Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 148 of 222
Found at i:47708003 original size:95 final size:96
Alignment explanation
Indices: 47707833--47708071 Score: 408
Period size: 95 Copynumber: 2.5 Consensus size: 96
47707823 TTACATAGGT
* *
47707833 TATGGCTGAATGTATATCTATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
47707898 TGTAATTGTTATGCAGAGAAATAAATTAAAC
66 TGTAATTGTTATGCAGAGAAATAAATTAAAC
47707929 TAT-GCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
*
47707993 TGTAATTGTTATGCAGAGAAATGAATTAAAC
66 TGTAATTGTTATGCAGAGAAATAAATTAAAC
* *
47708024 TATGGCCGAATGTATATATATATATTTGTTATGCATTGAAATAAATTA
1 TATGGCCGAATG--TATATATATATTTGTTATACATTGAAATGAATTA
47708072 TTTGAAGTTA
Statistics
Matches: 135, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
95 92 0.68
96 11 0.08
98 32 0.24
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (96 bp):
TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
TGTAATTGTTATGCAGAGAAATAAATTAAAC
Found at i:47708235 original size:41 final size:41
Alignment explanation
Indices: 47708176--47708291 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 41
47708166 TTTTGTAAGT
*
47708176 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATGTA
* *
47708217 TTGGGCTTTATGCCTAGCAGGCTCTATGCTGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATGTA
* * * *
47708258 TCGGCCTTTGTGTCTAGCAGGCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTG
47708292 TTTTATATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.33
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATGTA
Found at i:47711036 original size:21 final size:21
Alignment explanation
Indices: 47711011--47711050 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47711001 AAACCTGGTA
47711011 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
47711032 AAAGGTATCGATACTTTTT
1 AAAGGTATCAATACTTTTT
47711051 ATGTAATTGA
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:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:47713517 original size:21 final size:21
Alignment explanation
Indices: 47713491--47713532 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47713481 AAACTTGGTA
47713491 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
47713512 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
47713533 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:47716038 original size:45 final size:45
Alignment explanation
Indices: 47715973--47716092 Score: 168
Period size: 45 Copynumber: 2.7 Consensus size: 45
47715963 TGCAAACAAG
*
47715973 CTGCTAGTACGGTGTGGATAAACCATTCATTGGTGCAGATAAAAA
1 CTGCTAGTACGGTGTGGATAAACCATTCATTGATGCAGATAAAAA
* * * **
47716018 TTGCTAGTACGGTGTGGATAAACCACTCATTGATGTAGATAAATG
1 CTGCTAGTACGGTGTGGATAAACCATTCATTGATGCAGATAAAAA
* *
47716063 CTGCTAATATGGTGTGGATAAACCATTCAT
1 CTGCTAGTACGGTGTGGATAAACCATTCAT
47716093 CCGTACAGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (45 bp):
CTGCTAGTACGGTGTGGATAAACCATTCATTGATGCAGATAAAAA
Found at i:47716103 original size:45 final size:43
Alignment explanation
Indices: 47715970--47716127 Score: 156
Period size: 45 Copynumber: 3.6 Consensus size: 43
47715960 TTTTGCAAAC
* *
47715970 AAGCTGCTAGTACGGTGTGGATAAACCATTCATTGGTGCAGATAA
1 AAGCTGCTAATACGGTGTGGATAAACCATTCA-TCGTGCAGAT-A
** * * * *
47716015 AAATTGCTAGTACGGTGTGGATAAACCACTCATTGATGTAGATA
1 AAGCTGCTAATACGGTGTGGATAAACCATTCATCG-TGCAGATA
* *
47716059 AATGCTGCTAATATGGTGTGGATAAACCATTCATCCGTACAGATA
1 AA-GCTGCTAATACGGTGTGGATAAACCATTCAT-CGTGCAGATA
* *
47716104 AA-CTGCTTATACGGTGTGCATAAA
1 AAGCTGCTAATACGGTGTGGATAAA
47716128 GCACTTAACG
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
43 19 0.20
44 5 0.05
45 69 0.73
46 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (43 bp):
AAGCTGCTAATACGGTGTGGATAAACCATTCATCGTGCAGATA
Found at i:47716243 original size:34 final size:34
Alignment explanation
Indices: 47716200--47716282 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
47716190 ATGCAATATG
* *
47716200 ACATGCTTATAGCAAATCAATAC-GATAGTAATAA
1 ACATGCTTATAACAAATCAATACAG-TAGCAATAA
*
47716234 ACATGCTTATAACATATCAATACAGTAGCAATAA
1 ACATGCTTATAACAAATCAATACAGTAGCAATAA
47716268 ACATGCTTATAACAA
1 ACATGCTTATAACAA
47716283 GTCCGTACGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 43 0.98
35 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (34 bp):
ACATGCTTATAACAAATCAATACAGTAGCAATAA
Found at i:47716297 original size:34 final size:33
Alignment explanation
Indices: 47716200--47716298 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 33
47716190 ATGCAATATG
* *
47716200 ACATGCTTATAGCAAATCAATACGATAGTAATAA
1 ACATGCTTATAAC-AATCAATACGATAGCAATAA
47716234 ACATGCTTATAACATATCAATAC-AGTAGCAATAA
1 ACATGCTTATAACA-ATCAATACGA-TAGCAATAA
**
47716268 ACATGCTTATAACAAGTCCGTACGATAGCAA
1 ACATGCTTATAACAA-TCAATACGATAGCAA
47716299 AGTCATGCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
33 3 0.05
34 53 0.93
35 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.25
Consensus pattern (33 bp):
ACATGCTTATAACAATCAATACGATAGCAATAA
Found at i:47720719 original size:25 final size:24
Alignment explanation
Indices: 47720674--47720726 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
47720664 ACATACTGTA
*
47720674 GCTCTTTATGAGCGTTTTGATATAG
1 GCTCTTTATGAGCGTTCTGATAT-G
*
47720699 GCTCTTTGTGAGC-TTCCTGATATG
1 GCTCTTTATGAGCGTT-CTGATATG
47720723 GCTC
1 GCTC
47720727 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCGTTCTGATATG
Found at i:47729184 original size:11 final size:11
Alignment explanation
Indices: 47729168--47729198 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47729158 TATAGTGAGA
*
47729168 TTTTATTTTAT
1 TTTTATTTTAC
47729179 TTTTATTTTAC
1 TTTTATTTTAC
47729190 TTTTATTTT
1 TTTTATTTT
47729199 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAC
Found at i:47729910 original size:50 final size:50
Alignment explanation
Indices: 47729830--47729926 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
47729820 GCCGTGTAGG
* * *
47729830 CCACACGGGCAAGGCTAATCCGAGCCTGTGGGCCACATGAGCATGTGTGC
1 CCACACGGGCAAGGCCAATCAGAGCCTGTGGGCCACACGAGCATGTGTGC
* * * *
47729880 CCACACTGGCAAGGCCAATCA-AGGCGTGTGGGTCACACGGGCATGTG
1 CCACACGGGCAAGGCCAATCAGA-GCCTGTGGGCCACACGAGCATGTG
47729927 AGCTCATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.03
50 38 0.97
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (50 bp):
CCACACGGGCAAGGCCAATCAGAGCCTGTGGGCCACACGAGCATGTGTGC
Found at i:47735806 original size:14 final size:14
Alignment explanation
Indices: 47735783--47735812 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47735773 CATCCCTCAT
*
47735783 TCACATCTCTTCTC
1 TCACAACTCTTCTC
47735797 TCACAACTCTTCTC
1 TCACAACTCTTCTC
47735811 TC
1 TC
47735813 CTCTCCCACT
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:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:47740851 original size:11 final size:11
Alignment explanation
Indices: 47740835--47740870 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
47740825 TATAGTGAGA
47740835 TTTTATTTTAT
1 TTTTATTTTAT
*
47740846 TTTTATTTTAC
1 TTTTATTTTAT
*
47740857 TTTTATTTTGT
1 TTTTATTTTAT
47740868 TTT
1 TTT
47740871 CAAAAATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:47745969 original size:16 final size:16
Alignment explanation
Indices: 47745922--47745974 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
47745912 TTTGGTTCGC
* *
47745922 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
47745938 CGTAATGGAA-AGAGG
1 TGTAATGGAATAGAGG
47745953 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
47745969 TGTAAT
1 TGTAAT
47745975 AGCAAATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 14 0.44
16 18 0.56
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:47746058 original size:39 final size:41
Alignment explanation
Indices: 47745956--47746062 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 41
47745946 AAAGAGGTGT
47745956 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATA
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG---A
* * ***
47746000 TAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTG-
1 -AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
47746040 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
47746063 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
39 20 0.37
44 14 0.26
45 20 0.37
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (41 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
Found at i:47746235 original size:14 final size:15
Alignment explanation
Indices: 47746196--47746237 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47746186 TTTAAGCATA
*
47746196 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47746211 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47746225 A-TATAATTTAATA
1 ATTATAATTAAATA
47746238 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47746336 original size:120 final size:120
Alignment explanation
Indices: 47746185--47746601 Score: 712
Period size: 120 Copynumber: 3.5 Consensus size: 120
47746175 ATTTAATCAT
47746185 ATTTAAGCATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAA-CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* **
47746250 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
47746306 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
47746371 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
47746426 ATTTAATATAATTATTATTAAATATATTTTAATTAAAATAAATAATTT-ATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
47746490 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
47746545 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
47746602 TAAAATAATT
Statistics
Matches: 283, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
119 113 0.40
120 165 0.58
121 5 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:47746355 original size:14 final size:15
Alignment explanation
Indices: 47746306--47746357 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
47746296 ATAAAATTTA
47746306 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
47746321 TATTAAATATATTAT
1 AATTAAATATATTAT
47746336 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
47746349 AATTTAATA
1 AATTAAATA
47746358 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:47746655 original size:101 final size:93
Alignment explanation
Indices: 47746542--47746823 Score: 313
Period size: 91 Copynumber: 3.0 Consensus size: 93
47746532 ACTATAAAAG
* * * *
47746542 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
47746606 ATAATTATAACTAATAAATTTTCTTATATAAATTTGT
62 -T--CT-TAA-TAATAAATTTTCTTATATAAATTTAT
* *
47746643 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
47746706 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTTTCTTATATAAATTTAT
* *
47746734 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
47746797 AATAATAAAATGTTCTTATATGAAATT
66 AATAAT-AAATTTTCTTATAT-AAATT
47746824 ATTAAAATCA
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
91 88 0.55
92 15 0.09
93 5 0.03
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.30
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTTTCTTATATAAATTTAT
Found at i:47746672 original size:26 final size:28
Alignment explanation
Indices: 47746642--47746702 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
47746632 TATAAATTTG
*
47746642 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
47746668 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
47746696 TAAAATT
1 TATAATT
47746703 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:47746700 original size:47 final size:46
Alignment explanation
Indices: 47746649--47746792 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
47746639 TTGTATAATT
47746649 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
47746696 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
47746740 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
47746787 TAAAAT
1 TAAAAT
47746793 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:47746712 original size:91 final size:91
Alignment explanation
Indices: 47746617--47746823 Score: 324
Period size: 91 Copynumber: 2.3 Consensus size: 91
47746607 TAATTATAAC
* * * *
47746617 TAATAAATTTTCTTATATAAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
47746682 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
*
47746708 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
47746773 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
47746799 TAATAAAATGTTCTTATATGAAATT
1 TAAT-AAATTTTCTTATAT-AAATT
47746824 ATTAAAATCA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
91 88 0.84
92 13 0.12
93 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:47746784 original size:44 final size:43
Alignment explanation
Indices: 47746642--47746784 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
47746632 TATAAATTTG
* *
47746642 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
47746686 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
47746733 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
47746777 TATAATTT
1 TATAATTT
47746785 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:47746799 original size:47 final size:47
Alignment explanation
Indices: 47746667--47746805 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
47746657 TTATTATTAC
* *
47746667 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
47746714 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
47746758 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
47746805 A
1 A
47746806 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:47750491 original size:19 final size:19
Alignment explanation
Indices: 47750467--47750505 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47750457 CTAGAAGGAA
47750467 GGAACAGAAGAGGCAAAGG
1 GGAACAGAAGAGGCAAAGG
*
47750486 GGAACAGAAGAGGCAGAGG
1 GGAACAGAAGAGGCAAAGG
47750505 G
1 G
47750506 TAAAACAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.46, T:0.00
Consensus pattern (19 bp):
GGAACAGAAGAGGCAAAGG
Found at i:47770477 original size:20 final size:20
Alignment explanation
Indices: 47770439--47770477 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47770429 TAACTTTTCC
**
47770439 AAATATAATATTATTTTAAT
1 AAATATAATATTAAATTAAT
*
47770459 AAATTTAATATTAAATTAA
1 AAATATAATATTAAATTAA
47770478 ATTAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATAATATTAAATTAAT
Found at i:47770518 original size:16 final size:16
Alignment explanation
Indices: 47770450--47770518 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
47770440 AATATAATAT
*
47770450 TATTTTAATAAATTTAA
1 TATTTTATTAAA-TTAA
**
47770467 TATTAAATTAAATTAA
1 TATTTTATTAAATTAA
* *
47770483 -ATATTTATTTAGA-TAG
1 TAT-TTTA-TTAAATTAA
47770499 TATTTTATTAAATTAA
1 TATTTTATTAAATTAA
47770515 TATT
1 TATT
47770519 AATATGAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
15 6 0.15
16 18 0.46
17 15 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TATTTTATTAAATTAA
Found at i:47770547 original size:61 final size:61
Alignment explanation
Indices: 47770466--47770582 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
47770456 AATAAATTTA
*
47770466 ATATTAAATTAAATTAAATATTTAT-TTAGATAGTATTTTATTAAATTAATATTAATATGAG
1 ATATTAAATTAAATTAAATATTTATCTT-GATAATATTTTATTAAATTAATATTAATATGAG
* * * *
47770527 ATATTAAATTTAATTTAATATTTATCTTGTTAATATTTTATTAATTTAATATTAAT
1 ATATTAAATTAAATTAAATATTTATCTTGATAATATTTTATTAAATTAATATTAAT
47770583 GTGATTAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 48 0.96
62 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTATCTTGATAATATTTTATTAAATTAATATTAATATGAG
Found at i:47770603 original size:21 final size:20
Alignment explanation
Indices: 47770566--47770604 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
47770556 TTAATATTTT
*
47770566 ATTAATTTAATATTAATGTG
1 ATTAATTTAATACTAATGTG
*
47770586 ATTAATTCTAATCCTAATG
1 ATTAATT-TAATACTAATG
47770605 GAACTCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
ATTAATTTAATACTAATGTG
Found at i:47770736 original size:25 final size:26
Alignment explanation
Indices: 47770686--47770736 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
47770676 AGTTTTAGAG
*
47770686 AGAAAATTCTCTAAAGAATTTGTTTT
1 AGAAAATTCTCTAAAGAATTTCTTTT
*
47770712 AGAAAATT-TCTAGAG-ATATTCTTTT
1 AGAAAATTCTCTAAAGAAT-TTCTTTT
47770737 TATTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 12 0.55
26 8 0.36
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAATTTCTTTT
Found at i:47773336 original size:12 final size:12
Alignment explanation
Indices: 47773319--47773357 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
47773309 TACCAGTGGT
47773319 AAAGTAAATAAA
1 AAAGTAAATAAA
*
47773331 AAAGTAAATAAT
1 AAAGTAAATAAA
47773343 AAA-TAAAGTAAA
1 AAAGTAAA-TAAA
47773355 AAA
1 AAA
47773358 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (12 bp):
AAAGTAAATAAA
Found at i:47773352 original size:16 final size:16
Alignment explanation
Indices: 47773325--47773381 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
47773315 TGGTAAAGTA
47773325 AATAAA-AAAGTAAAT
1 AATAAATAAAGTAAAT
*
47773340 AATAAATAAAGTAAAA
1 AATAAATAAAGTAAAT
*
47773356 AATATATAAA-TATAAT
1 AATAAATAAAGTA-AAT
*
47773372 AATAATTAAA
1 AATAAATAAA
47773382 TCGCACTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 8 0.23
16 27 0.77
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (16 bp):
AATAAATAAAGTAAAT
Found at i:47773358 original size:12 final size:11
Alignment explanation
Indices: 47773323--47773365 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
47773313 AGTGGTAAAG
47773323 TAAATAAAAAA
1 TAAATAAAAAA
*
47773334 GTAAATAATAAA
1 -TAAATAAAAAA
47773346 TAAAGTAAAAAA
1 TAAA-TAAAAAA
*
47773358 TATATAAA
1 TAAATAAA
47773366 TATAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (11 bp):
TAAATAAAAAA
Found at i:47775710 original size:26 final size:26
Alignment explanation
Indices: 47775681--47775748 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
47775671 TCCTGACTCG
*
47775681 CAGCTTGTGTGAGCATGCTCATTTCA
1 CAGCTCGTGTGAGCATGCTCATTTCA
47775707 CAGCTCGTGTGAGCATGCTCATTTCA
1 CAGCTCGTGTGAGCATGCTCATTTCA
*
47775733 CAGCTCATGTGAGCAT
1 CAGCTCGTGTGAGCAT
47775749 TTACAGTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (26 bp):
CAGCTCGTGTGAGCATGCTCATTTCA
Found at i:47775765 original size:25 final size:26
Alignment explanation
Indices: 47775688--47775765 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
47775678 TCGCAGCTTG
* *
47775688 TGTGAGCATGCTCATTTCACAGCTCG
1 TGTGAGCATGCTCAGTTCACAGCTCA
*
47775714 TGTGAGCATGCTCATTTCACAGCTCA
1 TGTGAGCATGCTCAGTTCACAGCTCA
*
47775740 TGTGAGCAT-TTACAGTT-ACAGCTCA
1 TGTGAGCATGCT-CAGTTCACAGCTCA
47775765 T
1 T
47775766 ATGATGTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
25 10 0.21
26 38 0.79
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (26 bp):
TGTGAGCATGCTCAGTTCACAGCTCA
Found at i:47780845 original size:34 final size:35
Alignment explanation
Indices: 47780760--47780856 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 35
47780750 CTGCCTAAAC
*
47780760 TCAAAAATTTGGTCATGTAAACAGGGAAATTAGGAA
1 TCAAAAATTTGGTCATGTAAACAGGAAAATTAGG-A
*
47780796 TCCCAAATATTATTTGGTCATGTAAACAGGAAAATTTGG-
1 T--CAAA-A--ATTTGGTCATGTAAACAGGAAAATTAGGA
47780835 TCAAAAATTTGGTCATGTAAAC
1 TCAAAAATTTGGTCATGTAAAC
47780857 TCCCCATTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 16 0.30
36 2 0.04
37 4 0.07
38 4 0.07
39 2 0.04
41 26 0.48
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (35 bp):
TCAAAAATTTGGTCATGTAAACAGGAAAATTAGGA
Found at i:47793632 original size:14 final size:16
Alignment explanation
Indices: 47793613--47793656 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
47793603 AGCAACCCAT
47793613 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
47793627 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
47793643 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
47793657 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:47798717 original size:13 final size:15
Alignment explanation
Indices: 47798674--47798720 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
47798664 AGTAAAAAAT
47798674 AATATAAAATTTATA
1 AATATAAAATTTATA
*
47798689 ATATATAAACTTTATA
1 A-ATATAAAATTTATA
47798705 AA-A-AAAATTTATA
1 AATATAAAATTTATA
47798718 AAT
1 AAT
47798721 TATTCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 2 0.07
16 14 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATAAAATTTATA
Found at i:47798830 original size:22 final size:25
Alignment explanation
Indices: 47798802--47798857 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
47798792 TATAAATAAG
47798802 TTATAATAA-AAA-ATAAAATATTT
1 TTATAATAATAAATATAAAATATTT
* *
47798825 TT-TAATGAATAAATATATATTATTT
1 TTATAAT-AATAAATATAAAATATTT
47798850 TTATAATA
1 TTATAATA
47798858 TATATCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 3 0.11
25 12 0.44
26 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTATAATAATAAATATAAAATATTT
Found at i:47802409 original size:13 final size:13
Alignment explanation
Indices: 47802391--47802416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47802381 GTGGAATTCG
47802391 AATAAGGACACAA
1 AATAAGGACACAA
47802404 AATAAGGACACAA
1 AATAAGGACACAA
47802417 GGCCCCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
AATAAGGACACAA
Found at i:47806732 original size:5 final size:4
Alignment explanation
Indices: 47806704--47806768 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
47806694 AGACTCTTTT
*
47806704 TTTA TTTA -TTA TTTTA TTTA TTTA CTTTAA CTTA TTTA TTTTCA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA -TTT-A TTTA
47806752 -TTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTT
47806769 CAAATTTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 9 0.18
4 26 0.51
5 14 0.27
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:47806752 original size:14 final size:12
Alignment explanation
Indices: 47806703--47806768 Score: 71
Period size: 14 Copynumber: 5.2 Consensus size: 12
47806693 TAGACTCTTT
47806703 TTTTATTTATTA
1 TTTTATTTATTA
47806715 TTTTATTTATTTA
1 TTTTATTTA-TTA
* *
47806728 CTTTAACTTATTTA
1 -TTTTATTTA-TTA
47806742 TTTTCATTTATTA
1 TTTT-ATTTATTA
47806755 -TTTATTTATTA
1 TTTTATTTATTA
47806766 TTT
1 TTT
47806769 CAAATTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.17
12 14 0.30
13 9 0.20
14 15 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:47818199 original size:44 final size:45
Alignment explanation
Indices: 47818121--47818341 Score: 160
Period size: 44 Copynumber: 4.8 Consensus size: 45
47818111 AGTGAAACCA
* * * *
47818121 CAAATCTTATC-CCCTTAAAATTGCAGTGGGGCAGATTGAATATA-
1 CAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * *
47818165 CAAGTCTTATCTCTCTTAAGTTGCGGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
47818210 CAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--G
* *
47818261 CAAATCTTATCTCCCTGAAGTGGCAGTGGAGCAGATTGAAGCTA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * *
47818305 CTAATCATATTTCCCTAAAGTTGCAGTGAAGCGGATT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
47818342 AAAACGATAA
Statistics
Matches: 138, Mismatches: 31, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
44 62 0.45
45 34 0.25
47 3 0.02
49 2 0.01
51 37 0.27
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:47819349 original size:27 final size:27
Alignment explanation
Indices: 47819299--47819350 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
47819289 ATTTTCCTTA
* *
47819299 AAATATATATAAATACAGATATATAGC
1 AAATATATATAAATACAAAAATATAGC
*
47819326 AAATATATATAAATATAAAAATATA
1 AAATATATATAAATACAAAAATATA
47819351 CCTTTTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
AAATATATATAAATACAAAAATATAGC
Found at i:47819952 original size:8 final size:9
Alignment explanation
Indices: 47819931--47820002 Score: 53
Period size: 10 Copynumber: 7.9 Consensus size: 9
47819921 ATTTAGACTC
47819931 TTTT-TTTA
1 TTTTATTTA
47819939 -TTTA-TTA
1 TTTTATTTA
47819946 TTTTATTTA
1 TTTTATTTA
47819955 -TTTACTTTA
1 TTTTA-TTTA
**
47819964 ACTTATTTA
1 TTTTATTTA
47819973 TTTTCATTTA
1 TTTT-ATTTA
47819983 TTATTTATTTA
1 -T-TTTATTTA
47819994 TTATTATTT
1 TT-TTATTT
47820003 CAACTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
7 6 0.12
8 8 0.15
9 14 0.27
10 15 0.29
11 6 0.12
12 3 0.06
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:47819963 original size:5 final size:4
Alignment explanation
Indices: 47819935--47819995 Score: 54
Period size: 4 Copynumber: 14.5 Consensus size: 4
47819925 AGACTCTTTT
*
47819935 TTTA TTTA -TTA TTTTA TTTA TTTA CTTTAA CTTA TTTA TTTTCA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA -TTT-A TTTA
47819983 -TTA TTTA TTTA TT
1 TTTA TTTA TTTA TT
47819996 ATTATTTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 6 0.12
4 26 0.54
5 14 0.29
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:47819997 original size:14 final size:15
Alignment explanation
Indices: 47819935--47820002 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 15
47819925 AGACTCTTTT
*
47819935 TTTATTTATTATTTTA
1 TTTATTTATT-TATTA
47819951 TTTATTTACTTTAACTTA
1 TTTATTTA-TTT-A-TTA
47819969 TTTATTTTCATTTATTA
1 TTTA-TTT-ATTTATTA
47819986 TTTATTTA-TTATTA
1 TTTATTTATTTATTA
47820000 TTT
1 TTT
47820003 CAACTTTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 12 0.26
17 9 0.20
18 8 0.17
19 6 0.13
20 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:47820181 original size:10 final size:9
Alignment explanation
Indices: 47820166--47820199 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
47820156 TCCTATTTTC
47820166 ATTTTATTCT
1 ATTTTATT-T
47820176 ATTTTATGTT
1 ATTTTAT-TT
47820186 ATTTTATTT
1 ATTTTATTT
47820195 ATTTT
1 ATTTT
47820200 GTTGTTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 15 0.65
11 1 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:47827240 original size:12 final size:12
Alignment explanation
Indices: 47827223--47827260 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
47827213 CGACCCGCTC
47827223 ATATTAATTTTT
1 ATATTAATTTTT
47827235 ATATT-ATTTTT
1 ATATTAATTTTT
*
47827246 ATA-TAATTTTA
1 ATATTAATTTTT
47827257 ATAT
1 ATAT
47827261 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:47827402 original size:30 final size:30
Alignment explanation
Indices: 47827358--47827417 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
47827348 ACTTAATAAG
47827358 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
47827388 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
47827418 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:47834118 original size:9 final size:9
Alignment explanation
Indices: 47834104--47834134 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47834094 GTTAAACGAA
47834104 TCGAGTTAT
1 TCGAGTTAT
*
47834113 TCGAGTTAA
1 TCGAGTTAT
47834122 TCGAGTTAT
1 TCGAGTTAT
47834131 TCGA
1 TCGA
47834135 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47834207 original size:9 final size:9
Alignment explanation
Indices: 47834188--47834224 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
47834178 TGAGTTTTCG
47834188 AATTCGAAT
1 AATTCGAAT
47834197 AACTT-GAAT
1 AA-TTCGAAT
47834206 AATTCGAAT
1 AATTCGAAT
47834215 AATTCGAAT
1 AATTCGAAT
47834224 A
1 A
47834225 TCAAACTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47836565 original size:22 final size:19
Alignment explanation
Indices: 47836534--47836580 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
47836524 AAAGATGATA
47836534 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
47836557 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
47836576 ATTAT
1 ATTAT
47836581 CAGCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:47836576 original size:16 final size:15
Alignment explanation
Indices: 47836536--47836577 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
47836526 AGATGATAAT
47836536 TATTAATATATAATTA
1 TATTAAT-TATAATTA
47836552 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
47836568 TATTAATTAT
1 TATTAATTAT
47836578 TATCAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:47847859 original size:45 final size:45
Alignment explanation
Indices: 47847808--47847931 Score: 140
Period size: 45 Copynumber: 2.8 Consensus size: 45
47847798 TTGTTTATTT
* * * * *
47847808 AGTCTGCCCCACTGCAATTTCAGGGGGATGAGACTTACTTCCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
* * * * * *
47847853 AGTCTGCTCCACTACAACTTCAAGGAAATCAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
*
47847898 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
47847932 CCGATGTGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
Found at i:47848471 original size:44 final size:44
Alignment explanation
Indices: 47848410--47848913 Score: 498
Period size: 44 Copynumber: 11.7 Consensus size: 44
47848400 ATCTGCTATT
* * * *
47848410 TTCAACCTACTCTACTGCTGCTCCA-GGAGATAGGATTCACGATC
1 TTCAACCTATTCCACTGCTG-ACCAGGGAGATAGGATTCACAATC
*
47848454 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
47848498 TTCAATCTATTCCACTACTG-CACAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
*
47848542 TTCAACCTATTCCACTGCTGACCAGTGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
47848586 TTTAACCTATTTCACTGCTGTCCAGGGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * * *
47848625 TT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
47848668 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
47848712 TTTAACATATTCCACTGCTGTCTAGGGAGATAGGATTCACAGTC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * ** * * *
47848756 TTTAACATATTTCACTATTGTCTAGAGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
47848795 TT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
47848838 TTCAATCTATTCCACTGCTGACCAGGGAGATAGGATTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
47848882 TTTAACCTATTCCACTGCTGACCAAGGAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
47848914 AGGCTGGGGT
Statistics
Matches: 386, Mismatches: 57, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
38 55 0.14
39 4 0.01
40 4 0.01
42 4 0.01
43 9 0.02
44 308 0.80
45 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:47848713 original size:170 final size:169
Alignment explanation
Indices: 47848460--47848913 Score: 660
Period size: 170 Copynumber: 2.7 Consensus size: 169
47848450 GATCTTCAAC
* * * * *
47848460 CTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTACTG-CACAG
1 CTATTCCACTACTGCCCAGGGAGATAGAATTCT-CAATCTTCAATCTATTCCACTGCTGAC-CAG
* * *
47848523 GGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAGGATTCACAATCTT
64 GGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAG-GAGATAGGATTCACAATCTT
* * *
47848588 TAACCTATTTCACTGCTGTCCAGGGAGATAGGATTCTTTAAT
128 TAACATATTTCACTACTGTCCAGAGAGATAGGATTCTTTAAT
* *
47848630 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATTTTCAACCTATTCCACTGCTGACCAGGG
1 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
* * * * *
47848695 AGATAGGACTCACAATCTTTAACATATTCCACTGCTGTCTAGGGAGATAGGATTCACAGTCTTTA
66 AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA-GGAGATAGGATTCACAATCTTTA
* *
47848760 ACATATTTCACTATTGTCTAGAGAGATAGGATTCTTTAAT
130 ACATATTTCACTACTGTCCAGAGAGATAGGATTCTTTAAT
47848800 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
1 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
*
47848865 AGATAGGATTTACAATCTTTAACCTATTCCACTGCTGACCAAGGAGATA
66 AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACC-AGGAGATA
47848914 AGGCTGGGGT
Statistics
Matches: 253, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
170 248 0.98
171 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (169 bp):
CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTGACCAGGG
AGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGAGATAGGATTCACAATCTTTAA
CATATTTCACTACTGTCCAGAGAGATAGGATTCTTTAAT
Found at i:47848912 original size:126 final size:129
Alignment explanation
Indices: 47848409--47848913 Score: 537
Period size: 126 Copynumber: 3.9 Consensus size: 129
47848399 GATCTGCTAT
* * * *
47848409 TTTCAACCTACTCTACTGCTGCTCCA-GGAGATAGGATTCACGATCTTCAACCTATTCCACTGCT
1 TTTCAACCTATTCCACTGCTG-ACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT
** * * *
47848473 GACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTACTGCACAGGGAGATAGAATTCTC
65 GACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTACTGC-CAAGGAGATAGAATTCTC
47848538 AA
129 -A
* * *
47848540 TCTTCAACCTATTCCACTGCTGACCAGTGAGATAGGATTCACAATCTTTAACCTATTTCACTGCT
1 T-TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT
* * *
47848605 GTCCAGGGAGATAGGA--T----TCTTTAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTC
65 GACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTACTG-CCAAGGAGATAGAATTCTC
47848664 AA
129 -A
* * *
47848666 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTTAACATATTCCACTGCT
1 -TTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT
* * * * * * * * * *
47848731 GTCTAGGGAGATAGGATTCACAGTCTTTAACATATTTCACTATTGTCTAGAGAGATAGGA-T-TC
65 GACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTACTGCCAAG-GAGATAGAATTCTC
47848794 -
129 A
* * * * * *
47848794 TTT-AATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAATCTATTCCACTGCTG
1 TTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTG
*
47848858 ACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTGCTGACCAAGGAGATA
66 ACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTACTG-CCAAGGAGATA
47848914 AGGCTGGGGT
Statistics
Matches: 320, Mismatches: 42, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
126 209 0.65
127 8 0.03
130 3 0.01
131 7 0.02
132 93 0.29
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (129 bp):
TTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTG
ACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTACTGCCAAGGAGATAGAATTCTCA
Found at i:47849062 original size:88 final size:88
Alignment explanation
Indices: 47848913--47849144 Score: 295
Period size: 88 Copynumber: 2.6 Consensus size: 88
47848903 CCAAGGAGAT
* *
47848913 AAGGCTGGGGTCATT-GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGTTATTTTTAGCC
1 AAGGCTGGTGTC-TTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCC
* ** * * *
47848977 TGCTTCGTTATAACCTAGAGAGTC
65 TGCTCCAATACAACCCAGAGAGGC
*
47849001 AAGGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCT
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCT
* *
47849066 GCTCCAATGCAACCCAGGGAGGC
66 GCTCCAATACAACCCAGAGAGGC
* * ** * *
47849089 AAGGCTAGTGTCTTCGATCTGCTTCGCTATCGGTACAGGAACGCAAAATCTGCTAT
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTAT
47849145 CTTCGATCTA
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
87 2 0.02
88 123 0.98
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (88 bp):
AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCT
GCTCCAATACAACCCAGAGAGGC
Found at i:47849192 original size:44 final size:45
Alignment explanation
Indices: 47849136--47849413 Score: 293
Period size: 44 Copynumber: 6.3 Consensus size: 45
47849126 GGAACGCAAA
* * *
47849136 ATCTGCTATCTTCGATCTACTTC-ACGCTAATATATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
* * * *
47849180 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
* *
47849225 ATCTGC-ATCTTTGATCCACTTC--CTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGAC-ACCAATATAGGAAGACAAG
* * * * *
47849268 ACCTGCTATCTTCGATCTACTTC-ACGCTAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
* * * *
47849312 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
*
47849357 ATCTGC-ATCTTCGATCCACTTCG-CTACCAATATAGGAAGAC-AG
1 ATCTGCTATCTTCGATCTACTTCGAC-ACCAATATAGGAAGACAAG
*
47849400 AATTTGCTATCTTC
1 -ATCTGCTATCTTC
47849414 ACTGATCTGC
Statistics
Matches: 193, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
42 1 0.01
43 25 0.13
44 119 0.62
45 48 0.25
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCGACACCAATATAGGAAGACAAG
Found at i:47849309 original size:132 final size:133
Alignment explanation
Indices: 47849138--47849398 Score: 497
Period size: 132 Copynumber: 2.0 Consensus size: 133
47849128 AACGCAAAAT
*
47849138 CTGCTATCTTCGATCTACTTCACGCTAATATATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
*
47849203 GCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCACTTC-CTACCAATATAGGAAGACAA
66 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAA
47849267 GAC
131 GAC
47849270 CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
47849335 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACA
66 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACA
47849399 GAATTTGCTA
Statistics
Matches: 126, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
132 107 0.85
133 19 0.15
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (133 bp):
CTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAA
GAC
Found at i:47858368 original size:3 final size:3
Alignment explanation
Indices: 47858360--47858412 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
47858350 TTTGACTTTT
47858360 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47858408 TAA TA
1 TAA TA
47858413 CTTTAAAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:47859449 original size:19 final size:19
Alignment explanation
Indices: 47859403--47859450 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
47859393 GTATATATTT
*
47859403 TAAA-TTTATTTAGTTAGA
1 TAAATTTTATTTAGGTAGA
*
47859421 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
47859440 TAAGTTTTATT
1 TAAATTTTATT
47859451 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:47861065 original size:42 final size:42
Alignment explanation
Indices: 47860984--47861067 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
47860974 ATATTTTATT
47860984 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
* *
47861026 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTTTTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
47861068 AATTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
Found at i:47862249 original size:13 final size:13
Alignment explanation
Indices: 47862231--47862258 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47862221 AATGTATCAA
47862231 CTCCTTTGGCCAG
1 CTCCTTTGGCCAG
47862244 CTCCTTTGGCCAG
1 CTCCTTTGGCCAG
47862257 CT
1 CT
47862259 TTTAATAAGG
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:0.07, C:0.39, G:0.21, T:0.32
Consensus pattern (13 bp):
CTCCTTTGGCCAG
Found at i:47862749 original size:31 final size:31
Alignment explanation
Indices: 47862711--47862770 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
47862701 TTGCATGGTC
47862711 AATTTTGTTTTTGAGATTTCAATATCAATGG
1 AATTTTGTTTTTGAGATTTCAATATCAATGG
*
47862742 AATTTTGTTTTTGAGATTTTAATATCAAT
1 AATTTTGTTTTTGAGATTTCAATATCAAT
47862771 TACAGGTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (31 bp):
AATTTTGTTTTTGAGATTTCAATATCAATGG
Found at i:47864453 original size:46 final size:46
Alignment explanation
Indices: 47864386--47864478 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
47864376 TTGACCAGGC
47864386 AACTATGGATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTT
1 AACTATGGATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTT
47864432 AACTATGGATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTT
1 AACTATGGATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTT
47864478 A
1 A
47864479 CTTACCTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (46 bp):
AACTATGGATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTT
Found at i:47866077 original size:59 final size:60
Alignment explanation
Indices: 47865981--47866107 Score: 204
Period size: 59 Copynumber: 2.1 Consensus size: 60
47865971 AATAAAAATT
*
47865981 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTTCAACAAGAG-ATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGCAACAAGAGAATGACAA
* *
47866040 TTCAAGCACAAATACTTAAACAAGACATAAGCGTATTGAATTGCAACAAGAGATATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGCAACAAGAGA-ATGACAA
47866101 TT-AAGCA
1 TTCAAGCA
47866108 TTGGAGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
59 49 0.78
60 5 0.08
61 9 0.14
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.22
Consensus pattern (60 bp):
TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGCAACAAGAGAATGACAA
Found at i:47867189 original size:25 final size:25
Alignment explanation
Indices: 47867140--47867192 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
47867130 ATCCTAAGAC
*
47867140 TAAATCTAATCCTAACTTATTAACT
1 TAAATCTAATCCTAACTTATAAACT
* * *
47867165 TAAATTTAATCCTAAGTTCTAAACT
1 TAAATCTAATCCTAACTTATAAACT
47867190 TAA
1 TAA
47867193 GTTCTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATCTAATCCTAACTTATAAACT
Found at i:47880663 original size:16 final size:15
Alignment explanation
Indices: 47880642--47880671 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47880632 TGGAAGTATG
47880642 TTTCAGTTTGCTTTAT
1 TTTCAGTTT-CTTTAT
47880658 TTTCAGTTTCTTTA
1 TTTCAGTTTCTTTA
47880672 CAAATCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.63
Consensus pattern (15 bp):
TTTCAGTTTCTTTAT
Found at i:47881217 original size:2 final size:2
Alignment explanation
Indices: 47881210--47881239 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
47881200 ATCTTAGTCT
*
47881210 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47881240 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:47881278 original size:2 final size:2
Alignment explanation
Indices: 47881239--47881265 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47881229 ATATATATAT
47881239 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
47881266 AGCGAAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47892887 original size:20 final size:20
Alignment explanation
Indices: 47892859--47892898 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47892849 CTCTAACCAG
*
47892859 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
47892879 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
47892899 TTGGTACTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:47898080 original size:27 final size:27
Alignment explanation
Indices: 47898049--47898116 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
47898039 TAAAGTTCAA
*
47898049 TTTGAATTAAAGACTTGATTTTATAAT
1 TTTGAAATAAAGACTTGATTTTATAAT
* * *
47898076 TTTGAAACAAATATTTGATTTTATAAT
1 TTTGAAATAAAGACTTGATTTTATAAT
47898103 TTTGAAATAAAGAC
1 TTTGAAATAAAGAC
47898117 ATGAGTGTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.44
Consensus pattern (27 bp):
TTTGAAATAAAGACTTGATTTTATAAT
Found at i:47899557 original size:12 final size:13
Alignment explanation
Indices: 47899539--47899566 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47899529 TTTAGAAAAA
47899539 CATTTTTAACATT
1 CATTTTTAACATT
47899552 CATTTTTAACATT
1 CATTTTTAACATT
47899565 CA
1 CA
47899567 ATTGATATAA
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:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (13 bp):
CATTTTTAACATT
Found at i:47901629 original size:18 final size:18
Alignment explanation
Indices: 47901606--47901642 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47901596 TAAGCAAACA
47901606 AAAAATAATCATCACAAG
1 AAAAATAATCATCACAAG
47901624 AAAAATAATCATCACAAG
1 AAAAATAATCATCACAAG
47901642 A
1 A
47901643 TTAGGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAATAATCATCACAAG
Found at i:47902294 original size:184 final size:185
Alignment explanation
Indices: 47902062--47902436 Score: 610
Period size: 184 Copynumber: 2.0 Consensus size: 185
47902052 TCGATACTTT
*
47902062 TTGTGATTGTTTAAAAATCATTAAATCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATTG
1 TTGTGATTGTTTAAAAATC--TAAATCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATCG
* **
47902127 ATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATTC-ATACTTTTTGTTTTTGTTCAATT
64 ATAAAAATACAATAGGTATAGATATTTTTTGAAAAGTA-TCGATACTTTTTACTTTTGTTCAATT
* * *
47902191 TTTGTTTCAAGTCAGTAAGCAAGTTTGGTATCGATCTTTAAATAGGTATCAATAAAAA
128 TTTATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
* * *
47902249 TTGTGATTGTTTAAAAATC-AAGTTATAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
1 TTGTGATTGTTTAAAAATCTAAATCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
*
47902313 AAAAATACAATAGGTATAGATATTTTTTGAAAGGTATCGATACTTTTTACTTTTGTTCAATTTTT
66 AAAAATACAATAGGTATAGATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAATTTTT
47902378 ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
131 ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
47902433 TTGT
1 TTGT
47902437 ATGGGTATTG
Statistics
Matches: 176, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
183 2 0.01
184 155 0.88
187 19 0.11
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (185 bp):
TTGTGATTGTTTAAAAATCTAAATCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
AAAAATACAATAGGTATAGATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAATTTTT
ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
Found at i:47902300 original size:18 final size:18
Alignment explanation
Indices: 47902279--47902313 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47902269 AGTTATAATG
47902279 CAAAAACGGTATCGATAT
1 CAAAAACGGTATCGATAT
* *
47902297 CAAAGATGGTATCGATA
1 CAAAAACGGTATCGATA
47902314 AAAATACAAT
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:0.14, G:0.20, T:0.23
Consensus pattern (18 bp):
CAAAAACGGTATCGATAT
Found at i:47912462 original size:9 final size:9
Alignment explanation
Indices: 47912421--47912468 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
47912411 CTCACATCCT
47912421 ATTCTCTCA
1 ATTCTCTCA
* * *
47912430 AATCTTTCT
1 ATTCTCTCA
47912439 ATTCTCTCA
1 ATTCTCTCA
* *
47912448 ACTCTCTAA
1 ATTCTCTCA
47912457 ATTCTCTCA
1 ATTCTCTCA
47912466 ATT
1 ATT
47912469 TTCACAAGCT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:47919199 original size:13 final size:13
Alignment explanation
Indices: 47919181--47919209 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47919171 CAAACCCTAG
47919181 ACAAAATGAAAAT
1 ACAAAATGAAAAT
47919194 ACAAAATGAAAAT
1 ACAAAATGAAAAT
47919207 ACA
1 ACA
47919210 GTAAGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (13 bp):
ACAAAATGAAAAT
Found at i:47919703 original size:15 final size:15
Alignment explanation
Indices: 47919678--47919712 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
47919668 GATTCTATTT
*
47919678 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
47919692 TAATTAATATTAAGA
1 TAATTAATATTAAGA
47919707 TAATTA
1 TAATTA
47919713 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:47927711 original size:27 final size:26
Alignment explanation
Indices: 47927679--47927733 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
47927669 TTACTGTTTC
* *
47927679 AAGTTATTTTATATGTCATTTTATTTT
1 AAGTTATTTTACATATCA-TTTATTTT
*
47927706 AAGTTATTTTACATATTATTTATTTT
1 AAGTTATTTTACATATCATTTATTTT
47927732 AA
1 AA
47927734 AATTAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (26 bp):
AAGTTATTTTACATATCATTTATTTT
Found at i:47932244 original size:12 final size:12
Alignment explanation
Indices: 47932229--47932261 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47932219 AACAAAAAGA
47932229 AAAATCAAAACC
1 AAAATCAAAACC
*
47932241 AAAACCAAAACC
1 AAAATCAAAACC
47932253 AAAAT-AAAA
1 AAAATCAAAA
47932262 GTCAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.73, C:0.21, G:0.00, T:0.06
Consensus pattern (12 bp):
AAAATCAAAACC
Found at i:47932291 original size:34 final size:34
Alignment explanation
Indices: 47932247--47932355 Score: 155
Period size: 34 Copynumber: 3.1 Consensus size: 34
47932237 AACCAAAACC
* *
47932247 AAAACCAAAATAAAAGTCAAAAAGAAGAAAAAGA
1 AAAATCAAAATCAAAGTCAAAAAGAAGAAAAAGA
47932281 AAAATCAAAATCAAAGTCAAAAAGAAGAAAAAGA
1 AAAATCAAAATCAAAGTCAAAAAGAAGAAAAAGA
* *
47932315 AAAATCAAAGTCAAAGTCAAAATGAAAATGAAAAAGA
1 AAAATCAAAATCAAAGTCAAAA--AGAA-GAAAAAGA
47932352 AAAA
1 AAAA
47932356 AGAAAAAAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 53 0.78
36 3 0.04
37 12 0.18
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.09
Consensus pattern (34 bp):
AAAATCAAAATCAAAGTCAAAAAGAAGAAAAAGA
Found at i:47932355 original size:6 final size:6
Alignment explanation
Indices: 47932333--47932381 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
47932323 AGTCAAAGTC
* *
47932333 AAAATG AAAATG AAAAAG AAAAAAG AAAAAAG AAAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG -AAAAAG -AAAAAG AAAAAG AAAA
47932382 GGAGAGGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 21 0.51
7 20 0.49
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:47932355 original size:7 final size:7
Alignment explanation
Indices: 47932345--47932381 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
47932335 AATGAAAATG
47932345 AAAAAGA
1 AAAAAGA
47932352 AAAAAGA
1 AAAAAGA
47932359 AAAAAGA
1 AAAAAGA
47932366 AAAAAG-
1 AAAAAGA
47932372 AAAAAGA
1 AAAAAGA
47932379 AAA
1 AAA
47932382 GGAGAGGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:47932362 original size:14 final size:13
Alignment explanation
Indices: 47932339--47932381 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
47932329 AGTCAAAATG
*
47932339 AAAATGAAAAAGA
1 AAAAAGAAAAAGA
47932352 AAAAAGAAAAAAGA
1 AAAAAG-AAAAAGA
47932366 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
47932379 AAA
1 AAA
47932382 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:47934107 original size:43 final size:43
Alignment explanation
Indices: 47934057--47934194 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 43
47934047 AGATAGCAGA
47934057 CCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG
1 CCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG
* * * * * * *
47934100 CCTTGCC-TCCAT-CAGTT-ACAGTGGAGCTGGT-TAAAGATAGCAG
1 CCTTGCCTTCC-TGCA-TTAACAGCGAAGCAGATCGAAA-ACA-AAG
** *
47934143 ATATTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
1 -CCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG
47934187 CCTTGCCT
1 CCTTGCCT
47934195 CCATCGGTTA
Statistics
Matches: 67, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
41 3 0.04
42 17 0.25
43 18 0.27
44 10 0.15
45 16 0.24
46 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (43 bp):
CCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG
Found at i:47934150 original size:87 final size:86
Alignment explanation
Indices: 47933998--47934329 Score: 486
Period size: 87 Copynumber: 3.8 Consensus size: 86
47933988 AGATCGGTGA
* * ** *
47933998 AGATTGAAAACAAAGCCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGACCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGA-TTTGC
47934063 CTTCCTGCATTAACAGCGAAGC
65 CTTCCTGCATTAACAGCGAAGC
*
47934085 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTACAGTGGAGCTGGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGAT-TTGC
47934150 CTTCCTGCATTAACAGCGAAGC
65 CTTCCTGCATTAACAGCGAAGC
*
47934172 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTACAGTGGAG-TAGGTTAAAGATAGCAGATTTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCT-GGTTAAAGATAGCAGA-TTTG
*
47934236 CCTTCCTACATTAACAGCGAAGC
64 CCTTCCTGCATTAACAGCGAAGC
* * ** * *
47934259 AGATCGAAAACGAAGCCTTGCCTCTATCGGTTGTAGCGGAGCTGGTTAAAGATAGAAGATTCTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATT-TGC
47934324 CTTCCT
65 CTTCCT
47934330 AAGCACTAGC
Statistics
Matches: 226, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
86 3 0.01
87 221 0.98
88 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (86 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATTTGCC
TTCCTGCATTAACAGCGAAGC
Found at i:47936483 original size:27 final size:26
Alignment explanation
Indices: 47936451--47936505 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
47936441 TTATTGTTTC
* *
47936451 AAGTTATTTTATATGTCATTTTATTTT
1 AAGTTATTTTACATATCA-TTTATTTT
*
47936478 AAGTTATTTTACATATTATTTATTTT
1 AAGTTATTTTACATATCATTTATTTT
47936504 AA
1 AA
47936506 AATTAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (26 bp):
AAGTTATTTTACATATCATTTATTTT
Found at i:47945080 original size:23 final size:24
Alignment explanation
Indices: 47945043--47945099 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
47945033 TTATGACATC
*
47945043 ATTTATGTCACGTGTCATAATCTT
1 ATTTATGCCACGTGTCATAATCTT
*
47945067 -TTTATGCCATGTGTCATAATCTT
1 ATTTATGCCACGTGTCATAATCTT
47945090 ATTT-TGCCAC
1 ATTTATGCCAC
47945100 TAGTCCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (24 bp):
ATTTATGCCACGTGTCATAATCTT
Found at i:47945200 original size:31 final size:29
Alignment explanation
Indices: 47945144--47945202 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
47945134 CGATTTAGTT
* *
47945144 GACAAAAAAAAAATTAAGTATCAATCTAA
1 GACAAAAAAAAAATTAAATACCAATCTAA
47945173 GACAAAAAAAAAACTATAAATACCAATCTA
1 GACAAAAAAAAAA-T-TAAATACCAATCTA
47945203 GGAGAAGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
30 1 0.04
31 12 0.46
ACGTcount: A:0.63, C:0.14, G:0.05, T:0.19
Consensus pattern (29 bp):
GACAAAAAAAAAATTAAATACCAATCTAA
Found at i:47957527 original size:15 final size:15
Alignment explanation
Indices: 47957480--47957537 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 15
47957470 AATCAAAGTG
47957480 ATTTTATTTAGTTTTT
1 ATTTTATTT-GTTTTT
*
47957496 GTTTT-TTTGGTACTTTT
1 ATTTTATTT-GT--TTTT
47957513 ATTTTTATTTGTTTTT
1 A-TTTTATTTGTTTTT
47957529 ATTTTATTT
1 ATTTTATTT
47957538 TTCATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
15 13 0.37
16 9 0.26
17 4 0.11
18 6 0.17
19 3 0.09
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.76
Consensus pattern (15 bp):
ATTTTATTTGTTTTT
Found at i:47962849 original size:42 final size:41
Alignment explanation
Indices: 47962783--47962899 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 41
47962773 GATTTGAGAT
* *
47962783 TTACGTGTAAGACCATATCTGGGACATTGGCATC-GTATATG
1 TTACGTGTAAGACCCTGTCTGGGAC-TTGGCATCAGTATATG
* * *
47962824 ATTACGTGTAAGACCCTGTCCGGGACTGTGGCATCATTATTTG
1 -TTACGTGTAAGACCCTGTCTGGGACT-TGGCATCAGTATATG
*
47962867 TTACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TTACGTGTAAGACC-CTGTCTGGGAC-TTGGCAT
47962900 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.02
42 56 0.88
43 7 0.11
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
TTACGTGTAAGACCCTGTCTGGGACTTGGCATCAGTATATG
Found at i:47975293 original size:23 final size:23
Alignment explanation
Indices: 47975265--47975310 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47975255 TTGATACTAT
47975265 TTAAAAATAT-AAAATTAAAATA
1 TTAAAAATATAAAAATTAAAATA
* *
47975287 TTAAAAATCTAAAAATTATAATA
1 TTAAAAATATAAAAATTAAAATA
47975310 T
1 T
47975311 CATCCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TTAAAAATATAAAAATTAAAATA
Found at i:47975304 original size:15 final size:15
Alignment explanation
Indices: 47975265--47975307 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
47975255 TTGATACTAT
47975265 TTAAAAA-TATAAAA
1 TTAAAAATTATAAAA
47975279 TTAAAATATTA-AAAA
1 TTAAAA-ATTATAAAA
47975294 TCTAAAAATTATAA
1 T-TAAAAATTATAA
47975308 TATCATCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.24
15 10 0.40
16 9 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAATTATAAAA
Found at i:47979147 original size:23 final size:23
Alignment explanation
Indices: 47979104--47979147 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47979094 TATGAAAAAT
*
47979104 ATTAAAAAAATTAATTTTAAACG
1 ATTAAAAAAATTAATTATAAACG
*
47979127 ATTAATAAATATT-ATTATAAA
1 ATTAA-AAAAATTAATTATAAA
47979148 ATGTTTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAAAAAATTAATTATAAACG
Found at i:47980966 original size:4 final size:4
Alignment explanation
Indices: 47980957--47981001 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
47980947 GGATTTAATT
* * *
47980957 TTTA TTTA TTTA TTTA TTTA TTTA TCTA CTTA TTAA TTTAA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA
47981002 AATTAATCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:47986162 original size:28 final size:28
Alignment explanation
Indices: 47986122--47986248 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
47986112 TGATTTTCGA
*
47986122 CACTAAGTGTGCGAATTTAATTATAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* *
47986150 CACTAAGTGTGCGAGTTTAATTGTAGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
**
47986178 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* **
47986206 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
47986234 CACTAAGTGTGCGAG
1 CACTAAGTGTGCGAG
47986249 CTTATTAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:47987030 original size:24 final size:22
Alignment explanation
Indices: 47986994--47987544 Score: 276
Period size: 23 Copynumber: 23.6 Consensus size: 22
47986984 TGTTATATGT
* * *
47986994 ATGCTGCCCAATTTTGATAAATCA
1 ATGCTGTCAAATTTTG-TATAT-A
47987018 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
47987040 CATGCTGTTAAATTTTGTGTATAA
1 -ATGCTGTCAAATTTTGTATAT-A
*
47987064 ATGCTGTCCAAATTTGTGTATGT-
1 ATGCTGT-CAAATTT-TGTATATA
* *
47987087 ATGCTGCCTAATTTTGGGTGA-ATAA
1 ATGCTGTCAAATTTT--GT-ATAT-A
* *
47987112 ATGCTGTCCAATTTTTTATATA
1 ATGCTGTCAAATTTTGTATATA
* * * *
47987134 CTTGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
47987157 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
47987181 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
*
47987205 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
47987227 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
47987250 AGTGCTGTCCAAATTTGTGTATGT-
1 A-TGCTGT-CAAATTT-TGTATATA
* * *
47987274 ATGCTGCCCAATTTTGGTGA-AGCA
1 ATGCTGTCAAATTTT-GT-ATA-TA
*
47987298 ATGCTGTCAAATTTTGTACATA
1 ATGCTGTCAAATTTTGTATATA
* *
47987320 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
47987343 AGTGCTGTCCAAATTTGTGTATGT-
1 A-TGCTGT-CAAATTT-TGTATATA
* * *
47987367 ATGCTGCCCAATTTTGGTGA-AGCA
1 ATGCTGTCAAATTTT-GT-ATA-TA
*
47987391 ATGCTGTCAAATTTTGTACATA
1 ATGCTGTCAAATTTTGTATATA
* * * *
47987413 CATGCTATTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
47987436 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
47987460 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
47987484 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* * *
47987506 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
47987529 AGTGTTGTCCAAATTT
1 A-TGCTGT-CAAATTT
47987545 GTAATATGTA
Statistics
Matches: 402, Mismatches: 78, Indels: 94
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.01
22 43 0.11
23 218 0.54
24 108 0.27
25 30 0.07
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (22 bp):
ATGCTGTCAAATTTTGTATATA
Found at i:47987547 original size:93 final size:93
Alignment explanation
Indices: 47986987--47987554 Score: 929
Period size: 93 Copynumber: 6.1 Consensus size: 93
47986977 GCCCAATTGT
* *
47986987 TATATGTATGCTGCCCAATTTTGATAAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
*
47987052 TTTTGTGTATAAATGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * * * * *
47987080 TGTATGTATGCTGCCTAATTTTGGGTGAATAAATGCTGTCCAATTTTTTATATACTTGCTGTTAT
1 TATATGTATGCTGCCCAATTTT-GGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAA
47987145 ATTTTGTGTATAAGTGCTGTCCAAATTTG
65 ATTTTGTGTATAAGTGCTGTCCAAATTTG
*
47987174 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
47987239 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * *
47987267 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
47987332 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * * *
47987360 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTATTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
47987425 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
*
47987453 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
*
47987518 TTTTGTGTATAAGTGTTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
47987546 TAATATGTA
1 T-ATATGTA
47987555 GTATAGTTAG
Statistics
Matches: 446, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
93 356 0.80
94 90 0.20
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (93 bp):
TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
TTTTGTGTATAAGTGCTGTCCAAATTTG
Found at i:47989195 original size:20 final size:20
Alignment explanation
Indices: 47989170--47989212 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47989160 TTGAACTGAG
47989170 GCTTCCATGAACACTTGAAT
1 GCTTCCATGAACACTTGAAT
47989190 GCTTCCATGAACACTTGAAT
1 GCTTCCATGAACACTTGAAT
47989210 GCT
1 GCT
47989213 ACTTCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (20 bp):
GCTTCCATGAACACTTGAAT
Found at i:47992897 original size:53 final size:52
Alignment explanation
Indices: 47992812--47992960 Score: 163
Period size: 53 Copynumber: 2.8 Consensus size: 52
47992802 GGCGCTAAAG
* *
47992812 ACCATATCGTGTAAGATGTAACTGGTGAGTTATGACATCATATAGAAAGAAA
1 ACCATATCGTGTAAGACGTAACTGGTGGGTTATGACATCATATAGAAAGAAA
** * * *
47992864 ATGATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCGTATGGAAAGAAT
1 ACCATATCGTGTAAGA-CGTAACTGGTGGGTTATGACATCATATAGAAAGAAA
* * * * * *
47992917 ACCATATTGTATAAGATCATAGCTGGTGGGTTATGGCATTATAT
1 ACCATATCGTGTAAGA-CGTAACTGGTGGGTTATGACATCATAT
47992961 GGAAGAATTT
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
52 14 0.18
53 65 0.82
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (52 bp):
ACCATATCGTGTAAGACGTAACTGGTGGGTTATGACATCATATAGAAAGAAA
Found at i:47995230 original size:34 final size:34
Alignment explanation
Indices: 47995192--47995257 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
47995182 AGTAACAAAC
* *
47995192 AATATGCTCATAACGATTCAATTTAGTAGCAATT
1 AATATGCTCATAACAAATCAATTTAGTAGCAATT
** *
47995226 AATATGCTTGTGACAAATCAATTTAGTAGCAA
1 AATATGCTCATAACAAATCAATTTAGTAGCAA
47995258 AAATCATGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (34 bp):
AATATGCTCATAACAAATCAATTTAGTAGCAATT
Found at i:47996378 original size:31 final size:31
Alignment explanation
Indices: 47996340--47996399 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
47996330 TGGTAAGTTT
47996340 TCACTCCATTTGATATTTATTTTAGAGTGTC
1 TCACTCCATTTGATATTTATTTTAGAGTGTC
47996371 TCACTCCATTTGATATTTATTTTAGAGTG
1 TCACTCCATTTGATATTTATTTTAGAGTG
47996400 ACTTTCATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (31 bp):
TCACTCCATTTGATATTTATTTTAGAGTGTC
Found at i:47997472 original size:27 final size:27
Alignment explanation
Indices: 47997416--47997472 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
47997406 TGTTTACATT
**
47997416 AATTTAAATATATATTTTTAATATTCA
1 AATTTAAATATATATTTTTAATATAAA
* *
47997443 AATTTACATATATGATTTTTATTA-AAA
1 AATTTAAATATAT-ATTTTTAATATAAA
47997470 AAT
1 AAT
47997473 AAATACATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
AATTTAAATATATATTTTTAATATAAA
Found at i:47998178 original size:114 final size:114
Alignment explanation
Indices: 47998054--47998394 Score: 547
Period size: 114 Copynumber: 2.9 Consensus size: 114
47998044 TTTACTAAGT
*
47998054 TAAAATTAGAATAATCTAGAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAATAATTT
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAATAATTT
47998119 TATAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
66 TATAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
47998168 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAATAATTT
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAATAATTT
47998233 TATAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
66 TATAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
* *
47998282 TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAACAACTTTTAATAA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAA-AA-----AAAAA
* * * * *
47998347 GAATTTTATAATATCTAAAAGTTGTTATTATTATTATTTTTTAGAAAA
60 TAATTTTATAAAATCTAAAATTTTTTATTATTAAT-TTTTTTAGAAAA
47998395 ATGGAATTCT
Statistics
Matches: 212, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
114 164 0.77
115 2 0.01
120 34 0.16
121 12 0.06
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (114 bp):
TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAATAATTT
TATAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
Found at i:47999116 original size:50 final size:49
Alignment explanation
Indices: 47999054--47999158 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 49
47999044 TATGGGTAGT
* ** *
47999054 GTTTTAGTGTTTAGGGTTAGGATGTTTGAAAAAATAAATTTGGGTTT-AG
1 GTTTTAGGGTTTAGCATTAGGATGTTTG-AAAAATAAATTAGGGTTTAAG
* *
47999103 AGTTTTAGGGTTTAGCATTAGGGTTTTTGAAAAATAAATTAGGGTTTAAG
1 -GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAATAAATTAGGGTTTAAG
47999153 GTTTTA
1 GTTTTA
47999159 AAAAAATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 23 0.48
50 25 0.52
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.43
Consensus pattern (49 bp):
GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAATAAATTAGGGTTTAAG
Found at i:47999157 original size:49 final size:50
Alignment explanation
Indices: 47999054--47999158 Score: 133
Period size: 49 Copynumber: 2.1 Consensus size: 50
47999044 TATGGGTAGT
* ** *
47999054 GTTTTAGTGTTTAGGGTTAGGATGTTTGAAAAAATAAATTTGGGTTTAGA
1 GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGA
* *
47999104 GTTTTAGGGTTTAGCATTAGGGTTTTTG-AAAAATAAATTAGGGTTTA-A
1 GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGA
47999152 GGTTTTA
1 -GTTTTA
47999159 AAAAAATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.02
49 24 0.50
50 23 0.48
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.43
Consensus pattern (50 bp):
GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGA
Found at i:47999710 original size:251 final size:252
Alignment explanation
Indices: 47999267--47999908 Score: 837
Period size: 251 Copynumber: 2.6 Consensus size: 252
47999257 TAACAAAAGC
* * * **
47999267 ACTGAAAAAAGCTCTCAGCTGGACACTTTTTTTGTATGGTTGTTTCTG-AAAAATAATTTTGAGA
1 ACTGAAAAAAGTTCCCAGCTAGACACTTTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAGA
* * * * * * * *
47999331 AGATGGATATAAAAAAATATGTTGAAAAATGATTCAAGCAAGATGCATTGCCAGCAAAATTACTG
66 AGATGGTTATGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAA-GACTG
* ** * **
47999396 AAAGAAGCT-CTCAGTTGGACGCTCTTTTTGTATGGTTGTTTCTAAAAAAATAATTTTGAGAAGA
130 AAAAAAGCTCCTCAGCAGGACGCTCTTTTTATACAGTTGTTTCTAAAAAAATAATTTTGAGAAGA
* * * * *
47999460 TGGTTTTGAAAAAGTAGGTTGAAAAACGCTTCAAGCAGGATGCACTATCAAAAAAAAT
195 TGGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATCAAAAAAAAT
* *
47999518 ACTGAAAAAAGTTCCCAGCTAGACACTTTTTTTGTACAATTGTTTCTGAAAAAATAATTTTAAGA
1 ACTGAAAAAAGTTCCCAGCTAGACACTTTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAGA
* * * *
47999583 AGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTTAGCAAAAGACTAA
66 AGATGGTTATGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGACTGA
*
47999648 AAAAAGCTCCT-AGCAGGACGCTCTTTTTATACAGTTGTTTCTGAAAAAATAATTTTGAGAAGAT
131 AAAAAGCTCCTCAGCAGGACGCTCTTTTTATACAGTTGTTTCTAAAAAAATAATTTTGAGAAGAT
** *
47999712 GGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATCAGCAAAAGT
196 GGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATCAAAAAAAAT
* * * *
47999769 ACT-AAAAAA-TCTCCCAACTAGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAATTTCGAG
1 ACTGAAAAAAGT-TCCCAGCTAGACACTTTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
* * *
47999832 AAGATGGTTTTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATTG-ACTGTCAGCAGAAGTAC
65 AAGATGGTTATGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGA-TGCACTGTCAGCAAAAG-AC
47999896 TGAAAAAAGCTCC
128 TGAAAAAAGCTCC
47999909 CAACTGGATG
Statistics
Matches: 340, Mismatches: 46, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
249 1 0.00
250 105 0.31
251 168 0.49
252 66 0.19
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (252 bp):
ACTGAAAAAAGTTCCCAGCTAGACACTTTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAGA
AGATGGTTATGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGACTGA
AAAAAGCTCCTCAGCAGGACGCTCTTTTTATACAGTTGTTTCTAAAAAAATAATTTTGAGAAGAT
GGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATCAAAAAAAAT
Found at i:47999925 original size:125 final size:126
Alignment explanation
Indices: 47999260--47999916 Score: 791
Period size: 125 Copynumber: 5.2 Consensus size: 126
47999250 GTACAGTTAA
* * * ** *
47999260 CAAAAGCACTGAAAAAAGCTCTCAGCTGGACACTTTTTTTGTATGGTTGTTTCT-GAAAAATAAT
1 CAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
* * * * * * * * *
47999324 TTTGAGAAGATGGATATAAAAAAATATGTTGAAAAATGATTCAAGCAAGATGCATTGCCAG
66 TTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAG
* * * * * **
47999385 CAAAATTACTGAAAGAAGCTCTCAGTTGGACGCTCTTTTTGTATGGTTGTTTCTAAAAAAATAAT
1 CAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
* * * *
47999450 TTTGAGAAGATGGTTTTGAAAAAGTAGGTTGAAAAACGCTTCAAGCAGGATGCACTATCAA
66 TTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAG
* * * * * * *
47999511 AAAAAATACTGAAAAAAGTTCCCAGCTAGACACTTTTTTTGTACAATTGTTTCTGAAAAAATAAT
1 CAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
* * * *
47999576 TTTAAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTTAG
66 TTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAG
* * * * * *
47999637 CAAAAG-ACTAAAAAAAGCTCCTAGCAGGACGCTCTTTTTATACAGTTGTTTCTGAAAAAATAAT
1 CAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
* * * *
47999701 TTTGAGAAGATGGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATCAG
66 TTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAG
* * *
47999762 CAAAAGTACT-AAAAAATCTCCCAACTAGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
1 CAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
* *
47999826 TTCGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATTG-ACTGTCAG
66 TTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGA-TGCACTGTCAG
* *
47999887 CAGAAGTACTGAAAAAAGCTCCCAACTGGA
1 CAAAAGTACTGAAAAAAGCTCCCAGCTGGA
47999917 TGCTTTTTTT
Statistics
Matches: 452, Mismatches: 76, Indels: 7
0.84 0.14 0.01
Matches are distributed among these distances:
125 263 0.58
126 189 0.42
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (126 bp):
CAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATAAT
TTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAG
Found at i:48006160 original size:15 final size:15
Alignment explanation
Indices: 48006142--48006184 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
48006132 TTTAAATAAC
48006142 GAATTATACAATATT
1 GAATTATACAATATT
48006157 GAATTATACTAAT-TT
1 GAATTATAC-AATATT
48006172 G-ATCTATACAATA
1 GAAT-TATACAATA
48006185 AATTGCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 17 0.68
16 3 0.12
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTATACAATATT
Found at i:48014234 original size:50 final size:50
Alignment explanation
Indices: 48014134--48014381 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
48014124 GATAATAACA
* * ** *
48014134 TGCCAAAGCCAT-TCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
48014184 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
48014234 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
48014284 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
48014339 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
48014382 TTACCCGAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
50 105 0.61
51 22 0.13
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:48014307 original size:100 final size:104
Alignment explanation
Indices: 48014133--48014381 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
48014123 TGATAATAAC
** *
48014133 ATGCCAAAGCCAT-TCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
48014197 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
48014234 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
48014298 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
48014339 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
48014382 TTACCCGAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
100 62 0.47
101 24 0.18
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:48014497 original size:13 final size:13
Alignment explanation
Indices: 48014476--48014507 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
48014466 GCTTGGATCA
*
48014476 TCATCAAATAAAT
1 TCATAAAATAAAT
48014489 TCATAAAATAAAT
1 TCATAAAATAAAT
48014502 TCATAA
1 TCATAA
48014508 TTGATGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:48029156 original size:11 final size:10
Alignment explanation
Indices: 48029125--48029163 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
48029115 GAAAATGATC
*
48029125 AAAATTAATC
1 AAAATTAATT
*
48029135 AAAATTTATT
1 AAAATTAATT
48029145 ATAAATTAATT
1 A-AAATTAATT
48029156 AAAATTAA
1 AAAATTAA
48029164 ACATGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:48029446 original size:37 final size:37
Alignment explanation
Indices: 48029404--48029525 Score: 95
Period size: 37 Copynumber: 3.2 Consensus size: 37
48029394 GAATTTAGTA
*
48029404 TACTTATGCCCAAGAACAAGTAATTTGATATTTATGC
1 TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
*** * * * *
48029441 TACTTAATTATACATATCATTCAAAAAATTATGA-ATTTA-GTA
1 TACTT-A-TGCCCA-A-GA-ACAAGAAATT-TGATATTTATG-C
48029483 TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
1 TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
48029520 TACTTA
1 TACTTA
48029526 ATTATACATA
Statistics
Matches: 61, Mismatches: 15, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
36 3 0.05
37 24 0.39
38 3 0.05
39 4 0.07
40 4 0.07
41 3 0.05
42 17 0.28
43 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (37 bp):
TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
Found at i:48029517 original size:79 final size:79
Alignment explanation
Indices: 48029386--48029544 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
48029376 AATTCTTCCC
*
48029386 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGTAATTTGATATTTATGCTACTTAATTA
1 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
48029451 TACATATCATTCAA
66 TACATATCATTCAA
48029465 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
1 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
48029530 TACATATCATTCAA
66 TACATATCATTCAA
48029544 A
1 A
48029545 TTAATCTCAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.37
Consensus pattern (79 bp):
AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
TACATATCATTCAA
Found at i:48047189 original size:20 final size:20
Alignment explanation
Indices: 48047164--48047312 Score: 115
Period size: 20 Copynumber: 7.5 Consensus size: 20
48047154 TATGTGCCCA
*
48047164 TGTTTGTACTTTAGTACCCC
1 TGTTTGCACTTTAGTACCCC
* * *
48047184 TGTTTGCAC-ATACATGCCCC
1 TGTTTGCACTTTA-GTACCCC
* *
48047204 TGTTTGTACTTCAGTACCCC
1 TGTTTGCACTTTAGTACCCC
* * *
48047224 TGTTTGCAC-ATACGTGCCGC
1 TGTTTGCACTTTA-GTACCCC
* *
48047244 TGTTTGTACTTCAGTACCCC
1 TGTTTGCACTTTAGTACCCC
* * *
48047264 TGTTTGCAC-ATACATGCCCC
1 TGTTTGCACTTTA-GTACCCC
*
48047284 TGTTTGCACTTCAGTACCCC
1 TGTTTGCACTTTAGTACCCC
48047304 TGTTTGCAC
1 TGTTTGCAC
48047313 ATACGTGCCC
Statistics
Matches: 95, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
19 4 0.04
20 88 0.93
21 3 0.03
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTTTGCACTTTAGTACCCC
Found at i:48047323 original size:20 final size:20
Alignment explanation
Indices: 48047180--48047329 Score: 144
Period size: 20 Copynumber: 7.5 Consensus size: 20
48047170 TACTTTAGTA
*
48047180 CCCCTGTTTGCACATACATG
1 CCCCTGTTTGCACATACGTG
* * *
48047200 CCCCTGTTTGTAC-TTCAGTA
1 CCCCTGTTTGCACATAC-GTG
48047220 CCCCTGTTTGCACATACGTG
1 CCCCTGTTTGCACATACGTG
* * * *
48047240 CCGCTGTTTGTAC-TTCAGTA
1 CCCCTGTTTGCACATAC-GTG
*
48047260 CCCCTGTTTGCACATACATG
1 CCCCTGTTTGCACATACGTG
* *
48047280 CCCCTGTTTGCAC-TTCAGTA
1 CCCCTGTTTGCACATAC-GTG
48047300 CCCCTGTTTGCACATACGTG
1 CCCCTGTTTGCACATACGTG
*
48047320 CCCCTATTTG
1 CCCCTGTTTG
48047330 TACTTCGGTA
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
19 6 0.06
20 90 0.88
21 6 0.06
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.34
Consensus pattern (20 bp):
CCCCTGTTTGCACATACGTG
Done.