Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 10 of 135
Found at i:4768023 original size:8 final size:8
Alignment explanation
Indices: 4768005--4768033 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4767995 GAAAGAAACA
4768005 AATAA-AT
1 AATAATAT
4768012 AATAATAT
1 AATAATAT
4768020 AATAATAT
1 AATAATAT
4768028 AATAAT
1 AATAAT
4768034 GACAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:4771343 original size:28 final size:29
Alignment explanation
Indices: 4771311--4771371 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
4771301 ATCAACTCTC
* *
4771311 ATTATTTTA-TTATTCTGAATTTTTAATA
1 ATTATTTAAGTTATTCCGAATTTTTAATA
*
4771339 ATTA-TTAAGTTATTCCGAGTTTTTAATA
1 ATTATTTAAGTTATTCCGAATTTTTAATA
4771367 ATTAT
1 ATTAT
4771372 GAAATAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (29 bp):
ATTATTTAAGTTATTCCGAATTTTTAATA
Found at i:4772557 original size:12 final size:12
Alignment explanation
Indices: 4772540--4772570 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4772530 GAAGCAGGGG
4772540 AGAAAAAGCGAA
1 AGAAAAAGCGAA
*
4772552 AGAAAAAGGGAA
1 AGAAAAAGCGAA
4772564 AGAAAAA
1 AGAAAAA
4772571 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGCGAA
Found at i:4780217 original size:56 final size:56
Alignment explanation
Indices: 4780131--4780242 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
4780121 AAAAAAAAAA
4780131 GATGAAGATGGAATAAGTAGGTAAGGTGGTCATGAAAAGCCAACCATTGCTGTTTC
1 GATGAAGATGGAATAAGTAGGTAAGGTGGTCATGAAAAGCCAACCATTGCTGTTTC
4780187 GATGAAGATGGAATAAGTAGGTAAGGTGGTCATGAAAAGCCAACCATTGCTGTTTC
1 GATGAAGATGGAATAAGTAGGTAAGGTGGTCATGAAAAGCCAACCATTGCTGTTTC
4780243 TTTTTGGAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (56 bp):
GATGAAGATGGAATAAGTAGGTAAGGTGGTCATGAAAAGCCAACCATTGCTGTTTC
Found at i:4781692 original size:80 final size:80
Alignment explanation
Indices: 4781559--4781718 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
4781549 TCAGGATAAA
4781559 TGGTTGAAAAATCTGTATATTTCATCCATTTGCTATGGGAGGACAGTGTCCTGAAGTTTGGTATT
1 TGGTTGAAAAATCTGTATATTTCATCCATTTGCTATGGGAGGACAGTGTCCTGAAGTTTGGTATT
4781624 CGGAAGAAGCAACTG
66 CGGAAGAAGCAACTG
4781639 TGGTTGAAAAATCTGTATATTTCATCCATTTGCTATGGGAGGACAGTGTCCTGAAGTTTGGTATT
1 TGGTTGAAAAATCTGTATATTTCATCCATTTGCTATGGGAGGACAGTGTCCTGAAGTTTGGTATT
4781704 CGGAAGAAGCAACTG
66 CGGAAGAAGCAACTG
4781719 CAGTTTACAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (80 bp):
TGGTTGAAAAATCTGTATATTTCATCCATTTGCTATGGGAGGACAGTGTCCTGAAGTTTGGTATT
CGGAAGAAGCAACTG
Found at i:4796318 original size:28 final size:29
Alignment explanation
Indices: 4796261--4796325 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
4796251 GATTTCGCGG
* *
4796261 AAAAT-GGCCCATTCCGGTAAATAATCAA
1 AAAATAGGCCCATTCCGATAAATAATAAA
* *
4796289 AAAATAGGCCCATTTCGATAAAT-TTAAA
1 AAAATAGGCCCATTCCGATAAATAATAAA
*
4796317 AAAAAAGGC
1 AAAATAGGC
4796326 TTTTTTGGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.22
Consensus pattern (29 bp):
AAAATAGGCCCATTCCGATAAATAATAAA
Found at i:4802376 original size:24 final size:24
Alignment explanation
Indices: 4802349--4802395 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
4802339 CCTATAATGG
4802349 GTAGCTCCAAAGAGCAATTAACGA
1 GTAGCTCCAAAGAGCAATTAACGA
*
4802373 GTAGCTCCGAAGAGCAATTAACG
1 GTAGCTCCAAAGAGCAATTAACG
4802396 GGAAGCACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
GTAGCTCCAAAGAGCAATTAACGA
Found at i:4802406 original size:24 final size:24
Alignment explanation
Indices: 4802358--4802425 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
4802348 GGTAGCTCCA
* * *
4802358 AAGAGCAATTAACGAGTAGCTCCG
1 AAGAGCAATTAACGGGAAGCACCG
4802382 AAGAGCAATTAACGGGAAGCACCG
1 AAGAGCAATTAACGGGAAGCACCG
*
4802406 AATAGTC-ATATAACGGGAAG
1 AAGAG-CAAT-TAACGGGAAG
4802426 TTCAAGCTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 27 0.71
25 11 0.29
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (24 bp):
AAGAGCAATTAACGGGAAGCACCG
Found at i:4807053 original size:2 final size:2
Alignment explanation
Indices: 4807042--4807071 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4807032 AGATCAATTT
4807042 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4807072 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4807290 original size:16 final size:17
Alignment explanation
Indices: 4807259--4807291 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4807249 AAAGTGCAAT
4807259 TACTCTCTTAGTAATTA
1 TACTCTCTTAGTAATTA
4807276 TACTCTCTT-GTAATTA
1 TACTCTCTTAGTAATTA
4807292 CAAAGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (17 bp):
TACTCTCTTAGTAATTA
Found at i:4807946 original size:28 final size:29
Alignment explanation
Indices: 4807884--4807947 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
4807874 TATATTTTTT
*
4807884 ATTTTTTATTTTAAAATATTTTTAAAATAC
1 ATTTTTTATTTT-AAATATTTTTAAAATAA
* *
4807914 TTTTTTTATTTT-ATTATTTTTAAAATAA
1 ATTTTTTATTTTAAATATTTTTAAAATAA
4807942 ATTTTT
1 ATTTTT
4807948 GGTGTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 19 0.63
30 11 0.37
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTTATTTTAAATATTTTTAAAATAA
Found at i:4807955 original size:29 final size:28
Alignment explanation
Indices: 4807900--4807958 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
4807890 TATTTTAAAA
** *
4807900 TATTTTTAAAATACTTTTTTTATTTTAT
1 TATTTTTAAAATAAATTTTTGATTTTAT
*
4807928 TATTTTTAAAATAAATTTTTGGTGTTTAT
1 TATTTTTAAAATAAATTTTTGAT-TTTAT
4807957 TA
1 TA
4807959 AAAAATGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (28 bp):
TATTTTTAAAATAAATTTTTGATTTTAT
Found at i:4826079 original size:5 final size:5
Alignment explanation
Indices: 4826069--4826100 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4826059 GTGATATCAA
*
4826069 CAACC CAACC CAACC CAACC CAACC CACCC CA
1 CAACC CAACC CAACC CAACC CAACC CAACC CA
4826101 TGTCTCTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.38, C:0.62, G:0.00, T:0.00
Consensus pattern (5 bp):
CAACC
Found at i:4828173 original size:39 final size:39
Alignment explanation
Indices: 4828115--4828210 Score: 129
Period size: 39 Copynumber: 2.5 Consensus size: 39
4828105 NNNNNNNNCT
* *
4828115 CCTTCACCCCCACCCCCTACATATCCATCACCTCCACCA
1 CCTTCACCCCCACCACCTACATATCCATCACCACCACCA
* * * * *
4828154 CCTTCACCCCCGCCACCTACTTATCCGTCACCACCGCCC
1 CCTTCACCCCCACCACCTACATATCCATCACCACCACCA
4828193 CCTTCACCCCCACCACCT
1 CCTTCACCCCCACCACCT
4828211 GCGCCAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.19, C:0.60, G:0.03, T:0.18
Consensus pattern (39 bp):
CCTTCACCCCCACCACCTACATATCCATCACCACCACCA
Found at i:4828342 original size:21 final size:21
Alignment explanation
Indices: 4828316--4828370 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4828306 CTATAACTCC
4828316 CCTCCACCACCACATCAGTCA
1 CCTCCACCACCACATCAGTCA
* *
4828337 CCTCCACCGCCACATCATTCA
1 CCTCCACCACCACATCAGTCA
* *
4828358 CCCCCACCCCCAC
1 CCTCCACCACCAC
4828371 CACATTCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.60, G:0.04, T:0.13
Consensus pattern (21 bp):
CCTCCACCACCACATCAGTCA
Found at i:4828376 original size:21 final size:21
Alignment explanation
Indices: 4828334--4828395 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
4828324 ACCACATCAG
*
4828334 TCACCTCCACCGCCA-CATCAT
1 TCACCACCACCGCCACCA-CAT
* *
4828355 TCACCCCCACCCCCACCACAT
1 TCACCACCACCGCCACCACAT
* *
4828376 TCTCCACCACCGCCTCCACA
1 TCACCACCACCGCCACCACA
4828396 CTCCCCTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.23, C:0.60, G:0.03, T:0.15
Consensus pattern (21 bp):
TCACCACCACCGCCACCACAT
Found at i:4828853 original size:114 final size:114
Alignment explanation
Indices: 4828723--4828934 Score: 415
Period size: 114 Copynumber: 1.9 Consensus size: 114
4828713 TGTATGAGGG
4828723 ACCATTGCCACCAGTAATTGGAGTGTCATACGCTTCACCTCCTCCGCCACCTTTCTATTGATTCT
1 ACCATTGCCACCAGTAATTGGAGTGTCATACGCTTCACCTCCTCCGCCACCTTTCTATTGATTCT
4828788 TTTGAGAAATTTCCTCCTCTCATAACCTTCTTCTCAAACCACAAAAGGC
66 TTTGAGAAATTTCCTCCTCTCATAACCTTCTTCTCAAACCACAAAAGGC
*
4828837 ACCATTGCCACCAGTAATTGGAGTGTCATACGCTTCACCTCCTCCGCCCCCTTTCTATTGATTCT
1 ACCATTGCCACCAGTAATTGGAGTGTCATACGCTTCACCTCCTCCGCCACCTTTCTATTGATTCT
4828902 TTTGAGAAATTTCCTCCTCTCATAACCTTCTTC
66 TTTGAGAAATTTCCTCCTCTCATAACCTTCTTC
4828935 AAGGCAAAAA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (114 bp):
ACCATTGCCACCAGTAATTGGAGTGTCATACGCTTCACCTCCTCCGCCACCTTTCTATTGATTCT
TTTGAGAAATTTCCTCCTCTCATAACCTTCTTCTCAAACCACAAAAGGC
Found at i:4830794 original size:16 final size:16
Alignment explanation
Indices: 4830755--4830797 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
4830745 CTTGGTAAAT
*
4830755 TTTTAATTTAGTCTAA
1 TTTTAATTTAGTCAAA
*
4830771 TTGTAATTTA-TCAAA
1 TTTTAATTTAGTCAAA
*
4830786 TTTTAAATTAGT
1 TTTTAATTTAGT
4830798 AATTATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTAATTTAGTCAAA
Found at i:4831216 original size:28 final size:28
Alignment explanation
Indices: 4831168--4831228 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
4831158 TTCATAAAAT
*
4831168 TTTAAATTAATATATAATAAAATTATAA
1 TTTAAATTAATAAATAATAAAATTATAA
* *
4831196 TTTAAACTTAA-AAATACTAAAATTCTAA
1 TTTAAA-TTAATAAATAATAAAATTATAA
4831224 TTTAA
1 TTTAA
4831229 TCCCTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (28 bp):
TTTAAATTAATAAATAATAAAATTATAA
Found at i:4838039 original size:13 final size:13
Alignment explanation
Indices: 4838021--4838045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4838011 TTACGGCGGG
4838021 AAAAAGGAAAAAT
1 AAAAAGGAAAAAT
4838034 AAAAAGGAAAAA
1 AAAAAGGAAAAA
4838046 GGAAGCAAAA
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:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAGGAAAAAT
Found at i:4839445 original size:67 final size:67
Alignment explanation
Indices: 4839329--4839461 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
4839319 TCATGGATCC
4839329 ACCAAGTAAAAACAATGGTTATATTAATGGTACTGTTATTTATTGTTTTTTTTTTGGGGGGGGGG
1 ACCAAGTAAAAACAATGGTTATATTAATGGTACTGTTATTTATTGTTTTTTTTTTGGGGGGGGGG
4839394 GG
66 GG
** * * *
4839396 ACCAAGTAAAAACAATGGTTATATTAATGGTTTTGTTTTTTTTTTTTTTTTTTTTGGGGGGGGGG
1 ACCAAGTAAAAACAATGGTTATATTAATGGTACTGTTATTTATTGTTTTTTTTTTGGGGGGGGGG
4839461 G
66 G
4839462 TGTTTCACTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.44
Consensus pattern (67 bp):
ACCAAGTAAAAACAATGGTTATATTAATGGTACTGTTATTTATTGTTTTTTTTTTGGGGGGGGGG
GG
Found at i:4846209 original size:1 final size:1
Alignment explanation
Indices: 4846203--4846232 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
4846193 TCTGCTAAAG
*
4846203 AAAAAAAAAAAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4846233 CTACAGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:4878088 original size:3 final size:3
Alignment explanation
Indices: 4878082--4878115 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4878072 CATCATCATC
4878082 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4878116 ATTTGAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4878578 original size:19 final size:20
Alignment explanation
Indices: 4878548--4878600 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
4878538 AAAAACACAA
*
4878548 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
4878568 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
4878587 ATTTTGTAATTTTT
1 ATTTTG-AATTTTT
4878601 TTTAGAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 7 0.24
21 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:4878857 original size:6 final size:7
Alignment explanation
Indices: 4878839--4878864 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4878829 ATCTCTCTTT
4878839 TAAAAAA
1 TAAAAAA
4878846 TAAAAAA
1 TAAAAAA
4878853 TAAAAAA
1 TAAAAAA
4878860 TAAAA
1 TAAAA
4878865 CATATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:4883599 original size:324 final size:325
Alignment explanation
Indices: 4883010--4883658 Score: 1291
Period size: 324 Copynumber: 2.0 Consensus size: 325
4883000 GTTGGGTAGA
4883010 GTTTTAGATAATCATCTGATCTTTTATGATAAGTAACGTTGTAATGTTTCTTCGAGTTGCTGTTA
1 GTTTTAGATAATCATCTGATCTTTTATGATAAGTAACGTTGTAATGTTTCTTCGAGTTGCTGTTA
4883075 TTATATATTCTTACTATTATTATTTAGTTTTGCAACTTTTCCCTTTTCCCTTAAAAGACTAATTA
66 TTATATATTCTTACTATTATTATTTAGTTTTGCAACTTTTCCCTTTTCCCTTAAAAGACTAATTA
4883140 GGAAGCAAGAGATCTGGTCTTGAGTAGGACGTGGCGGATTTTCATAAATTTGCATAAAAATGAAT
131 GGAAGCAAGAGATCTGGTCTTGAGTAGGACGTGGCGGATTTTCATAAATTTGCATAAAAATGAAT
4883205 ATATTCATATTATTTTTAAATTTATTAAGTAAGTTTAATTTTTTCCCACTTTTCTGTAACACTAT
196 ATATTCATATTATTTTTAAATTTATTAAGTAAGTTTAATTTTTTCCCACTTTTCTGTAACACTAT
4883270 TCCACCCTTAATAATTATATTTTTATATATTTTATATAATATGAAAATTGAGTG-TTGTTTTGGT
261 TCCACCCTTAATAATTATATTTTTATATATTTTATATAATATGAAAATTGAGTGATTGTTTTGGT
4883334 GTTTTAGATAATCATCTGATCTTTTATGATAAGTAACGTTGTAATGTTTCTTCGAGTTGCTGTTA
1 GTTTTAGATAATCATCTGATCTTTTATGATAAGTAACGTTGTAATGTTTCTTCGAGTTGCTGTTA
4883399 TTATATATTCTTACTATTATTATTTAGTTTTGCAACTTTTCCCTTTTCCCTTAAAAGACTAATTA
66 TTATATATTCTTACTATTATTATTTAGTTTTGCAACTTTTCCCTTTTCCCTTAAAAGACTAATTA
4883464 GGAAGCAAGAGATCTGGTCTTGAGTAGGACGTGGCGGATTTTCATAAATTTGCATAAAAATGAAT
131 GGAAGCAAGAGATCTGGTCTTGAGTAGGACGTGGCGGATTTTCATAAATTTGCATAAAAATGAAT
4883529 ATATTCATATTATTTTTAAATTTATTAAGTAAGTTTAATTTTTTCCCACTTTTCTGTAACACTAT
196 ATATTCATATTATTTTTAAATTTATTAAGTAAGTTTAATTTTTTCCCACTTTTCTGTAACACTAT
4883594 TCCACCCTTAATAATTATATTTTTATATATTTTATATAATATGAAAATTGAGTGATTGTTTTGGT
261 TCCACCCTTAATAATTATATTTTTATATATTTTATATAATATGAAAATTGAGTGATTGTTTTGGT
4883659 ACGTATAAAT
Statistics
Matches: 324, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
324 314 0.97
325 10 0.03
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (325 bp):
GTTTTAGATAATCATCTGATCTTTTATGATAAGTAACGTTGTAATGTTTCTTCGAGTTGCTGTTA
TTATATATTCTTACTATTATTATTTAGTTTTGCAACTTTTCCCTTTTCCCTTAAAAGACTAATTA
GGAAGCAAGAGATCTGGTCTTGAGTAGGACGTGGCGGATTTTCATAAATTTGCATAAAAATGAAT
ATATTCATATTATTTTTAAATTTATTAAGTAAGTTTAATTTTTTCCCACTTTTCTGTAACACTAT
TCCACCCTTAATAATTATATTTTTATATATTTTATATAATATGAAAATTGAGTGATTGTTTTGGT
Found at i:4910246 original size:24 final size:24
Alignment explanation
Indices: 4910209--4910255 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4910199 TTGGATTTCA
*
4910209 ACATTCCGACCATCCTGTAATATC
1 ACATTACGACCATCCTGTAATATC
*
4910233 ACATTACGATCATCCTGTAATAT
1 ACATTACGACCATCCTGTAATAT
4910256 AAGGTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (24 bp):
ACATTACGACCATCCTGTAATATC
Found at i:4919153 original size:26 final size:26
Alignment explanation
Indices: 4919124--4919175 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
4919114 ATCTCTCAAC
4919124 AAAA-ATTACAAAAAAATTCTAAAATT
1 AAAATATTA-AAAAAAATTCTAAAATT
*
4919150 AAAATATTAATAAAAATTCTAAAATT
1 AAAATATTAAAAAAAATTCTAAAATT
4919176 TATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATATTAAAAAAAATTCTAAAATT
Found at i:4919190 original size:26 final size:26
Alignment explanation
Indices: 4919133--4919227 Score: 75
Period size: 26 Copynumber: 3.5 Consensus size: 26
4919123 CAAAAATTAC
4919133 AAAAAAATTCTAAAA-TTAAAATATT
1 AAAAAAATTCTAAAATTTAAAATATT
* * *
4919158 AATAAAAATTCTAAAATTTATATTTTT
1 AA-AAAAATTCTAAAATTTAAAATATT
* * * *
4919185 TAAAAAATTATAATAATTTTAAAAAAAT
1 AAAAAAATTCTAA-AA-TTTAAAATATT
*
4919213 ATTAAAAATTCTAAA
1 A-AAAAAATTCTAAA
4919228 GAATATATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
25 2 0.04
26 23 0.44
27 10 0.19
28 7 0.13
29 10 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAAAAATTCTAAAATTTAAAATATT
Found at i:4919222 original size:20 final size:20
Alignment explanation
Indices: 4919182--4919240 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
4919172 AATTTATATT
* *
4919182 TTTTAAAAAATTA-TAATAA
1 TTTTAAAAAAATATTAAAAA
4919201 TTTTAAAAAAATATTAAAAA
1 TTTTAAAAAAATATTAAAAA
* *
4919221 TTCT-AAAGAATATATAAAAA
1 TTTTAAAAAAATAT-TAAAAA
4919241 AATTCAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 20 0.59
20 14 0.41
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TTTTAAAAAAATATTAAAAA
Found at i:4921154 original size:21 final size:21
Alignment explanation
Indices: 4921130--4921201 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
4921120 TTCTTTTGAC
* *
4921130 CCTCTGCTTCTCTCGTTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
*
4921151 CCTCTGCTTCTCTCGCTGCAA
1 CCTCTGCTTCTCTCGCTGCAG
4921172 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
4921193 CCTCTGCTT
1 CCTCTGCTT
4921202 TAAGTTGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.06, C:0.40, G:0.17, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:4921693 original size:7 final size:7
Alignment explanation
Indices: 4921683--4921719 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
4921673 TGATATATTT
4921683 TTATGTA
1 TTATGTA
4921690 TTATGTAA
1 TTATGT-A
4921698 GTTATGTA
1 -TTATGTA
4921706 TTATGTA
1 TTATGTA
4921713 TTATGTA
1 TTATGTA
4921720 AGTACTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:4921704 original size:9 final size:9
Alignment explanation
Indices: 4921690--4922210 Score: 439
Period size: 9 Copynumber: 60.4 Consensus size: 9
4921680 TTTTTATGTA
4921690 TTATGTAAG
1 TTATGTAAG
4921699 TTATGT-A-
1 TTATGTAAG
4921706 TTATGT-A-
1 TTATGTAAG
4921713 TTATGTAAG
1 TTATGTAAG
4921722 -TACTGTAAG
1 TTA-TGTAAG
* *
4921731 TAATGAAAG
1 TTATGTAAG
4921740 TTATGTAAG
1 TTATGTAAG
*
4921749 TTGTGTATA-
1 TTATGTA-AG
*
4921758 ATAT-TAA-
1 TTATGTAAG
*
4921765 TTATGTGAG
1 TTATGTAAG
*
4921774 TTGTGT-A-
1 TTATGTAAG
*
4921781 TAATGTAAG
1 TTATGTAAG
*
4921790 TTAAG-AAGG
1 TTATGTAA-G
4921799 TTATGT-A-
1 TTATGTAAG
*
4921806 TAATGTAAG
1 TTATGTAAG
4921815 TTATGTAAG
1 TTATGTAAG
* *
4921824 TTATTTAAT
1 TTATGTAAG
4921833 TTATGTAAG
1 TTATGTAAG
4921842 TTATGTAAG
1 TTATGTAAG
*
4921851 TTATGAAAG
1 TTATGTAAG
* *
4921860 TTATTTAAT
1 TTATGTAAG
4921869 TTATGTAA-
1 TTATGTAAG
* *
4921877 CTGTGT-A-
1 TTATGTAAG
*
4921884 TAATGTAAG
1 TTATGTAAG
4921893 TTATGTAAG
1 TTATGTAAG
4921902 TTATGTAAG
1 TTATGTAAG
* *
4921911 TTATTTAAT
1 TTATGTAAG
4921920 TTATGTAAG
1 TTATGTAAG
*
4921929 TTGTGT-A-
1 TTATGTAAG
*
4921936 TAATGTAAG
1 TTATGTAAG
4921945 TTATGTAAG
1 TTATGTAAG
4921954 TTATGTAAG
1 TTATGTAAG
* *
4921963 TTATTTAAT
1 TTATGTAAG
4921972 TTATGTAAG
1 TTATGTAAG
*
4921981 TTGTGT-A-
1 TTATGTAAG
* * *
4921988 TAATTTAAT
1 TTATGTAAG
4921997 TTATGTAAG
1 TTATGTAAG
4922006 TTATGTAAG
1 TTATGTAAG
* *
4922015 TTATTTAAT
1 TTATGTAAG
*
4922024 TTATGTAAC
1 TTATGTAAG
4922033 TTATGTAAG
1 TTATGTAAG
4922042 TTATGTAAG
1 TTATGTAAG
* *
4922051 TTATTTAAT
1 TTATGTAAG
4922060 TTATGTAAG
1 TTATGTAAG
*
4922069 TTGTGT-A-
1 TTATGTAAG
*
4922076 TAATGTAAG
1 TTATGTAAG
4922085 TTATGTAAG
1 TTATGTAAG
4922094 TTATGTAAG
1 TTATGTAAG
*
4922103 TTATTTAA-
1 TTATGTAAG
4922111 TGTATGTAAG
1 T-TATGTAAG
4922121 TTATGTAAG
1 TTATGTAAG
* *
4922130 TTATTTAAT
1 TTATGTAAG
4922139 TTATGTAAG
1 TTATGTAAG
*
4922148 TTGTGT-A-
1 TTATGTAAG
*
4922155 TAATGTAAG
1 TTATGTAAG
4922164 TTATGTAAG
1 TTATGTAAG
4922173 TTATGTAAG
1 TTATGTAAG
* *
4922182 TTATTTAGG
1 TTATGTAAG
4922191 TTATGT-A-
1 TTATGTAAG
*
4922198 TTATGTTAG
1 TTATGTAAG
4922207 TTAT
1 TTAT
4922211 TATGTTATTA
Statistics
Matches: 407, Mismatches: 78, Indels: 54
0.76 0.14 0.10
Matches are distributed among these distances:
7 51 0.13
8 28 0.07
9 325 0.80
10 3 0.01
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:4921854 original size:52 final size:53
Alignment explanation
Indices: 4921683--4922218 Score: 407
Period size: 52 Copynumber: 10.2 Consensus size: 53
4921673 TGATATATTT
4921683 TTATGT-A-TTATGTAAGTTATGTA-TTATGT-A-TTATGTAAG-TACTGTAAG
1 TTATGTAAGTTATGTAAGTTATGTATTTATGTAAGTTATGTAAGTTA-TGTAAG
* * * * * *
4921731 TAATGAAAGTTATGTAAGTTGTGTATAATAT-TAA-TTATGTGAGTTGTGT-A-
1 TTATGTAAGTTATGTAAGTTATGTAT-TTATGTAAGTTATGTAAGTTATGTAAG
* * * * *
4921781 TAATGTAAGTTAAG-AAGGTTATGTA-TAATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAA-GTTATGTATTTATGTAAGTTATGTAAGTTATGTAAG
* * * *
4921833 TTATGTAAGTTATGTAAGTTATGAAAGTTATTTAATTTATGTAACTGTGTATAATGTAAG
1 TTATGTAAGTTATGTAAGTTATG-TATTTATGTAAGTTATGTAA----GT-T-ATGTAAG
* * *
4921893 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTGTGT-A-TAATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-ATTTATGTAAGTTATGTAAGTTATGTAAG
* * * * *
4921945 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTGTGT-A-TAATTTAAT
1 TTATGTAAGTTATGTAAGTTATGT-ATTTATGTAAGTTATGTAAGTTATGTAAG
* *
4921997 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAACTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-ATTTATGTAAGTTATGTAAGTTATGTAAG
* * * *
4922051 TTATTTAATTTATGTAAGTTGTGTA-TAATGTAAGTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTATTTATGTAAGTTATGTAAGTTATGTAAG
* * * * *
4922103 TTATTTAA-TGTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTGTGT-A-
1 TTATGTAAGT-TATGTAAGTTATGT-ATTTATGTAAGTTATGTAAGTTATGTAAG
* * * * *
4922155 TAATGTAAGTTATGTAAGTTATGTAAGTTATTTAGGTTATGT-A-TTATGTTAG
1 TTATGTAAGTTATGTAAGTTATGT-ATTTATGTAAGTTATGTAAGTTATGTAAG
*
4922207 TTAT-TATGTTAT
1 TTATGTAAGTTAT
4922219 TATATAAGTT
Statistics
Matches: 405, Mismatches: 54, Indels: 55
0.79 0.11 0.11
Matches are distributed among these distances:
48 6 0.01
49 6 0.01
50 51 0.13
51 13 0.03
52 215 0.53
53 9 0.02
54 61 0.15
58 2 0.00
59 2 0.00
60 40 0.10
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (53 bp):
TTATGTAAGTTATGTAAGTTATGTATTTATGTAAGTTATGTAAGTTATGTAAG
Found at i:4922030 original size:79 final size:79
Alignment explanation
Indices: 4921835--4922211 Score: 426
Period size: 79 Copynumber: 4.7 Consensus size: 79
4921825 TATTTAATTT
* * * * * *
4921835 ATGTAAGTTATGTAAGTTATGAAAGTTATTTAATTTATGTAA-CTGTGT-A-TAATGTAAGTTAT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTAT
* *
4921897 GTAAGTTATGTAAGTT
66 GTAAGTTGTGT-A-TA
* * * * * *
4921913 ATTTAATTTATGTAAGTTGTGT-A-TAATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTAT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTAT
4921976 GTAAGTTGTGTATA
66 GTAAGTTGTGTATA
* *
4921990 ATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAACTTATGTAAGTTATGTAAGTTAT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTT-A---A--T---TTATGTAAGTTATGTAAGTTAT
4922055 TTAATTTATGTAAGTTGTGTATA
57 TTAATTTATGTAAGTTGTGTATA
*
4922078 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATGTATGTAAGTTATGTAAGTTATTTAATTTAT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTAT
4922143 GTAAGTTGTGTATA
66 GTAAGTTGTGTATA
** *
4922157 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAGGTTATGT-A-TTATGTTAGTTATT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATT
4922212 ATGTTATTAT
Statistics
Matches: 260, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
76 14 0.05
77 40 0.15
78 22 0.08
79 105 0.40
80 1 0.00
82 1 0.00
83 1 0.00
84 1 0.00
87 1 0.00
88 74 0.28
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.49
Consensus pattern (79 bp):
ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTAT
GTAAGTTGTGTATA
Found at i:4922037 original size:88 final size:85
Alignment explanation
Indices: 4921817--4922219 Score: 432
Period size: 88 Copynumber: 4.7 Consensus size: 85
4921807 AATGTAAGTT
* * * * * * * *
4921817 ATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGAAAGTTATTTAATTTATGTAA-CTGT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAA-TTATG-TA-TTATGTAAGTTATGTAAGTTAT
* * * *
4921881 GT-A-TAATGTAAGTTATGTAAGTT
63 TTAATTTATGTAAGTTGTGT-A-TA
* * * * *
4921904 ATGTAAGTTATTTAATTTATGTAAGTTGTGT-ATAATGTAAGTTATGTAAGTTATGTAAGTTATT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTATGT-A-TTATGTAAGTTATGTAAGTTATT
4921968 TAATTTATGTAAGTTGTGTATA
64 TAATTTATGTAAGTTGTGTATA
* *
4921990 ATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAACTTATGTAAGTTATGTAAGTTAT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAA-TTATGT-A-TTATGTAAGTTATGTAAGTTAT
4922055 TTAATTTATGTAAGTTGTGTATA
63 TTAATTTATGTAAGTTGTGTATA
4922078 ATGTAAGTTATGTAAGTTATGTAAGTTATTT-A--ATG---TATGTAAGTTATGTAAGTTATTTA
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTATGTATTATGTAAGTTATGTAAGTTATTTA
4922137 ATTTATGTAAGTTGTGTATA
66 ATTTATGTAAGTTGTGTATA
* * *
4922157 ATGTAAGTTATGTAAGTTATGTAAGTTATTTAGGTTATGTATTATGTTAGTTAT-TATGTTATT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATTTA-ATTATGTATTATGTAAGTTATGTAAGTTATT
4922220 ATATAAGTTA
Statistics
Matches: 279, Mismatches: 24, Indels: 28
0.84 0.07 0.08
Matches are distributed among these distances:
79 75 0.27
83 3 0.01
84 3 0.01
85 29 0.10
86 41 0.15
87 34 0.12
88 94 0.34
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (85 bp):
ATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTATGTATTATGTAAGTTATGTAAGTTATTTA
ATTTATGTAAGTTGTGTATA
Found at i:4922229 original size:24 final size:25
Alignment explanation
Indices: 4922180--4922229 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
4922170 AAGTTATGTA
*
4922180 AGTTATTTAGGTTATGTATTATGTT
1 AGTTATTTAGGTTATGTATTAAGTT
*
4922205 AGTTA-TTATGTTAT-TATATAAGTT
1 AGTTATTTAGGTTATGTAT-TAAGTT
4922229 A
1 A
4922230 TGCAAGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (25 bp):
AGTTATTTAGGTTATGTATTAAGTT
Found at i:4922230 original size:29 final size:29
Alignment explanation
Indices: 4922198--4922290 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 29
4922188 AGGTTATGTA
4922198 TTATGTTAGTTATTATGTTATTATATAAG
1 TTATGTTAGTTATTATGTTATTATATAAG
** *
4922227 TTATGCAAGTTTCTATATATG-T-TTATAT-AT
1 TTATGTTAG--T-TAT-TATGTTATTATATAAG
4922257 TGTATGTTAGTTATTATGTTATTATATAAG
1 T-TATGTTAGTTATTATGTTATTATATAAG
4922287 TTAT
1 TTAT
4922291 TATGTTATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
27 4 0.08
28 4 0.08
29 17 0.34
30 4 0.08
31 13 0.26
32 4 0.08
33 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (29 bp):
TTATGTTAGTTATTATGTTATTATATAAG
Found at i:4922302 original size:20 final size:20
Alignment explanation
Indices: 4922191--4922315 Score: 98
Period size: 20 Copynumber: 6.3 Consensus size: 20
4922181 GTTATTTAGG
* *
4922191 TTATG-TATTATGTTAGTTA
1 TTATGTTATTATATAAGTTA
4922210 TTATGTTATTATATAAGTTA
1 TTATGTTATTATATAAGTTA
* * *
4922230 TGCAAGTT-TCTATATATGTT-
1 T-TATGTTAT-TATATAAGTTA
* * * *
4922250 TATATATT-GTATGTTAGTTA
1 T-TATGTTATTATATAAGTTA
4922270 TTATGTTATTATATAAGTTA
1 TTATGTTATTATATAAGTTA
4922290 TTATGTTATTATATAAAG-TA
1 TTATGTTATTATAT-AAGTTA
4922310 TTATGT
1 TTATGT
4922316 AATTTATTAT
Statistics
Matches: 83, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
19 17 0.20
20 50 0.60
21 16 0.19
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (20 bp):
TTATGTTATTATATAAGTTA
Found at i:4923853 original size:522 final size:522
Alignment explanation
Indices: 4922869--4923913 Score: 1966
Period size: 522 Copynumber: 2.0 Consensus size: 522
4922859 GTATATATAT
*
4922869 CGAACTTAAAAATCATACTAAAAAACAACATGGCTTAATAAAATTCAACTTAAACATCCAATTCA
1 CGAACTTAAAAATCATACTAAAAAACAACATGGCTTAATAAAATTCAACTTAAAAATCCAATTCA
* *
4922934 TTACCTGGAAATGTAATCGGCTGCACCACATTTAAAAGAACAGTTTTATAAATTAATAAATTAAA
66 TTACCTGGAAATGTAATCGACTGCACCACATTTAAAAGAACAGTTTTATAAACTAATAAATTAAA
4922999 CCCTAAACTAGACATCAAAATTCCATACTTTAAAAACAGTACCAAATGAGTTCAACAAATAAACA
131 CCCTAAACTAGACATCAAAATTCCATACTTTAAAAACAGTACCAAATGAGTTCAACAAATAAACA
4923064 GTAACAAAGCATGTGTTCTGTACCTTCAGAATGATGAAGAAAACTGAAATGAAAGCAATGAAATG
196 GTAACAAAGCATGTGTTCTGTACCTTCAGAATGATGAAGAAAACTGAAATGAAAGCAATGAAATG
4923129 GATTAACCAAAAACTGGAGAAAAAACATAAAACTTAAAATCAGTTCCTAACAAATTAAACCATTC
261 GATTAACCAAAAACTGGAGAAAAAACATAAAACTTAAAATCAGTTCCTAACAAATTAAACCATTC
*
4923194 ACAAAAATAGTAATGAACAATAGAAGCAGTAATTTACCTTCACGAGAATGAACAAAACAGTCGAA
326 ACAAAAACAGTAATGAACAATAGAAGCAGTAATTTACCTTCACGAGAATGAACAAAACAGTCGAA
4923259 CACACCGAAAACCCTAAACACAGAGAATAATTTTTTTTTAATTCCAGTATCACCAACCAATAAGA
391 CACACCGAAAACCCTAAACACAGAGAATAATTTTTTTTTAATTCCAGTATCACCAACCAATAAGA
4923324 AAGCAAAATCAAAATTAAAAATACGACAAAACCCAATGTATAAATACGAAGAATCAGACATTCGA
456 AAGCAAAATCAAAATTAAAAATACGACAAAACCCAATGTATAAATACGAAGAATCAGACATTCGA
4923389 AC
521 AC
*
4923391 CGAACTTAAAAATCATACTAAAAAACAACATGGCTTAATAAAATTCAACTTAAAAATCCATTTCA
1 CGAACTTAAAAATCATACTAAAAAACAACATGGCTTAATAAAATTCAACTTAAAAATCCAATTCA
* *
4923456 TTACCTGGAAATGTAATCGACTGCACCAGATTTAACAGAACAGTTTTATAAACTAATAAATTAAA
66 TTACCTGGAAATGTAATCGACTGCACCACATTTAAAAGAACAGTTTTATAAACTAATAAATTAAA
4923521 CCCTAAACTAGACATCAAAATTCCATACTTTAAAAACAGTACCAAATGAGTTCAACAAATAAACA
131 CCCTAAACTAGACATCAAAATTCCATACTTTAAAAACAGTACCAAATGAGTTCAACAAATAAACA
4923586 GTAACAAAGCATGTGTTCTGTACCTTCAGAATGATGAAGAAAACTGAAATGAAAGCAATGAAATG
196 GTAACAAAGCATGTGTTCTGTACCTTCAGAATGATGAAGAAAACTGAAATGAAAGCAATGAAATG
4923651 GATTAACCAAAAACTGGAGAAAAAACATAAAACTTAAAATCAGTTCCTAACAAATTAAACCATTC
261 GATTAACCAAAAACTGGAGAAAAAACATAAAACTTAAAATCAGTTCCTAACAAATTAAACCATTC
* *
4923716 ACAAAAACAGTAATGAACAATAGAAGCAGTAATTTACCTTCACGAGGATGAACAAAATAGTCGAA
326 ACAAAAACAGTAATGAACAATAGAAGCAGTAATTTACCTTCACGAGAATGAACAAAACAGTCGAA
*
4923781 CACACCGAAAACCCTAAGCACAGAGAATACA-TTTTTTTTAATTCCAGTATCACCAACCAATAAG
391 CACACCGAAAACCCTAAACACAGAGAATA-ATTTTTTTTTAATTCCAGTATCACCAACCAATAAG
**
4923845 AAAGCAAAATCAAAATTAAAAATACGACAAAACCCAATGTATAAATACGAAGAATTGGACATTCG
455 AAAGCAAAATCAAAATTAAAAATACGACAAAACCCAATGTATAAATACGAAGAATCAGACATTCG
4923910 AAC
520 AAC
4923913 C
1 C
4923914 TTAAGATGTT
Statistics
Matches: 510, Mismatches: 12, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
522 509 1.00
523 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (522 bp):
CGAACTTAAAAATCATACTAAAAAACAACATGGCTTAATAAAATTCAACTTAAAAATCCAATTCA
TTACCTGGAAATGTAATCGACTGCACCACATTTAAAAGAACAGTTTTATAAACTAATAAATTAAA
CCCTAAACTAGACATCAAAATTCCATACTTTAAAAACAGTACCAAATGAGTTCAACAAATAAACA
GTAACAAAGCATGTGTTCTGTACCTTCAGAATGATGAAGAAAACTGAAATGAAAGCAATGAAATG
GATTAACCAAAAACTGGAGAAAAAACATAAAACTTAAAATCAGTTCCTAACAAATTAAACCATTC
ACAAAAACAGTAATGAACAATAGAAGCAGTAATTTACCTTCACGAGAATGAACAAAACAGTCGAA
CACACCGAAAACCCTAAACACAGAGAATAATTTTTTTTTAATTCCAGTATCACCAACCAATAAGA
AAGCAAAATCAAAATTAAAAATACGACAAAACCCAATGTATAAATACGAAGAATCAGACATTCGA
AC
Found at i:4926629 original size:27 final size:28
Alignment explanation
Indices: 4926591--4926667 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
4926581 CCGGCCCGGC
*
4926591 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
4926618 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
4926645 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
4926668 GCCAATACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:4926994 original size:7 final size:7
Alignment explanation
Indices: 4926984--4927023 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
4926974 TTAAACACTA
4926984 AAACCCT
1 AAACCCT
4926991 AAACCCT
1 AAACCCT
4926998 AAACCCT
1 AAACCCT
*
4927005 AAACACTAT
1 AAAC-C-CT
4927014 AAACCCT
1 AAACCCT
4927021 AAA
1 AAA
4927024 TCCAAAACGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 22 0.76
8 2 0.07
9 5 0.17
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:4927018 original size:16 final size:16
Alignment explanation
Indices: 4926975--4927023 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 16
4926965 AAATATTAAT
4926975 TAAACACTA-AAACCC
1 TAAACACTATAAACCC
*
4926990 TAAAC-C-CTAAACCC
1 TAAACACTATAAACCC
4927004 TAAACACTATAAACCC
1 TAAACACTATAAACCC
4927020 TAAA
1 TAAA
4927024 TCCAAAACGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 12 0.41
15 6 0.21
16 11 0.38
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAACACTATAAACCC
Found at i:4928011 original size:21 final size:20
Alignment explanation
Indices: 4927985--4928025 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4927975 TTCTAAACCT
*
4927985 TAAACCTCAATCTCCAAGCCC
1 TAAACCT-AAACTCCAAGCCC
*
4928006 TAAACCTAAACTCTAAGCCC
1 TAAACCTAAACTCCAAGCCC
4928026 AGAACACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.20
Consensus pattern (20 bp):
TAAACCTAAACTCCAAGCCC
Found at i:4928717 original size:133 final size:132
Alignment explanation
Indices: 4928371--4928787 Score: 484
Period size: 133 Copynumber: 3.1 Consensus size: 132
4928361 ATCCGAACCG
* * * * * * *
4928371 TTTCCGGCGTTTTTTAACATTTCGCCACTAAAG-CATAAAAAGGAAACAACAAAACAGTACCGTG
1 TTTCCGGCGTTTTTT-ACAATGCGCCACTAAAGAAAT-AAAACGAAACAATAAAACGGTA-CGTT
* * *
4928435 TTGCTCAAAATTTTTCCTCAAATTAGATATCCTTACCGGCGTTTCTCCAATAACGCCACTATATC
63 TTGCTCAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCGAA-AACGCCGCTATAT-
*
4928500 CCAATAT
126 TCAATAT
*
4928507 TTGT--GGCGTTTTTTTACAATGCGCCACTAAAGAAATAAAACGAAGCAATAAAACGGTAGCGTT
1 TT-TCCGGCG-TTTTTTACAATGCGCCACTAAAGAAATAAAACGAAACAATAAAACGGTA-CGTT
*
4928570 TTG-TCCAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCTGAAAACGCCGCCA-AT
63 TTGCT-CAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTC-GAAAACGCCGCTATAT
*
4928633 TCAATCT
126 TCAATAT
* *
4928640 TTTCCGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAATGAAACCATAAAACGGTACTGTTTT
1 TTTCCGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAACGAAACAATAAAACGGTAC-GTTTT
* * * *
4928705 GCTCAGATTTTTTCCTCAAATTCGTTATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCC
65 GCTCAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTC-GAAAACGCCGCTATATT-C
*
4928770 AATTT
128 AATAT
*
4928775 TTTGCGGCGTTTT
1 TTTCCGGCGTTTT
4928788 CGTGGAAGCG
Statistics
Matches: 244, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
132 2 0.01
133 109 0.45
134 11 0.05
135 109 0.45
136 12 0.05
137 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (132 bp):
TTTCCGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAACGAAACAATAAAACGGTACGTTTTG
CTCAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCGAAAACGCCGCTATATTCAAT
AT
Found at i:4928837 original size:133 final size:135
Alignment explanation
Indices: 4928375--4928839 Score: 479
Period size: 135 Copynumber: 3.5 Consensus size: 135
4928365 GAACCGTTTC
* * * * * * *
4928375 CGGCGTTTTTTAACATTTCGCCACTAAAG-CATAAAAAGGAAACAACAAAACAGTA-CCGTGTTG
1 CGGCGTTTTTT-ACAATGCGCCACTAAAGAAAT-AAAACGAACCAA-AAAACGGTAGCCGTTTTG
* * * *
4928438 CTCAAAATTTTTCCTCAAATTAGATATCCTTACCGGCGTTTCTCCA-ATAACGCCACTATATCCC
63 CTCAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCT-CAGAAAACGCCGCTATATTCC
*
4928502 AA-TATTTG
127 AATTTTTTG
* *
4928510 TGGCGTTTTTTTACAATGCGCCACTAAAGAAATAAAACGAAGCAATAAAACGGTAG-CGTTTTG-
1 CGGCG-TTTTTTACAATGCGCCACTAAAGAAATAAAACGAACCAA-AAAACGGTAGCCGTTTTGC
* *
4928573 TCCAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCTGAAAACGCCGCCA-ATT-CA
64 T-CAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCCA
* *
4928636 ATCTTTTC
128 ATTTTTTG
* * *
4928644 CGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAATGAAACCATAAAACGGTA-CTGTTTTGCT
1 CGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAACG-AACCAAAAAACGGTAGCCGTTTTGCT
* * * *
4928708 CAGATTTTTTCCTCAAATTCGTTATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCCAAT
65 CAAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCCAAT
4928773 TTTTTG
130 TTTTTG
* ** **
4928779 CGGCGTTTTCGTGGAA-GCGCCACTAAAGTCAT-AAA-GTAACCAAAAAACGG-AGCCGTTTTGC
1 CGGCGTTTT-TTACAATGCGCCACTAAAGAAATAAAACG-AACCAAAAAACGGTAGCCGTTTTGC
4928840 AAACATGTTT
Statistics
Matches: 278, Mismatches: 39, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
132 1 0.00
133 121 0.44
134 22 0.08
135 123 0.44
136 11 0.04
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (135 bp):
CGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAACGAACCAAAAAACGGTAGCCGTTTTGCTC
AAAATTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCCAATT
TTTTG
Found at i:4929583 original size:15 final size:15
Alignment explanation
Indices: 4929565--4929603 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4929555 CTTTTTCATC
*
4929565 TATTAATATTTAATA
1 TATTAATATTTAAAA
4929580 TATTAAT-TTTAAAA
1 TATTAATATTTAAAA
*
4929594 AATTAATATT
1 TATTAATATT
4929604 AATTATCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTAATATTTAAAA
Found at i:4929647 original size:20 final size:20
Alignment explanation
Indices: 4929622--4929672 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
4929612 CCTTTTAAAT
*
4929622 ATGTAATACTT-ATTTATCAA
1 ATGTAATAATTAATTTAT-AA
*
4929642 ATGTAAGAATTAATTTATAA
1 ATGTAATAATTAATTTATAA
4929662 ATG--ATAATTAA
1 ATGTAATAATTAA
4929673 AAACGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
20 14 0.52
21 6 0.22
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (20 bp):
ATGTAATAATTAATTTATAA
Found at i:4932536 original size:12 final size:12
Alignment explanation
Indices: 4932521--4932551 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4932511 TTCAAAATTC
4932521 TAATCAAACTAT
1 TAATCAAACTAT
4932533 TAATCAAACTAT
1 TAATCAAACTAT
4932545 TAA-CAAA
1 TAATCAAA
4932552 ATAACCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (12 bp):
TAATCAAACTAT
Found at i:4934203 original size:23 final size:23
Alignment explanation
Indices: 4934173--4934218 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4934163 GCTAAGCTAA
4934173 GTTAATAGAATCTATGAAACAAT
1 GTTAATAGAATCTATGAAACAAT
* *
4934196 GTTAATAGCATCTATGAATCAAT
1 GTTAATAGAATCTATGAAACAAT
4934219 CTTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (23 bp):
GTTAATAGAATCTATGAAACAAT
Found at i:4952565 original size:23 final size:23
Alignment explanation
Indices: 4952539--4952601 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
4952529 TCCCACGTTA
*
4952539 GGTTTTTGGATTTTAGGGTTTAG
1 GGTTTTTGGATTTTAGGATTTAG
**
4952562 GG-TTTAAGATTTTTAGGATTTAG
1 GGTTTTTGGA-TTTTAGGATTTAG
* *
4952585 GATTTTTAGGGTTTTAG
1 GGTTTTT-GGATTTTAG
4952602 AGAAAAAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
22 5 0.17
23 15 0.50
24 9 0.30
25 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (23 bp):
GGTTTTTGGATTTTAGGATTTAG
Found at i:4952576 original size:16 final size:16
Alignment explanation
Indices: 4952557--4952598 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4952547 GATTTTAGGG
4952557 TTTAGGGTTTAAGATT
1 TTTAGGGTTTAAGATT
* *
4952573 TTTAGGATTTAGGATT
1 TTTAGGGTTTAAGATT
4952589 TTTAGGGTTT
1 TTTAGGGTTT
4952599 TAGAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (16 bp):
TTTAGGGTTTAAGATT
Found at i:4952940 original size:126 final size:126
Alignment explanation
Indices: 4952765--4953156 Score: 605
Period size: 125 Copynumber: 3.1 Consensus size: 126
4952755 CACGTATACC
4952765 CGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAA
1 CGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAA
* * *
4952830 AAAAACGCTTCAAGCAGGATGCT-TTATTAGAAGAAATTGTGAAATCGCG-TCTCGTGGACG
66 AAAAACGCTTCAAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACG
* ** *
4952890 CGCTTTTGCTATAGTAGGTATTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT-TT
1 CGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATA
*
4952954 AAAAAACACTTCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACG
65 AAAAAACGCTTCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACG
* *
4953016 CGCTTTTGCTGCAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-A-AT
1 CGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAA
* * * *
4953079 AAAAACGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCATGGATG
66 AAAAACGCTTCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACG
4953140 CGCTTTTGCTACAGTAG
1 CGCTTTTGCTACAGTAG
4953157 CATGTTTGGC
Statistics
Matches: 243, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
124 72 0.30
125 102 0.42
126 69 0.28
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (126 bp):
CGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAA
AAAAACGCTTCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACG
Found at i:4956343 original size:21 final size:21
Alignment explanation
Indices: 4956317--4956443 Score: 155
Period size: 21 Copynumber: 6.0 Consensus size: 21
4956307 TCAAATTATA
4956317 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
4956338 TTTAAGTTAAGTGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
4956359 TTTTATTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
4956380 TTAAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* **
4956402 TTTAATTTAAGGGTTACAGTT
1 TTTAAGTTAAGGGTTAGGGTT
4956423 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
4956444 AGATTTTTAG
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 69 0.79
22 18 0.21
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:4956417 original size:43 final size:43
Alignment explanation
Indices: 4956317--4956437 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
4956307 TCAAATTATA
* * *
4956317 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTAGTGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGTGTT
* *
4956359 TTTTATTTAAGGGTTACGGTTTTAAAGTTAAGGGTTTA-TGGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGT-GTT
*
4956402 TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTT
4956438 AGGGTTAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 30 0.43
43 39 0.57
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.48
Consensus pattern (43 bp):
TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAGTGTT
Found at i:4956424 original size:64 final size:63
Alignment explanation
Indices: 4956320--4956443 Score: 167
Period size: 64 Copynumber: 2.0 Consensus size: 63
4956310 AATTATATTT
* ** * *
4956320 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGTGTTAGTGTTTTTTATTTAAGGGTTACGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTACGGTTTTA
* * *
4956383 AAGTTAAGGGTTTATGGTTTTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTAGGGTT
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTACGGTT
4956444 AGATTTTTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 10 0.19
64 42 0.81
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (63 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTACGGTTTTA
Found at i:4956450 original size:26 final size:27
Alignment explanation
Indices: 4956411--4956463 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
4956401 TTTTAATTTA
4956411 AGGGTTACAGTTTTTAAGTTAAGGGTT
1 AGGGTTACAGTTTTTAAGTTAAGGGTT
* *
4956438 AGGGTTAGA-TTTTTAGGTTAAGGGTT
1 AGGGTTACAGTTTTTAAGTTAAGGGTT
4956464 TAAGGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.42
Consensus pattern (27 bp):
AGGGTTACAGTTTTTAAGTTAAGGGTT
Found at i:4956470 original size:27 final size:28
Alignment explanation
Indices: 4956407--4956470 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 28
4956397 TGGTTTTTAA
4956407 TTTAAGGGTTACAGTTTTTAAGTTAAGGG
1 TTTAA-GGTTACAGTTTTTAAGTTAAGGG
* * *
4956436 -TTAGGGTTAGA-TTTTTAGGTTAAGGG
1 TTTAAGGTTACAGTTTTTAAGTTAAGGG
4956462 TTTAAGGTT
1 TTTAAGGTT
4956471 TGTCAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 14 0.47
27 13 0.43
28 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.44
Consensus pattern (28 bp):
TTTAAGGTTACAGTTTTTAAGTTAAGGG
Found at i:4957046 original size:18 final size:18
Alignment explanation
Indices: 4957019--4957053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4957009 GGAAAAAGAA
* *
4957019 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
4957037 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
4957054 AACGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:4957710 original size:7 final size:7
Alignment explanation
Indices: 4957698--4957722 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4957688 TGTTAGTTAT
4957698 ATACTAA
1 ATACTAA
4957705 ATACTAA
1 ATACTAA
4957712 ATACTAA
1 ATACTAA
4957719 ATAC
1 ATAC
4957723 CAATCGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:4958918 original size:51 final size:51
Alignment explanation
Indices: 4958863--4958962 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
4958853 AATTATTTAA
*
4958863 AAATAGGGATTTAAGATAAATTTA-AGAGGAACTTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * *
4958914 AAATATGGATTTGAGAGAAATTTAGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGA
4958963 GGAAATTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:4958936 original size:11 final size:11
Alignment explanation
Indices: 4958922--4958998 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
4958912 TTAAATATGG
4958922 ATTTGAGAGAA
1 ATTTGAGAGAA
*
4958933 ATTT-AGAAGGA
1 ATTTGAG-AGAA
4958944 ATTTGAGAGCAA
1 ATTTGAGAG-AA
4958956 A-TTGAGAGGAA
1 ATTTGAGA-GAA
4958967 ATTT-AGAGGAA
1 ATTTGAGA-GAA
4958978 A-TTGAGAAGAA
1 ATTTGAG-AGAA
4958989 ATTTGAGAGA
1 ATTTGAGAGA
4958999 GGATTAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
10 4 0.07
11 39 0.70
12 13 0.23
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:4958947 original size:22 final size:22
Alignment explanation
Indices: 4958922--4958998 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
4958912 TTAAATATGG
*
4958922 ATTTGAGAGAAATTTAGAAGGA
1 ATTTGAGAGAAATTGAGAAGGA
4958944 ATTTGAGAGCAAATTGAG-AGGAA
1 ATTTGAGAG-AAATTGAGAAGG-A
*
4958967 ATTT-AGAGGAAATTGAGAAGAA
1 ATTTGAGA-GAAATTGAGAAGGA
4958989 ATTTGAGAGA
1 ATTTGAGAGA
4958999 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 30 0.62
23 18 0.38
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAAGGA
Found at i:4958977 original size:33 final size:35
Alignment explanation
Indices: 4958922--4958997 Score: 106
Period size: 33 Copynumber: 2.3 Consensus size: 35
4958912 TTAAATATGG
*
4958922 ATTTGAGA-GAAATTTAGAAGGAATTTGAG-AGCAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAAG-AA
4958956 A-TTGAGAGGAAATTTAG-AGGAAATTGAGAAGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAAGAA
4958989 ATTTGAGAG
1 ATTTGAGAG
4958998 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
33 19 0.50
34 19 0.50
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAGAAGAA
Found at i:4971975 original size:12 final size:12
Alignment explanation
Indices: 4971960--4971985 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4971950 AATTTTTTTA
4971960 TTTTTAAATAAT
1 TTTTTAAATAAT
4971972 TTTTTAAATAAT
1 TTTTTAAATAAT
4971984 TT
1 TT
4971986 ATTTGATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTAAATAAT
Found at i:4972661 original size:15 final size:15
Alignment explanation
Indices: 4972641--4972690 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4972631 TCAAAATCAA
4972641 TATTTTTATAACATT
1 TATTTTTATAACATT
* *
4972656 TATTTTCACAACATT
1 TATTTTTATAACATT
*
4972671 T-TTTTTTTAA-ATT
1 TATTTTTATAACATT
4972684 TCATTTT
1 T-ATTTT
4972691 AAATTATGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 18 0.64
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTTTATAACATT
Found at i:4979318 original size:35 final size:36
Alignment explanation
Indices: 4979279--4979351 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
4979269 TTTGAAATAT
* *
4979279 ATTATT-AAAA-ATTAGAACACTTAAATGTAATAAAA
1 ATTATTAAAAATATTAGAA-ACTGAAAAGTAATAAAA
*
4979314 ATTATTAAAAATATTAGAAAGTGAAAAGTAATAAAA
1 ATTATTAAAAATATTAGAAACTGAAAAGTAATAAAA
4979350 AT
1 AT
4979352 GTTTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 6 0.18
36 20 0.61
37 7 0.21
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (36 bp):
ATTATTAAAAATATTAGAAACTGAAAAGTAATAAAA
Found at i:4981272 original size:4 final size:4
Alignment explanation
Indices: 4981263--4981288 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4981253 TTAACCTTTC
4981263 TCCA TCCA TCCA TCCA TCCA TCCA TC
1 TCCA TCCA TCCA TCCA TCCA TCCA TC
4981289 TCTCGCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (4 bp):
TCCA
Found at i:4982689 original size:11 final size:11
Alignment explanation
Indices: 4982663--4982696 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4982653 AAAAAAAAGT
4982663 TATATT-AAAA
1 TATATTAAAAA
4982673 TATATTAAAAA
1 TATATTAAAAA
*
4982684 TGTATTAAAAA
1 TATATTAAAAA
4982695 TA
1 TA
4982697 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TATATTAAAAA
Found at i:4991993 original size:15 final size:15
Alignment explanation
Indices: 4991973--4992046 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
4991963 GTTTAAGAAT
4991973 AATTATAATTATTAA
1 AATTATAATTATTAA
*
4991988 AATTATAA-TA-AAA
1 AATTATAATTATTAA
*
4992001 AATTA-AA-AATT--
1 AATTATAATTATTAA
*
4992012 AATTATAATAATTAA
1 AATTATAATTATTAA
4992027 AATTAT-ATTATTTAA
1 AATTATAATTA-TTAA
4992042 AATTA
1 AATTA
4992047 CTTTAAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
11 5 0.10
12 5 0.10
13 11 0.22
14 5 0.10
15 23 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTATAATTATTAA
Found at i:4992036 original size:20 final size:20
Alignment explanation
Indices: 4991974--4992037 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
4991964 TTTAAGAATA
*
4991974 ATTATAATTATTAAAATTAT
1 ATTATAATAATTAAAATTAT
* *
4991994 AATA-AAAAATTAAAAATTA-
1 ATTATAATAATT-AAAATTAT
4992013 ATTATAATAATTAAAATTAT
1 ATTATAATAATTAAAATTAT
4992033 ATTAT
1 ATTAT
4992038 TTAAAATTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 15 0.42
20 21 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATAATAATTAAAATTAT
Found at i:5006860 original size:19 final size:21
Alignment explanation
Indices: 5006814--5006861 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
5006804 AACAAATTCA
5006814 ATTAA-AAGTTTTTAGTACAAT
1 ATTAATAAGTTTTTAGTA-AAT
*
5006835 ATAAATAAGTTTTTA-T-AAT
1 ATTAATAAGTTTTTAGTAAAT
5006854 ATTAATAA
1 ATTAATAA
5006862 TTATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (21 bp):
ATTAATAAGTTTTTAGTAAAT
Found at i:5013039 original size:19 final size:21
Alignment explanation
Indices: 5012993--5013040 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
5012983 AACAAATTCA
5012993 ATTAA-AAGTTTTTAGTACAAT
1 ATTAATAAGTTTTTAGTA-AAT
*
5013014 ATAAATAAGTTTTTA-T-AAT
1 ATTAATAAGTTTTTAGTAAAT
5013033 ATTAATAA
1 ATTAATAA
5013041 TTATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (21 bp):
ATTAATAAGTTTTTAGTAAAT
Found at i:5014560 original size:2 final size:2
Alignment explanation
Indices: 5014553--5014588 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5014543 TCTTATCTTA
5014553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5014589 TAAAACTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5016381 original size:84 final size:84
Alignment explanation
Indices: 5016240--5016408 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
5016230 GATCTAGCTT
*
5016240 AAGCCAACACTGAATAATGAGCTTCTTAGGAAGTAAAGAATGGGGAGCGAGTGCAAACAAGTGAA
1 AAGCCAACACTGAATAATGAGCTTCTTAGGAAGTAAAGAATGGGGAGAGAGTGCAAACAAGTGAA
*
5016305 AGAGCGCTTTGGATTACTA
66 AAAGCGCTTTGGATTACTA
*
5016324 AAGCCAACACTGAATAATGAGCTTCTTAGGAAGTAAAGAATGGGGAGAGAGTGCAAACGAGTGAA
1 AAGCCAACACTGAATAATGAGCTTCTTAGGAAGTAAAGAATGGGGAGAGAGTGCAAACAAGTGAA
5016389 AAAGCGCTTTGGATTACTA
66 AAAGCGCTTTGGATTACTA
5016408 A
1 A
5016409 TACTAAAACT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (84 bp):
AAGCCAACACTGAATAATGAGCTTCTTAGGAAGTAAAGAATGGGGAGAGAGTGCAAACAAGTGAA
AAAGCGCTTTGGATTACTA
Found at i:5019191 original size:3 final size:3
Alignment explanation
Indices: 5019183--5019223 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5019173 AAAATTCATA
5019183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5019224 ACACCAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5026944 original size:284 final size:285
Alignment explanation
Indices: 5026423--5026991 Score: 1131
Period size: 284 Copynumber: 2.0 Consensus size: 285
5026413 TCAAATATAA
5026423 GTGACTAAAATGTAATCTGAGACAAACAAAAGTGACTATTTTTATAATTTATTCTAAATTTTATA
1 GTGACTAAAATGTAATCTGAGACAAACAAAAGTGACTATTTTTATAATTTATTCTAAATTTTATA
5026488 TTATTTACAATTCAATTTTACTAATATATATTTTTTGTATAATCTAATTTTAAATTAGGTTGAAT
66 TTATTTACAATTCAATTTTACTAATATATATTTTTTGTATAATCTAATTTTAAATTAGGTTGAAT
5026553 CGAATAACAATTATTTATAATAAAAAATAAAAGAATGGAATGCAAAATGCCCAAAATATTTATAA
131 CGAATAACAATTATTTATAATAAAAAATAAAAGAATGGAATGCAAAATGCCCAAAATATTTATAA
5026618 AATAATATTGATTTTTAATTAAAAGCAAAAAATTCTTTTTTTTTATTTACTTGCTTAGGGTAGTA
196 AATAATATTGATTTTTAATTAAAAGCAAAAAATTCTTTTTTTTTATTTACTTGCTTAGGGTAGTA
5026683 TTACGATTTTTAACATTTATTTTTT
261 TTACGATTTTTAACATTTATTTTTT
5026708 GTGACTAAAA-GTAATCTGAGACAAACAAAAGTGACTATTTTTATAATTTATTCTAAATTTTATA
1 GTGACTAAAATGTAATCTGAGACAAACAAAAGTGACTATTTTTATAATTTATTCTAAATTTTATA
5026772 TTATTTACAATTCAATTTTACTAATATATATTTTTTGTATAATCTAATTTTAAATTAGGTTGAAT
66 TTATTTACAATTCAATTTTACTAATATATATTTTTTGTATAATCTAATTTTAAATTAGGTTGAAT
5026837 CGAATAACAATTATTTATAATAAAAAATAAAAGAATGGAATGCAAAATGCCCAAAATATTTATAA
131 CGAATAACAATTATTTATAATAAAAAATAAAAGAATGGAATGCAAAATGCCCAAAATATTTATAA
5026902 AATAATATTGATTTTTAATTAAAAGCAAAAAATTCTTTTTTTTTATTTACTTGCTTAGGGTAGTA
196 AATAATATTGATTTTTAATTAAAAGCAAAAAATTCTTTTTTTTTATTTACTTGCTTAGGGTAGTA
5026967 TTACGATTTTTAACATTTATTTTTT
261 TTACGATTTTTAACATTTATTTTTT
5026992 AATATAATAG
Statistics
Matches: 284, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
284 274 0.96
285 10 0.04
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (285 bp):
GTGACTAAAATGTAATCTGAGACAAACAAAAGTGACTATTTTTATAATTTATTCTAAATTTTATA
TTATTTACAATTCAATTTTACTAATATATATTTTTTGTATAATCTAATTTTAAATTAGGTTGAAT
CGAATAACAATTATTTATAATAAAAAATAAAAGAATGGAATGCAAAATGCCCAAAATATTTATAA
AATAATATTGATTTTTAATTAAAAGCAAAAAATTCTTTTTTTTTATTTACTTGCTTAGGGTAGTA
TTACGATTTTTAACATTTATTTTTT
Found at i:5035252 original size:21 final size:21
Alignment explanation
Indices: 5035226--5035355 Score: 109
Period size: 21 Copynumber: 6.2 Consensus size: 21
5035216 TGAATATTCC
* *
5035226 AACAGAAGTTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * *
5035247 AACAGAAACTTACAAGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
5035268 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * *
5035289 AACAAAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
5035310 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
5035331 AACTA-AAGCTCAAAAGAGCTA
1 AAC-AGAAGCTCATAAGAGCTA
5035352 AACA
1 AACA
5035356 AAAAGTAAAA
Statistics
Matches: 83, Mismatches: 25, Indels: 3
0.75 0.23 0.03
Matches are distributed among these distances:
20 1 0.01
21 81 0.98
22 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:5035285 original size:42 final size:42
Alignment explanation
Indices: 5035226--5035355 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 42
5035216 TGAATATTCC
* * * *
5035226 AACAGAAGTTCATAAGAGCTGAACAGAAACTTACAAGAGTTA
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCACAAGAGTTA
* *
5035268 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCACAAGAGTTA
* * * * * *
5035310 AATAGAAGCTCGTAAGAGCTAAACTAAAGCTCAAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCACAAGAGTTA
5035352 AACA
1 AACA
5035356 AAAAGTAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAAAAACTCACAAGAGTTA
Found at i:5036079 original size:21 final size:21
Alignment explanation
Indices: 5036070--5036228 Score: 194
Period size: 21 Copynumber: 7.6 Consensus size: 21
5036060 TTAGCTTTTT
5036070 CGAGCTTCTGTTCAGCTCTTA
1 CGAGCTTCTGTTCAGCTCTTA
*
5036091 CGAGCTTTTGTTCAGCTCTTA
1 CGAGCTTCTGTTCAGCTCTTA
* *
5036112 CGAGCTTTTGTTCAACTCTTA
1 CGAGCTTCTGTTCAGCTCTTA
* *
5036133 CGAGCTTCTATTCAACTCTTA
1 CGAGCTTCTGTTCAGCTCTTA
* *
5036154 TGAGTTTCTGTTCAGCTCTTA
1 CGAGCTTCTGTTCAGCTCTTA
* *
5036175 CGAGCTTCTGTTTAACTCTTA
1 CGAGCTTCTGTTCAGCTCTTA
* *
5036196 TGA-CTTTCTGTTAAGCTCTTA
1 CGAGC-TTCTGTTCAGCTCTTA
*
5036217 TGAGCTTCTGTT
1 CGAGCTTCTGTT
5036229 GACATATTCA
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
20 1 0.01
21 119 0.98
22 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (21 bp):
CGAGCTTCTGTTCAGCTCTTA
Found at i:5040381 original size:25 final size:25
Alignment explanation
Indices: 5040351--5040404 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
5040341 CCCATTTTTT
*
5040351 AATAAACACCAAAAAA-TATTTTAAA
1 AATAAA-AACAAAAAATTATTTTAAA
*
5040376 AATAAAAATAAAAAATTATTTTAAA
1 AATAAAAACAAAAAATTATTTTAAA
5040401 AATA
1 AATA
5040405 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (25 bp):
AATAAAAACAAAAAATTATTTTAAA
Found at i:5041582 original size:2 final size:2
Alignment explanation
Indices: 5041577--5041617 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5041567 AAATATATTA
5041577 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
5041618 ATCAAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5046420 original size:13 final size:14
Alignment explanation
Indices: 5046397--5046427 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
5046387 AGAGTTTGAG
5046397 TAAAAATATAAATT
1 TAAAAATATAAATT
5046411 TAAAAA-ATAAATT
1 TAAAAATATAAATT
5046424 TAAA
1 TAAA
5046428 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATATAAATT
Found at i:5047681 original size:13 final size:14
Alignment explanation
Indices: 5047658--5047688 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
5047648 AGAGTTTGAG
5047658 TAAAAATATAAATT
1 TAAAAATATAAATT
5047672 TAAAAA-ATAAATT
1 TAAAAATATAAATT
5047685 TAAA
1 TAAA
5047689 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATATAAATT
Found at i:5049825 original size:18 final size:18
Alignment explanation
Indices: 5049785--5049850 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
5049775 CCGGCTCAAT
*
5049785 TATATTATATT-ATATAAA
1 TATATTATATTAAT-TATA
*
5049803 AATATTATATTAATTATA
1 TATATTATATTAATTATA
*
5049821 TATATTAAATAATAATTATA
1 TATATT--ATATTAATTATA
*
5049841 TGT-TTATATT
1 TATATTATATT
5049851 TATATTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
17 4 0.10
18 18 0.46
19 4 0.10
20 13 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TATATTATATTAATTATA
Found at i:5050755 original size:33 final size:30
Alignment explanation
Indices: 5050700--5050765 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 30
5050690 ACTTATTTTA
*
5050700 TTGTTAATTTTGTTATTATTTTAAAGCCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
5050730 TTGTTAATTTTGTTACTATTATTTTAGAGACAT
1 TTGTTAATTTTG-T--TATTATTTTAAAGACAT
5050763 TTG
1 TTG
5050766 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 12 0.39
31 1 0.03
33 18 0.58
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:5055304 original size:26 final size:27
Alignment explanation
Indices: 5055268--5055319 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
5055258 TAAAAAAATG
5055268 AAAAAAATAATTTAATATT-ATATTTC
1 AAAAAAATAATTTAATATTAATATTTC
5055294 AAAAAAATAATTTAATATTAATATTT
1 AAAAAAATAATTTAATATTAATATTT
5055320 AATATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAAAAATAATTTAATATTAATATTTC
Found at i:5055321 original size:13 final size:13
Alignment explanation
Indices: 5055277--5055329 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
5055267 GAAAAAAATA
5055277 ATTTAATATT-AT
1 ATTTAATATTAAT
**
5055289 ATTTCAA-AAAAAT
1 ATTT-AATATTAAT
5055302 AATTTAATATTAAT
1 -ATTTAATATTAAT
5055316 ATTTAATATTAAT
1 ATTTAATATTAAT
5055329 A
1 A
5055330 ATAATATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 5 0.15
13 20 0.61
14 8 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATATTAAT
Found at i:5055329 original size:19 final size:18
Alignment explanation
Indices: 5055301--5055336 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5055291 TTCAAAAAAA
*
5055301 TAATTTAATATTAATATT
1 TAATTTAATAATAATATT
5055319 TAATATTAATAATAATAT
1 TAAT-TTAATAATAATAT
5055337 AAATTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTTAATAATAATATT
Found at i:5056743 original size:26 final size:27
Alignment explanation
Indices: 5056707--5056758 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
5056697 TAAAAAAATG
5056707 AAAAAAATAATTTAATATT-ATATTTC
1 AAAAAAATAATTTAATATTAATATTTC
5056733 AAAAAAATAATTTAATATTAATATTT
1 AAAAAAATAATTTAATATTAATATTT
5056759 AATATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAAAAATAATTTAATATTAATATTTC
Found at i:5056760 original size:13 final size:13
Alignment explanation
Indices: 5056716--5056768 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
5056706 GAAAAAAATA
5056716 ATTTAATATT-AT
1 ATTTAATATTAAT
**
5056728 ATTTCAA-AAAAAT
1 ATTT-AATATTAAT
5056741 AATTTAATATTAAT
1 -ATTTAATATTAAT
5056755 ATTTAATATTAAT
1 ATTTAATATTAAT
5056768 A
1 A
5056769 ATAATATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 5 0.15
13 20 0.61
14 8 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATATTAAT
Found at i:5056768 original size:19 final size:18
Alignment explanation
Indices: 5056740--5056775 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5056730 TTCAAAAAAA
*
5056740 TAATTTAATATTAATATT
1 TAATTTAATAATAATATT
5056758 TAATATTAATAATAATAT
1 TAAT-TTAATAATAATAT
5056776 AAATTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTTAATAATAATATT
Found at i:5058335 original size:18 final size:19
Alignment explanation
Indices: 5058314--5058352 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
5058304 TATAATTAGA
*
5058314 TTTTGATATATTTAT-TAT
1 TTTTGATATATATATATAT
*
5058332 TTTTGTTATATATATATAT
1 TTTTGATATATATATATAT
5058351 TT
1 TT
5058353 ACATATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTGATATATATATATAT
Found at i:5071155 original size:21 final size:21
Alignment explanation
Indices: 5071129--5071176 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
5071119 CATGGTCGTG
5071129 TGGCTATCCCACACGCCCGTA
1 TGGCTATCCCACACGCCCGTA
* * * *
5071150 TGGCTATCCTATACGCCTGTG
1 TGGCTATCCCACACGCCCGTA
5071171 TGGCTA
1 TGGCTA
5071177 CTCCACATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.27
Consensus pattern (21 bp):
TGGCTATCCCACACGCCCGTA
Found at i:5072517 original size:25 final size:25
Alignment explanation
Indices: 5072463--5072508 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5072453 TTAATCAAAA
5072463 ATAAAAAAGATTTTCAAGAAAATAT
1 ATAAAAAAGATTTTCAAGAAAATAT
5072488 ATAAAAAAGA-TTT-AAGAAAAT
1 ATAAAAAAGATTTTCAAGAAAAT
5072509 TAGGCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 10 0.48
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (25 bp):
ATAAAAAAGATTTTCAAGAAAATAT
Found at i:5074480 original size:23 final size:23
Alignment explanation
Indices: 5074440--5074506 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
5074430 TATTTACATA
*
5074440 TACATATATATA-AT-AAAT-CT
1 TACATATATATATATAAAATAAT
5074460 GTACATATATATATATAAAATAAT
1 -TACATATATATATATAAAATAAT
* *
5074484 TACATATATACATAAAAAATAAT
1 TACATATATATATATAAAATAAT
5074507 GATTACTCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.30
22 2 0.05
23 25 0.62
24 1 0.03
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (23 bp):
TACATATATATATATAAAATAAT
Found at i:5075490 original size:21 final size:21
Alignment explanation
Indices: 5075464--5075539 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
5075454 AATCATATCT
*
5075464 TCTAAGATTTTATATATCATA
1 TCTAAGATTGTATATATCATA
*
5075485 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
5075506 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
5075525 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
5075540 CCTCGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.37
21 31 0.63
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:5075499 original size:19 final size:19
Alignment explanation
Indices: 5075477--5075540 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
5075467 AAGATTTTAT
5075477 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
5075496 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
5075517 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
5075536 ATATC
1 ATATC
5075541 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:5076760 original size:22 final size:22
Alignment explanation
Indices: 5076735--5076781 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
5076725 AACCTTCACC
*
5076735 TCCGGCACCAATCCACCTCCGG
1 TCCGGAACCAATCCACCTCCGG
*
5076757 TCCGGAACCGATCCACCTCCGG
1 TCCGGAACCAATCCACCTCCGG
5076779 TCC
1 TCC
5076782 TCCACGGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.49, G:0.19, T:0.15
Consensus pattern (22 bp):
TCCGGAACCAATCCACCTCCGG
Found at i:5082291 original size:20 final size:20
Alignment explanation
Indices: 5082252--5082292 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5082242 TTGGAGTGAG
* **
5082252 TGTTGAATATATAATGGAAA
1 TGTTCAATATATAACCGAAA
5082272 TGTTCAATATATAACCGAAA
1 TGTTCAATATATAACCGAAA
5082292 T
1 T
5082293 TAGTTAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (20 bp):
TGTTCAATATATAACCGAAA
Found at i:5087786 original size:12 final size:12
Alignment explanation
Indices: 5087770--5087800 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5087760 TCCTTGTCAG
5087770 CTTTCTTCTTCT
1 CTTTCTTCTTCT
*
5087782 TTTTCTTCTTCT
1 CTTTCTTCTTCT
5087794 CTTTCTT
1 CTTTCTT
5087801 AGCTTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
CTTTCTTCTTCT
Found at i:5099478 original size:36 final size:36
Alignment explanation
Indices: 5099367--5099490 Score: 110
Period size: 36 Copynumber: 3.5 Consensus size: 36
5099357 GCGCCCAACA
* * * *
5099367 CTAGTTGAATAAATCGACAAATAATTGCATCTAGCG
1 CTAGTCGAATAAACCGACAAATAATTGCACCCAGCG
* ** * * *
5099403 CTAGTC-AGAT-AACCGAC-AATAGTTGTGCACTGCA
1 CTAGTCGA-ATAAACCGACAAATAATTGCACCCAGCG
*
5099437 CTAGTCGAATAAATCGACAAATAATTGCACCCAGCG
1 CTAGTCGAATAAACCGACAAATAATTGCACCCAGCG
*
5099473 CTAGTCGGATAAACCGAC
1 CTAGTCGAATAAACCGAC
5099491 GATATTAAAC
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
34 17 0.26
35 14 0.22
36 34 0.52
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (36 bp):
CTAGTCGAATAAACCGACAAATAATTGCACCCAGCG
Found at i:5107542 original size:21 final size:21
Alignment explanation
Indices: 5107518--5107557 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5107508 ACACACAAAT
*
5107518 AGAAGCTCGAAAGAGTTGAAC
1 AGAAGCTCAAAAGAGTTGAAC
5107539 AGAAGCTCAAAAGAGTTGA
1 AGAAGCTCAAAAGAGTTGA
5107558 TCCACTCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGTTGAAC
Found at i:5110449 original size:45 final size:45
Alignment explanation
Indices: 5110393--5110651 Score: 326
Period size: 45 Copynumber: 5.8 Consensus size: 45
5110383 GGCCGGTTCG
* * * * *
5110393 TCCATTTCTCTTCGACATGGTACCGAACAGGACTCGAAGGCCTAC
1 TCCATTTCTCTTCGACACGATACCGAACAGGACTAGAAGGCTTAT
* *
5110438 TCCATTTCTCTTCGACACCATAACC-AACAGGACTAGATGGCTTAT
1 TCCATTTCTCTTCGACACGAT-ACCGAACAGGACTAGAAGGCTTAT
*
5110483 TCCATTTCTCTTCGACACGATACCGAACAGGACTAGAGGGCTTAT
1 TCCATTTCTCTTCGACACGATACCGAACAGGACTAGAAGGCTTAT
* *
5110528 TCCATTTCTCTTCGACACGATACCGAACAGGACTCGATGGCTTAT
1 TCCATTTCTCTTCGACACGATACCGAACAGGACTAGAAGGCTTAT
* * * *
5110573 TCCATTTCTCTTCGACGTC-ATACTGAACGGGTCTAGAAGGCTTAT
1 TCCATTTCTCTTCGAC-ACGATACCGAACAGGACTAGAAGGCTTAT
* *
5110618 TCCATTTCTCTTC-AGTATGATACCGAACAGGACT
1 TCCATTTCTCTTCGA-CACGATACCGAACAGGACT
5110652 TGAACTCTCC
Statistics
Matches: 186, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
44 4 0.02
45 178 0.96
46 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
TCCATTTCTCTTCGACACGATACCGAACAGGACTAGAAGGCTTAT
Found at i:5110640 original size:135 final size:135
Alignment explanation
Indices: 5110393--5110651 Score: 369
Period size: 135 Copynumber: 1.9 Consensus size: 135
5110383 GGCCGGTTCG
* *
5110393 TCCATTTCTCTTCGACATGGTACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
1 TCCATTTCTCTTCGACACGATACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
*
5110458 TAACCAACAGGACTAGATGGCTTATTCCATTTCTCTTCGACACGATACCGAACAGGACTAGAGGG
66 TAACCAACAGGACTAGAAGGCTTATTCCATTTCTCTTCGACACGATACCGAACAGGACTAGAGGG
5110523 CTTAT
131 CTTAT
* * * **
5110528 TCCATTTCTCTTCGACACGATACCGAACAGGACTCGATGGCTTATTCCATTTCTCTTCGACGTCA
1 TCCATTTCTCTTCGACACGATACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
* * * * *
5110593 T-ACTGAACGGGTCTAGAAGGCTTATTCCATTTCTCTTC-AGTATGATACCGAACAGGACT
66 TAAC-CAACAGGACTAGAAGGCTTATTCCATTTCTCTTCGA-CACGATACCGAACAGGACT
5110652 TGAACTCTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
134 3 0.03
135 106 0.97
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (135 bp):
TCCATTTCTCTTCGACACGATACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
TAACCAACAGGACTAGAAGGCTTATTCCATTTCTCTTCGACACGATACCGAACAGGACTAGAGGG
CTTAT
Found at i:5119595 original size:7 final size:7
Alignment explanation
Indices: 5119583--5119617 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
5119573 CAGACCATCC
5119583 CTGGCAA
1 CTGGCAA
5119590 CTGGCAA
1 CTGGCAA
5119597 CTGGCAA
1 CTGGCAA
5119604 CTGGCAA
1 CTGGCAA
5119611 CTGGCAA
1 CTGGCAA
5119618 AATGTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (7 bp):
CTGGCAA
Found at i:5120975 original size:14 final size:14
Alignment explanation
Indices: 5120956--5120982 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5120946 AATGCTGCAA
5120956 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
5120970 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
5120983 CATAAGTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:5124538 original size:174 final size:173
Alignment explanation
Indices: 5124195--5124540 Score: 392
Period size: 174 Copynumber: 2.0 Consensus size: 173
5124185 ATATGTGGAA
* * * * * * * *
5124195 TAGGAAACTACCATGCATCATATAGGATAAACAATGGATCAGGTGATTGATGCTTGCCATGGTGA
1 TAGGAAACTACAAGGCATCATAAAGGATAAACAATGGATCAGATGATTGATGATCGACATGGCGA
** * * * *
5124260 ATAAAATGGGTTCTTATGAGGAAAAAGAATACTATCATAGTGACAGAAATGGAAGTTCTTTAAAT
66 ATAAAATCAGTTCATATAAGGAAAAAGAATACCATCATAGTGACAGAAATGGAAATTCTTTAAAT
* * *
5124325 TTTCAAAAATCAAAGCCATTGCAGAGTTTCATTGAACTGTTTG
131 TTTCAAAAATCAAAACCATGGCAGAGTTTCATAGAACTGTTTG
* *
5124368 TAGGAAACTACAACGGCATCATAAAGGATAATCAATGGATCAGATGATTGATGATCGATATGGCG
1 TAGGAAACTACAA-GGCATCATAAAGGATAAACAATGGATCAGATGATTGATGATCGACATGGCG
* * * * *
5124433 AATGAAATCAGTTCATATAAGGAAAAAGAATACCATTATCGTGATAGAAATGGAAATT-TGTTGA
65 AATAAAATCAGTTCATATAAGGAAAAAGAATACCATCATAGTGACAGAAATGGAAATTCT-TTAA
* * *
5124497 TTTTTCAGAAAT-AAAACCAATGGCA-ATGTTTCCTAGAACTGTTT
129 ATTTTCAAAAATCAAAACC-ATGGCAGA-GTTTCATAGAACTGTTT
5124541 CTGAGGGAGA
Statistics
Matches: 142, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
173 19 0.13
174 123 0.87
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (173 bp):
TAGGAAACTACAAGGCATCATAAAGGATAAACAATGGATCAGATGATTGATGATCGACATGGCGA
ATAAAATCAGTTCATATAAGGAAAAAGAATACCATCATAGTGACAGAAATGGAAATTCTTTAAAT
TTTCAAAAATCAAAACCATGGCAGAGTTTCATAGAACTGTTTG
Found at i:5131521 original size:78 final size:77
Alignment explanation
Indices: 5131376--5131524 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 77
5131366 CGATTGAGAC
* * * * **
5131376 GTTTCTTTGAACTGTTTCTAGGAACTACTACGGTCATCATACAGGAGAATCAATGGATCGGGTGA
1 GTTTCATTGAACTGTTTCTAGGAACTACCACGGCCATCATACAGGAGAATCAATGGATCAGACGA
5131441 TTGATGTGCAAA
66 TTGATGTGCAAA
* * * *
5131453 GTTTCATTGGACTGTTTCTAGGAAGCTACCATGGCCATCATACAGGATAATCAATGGATCATACG
1 GTTTCATTGAACTGTTTCTAGGAA-CTACCACGGCCATCATACAGGAGAATCAATGGATCAGACG
5131518 ATTGATG
65 ATTGATG
5131525 CTTGCCATGG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 22 0.36
78 39 0.64
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (77 bp):
GTTTCATTGAACTGTTTCTAGGAACTACCACGGCCATCATACAGGAGAATCAATGGATCAGACGA
TTGATGTGCAAA
Found at i:5135980 original size:21 final size:20
Alignment explanation
Indices: 5135956--5136002 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
5135946 CAACACCGAT
*
5135956 AACCAGATCCCCTACTAGAGG
1 AACCAAATCCCCT-CTAGAGG
*
5135977 AACCAAAATCCCCTCTAGAGT
1 AACC-AAATCCCCTCTAGAGG
5135998 AACCA
1 AACCA
5136003 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.38, C:0.34, G:0.13, T:0.15
Consensus pattern (20 bp):
AACCAAATCCCCTCTAGAGG
Found at i:5135988 original size:22 final size:21
Alignment explanation
Indices: 5135962--5136002 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5135952 CGATAACCAG
5135962 ATCCCCTACTAGAGGAACCAAA
1 ATCCCCT-CTAGAGGAACCAAA
*
5135984 ATCCCCTCTAGAGTAACCA
1 ATCCCCTCTAGAGGAACCA
5136003 CAACCCCCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.34, G:0.12, T:0.17
Consensus pattern (21 bp):
ATCCCCTCTAGAGGAACCAAA
Found at i:5136010 original size:21 final size:22
Alignment explanation
Indices: 5135964--5136010 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
5135954 ATAACCAGAT
*
5135964 CCCCTACTAGAGGAACCAAAAT
1 CCCCTACTAGAGGAACCAAAAC
* *
5135986 CCCCT-CTAGAGTAACCACAAC
1 CCCCTACTAGAGGAACCAAAAC
5136007 CCCC
1 CCCC
5136011 GCCAGAAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.34, C:0.43, G:0.11, T:0.13
Consensus pattern (22 bp):
CCCCTACTAGAGGAACCAAAAC
Found at i:5136214 original size:34 final size:34
Alignment explanation
Indices: 5136142--5136214 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
5136132 TTATTTGACG
* * *
5136142 TAATAAAATAGAAATTCTTCTATATTATTTCATG
1 TAATAAAATAGAAATTCTTCTACATTATTTAATA
*
5136176 TAATAAAATAGAAATTTACTTTTACA-T-TTTAATA
1 TAATAAAATAGAAA-TT-CTTCTACATTATTTAATA
5136210 TAATA
1 TAATA
5136215 GAATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 24 0.73
35 3 0.09
36 6 0.18
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (34 bp):
TAATAAAATAGAAATTCTTCTACATTATTTAATA
Found at i:5139706 original size:126 final size:126
Alignment explanation
Indices: 5139395--5139807 Score: 657
Period size: 126 Copynumber: 3.3 Consensus size: 126
5139385 GCCAAACAGA
* * * *
5139395 AGCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTGACAAAGTATCC
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
** *
5139460 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTTAAAATT-TTTTTTCAAG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGG
5139520 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
* * *
5139585 TACTTAAAGCGTTTTTAACACTATTTGCTTAGAAACGTCTACTCGAAATTATTTTTTCAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGG
* *
5139646 AGCTACTGTAGCAAAAGCTCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGATAATGCATCC
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
* *
5139711 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTAAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGG
* * * *
5139772 AGCTATTGTAGCAAAAGAGCGTCTACATGGGAGCTT
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
5139808 TTTTAAATTA
Statistics
Matches: 265, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 106 0.40
126 159 0.60
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGG
Found at i:5139940 original size:103 final size:102
Alignment explanation
Indices: 5139806--5140047 Score: 284
Period size: 95 Copynumber: 2.4 Consensus size: 102
5139796 ACATGGGAGC
* * * * *
5139806 TTTTTT-AAATTAACAAATAATTTAATTAAGTAACTCTAAACCCCAAACCCTAATTTATTTGAGT
1 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCTAAACCCCAAACCCTAATTTATTTGA-T
* *
5139870 TTTTCCTTAAAACCCCTAAACACTAAACCCTAAGCTAT
65 TTTTCCTTAAAAACCCTAAACACTAAACCCTAAGCTAA
* *
5139908 TTTTTTAAAATTTATAATTAATTTACTCAAG------T-AACCCTAAACCTTAATTTATTTGATT
1 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCTAAACCCCAAACCCTAATTTATTTGATT
* * *
5139966 TTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAA
66 TTTCCTTAAAAACCCTAAACACTAAACCCTAAGCTAA
* *
5140003 TTTTTTAAATTTTTTTAATTAATTTACTCAAGTAACTCTAAACCC
1 TTTTTTAAA-ATTTATAATTAATTTACTCAAGTAACTCTAAACCC
5140048 TAATTTAATT
Statistics
Matches: 117, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
95 43 0.37
96 42 0.36
97 1 0.01
102 7 0.06
103 24 0.21
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (102 bp):
TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCTAAACCCCAAACCCTAATTTATTTGATT
TTTCCTTAAAAACCCTAAACACTAAACCCTAAGCTAA
Found at i:5139996 original size:95 final size:96
Alignment explanation
Indices: 5139844--5140063 Score: 325
Period size: 96 Copynumber: 2.3 Consensus size: 96
5139834 AGTAACTCTA
* * *
5139844 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAACCCCTAAACACTAAACCCTAAGCTATT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTAAACACTAAACCCTAAGCTAAT
5139909 TTTTTAAA-ATTTATAATTAATTTACTCAAGT
65 TTTTTAAATATTTATAATTAATTTACTCAAGT
* * * *
5139940 AACCCTAAACCTTAATTTATTTGATTTTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAAGCTAATT
* *
5140005 TTTTAAATTTTTTTAATTAATTTACTCAAGT
66 TTTTAAATATTTATAATTAATTTACTCAAGT
* *
5140036 AACTCTAAACCCTAATTTAATTGATTTT
1 AACCCTAAACCCTAATTTATTTGATTTT
5140064 AAAAAAAAAC
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
95 43 0.39
96 68 0.61
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAAGCTAATT
TTTTAAATATTTATAATTAATTTACTCAAGT
Found at i:5140094 original size:96 final size:95
Alignment explanation
Indices: 5139844--5140141 Score: 268
Period size: 96 Copynumber: 3.2 Consensus size: 95
5139834 AGTAACTCTA
* * **** * * * *
5139844 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAACCCCTAAACACTAAACCCTAAGCTATT
1 AACCCTAAACCCTAATTTAATTGA-TTTTTAAAAAAAAACTCTAAACACTAAACCCTAATCTAAT
5139909 TTTTTAAAATTTATAATTAATTTACTCAAGT
65 TTTTTAAAATTTATAATTAATTTACTCAAGT
* * **** *
5139940 AACCCTAAACCTTAATTTATTTGATTTTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTAATTGATTTTTAAAAAAAAACTCTAAACACTAAACCCTAATCTAATT
* *
5140005 TTTTAAATTTTTTTAATTAATTTACTCAAGT
66 TTTTAAA-ATTTATAATTAATTTACTCAAGT
* *
5140036 AACTCTAAACCCTAATTTAATTGA-TTTTAAAAAAAAAC-CATAAACAC-AAA-AC--ATCTAA-
1 AACCCTAAACCCTAATTTAATTGATTTTTAAAAAAAAACTC-TAAACACTAAACCCTAATCTAAT
* * * *
5140094 TTTTGAAAATTTTATAATTAATTTAATTAAGA
65 TTTTTAAAA-TTTATAATTAATTTACTCAAGT
* *
5140126 AACTCTGAACCCTAAT
1 AACCCTAAACCCTAAT
5140142 CCCTTATTTA
Statistics
Matches: 174, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
90 40 0.23
91 6 0.03
93 1 0.01
94 4 0.02
95 59 0.34
96 64 0.37
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.38
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTAATTGATTTTTAAAAAAAAACTCTAAACACTAAACCCTAATCTAATT
TTTTAAAATTTATAATTAATTTACTCAAGT
Found at i:5140210 original size:7 final size:7
Alignment explanation
Indices: 5140172--5140219 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
5140162 TCTTTAAAAA
5140172 CCTAAA-
1 CCTAAAC
5140178 CCTAAAAC
1 CCT-AAAC
*
5140186 CCTCAAAA
1 CCT-AAAC
*
5140194 CCTTAAC
1 CCTAAAC
5140201 CCTAAAC
1 CCTAAAC
5140208 CCTAAAC
1 CCTAAAC
5140215 CCTAA
1 CCTAA
5140220 TCCTAGCAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
6 3 0.09
7 23 0.66
8 9 0.26
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:5140902 original size:36 final size:37
Alignment explanation
Indices: 5140862--5140938 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
5140852 AATAAAAAGA
* *
5140862 TTAAATTT-TTAAAAGTAAAAGTA-TAATAGTTAAATT
1 TTAAATTTGTAAAAAGTAAAAGGACTAATAG-TAAATT
*
5140898 TTAAATTTGTAAAAAGTAAAAGGACTAATAGTATATT
1 TTAAATTTGTAAAAAGTAAAAGGACTAATAGTAAATT
5140935 TTAA
1 TTAA
5140939 CAATTACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 8 0.22
37 22 0.61
38 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (37 bp):
TTAAATTTGTAAAAAGTAAAAGGACTAATAGTAAATT
Found at i:5147908 original size:78 final size:77
Alignment explanation
Indices: 5147763--5147908 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 77
5147753 CGATTGCGAC
* * * * **
5147763 GTTTCTTTGAACTGTTTCTAGGAACTACTATGGTCATCATACAGGAGAATCAATGGATCGGGTGA
1 GTTTCATTGAACTGTTTCTAGGAACTACCATGGCCATCATACAGGAGAATCAATGGATCAGACGA
5147828 TTGATGTGCAAA
66 TTGATGTGCAAA
* *
5147840 GTTTCATTGGACTGTTTCTAGGAAGCTACCATGGCCATCATACAGGATAATCAATGGATCAGACG
1 GTTTCATTGAACTGTTTCTAGGAA-CTACCATGGCCATCATACAGGAGAATCAATGGATCAGACG
5147905 ATTG
65 ATTG
5147909 GTGCTTCCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 22 0.37
78 38 0.63
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (77 bp):
GTTTCATTGAACTGTTTCTAGGAACTACCATGGCCATCATACAGGAGAATCAATGGATCAGACGA
TTGATGTGCAAA
Done.