACTAAAAGGATAAAAGAAGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGTGTCCTGCT
TTTTGAGGACTAAAAAGATAAAAAATGCCACCAACTTGTGTGGGCTTAAGAAAAAAAAGACATCT
TGCTCTTTAAAGACTAAAAAGTGCTTCCAACTTATATGGGCTTTAAAAAGAAAAAAACGTCCTAC
CCTTTAAA
Found at i:212098 original size:203 final size:201
Alignment explanation
Indices: 211861--212320 Score: 620
Period size: 203 Copynumber: 2.3 Consensus size: 201
211851 GAGTGCTACC
* *
211861 AGCTTGTGTGGGCTTTAAAAAGAAAAAAGTATCCTATTTTTTAAGGACTAAAAAGGTAAAAAGTG
1 AGCTTGTGTGGGCTTTAAAAAGAAAAAAGTATCCTACTCTTTAAGGACTAAAAAGGTAAAAAGTG
** * **
211926 CCACCAACTTATGTGGGCTTTAGAAGAAAAAGTGCCCTACTTTTTTTGGACTAAAAAAAGGTAAA
66 CCACCAACTTATGTGGGCTTTAGAAGAAAAAACGCCCTACTCTTTAAGGACTAAAAAAAGGTAAA
*
211991 A-AGTGCCACTAGCTTGTATGGGCTGTAAAAGGAAAAAAGGTGCCCTA-TTCTTTGAGAACTAAA
131 AGA-TGCCACCAGCTTGTATGGGCTGTAAAAGG-AAAAA-GTGCCCTACTT-TTTGAGAACTAAA
212054 AGGTGCCACT
192 AGGTGCCACT
* * * **
212064 AGCTTATGTGGGCTTTAAAAAGAAAAAGGTATCCTGCTCTTTAAGGACTAAAAAGGTAAATGGTG
1 AGCTTGTGTGGGCTTTAAAAAGAAAAAAGTATCCTACTCTTTAAGGACTAAAAAGGTAAAAAGTG
***
212129 CCACCAACTTATGTGGGCTTTAGAAGAAAAAACGTTTTACTCTTTAAGGACTAAAAAAAGGTAAA
66 CCACCAACTTATGTGGGCTTTAGAAGAAAAAACGCCCTACTCTTTAAGGACTAAAAAAAGGTAAA
* * * * *
212194 AGATGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAGTGTCGTACTTTTTGAGGACTAAAAGGT
131 AGATGCCACCAGCTTGTATGGGCTGTAAAAGGAAAAAGTGCCCTACTTTTTGAGAACTAAAAGGT
212259 GCCACT
196 GCCACT
* ** *
212265 AGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCCTCCTACTCTTTGAA-GATTAAAAAG
1 AGCTTGTGTGGGCTTT-AAAAAGAAAAAAGTATCCTACTCTTT-AAGGACTAAAAAG
212321 TGTCACTAGC
Statistics
Matches: 225, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
201 42 0.19
202 38 0.17
203 144 0.64
204 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (201 bp):
AGCTTGTGTGGGCTTTAAAAAGAAAAAAGTATCCTACTCTTTAAGGACTAAAAAGGTAAAAAGTG
CCACCAACTTATGTGGGCTTTAGAAGAAAAAACGCCCTACTCTTTAAGGACTAAAAAAAGGTAAA
AGATGCCACCAGCTTGTATGGGCTGTAAAAGGAAAAAGTGCCCTACTTTTTGAGAACTAAAAGGT
GCCACT
Found at i:212114 original size:62 final size:62
Alignment explanation
Indices: 211987--212604 Score: 469
Period size: 63 Copynumber: 9.6 Consensus size: 62
211977 TAAAAAAAGG
* * * * ** * *
211987 TAAAAAGTGCCACTAGCTTGTATGGGCTGTAAAAGGAAAAAAGGTGCCCTATTCTTTGAGAAC
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAG-AAAAAGGTATCCTACTCTTTGAGGAC
* * *
212050 TAAAAGGTGCCACTAGCTTATGTGGGCTTTAAAAAGAAAAAGGTATCCTGCTCTTTAAGGAC
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAAAGGTATCCTACTCTTTGAGGAC
* * * * * *
212112 TAAAAAGGTAAATGGTGCCACCAACTTATGTGGGCTTT-AGAAGAAAAAACGT-T-TTACTCTTT
1 T----A---AAA-GGTGCCACTAGCTTGTGTGGGCTTTAAAAAG-AAAAAGGTATCCTACTCTTT
*
212174 AAGGAC
57 GAGGAC
* * * * *
212180 TAAAAAAAGGTAAAAGATGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAA-GTGTCGTACTTTT
1 T---AAAA-G-----G-TGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAAAGGTATCCTACTCTT
212244 TGAGGAC
56 TGAGGAC
* * ** * *
212251 TAAAAGGTGCCACTAGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCCTCCTACTCTTTGAAGAT
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTT-AAAAAGAAAAAGGTATCCTACTCTTTGAGGAC
* * * * *** * *
212314 TAAAAAGTGTCACTAGCTTGTATGGGCTTTAAAAGAAAAAAAAACATCCTACTTTTTGAAGAC
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAA-AGAAAAAGGTATCCTACTCTTTGAGGAC
* * * *
212377 T-AAAGGTGCCACCAGCTTGTGTGAGC-TTGAAAAGAAAAAAGGTGTCCTACTCTTTGAGGAC
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAG-AAAAAGGTATCCTACTCTTTGAGGAC
* * * * *
212438 TAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAAAAAGAAAAAGGCATCCCACTCTTTGAGGAT
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTT-AAAAAGAAAAAGGTATCCTACTCTTTGAGGAC
* * *
212501 TAAAAGGTGCCACTAGCTTGTGTGGGCTTT-AAAAGAAAAAGAAAAGCATCTTGCTCTTTGAGGA
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAAAG----GTATCCTACTCTTTGAGGA
212565 C
62 C
*
212566 TAAAAGGTACCACTAGCTTGTGTGGGC-TTAAAAAGAAAA
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAA
212605 GGAAAGGCAC
Statistics
Matches: 455, Mismatches: 70, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
60 1 0.00
61 58 0.13
62 79 0.17
63 147 0.32
64 11 0.02
65 51 0.11
66 1 0.00
67 5 0.01
68 18 0.04
69 11 0.02
70 57 0.13
71 16 0.04
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (62 bp):
TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAAAGGTATCCTACTCTTTGAGGAC
Found at i:212146 original size:133 final size:131
Alignment explanation
Indices: 211917--212160 Score: 283
Period size: 133 Copynumber: 1.8 Consensus size: 131
211907 ACTAAAAAGG
* * * **
211917 TAAAAAGTGCCACCAACTTATGTGGGCTTTAGAAGAAAAAGTGCCCTACTTTTTTTGGACTAAAA
1 TAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGTACCCTACTCTTTAAGGACT-AAA
* * *
211982 AAAGGTAAAAAGTGCCACTAGCTTGTATGGGCTGTAAAAGGAAAAAAGGTGCCCTATTCTTTGAG
65 AAAGGTAAAAAGTGCCACCAACTTATATGGGCTGTAAAA-GAAAAAAGGTGCCCTATTCTTTGAG
212047 AAC
129 AAC
* * * * *
212050 TAAAAGGTGCCACTAGCTTATGTGGGCTTTAAAAAGAAAAAGGTATCCTGCTCTTTAAGGACT-A
1 TAAAAAGTGCCACCAACTTATGTGGGCTTT-AAAAGAAAAA-GTACCCTACTCTTTAAGGACTAA
** * * *
212114 AAAAGGTAAATGGTGCCACCAACTTATGTGGGCTTTAGAAGAAAAAA
64 AAAAGGTAAAAAGTGCCACCAACTTATATGGGCTGTAAAAGAAAAAA
212161 CGTTTTACTC
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
132 7 0.08
133 60 0.66
134 9 0.10
135 15 0.16
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (131 bp):
TAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGTACCCTACTCTTTAAGGACTAAAA
AAGGTAAAAAGTGCCACCAACTTATATGGGCTGTAAAAGAAAAAAGGTGCCCTATTCTTTGAGAA
C
Found at i:212354 original size:124 final size:123
Alignment explanation
Indices: 212190--212604 Score: 458
Period size: 124 Copynumber: 3.3 Consensus size: 123
212180 TAAAAAAAGG
* * * ** *
212190 TAAAAGATGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAGTGTCGTACTTTTTGAGGACTAAA
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAAGCATCCTACTTTTTGAGGACTAAA
* * *
212255 AGGTGCCACTAGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCCTCCTACTCTTTGAAGAT
66 AGGTGCCACTAGCTTGTGT-GGCTTTGAAAAAGAAAAAAGCATCCTACTCTTTGAGGAC
* * * * *
212314 TAAAAAGTGTCACTAGCTTGTATGGGCTTTAAAAGAAAAAAAAACATCCTACTTTTTGAAGACT-
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAG--AAAAAAGCATCCTACTTTTTGAGGACTA
* **
212378 AAAGGTGCCACCAGCTTGTGTGAGC-TTG-AAAAGAAAAAAGGTGTCCTACTCTTTGAGGAC
64 AAAGGTGCCACTAGCTTGTGTG-GCTTTGAAAAAGAAAAAA-GCATCCTACTCTTTGAGGAC
* * * * * *
212438 TAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAAAAAGAAAAAGGCATCCCACTCTTTGAGGATTA
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTT--AAAAGAAAAAAGCATCCTACTTTTTGAGGACTA
* * * *
212503 AAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCTTGCTCTTTGAGGAC
64 AAAGGTGCCACTAGCTTGTGT-GGCTTTGAAA-AAGAA-AAAAGCATCCTACTCTTTGAGGAC
* *
212566 TAAAAGGTACCACTAGCTTGTGTGGGCTTAAAAAGAAAA
1 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAA
212605 GGAAAGGCAC
Statistics
Matches: 241, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
123 11 0.05
124 96 0.40
125 44 0.18
126 38 0.16
127 2 0.01
128 46 0.19
129 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (123 bp):
TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAAGCATCCTACTTTTTGAGGACTAAA
AGGTGCCACTAGCTTGTGTGGCTTTGAAAAAGAAAAAAGCATCCTACTCTTTGAGGAC
Found at i:212464 original size:187 final size:189
Alignment explanation
Indices: 212190--212604 Score: 611
Period size: 187 Copynumber: 2.2 Consensus size: 189
212180 TAAAAAAAGG
* * * * *
212190 TAAAAGATGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAGTGTCGTACTTTTTGAGGACTAAA
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTAAAAAGAAAAAAGTGTCCTACTCTTTGAGGACTAAA
* * *
212255 AGGTGCCACTAGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCCTCCTACTCTTTGAAGATTAAAAA
66 AGGTGCCACCAGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCATCCCACTCTTTGAAGATTAAAAA
* *
212320 GTGTCACTAGCTTGTATGGGCTTTAAAAGAAAAA-AAAA-CATCCTACTTTTTGAAGAC
131 GTGCCACTAGCTTGTATGGGCTTTAAAAGAAAAAGAAAAGCATCCTACTCTTTGAAGAC
* *
212377 T-AAAGGTGCCACCAGCTTGTGTGAGCTTGAAAAGAAAAAAGGTGTCCTACTCTTTGAGGACTAA
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTAAAAAGAAAAAA-GTGTCCTACTCTTTGAGGACTAA
* *
212441 AAGGTGCCACCAGCTTGTGTAGGCTTTGAAAAAGAAAAAGGCATCCCACTCTTTGAGGATTAAAA
65 AAGGTGCCACCAGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCATCCCACTCTTTGAAGATTAAAA
* * * * *
212506 GGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCTTGCTCTTTGAGGAC
130 AGTGCCACTAGCTTGTATGGGCTTTAAAAGAAAAAGAAAAGCATCCTACTCTTTGAAGAC
* *
212566 TAAAAGGTACCACTAGCTTGTGTGGGCTTAAAAAGAAAA
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTAAAAAGAAAA
212605 GGAAAGGCAC
Statistics
Matches: 202, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
186 35 0.17
187 114 0.56
188 4 0.02
189 16 0.08
190 33 0.16
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (189 bp):
TAAAAGGTGCCACCAGCTTGTGTGGGCTTAAAAAGAAAAAAGTGTCCTACTCTTTGAGGACTAAA
AGGTGCCACCAGCTTGTGTAGGCTTTGAAAAAGAAAAAAGCATCCCACTCTTTGAAGATTAAAAA
GTGCCACTAGCTTGTATGGGCTTTAAAAGAAAAAGAAAAGCATCCTACTCTTTGAAGAC
Found at i:213879 original size:32 final size:32
Alignment explanation
Indices: 213811--213975 Score: 151
Period size: 32 Copynumber: 5.2 Consensus size: 32
213801 GCTTTTCTTC
* *
213811 AAAGCCCACACAAGCTGGTGGCAACCTTCTTC-
1 AAAGCCCACACAAGTTGGTGGCAACCCT-TTCT
**
213843 AAAGCCCACACAAGTTGGTGGTGACCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* ** * *
213875 AAAGCCCACATAAGTCAGTGCCAACCCTATCT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* * *
213907 AAAG--CGCACAAGTCGGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* *
213937 AAAGCCCGCACAAGTTGGTGGCATCTCC-TTCT
1 AAAGCCCACACAAGTTGGTGGCAAC-CCTTTCT
213969 -AAGCCCA
1 AAAGCCCA
213976 ATGTCATTGG
Statistics
Matches: 108, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
30 24 0.22
31 9 0.08
32 73 0.68
33 2 0.02
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.20
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
Found at i:213970 original size:62 final size:63
Alignment explanation
Indices: 213811--213970 Score: 155
Period size: 62 Copynumber: 2.5 Consensus size: 63
213801 GCTTTTCTTC
* * * ** *
213811 AAAGCCCACACAAGCTGGTGGCAACCTTCTTC-AAAGCCCACACAAGTTGGTGGTGACCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CTCCTTCTAAAG-CCACACAAGTCGGTGGCAACCCTTTCA
* ** * *
213875 AAAGCCCACATAAGTCAGTGCCAAC-CCTATCTAAAG-CGCACAAGTCGGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAACTCCT-TCTAAAGCCACACAAGTCGGTGGCAACCCTTTCA
* *
213937 AAAGCCCGCACAAGTTGGTGGCATCTCCTTCTAA
1 AAAGCCCACACAAGTTGGTGGCAACTCCTTCTAA
213971 GCCCAATGTC
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
62 47 0.62
63 6 0.08
64 23 0.30
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (63 bp):
AAAGCCCACACAAGTTGGTGGCAACTCCTTCTAAAGCCACACAAGTCGGTGGCAACCCTTTCA
Found at i:214161 original size:49 final size:49
Alignment explanation
Indices: 214091--214258 Score: 138
Period size: 49 Copynumber: 3.2 Consensus size: 49
214081 TGTCACTAGG
* *
214091 CTTAAATCAGCACACTGGCACCCTCACCTTTAAGTCCGATATCGCTGGC
1 CTTAAATCAGCACACTAGCACCCTCATCTTTAAGTCCGATATCGCTGGC
* * *
214140 CTTAAATCAGCATATTAGCACCTTTATCATCCTTCTCATCTTTAAGTCCAATGTCGCTGGC
1 CTTAAATCAGC-----A-CA-C--TAGCA-CC--CTCATCTTTAAGTCCGATATCGCTGGC
* * * *
214201 CTTGAATCAGCACACTAGCACCATCATCTTTAAGTCCGATATTGTTGGC
1 CTTAAATCAGCACACTAGCACCCTCATCTTTAAGTCCGATATCGCTGGC
*
214250 CTTGAATCA
1 CTTAAATCA
214259 TCATATTAGC
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
49 42 0.44
51 2 0.02
52 4 0.04
54 2 0.02
55 4 0.04
56 2 0.02
58 3 0.03
59 2 0.02
61 34 0.36
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (49 bp):
CTTAAATCAGCACACTAGCACCCTCATCTTTAAGTCCGATATCGCTGGC
Found at i:214164 original size:110 final size:110
Alignment explanation
Indices: 214005--214275 Score: 384
Period size: 110 Copynumber: 2.5 Consensus size: 110
213995 AGCACATTGG
* * * *
214005 CACCTTTAAGTCTGATATCGCTGGCTTTGAATCAGCATCTTGGCACCTTTATCATCCTTCTCATC
1 CACCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATCCTTCTCATC
* *
214070 TTTAAGT-CAATTGTCACTAGG-CTTAAATCAGCACACTGGCACCCT
66 TTTAAGTCCAA-TGTCACT-GGCCTTAAATCAGCACACTAGCACCAT
*
214115 CACCTTTAAGTCCGATATCGCTGGCCTTAAATCAGCATATTAGCACCTTTATCATCCTTCTCATC
1 CACCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATCCTTCTCATC
* *
214180 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACACTAGCACCAT
66 TTTAAGTCCAATGTCACTGGCCTTAAATCAGCACACTAGCACCAT
* * * * *
214225 CATCTTTAAGTCCGATATTGTTGGCCTTGAATCATCATATTAGCATCTTTA
1 CACCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTA
214276 ACATTCCTAA
Statistics
Matches: 144, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
109 2 0.01
110 139 0.97
111 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (110 bp):
CACCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATCCTTCTCATC
TTTAAGTCCAATGTCACTGGCCTTAAATCAGCACACTAGCACCAT
Found at i:215234 original size:51 final size:50
Alignment explanation
Indices: 215166--215285 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 50
215156 TTTTACTGTT
* * * * *
215166 TGTATTAATACATTATTCATTATATCGATACATTCTGGGTTTTTACCTAGA
1 TGTATTGATACATTATTCATTATATCGATACATTCT-AGATTTCACCCAGA
* * *
215217 TGTATTGATACACTATTCATTGTATTGATACATTCTAGATTTCACCCAGA
1 TGTATTGATACATTATTCATTATATCGATACATTCTAGATTTCACCCAGA
*
215267 TATATTGATACATTATTCA
1 TGTATTGATACATTATTCA
215286 AGTATTAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 27 0.46
51 32 0.54
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (50 bp):
TGTATTGATACATTATTCATTATATCGATACATTCTAGATTTCACCCAGA
Found at i:217918 original size:13 final size:13
Alignment explanation
Indices: 217900--217924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217890 ACAATGAACA
217900 TGTATCGATACAT
1 TGTATCGATACAT
217913 TGTATCGATACA
1 TGTATCGATACA
217925 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:217941 original size:33 final size:32
Alignment explanation
Indices: 217881--217945 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
217871 TAGTTGTCCA
*
217881 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
217913 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
217946 ATGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:220468 original size:20 final size:20
Alignment explanation
Indices: 220440--220478 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
220430 TGTATCGATA
220440 CAATATATCGATACATTCTT
1 CAATATATCGATACATTCTT
*
220460 CAATGTATCGATACATTCT
1 CAATATATCGATACATTCT
220479 GGAAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (20 bp):
CAATATATCGATACATTCTT
Found at i:224968 original size:3 final size:3
Alignment explanation
Indices: 224960--224993 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
224950 TCTGAGTCAC
* *
224960 CAT CAT CAT CAT CAT CAT TAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
224994 CTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:226688 original size:19 final size:19
Alignment explanation
Indices: 226644--226731 Score: 98
Period size: 19 Copynumber: 4.9 Consensus size: 19
226634 CTGCCAGTTT
* **
226644 CATGTATCGATATAATTGTC
1 CATGTATCGATACAA-TGAA
226664 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
226683 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
226697 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
226715 CATGTATCGATACAATG
1 CATGTATCGATACAATG
226732 TATCGATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
13 12 0.20
14 1 0.02
18 1 0.02
19 31 0.53
20 14 0.24
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:226702 original size:13 final size:13
Alignment explanation
Indices: 226684--226741 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
226674 TACAATGAAC
226684 ATGTATCGATACA
1 ATGTATCGATACA
226697 ATGTATCGATAC-
1 ATGTATCGATACA
226709 A---AT-GA-AC-
1 ATGTATCGATACA
226716 ATGTATCGATACA
1 ATGTATCGATACA
226729 ATGTATCGATACA
1 ATGTATCGATACA
226742 TCTGGGTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 25 0.64
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:226706 original size:32 final size:32
Alignment explanation
Indices: 226665--226741 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
226655 ATAATTGTCC
226665 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
226697 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
226729 ATGTATCGATACA
1 ATGTATCGATACA
226742 TCTGGGTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:228126 original size:79 final size:79
Alignment explanation
Indices: 227995--228170 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 79
227985 GGAGATGACG
* * * * * * *
227995 ACAGGGCTGGAGTATCCCTGATTATGGAAAATCGATGTTCTGGAAATAAAATCGGGGTTGGAGTA
1 ACAGGGTTGGAGTATCCCTGATTATAGAAAATCGATATTCTGAAAATAAAATCAGAGTTGAAGTA
* ***
228060 TCTCCTTGGAAATA
66 TCCCCTCAAAAATA
* * *
228074 ACAGGGTTGGAGTATCCCT-ATTTATAGAAAATTGGTATTTTGAAAATAAAATCAGAGTTGAAGT
1 ACAGGGTTGGAGTATCCCTGA-TTATAGAAAATCGATATTCTGAAAATAAAATCAGAGTTGAAGT
228138 ATCCCCTCAAAAATA
65 ATCCCCTCAAAAATA
*
228153 ACGGGGTTGGAGTATCCC
1 ACAGGGTTGGAGTATCCC
228171 CGCGAAAATA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 80 0.99
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
ACAGGGTTGGAGTATCCCTGATTATAGAAAATCGATATTCTGAAAATAAAATCAGAGTTGAAGTA
TCCCCTCAAAAATA
Found at i:228161 original size:28 final size:28
Alignment explanation
Indices: 228130--228200 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
228120 TAAAATCAGA
* *
228130 GTTGAAGTATCCCCTCAAAAATAACGGG
1 GTTGGAGTATCCCCGCAAAAATAACGGG
* *
228158 GTTGGAGTATCCCCGCGAAAATAATGGG
1 GTTGGAGTATCCCCGCAAAAATAACGGG
228186 GTTGGAGTATCCCCG
1 GTTGGAGTATCCCCG
228201 ATTGTGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (28 bp):
GTTGGAGTATCCCCGCAAAAATAACGGG
Found at i:228296 original size:78 final size:78
Alignment explanation
Indices: 228156--228363 Score: 303
Period size: 78 Copynumber: 2.7 Consensus size: 78
228146 AAAAATAACG
* *
228156 GGGTTGGAGTATCCCCGCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
*
228221 TATGAATAAAACCA
66 TAGGAAT-AAACCA
* * *
228235 GGGTTGGA-TATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
* *
228299 TAGGAATAAAGCT
66 TAGGAATAAACCA
*
228312 GGAGTTGGAGTATCCCCTCGAAAATAACAGGG-TGGAGTATCCCCGATTGTGA
1 GG-GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGA
228364 AAAACTGGTG
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
77 6 0.05
78 82 0.71
79 28 0.24
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
TAGGAATAAACCA
Found at i:228399 original size:79 final size:77
Alignment explanation
Indices: 228158--228407 Score: 272
Period size: 78 Copynumber: 3.2 Consensus size: 77
228148 AAATAACGGG
* *
228158 GTTGGAGTATCCCCGCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAAT-AATATTTT-
* *
228223 T-GAATAAAACCAGG
64 TGGAATAAAACGA-A
* * *
228237 GTTGGA-TATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATTAATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAA-TAATATTTTT
* *
228301 GGAATAAAGCTGGA
65 GGAATAAAAC-GAA
* * ** *
228315 GTTGGAGTATCCCCTCGAAAATAACAGGG-TGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAA-TAATATTTTT
228379 GGAAATAAAATCGAA
65 GG-AATAAAA-CGAA
*
228394 CTTGGAGTATCCCC
1 GTTGGAGTATCCCC
228408 GATTAAAGGA
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
78 95 0.66
79 48 0.33
80 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (77 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATAATATTTTTG
GAATAAAACGAA
Found at i:228407 original size:52 final size:51
Alignment explanation
Indices: 228344--228525 Score: 211
Period size: 51 Copynumber: 3.5 Consensus size: 51
228334 AATAACAGGG
* * * ***
228344 TGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTTGGAAATAAAATCGAACT
1 TGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACCGGGGT
* * *
228396 TGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGT
1 TGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGT
* * * * * *
228448 TAGAGTATCCACGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGT
1 TGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGT
228499 TGGAGTATCCCCGATTATGAAAAATTG
1 TGGAGTATCCCCGATTATGAAAAATTG
228526 AGAAACTTAA
Statistics
Matches: 108, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
51 52 0.48
52 46 0.43
53 10 0.09
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
TGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGT
Found at i:230972 original size:19 final size:21
Alignment explanation
Indices: 230948--230999 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
230938 AGCGATACAC
*
230948 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
230967 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
230988 TGTATCGATACA
1 TGTATCGATACA
231000 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:235869 original size:20 final size:20
Alignment explanation
Indices: 235829--235902 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
235819 TTCAACAATT
* *
235829 TGTATCGATATAAACAGTAAA
1 TGTATCGATACATA-AGTAAA
235850 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAAGTAAA
***
235870 TGTATCGATACATGTCTGAAA
1 TGTATCGATACATAAGT-AAA
235891 TGTATCGATACA
1 TGTATCGATACA
235903 AAATCATTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 20 0.43
21 27 0.57
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:235975 original size:20 final size:20
Alignment explanation
Indices: 235950--235987 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235940 CATGCTCACA
*
235950 ATTGTATCGATACATTATTC
1 ATTGTATCGATAAATTATTC
*
235970 ATTGTATTGATAAATTAT
1 ATTGTATCGATAAATTAT
235988 GAGTTTATGA
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:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTGTATCGATAAATTATTC
Found at i:238664 original size:13 final size:14
Alignment explanation
Indices: 238646--238679 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
238636 GTCCCTTATT
*
238646 TTTTATATTG-TTA
1 TTTTATATAGATTA
238659 TTTTATATAGATTA
1 TTTTATATAGATTA
238673 TTTTATA
1 TTTTATA
238680 CAACATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTATATAGATTA
Found at i:242746 original size:21 final size:21
Alignment explanation
Indices: 242717--242790 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
242707 CTACAATTTT
*
242717 TATCAATACAAATAATAAATG
1 TATCGATACAAATAATAAATG
* *
242738 TATCGATACATA-AATGAATG
1 TATCGATACAAATAATAAATG
* * *
242758 TATTGATGC--ATACCTAAAATG
1 TATCGATACAAATA-AT-AAATG
242779 TATCGATACAAA
1 TATCGATACAAA
242791 ACCACCTTGC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 15 0.38
21 21 0.54
23 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (21 bp):
TATCGATACAAATAATAAATG
Found at i:242759 original size:20 final size:21
Alignment explanation
Indices: 242733--242788 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
242723 TACAAATAAT
242733 AAATGTATCGATACATAAAT-
1 AAATGTATCGATACATAAATA
* * * **
242753 GAATGTATTGATGCATACCTA
1 AAATGTATCGATACATAAATA
242774 AAATGTATCGATACA
1 AAATGTATCGATACA
242789 AAACCACCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (21 bp):
AAATGTATCGATACATAAATA
Found at i:242838 original size:20 final size:20
Alignment explanation
Indices: 242813--242870 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
242803 TCTGCAAAGG
242813 AAATGTATCGATACATGAGT
1 AAATGTATCGATACATGAGT
* **
242833 AAATGTATCGATACAAGCTT
1 AAATGTATCGATACATGAGT
242853 ACAATTGTATCGATACAT
1 A-AA-TGTATCGATACAT
242871 TCTAGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
AAATGTATCGATACATGAGT
Found at i:245379 original size:54 final size:54
Alignment explanation
Indices: 245276--245380 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
245266 TCCAACCTGC
*
245276 TTTTATCTCCAAAATATTAAAATCTTCATCTTGGGCATACTCCACCCCCATTTT
1 TTTTATCTCCAAAATATTAAAATCTTCATCTTGGGCATACTCCAACCCCATTTT
* * * * * *
245330 TTTTATTTCCAAAATATTAAATTTTTCATCTTGGGGATGCTTCAACCCCAT
1 TTTTATCTCCAAAATATTAAAATCTTCATCTTGGGCATACTCCAACCCCAT
245381 CAATTTCAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (54 bp):
TTTTATCTCCAAAATATTAAAATCTTCATCTTGGGCATACTCCAACCCCATTTT
Found at i:245463 original size:50 final size:49
Alignment explanation
Indices: 245409--245506 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 49
245399 CCAACCCCGC
* *
245409 TTTTATTTCCAAAATGCTAAATTTTTCATCTTAGGATACTCCAA-CTCTTT
1 TTTTATTTCCAAAATACTAAATTTTTC-TC-GAGGATACTCCAACCTCTTT
** * *
245459 TTTTATTTTTAAAATATTAAATTTTTCTCGAGGGTACTCCAACCTCTT
1 TTTTATTTCCAAAATACTAAATTTTTCTCGAGGATACTCCAACCTCTT
245507 ATTTCCGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 11 0.27
49 7 0.17
50 23 0.56
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (49 bp):
TTTTATTTCCAAAATACTAAATTTTTCTCGAGGATACTCCAACCTCTTT
Found at i:245599 original size:126 final size:126
Alignment explanation
Indices: 245394--245630 Score: 307
Period size: 126 Copynumber: 1.9 Consensus size: 126
245384 TTTCAAGGGT
* * * **
245394 ATACTCCAACCCCGCTTTTATTTCCAAAATGCTAAATTTTTCATCTTAGGATACTCCAACTCTTT
1 ATACTCCAACCCCGCTTTTATTTCCAAAATGATAAATTTTTCATCTGAGGATACTCCAACCCCAT
** *
245459 TTTTATTTTTAAAATATTAAATTTT-TCTCGAGGGTACTCCAACCTCTTATTTCCGAAAAA
66 TTTTATTTCAAAAATATTAAATTTTATCTCGAGGATACTCCAACCTCTTATTTCCGAAAAA
* * * ** *
245519 ATACTCTAGCCCCGTTTTTATTTCCAAAAAT-ATTGATTTTTCATCTCGGGGATACTCCAACCCC
1 ATACTCCAACCCCGCTTTTATTTCC-AAAATGATAAATTTTTCATCT-GAGGATACTCCAACCCC
245583 ATTTTTATTTCAAAAATATTAAATTTTCATCTCGAGGATACTCCAACC
64 ATTTTTATTTCAAAAATATTAAATTTT-ATCTCGAGGATACTCCAACC
245631 CCATATTACG
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
125 34 0.36
126 42 0.45
128 18 0.19
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (126 bp):
ATACTCCAACCCCGCTTTTATTTCCAAAATGATAAATTTTTCATCTGAGGATACTCCAACCCCAT
TTTTATTTCAAAAATATTAAATTTTATCTCGAGGATACTCCAACCTCTTATTTCCGAAAAA
Found at i:245616 original size:50 final size:51
Alignment explanation
Indices: 245519--245634 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 51
245509 TTCCGAAAAA
* * * * * *
245519 ATACTCTAGCCCCGTTTTTATTTCCAAAAATATTGATTTTTCATCTCGGGG
1 ATACTCCAACCCCATTTTTATTTCCAAAAATATTAAATTTTCATCTCGAGG
245570 ATACTCCAACCCCATTTTTATTT-CAAAAATATTAAATTTTCATCTCGAGG
1 ATACTCCAACCCCATTTTTATTTCCAAAAATATTAAATTTTCATCTCGAGG
245620 ATACTCCAACCCCAT
1 ATACTCCAACCCCAT
245635 ATTACGACGG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 39 0.66
51 20 0.34
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (51 bp):
ATACTCCAACCCCATTTTTATTTCCAAAAATATTAAATTTTCATCTCGAGG
Found at i:247150 original size:333 final size:333
Alignment explanation
Indices: 246547--247207 Score: 902
Period size: 333 Copynumber: 2.0 Consensus size: 333
246537 TTACTTGAAG
* * *
246547 TTTTTTCCGAAATACAGAGTTTTCTACTTCGTAAATTTTTTCAGAGGAATTTTTCTTTGTTTTTA
1 TTTTTTCCAAAATACAGAGGTTTCTACTCCGTAAATTTTTTCAGAGGAATTTTTCTTTGTTTTTA
* * * * *
246612 ATTTTTAAAATTCATCAAATAATATTATTTATTTCATATTAAATTAGTTCTCAAAGATTCATTCA
66 ATTTTGAAAAGTCATCAAACAATATTAATTATTTCATATTAAATTAGTTCTCAAAAATTCATTCA
** ** * *
246677 TTTTCATAATTTTTTTTATTTTTTCCTTGAAATTCTTTTTTTCTAAAATATGAAGTTTTCTACTC
131 TTTTCATAATAATTTGAATTTTTTCCTTCAAATTCTTTTTTTCTAAAATACGAAGTTTTCTACTC
* * * **
246742 CATAATTTTTTTGGGGGAATTTTTCTTGATTTTTAATTTTTTAAAGTCATCATTTATTATTATTT
196 CATAATTCTTTCGGGGGAATTTTTCTTGATTTTTAATTTTTAAAAGTCATCAAATATTATTATTT
246807 ATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTGTTTTCCTTGA
261 ATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTGTTTTCCTTGA
246872 AATTTCTT
326 AATTTCTT
* * *
246880 TTTTTTCCAAAATATAGAGGTTT-TACTCCGTAAATTCTTTT-GGAGGGATTTTT-TTTGTTTTT
1 TTTTTTCCAAAATACAGAGGTTTCTACTCCGTAAATT-TTTTCAGAGGAATTTTTCTTTG-TTTT
* * * * *
246942 TAATTTTGAAAAGTCATCAAACATTATTAATTATTTTATATTAATTTAGTTTTTAAAAATTCATT
64 TAATTTTGAAAAGTCATCAAACAATATTAATTATTTCATATTAAATTAGTTCTCAAAAATTCATT
* * *
247007 CATTTTCATAA-AATTTGAATTTTTTCCTTCAAATTTCCTTTTTTTTTGAAATACGGAGTTTT-T
129 CATTTTCATAATAATTTGAATTTTTTCCTTCAAA-TT-CTTTTTTTCTAAAATACGAAGTTTTCT
* * *
247070 ACTCCGTAAATTCTTTCGGAGGGAGTTTTT-TTGTTTTTTAATTTTTAAAAGTCATCAAATATTA
192 ACTCCAT-AATTCTTTCGG-GGGAATTTTTCTTGATTTTTAATTTTTAAAAGTCATCAAATATTA
* * *
247134 TTATTTATTTCATATTAATTTAGTTTTCAAAATTTCATTCATTTCCATGAATTTTGAATTTTTTT
255 TTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTGTTTT
247199 CCTTGAAAT
320 CCTTGAAAT
247208 CCCCTTTATC
Statistics
Matches: 286, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
331 21 0.07
332 101 0.35
333 155 0.54
334 9 0.03
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.53
Consensus pattern (333 bp):
TTTTTTCCAAAATACAGAGGTTTCTACTCCGTAAATTTTTTCAGAGGAATTTTTCTTTGTTTTTA
ATTTTGAAAAGTCATCAAACAATATTAATTATTTCATATTAAATTAGTTCTCAAAAATTCATTCA
TTTTCATAATAATTTGAATTTTTTCCTTCAAATTCTTTTTTTCTAAAATACGAAGTTTTCTACTC
CATAATTCTTTCGGGGGAATTTTTCTTGATTTTTAATTTTTAAAAGTCATCAAATATTATTATTT
ATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTGTTTTCCTTGA
AATTTCTT
Found at i:247319 original size:166 final size:167
Alignment explanation
Indices: 246547--247364 Score: 829
Period size: 166 Copynumber: 4.9 Consensus size: 167
246537 TTACTTGAAG
* *
246547 TTTTTTCCGAAATAC-AGAGTTTTCTACTTCGTAAATTTTTTC-AGAGGAATTTTTCTTTG-TTT
1 TTTTTTCCAAAATACGA-AGTTTTCTACTCCGTAAATTTTTTCGAG-GGAATTTTTC-TTGATTT
* * * * *
246609 TTAATTTTTAAAATTCATCAAATAATATTATTTATTTCATATTAAATTAGTTCTCAAAGATTCAT
63 TTAATTTTTAAAAGTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCAT
* ***
246674 TCATTTTCAT-AATTTTTTTTATTTTTTCCTTGAAATT-CT
128 TCATTTCCATAAATTTTGAAT-TTTTTTCCTTGAAATTCCT
* * * * *
246713 TTTTTTCTAAAATATGAAGTTTTCTACTCCAT-AATTTTTTTGGGGGAATTTTTCTTGATTTTTA
1 TTTTTTCCAAAATACGAAGTTTTCTACTCCGTAAATTTTTTCGAGGGAATTTTTCTTGATTTTTA
* **
246777 ATTTTTTAAAGTCATCATTTATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCA
66 ATTTTTAAAAGTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCA
* *
246842 TTTCCATAAATTTTGAATTGTTTTCCTTGAAATTTCTT
131 TTTCCATAAATTTTGAATTTTTTTCCTTGAAA-TTCCT
* * * * *
246880 TTTTTTCCAAAATA-TAGAGGTTT-TACTCCGTAAATTCTTTTGGAGGG-ATTTTTTTTGTTTTT
1 TTTTTTCCAAAATACGA-AGTTTTCTACTCCGTAAATT-TTTTCGAGGGAATTTTTCTTGATTTT
* * * * *
246942 TAATTTTGAAAAGTCATCAAACATTATTAATTATTTTATATTAATTTAGTTTTTAAAAATTCATT
64 TAATTTTTAAAAGTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATT
* * *
247007 CATTTTCATAAAATTTGAA-TTTTTTCCTTCAAATTTCCT
129 CATTTCCATAAATTTTGAATTTTTTTCCTTGAAA-TTCCT
*** * * * *
247046 TTTTTTTTGAAATACGGAGTTTT-TACTCCGTAAATTCTTTCGGAGGGAGTTTTT-TTGTTTTTT
1 TTTTTTCCAAAATACGAAGTTTTCTACTCCGTAAATTTTTTC-GAGGGAATTTTTCTTGATTTTT
*
247109 AATTTTTAAAAGTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAATTTCATTC
65 AATTTTTAAAAGTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
* *
247174 ATTTCCATGAATTTTGAATTTTTTTCCTTGAAA-TCCC
130 ATTTCCATAAATTTTGAATTTTTTTCCTTGAAATTCCT
* * * * * * * * **
247211 CTTTATCCAAAAAACCAAGTTTTCTACTCCATATATTTTTTCAAGGGAATGTTTCTTGATTTAAA
1 TTTTTTCCAAAATACGAAGTTTTCTACTCCGTAAATTTTTTCGAGGGAATTTTTCTTGATTTTTA
* * * ** ** * * * *
247276 ATTTTTAAAATTCATCTAATATT-TTCATTGAACTCCCATTAATTCAGTTTTGAAAATTTTAATT
66 ATTTTTAAAAGTCATCAAATATTATT-ATTTATTTCATATTAATTTAGTTTTCAAAA-ATTCATT
* *
247340 TATTT-CATTAATTTTGAATTTTTTT
129 CATTTCCATAAATTTTGAATTTTTTT
247365 GTATATAATG
Statistics
Matches: 544, Mismatches: 91, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
164 3 0.01
165 132 0.24
166 262 0.48
167 139 0.26
168 8 0.01
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (167 bp):
TTTTTTCCAAAATACGAAGTTTTCTACTCCGTAAATTTTTTCGAGGGAATTTTTCTTGATTTTTA
ATTTTTAAAAGTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCA
TTTCCATAAATTTTGAATTTTTTTCCTTGAAATTCCT
Found at i:247872 original size:21 final size:23
Alignment explanation
Indices: 247843--247895 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
247833 AAGAGTAGAG
*
247843 AAAAGAGAAAGAAAA-AAAG-AA
1 AAAATAGAAAGAAAATAAAGAAA
*
247864 AAAATAG-AAGAAAATATAGAAA
1 AAAATAGAAAGAAAATAAAGAAA
247886 AAAATAGAAA
1 AAAATAGAAA
247896 AGCTAGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 9 0.33
23 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (23 bp):
AAAATAGAAAGAAAATAAAGAAA
Found at i:247895 original size:10 final size:10
Alignment explanation
Indices: 247854--247896 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
247844 AAAGAGAAAG
247854 AAAAAA-AG-
1 AAAAAATAGA
247862 AAAAAATAGA
1 AAAAAATAGA
247872 AGAAAATATAGA
1 A-AAAA-ATAGA
247884 AAAAAATAGA
1 AAAAAATAGA
247894 AAA
1 AAA
247897 GCTAGGCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 9 0.29
11 8 0.26
12 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:249333 original size:160 final size:160
Alignment explanation
Indices: 248960--249581 Score: 883
Period size: 160 Copynumber: 3.9 Consensus size: 160
248950 AAAATTAAAC
* * * * * * * *
248960 AATATTTATTTTTTCTTATCTTTTATATTCTTATGGGCATCCGTAAGGGTATAAAAGGTTTCAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATAGACATCCATAAGGGTATAAAAGATTTAAAA
* * * *
249025 AACTTTTCGTATTCTTTCGGGCTTCCATTAGGGTAAGAAATGGTATTTTCATTATAAGT-AA-AA
66 AACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTAGGAAATGGTATTTTCA--A-AAATAAATAA
* * *
249088 TTAAATTAAAGTGATATTA-TCGAGATAAATTCT
128 TTAAATTAAATTGGTATTATTAG-GATAAATTCT
* * *
249121 AATATTTATTTTTTCTAATATTTTATATTCCTATTAG-CATCCATAGGGGTATAAAAGATTTAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTA-TAGACATCCATAAGGGTATAAAAGATTTAAA
249185 AAACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTAGGAAATGGTATTTTCAAAAATAAATAATT
65 AAACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTAGGAAATGGTATTTTCAAAAATAAATAATT
249250 AAATTAAATTGGTATTATTAGGATAAATTCT
130 AAATTAAATTGGTATTATTAGGATAAATTCT
* *
249281 AATATCTATTTTTTCTAATCTTTTTTATTCCTATAGACATTCATAAGGGTATAAAAGATTTAAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATAGACATCCATAAGGGTATAAAAGATTTAAAA
* * *
249346 AACCTTACGTATTCTTTCGAGCTTCCATTAAGGTAGGAAATGGTATTTTAAAAAATAAATAATTA
66 AACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTAGGAAATGGTATTTTCAAAAATAAATAATTA
249411 AATTAAATTGGTATTATTAGGATAAATTCT
131 AATTAAATTGGTATTATTAGGATAAATTCT
* * *
249441 AATATCTATTTTTTCTAATCTTTTTTATTCCTATAGACATTCATAAGGGTATAAAAGATTTCAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATAGACATCCATAAGGGTATAAAAGATTTAAAA
* ** *
249506 AACCTTTCGTATTCTTTCGGGCTTCCATTAGGGTACAAAATTGTATTTTCAAAAATAAATAAAAT
66 AACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTAGGAAATGGTATTTTCAAAAATAAAT--AAT
249571 TAAATTAAATT
129 TAAATTAAATT
249582 AATACTTTCA
Statistics
Matches: 423, Mismatches: 31, Indels: 13
0.91 0.07 0.03
Matches are distributed among these distances:
158 3 0.01
159 6 0.01
160 294 0.70
161 104 0.25
162 16 0.04
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (160 bp):
AATATCTATTTTTTCTAATCTTTTATATTCCTATAGACATCCATAAGGGTATAAAAGATTTAAAA
AACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTAGGAAATGGTATTTTCAAAAATAAATAATTA
AATTAAATTGGTATTATTAGGATAAATTCT
Found at i:256411 original size:47 final size:47
Alignment explanation
Indices: 256246--256848 Score: 469
Period size: 47 Copynumber: 12.9 Consensus size: 47
256236 TTTTCCAGAC
* * ****
256246 TTGTTTGACTGTATTGGCATTAAGACCTATTCAAACTCAAATT-CCA
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
* ** * *
256292 CTTTCGTTTGACTATATTGGTGTTAGGACCTAGTTAAACACTTTCTTACCA
1 --TT-GTTTGACTGTATTGGCATTAGGACCTAGTCAAAC-TTTTCTTACCA
*
256343 TTGTTTAACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
* ** * *
256390 TTGTTTGACTATATTAACATTAGGACCTAGTCAAACTTTTCTCACCT
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
* * * *
256437 TTGTTTGACTGTGTTGGCATTAGGACCTGGTCAAACTCTTTC-CA-CT
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACT-TTTCTTACCA
* *
256483 TTCGTTTGATTGTATTGGCATTAGGACCTGGTCAAACTTTT-TTCACCA
1 TT-GTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTT-ACCA
* * * * *
256531 TCGTTTGACTGTATTGGCATTAGGA-CTTGGCTAAACTCTTCTCACC-
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTC-AAACTTTTCTTACCA
** * * *
256577 TTGTTTGACTGTATTGGCATTATAACCCAGTCAAACACTTT-TTACCC
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAAC-TTTTCTTACCA
* ** * * *
256624 TTATTTGACTGTATTGGCATTAAAACCTGGGCCAACTTTTCTTACCA
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
* * ** * *
256671 TTGTTTGACTGTATTAGTATTAGGATGTGGTCAAA-TTCTTC-T-CTCT
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTT-TTCTTAC-CA
** * *
256717 TTGTTTGACTGTATTGGTGTTAGGACCTAGTCAAACTCTTT-TCACCG
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACT-TTTCTTACCA
** * * ** *
256764 TCATTTGA-TCGTATTGGCATTA-GTCTTAGTCAAACACTTCTCACC-
1 TTGTTTGACT-GTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
* *
256809 TTGTTTGACTGTATTGGCATTAGGACTTGGTCAAACTTTT
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTT
256849 TCTGTTAAGA
Statistics
Matches: 445, Mismatches: 86, Indels: 50
0.77 0.15 0.09
Matches are distributed among these distances:
45 21 0.05
46 109 0.24
47 240 0.54
48 40 0.09
49 30 0.07
50 2 0.00
51 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (47 bp):
TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTTTTCTTACCA
Found at i:256652 original size:140 final size:140
Alignment explanation
Indices: 256246--256845 Score: 559
Period size: 140 Copynumber: 4.3 Consensus size: 140
256236 TTTTCCAGAC
* * * ** * *
256246 TTGTTTGACTGTATTGGCATTAAGACCTATTCAAACTCAAATTC-CACTTTCGTTTGACTATATT
1 TTGTTTGACTGTATTAGCATTAGGACTTGGTCAAACTC---TTCTCACCTT-GTTTGACTGTATT
** * * * * *
256310 GGTGTTAGGACCTAGTTAAACACTTTCTTACCATTGTTTAACTGTATTGGCATTAGGACCTAGTC
62 GGCATTAGGACCTAGTCAAACACTTT-TCACCATTATTTGACTGTATTGGCATTAAGACCTAGTC
256375 AAACTTTTCTTACCA
126 AAACTTTTCTTACCA
* * * * * *
256390 TTGTTTGACTATATTAACATTAGGACCTAGTCAAACTTTTCTCACCTTTGTTTGACTGTGTTGGC
1 TTGTTTGACTGTATTAGCATTAGGACTTGGTCAAACTCTTCTCACC-TTGTTTGACTGTATTGGC
* * * * * * * *
256455 ATTAGGACCTGGTCAAACTCTTTCCA-CTTTCGTTTGATTGTATTGGCATTAGGACCTGGTCAAA
65 ATTAGGACCTAGTCAAACACTTTTCACCATT-ATTTGACTGTATTGGCATTAAGACCTAGTCAAA
256519 CTTTT-TTCACCA
129 CTTTTCTT-ACCA
* *
256531 TCGTTTGACTGTATTGGCATTAGGACTTGG-CTAAACTCTTCTCACCTTGTTTGACTGTATTGGC
1 TTGTTTGACTGTATTAGCATTAGGACTTGGTC-AAACTCTTCTCACCTTGTTTGACTGTATTGGC
** * * * * * * *
256595 ATTATAACCCAGTCAAACACTTTTTACCCTTATTTGACTGTATTGGCATTAAAACCTGGGCCAAC
65 ATTAGGACCTAGTCAAACACTTTTCACCATTATTTGACTGTATTGGCATTAAGACCTAGTCAAAC
256660 TTTTCTTACCA
130 TTTTCTTACCA
* * * * *
256671 TTGTTTGACTGTATTAGTATTAGGA-TGTGGTCAAATTCTTCTCTCTTTGTTTGACTGTATTGGT
1 TTGTTTGACTGTATTAGCATTAGGACT-TGGTCAAACTCTTCTCACCTTGTTTGACTGTATTGGC
* * * * * *
256735 GTTAGGACCTAGTCAAACTCTTTTCACCGTCATTTGA-TCGTATTGGCATT-AGTCTTAGTCAAA
65 ATTAGGACCTAGTCAAACACTTTTCACCATTATTTGACT-GTATTGGCATTAAGACCTAGTCAAA
** *
256798 CACTTCTCACC-
129 CTTTTCTTACCA
*
256809 TTGTTTGACTGTATTGGCATTAGGACTTGGTCAAACT
1 TTGTTTGACTGTATTAGCATTAGGACTTGGTCAAACT
256846 TTTTCTGTTA
Statistics
Matches: 376, Mismatches: 69, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
138 32 0.09
139 18 0.05
140 171 0.45
141 86 0.23
142 35 0.09
143 2 0.01
144 32 0.09
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (140 bp):
TTGTTTGACTGTATTAGCATTAGGACTTGGTCAAACTCTTCTCACCTTGTTTGACTGTATTGGCA
TTAGGACCTAGTCAAACACTTTTCACCATTATTTGACTGTATTGGCATTAAGACCTAGTCAAACT
TTTCTTACCA
Found at i:257202 original size:19 final size:19
Alignment explanation
Indices: 257163--257231 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
257153 CAGTTTCATA
*
257163 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAGAATG
*
257183 TATCGATACAATGAGCATG
1 TATCGATACAATGAGAATG
* * *
257202 TATCGATGCAAAGCATAATG
1 TATCGATACAATG-AGAATG
257222 TATCGATACA
1 TATCGATACA
257232 TCTAGAAGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 18 0.43
20 24 0.57
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (19 bp):
TATCGATACAATGAGAATG
Found at i:264374 original size:3 final size:3
Alignment explanation
Indices: 264366--264391 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
264356 CGAGTCAACT
264366 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
264392 CTTGATGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:265988 original size:13 final size:13
Alignment explanation
Indices: 265970--265994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
265960 TTAGGCACAA
265970 TGTATCGATACAT
1 TGTATCGATACAT
265983 TGTATCGATACA
1 TGTATCGATACA
265995 ATGTCGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:270168 original size:34 final size:36
Alignment explanation
Indices: 270083--270169 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 36
270073 AGTGATTAAG
*
270083 AGGTTCTATCTTAGCCTTTGAAAAAAATAGGGAGAA
1 AGGTTCTATCTTAGCCTATGAAAAAAATAGGGAGAA
* * *
270119 TGGTTCTATCTTAGCCTATG-AAAAGATATGGA-AA
1 AGGTTCTATCTTAGCCTATGAAAAAAATAGGGAGAA
*
270153 AGGTTTTATCTTAGCCT
1 AGGTTCTATCTTAGCCT
270170 GTAGAAAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 17 0.38
35 10 0.22
36 18 0.40
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (36 bp):
AGGTTCTATCTTAGCCTATGAAAAAAATAGGGAGAA
Found at i:270178 original size:34 final size:35
Alignment explanation
Indices: 270083--270185 Score: 111
Period size: 34 Copynumber: 2.9 Consensus size: 35
270073 AGTGATTAAG
* * *
270083 AGGTTCTATCTTAGCCTTTGAAAAAAATAGGGAGAA
1 AGGTTCTATCTTAGCCTAT-AGAAAGATAGGGAGAA
* *
270119 TGGTTCTATCTTAGCCTAT-GAAAAGATATGGA-AA
1 AGGTTCTATCTTAGCCTATAG-AAAGATAGGGAGAA
* *
270153 AGGTTTTATCTTAGCCTGTAGAAAGATAGGGAG
1 AGGTTCTATCTTAGCCTATAGAAAGATAGGGAG
270186 GTTCTATCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
34 28 0.51
35 10 0.18
36 17 0.31
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (35 bp):
AGGTTCTATCTTAGCCTATAGAAAGATAGGGAGAA
Found at i:270194 original size:31 final size:33
Alignment explanation
Indices: 270081--270231 Score: 125
Period size: 31 Copynumber: 4.6 Consensus size: 33
270071 AAAGTGATTA
* * *
270081 AGAGGTTCTATCTTAGCCTTTGAAAAAAATAGGG
1 AGAGGTTCTATCTTAGCCTGT-AGAAAGATAGGG
* *
270115 AGAATGGTTCTATCTTAGCCTAT-GAAAAGATATGGA
1 AG-A-GGTTCTATCTTAGCCTGTAG-AAAGATA-GGG
* *
270151 AAAGGTTTTATCTTAGCCTGTAGAAAGATA-GG
1 AGAGGTTCTATCTTAGCCTGTAGAAAGATAGGG
* *
270183 -GAGGTTCTATCTTAGACTGTTA-AAAGATA--A
1 AGAGGTTCTATCTTAGCCTG-TAGAAAGATAGGG
270213 AGAGGTTCTATCTTAGCCT
1 AGAGGTTCTATCTTAGCCT
270232 TCAAAAGATA
Statistics
Matches: 97, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
31 40 0.41
32 3 0.03
34 25 0.26
35 9 0.09
36 20 0.21
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTGTAGAAAGATAGGG
Found at i:270725 original size:41 final size:41
Alignment explanation
Indices: 270679--271482 Score: 154
Period size: 42 Copynumber: 19.1 Consensus size: 41
270669 CCCTACGGTG
*
270679 ACCTATCAGTTCAGTCTCTGGTCAACCTTCATCCATTGTTT
1 ACCTATCAGCTCAGTCTCTGGTCAACCTTCATCCATTGTTT
* * * ** * *
270720 ACCTATCAGCTCAGTCCCCGGTAAACCCCTTC-TCTCCGTGGTG
1 ACCTATCAGCTCAGTCTCTGGTCAA--CCTTCATC-CATTGTTT
* * * *
270763 ACCTGTCAGCTCAGTCTCTGATCAACCTTTCATCTATCGTTT
1 ACCTATCAGCTCAGTCTCTGGTCAACC-TTCATCCATTGTTT
* * * * *
270805 ACCTATCAGCTCACTCT-TCGGTAAACCCTTTC-TCTCCTTGGTG
1 ACCTATCAGCTCAGTCTCT-GGTCAA-CC-TTCATC-CATTGTTT
* * * * * ** * *
270848 ATCTACCGGCTTAGTCCCCAGTTAACCTTTCAT-CATTCATTT
1 ACCTATCAGCTCAGTCTCTGGTCAACC-TTCATCCATT-GTTT
* * * * * * *
270890 ACCTGTCAGCTCAGTCCCCGGTAAACCCCTTCTTTCC-TTGGTG
1 ACCTATCAGCTCAGTCTCTGGTCAA--CCTTC-ATCCATTGTTT
* * * * *
270933 ACCTGTCAGCTCAGTCTCAGATCAACCTTTCATCTATCGTTT
1 ACCTATCAGCTCAGTCTCTGGTCAACC-TTCATCCATTGTTT
* * * * * * * *
270975 ACCTGTCGGCTCACTCTCCGGTAAACCCTTTC-TCTCCTTGGTG
1 ACCTATCAGCTCAGTCTCTGGTCAA-CC-TTCATC-CATTGTTT
* * * * * *
271018 ATCTATCGGCTTAGTCCCTAGTCAACCTTTCAT-CATTCATTT
1 ACCTATCAGCTCAGTCTCTGGTCAACC-TTCATCCATT-GTTT
* * * * * * *
271060 ACCTGTCGGCTCAGTC-CTCGTTAAACTCCTTC-TCTCCTTGGTG
1 ACCTATCAGCTCAGTCTCT-GGTCAA--CCTTCATC-CATTGTTT
* * * **
271103 ACCTGTCAGCTCAGTCT-TCGATCAACTCTTCATCTATCATTT
1 ACCTATCAGCTCAGTCTCT-GGTCAAC-CTTCATCCATTGTTT
* * * *
271145 ACCTGTCAGCTCAGTC-CTCGGTAAACCCTTTCTATCC-TTGGTG
1 ACCTATCAGCTCAGTCTCT-GGTCAA-CC-TTC-ATCCATTGTTT
* * * *
271188 ACCTATC-GACTTAGTCCCCGGTCAACCTTTCAT-CATTTATTT
1 ACCTATCAG-CTCAGTCTCTGGTCAACC-TTCATCCA-TTGTTT
* ** * * * * ** *
271230 ACTTATTGGCTTAGTC-CTTGGTAAACCTTTATCCCTTAATG
1 ACCTATCAGCTCAGTCTC-TGGTCAACCTTCATCCATTGTTT
* * * * * * *
271271 ACTTGTTAGCTTAGTCCCTGGTCAACCCTTCATCCCTTATTT
1 ACCTATCAGCTCAGTCTCTGGTCAA-CCTTCATCCATTGTTT
* * * * * *
271313 ACCTATCGGCTCAGT-TCTCAGTAAACCCTT-ATCCCTTGGTG
1 ACCTATCAGCTCAGTCTCT-GGTCAA-CCTTCATCCATTGTTT
* * *
271354 ACCTATCAGCTCAGTCTCCGGTCAACTTTCATCTATTGTTT
1 ACCTATCAGCTCAGTCTCTGGTCAACCTTCATCCATTGTTT
* * * * * * *
271395 ACCTATCGGCTTAGTC-CTCGATCAACCCATT-ACCCTTATGGTG
1 ACCTATCAGCTCAGTCTCT-GGTCAA-CC-TTCATCCAT-TGTTT
271438 ACCTATCAGCTCAGTCTCTGGTCAACC-TCAATCCATTGTTT
1 ACCTATCAGCTCAGTCTCTGGTCAACCTTC-ATCCATTGTTT
271479 ACCT
1 ACCT
271483 TACCTTTTCT
Statistics
Matches: 544, Mismatches: 167, Indels: 104
0.67 0.20 0.13
Matches are distributed among these distances:
40 6 0.01
41 129 0.24
42 209 0.38
43 183 0.34
44 16 0.03
45 1 0.00
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (41 bp):
ACCTATCAGCTCAGTCTCTGGTCAACCTTCATCCATTGTTT
Found at i:270827 original size:85 final size:85
Alignment explanation
Indices: 270643--271465 Score: 665
Period size: 85 Copynumber: 9.8 Consensus size: 85
270633 TTTACTAGTT
* * * * * *
270643 GGCTCAGTCCTTGGTAAACCCTTTATC-CCTACGGTGACCTATCAGTTCAGTCTCTGGTCAACC-
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCT-TGGTGACCTATCAGCTCAGTCTCTGATCAACCT
* **
270706 TTCATCCATTGTTTACCTATC
65 TTCATCTATCATTTACCTATC
* * * *
270727 AGCTCAGTCCCCGGTAAACCCCTTCTCTCCGTGGTGACCTGTCAGCTCAGTCTCTGATCAACCTT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGATCAACCTT
*
270792 TCATCTATCGTTTACCTATC
66 TCATCTATCATTTACCTATC
* * * * * * * * ** *
270812 AGCTCACTCTTCGGTAAACCCTTTCTCTCCTTGGTGATCTACCGGCTTAGTC-CCCAGTTAACCT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGA-TCAACCT
*
270876 TTCATC-ATTCATTTACCTGTC
65 TTCATCTA-TCATTTACCTATC
* * * * *
270897 AGCTCAGTCCCCGGTAAACCCCTTCTTTCCTTGGTGACCTGTCAGCTCAGTCTCAGATCAACCTT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGATCAACCTT
* *
270962 TCATCTATCGTTTACCTGTC
66 TCATCTATCATTTACCTATC
* * * * * *
270982 GGCTCACT-CTCCGGTAAACCCTTTCTCTCCTTGGTGATCTATCGGCTTAGTCCCT-AGTCAACC
1 GGCTCAGTCCT-CGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGA-TCAACC
*
271045 TTTCATC-ATTCATTTACCTGTC
64 TTTCATCTA-TCATTTACCTATC
* * *
271067 GGCTCAGTCCTCGTTAAACTCCTTCTCTCCTTGGTGACCTGTCAGCTCAGTCT-TCGATCAA-CT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCT-GATCAACCT
*
271130 CTTCATCTATCATTTACCTGTC
65 -TTCATCTATCATTTACCTATC
* * * * * * *
271152 AGCTCAGTCCTCGGTAAACCCTTTCTATCCTTGGTGACCTATC-GACTTAGTCCCCGGTCAACCT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAG-CTCAGTCTCTGATCAACCT
* * *
271216 TTCATC-ATTTATTTACTTATT
65 TTCATCTA-TCATTTACCTATC
* * * * ** * * * * * * *
271237 GGCTTAGTCCTTGGTAAA-CCTTTATC-CCTTAATGACTTGTTAGCTTAGTCCCTGGTCAACCCT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGATCAACCTT
** *
271300 TCATCCCTTATTTACCTATC
66 TCATCTATCATTTACCTATC
* * * * *
271320 GGCTCAGTTCTCAGTAAA-CCCTTATC-CCTTGGTGACCTATCAGCTCAGTCTCCGGTCAA-CTT
1 GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGATCAACCTT
**
271382 TCATCTATTGTTTACCTATC
66 TCATCTATCATTTACCTATC
* * * * * *
271402 GGCTTAGTCCTCGATCAACCCATTAC-C-CTTATGGTGACCTATCAGCTCAGTCTCTGGTCAACC
1 GGCTCAGTCCTCGGTAAACCCCTT-CTCTCCT-TGGTGACCTATCAGCTCAGTCTCTGATCAACC
271465 T
64 T
271466 CAATCCATTG
Statistics
Matches: 598, Mismatches: 117, Indels: 47
0.78 0.15 0.06
Matches are distributed among these distances:
82 32 0.05
83 97 0.16
84 97 0.16
85 363 0.61
86 9 0.02
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.35
Consensus pattern (85 bp):
GGCTCAGTCCTCGGTAAACCCCTTCTCTCCTTGGTGACCTATCAGCTCAGTCTCTGATCAACCTT
TCATCTATCATTTACCTATC
Found at i:270999 original size:170 final size:169
Alignment explanation
Indices: 270699--271231 Score: 795
Period size: 170 Copynumber: 3.1 Consensus size: 169
270689 TCAGTCTCTG
* * *
270699 GTCAACC-TTCATCCATT-GTTTACCTATCAGCTCAGTCCCCGGTAAACCCCTTCTCTCCGTGGT
1 GTCAACCTTTCAT-CATTCATTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTCTCTCCTTGGT
* *
270762 GACCTGTCAGCTCAGTCTCTGATCAACCTTTCATCTATCGTTTACCTATCAGCTCACTCTTCGGT
65 GACCTGTCAGCTCAGTCTC-GATCAACCTTTCATCTATCGTTTACCTGTCAGCTCACTCTCCGGT
*
270827 AAACCCTTTCTCTCCTTGGTGATCTACCGGCTTAGTCCCCA
129 AAACCCTTTCTCTCCTTGGTGATCTATCGGCTTAGTCCCCA
* *
270868 GTTAACCTTTCATCATTCATTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTCTTTCCTTGGTG
1 GTCAACCTTTCATCATTCATTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTCTCTCCTTGGTG
*
270933 ACCTGTCAGCTCAGTCTCAGATCAACCTTTCATCTATCGTTTACCTGTCGGCTCACTCTCCGGTA
66 ACCTGTCAGCTCAGTCTC-GATCAACCTTTCATCTATCGTTTACCTGTCAGCTCACTCTCCGGTA
*
270998 AACCCTTTCTCTCCTTGGTGATCTATCGGCTTAGTCCCTA
130 AACCCTTTCTCTCCTTGGTGATCTATCGGCTTAGTCCCCA
* * * *
271038 GTCAACCTTTCATCATTCATTTACCTGTCGGCTCAGTCCTCGTTAAACTCCTTCTCTCCTTGGTG
1 GTCAACCTTTCATCATTCATTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTCTCTCCTTGGTG
* *
271103 ACCTGTCAGCTCAGTCTTCGATCAA-CTCTTCATCTATCATTTACCTGTCAGCTCAGTC-CTCGG
66 ACCTGTCAGCTCAGTC-TCGATCAACCT-TTCATCTATCGTTTACCTGTCAGCTCACTCTC-CGG
* * * *
271166 TAAACCCTTTCTATCCTTGGTGACCTATCGACTTAGTCCCCG
128 TAAACCCTTTCTCTCCTTGGTGATCTATCGGCTTAGTCCCCA
*
271208 GTCAACCTTTCATCATTTATTTAC
1 GTCAACCTTTCATCATTCATTTAC
271232 TTATTGGCTT
Statistics
Matches: 333, Mismatches: 26, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
169 13 0.04
170 318 0.95
171 2 0.01
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (169 bp):
GTCAACCTTTCATCATTCATTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTCTCTCCTTGGTG
ACCTGTCAGCTCAGTCTCGATCAACCTTTCATCTATCGTTTACCTGTCAGCTCACTCTCCGGTAA
ACCCTTTCTCTCCTTGGTGATCTATCGGCTTAGTCCCCA
Found at i:273197 original size:167 final size:164
Alignment explanation
Indices: 272734--273446 Score: 798
Period size: 166 Copynumber: 4.3 Consensus size: 164
272724 TCAAATAAAT
* * ** *
272734 TTTG-AAAAATTCTTTCATTTTCATGAATTTTTTATTTTTTCCTT-AAAGTTTC-ATTTTTTTCG
1 TTTGCAAAAATTCATTCATTTTCATAAATTTTGAATTTTTTCCTTGAAA-TTTCTTTTTTTTTCG
* * * * * *
272796 AAATACGGAGTTTTCTACTTCGTAAA-TTTCTGCAAAGAGATTTTTCTTGGTTTTTAAGTTTTAA
65 AAATACGGAGTTTT-TACTCCGTAAATTTTTTG--GAGGGATTTTTCTT-ATTTTTAATTTTTAA
* *
272860 AATTCATCAAATATTATTATTTATTTCATATTAAATCAG
126 AAGTCATCAAATATTATTATTTATTTCATATTAATTCAG
* * ** *
272899 TTCT-CAAATATTCAATCATTTTCATAAATTTTTTATTTTTTCCTTAAAATTT-TTCTTTTTTT-
1 TT-TGCAAAAATTCATTCATTTTCATAAATTTTGAATTTTTTCCTTGAAATTTCTT-TTTTTTTC
* * * * *
272961 GAAATACGGAGTTTTTTTCTTCGT-AATTTTTTCGGGGGGATTTTTCTAGATTTTTAATTTTTTA
64 GAAATACGGAG-TTTTTACTCCGTAAATTTTTT-GGAGGGATTTTTCT-TATTTTTAATTTTTAA
* * * **
273025 AAGTCATTAAATATTATTATTTATTTCATAGTCATTTTG
126 AAGTCATCAAATATTATTATTTATTTCATATTAATTCAG
* *
273064 TTTGAAAAAATTCATTCATTTCCATAAATTTTAGAATTTTTTCCTTGAAATTTCTTTTTTTTTCG
1 TTTGCAAAAATTCATTCATTTTCATAAATTTT-GAATTTTTTCCTTGAAATTTCTTTTTTTTTCG
273129 AAATACGGAGTTTTTACTCCGTAAATTCTTTTGGAGGGATTTTTCTTATTTTATAATTTTTAAAA
65 AAATACGGAGTTTTTACTCCGTAAATT-TTTTGGAGGGATTTTTCTTATTTT-TAATTTTTAAAA
*
273194 GTCATCAAATATTATTCTTTATTTCATATTAATTCAG
128 GTCATCAAATATTATTATTTATTTCATATTAATTCAG
** * * * ** *
273231 TTTTTAAAAATTCATCCATTTTCATAAATTTTGAATTTTTTTCTTGAAATTCCCCTTTTTTCCGA
1 TTTGCAAAAATTCATTCATTTTCATAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTTTTCGA
** *
273296 AATACGGAGTTTTTACTCCGTAAATTCTTTCAGAGGGATTTTTCTTGTTTTTTAATTTTTAAAAG
66 AATACGGAGTTTTTACTCCGTAAATT-TTTTGGAGGGATTTTTCTT-ATTTTTAATTTTTAAAAG
273361 TCATCAAATATTATTATTTATTTCATATTAATTCCA-
129 TCATCAAATATTATTATTTATTTCATATTAATT-CAG
* * *
273397 TTTTCAAAAATTCATTCATTTCCAT-GATTTTGAATTTGTTTCCTTGAAAT
1 TTTGCAAAAATTCATTCATTTTCATAAATTTTGAATTT-TTTCCTTGAAAT
273447 CTCGTTTCTC
Statistics
Matches: 472, Mismatches: 57, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
164 1 0.00
165 95 0.20
166 251 0.53
167 121 0.26
168 4 0.01
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (164 bp):
TTTGCAAAAATTCATTCATTTTCATAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTTTTCGA
AATACGGAGTTTTTACTCCGTAAATTTTTTGGAGGGATTTTTCTTATTTTTAATTTTTAAAAGTC
ATCAAATATTATTATTTATTTCATATTAATTCAG
Found at i:273253 original size:332 final size:329
Alignment explanation
Indices: 272734--273446 Score: 882
Period size: 332 Copynumber: 2.1 Consensus size: 329
272724 TCAAATAAAT
* * **
272734 TTTGAAAAATTCTTTCATTTTCATGAATTTTTTATTTTTTCCTT-AAAGTTTCATTTTTTTCGAA
1 TTTGAAAAATTCATTCATTTCCAT-AATTTTGAATTTTTTCCTTGAAA-TTTCATTTTTTTCGAA
* * *
272798 ATACGGAGTTTTCTACTTCGTAAATTTCTGCAAAGAGATTTTTCTTGGTTTTTAAGTTTTAAAAT
64 ATACGGAGTTTTCTACTCCGTAAATTTCTG-AAAGAGATTTTTCTTGATTTTTAAGTTTTAAAAG
*
272863 TCATCAAATATTATTATTTATTTCATATTAAATCAGTTCTCAAATATTCAATCATTTTCATAAAT
128 TCATCAAATATTATTATTTATTTCATATTAAATCAGTTCTCAAAAATTCAATCATTTTCATAAAT
** *** * * * *
272928 TTTTTATTTTTTCCTTAAAATTTTTCTTTTTT-TGAAATACGGAGTTTTTTTCTTCGT-AATTTT
193 TTTGAATTTTTTCCTTAAAATTCCCCTTTTTTCCGAAATACGGAG-TTTTTACTCCGTAAATTCT
* * * *
272991 TTCGGGGGGATTTTTCTAGATTTTTAATTTTTTAAAGTCATTAAATATTATTATTTATTTCATAG
257 TTCAGAGGGATTTTTCTAGATTTTTAATTTTTAAAAGTCATCAAATATTATTATTTATTTCATAG
* ***
273056 TCATTTTG
322 TAATTCCA
*
273064 TTTGAAAAAATTCATTCATTTCCATAAATTTTAGAATTTTTTCCTTGAAATTTCTTTTTTTTTCG
1 TTTG-AAAAATTCATTCATTTCCAT-AATTTT-GAATTTTTTCCTTGAAATTTC-ATTTTTTTCG
* * * *
273129 AAATACGGAGTTTT-TACTCCGTAAATTCTTTTG-GAGGGATTTTTCTT-ATTTTATAATTTTTA
62 AAATACGGAGTTTTCTACTCCGTAAA-T-TTCTGAAAGAGATTTTTCTTGATTTT-TAAGTTTTA
* * * *
273191 AAAGTCATCAAATATTATTCTTTATTTCATATTAATTCAGTTTTTAAAAATTC-ATCCATTTTCA
124 AAAGTCATCAAATATTATTATTTATTTCATATTAAATCAGTTCTCAAAAATTCAAT-CATTTTCA
* *
273255 TAAATTTTGAATTTTTTTCTTGAAATTCCCCTTTTTTCCGAAATACGGAGTTTTTACTCCGTAAA
188 TAAATTTTGAATTTTTTCCTTAAAATTCCCCTTTTTTCCGAAATACGGAGTTTTTACTCCGTAAA
* *
273320 TTCTTTCAGAGGGATTTTTCTTGTTTTTTAATTTTTAAAAGTCATCAAATATTATTATTTATTTC
253 TTCTTTCAGAGGGATTTTTCTAGATTTTTAATTTTTAAAAGTCATCAAATATTATTATTTATTTC
*
273385 ATATTAATTCCA
318 ATAGTAATTCCA
* *
273397 TTTTCAAAAATTCATTCATTTCCATGATTTTGAATTTGTTTCCTTGAAAT
1 -TTTGAAAAATTCATTCATTTCCATAATTTTGAATTT-TTTCCTTGAAAT
273447 CTCGTTTCTC
Statistics
Matches: 329, Mismatches: 42, Indels: 22
0.84 0.11 0.06
Matches are distributed among these distances:
330 4 0.01
331 36 0.11
332 157 0.48
333 125 0.38
334 7 0.02
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (329 bp):
TTTGAAAAATTCATTCATTTCCATAATTTTGAATTTTTTCCTTGAAATTTCATTTTTTTCGAAAT
ACGGAGTTTTCTACTCCGTAAATTTCTGAAAGAGATTTTTCTTGATTTTTAAGTTTTAAAAGTCA
TCAAATATTATTATTTATTTCATATTAAATCAGTTCTCAAAAATTCAATCATTTTCATAAATTTT
GAATTTTTTCCTTAAAATTCCCCTTTTTTCCGAAATACGGAGTTTTTACTCCGTAAATTCTTTCA
GAGGGATTTTTCTAGATTTTTAATTTTTAAAAGTCATCAAATATTATTATTTATTTCATAGTAAT
TCCA
Found at i:274113 original size:21 final size:22
Alignment explanation
Indices: 274084--274135 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
274074 AAGAGGAGAG
*
274084 AAAAGAGAAAGAAAA-A-AAGAA
1 AAAATAGAAAGAAAATATAA-AA
274105 AAAATAG-AAGAAAATATAAAA
1 AAAATAGAAAGAAAATATAAAA
274126 AAAATAGAAA
1 AAAATAGAAA
274136 AGCTAGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (22 bp):
AAAATAGAAAGAAAATATAAAA
Found at i:275705 original size:19 final size:20
Alignment explanation
Indices: 275681--275733 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
275671 ACATTATGCT
* *
275681 TTGTATCAATGCATGCTC-A
1 TTGTATCAATACATACTCAA
*
275700 TTGTATCGATACATACTCAA
1 TTGTATCAATACATACTCAA
*
275720 TTGTATCGATACAT
1 TTGTATCAATACAT
275734 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
TTGTATCAATACATACTCAA
Found at i:275724 original size:20 final size:19
Alignment explanation
Indices: 275662--275733 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
275652 CATTTCTAGA
*
275662 TGTATCGATACATTA-TGCTT
1 TGTATCGATACA-TACT-CAT
* * *
275682 TGTATCAATGCATGCTCAT
1 TGTATCGATACATACTCAT
275701 TGTATCGATACATACTCAAT
1 TGTATCGATACATACTC-AT
275721 TGTATCGATACAT
1 TGTATCGATACAT
275734 GAAACTGGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 17 0.40
20 26 0.60
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATACTCAT
Found at i:275797 original size:13 final size:13
Alignment explanation
Indices: 275779--275808 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
275769 GATACATGGA
275779 ACATTATATCGAT
1 ACATTATATCGAT
275792 ACATTATATCGAT
1 ACATTATATCGAT
275805 ACAT
1 ACAT
275809 GGTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:275807 original size:33 final size:33
Alignment explanation
Indices: 275765--275829 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
275755 AAGTGAAATG
* *
275765 TATCGATACATGG-AACATTATATCGATACATTA
1 TATCGATACATGGTAAAAAT-TATCGATACATTA
275798 TATCGATACATGGTAAAAATTATCGATACATT
1 TATCGATACATGGTAAAAATTATCGATACATT
275830 GTGCCCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TATCGATACATGGTAAAAATTATCGATACATTA
Found at i:279915 original size:20 final size:20
Alignment explanation
Indices: 279890--279963 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
279880 AAAATGCCTG
279890 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
279910 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
* *
279930 AATGTATCAATACAATGTA-A
1 AATGTATCGATACAATG-AGC
279950 AATGTATCGATACA
1 AATGTATCGATACA
279964 TCTAGGTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:280621 original size:40 final size:40
Alignment explanation
Indices: 280577--280848 Score: 146
Period size: 42 Copynumber: 6.6 Consensus size: 40
280567 GCCCCACTTT
* *
280577 TTGAGGACAAAGAAAAA-GAGAATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGAAAAAGGA-AAAGAAA-AGTGTCCTGCTCC
* *
280617 TTGAGGACAAAGGAAAAAGGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAA-GAAAAAGGAAAAGAAAAGTGTCCTGCTCC
** * **
280658 TTGAGGACAAAGTGAAA--AAAAG--TA-TGTCCTG-TTT
1 TTGAGGACAAAGAAAAAGGAAAAGAAAAGTGTCCTGCTCC
* *
280692 TTCGAGGACAAAGGAAGAAAGGAAAACAAAATGCGTCCTGCTCC
1 TT-GAGGACAAA-GAA-AAAGGAAAAGAAAA-GTGTCCTGCTCC
* * * * *
280736 TTGAGGACAAAAGAAAGAGGAAAATAAAATGCGTCTTGCTCT
1 TTGAGGAC-AAAGAAAAAGGAAAAGAAAA-GTGTCCTGCTCC
* * * ** *
280778 TTAAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTGTCCTGCTCT
1 TTGAGGAC-AAA--G-AAA-AAGGAAAAGAAAAGTGTCCTGCTCC
280823 TTGAGGACAAAGGAGAAAAGGAAAAG
1 TTGAGGACAAA-GA-AAAAGGAAAAG
280849 GTGTCCTACT
Statistics
Matches: 182, Mismatches: 31, Indels: 36
0.73 0.12 0.14
Matches are distributed among these distances:
34 4 0.02
35 16 0.09
36 2 0.01
37 3 0.02
38 5 0.03
39 4 0.02
40 17 0.09
41 31 0.17
42 44 0.24
43 19 0.10
44 10 0.05
45 20 0.11
46 7 0.04
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGAAAAAGGAAAAGAAAAGTGTCCTGCTCC
Found at i:281019 original size:61 final size:60
Alignment explanation
Indices: 280852--281078 Score: 244
Period size: 61 Copynumber: 3.8 Consensus size: 60
280842 GGAAAAGGTG
* ** * *
280852 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAGAAA-GCA
* * *
280913 TCATGCTC-TGGAGGACTGG-AGGTGCCACCAACTTGTGTGGGCTTTACAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTA-AAAGAGAAAGCA
* * * * *
280972 TCCTGCTCGTTGAGGACTGGAAGGTGTCACCAACTCGAGTGGTCTTTAGAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTA-AAAGAGAAAGCA
** * *
281033 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTT
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTT
281079 CGAAAGGCGT
Statistics
Matches: 138, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
58 1 0.01
59 38 0.28
60 21 0.15
61 78 0.57
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGCA
Found at i:282067 original size:1 final size:1
Alignment explanation
Indices: 282047--282171 Score: 61
Period size: 1 Copynumber: 125.0 Consensus size: 1
282037 AAGCAAGTTC
* * * * * * ** * * *
282047 TTTTCTTTTCTTTCTTTTTTTTTTGTTTTTTTTTTGTTTTCTACTTTGTTTTTTTGTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** * * * * *
282112 GTTTCTTTTTTTATTTTTTGCTTTGTTTTTTTTTTGTTTTTTTGTTTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
282172 AAAAAAAAAG
Statistics
Matches: 84, Mismatches: 40, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.83
Consensus pattern (1 bp):
T
Found at i:282075 original size:11 final size:11
Alignment explanation
Indices: 282061--282170 Score: 98
Period size: 11 Copynumber: 9.9 Consensus size: 11
282051 CTTTTCTTTC
282061 TTTTTTTTTTG
1 TTTTTTTTTTG
282072 TTTTTTTTTTG
1 TTTTTTTTTTG
**
282083 TTTTCTACTTTG
1 TTTT-TTTTTTG
*
282095 TTTTTTTGTTG
1 TTTTTTTTTTG
*
282106 TTTTTTGTTT-
1 TTTTTTTTTTG
* *
282116 CTTTTTTTAT-
1 TTTTTTTTTTG
**
282126 TTTTTGCTTTG
1 TTTTTTTTTTG
282137 TTTTTTTTTTG
1 TTTTTTTTTTG
*
282148 TTTTTTTGTTTC
1 TTTTTTT-TTTG
282160 TTCTTTTTTTT
1 TT-TTTTTTTT
282171 TAAAAAAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
10 13 0.17
11 43 0.55
12 17 0.22
13 5 0.06
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:282094 original size:23 final size:21
Alignment explanation
Indices: 282062--282152 Score: 94
Period size: 20 Copynumber: 4.2 Consensus size: 21
282052 TTTTCTTTCT
*
282062 TTTTTTTTTGTTTTTTTTTTG
1 TTTTTCTTTGTTTTTTTTTTG
*
282083 TTTTCTACTTTGTTTTTTTGTTG
1 TTTT-T-CTTTGTTTTTTTTTTG
* * *
282106 TTTTTTGTTTCTTTTTTTATT-
1 -TTTTTCTTTGTTTTTTTTTTG
*
282127 TTTTGCTTTGTTTTTTTTTTG
1 TTTTTCTTTGTTTTTTTTTTG
282148 TTTTT
1 TTTTT
282153 TTGTTTCTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
20 16 0.29
21 8 0.14
22 13 0.23
23 15 0.27
24 4 0.07
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (21 bp):
TTTTTCTTTGTTTTTTTTTTG
Found at i:282123 original size:42 final size:42
Alignment explanation
Indices: 282064--282171 Score: 148
Period size: 42 Copynumber: 2.5 Consensus size: 42
282054 TTCTTTCTTT
282064 TTTTTTTGTTT-TTTTTTTGTTTTCTACTTTGTTTTTTTGTTG
1 TTTTTTTGTTTCTTTTTTT-TTTTCTACTTTGTTTTTTTGTTG
* * *
282106 -TTTTTTGTTTCTTTTTTTATTTTTTGCTTTGTTTTTTTTTTG
1 TTTTTTTGTTTCTTTTTTT-TTTTCTACTTTGTTTTTTTGTTG
282148 TTTTTTTGTTTCTTCTTTTTTTTT
1 TTTTTTTGTTTCTT-TTTTTTTTT
282172 AAAAAAAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
41 10 0.17
42 27 0.46
43 17 0.29
44 5 0.08
ACGTcount: A:0.02, C:0.06, G:0.09, T:0.83
Consensus pattern (42 bp):
TTTTTTTGTTTCTTTTTTTTTTTCTACTTTGTTTTTTTGTTG
Found at i:282152 original size:31 final size:30
Alignment explanation
Indices: 282052--282171 Score: 68
Period size: 30 Copynumber: 3.9 Consensus size: 30
282042 AGTTCTTTTC
* *
282052 TTTTCTTTCTTTTTTTTTTGTTTTTTTTTTGT
1 TTTTCTTTGTTTTTTTTTTG-TTTTTTTAT-T
*
282084 TTTCTACTTTGTTTTTTTGTTGTTTTTTGT-TT
1 TTT-T-CTTTGTTTTTTTTTTGTTTTTT-TATT
* *
282116 CTTTT-TTTATTTTTTGCTTTGTTTTTTT-TT
1 -TTTTCTTTGTTTTTT-TTTTGTTTTTTTATT
* * *
282146 TGTTTTTTTGTTTCTTCTTT-TTTTTT
1 T-TTTCTTTGTTTTTTTTTTGTTTTTT
282172 AAAAAAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
29 7 0.09
30 19 0.26
31 17 0.23
32 5 0.07
33 11 0.15
34 15 0.20
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.83
Consensus pattern (30 bp):
TTTTCTTTGTTTTTTTTTTGTTTTTTTATT
Found at i:282153 original size:23 final size:22
Alignment explanation
Indices: 282052--282170 Score: 100
Period size: 23 Copynumber: 5.4 Consensus size: 22
282042 AGTTCTTTTC
* * *
282052 TTTTCTTTCTTTTTTTTTTGTT
1 TTTTTTTTGTTTTTTGTTTGTT
**
282074 TTTTTTTTGTTTTCTACTTTGTT
1 TTTTTTTTGTTTT-TTGTTTGTT
*
282097 TTTTTGTTGTTTTTTG--T-TT
1 TTTTTTTTGTTTTTTGTTTGTT
* *
282116 CTTTTTTTATTTTTTGCTTTGTT
1 TTTTTTTTGTTTTTTG-TTTGTT
*
282139 TTTTTTTTGTTTTTTTGTTTCTT
1 TTTTTTTTG-TTTTTTGTTTGTT
282162 CTTTTTTTT
1 -TTTTTTTT
282171 TAAAAAAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
19 15 0.19
20 1 0.01
22 13 0.17
23 33 0.43
24 15 0.19
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.83
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTGTTTGTT
Found at i:285364 original size:52 final size:53
Alignment explanation
Indices: 285287--285386 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 53
285277 CCCGAAATAT
* * * **
285287 TAAAATTTGCCTGCATGTATTGATACATTGAAT-AATGTATCGATACATCTGGG
1 TAAAATTTCCCAGCATGTATCGATACAAAG-ATCAATGTATCGATACATCTGGG
285340 TAAAATTTCCCAG-ATGTATCGATACAAAGATCAATGTATCGATACAT
1 TAAAATTTCCCAGCATGTATCGATACAAAGATCAATGTATCGATACAT
285387 TGAGTAATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.05
52 28 0.68
53 11 0.27
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (53 bp):
TAAAATTTCCCAGCATGTATCGATACAAAGATCAATGTATCGATACATCTGGG
Found at i:285395 original size:20 final size:20
Alignment explanation
Indices: 285353--285407 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
285343 AATTTCCCAG
**
285353 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
285373 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
*
285393 ATGTGTCGATACATT
1 ATGTATCGATACATT
285408 TCCTTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:285447 original size:13 final size:13
Alignment explanation
Indices: 285429--285480 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
285419 AGCTTCGTAG
285429 CGATACATTGTAT
1 CGATACATTGTAT
285442 CGATACAACACTTAGGTAT
1 CGAT---ACA-TT--GTAT
285461 CGATACATTGTAT
1 CGATACATTGTAT
285474 CGATACA
1 CGATACA
285481 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:292093 original size:20 final size:18
Alignment explanation
Indices: 292068--292176 Score: 86
Period size: 20 Copynumber: 5.9 Consensus size: 18
292058 AAAAATGCCG
292068 AAATGTATCGATACATTGTA
1 AAATGTATCGATACA-TG-A
292088 AAATGTATCGATACAAT-A
1 AAATGTATCGATAC-ATGA
292106 AGCAATGTATCGATAC----
1 A--AATGTATCGATACATGA
292122 -AATGTATCGATACAATGA
1 AAATGTATCGATAC-ATGA
*
292140 GCAATGTATCGATACAATGGA
1 -AAATGTATCGATAC-AT-GA
292161 AAATGTATCGATACAT
1 AAATGTATCGATACAT
292177 TTGAGTAAAC
Statistics
Matches: 77, Mismatches: 1, Indels: 23
0.76 0.01 0.23
Matches are distributed among these distances:
13 13 0.17
18 2 0.03
19 2 0.03
20 57 0.74
21 3 0.04
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (18 bp):
AAATGTATCGATACATGA
Found at i:292131 original size:33 final size:33
Alignment explanation
Indices: 292089--292158 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
292079 TACATTGTAA
292089 AATGTATCGATACAATAAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
*
292122 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
292155 AATG
1 AATG
292159 GAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAATGTATCGATAC
Found at i:292131 original size:53 final size:52
Alignment explanation
Indices: 292069--292175 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 52
292059 AAAATGCCGA
*
292069 AATGTATCGATACATTGTA-AAATGTATCGATACAAT-AAGCAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATGAA--AATGTATCGATAC
*
292122 AATGTATCGATACAATGAGCAATGTATCGATACAATGGAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAAT-GAAAATGTATCGATAC
292175 A
1 A
292176 TTTGAGTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
52 1 0.02
53 46 0.94
55 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (52 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGAAAATGTATCGATAC
Found at i:292157 original size:13 final size:13
Alignment explanation
Indices: 292108--292138 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
292098 ATACAATAAG
292108 CAATGTATCGATA
1 CAATGTATCGATA
292121 CAATGTATCGATA
1 CAATGTATCGATA
292134 CAATG
1 CAATG
292139 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:292689 original size:25 final size:25
Alignment explanation
Indices: 292661--292712 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
292651 ATTTGGAGTA
*
292661 AAACTAAAGGTTTGTTTGTTTCCCC
1 AAACTAAAGGTTTGTTTATTTCCCC
292686 AAACTAAAGGTTTGTTTATTTCCCC
1 AAACTAAAGGTTTGTTTATTTCCCC
292711 AA
1 AA
292713 CACACACTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (25 bp):
AAACTAAAGGTTTGTTTATTTCCCC
Found at i:293705 original size:19 final size:19
Alignment explanation
Indices: 293681--293737 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
293671 TTTGAATTTC
*
293681 AACAGTTTGTATCGATAGA
1 AACAGTTTGTATCGATACA
*
293700 AACAGTAAATGTATCGATACA
1 AACAGT--TTGTATCGATACA
*
293721 TA-AGTTTTGTATCGATA
1 AACAG-TTTGTATCGATA
293738 TAATGTATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (19 bp):
AACAGTTTGTATCGATACA
Found at i:295995 original size:26 final size:27
Alignment explanation
Indices: 295944--295995 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
295934 ATATTAAAAT
*
295944 TTATTCATCGGGGATACTCTAACCCCA
1 TTATTCATCGGGGATACTCCAACCCCA
* *
295971 TTATT-ATGGGGGATACTCCACCCCC
1 TTATTCATCGGGGATACTCCAACCCC
295996 GTTTTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (27 bp):
TTATTCATCGGGGATACTCCAACCCCA
Found at i:300022 original size:20 final size:20
Alignment explanation
Indices: 299977--300022 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
299967 GAAAAGGGCA
*
299977 AAGG-CAAAATCAAAAGAGG
1 AAGGACAAAATCAAAAGAGC
*
299996 AATGACAAAAGTCAAAA-AGC
1 AAGGACAAAA-TCAAAAGAGC
300016 AAGGACA
1 AAGGACA
300023 TAGACGCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 13 0.59
21 6 0.27
ACGTcount: A:0.59, C:0.13, G:0.22, T:0.07
Consensus pattern (20 bp):
AAGGACAAAATCAAAAGAGC
Found at i:301249 original size:30 final size:30
Alignment explanation
Indices: 301133--301237 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
301123 TAAAATAACT
* *
301133 TTTTCAAAGTTCACGACTTAGTGGCATCTC
1 TTTTCAAAGTCCACAACTTAGTGGCATCTC
* *
301163 TTTTCAAAGTCCACAACTTGGTGGCATCCC
1 TTTTCAAAGTCCACAACTTAGTGGCATCTC
*
301193 TTCTTCAACGTCCACAACTTAGTGGCATCTC
1 TT-TTCAAAGTCCACAACTTAGTGGCATCTC
301224 TTTTCAAAGTCCAC
1 TTTTCAAAGTCCAC
301238 GACTCCATGG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
30 39 0.59
31 27 0.41
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (30 bp):
TTTTCAAAGTCCACAACTTAGTGGCATCTC
Found at i:301331 original size:62 final size:62
Alignment explanation
Indices: 301260--301606 Score: 374
Period size: 62 Copynumber: 5.6 Consensus size: 62
301250 CCCTTTTTGT
* * * *
301260 CCTTTTAGTCTTTAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCATACGAGTTGCTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * *** * *
301322 CCTTTTAGTCCTAAAAAAGAAAGATGCCTTTTTCTTTTAAAAGCCCTTGCAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
301384 CTTTTTAGTCCTCAAAGAGCAGGA--CCTTTTTTTCTTTATAAAGCCCACAAGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCC--TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * * *
301446 CCTATTAGTCCACCAAGACCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * ** *
301508 TCTTTTAGTCCTCAAAGAGCATGACGCCTTTTTCTTTTTAAAGCCTGCCCGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
** *
301570 TTTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTCTTT
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTT
301607 CAGTAGCCCA
Statistics
Matches: 235, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
60 2 0.01
62 231 0.98
64 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (62 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:302262 original size:21 final size:20
Alignment explanation
Indices: 302236--302286 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
302226 CTGCAATTTG
302236 TATCGATACAAATAGTAAATA
1 TATCGATACAAA-AGTAAATA
* * *
302257 TATCGATACATAAGTGAATG
1 TATCGATACAAAAGTAAATA
302277 TATCGATACA
1 TATCGATACA
302287 TGCCTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGATACAAAAGTAAATA
Found at i:302282 original size:20 final size:20
Alignment explanation
Indices: 302234--302307 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
302224 TTCTGCAATT
* *
302234 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATA-AGTGAA
*
302255 TATATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
***
302275 TGTATCGATACATGCCTGAAA
1 TGTATCGATACATAAGTG-AA
302296 TGTATCGATACA
1 TGTATCGATACA
302308 AAACCACCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 19 0.42
21 26 0.58
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:304028 original size:33 final size:33
Alignment explanation
Indices: 303991--304057 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
303981 TTCAACGATT
303991 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
304024 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
304057 T
1 T
304058 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:304029 original size:13 final size:13
Alignment explanation
Indices: 304011--304035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304001 CATAAAATGT
304011 TGTATCGATACAA
1 TGTATCGATACAA
304024 TGTATCGATACA
1 TGTATCGATACA
304036 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:304116 original size:13 final size:13
Alignment explanation
Indices: 304098--304122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304088 ATTACTCAAA
304098 TGTATCGATACAT
1 TGTATCGATACAT
304111 TGTATCGATACA
1 TGTATCGATACA
304123 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:304224 original size:52 final size:52
Alignment explanation
Indices: 304131--304258 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
304121 CACTGATCTT
*
304131 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
304182 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
304234 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
304259 TCATATTTTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:307446 original size:19 final size:20
Alignment explanation
Indices: 307402--307457 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
307392 ACACCCAGAT
*
307402 GTATCGATATATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
307422 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
307441 GTATCGATACATCATTG
1 GTATCGATACAT-ATTG
307458 TAGACACTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:307822 original size:32 final size:33
Alignment explanation
Indices: 307759--307824 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
307749 TTCAATGATT
*
307759 TGTATCGATACATAAAGTGTTATATCGATACAA
1 TGTATCAATACATAAAGTGTTATATCGATACAA
* *
307792 TGTATCAATACAT-AAGTTTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTATATCGATACAA
307824 T
1 T
307825 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCAATACATAAAGTGTTATATCGATACAA
Found at i:307883 original size:13 final size:13
Alignment explanation
Indices: 307865--307889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
307855 ATTACTCATA
307865 TGTATCGATACAT
1 TGTATCGATACAT
307878 TGTATCGATACA
1 TGTATCGATACA
307890 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:313196 original size:21 final size:21
Alignment explanation
Indices: 313145--313188 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
313135 TAATATTCTT
*
313145 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
313166 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
313187 GA
1 GA
313189 TGAGAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:313201 original size:21 final size:21
Alignment explanation
Indices: 313145--313201 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
313135 TAATATTCTT
**
313145 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAAGAAATGAATTA
*
313166 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAAGAAATGAATTA
**
313187 GATGAGAAAAGAAAT
1 GAAAAGAAAAGAAAT
313202 AAGTTGCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.19
Consensus pattern (21 bp):
GAAAAGAAAAGAAATGAATTA
Found at i:314313 original size:156 final size:156
Alignment explanation
Indices: 314002--314532 Score: 619
Period size: 156 Copynumber: 3.4 Consensus size: 156
313992 ACACCTTTAT
* * * ** *
314002 GGGAGACCTTCGACGTAATAGT-GCCGAATACCCCTAAAGCACTTAAAAA-AGA--TATGGATGG
1 GGGATACCTTCGACGTAAAAGTACCCG-ATACCCCTAAAGGGCTTAAAAAGA-ATTTATAGATGG
* * * * * *
314063 GGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGACCCAGTAACAACCTATGACTCGA
64 GGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGGTGACAACCTAGGACTTGA
* *
314128 TT-TTGGAAAAATTACAAAAATACTCCTAG
129 TTCTAGG-AAAATTACAAAAAT-GTCCTAG
*
314157 GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGGCTTAAAGAGAATTTATAGATGGGG
1 GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGGCTTAAAAAGAATTTATAGATGGGG
* * * *
314222 TAAACCTATCCTAAATACCCACCTTTGGC-TAAAAGCAGACCCGGGGACAACCTAGGACTTGGTT
66 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGGTGACAACCTAGGACTTGATT
**
314286 CTAGGAAAATTATGAAAATGTACCTAG
131 CTAGGAAAATTACAAAAATGT-CCTAG
* *
314313 GGGATACCTTCGACGTAAAAGTACTCGATACCCCTAAAGGGCTTAAAAAGGATTTATAGATGGGG
1 GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGGCTTAAAAAGAATTTATAGATGGGG
* * * * *
314378 TGAACCTATCTTAAATACCTACCTTTGGCATAAAAACGGACCTGGTGACAACCTAGGAC-TCATT
66 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGGTGACAACCTAGGACTTGATT
**
314442 CTAAAAAAATTACAAAAATGTCCCTAG
131 CTAGGAAAATTACAAAAATGT-CCTAG
* * * * * *
314469 AGGATGCCTTCAACGTAAAAGTACTCAATACCCCTAAAGGGC-TAAAAAAATATTTATAGATGGG
1 GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGGCTTAAAAAGA-ATTTATAGATGGG
314533 TTTTTTTACC
Statistics
Matches: 324, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
155 47 0.15
156 212 0.65
157 65 0.20
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (156 bp):
GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGGCTTAAAAAGAATTTATAGATGGGG
TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGGTGACAACCTAGGACTTGATT
CTAGGAAAATTACAAAAATGTCCTAG
Found at i:318408 original size:3 final size:3
Alignment explanation
Indices: 318393--318422 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
318383 AACCATCAAA
*
318393 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
318423 AAAGTTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:325895 original size:52 final size:52
Alignment explanation
Indices: 325746--325874 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
325736 CCGAAATATG
325746 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
325798 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
325850 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
325875 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:328495 original size:21 final size:22
Alignment explanation
Indices: 328457--328522 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 22
328447 TTTTGGAAAC
* * *
328457 AAAAAGGGGGAGAGATTTTTTT
1 AAAAAGGGGAAGAAATTTTATT
328479 AAAAA-GGGAAGAAATTTTATT
1 AAAAAGGGGAAGAAATTTTATT
* *
328500 --AAGGGGGAGGAAAATTTTATT
1 AAAAAGGGGAAG-AAATTTTATT
328521 AA
1 AA
328523 GGGGGAGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 23 0.66
22 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (22 bp):
AAAAAGGGGAAGAAATTTTATT
Found at i:328507 original size:20 final size:21
Alignment explanation
Indices: 328484--328528 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
328474 TTTTTAAAAA
328484 GGGAAG-AAATTTTATTAAGG
1 GGGAAGAAAATTTTATTAAGG
*
328504 GGGAGGAAAATTTTATTAAGG
1 GGGAAGAAAATTTTATTAAGG
328525 GGGA
1 GGGA
328529 GTTTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (21 bp):
GGGAAGAAAATTTTATTAAGG
Found at i:328523 original size:21 final size:21
Alignment explanation
Indices: 328490--328529 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
328480 AAAAGGGAAG
328490 AAATTTTATTAAGGGGGAGGA
1 AAATTTTATTAAGGGGGAGGA
328511 AAATTTTATTAAGGGGGAG
1 AAATTTTATTAAGGGGGAG
328530 TTTTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (21 bp):
AAATTTTATTAAGGGGGAGGA
Found at i:330462 original size:167 final size:165
Alignment explanation
Indices: 330122--330692 Score: 552
Period size: 167 Copynumber: 3.5 Consensus size: 165
330112 TTTACCAAAC
* * * * ** *
330122 TGATTTAATGA-GAGTTTAATAACAATATTTGATGAATTCTAAAAATTGTAAACCGAGAAAAATC
1 TGATTTAAT-ATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC
* * * * * * * **
330186 CTTCCTAAAAAATTTTCAGAGAAGAAAACTTGGT-TTCTAGAGAAAAAAGGAATTTCATCGAAAA
65 C-TCCTAAAAAATTTACGGAGTAGAAAACTTCGTATTTTA-AAAAAAAAAGAATTTCAAGGAAAA
* * * * *
330250 AATCCAAAACTCATAAAAATGAATTATTTTTTTAAAAA
128 AATCAAAAACTCATGAAAATGAATGAATTTTTTGAAAA
* *
330288 TGATTTAATATGAATTAAATAATGATATTTGATGAATTTTAATAATTAAAAACCAAGAAAAAT-C
1 TGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC
**
330352 TCTCTAAAAACATTTACGGAGTAGAAAACTTTATATTTTGAAAAAAAAAAGAATTTCAAGGAAAA
66 TC-CTAAAAA-ATTTACGGAGTAGAAAACTTCGTATTTT-AAAAAAAAAAGAATTTCAAGGAAAA
* *
330417 AATCAAAAAATCATGAAAATGAAGGAATTTTTTGAAAA
128 AATCAAAAACTCATGAAAATGAATGAATTTTTTGAAAA
* ** * * *
330455 TGATTTAATGTGGGTCAAATGATAATATTTAGA-GAATTTTAAAAATTAGAAACCAAGAAAAATC
1 TGATTTAATATGAATTAAATAATAATATTT-GATGAATTTTAAAAATTAAAAACCAAGAAAAATC
* ** * *
330519 CTCCTGAAAAAATTTACGAAGTAGAAAACAACGTA-TTT--CAAAAAAA-AATTTCAAAGAAAAA
65 CTCCT-AAAAAATTTACGGAGTAGAAAACTTCGTATTTTAAAAAAAAAAGAATTTC-AAGGAAAA
* * *
330580 AATGAAAAACTCATGAAAATGAATGAA-TTTGTGATAAC
128 AATCAAAAACTCATGAAAATGAATGAATTTTTTGA-AAA
* * *
330618 TGATTTAATATGTAA-TAAATAATAATATTTGATGAATTTTCAAAATTTTAAAACCATG-AAAAT
1 TGATTTAATATG-AATTAAATAATAATATTTGATGAATTTT-AAAAATTAAAAACCAAGAAAAAT
*
330681 CCTCCCAAAAAA
64 CCTCCTAAAAAA
330693 ATACAAAAAA
Statistics
Matches: 336, Mismatches: 56, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
162 20 0.06
163 81 0.24
164 15 0.04
165 9 0.03
166 73 0.22
167 127 0.38
168 11 0.03
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.30
Consensus pattern (165 bp):
TGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC
TCCTAAAAAATTTACGGAGTAGAAAACTTCGTATTTTAAAAAAAAAAGAATTTCAAGGAAAAAAT
CAAAAACTCATGAAAATGAATGAATTTTTTGAAAA
Found at i:331748 original size:13 final size:13
Alignment explanation
Indices: 331730--331754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331720 CATTTTACTA
331730 TGTATCGATACAT
1 TGTATCGATACAT
331743 TGTATCGATACA
1 TGTATCGATACA
331755 ATGTCTCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:331766 original size:33 final size:33
Alignment explanation
Indices: 331710--331774 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
331700 CCATTGACAA
* *
331710 TGTATCGATACATTTTACTATGTATCGATACAT
1 TGTATCGATACAATGTACTATGTATCGATACAT
*
331743 TGTATCGATACAATGT-CTCATGTATTGATACA
1 TGTATCGATACAATGTACT-ATGTATCGATACA
331775 AACAGTGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATGTACTATGTATCGATACAT
Found at i:338430 original size:15 final size:15
Alignment explanation
Indices: 338406--338447 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
338396 CCTTTTCTAG
*
338406 TTCAACAATTTTCTT
1 TTCAACAATTTTATT
*
338421 TTCAAGAATTTTATT
1 TTCAACAATTTTATT
338436 TTCAACAATTTT
1 TTCAACAATTTT
338448 TTATTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.52
Consensus pattern (15 bp):
TTCAACAATTTTATT
Done.