Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 173 of 279
Found at i:57177364 original size:18 final size:18
Alignment explanation
Indices: 57177343--57177377 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
57177333 AGTCTATTTT
57177343 TTAAATTTCAAAATTCAG
1 TTAAATTTCAAAATTCAG
57177361 TTAAATTTCAAAATTCA
1 TTAAATTTCAAAATTCA
57177378 AGTTTAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (18 bp):
TTAAATTTCAAAATTCAG
Found at i:57182632 original size:8 final size:8
Alignment explanation
Indices: 57182619--57182650 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
57182609 AGACGAGTCA
57182619 GACACATG
1 GACACATG
57182627 GACACATG
1 GACACATG
57182635 GACACATG
1 GACACATG
57182643 GACACATG
1 GACACATG
57182651 CCAATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.12
Consensus pattern (8 bp):
GACACATG
Found at i:57201554 original size:16 final size:16
Alignment explanation
Indices: 57201533--57201564 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57201523 ATATACAAAA
57201533 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
57201549 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
57201565 TTGAAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:57202017 original size:24 final size:24
Alignment explanation
Indices: 57201990--57202440 Score: 345
Period size: 24 Copynumber: 18.9 Consensus size: 24
57201980 GAAATGACTT
*
57201990 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
57202014 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
57202038 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
57202062 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * * **
57202086 TGTCAATATCTATGTAAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
57202111 T-GCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
57202134 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
57202158 TGGCAC-ATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
57202181 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* *
57202206 -GGCACTATGTGTGCAAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
57202229 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
57202253 TGGCAC-ATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
57202276 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* *
57202301 -GGCACTATGTGTGCAAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
57202324 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
57202348 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
57202372 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* ** *
57202397 -GACACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
57202420 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
57202441 CCTTGCTTGA
Statistics
Matches: 332, Mismatches: 69, Indels: 51
0.73 0.15 0.11
Matches are distributed among these distances:
21 1 0.00
22 4 0.01
23 40 0.12
24 271 0.82
25 12 0.04
26 4 0.01
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:57202211 original size:95 final size:96
Alignment explanation
Indices: 57202015--57202410 Score: 670
Period size: 95 Copynumber: 4.1 Consensus size: 96
57202005 TAATTTGAAT
* * * * * *
57202015 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGAA
* *
57202080 TTTGAATGTCAATATCTATGTAAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
* *
57202111 TGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCAC-ATGTGTGCGAA
1 GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGAA
57202175 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
57202206 GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCAC-ATGTGTGCGAA
1 GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGAA
57202270 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
57202301 GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGAA
57202366 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
57202397 GACACTATGTGTGC
1 GGCACTATGTGTGC
57202411 GGGTTAACAT
Statistics
Matches: 286, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
95 185 0.65
96 101 0.35
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCAAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGAA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:57223403 original size:5 final size:5
Alignment explanation
Indices: 57223395--57223421 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
57223385 TTTTATTATC
57223395 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
57223422 AATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:57224873 original size:31 final size:32
Alignment explanation
Indices: 57224838--57224900 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
57224828 TTTTAATTTT
*
57224838 ATATTT-ATCTAATT-AACTTTTTTAATATAAA
1 ATATTTGATC-AATTGAACTTATTTAATATAAA
* *
57224869 ATATTTGATCCATTGAACTTATTTAATTTAAA
1 ATATTTGATCAATTGAACTTATTTAATATAAA
57224901 TTTGAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (32 bp):
ATATTTGATCAATTGAACTTATTTAATATAAA
Found at i:57225313 original size:5 final size:5
Alignment explanation
Indices: 57225303--57225469 Score: 334
Period size: 5 Copynumber: 33.4 Consensus size: 5
57225293 TTGTACCTTC
57225303 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
57225353 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
57225403 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
57225453 TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TT
57225470 TAATGAGTTT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 162 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:57226994 original size:26 final size:26
Alignment explanation
Indices: 57226965--57227014 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
57226955 TTTTTTAAAA
57226965 GTATGCCCGTAATGTGGCTTTTCTCT
1 GTATGCCCGTAATGTGGCTTTTCTCT
*
57226991 GTATGCCCGTAGTGTGGCTTTTCT
1 GTATGCCCGTAATGTGGCTTTTCT
57227015 GTTCTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.26, T:0.42
Consensus pattern (26 bp):
GTATGCCCGTAATGTGGCTTTTCTCT
Found at i:57230762 original size:31 final size:31
Alignment explanation
Indices: 57230727--57230788 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
57230717 GTGGACAGAG
57230727 ATAGAATGGTTAAAGGGTCACCATGGACCTT
1 ATAGAATGGTTAAAGGGTCACCATGGACCTT
57230758 ATAGAATGGTTAAAGGGTCACCATGGACCTT
1 ATAGAATGGTTAAAGGGTCACCATGGACCTT
57230789 CAACAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (31 bp):
ATAGAATGGTTAAAGGGTCACCATGGACCTT
Found at i:57238696 original size:46 final size:44
Alignment explanation
Indices: 57238644--57238731 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
57238634 AGAACAGAAA
*
57238644 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
57238690 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
57238732 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:57238743 original size:44 final size:45
Alignment explanation
Indices: 57238637--57238770 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
57238627 ACAGGACAGA
* * *
57238637 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
57238683 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
57238727 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
57238771 GAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:57245292 original size:46 final size:44
Alignment explanation
Indices: 57245233--57245347 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
57245223 ACAGGACAGA
* *
57245233 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
57245279 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
57245323 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
57245348 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:57245328 original size:44 final size:45
Alignment explanation
Indices: 57245233--57245366 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
57245223 ACAGGACAGA
* *
57245233 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
57245279 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
57245323 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
57245367 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:57247745 original size:31 final size:31
Alignment explanation
Indices: 57247661--57247745 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
57247651 TCGTAAGTAC
* *
57247661 TTTTATTTTTACAAATTT-AGAATTTAATCTT
1 TTTTATTTTT-CATATTTAAAAATTTAATCTT
** * *
57247692 TTTTGCTTTT-ATTTTTAGAAATTTAAAT-TT
1 TTTTATTTTTCATATTTAAAAATTT-AATCTT
57247722 TTTTATTTTTCATATTTAAAAATT
1 TTTTATTTTTCATATTTAAAAATT
57247746 CAAGTTCAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
29 4 0.10
30 15 0.37
31 22 0.54
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (31 bp):
TTTTATTTTTCATATTTAAAAATTTAATCTT
Found at i:57248238 original size:21 final size:20
Alignment explanation
Indices: 57248214--57248274 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
57248204 ATTCATAATA
*
57248214 TTAACAATTAAACTTAAAATT
1 TTAA-AATTAAATTTAAAATT
* *
57248235 TTAAATTTTAAATTTTAAATT
1 TTAAA-ATTAAATTTAAAATT
57248256 TTAAAAATTTAAATTTAAA
1 TT-AAAA-TTAAATTTAAA
57248275 TTAACTAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.56
22 13 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAATTAAATTTAAAATT
Found at i:57248271 original size:6 final size:7
Alignment explanation
Indices: 57248230--57248276 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
57248220 ATTAAACTTA
57248230 AAATTTT
1 AAATTTT
57248237 AAATTTT
1 AAATTTT
57248244 AAATTTT
1 AAATTTT
57248251 AAATTTT
1 AAATTTT
*
57248258 AAAAATTT
1 -AAATTTT
57248266 AAA-TTT
1 AAATTTT
57248272 AAATT
1 AAATT
57248277 AACTAACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.16
7 25 0.68
8 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
AAATTTT
Found at i:57248275 original size:21 final size:21
Alignment explanation
Indices: 57248221--57248276 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
57248211 ATATTAACAA
* *
57248221 TTAAACTTAAAATTTTAAATT
1 TTAAACTTTAAATTTTAAAAT
*
57248242 TTAAATTTTAAATTTTAAAAAT
1 TTAAACTTTAAATTTT-AAAAT
57248264 TTAAA-TTTAAATT
1 TTAAACTTTAAATT
57248277 AACTAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAACTTTAAATTTTAAAAT
Found at i:57251869 original size:30 final size:30
Alignment explanation
Indices: 57251823--57251907 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
57251813 AGGTAACCTA
* *
57251823 ATATAA-GTCAGCTTGTGTGAGCAACATTG
1 ATATAATGTCAACTTGTGTGAGCAACACTG
* *
57251852 ATATAATTTCAACTTGTGTGAGCAACCCTG
1 ATATAATGTCAACTTGTGTGAGCAACACTG
*
57251882 ATATAATGTCAGCTTGTGTGAGCAAC
1 ATATAATGTCAACTTGTGTGAGCAAC
57251908 TTAATCACTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 6 0.12
30 43 0.88
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (30 bp):
ATATAATGTCAACTTGTGTGAGCAACACTG
Found at i:57253525 original size:39 final size:39
Alignment explanation
Indices: 57253482--57253557 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
57253472 AGAATGCACT
*
57253482 ACAAAGGCTTCACAAAATATACCATGAAA-GCATCACATC
1 ACAAAGGCTTCACAAAATATACCA-CAAAGGCATCACATC
* *
57253521 ACAAAGGCTTCACAGAATATGCCACAAAGGCATCACA
1 ACAAAGGCTTCACAAAATATACCACAAAGGCATCACA
57253558 GAATACACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 30 0.91
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (39 bp):
ACAAAGGCTTCACAAAATATACCACAAAGGCATCACATC
Found at i:57253550 original size:23 final size:23
Alignment explanation
Indices: 57253520--57253584 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
57253510 AGCATCACAT
**
57253520 CACAAAGGCTTCACAGAATATGC
1 CACAAAGGCTTCACAGAATACAC
*
57253543 CACAAAGGCATCACAGAATACAC
1 CACAAAGGCTTCACAGAATACAC
*
57253566 CACAAAGACTTCACAGAAT
1 CACAAAGGCTTCACAGAAT
57253585 TCCTTGTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.14
Consensus pattern (23 bp):
CACAAAGGCTTCACAGAATACAC
Found at i:57254998 original size:22 final size:24
Alignment explanation
Indices: 57254968--57255031 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
57254958 ACACATATAT
* *
57254968 ATATAAAAAACATATAATAC-TAA
1 ATATTAAAAATATATAATACATAA
57254991 AT-TTAAAAATATAT-ATACAATAA
1 ATATTAAAAATATATAATAC-ATAA
57255014 ATATTAAAAATA-ATAATA
1 ATATTAAAAATATATAATA
57255032 GTATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 4 0.11
22 10 0.29
23 9 0.26
24 12 0.34
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATTAAAAATATATAATACATAA
Found at i:57255058 original size:22 final size:19
Alignment explanation
Indices: 57255009--57255050 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
57254999 ATATATATAC
* *
57255009 AATAAATATTAAAAATAAT
1 AATAGATATAAAAAATAAT
57255028 AATAG-TATAAAAAACTAAT
1 AATAGATATAAAAAA-TAAT
57255047 AATA
1 AATA
57255051 ACGATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAGATATAAAAAATAAT
Found at i:57258428 original size:49 final size:49
Alignment explanation
Indices: 57258288--57258430 Score: 204
Period size: 46 Copynumber: 3.0 Consensus size: 49
57258278 TCATCTTTGG
*
57258288 AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACT-AC
1 AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACTGCC
* * * *
57258336 AAGGGTTCTACAATCAT--AGACCCAAATAAGATTACACTTAAACTGCC
1 AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACTGCC
57258383 AAGGGTTTTACAATCATCCCCG-CCCAAATAAGATTAGACTCAAACTGC
1 AAGGGTTTTACAATCAT-CCCGACCCAAATAAGATTAGACTCAAACTGC
57258431 AACTGCAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
46 24 0.29
47 17 0.21
48 16 0.20
49 24 0.29
50 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.23
Consensus pattern (49 bp):
AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACTGCC
Found at i:57259861 original size:19 final size:19
Alignment explanation
Indices: 57259828--57259871 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
57259818 AGGCGCGACC
57259828 TATTTTTTAATAATATAATT
1 TATTTTTTAATAATATAA-T
* *
57259848 TATTTTTTTA-AATATTAT
1 TATTTTTTAATAATATAAT
57259866 TATTTT
1 TATTTT
57259872 ATTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTTTAATAATATAAT
Found at i:57261237 original size:11 final size:11
Alignment explanation
Indices: 57261202--57261229 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
57261192 GAGAGTAAGA
57261202 AATTTTAATGT
1 AATTTTAATGT
57261213 AATTTTAATGT
1 AATTTTAATGT
57261224 AATTTT
1 AATTTT
57261230 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:57262865 original size:12 final size:12
Alignment explanation
Indices: 57262842--57262907 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
57262832 TGCACCAGCT
*
57262842 CGGAGACAGAGC
1 CGGAGCCAGAGC
*
57262854 CAGAGCCAGAGC
1 CGGAGCCAGAGC
* *
57262866 CGGAGGCAGTGC
1 CGGAGCCAGAGC
*
57262878 CGGACCCAGAG-
1 CGGAGCCAGAGC
*
57262889 CGGCGGCCAGAGC
1 CGG-AGCCAGAGC
57262902 CGGAGC
1 CGGAGC
57262908 TACACTCAGG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 3 0.07
12 35 0.85
13 3 0.07
ACGTcount: A:0.24, C:0.32, G:0.42, T:0.02
Consensus pattern (12 bp):
CGGAGCCAGAGC
Found at i:57264875 original size:22 final size:22
Alignment explanation
Indices: 57264849--57264892 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57264839 TATCGACGAT
57264849 GGCAAATGCTATCGGAAGCACG
1 GGCAAATGCTATCGGAAGCACG
*
57264871 GGCAAATGCTATCGGGAGCACG
1 GGCAAATGCTATCGGAAGCACG
57264893 TTTCTGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.34, T:0.14
Consensus pattern (22 bp):
GGCAAATGCTATCGGAAGCACG
Found at i:57267205 original size:22 final size:23
Alignment explanation
Indices: 57267180--57267226 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
57267170 ATTAAAATAT
57267180 AATAAAAAATAATATT-TTAAAA
1 AATAAAAAATAATATTATTAAAA
* *
57267202 AATAATAAATTATATTATTAAAA
1 AATAAAAAATAATATTATTAAAA
57267225 AA
1 AA
57267227 ATGGGTCGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAAAAAATAATATTATTAAAA
Found at i:57267220 original size:25 final size:24
Alignment explanation
Indices: 57267171--57267228 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
57267161 TTAAAAATTA
*
57267171 TTAAAATATAATAAAAAATAATATT
1 TTAAAAAATAATAAAAAATAATA-T
** *
57267196 TTAAAAAATAATAAATTATATTAT
1 TTAAAAAATAATAAAAAATAATAT
*
57267220 TAAAAAAAT
1 TTAAAAAAT
57267229 GGGTCGCGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TTAAAAAATAATAAAAAATAATAT
Found at i:57267494 original size:14 final size:15
Alignment explanation
Indices: 57267475--57267505 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57267465 CGTATGTTAT
57267475 AAGTTT-AATATTAA
1 AAGTTTAAATATTAA
57267489 AAGTTTAAATATTAA
1 AAGTTTAAATATTAA
57267504 AA
1 AA
57267506 AATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
AAGTTTAAATATTAA
Found at i:57269327 original size:14 final size:14
Alignment explanation
Indices: 57269308--57269337 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57269298 AATTACATGC
57269308 AAAAAATGGAACAA
1 AAAAAATGGAACAA
*
57269322 AAAAAATTGAACAA
1 AAAAAATGGAACAA
57269336 AA
1 AA
57269338 GAACCTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAAATGGAACAA
Found at i:57292245 original size:16 final size:17
Alignment explanation
Indices: 57292224--57292255 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57292214 TAATAATATC
57292224 ATTAATTTT-TTTAAAT
1 ATTAATTTTATTTAAAT
57292240 ATTAATTTTATTTAAA
1 ATTAATTTTATTTAAA
57292256 AAATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTAATTTTATTTAAAT
Found at i:57295905 original size:12 final size:12
Alignment explanation
Indices: 57295890--57295920 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57295880 TTCTCTTTTA
57295890 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
57295902 TTTTTCTTTCTC
1 TTTTTCTTTCCC
57295914 TTTTTCT
1 TTTTTCT
57295921 CCCCTGCTTC
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:57296021 original size:16 final size:16
Alignment explanation
Indices: 57296000--57296030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57295990 TTTATTATTT
57296000 TATTAACATAATATAA
1 TATTAACATAATATAA
*
57296016 TATTAATATAATATA
1 TATTAACATAATATA
57296031 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:57297206 original size:33 final size:34
Alignment explanation
Indices: 57297142--57297206 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 34
57297132 TTAGATAACC
*
57297142 TAAATAAAATAATTATGTGTGAAAAATAATAAAA
1 TAAATAAAATAATTATGTGTGAAAAAAAATAAAA
57297176 TAAAT-AAATAA-TATGT-TGAATTAAAAAATAA
1 TAAATAAAATAATTATGTGTGAA--AAAAAATAA
57297207 CTCTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.14
32 5 0.18
33 14 0.50
34 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (34 bp):
TAAATAAAATAATTATGTGTGAAAAAAAATAAAA
Found at i:57297612 original size:13 final size:13
Alignment explanation
Indices: 57297594--57297621 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57297584 TTTAATTTAA
57297594 TTTAGATTATAAT
1 TTTAGATTATAAT
57297607 TTTAGATTATAAT
1 TTTAGATTATAAT
57297620 TT
1 TT
57297622 GTATTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTAGATTATAAT
Found at i:57303717 original size:5 final size:5
Alignment explanation
Indices: 57303702--57303739 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
57303692 ATCGAAGAGC
* *
57303702 GAAAA -AAAG GAAAG GAAAA GAAAA GAAAA GAAAA GAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
57303740 GAGATATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 27 0.90
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:57317384 original size:46 final size:46
Alignment explanation
Indices: 57317366--57317559 Score: 167
Period size: 46 Copynumber: 4.3 Consensus size: 46
57317356 TGACAAGTGG
* * *
57317366 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
57317412 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
57317458 AAGTGAAAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
57317510 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
57317547 AAAGTGATAAGTG
1 AAAGTGATAAGTG
57317560 GCTACACTTA
Statistics
Matches: 136, Mismatches: 3, Indels: 25
0.83 0.02 0.15
Matches are distributed among these distances:
37 34 0.25
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 54 0.40
52 43 0.32
53 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:57317385 original size:52 final size:51
Alignment explanation
Indices: 57317314--57317522 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
57317304 ATCAAGTGAC
* **
57317314 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
57317366 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
57317412 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
57317463 AAAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
57317516 ATAAGTG
1 A-AAGTG
57317523 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:57317420 original size:98 final size:98
Alignment explanation
Indices: 57317300--57317523 Score: 376
Period size: 98 Copynumber: 2.3 Consensus size: 98
57317290 TTTGAGTACT
*
57317300 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
57317365 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
* *
57317398 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
57317463 AAAAGTGATAAGTGATAGCTTTGGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
*
57317496 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
57317524 CTACACTTAT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 117 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:57317528 original size:37 final size:37
Alignment explanation
Indices: 57317484--57317668 Score: 320
Period size: 37 Copynumber: 5.1 Consensus size: 37
57317474 GTGATAGCTT
57317484 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
57317521 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
*
57317558 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
* *
57317595 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAGG
1 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
*
57317632 TGGCTACACTTATCTGATC-AGGGAC-AAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
57317667 TG
1 TG
57317669 ATCATACGTA
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 128 0.90
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
Found at i:57318999 original size:58 final size:58
Alignment explanation
Indices: 57318922--57319089 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
57318912 CATGTGAACA
57318922 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
57318981 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
57319037 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
57319088 TG
1 TG
57319090 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:57319031 original size:28 final size:28
Alignment explanation
Indices: 57318941--57319031 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
57318931 GTGATTCCGT
57318941 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
57318969 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
57318998 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
57319027 GTAAG
1 GTAAG
57319032 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:57319054 original size:49 final size:49
Alignment explanation
Indices: 57318982--57319124 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
57318972 AGTGATATGT
* *
57318982 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
57319031 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
57319080 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
57319125 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:57322335 original size:52 final size:52
Alignment explanation
Indices: 57322264--57322517 Score: 376
Period size: 52 Copynumber: 5.0 Consensus size: 52
57322254 ATCAAGTGAC
* **
57322264 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
57322316 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
57322368 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
57322420 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
57322466 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA-AGTG
57322518 ATAAGTGGCT
Statistics
Matches: 186, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
46 42 0.23
52 144 0.77
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:57322531 original size:37 final size:36
Alignment explanation
Indices: 57322488--57322596 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 36
57322478 GATAGCTTTA
57322488 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACA-AGTGATAAGTG
* *
57322525 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGAC-AAGTGATAAGTG
*
57322562 GCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAGTGATAAGTG
57322597 ATCATACGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 50 0.76
38 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAGTGATAAGTG
Found at i:57324685 original size:123 final size:123
Alignment explanation
Indices: 57324453--57324697 Score: 366
Period size: 123 Copynumber: 2.0 Consensus size: 123
57324443 TCAATTGCTT
* *
57324453 ACACTGTTTCTATTATAAGAAACTAGACTCAATAAGCTTTAATTTCATATATTATTCATCCTCTA
1 ACACCGTTTCTATTATAAGAAACTAGACTCAATAAGCTTTAATTTCATATATTATTCATCCTATA
** *
57324518 ATTCGATTTTTACAATTTATGGTGATTTTTCAAAGTCAACCTACTGCTGCTGTCCAAA
66 ATTCGATTTCCAAAATTTATGGTGATTTTTCAAAGTCAACCTACTGCTGCTGTCCAAA
* * *
57324576 ACACCGTTTCTTTTATGAA-AAACTAGACTCAATAAGCTTTAATTTCATATTTTATTCATCTTAT
1 ACACCGTTTCTATTAT-AAGAAACTAGACTCAATAAGCTTTAATTTCATATATTATTCATCCTAT
* ** *
57324640 AATTCGATTTCCAAAATTTATGGTGATTTTTCAAAGTTAGTCTACTTCTGCTGTCCAA
65 AATTCGATTTCCAAAATTTATGGTGATTTTTCAAAGTCAACCTACTGCTGCTGTCCAA
57324698 TATTGTTTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
123 107 0.98
124 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (123 bp):
ACACCGTTTCTATTATAAGAAACTAGACTCAATAAGCTTTAATTTCATATATTATTCATCCTATA
ATTCGATTTCCAAAATTTATGGTGATTTTTCAAAGTCAACCTACTGCTGCTGTCCAAA
Found at i:57325071 original size:43 final size:42
Alignment explanation
Indices: 57324938--57325076 Score: 106
Period size: 43 Copynumber: 3.3 Consensus size: 42
57324928 TTGATAAAAA
*
57324938 TCATCA-AAAAAACAAAATCAAAGCTTCAAATTCATTTTATT
1 TCATCATAAACAACAAAATCAAAGCTTCAAATTCATTTTATT
* * * * * * * *
57324979 TCATCATAAACAGCCAAAAATTATGAA--ATGAGATT-ACTTGATA
1 TCATCATAAACA-AC-AAAATCA--AAGCTTCAAATTCATTTTATT
**
57325022 AAATCATCAAACAACAAAATCAAAGCTTCAAATTCATTTTATT
1 TCATCAT-AAACAACAAAATCAAAGCTTCAAATTCATTTTATT
57325065 TCATCATAAACA
1 TCATCATAAACA
57325077 GCTAACACTT
Statistics
Matches: 68, Mismatches: 21, Indels: 17
0.64 0.20 0.16
Matches are distributed among these distances:
40 2 0.03
41 6 0.09
42 20 0.29
43 22 0.32
44 16 0.24
46 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.29
Consensus pattern (42 bp):
TCATCATAAACAACAAAATCAAAGCTTCAAATTCATTTTATT
Found at i:57325311 original size:65 final size:65
Alignment explanation
Indices: 57325207--57325337 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
57325197 AAATGAACTC
57325207 ACATATGTCAAAGTATGAAAAACCAGCAGCTTTCAGACCTCCCATGGCGTTTCTGCTGAAGAAAA
1 ACATATGTCAAAGTATGAAAAACCAGCAGCTTTCAGACCTCCCATGGCGTTTCTGCTGAAGAAAA
*
57325272 ACATATGTCAAAGTATGAAAAACCAGCAGCTTTCAGACCTCCCATGGCGTTTTTGCTGAAGAAAA
1 ACATATGTCAAAGTATGAAAAACCAGCAGCTTTCAGACCTCCCATGGCGTTTCTGCTGAAGAAAA
57325337 A
1 A
57325338 ATGATGATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (65 bp):
ACATATGTCAAAGTATGAAAAACCAGCAGCTTTCAGACCTCCCATGGCGTTTCTGCTGAAGAAAA
Found at i:57327295 original size:56 final size:56
Alignment explanation
Indices: 57327228--57327338 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
57327218 ACTGTTAGAC
57327228 AGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAAG
1 AGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAAG
57327284 AGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAA
1 AGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAA
57327339 TTCTGAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (56 bp):
AGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAAG
Found at i:57328269 original size:46 final size:46
Alignment explanation
Indices: 57328217--57328667 Score: 832
Period size: 46 Copynumber: 9.8 Consensus size: 46
57328207 AGTGTGCTCT
57328217 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328263 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328309 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328355 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328401 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328447 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328493 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328539 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57328585 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
57328631 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
57328668 TATGACATCA
Statistics
Matches: 398, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
45 1 0.00
46 397 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:57331287 original size:46 final size:48
Alignment explanation
Indices: 57331202--57331303 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 48
57331192 TAATAAAACT
* * * *
57331202 ATGGTCTTGCACATAGTCATATATCACACACTGAAGCCATAGCCCAGCC
1 ATGGTCTTACACAGAGTCACATATCACACAC-GAAGCCATAGCCCAGAC
* * *
57331251 ATGGTCTTACACAGA-TCACATATCACACA-GATGCCATATCCCAGAT
1 ATGGTCTTACACAGAGTCACATATCACACACGAAGCCATAGCCCAGAC
57331297 ATGGTCT
1 ATGGTCT
57331304 ATATTGAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
46 20 0.43
48 13 0.28
49 13 0.28
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGGTCTTACACAGAGTCACATATCACACACGAAGCCATAGCCCAGAC
Found at i:57334333 original size:15 final size:17
Alignment explanation
Indices: 57334313--57334357 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
57334303 ATTCATTATC
57334313 TTTGTA-AAA-AATATA
1 TTTGTATAAATAATATA
*
57334328 TTTGTATAAATATTATA
1 TTTGTATAAATAATATA
*
57334345 TTT-TTTAAATAAT
1 TTTGTATAAATAAT
57334358 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTGTATAAATAATATA
Found at i:57341515 original size:17 final size:18
Alignment explanation
Indices: 57341482--57341516 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57341472 ATTTTATTCT
57341482 AAGTATTAAATAATAATA
1 AAGTATTAAATAATAATA
57341500 AAGTATTAAA-AATAATA
1 AAGTATTAAATAATAATA
57341517 CCCATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTATTAAATAATAATA
Found at i:57341623 original size:9 final size:9
Alignment explanation
Indices: 57341559--57341625 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
57341549 AAATAATATA
*
57341559 TTTTTATTC
1 TTTTTTTTC
*
57341568 TTTTTTTCC
1 TTTTTTTTC
* *
57341577 TTTCTTTCC
1 TTTTTTTTC
* *
57341586 TTACTTTCTC
1 TT-TTTTTTC
57341596 ATTTTTTTTC
1 -TTTTTTTTC
57341606 -TTTTTTTC
1 TTTTTTTTC
57341614 TTTTTTTTC
1 TTTTTTTTC
57341623 TTT
1 TTT
57341626 CTATTTTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 8 0.17
9 28 0.61
10 8 0.17
11 2 0.04
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:57342724 original size:16 final size:16
Alignment explanation
Indices: 57342695--57342734 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
57342685 AATTATCATG
57342695 TATATACATACATATA
1 TATATACATACATATA
* *
57342711 TATATTCATGCATATA
1 TATATACATACATATA
57342727 TATATACA
1 TATATACA
57342735 CCTCATAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (16 bp):
TATATACATACATATA
Found at i:57343863 original size:18 final size:18
Alignment explanation
Indices: 57343831--57343873 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
57343821 ATAACATGTG
* *
57343831 TTCAGTATCATTCAAACA
1 TTCAGTAGCAGTCAAACA
**
57343849 TTCAGTAGCAGTCAATTA
1 TTCAGTAGCAGTCAAACA
57343867 TTCAGTA
1 TTCAGTA
57343874 ACAATTAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (18 bp):
TTCAGTAGCAGTCAAACA
Found at i:57344065 original size:18 final size:18
Alignment explanation
Indices: 57344044--57344103 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
57344034 AATCGGTTAA
*
57344044 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
57344062 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
57344080 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
57344098 TCAGTA
1 TCAGTA
57344104 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:57345313 original size:17 final size:19
Alignment explanation
Indices: 57345279--57345316 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
57345269 AAACCTTTAA
57345279 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
57345298 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
57345315 TT
1 TT
57345317 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:57346117 original size:43 final size:43
Alignment explanation
Indices: 57346056--57346161 Score: 185
Period size: 43 Copynumber: 2.5 Consensus size: 43
57346046 TAATCTCGTC
*
57346056 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACTTGCA
1 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
57346099 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
1 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
* *
57346142 GTTGAAATCTACCTTCGGCT
1 GTTGAAATCGACCTTTGGCT
57346162 GTGGGTGCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (43 bp):
GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
Found at i:57346832 original size:17 final size:17
Alignment explanation
Indices: 57346810--57346852 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
57346800 TGTAGGGTGG
* **
57346810 TTGTGTGGCCCATATGC
1 TTGTGTGGCCCACACAC
*
57346827 TTGTGTAGCCCACACAC
1 TTGTGTGGCCCACACAC
57346844 TTGTGTGGC
1 TTGTGTGGC
57346853 TGACCATGTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.33
Consensus pattern (17 bp):
TTGTGTGGCCCACACAC
Found at i:57348942 original size:27 final size:26
Alignment explanation
Indices: 57348882--57348943 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
57348872 ATAAGACTCC
57348882 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
57348908 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
57348936 ATTTTATT
1 ATTTTATT
57348944 TTAATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:57359536 original size:20 final size:20
Alignment explanation
Indices: 57359480--57359547 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
57359470 ATTTTAGAAT
57359480 TTTTAGAATTTTTATAAA-TA
1 TTTT-GAATTTTTATAAATTA
*
57359500 TTTTCAA-TTTTATAAATTA
1 TTTTGAATTTTTATAAATTA
57359519 TTTTGAATTTTTGA-AAATTA
1 TTTTGAATTTTT-ATAAATTA
57359539 TTTTGAATT
1 TTTTGAATT
57359548 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.21
19 10 0.23
20 23 0.53
21 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTATAAATTA
Found at i:57364124 original size:18 final size:18
Alignment explanation
Indices: 57364103--57364147 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
57364093 ACCAATATGT
* * *
57364103 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
57364121 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
57364139 GGCCCAATA
1 GGCCCAATA
57364148 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:57364333 original size:18 final size:17
Alignment explanation
Indices: 57364310--57364355 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
57364300 AGCATACCAC
*
57364310 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
57364328 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
57364346 TTCTGACCAC
1 TTTTGACCAC
57364356 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:57364387 original size:21 final size:21
Alignment explanation
Indices: 57364338--57364397 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
57364328 TTTTGACCAG
* *
57364338 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
57364359 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
57364380 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
57364398 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:57366907 original size:17 final size:18
Alignment explanation
Indices: 57366881--57366914 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57366871 CCCAAAAGAA
*
57366881 TTATTTAAT-ATTTTTTG
1 TTATTAAATAATTTTTTG
57366898 TTATTAAATAATTTTTT
1 TTATTAAATAATTTTTT
57366915 ACCTAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATTAAATAATTTTTTG
Found at i:57370491 original size:8 final size:8
Alignment explanation
Indices: 57370478--57370509 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
57370468 TTTTCAAAAT
57370478 ATTTTAAA
1 ATTTTAAA
57370486 ATTTTAAA
1 ATTTTAAA
57370494 ATTTTAAA
1 ATTTTAAA
*
57370502 ATTGTAAA
1 ATTTTAAA
57370510 TTTAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:57371198 original size:133 final size:133
Alignment explanation
Indices: 57370945--57371200 Score: 372
Period size: 133 Copynumber: 1.9 Consensus size: 133
57370935 TAGAACATAC
* *
57370945 GAGTGAAATTTTGGAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCATCACGTTA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCAGCACGTTA
* * * *
57371010 GGGCACGATTCCGCGAATTGCCAAATATCACACATCGTCTTCGTTTAAGGGAATTTTTTAAAAGA
66 GGGCACGATTCCGCAAATTGCCAAATATCAAACATCGTCTTAGTTTAAGAGAATTTTTTAAAAGA
57371075 CAT
131 CAT
* * * *
57371078 GAGTGAAATTTTGAAGTGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCAGCACGTTA
* *
57371143 GGGCACGATTCCGCAAATTGCCAAATATCAAATC-TCGTCTTTATTTTAA-ATAATTTTT
66 GGGCACGATTCCGCAAATTGCCAAATATCAAA-CATCGTC-TTAGTTTAAGAGAATTTTT
57371201 GAATGAATGA
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
133 101 0.93
134 8 0.07
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (133 bp):
GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCAGCACGTTA
GGGCACGATTCCGCAAATTGCCAAATATCAAACATCGTCTTAGTTTAAGAGAATTTTTTAAAAGA
CAT
Found at i:57376017 original size:23 final size:24
Alignment explanation
Indices: 57375986--57376042 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
57375976 CAAAGACCCA
*
57375986 AAAAGAAACAGAAAATAAAAA-CC
1 AAAATAAACAGAAAATAAAAATCC
*
57376009 AAAATAAACA-AAAATAAAAATTC
1 AAAATAAACAGAAAATAAAAATCC
*
57376032 AAAATCAACAG
1 AAAATAAACAG
57376043 TCCAAATGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.72, C:0.12, G:0.05, T:0.11
Consensus pattern (24 bp):
AAAATAAACAGAAAATAAAAATCC
Found at i:57376025 original size:22 final size:23
Alignment explanation
Indices: 57375986--57376028 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
57375976 CAAAGACCCA
57375986 AAAAGAAACAGAAAATAAAAACC
1 AAAAGAAACAGAAAATAAAAACC
*
57376009 AAAATAAACA-AAAATAAAAA
1 AAAAGAAACAGAAAATAAAAA
57376029 TTCAAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.79, C:0.09, G:0.05, T:0.07
Consensus pattern (23 bp):
AAAAGAAACAGAAAATAAAAACC
Found at i:57377245 original size:16 final size:15
Alignment explanation
Indices: 57377224--57377257 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
57377214 AGAGAACTGT
57377224 TTTATTTAATATTTTA
1 TTTATTTAATA-TTTA
57377240 TTTATTTAATATTTA
1 TTTATTTAATATTTA
57377255 TTT
1 TTT
57377258 CTTCAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTAATATTTA
Found at i:57377353 original size:15 final size:15
Alignment explanation
Indices: 57377315--57377362 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
57377305 CTTATATATA
*
57377315 TTATCTATTATTACTA
1 TTATCTATTATTA-TT
*
57377331 TCAT-TATTATTATT
1 TTATCTATTATTATT
57377345 TTATCTATTATT-TT
1 TTATCTATTATTATT
57377359 TTAT
1 TTAT
57377363 TTATATATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 10 0.36
15 15 0.54
16 3 0.11
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATCTATTATTATT
Found at i:57382647 original size:30 final size:28
Alignment explanation
Indices: 57382611--57382689 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 28
57382601 GAATTTGACT
*
57382611 AAATCAAAATTACATGTATAAAATTGCACA
1 AAATC-AAATT-CATATATAAAATTGCACA
* *
57382641 AAATCAAGTTCTTATATAAAATTGCACATA
1 AAATCAAATTCATATATAAAATTGCAC--A
*
57382671 AAACCAAAGTTCATATATA
1 AAATCAAA-TTCATATATA
57382690 GTTTGAAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 15 0.38
29 4 0.10
30 12 0.30
31 9 0.22
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (28 bp):
AAATCAAATTCATATATAAAATTGCACA
Found at i:57382688 original size:31 final size:28
Alignment explanation
Indices: 57382627--57382689 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 28
57382617 AAATTACATG
* *
57382627 TATAAAATTGCACAAAATCAAGTTCTTA
1 TATAAAATTGCACAAAACCAAGTTCATA
57382655 TATAAAATTGCACATAAAACCAAAGTTCATA
1 TATAAAATTGCAC--AAAACC-AAGTTCATA
57382686 TATA
1 TATA
57382690 GTTTGAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 13 0.43
30 5 0.17
31 12 0.40
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (28 bp):
TATAAAATTGCACAAAACCAAGTTCATA
Found at i:57389330 original size:28 final size:30
Alignment explanation
Indices: 57389298--57389367 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
57389288 AAAAAAATTA
57389298 AAATTTTAATTAGACC-CTCAAAT-TTTTG
1 AAATTTTAATTAGACCTCTCAAATCTTTTG
* * *
57389326 AAATTCTT-ATTATACCTTTCAATTCTTTTG
1 AAATT-TTAATTAGACCTCTCAAATCTTTTG
57389356 AAATTTTAATTA
1 AAATTTTAATTA
57389368 AGCTTTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 12 0.34
29 9 0.26
30 14 0.40
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (30 bp):
AAATTTTAATTAGACCTCTCAAATCTTTTG
Found at i:57393108 original size:3 final size:3
Alignment explanation
Indices: 57393100--57393126 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
57393090 ACTCTAACTG
57393100 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
57393127 TCTCACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:57408866 original size:32 final size:32
Alignment explanation
Indices: 57408825--57408945 Score: 242
Period size: 32 Copynumber: 3.8 Consensus size: 32
57408815 ATTTTTTTTT
57408825 TTGATTTGGGAAAAAAAGAATGCTACCCAATA
1 TTGATTTGGGAAAAAAAGAATGCTACCCAATA
57408857 TTGATTTGGGAAAAAAAGAATGCTACCCAATA
1 TTGATTTGGGAAAAAAAGAATGCTACCCAATA
57408889 TTGATTTGGGAAAAAAAGAATGCTACCCAATA
1 TTGATTTGGGAAAAAAAGAATGCTACCCAATA
57408921 TTGATTTGGGAAAAAAAGAATGCTA
1 TTGATTTGGGAAAAAAAGAATGCTA
57408946 TGTGGAAATA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 89 1.00
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.26
Consensus pattern (32 bp):
TTGATTTGGGAAAAAAAGAATGCTACCCAATA
Found at i:57411518 original size:16 final size:16
Alignment explanation
Indices: 57411497--57411529 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57411487 AGGGTCTCGC
57411497 TTGGTGAATGCCCTAT
1 TTGGTGAATGCCCTAT
57411513 TTGGTGAATGCCCTAT
1 TTGGTGAATGCCCTAT
57411529 T
1 T
57411530 AAATAGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (16 bp):
TTGGTGAATGCCCTAT
Found at i:57412428 original size:42 final size:42
Alignment explanation
Indices: 57412320--57412479 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 42
57412310 AGCATATACA
* * * * *
57412320 ATGCCAACGTCCCAGACGTGGTTTTATATGTAATCA-AACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAT-ATAA-GTCG
*
57412363 ATGCC-ACTGTCCCAGGCAG-GGTCTTACACGAAAT-T-AGATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATATAAG-T-CG
*
57412405 ATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAAT-ATAAGTCG
*
57412449 ATGCCAACTTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
57412480 TAACACATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 31 0.32
44 31 0.32
45 2 0.02
46 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATATAAGTCG
Found at i:57412465 original size:44 final size:44
Alignment explanation
Indices: 57412320--57412478 Score: 154
Period size: 44 Copynumber: 3.7 Consensus size: 44
57412310 AGCATATACA
* * * *
57412320 ATGCCAACGTCCCAGACGTGGTTTTATATGT-AATCA-AACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCG
*
57412363 ATGCC-ACTGTCCCAGGCAG-GGTCTTACACG-AAAT--T-AGATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCATAAG-T-CG
*
57412405 ATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
*
57412449 ATGCCAACTTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
57412479 ATAACACATA
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 30 0.32
44 31 0.33
45 2 0.02
46 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
Found at i:57412472 original size:86 final size:85
Alignment explanation
Indices: 57412315--57412479 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
57412305 CGGAAAGCAT
* * * *
57412315 ATACAATGCCAACGTCCCAGACGTGGTTTTATATGTAATCAAACATCGATGCCACTGTCCCAGGC
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAACATCGATGCCACTGTCCCAGAC
57412380 AGGGTCTTACACGAAATTAG
66 AGGGTCTTACACGAAATTAG
* * *
57412400 ATACGATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAACT-TCCCA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AACATCGATGCC-ACTGTCCCA
57412463 GAC-GTGGTCTTACACGA
63 GACAG-GGTCTTACACGA
57412480 TAACACATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
85 32 0.46
86 32 0.46
87 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAACATCGATGCCACTGTCCCAGAC
AGGGTCTTACACGAAATTAG
Found at i:57420792 original size:23 final size:23
Alignment explanation
Indices: 57420758--57420801 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
57420748 ATAAAATGAT
*
57420758 TTAAATCAAAAAAATAGATAATC
1 TTAAATCAAAAAAATACATAATC
*
57420781 TTAAAT-ATAAAATATACATAA
1 TTAAATCA-AAAAAATACATAA
57420802 AGGATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAATCAAAAAAATACATAATC
Found at i:57434946 original size:3 final size:3
Alignment explanation
Indices: 57434938--57434974 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
57434928 TCAAATTGAA
57434938 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
57434975 GATGCATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57440889 original size:79 final size:79
Alignment explanation
Indices: 57440761--57440917 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
57440751 AGCCCTCTCA
57440761 TTCCCTTTGCTATTACTATTCGAAGAAATTATGTTAAGTTCCACTGAAACTAGCCATGCCACGAC
1 TTCCCTTTGCTATTACTATTCGAAGAAATTATGTTAAGTTCCACTGAAACTAGCCATGCCACGAC
57440826 ACTACCATGATCCT
66 ACTACCATGATCCT
*
57440840 TTCCCTTTGCTATTACTATTCTAAGAAATTATGTTAAGTTCCACTGAAACTAGCCATGCCACGAC
1 TTCCCTTTGCTATTACTATTCGAAGAAATTATGTTAAGTTCCACTGAAACTAGCCATGCCACGAC
57440905 ACTACCATGATCC
66 ACTACCATGATCC
57440918 AACCCACTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (79 bp):
TTCCCTTTGCTATTACTATTCGAAGAAATTATGTTAAGTTCCACTGAAACTAGCCATGCCACGAC
ACTACCATGATCCT
Found at i:57443242 original size:7 final size:7
Alignment explanation
Indices: 57443203--57443241 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
57443193 ATGCATATAA
57443203 TTTTGAC
1 TTTTGAC
57443210 TTTTGAC
1 TTTTGAC
57443217 TTTTGAC
1 TTTTGAC
*
57443224 TTTTGCTC
1 TTTTG-AC
57443232 TTTTGA-
1 TTTTGAC
57443238 TTTT
1 TTTT
57443242 TTCTAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 4 0.14
7 19 0.66
8 6 0.21
ACGTcount: A:0.10, C:0.13, G:0.13, T:0.64
Consensus pattern (7 bp):
TTTTGAC
Found at i:57443295 original size:15 final size:15
Alignment explanation
Indices: 57443277--57443327 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
57443267 TTTTATCCAG
57443277 TTATATTTTAATCAT
1 TTATATTTTAATCAT
*
57443292 TTAT-TTTTAA-AAT
1 TTATATTTTAATCAT
*
57443305 ATTACATTTTAATCAT
1 -TTATATTTTAATCAT
57443321 TTATATT
1 TTATATT
57443328 ATTACACTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.31
15 16 0.55
16 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATTTTAATCAT
Found at i:57445627 original size:111 final size:111
Alignment explanation
Indices: 57445429--57445693 Score: 373
Period size: 111 Copynumber: 2.4 Consensus size: 111
57445419 AAACCTATAC
* * *
57445429 TGTGGGTACGGTAAATTCTAATA-TA-AAAA-TTAATTAATTATTTTCAATATCATTATTTTCAA
1 TGTGGGTATGGTAAATTTTAATATTATAAAATTTAATTAATTATTTTCAATATAATTATTTTCAA
*
57445491 TAAATATAATTTTTATATGTGAAATATTTATTTTTTTCACC-TACAT
66 TAAATATAATTTTTATATGTCAAATATTTA-TTTTTTCACCGTACAT
57445537 TGTGGGTATGGTAAATTTTAATATTATAAAATTTGAATTAATTA-TTTCAAATATAATTATTTT-
1 TGTGGGTATGGTAAATTTTAATATTATAAAATTT-AATTAATTATTTTC-AATATAATTATTTTC
* *
57445600 TATAAATATAATTTTTATATGTCAAATATTTATTTTTTCCCCGTACAT
64 AATAAATATAATTTTTATATGTCAAATATTTATTTTTTCACCGTACAT
* * *
57445648 TGTGGGTATAGTAAATTTTAATATTATAAAA-TCAAATAATTATTTT
1 TGTGGGTATGGTAAATTTTAATATTATAAAATTTAATTAATTATTTT
57445694 GAATGCCATT
Statistics
Matches: 141, Mismatches: 9, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
108 21 0.15
109 10 0.07
110 17 0.12
111 71 0.50
112 22 0.16
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (111 bp):
TGTGGGTATGGTAAATTTTAATATTATAAAATTTAATTAATTATTTTCAATATAATTATTTTCAA
TAAATATAATTTTTATATGTCAAATATTTATTTTTTCACCGTACAT
Found at i:57446862 original size:47 final size:46
Alignment explanation
Indices: 57446799--57446925 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
57446789 TCTTTACATA
* * * *
57446799 ATGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTC
1 ATGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCAC
* * *
57446845 ACTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC
1 A-TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCAC
*
57446892 ATCGATGCCATATCCCAGATATGGTCTTATACAG
1 AT-GATGCCATATCCCAGATATGGTCTTACACAG
57446926 AAATCACTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 2 0.03
47 66 0.94
48 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (46 bp):
ATGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCAC
Found at i:57446941 original size:7 final size:7
Alignment explanation
Indices: 57446929--57446957 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
57446919 TATACAGAAA
57446929 TCACTTG
1 TCACTTG
57446936 TCACTTG
1 TCACTTG
57446943 TCACTTG
1 TCACTTG
57446950 TCACTTG
1 TCACTTG
57446957 T
1 T
57446958 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:57446991 original size:31 final size:31
Alignment explanation
Indices: 57446966--57447443 Score: 814
Period size: 31 Copynumber: 15.4 Consensus size: 31
57446956 GTAGCCAAAG
* * ***
57446966 CTACCACTATTCACTGACCAGGTAGCTGGTG
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
* * *
57446997 CTACCATTTTTCACTGATCAGGTAGC-CAGAG
1 CTACCACTTTTCACTGATCAGGTAGCTGA-AA
* * *
57447028 CTACCATTTTTCACTGATCAGGTAGCCGAAG
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
* *
57447059 CTACCACTTTTCACTGATTAGGTAGCAGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447090 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447121 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447152 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447183 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447214 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447245 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447276 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447307 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447338 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447369 CTACCACTTTTCACTGATCAGGTAGCTGAAA
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
*
57447400 CTACCACTTTTCACTGATCAGGTAGCTGAAG
1 CTACCACTTTTCACTGATCAGGTAGCTGAAA
57447431 CTACCACTTTTCA
1 CTACCACTTTTCA
57447444 GTTGTCATTT
Statistics
Matches: 431, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
31 430 1.00
32 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CTACCACTTTTCACTGATCAGGTAGCTGAAA
Found at i:57447517 original size:50 final size:50
Alignment explanation
Indices: 57447421--57448297 Score: 1693
Period size: 50 Copynumber: 17.5 Consensus size: 50
57447411 CACTGATCAG
* * * *
57447421 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
57447472 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447522 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447572 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447622 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447672 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447722 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447772 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447822 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447872 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447922 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57447972 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57448022 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57448072 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57448122 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57448172 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57448222 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
57448272 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
57448298 GTTTCCATGG
Statistics
Matches: 821, Mismatches: 4, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
50 797 0.97
51 24 0.03
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:57451450 original size:25 final size:26
Alignment explanation
Indices: 57451422--57451478 Score: 107
Period size: 25 Copynumber: 2.2 Consensus size: 26
57451412 AATTGAGACC
57451422 ATAATTTGTCACCAATACTTCTTCG-
1 ATAATTTGTCACCAATACTTCTTCGA
57451447 ATAATTTGTCACCAATACTTCTTCGA
1 ATAATTTGTCACCAATACTTCTTCGA
57451473 ATAATT
1 ATAATT
57451479 CTTTCTCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (26 bp):
ATAATTTGTCACCAATACTTCTTCGA
Found at i:57453727 original size:20 final size:20
Alignment explanation
Indices: 57453717--57453759 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57453707 TTTGTAAGAG
*
57453717 ATTCAGTAATTCTGTAAAAA
1 ATTCAATAATTCTGTAAAAA
* *
57453737 ATTCAATAATTCTATAAGAA
1 ATTCAATAATTCTGTAAAAA
57453757 ATT
1 ATT
57453760 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (20 bp):
ATTCAATAATTCTGTAAAAA
Found at i:57454252 original size:28 final size:27
Alignment explanation
Indices: 57454220--57454291 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
57454210 CTGAACCCCT
**
57454220 AACCCTAACCCTCAAACC-CAAAATCTTA
1 AACCCTAACCCT-AAACCTCAAAA-CCAA
57454248 AACCCTAAACCCTAAACCTCAAAACCAA
1 AACCCT-AACCCTAAACCTCAAAACCAA
*
57454276 AACCCTAACCTTAAAC
1 AACCCTAACCCTAAAC
57454292 ATTGATTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 9 0.23
28 19 0.49
29 11 0.28
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (27 bp):
AACCCTAACCCTAAACCTCAAAACCAA
Found at i:57454258 original size:7 final size:7
Alignment explanation
Indices: 57454216--57454283 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
57454206 TACCCTGAAC
57454216 CCCT-AA
1 CCCTAAA
57454222 CCCT-AA
1 CCCTAAA
57454228 CCCTCAAA
1 CCCT-AAA
*
57454236 CCCAAAA
1 CCCTAAA
* *
57454243 TCTTAAA
1 CCCTAAA
57454250 CCCTAAA
1 CCCTAAA
57454257 CCCTAAA
1 CCCTAAA
57454264 -CCTCAAA
1 CCCT-AAA
* *
57454271 ACCAAAA
1 CCCTAAA
57454278 CCCTAA
1 CCCTAA
57454284 CCTTAAACAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
6 13 0.27
7 29 0.59
8 7 0.14
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CCCTAAA
Found at i:57459908 original size:46 final size:46
Alignment explanation
Indices: 57459807--57459894 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
57459797 TGTAACCCGC
* *
57459807 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCTCGCAT
* * *
57459853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTC
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCTC
57459895 AATCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:57460481 original size:20 final size:18
Alignment explanation
Indices: 57460447--57460483 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
57460437 GCAACTCATA
57460447 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
57460465 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
57460484 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:57463733 original size:86 final size:86
Alignment explanation
Indices: 57463588--57464018 Score: 799
Period size: 86 Copynumber: 5.0 Consensus size: 86
57463578 AATACGCCTA
* * *
57463588 AAAAAAATGACCATCCATGTGTGGCAGGAGCTATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
1 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
57463653 ATTTCAATGCAACATTCTTCT
66 ATTTCAATGCAACATTCTTCT
57463674 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
1 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
57463739 ATTTCAATGCAACATTCTTCT
66 ATTTCAATGCAACATTCTTCT
57463760 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
1 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
57463825 ATTTCAATGCAACATTCTTCT
66 ATTTCAATGCAACATTCTTCT
57463846 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
1 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
*
57463911 ATTTCAATGCACCATTCTTCT
66 ATTTCAATGCAACATTCTTCT
* * *
57463932 AAAAAAATGACCATCCATGTGTGGTAGGAACAATCCACCATGGTTGCCCTCTATGTTTTGAGGTA
1 AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
57463997 ATTTCAATGCAACATTCTTCT
66 ATTTCAATGCAACATTCTTCT
57464018 A
1 A
57464019 TTTTCTCATC
Statistics
Matches: 337, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 337 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (86 bp):
AAAAAAATGACCATCCACGTGTGGTAGGAGCAATCCACCATGGTTGTCCTCTATGTTTTGAGGTA
ATTTCAATGCAACATTCTTCT
Found at i:57464275 original size:9 final size:9
Alignment explanation
Indices: 57464257--57464291 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
57464247 TTTGTAGATG
57464257 AAAT-AAAA
1 AAATAAAAA
57464265 AAATAAAAA
1 AAATAAAAA
57464274 AAATAACAAA
1 AAATAA-AAA
57464284 AAATAAAA
1 AAATAAAA
57464292 TATTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.16
9 12 0.48
10 9 0.36
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAATAAAAA
Found at i:57464602 original size:30 final size:32
Alignment explanation
Indices: 57464544--57464603 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
57464534 AGGTATAACG
*
57464544 ACTTAAAAAGAGAATTAAATGCACAAAATATA
1 ACTTAAAAAGAGAATTAAATGAACAAAATATA
*
57464576 ACTTAAAAAGAGAA-TGAA-GAACAAAATA
1 ACTTAAAAAGAGAATTAAATGAACAAAATA
57464604 AATAGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 9 0.35
31 3 0.12
32 14 0.54
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.18
Consensus pattern (32 bp):
ACTTAAAAAGAGAATTAAATGAACAAAATATA
Found at i:57467540 original size:2 final size:2
Alignment explanation
Indices: 57467533--57467565 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57467523 ACTAATTATC
57467533 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
57467566 CCGATCTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:57469706 original size:27 final size:27
Alignment explanation
Indices: 57469658--57469737 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
57469648 GCGAGGCTGC
* * *
57469658 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
57469685 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
57469711 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
57469738 CAAATAATCA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:57469750 original size:70 final size:70
Alignment explanation
Indices: 57469675--57469805 Score: 212
Period size: 70 Copynumber: 1.9 Consensus size: 70
57469665 TGTGACAAAG
57469675 TCACCAGATACAGATAT-TGTGGCAGAGCCACCAGAACAGAT-ATATGTGGCAGAGCCACCAGAT
1 TCACCAGA-ACAGATATATGTGGCAGAGCCACCAGAACAGATAAT-TGTGGCAGAGCCACCAGAT
57469738 CAAATAA
64 CAAATAA
* *
57469745 TCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 TCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
57469806 GACACTTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
69 8 0.14
70 47 0.82
71 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (70 bp):
TCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATAATTGTGGCAGAGCCACCAGATCA
AATAA
Found at i:57469764 original size:43 final size:43
Alignment explanation
Indices: 57469703--57469788 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
57469693 GTGGCAGAGC
57469703 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAAT
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAAT
*
57469746 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAT
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAAT
57469789 TGTGGCATAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (43 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAAT
Found at i:57469776 original size:27 final size:27
Alignment explanation
Indices: 57469746--57469805 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
57469736 ATCAAATAAT
57469746 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAGAGC
* *
57469773 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
57469800 CACCAG
1 CACCAG
57469806 GACACTTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAGAGC
Found at i:57471456 original size:26 final size:26
Alignment explanation
Indices: 57471425--57471532 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
57471415 TGAAATGCCC
* *
57471425 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAATATTTACCTAACCCATT
57471451 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAACCCATT
*
57471477 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAACCCATT
57471503 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAACCCATT
57471529 ATCA
1 ATCA
57471533 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAATATTTACCTAACCCATT
Found at i:57474308 original size:65 final size:64
Alignment explanation
Indices: 57474194--57474369 Score: 280
Period size: 65 Copynumber: 2.7 Consensus size: 64
57474184 AATTAATTAA
*
57474194 ATTAGGGTTAATTAATTAAATTAACTATTAATTGTAAAAAATCAATTAAATTAGGGTTTAGGGTT
1 ATTAAGGTTAATTAATTAAATTAACTATTAATT-TAAAAAATCAATTAAATTAGGGTTTAGGGTT
* * * *
57474259 TTTATGGTTTATTAATTAAATTAATTATTAATTTAAAAGAATCAATTAAATTAGGGTTTAGGGTT
1 ATTAAGGTTAATTAATTAAATTAACTATTAATTTAAAA-AATCAATTAAATTAGGGTTTAGGGTT
57474324 ATTAAGGTTAATTAATTAAATTAACTATTAATTTTAAAAAATCAAT
1 ATTAAGGTTAATTAATTAAATTAACTATTAA-TTTAAAAAATCAAT
57474370 ATATAAATTT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 5 0.05
65 89 0.88
66 7 0.07
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.43
Consensus pattern (64 bp):
ATTAAGGTTAATTAATTAAATTAACTATTAATTTAAAAAATCAATTAAATTAGGGTTTAGGGTT
Found at i:57474613 original size:126 final size:127
Alignment explanation
Indices: 57474388--57474655 Score: 362
Period size: 126 Copynumber: 2.1 Consensus size: 127
57474378 TTTTTTATTT
* * * *
57474388 TTTTGCTGCAATAGTATTAGAGAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCAAAA
1 TTTTGCTACAATAGTATTAGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAA
57474453 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACGG-AAAAAAGCTCCCACATAGACT-CTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACGGAAAAAAAGCTCCCACATAGA-TGCTC
* *
57474514 TTTTGCTACATTAGTATCT-GAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCCAA
1 TTTTGCTACAATAGTAT-TAGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAA
* * * ** * * *
57474578 AACGCTTTAAGTAGGATGCACTGTCAGTAAAATTACGGAAAAAAAGCTCTCACGTGGATGCTC
65 AACACTTCAAGCAGGATGCACTGTCAACAAAATTACGGAAAAAAAGCTCCCACATAGATGCTC
*
57474641 TTTTGCTACAGTAGT
1 TTTTGCTACAATAGT
57474656 TACTTTTTGA
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
126 90 0.73
127 34 0.27
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (127 bp):
TTTTGCTACAATAGTATTAGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAA
ACACTTCAAGCAGGATGCACTGTCAACAAAATTACGGAAAAAAAGCTCCCACATAGATGCTC
Found at i:57478350 original size:30 final size:30
Alignment explanation
Indices: 57478316--57478372 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
57478306 TGTTGGGCCT
*
57478316 GGTGACTGTGTGGGCGCTGTTGATGGGTCC
1 GGTGACTATGTGGGCGCTGTTGATGGGTCC
57478346 GGTGACTATGTGGGCGCTGTTGATGGG
1 GGTGACTATGTGGGCGCTGTTGATGGG
57478373 CCCGCATCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.09, C:0.14, G:0.47, T:0.30
Consensus pattern (30 bp):
GGTGACTATGTGGGCGCTGTTGATGGGTCC
Found at i:57479860 original size:24 final size:24
Alignment explanation
Indices: 57479833--57479883 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
57479823 ACTGTTATAA
*
57479833 AAAATT-ATAAAATAAAAAATAATT
1 AAAATTGAAAAAATAAAAAA-AATT
*
57479857 AAAATTGAAAAAATGAAAAAAATT
1 AAAATTGAAAAAATAAAAAAAATT
57479881 AAA
1 AAA
57479884 TAGTATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAATTGAAAAAATAAAAAAAATT
Found at i:57481923 original size:27 final size:25
Alignment explanation
Indices: 57481885--57481947 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
57481875 TATATCAAAT
* *
57481885 AATAAAGAATATATAGAAATGTTTTAA
1 AATAAATAATATAT-GAAA-GGTTTAA
*
57481912 AATAAATAATATGTGAAAGGTTTAA
1 AATAAATAATATATGAAAGGTTTAA
57481937 AATAAATAATA
1 AATAAATAATA
57481948 AAAATGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 17 0.52
26 4 0.12
27 12 0.36
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (25 bp):
AATAAATAATATATGAAAGGTTTAA
Found at i:57482010 original size:74 final size:74
Alignment explanation
Indices: 57481932--57482095 Score: 328
Period size: 74 Copynumber: 2.2 Consensus size: 74
57481922 ATGTGAAAGG
57481932 TTTAAAATAAATAATAAAAATGAATTTTAAACGATTAGCATGTGAAATAGTATAACTAAATAACG
1 TTTAAAATAAATAATAAAAATGAATTTTAAACGATTAGCATGTGAAATAGTATAACTAAATAACG
57481997 CATAAAAAT
66 CATAAAAAT
57482006 TTTAAAATAAATAATAAAAATGAATTTTAAACGATTAGCATGTGAAATAGTATAACTAAATAACG
1 TTTAAAATAAATAATAAAAATGAATTTTAAACGATTAGCATGTGAAATAGTATAACTAAATAACG
57482071 CATAAAAAT
66 CATAAAAAT
57482080 TTTAAAATAAATAATA
1 TTTAAAATAAATAATA
57482096 TATAAAATAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 90 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (74 bp):
TTTAAAATAAATAATAAAAATGAATTTTAAACGATTAGCATGTGAAATAGTATAACTAAATAACG
CATAAAAAT
Found at i:57485323 original size:23 final size:23
Alignment explanation
Indices: 57485297--57485341 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
57485287 ATCATGGTTG
57485297 AATTTGGATGATAATCATCTCTA
1 AATTTGGATGATAATCATCTCTA
57485320 AATTTGGATGATAATCATCTCT
1 AATTTGGATGATAATCATCTCT
57485342 TCTAGATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (23 bp):
AATTTGGATGATAATCATCTCTA
Found at i:57485637 original size:18 final size:19
Alignment explanation
Indices: 57485614--57485656 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
57485604 TAGGCAAGCC
57485614 TTTTG-AAGTAGTATTGTA
1 TTTTGTAAGTAGTATTGTA
57485632 TTTTGATTAAGTAGTATTGTA
1 TTTTG--TAAGTAGTATTGTA
57485653 TTTT
1 TTTT
57485657 TGGATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (19 bp):
TTTTGTAAGTAGTATTGTA
Found at i:57494421 original size:159 final size:159
Alignment explanation
Indices: 57494119--57494433 Score: 393
Period size: 159 Copynumber: 2.0 Consensus size: 159
57494109 GGTATAAACT
* *
57494119 CCAACAAATTCAATTAATGACTCTAATCAACCCTCCAAGAAATAATCCTTATAAAATTGAAGGAT
1 CCAACAAACTCAATTAATGACTCTAATCAACCCTCCAAGAAATAATCCTTAGAAAATTGAAGGAT
* * * * ** *
57494184 TAAAAATGAATTCTCACGACTCATTGAAAAAAATTGAGAAGAAAATTGTTTCTAAAAATCATAAG
66 AAAAAATGAATTCCCACGACTCATTGAAAAAAATTGAGAAAAAAACTACTTCTAAAAATCACAAG
* *
57494249 AAAGCAATTTTGCACAAAGAAACTAAATC
131 AAAGAAATCTTGCACAAAGAAACTAAATC
* * * *
57494278 CCAACAAACTCAATTACTGACTCTAATCAACCCTCC-AGAAAATAATCCTTGGCAAATTGAAGGG
1 CCAACAAACTCAATTAATGACTCTAATCAACCCTCCAAG-AAATAATCCTTAGAAAATTGAAGGA
* * * *
57494342 TAAAAAATGAATTCCCATGA-TCCTTTAAGGAAAATCT-AGAAAAAAACTACTTCTAAAAATCAC
65 TAAAAAATGAATTCCCACGACTCATTGAA-AAAAAT-TGAGAAAAAAACTACTTCTAAAAATCAC
* *
57494405 AAGGAAGAAATCTTGCACAAAGAATCTAA
128 AAGAAAGAAATCTTGCACAAAGAAACTAA
57494434 CTCTTATAGT
Statistics
Matches: 132, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
158 8 0.06
159 123 0.93
160 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (159 bp):
CCAACAAACTCAATTAATGACTCTAATCAACCCTCCAAGAAATAATCCTTAGAAAATTGAAGGAT
AAAAAATGAATTCCCACGACTCATTGAAAAAAATTGAGAAAAAAACTACTTCTAAAAATCACAAG
AAAGAAATCTTGCACAAAGAAACTAAATC
Found at i:57496634 original size:103 final size:103
Alignment explanation
Indices: 57496447--57496635 Score: 225
Period size: 103 Copynumber: 1.8 Consensus size: 103
57496437 ACTAACCCTA
* * * * * *
57496447 AGTCATAGTTAGATTGATATATACATTGTTTCCAATGTAAAAGGACGTGGGTTCAAGTGCACTGC
1 AGTCATAGTTAGATTCATATAGACATTGTTTCCAATGTAAAAGGACATAGGCTCAAGTACACTGC
*
57496512 AGCGCATTATCCTCCTATTTAAAAATACAAGTTTATTG
66 AACGCATTATCCTCCTATTTAAAAATACAAGTTTATTG
* * * * * * *
57496550 AGTCATAGTTCGATTCATATGGGCATTGTTTCCAATGTGAAAGTACATAGGCTCAAGTATACTGT
1 AGTCATAGTTAGATTCATATAGACATTGTTTCCAATGTAAAAGGACATAGGCTCAAGTACACTGC
* * *
57496615 AATGCATTATTCTCTTATTTA
66 AACGCATTATCCTCCTATTTA
57496636 TGAATTCGGA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
103 69 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (103 bp):
AGTCATAGTTAGATTCATATAGACATTGTTTCCAATGTAAAAGGACATAGGCTCAAGTACACTGC
AACGCATTATCCTCCTATTTAAAAATACAAGTTTATTG
Found at i:57497848 original size:278 final size:278
Alignment explanation
Indices: 57497351--57498453 Score: 2188
Period size: 278 Copynumber: 4.0 Consensus size: 278
57497341 GTGGTATCTG
57497351 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
1 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
57497416 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
66 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
*
57497481 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCTGTTGTATGAGAAC
131 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
57497546 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
196 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
*
57497611 TGACTAGAACATGTCTAA
261 TGACTAGAAAATGTCTAA
57497629 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
1 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
57497694 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
66 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
57497759 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
131 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
57497824 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
196 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
57497889 TGACTAGAAAATGTCTAA
261 TGACTAGAAAATGTCTAA
57497907 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
1 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
57497972 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
66 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
57498037 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
131 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
57498102 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
196 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
57498167 TGACTAGAAAATGTCTAA
261 TGACTAGAAAATGTCTAA
57498185 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
1 TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
57498250 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
66 AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
57498315 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
131 TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
57498380 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
196 TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
57498445 TGACTAGAA
261 TGACTAGAA
57498454 CCAGGCCTTC
Statistics
Matches: 823, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 823 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (278 bp):
TATTTTGAAAATGTCTAATATGTAATTAAATTATCAATTTGTGTATTATTATGGTACATGATGTT
AACAAGGTTAGCAAATGCTAAACTAACTAATGAAAATTTGATACATTAATTGTTGCATTAAAATT
TTTTTTTTATAAAAAAATTGAAGCTTTATCAATCAAGGATGCGTAGCTAGCAGTTGTATGAGAAC
TTTCTGATTGAAGCAGATCGCCAACTTGCAAGGATGGTTGATCCTTTCTAGGAAAAATGGGAGGT
TGACTAGAAAATGTCTAA
Found at i:57499573 original size:6 final size:6
Alignment explanation
Indices: 57499564--57499602 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
57499554 AAGTTCACCG
*
57499564 CCATCG CCATCA CCATCA CCATCA CCATCA CCATCA CCA
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCA
57499603 CCCACACCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.31, C:0.51, G:0.03, T:0.15
Consensus pattern (6 bp):
CCATCA
Done.