Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 158 of 175
Found at i:47665787 original size:16 final size:15
Alignment explanation
Indices: 47665760--47665798 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
47665750 TAATTCCATA
47665760 TTAAAACATATAAAT
1 TTAAAACATATAAAT
*
47665775 TTAAAATCATATATAT
1 TTAAAA-CATATAAAT
47665791 TTGAAAAC
1 TT-AAAAC
47665799 TTTTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (15 bp):
TTAAAACATATAAAT
Found at i:47667075 original size:33 final size:33
Alignment explanation
Indices: 47667033--47667098 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47667023 CTTAACGCAC
47667033 GCCGCCTTTATAGTAACCTACCAAACAGTCAAA
1 GCCGCCTTTATAGTAACCTACCAAACAGTCAAA
47667066 GCCGCCTTTATAGTAACCTACCAAACAGTCAAA
1 GCCGCCTTTATAGTAACCTACCAAACAGTCAAA
47667099 AATACATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.21
Consensus pattern (33 bp):
GCCGCCTTTATAGTAACCTACCAAACAGTCAAA
Found at i:47668003 original size:17 final size:18
Alignment explanation
Indices: 47667969--47668014 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
47667959 CCGTTATGTC
47667969 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
47667984 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
47668001 CGCGACCGCGACCG
1 CGCGACCGCGACCG
47668015 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:47686632 original size:18 final size:17
Alignment explanation
Indices: 47686608--47686654 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
47686598 GAACTTGATC
47686608 TATATTTTAAATAAACT
1 TATATTTTAAATAAACT
**
47686625 TAATATTTTTATCTAAACT
1 T-ATA-TTTTAAATAAACT
47686644 TAT-TTTTAAAT
1 TATATTTTAAAT
47686655 TTAATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
16 6 0.25
17 1 0.04
18 5 0.21
19 12 0.50
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTTAAATAAACT
Found at i:47689581 original size:45 final size:45
Alignment explanation
Indices: 47689513--47689953 Score: 765
Period size: 45 Copynumber: 9.8 Consensus size: 45
47689503 AAGAGGTGGA
** * * * *
47689513 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
47689558 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
47689603 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
* *
47689648 CAACATCATGCGTAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
47689693 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
47689738 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
47689783 CAACATCATGCGTAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
47689828 CAACATCATGCGTAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
47689873 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
47689918 CAACATCATGCATAATTCATGGAAGAATTTAAGGAA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAA
47689954 AGAAGCCAAA
Statistics
Matches: 380, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 380 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
Found at i:47690026 original size:45 final size:45
Alignment explanation
Indices: 47689975--47690283 Score: 510
Period size: 45 Copynumber: 6.9 Consensus size: 45
47689965 TCGGCCATGG
* * * * *
47689975 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
47690020 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
47690065 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
47690110 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
47690155 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
47690200 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
47690245 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
47690284 TCCACCTCTT
Statistics
Matches: 250, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 250 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:47690418 original size:16 final size:16
Alignment explanation
Indices: 47690397--47690428 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47690387 CATTCTGCAT
47690397 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
47690413 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
47690429 AAACACATTA
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:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:47691053 original size:17 final size:17
Alignment explanation
Indices: 47691031--47691083 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
47691021 CAATCACTTT
47691031 TTTTTTTTAATTCCGAA
1 TTTTTTTTAATTCCGAA
* ***
47691048 TTTTTTTTGAATTTCTCT
1 TTTTTTTT-AATTCCGAA
*
47691066 TTTTTTTTAATACCGAA
1 TTTTTTTTAATTCCGAA
47691083 T
1 T
47691084 ACAAAAGAAG
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTTTTTTAATTCCGAA
Found at i:47691053 original size:18 final size:18
Alignment explanation
Indices: 47691030--47691083 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
47691020 TCAATCACTT
47691030 TTTTTTTTTAATTCCGAA
1 TTTTTTTTTAATTCCGAA
* * **
47691048 TTTTTTTTGAATTTC-TC
1 TTTTTTTTTAATTCCGAA
*
47691065 TTTTTTTTTAATACCGAA
1 TTTTTTTTTAATTCCGAA
47691083 T
1 T
47691084 ACAAAAGAAG
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTTTTTTAATTCCGAA
Found at i:47691321 original size:66 final size:68
Alignment explanation
Indices: 47691214--47691358 Score: 249
Period size: 66 Copynumber: 2.1 Consensus size: 68
47691204 CCAGACTCTT
*
47691214 TTTTTTTTATACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGG-TAAA-TTTTTTT
1 TTTTTTTT-TACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTT
47691277 TTGA
65 TTGA
47691281 TTTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTT
1 TTTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAA-TTTTTTTT
47691346 TTGA
65 TTGA
47691350 TTTTTTTTT
1 TTTTTTTTT
47691359 TTACAAAACC
Statistics
Matches: 74, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
66 43 0.58
67 11 0.15
69 20 0.27
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (68 bp):
TTTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTT
TGA
Found at i:47691354 original size:13 final size:13
Alignment explanation
Indices: 47691336--47691360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47691326 CGTAGGCAAA
47691336 ATTTTTTTTTTTG
1 ATTTTTTTTTTTG
47691349 ATTTTTTTTTTT
1 ATTTTTTTTTTT
47691361 ACAAAACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
ATTTTTTTTTTTG
Found at i:47696507 original size:21 final size:21
Alignment explanation
Indices: 47696483--47696530 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
47696473 TGAGCTTCTA
47696483 TTTAACTCATATGAGTTTCCG
1 TTTAACTCATATGAGTTTCCG
* * * **
47696504 TTTAGCTCTTTTGAGTTTTTG
1 TTTAACTCATATGAGTTTCCG
47696525 TTTAAC
1 TTTAAC
47696531 CCTTATGGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (21 bp):
TTTAACTCATATGAGTTTCCG
Found at i:47696553 original size:42 final size:41
Alignment explanation
Indices: 47696456--47696595 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 41
47696446 CATGTTTTAC
* * * * *
47696456 TTTTCGTTCAGCTCTTTTGAGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTTTTGAG-TTTTTTTTAACCCTTATGGG
* *
47696498 TTTCCGTTTAGCTCTTTTGAGTTTTTGTTTAACCCTTATGGG
1 TTTTCGTTCAGCTCTTTTGAGTTTTT-TTTAACCCTTATGGG
* ** * *
47696540 TTTTTGTTCAGCTCTTACGAGCTTCTTTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTTTTGAG-TTTTTTTTAACCCTTATGGG
47696582 TTTTCGTTCAGCTC
1 TTTTCGTTCAGCTC
47696596 GTACGAGCTT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.04
42 74 0.91
43 4 0.05
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.49
Consensus pattern (41 bp):
TTTTCGTTCAGCTCTTTTGAGTTTTTTTTAACCCTTATGGG
Found at i:47696556 original size:21 final size:21
Alignment explanation
Indices: 47696507--47696595 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
47696497 GTTTCCGTTT
* * *
47696507 AGCTCTTTTGAGTTTTTGTTT
1 AGCTCTTATGGGTTTTTGTTC
* *
47696528 AACCCTTATGGGTTTTTGTTC
1 AGCTCTTATGGGTTTTTGTTC
* * *
47696549 AGCTCTTACGAGCTTCTT-TTC
1 AGCTCTTATG-GGTTTTTGTTC
* * *
47696570 AACCCTTATGGGTTTTCGTTC
1 AGCTCTTATGGGTTTTTGTTC
47696591 AGCTC
1 AGCTC
47696596 GTACGAGCTT
Statistics
Matches: 48, Mismatches: 18, Indels: 4
0.69 0.26 0.06
Matches are distributed among these distances:
20 4 0.08
21 39 0.81
22 5 0.10
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (21 bp):
AGCTCTTATGGGTTTTTGTTC
Found at i:47696595 original size:84 final size:84
Alignment explanation
Indices: 47696456--47696654 Score: 202
Period size: 84 Copynumber: 2.4 Consensus size: 84
47696446 CATGTTTTAC
* * * * * ** *
47696456 TTTTCGTTCAGCTCTTTTGAGCTTCTATTT-AACTCATATGAGTTTCCGTTTAGCTCTTTTGAGT
1 TTTTTGTTCAGCTCTTATGAGCTTCT-TTTCAACCCATATGAGTTTCCGTTCAGCTCGTACGAGC
* * *
47696520 TTTTGTTTAACCCTTATGGG
65 TTCTGTTAAACCCTTATAGG
* * * *
47696540 TTTTTGTTCAGCTCTTACGAGCTTCTTTTCAACCCTTATGGGTTTTCGTTCAGCTCGTACGAGCT
1 TTTTTGTTCAGCTCTTATGAGCTTCTTTTCAACCCATATGAGTTTCCGTTCAGCTCGTACGAGCT
47696605 TCTGTTAAACCCTTATAGG
66 TCTGTTAAACCCTTATAGG
* * * * *
47696624 TTTCTATTTAGCTCTCATGAGCTTCTGTTCA
1 TTTTTGTTCAGCTCTTATGAGCTTCTTTTCA
47696655 GCTTTCGAGC
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 3 0.03
84 90 0.97
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (84 bp):
TTTTTGTTCAGCTCTTATGAGCTTCTTTTCAACCCATATGAGTTTCCGTTCAGCTCGTACGAGCT
TCTGTTAAACCCTTATAGG
Found at i:47696601 original size:42 final size:42
Alignment explanation
Indices: 47696523--47696626 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
47696513 TTTGAGTTTT
* * *
47696523 TGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGCTTC
1 TGTTAAACCCTTATGGGTTTTCGTTCAGCTCGTACGAGCTTC
* *
47696565 TTTTCAACCCTTATGGGTTTTCGTTCAGCTCGTACGAGCTTC
1 TGTTAAACCCTTATGGGTTTTCGTTCAGCTCGTACGAGCTTC
*
47696607 TGTTAAACCCTTATAGGTTT
1 TGTTAAACCCTTATGGGTTT
47696627 CTATTTAGCT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TGTTAAACCCTTATGGGTTTTCGTTCAGCTCGTACGAGCTTC
Found at i:47696637 original size:42 final size:40
Alignment explanation
Indices: 47696523--47696652 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 40
47696513 TTTGAGTTTT
*
47696523 TGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGCTTC
1 TGTTAAACCCTTATGGG-TTTTGTTCAGCTC-TACGAGCTTC
* *
47696565 TTTTCAACCCTTATGGGTTTTCGTTCAGCTCGTACGAGCTTC
1 TGTTAAACCCTTATGGGTTTT-GTTCAGCTC-TACGAGCTTC
* * * *
47696607 TGTTAAACCCTTATAGGTTTCTATTTAGCTCTCATGAGCTTC
1 TGTTAAACCCTTATGGGTTT-TGTTCAGCTCT-ACGAGCTTC
47696649 TGTT
1 TGTT
47696653 CAGCTTTCGA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
41 5 0.07
42 70 0.92
43 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (40 bp):
TGTTAAACCCTTATGGGTTTTGTTCAGCTCTACGAGCTTC
Found at i:47696774 original size:30 final size:30
Alignment explanation
Indices: 47696738--47696841 Score: 97
Period size: 30 Copynumber: 3.4 Consensus size: 30
47696728 CTTGAATGAT
47696738 ATATGTATATGAAGAAATGGTAAGAGAATG
1 ATATGTATATGAAGAAATGGTAAGAGAATG
* * ***
47696768 ATATGTAT-T-ATGATATGCTGT-CTTGAATG
1 ATATGTATATGAAGAAATG--GTAAGAGAATG
47696797 ATATATGTATATGAAGAAATGGTAAGAGAATG
1 --ATATGTATATGAAGAAATGGTAAGAGAATG
47696829 ATATGTATTATGA
1 ATATGTA-TATGA
47696842 TATGTATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
28 6 0.11
29 6 0.11
30 17 0.30
31 15 0.27
32 6 0.11
33 6 0.11
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (30 bp):
ATATGTATATGAAGAAATGGTAAGAGAATG
Found at i:47696798 original size:61 final size:61
Alignment explanation
Indices: 47696723--47696845 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
47696713 AATATCGGGA
47696723 GCTGTCTTGAATGATATATGTATATGAAGAAATGGTAAGAGAATGATATGTATTATGATAT
1 GCTGTCTTGAATGATATATGTATATGAAGAAATGGTAAGAGAATGATATGTATTATGATAT
47696784 GCTGTCTTGAATGATATATGTATATGAAGAAATGGTAAGAGAATGATATGTATTATGATAT
1 GCTGTCTTGAATGATATATGTATATGAAGAAATGGTAAGAGAATGATATGTATTATGATAT
47696845 G
1 G
47696846 TATATATATC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (61 bp):
GCTGTCTTGAATGATATATGTATATGAAGAAATGGTAAGAGAATGATATGTATTATGATAT
Found at i:47696831 original size:32 final size:32
Alignment explanation
Indices: 47696731--47696832 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
47696721 GAGCTGTCTT
47696731 GAATGATATATGTATATGAAGAAATGGTAAGA
1 GAATGATATATGTATATGAAGAAATGGTAAGA
* * ***
47696763 GAATG--ATATGTAT-T-ATGATATGCTGT-CTT
1 GAATGATATATGTATATGAAGAAATG--GTAAGA
47696792 GAATGATATATGTATATGAAGAAATGGTAAGA
1 GAATGATATATGTATATGAAGAAATGGTAAGA
47696824 GAATGATAT
1 GAATGATAT
47696833 GTATTATGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
28 6 0.11
29 6 0.11
30 10 0.19
31 10 0.19
32 15 0.28
33 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (32 bp):
GAATGATATATGTATATGAAGAAATGGTAAGA
Found at i:47698740 original size:23 final size:22
Alignment explanation
Indices: 47698703--47698746 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47698693 ACAAATTGAT
47698703 GAATTTTTAACAAAAAGACTAA
1 GAATTTTTAACAAAAAGACTAA
47698725 GAATTTTTAACAAAAAGACTAA
1 GAATTTTTAACAAAAAGACTAA
47698747 CTTACTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (22 bp):
GAATTTTTAACAAAAAGACTAA
Found at i:47699180 original size:30 final size:31
Alignment explanation
Indices: 47699115--47699172 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
47699105 TACCAAGTGT
47699115 TATTAATTTGATAATAATAATTATTAAATTA
1 TATTAATTTGATAATAATAATTATTAAATTA
*
47699146 -ATTAATTT-A-AATAATATTTA-TAAATTA
1 TATTAATTTGATAATAATAATTATTAAATTA
47699173 CATATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.27
28 10 0.38
29 1 0.04
30 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
TATTAATTTGATAATAATAATTATTAAATTA
Found at i:47702887 original size:39 final size:40
Alignment explanation
Indices: 47702844--47702948 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
47702834 TTCCATTATG
47702844 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
47702883 CTATTATACCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
47702928 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
47702949 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:47702942 original size:45 final size:44
Alignment explanation
Indices: 47702842--47702951 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
47702832 TTTTCCATTA
47702842 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
47702881 TACTATTATACCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
47702926 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
47702952 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:47702981 original size:16 final size:16
Alignment explanation
Indices: 47702932--47702983 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
47702922 GATTTGCTAT
* *
47702932 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
47702948 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47702964 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
47702980 TACA
1 TACA
47702984 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47707591 original size:34 final size:33
Alignment explanation
Indices: 47707550--47707628 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 33
47707540 AGGTAAAAAG
47707550 TTATATTTATATATTTATTTTAACATAAATAAT
1 TTATATTTATATATTTATTTTAACATAAATAAT
* * * *
47707583 TATATATTTATCTGTTTATTTTAATATAACTAAT
1 T-TATATTTATATATTTATTTTAACATAAATAAT
47707617 TT-TATTTATATA
1 TTATATTTATATA
47707629 AACTAATACT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 8 0.21
33 2 0.05
34 29 0.74
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (33 bp):
TTATATTTATATATTTATTTTAACATAAATAAT
Found at i:47707620 original size:20 final size:19
Alignment explanation
Indices: 47707597--47707635 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
47707587 TATTTATCTG
47707597 TTTATTT-TAATATAACTAAT
1 TTTATTTAT-ATA-AACTAAT
47707617 TTTATTTATATAAACTAAT
1 TTTATTTATATAAACTAAT
47707636 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 10 0.56
21 1 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTTATATAAACTAAT
Found at i:47707632 original size:19 final size:20
Alignment explanation
Indices: 47707597--47707635 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
47707587 TATTTATCTG
47707597 TTTATTTTAATATAACTAAT
1 TTTATTTTAATATAACTAAT
47707617 TTTA-TTT-ATATAAACTAAT
1 TTTATTTTAATAT-AACTAAT
47707636 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTTTAATATAACTAAT
Found at i:47708603 original size:42 final size:43
Alignment explanation
Indices: 47708543--47708627 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
47708533 GCAGCATTTA
47708543 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
47708586 CAAAAA-AAATGCCGCTAAAGATTATGTTCTTTAGCGGCGCTT
1 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
47708628 GTTTGCGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 34 0.85
43 6 0.15
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:47708809 original size:42 final size:42
Alignment explanation
Indices: 47708705--47708879 Score: 192
Period size: 42 Copynumber: 4.1 Consensus size: 42
47708695 TTACAAAAAT
* *
47708705 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTGTGA-AAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-T-ATAAA
* * *
47708748 AGACGCCGCTGAAGATCATGTTCTTTAACGACGCTTTATAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
* * * *
47708790 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
*
47708832 AAACGCCACTAAAGATCATGTTTTCTTTAGC-AGCGCTTTTATAAA
1 AAACGCCGCTAAAGATCATG--TTCTTTAGCGA-CGC-TTTATAAA
47708877 AAA
1 AAA
47708880 TGCCACTATT
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 58 0.53
43 31 0.28
44 11 0.10
45 9 0.08
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
Found at i:47709216 original size:21 final size:21
Alignment explanation
Indices: 47709190--47709257 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
47709180 TTCTGCTTTG
* *
47709190 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTCGC
*
47709211 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGTCGC
*
47709232 CGCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
47709253 CTCTG
1 CTCTG
47709258 TTTTAAGTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.46, G:0.21, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:47714686 original size:9 final size:9
Alignment explanation
Indices: 47714672--47714899 Score: 204
Period size: 9 Copynumber: 25.9 Consensus size: 9
47714662 TTTTTATGTA
47714672 TTATGTAAG
1 TTATGTAAG
47714681 TTATGTACTAAG
1 TTATG---TAAG
47714693 TTATGT-A-
1 TTATGTAAG
47714700 TTATGTAAG
1 TTATGTAAG
47714709 TTATGTAAG
1 TTATGTAAG
*
47714718 TTGTGT-A-
1 TTATGTAAG
*
47714725 TTATGTGAG
1 TTATGTAAG
47714734 TTATGTAAG
1 TTATGTAAG
* *
47714743 TTATGGAAT
1 TTATGTAAG
* * *
47714752 TTGTTTAAT
1 TTATGTAAG
47714761 TTATGTAAG
1 TTATGTAAG
47714770 TTATGTAAG
1 TTATGTAAG
*
47714779 TTATGTAGG
1 TTATGTAAG
*
47714788 CTATGT-A-
1 TTATGTAAG
* *
47714795 TTATCTAAA
1 TTATGTAAG
*
47714804 TAATGTAAG
1 TTATGTAAG
*
47714813 TTA-GGAAGG
1 TTATGTAA-G
47714822 TTATGT-A-
1 TTATGTAAG
47714829 TTATGTAAG
1 TTATGTAAG
*
47714838 TTATTTAAG
1 TTATGTAAG
47714847 TTATGTAAG
1 TTATGTAAG
* *
47714856 TTATTTAAT
1 TTATGTAAG
47714865 TTATGTAAG
1 TTATGTAAG
*
47714874 TTATGTAAT
1 TTATGTAAG
47714883 TTATGTAAG
1 TTATGTAAG
47714892 TTATGTAA
1 TTATGTAA
47714900 TTAGAAATTT
Statistics
Matches: 176, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
7 21 0.12
8 9 0.05
9 136 0.77
10 1 0.01
12 9 0.05
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:47714698 original size:28 final size:27
Alignment explanation
Indices: 47714665--47714898 Score: 140
Period size: 25 Copynumber: 8.9 Consensus size: 27
47714655 TGATATATTT
47714665 TTATGTATTATGTAAGTTATGTACTAAG
1 TTATGTATTATGTAAGTTATGTA-TAAG
47714693 TTATGTATTATGTAAGTTATG--TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
47714718 TTGTGTATTATGTGAGTTATG--TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
47714743 TTATGGAATT-TGTTTAATTTATG--TAAG
1 TTAT-GTATTATG--TAAGTTATGTATAAG
* * *
47714770 TTATGTAAGTTATGTAGGCTATGTATTA-
1 TTATGT-A-TTATGTAAGTTATGTATAAG
* * * *
47714798 TCTA--AATAATGTAAGTTA-GGA-AGG
1 T-TATGTATTATGTAAGTTATGTATAAG
47714822 TTATGTATTATGTAAGTTAT-T-TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
47714847 TTATGTAAGTTATTTAATTTATG--TAAG
1 TTATGT-A-TTATGTAAGTTATGTATAAG
47714874 TTATGTAATTTATGTAAGTTATGTA
1 TTATGT-A-TTATGTAAGTTATGTA
47714899 ATTAGAAATT
Statistics
Matches: 160, Mismatches: 27, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
23 2 0.01
24 3 0.02
25 61 0.38
26 7 0.04
27 57 0.36
28 24 0.15
29 6 0.04
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (27 bp):
TTATGTATTATGTAAGTTATGTATAAG
Found at i:47714830 original size:104 final size:104
Alignment explanation
Indices: 47714702--47714898 Score: 288
Period size: 104 Copynumber: 1.9 Consensus size: 104
47714692 GTTATGTATT
* * * * *
47714702 ATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAATTTGTTTAATTTATGT
1 ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
*
47714767 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
66 AAGTTATGTAAGTTATGTAAGCTATGTATTATCTAAATA
* *
47714806 ATGTAAGTTA-GGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATG
1 ATGTAAGTTATGGAA-GTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATG
* *
47714870 TAAGTTATGTAATTTATGTAAGTTATGTA
65 TAAGTTATGTAAGTTATGTAAGCTATGTA
47714899 ATTAGAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 3 0.04
104 79 0.96
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (104 bp):
ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
AAGTTATGTAAGTTATGTAAGCTATGTATTATCTAAATA
Found at i:47714979 original size:57 final size:57
Alignment explanation
Indices: 47714911--47715085 Score: 287
Period size: 57 Copynumber: 3.1 Consensus size: 57
47714901 TAGAAATTTT
* **
47714911 ATCTTAATATTAAACGAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
* *
47714968 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
* *
47715025 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTT
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
47715082 ATCT
1 ATCT
47715086 AAAATGAGAA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 109 1.00
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (57 bp):
ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
Found at i:47715059 original size:151 final size:151
Alignment explanation
Indices: 47714879--47715224 Score: 380
Period size: 151 Copynumber: 2.3 Consensus size: 151
47714869 GTAAGTTATG
* * * *
47714879 TAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTAAACGAGTTATGT-AATTCA-
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTAAACAAGTTATCTAAAATCAG
* * ** * * *
47714941 AAATTTTATCT-TAATATTATATAAGTA-ATCTTAATATTATATAAGTTATGTAATTCGAAATTT
66 AAA-TTGATCTGT-A-ATTACA-AAGTAGAAATTAATATTAAACAAGTTATGTAATTAGAAATTT
47715004 GATCTTAATATTATATAAGTAATCT
127 GATCTTAATATTATATAAGTAATCT
** * *
47715029 TAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTGTATAAGTTATCTAAAATGA
1 TAATATTATATAAGTTATGTAATT-AGAAATTTTATCTTAATATTAAACAAGTTATCTAAAATCA
* * * * *
47715093 GAAATTGATGTGTACTTACAAATTAGAAATTAATATTAAACGAGTTATGTAATTAGAAATTTTAT
65 GAAATTGATCTGTAATTACAAAGTAGAAATTAATATTAAACAAGTTATGTAATTAGAAATTTGAT
*
47715158 CTTAATATTATATAAGTTATCT
130 CTTAATATTATATAAGTAATCT
* ** *
47715180 TAATATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTA
47715225 TATAAGTAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
150 9 0.06
151 139 0.85
152 11 0.07
153 4 0.02
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (151 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTAAACAAGTTATCTAAAATCAG
AAATTGATCTGTAATTACAAAGTAGAAATTAATATTAAACAAGTTATGTAATTAGAAATTTGATC
TTAATATTATATAAGTAATCT
Found at i:47715066 original size:94 final size:94
Alignment explanation
Indices: 47714968--47715179 Score: 227
Period size: 94 Copynumber: 2.3 Consensus size: 94
47714958 TATATAAGTA
* * * * **
47714968 ATCTTAATATTATATAAGTTATGT-AATTCGA-AATTTGATCT-TAATATTATATAAGTA-ATCT
1 ATCTTAATATTATATAAGTTATCTAAAAT-GAGAAATTGATCTGT-A-ATTACA-AAGTAGAAAT
* *
47715029 TAATATTATATAAGTTATGTAATTCA-AAATTTT
62 TAATATTAAACAAGTTATGTAATT-AGAAATTTT
* * * *
47715062 ATCTTAATATTGTATAAGTTATCTAAAATGAGAAATTGATGTGTACTTACAAATTAGAAATTAAT
1 ATCTTAATATTATATAAGTTATCTAAAATGAGAAATTGATCTGTAATTACAAAGTAGAAATTAAT
*
47715127 ATTAAACGAGTTATGTAATTAGAAATTTT
66 ATTAAACAAGTTATGTAATTAGAAATTTT
47715156 ATCTTAATATTATATAAGTTATCT
1 ATCTTAATATTATATAAGTTATCT
47715180 TAATATTAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
93 5 0.05
94 81 0.82
95 12 0.12
96 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (94 bp):
ATCTTAATATTATATAAGTTATCTAAAATGAGAAATTGATCTGTAATTACAAAGTAGAAATTAAT
ATTAAACAAGTTATGTAATTAGAAATTTT
Found at i:47715085 original size:20 final size:20
Alignment explanation
Indices: 47714946--47715085 Score: 116
Period size: 20 Copynumber: 7.3 Consensus size: 20
47714936 ATTCAAAATT
47714946 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
47714966 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* ** *
47714986 TTAT-GT-A-ATTCGA-AAT
1 TTATCTTAATATTATATAAG
47715002 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
*
47715023 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
47715043 TTAT-GTAAT-TCA-A-AATT
1 TTATCTTAATATTATATAA-G
*
47715060 TTATCTTAATATTGTATAAG
1 TTATCTTAATATTATATAAG
47715080 TTATCT
1 TTATCT
47715086 AAAATGAGAA
Statistics
Matches: 91, Mismatches: 19, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
16 6 0.07
17 11 0.12
18 8 0.09
19 7 0.08
20 54 0.59
21 5 0.05
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:47715116 original size:114 final size:114
Alignment explanation
Indices: 47714911--47715130 Score: 268
Period size: 114 Copynumber: 1.9 Consensus size: 114
47714901 TAGAAATTTT
* *
47714911 ATCTTAATATTAAACGAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
* * * **
47714976 ATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
66 ATGAGATAAGTTATGTAATTCGAAATTAGAAATTAATATTATATAAGTA
* * * *
47715025 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC-TAAA
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
*
47715089 ATGAGA-AA-TTGATGTGTACTTAC-AAATTAGAAATTAATATTA
66 ATGAGATAAGTT-A--TGTAATT-CGAAATTAGAAATTAATATTA
47715131 AACGAGTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
111 2 0.02
112 3 0.03
113 7 0.08
114 77 0.86
115 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.44
Consensus pattern (114 bp):
ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
ATGAGATAAGTTATGTAATTCGAAATTAGAAATTAATATTATATAAGTA
Found at i:47715133 original size:208 final size:208
Alignment explanation
Indices: 47714914--47715499 Score: 1059
Period size: 208 Copynumber: 2.8 Consensus size: 208
47714904 AAATTTTATC
*
47714914 TTAATATTAAACGAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTAATCTTAATAT
1 TTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTTATCTTAATAT
* ** *
47714978 TATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAG
65 TAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAG
*
47715043 TTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAATG-AGAAATTGATGTGTA
130 TTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAA-GAAGAAATTGATGTGTA
47715107 CTTACAAATTAGAAA
194 CTTACAAATTAGAAA
47715122 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
*
47715187 AAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATATGT
66 AAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
47715252 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAAGAAGAAATTGATGTGTACT
131 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAAGAAGAAATTGATGTGTACT
47715317 TACAAATTAGAAA
196 TACAAATTAGAAA
47715330 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
47715395 AAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
66 AAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
* *
47715460 TATGTAATTCGATATTTTATCTTAATATTATATAAGTTAT
131 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTAT
47715500 GTAATAATAT
Statistics
Matches: 366, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
207 2 0.01
208 364 0.99
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (208 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
AAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAAGAAGAAATTGATGTGTACT
TACAAATTAGAAA
Found at i:47715177 original size:20 final size:20
Alignment explanation
Indices: 47715154--47715254 Score: 93
Period size: 20 Copynumber: 5.2 Consensus size: 20
47715144 ATTAGAAATT
47715154 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
47715174 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
47715194 TTAT-GT-A-ATTAGA-AAT
1 TTATCTTAATATTATATAAG
47715210 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
* *
47715231 TAATCTTAATATTATATATG
1 TTATCTTAATATTATATAAG
47715251 TTAT
1 TTAT
47715255 GTAATTCGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
16 3 0.05
17 7 0.11
18 2 0.03
19 2 0.03
20 46 0.73
21 3 0.05
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:47715183 original size:57 final size:57
Alignment explanation
Indices: 47715122--47715293 Score: 274
Period size: 57 Copynumber: 3.0 Consensus size: 57
47715112 AAATTAGAAA
47715122 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* *
47715179 TTAATATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * *
47715236 TTAATATTATA-TATGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATC
1 TTAATATTAAACGA-GTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
47715293 T
1 T
47715294 AAAAGAAGAA
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 1 0.01
57 105 0.99
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (57 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
Found at i:47715210 original size:94 final size:94
Alignment explanation
Indices: 47715041--47715224 Score: 219
Period size: 94 Copynumber: 2.0 Consensus size: 94
47715031 ATATTATATA
* ** *
47715041 AGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAATGAGAAATTGATGTGT
1 AGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATCTAAAATGAGAAAGAGATATGT
*
47715106 ACTTACAAATTAGAAATTAATATTAAACG
66 AATTACAAATTAGAAATTAATATTAAACG
* * * *
47715135 AGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTA-AACGAGTTAT
1 AGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTTATC-TAAAATGAGAAAGAGATAT
* * **
47715198 GTAATTAGAAATTTGATCTTAATATTA
64 GTAATTACAAATTAGAAATTAATATTA
47715225 TATAAGTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 1 0.01
94 68 0.91
95 6 0.08
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.42
Consensus pattern (94 bp):
AGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATCTAAAATGAGAAAGAGATATGT
AATTACAAATTAGAAATTAATATTAAACG
Found at i:47715267 original size:151 final size:151
Alignment explanation
Indices: 47714968--47715432 Score: 453
Period size: 151 Copynumber: 3.1 Consensus size: 151
47714958 TATATAAGTA
* * * *
47714968 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTTATCTTAAT
* ** * * *
47715033 ATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTGTATAAGTTATC-TAAAATGAGAA
66 ATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTA-AA
* * * * *
47715096 ATTGATGTGTACTTAC-AAATTAG
129 AATGTTATGTAATT-CGAAATTTG
** * *
47715119 AAATTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAT
1 ATCTTAATATTAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTTATCTTAAT
* * * *
47715184 ATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATA
66 ATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAAA
*
47715249 TGTTATGTAATTCGAAATTTT
131 TGTTATGTAATTCGAAATTTG
** * * * * * * * **
47715270 ATCTTAATATTGTATAAGTTATCTAA-AAGAAGAAATTGATGTGT-A-CTTACA-AA-TTAGAAA
1 ATCTTAATATTAAACAAGTTATGTAATTAG-A-AATTTGATCT-TAATATTATATAAGTT--ATC
47715330 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
61 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
* *
47715395 AAACGA-GTTATGTAATTAGAAATTTG
126 AAA-AATGTTATGTAATTCGAAATTTG
47715421 ATCTTAATATTA
1 ATCTTAATATTA
47715433 TATAAGTAAT
Statistics
Matches: 259, Mismatches: 46, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
149 2 0.01
150 6 0.02
151 235 0.91
152 15 0.06
153 1 0.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.43
Consensus pattern (151 bp):
ATCTTAATATTAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTTATCTTAAT
ATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAAA
TGTTATGTAATTCGAAATTTG
Found at i:47715385 original size:20 final size:20
Alignment explanation
Indices: 47715362--47715555 Score: 135
Period size: 20 Copynumber: 10.2 Consensus size: 20
47715352 ATTAGAAATT
47715362 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
47715382 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
47715402 TTAT-GT-A-ATTAGA-AAT
1 TTATCTTAATATTATATAAG
47715418 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
*
47715439 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
47715459 TTAT-GTAAT-TCGATAT--T
1 TTATCTTAATAT-TATATAAG
47715476 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* *
47715496 TTAT-GTAATAATATATAAG
1 TTATCTTAATATTATATAAG
* * *
47715515 TTAT-AT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
47715532 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
47715552 TTAT
1 TTAT
47715556 GAAGTGTCCT
Statistics
Matches: 132, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
16 5 0.04
17 19 0.14
18 13 0.10
19 30 0.23
20 60 0.45
21 5 0.04
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:47715391 original size:57 final size:57
Alignment explanation
Indices: 47715330--47715555 Score: 328
Period size: 57 Copynumber: 4.0 Consensus size: 57
47715320 AAATTAGAAA
*
47715330 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * *
47715387 TTAATATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * *
47715444 TTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTAT-
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * * *
47715500 GTAATAATATATAAGTTATATAATTAGAAATTTTATCTTAATATTATATAAGTTAT
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
47715556 GAAGTGTCCT
Statistics
Matches: 155, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 51 0.33
57 104 0.67
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (57 bp):
TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
Found at i:47715428 original size:94 final size:94
Alignment explanation
Indices: 47715233--47715432 Score: 217
Period size: 94 Copynumber: 2.1 Consensus size: 94
47715223 TATATAAGTA
* * * *
47715233 ATCTTAATATTATATATGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAA
1 ATCTTAATATTAAAGATGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTAAAA
* * *
47715298 GAAGAAATTGATGTGTACTTACAAATTAG
66 GAAGAAATCGATATGTAATTACAAATTAG
** *
47715327 AAATTAATATTAAACGA-GTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCT-TA
1 ATCTTAATATTAAA-GATGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTAAA
* ** * *
47715390 ATATTAAA-CGAGTTATGTAATTAGAAATTTG
65 AGAAGAAATCGA--TATGTAATTACAAATTAG
47715421 ATCTTAATATTA
1 ATCTTAATATTA
47715433 TATAAGTAAT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
92 2 0.02
93 6 0.07
94 77 0.90
95 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (94 bp):
ATCTTAATATTAAAGATGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTAAAA
GAAGAAATCGATATGTAATTACAAATTAG
Found at i:47718682 original size:22 final size:23
Alignment explanation
Indices: 47718654--47718698 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47718644 GGGAGAATGA
47718654 GTTTT-GGGGATAACTGATGGAG
1 GTTTTGGGGGATAACTGATGGAG
47718676 GTTTTGGGGGATAACTGATGGAG
1 GTTTTGGGGGATAACTGATGGAG
47718699 AAATATCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.22, C:0.04, G:0.42, T:0.31
Consensus pattern (23 bp):
GTTTTGGGGGATAACTGATGGAG
Found at i:47719100 original size:147 final size:146
Alignment explanation
Indices: 47718772--47719241 Score: 444
Period size: 147 Copynumber: 3.2 Consensus size: 146
47718762 AAATTAACCA
* * * * *
47718772 TTTGTGGCGTTTATAAAT-AAGCGCCACTAACTATAAGTCGAAACGCAGTCGTTTCATTAACAAA
1 TTTGCGGCGTTT-TAAGTAAAGCGCCACTAACTATAAATC-AAACGCAGTCGTTTCATCAACAAT
* * * * * ** *
47718836 TAGCTCACACCTGTGGCATTTTTAAATAAACGCCACTAAT-A-ATACAGCAAAACGGCCTCGTAT
64 TAACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACA-CAAAACGGCAACGTTT
* *
47718899 CGATAAATGTTAAAACATT
128 CAATAAATGTTAAAACAAT
* * *
47718918 TTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTT
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAAATC-AAACGCAGTCGTTTCATCAACAATT
* * * * ** * * *
47718983 ACCTCAAACCCGTGGCGTTTTCGAAAAATCGCCACTAATAACATTTAAAAAACGGCAGCGTTTCT
65 AACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACACAAAACGGCAACGTTTCA
*
47719048 ATAAATGTTAGAACAAT
130 ATAAATGTTAAAACAAT
* * * * ** *
47719065 TTTGCGGTGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAATGAAGTCGTTTCCCCAACAGTT
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAA-ATCAAACGCAGTCGTTTCATCAACAATT
* * * * * *
47719130 AACTCAAGCTTGTGGCGTTTCCAAAAAAACGCCACTAATACCATACACAAAACGACAACATTTCA
65 AACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACACAAAACGGCAACGTTTCA
** *
47719195 ATAAA-CATAATTACAAT
130 ATAAATGTTAA-AACAAT
* *
47719212 TTTGCGGCGTTTCATGTAAAGCGCCACTAA
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAA
47719242 TAGCAACGTA
Statistics
Matches: 262, Mismatches: 57, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
145 3 0.01
146 85 0.32
147 168 0.64
148 6 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (146 bp):
TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAAATCAAACGCAGTCGTTTCATCAACAATTA
ACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACACAAAACGGCAACGTTTCAA
TAAATGTTAAAACAAT
Found at i:47720692 original size:114 final size:114
Alignment explanation
Indices: 47720486--47720906 Score: 397
Period size: 114 Copynumber: 3.7 Consensus size: 114
47720476 TAATTATTTT
* * * * *
47720486 GCGGCGCTTGTTCAAAAACGCTGCTAAATCCCCCAATGCTCAGTAAAACGACATCGTTGGGCCTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCCGAATGCTCAG-AAAACGACATCGTTGGGCTTA
* * *
47720551 GGTTTTTTACGACGCTTTCC-C-GAAAACGTCGCTAAAACCCTGAGCATTA
65 GGTTTTTTGCGACGCATTCCTCAG-AAACGCCGCTAAAACCCTGAGCATTA
* * * * *
47720600 GCAGCGCTTCTCCATAAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTAG
* * * * *
47720665 GTTTCTTTGCGGCGC-TTCCTCAGAAACGCCGCTAAAGCACTGAACATTG
66 GTTT-TTTGCGACGCATTCCTCAGAAACGCCGCTAAAACCCTGAGCATTA
* * * * *
47720714 GCGGCGCTAC-CTCAAAAACGCCGCTAAGTCACCGAATGCTCAGAAAAC-AGCGTCGTTGAGCTT
1 GCGGCGCTTCTC-CAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGA-CATCGTTGGGCTT
* * * * * * *
47720777 AGGTTTCTTTGCGGCGCATT-CTTAAAAATGCCGTTAAATCCCTGAGCTTTA
64 AGGTTT-TTTGCGACGCATTCCTCAGAAACGCCGCTAAAACCCTGAGCATTA
* * * * ** *
47720828 GCGGCGCTTCAT-AAAAAACGCTGCTAAATCCCCGAATGCGCCGAAAACGATGTCGTTGGGCTAA
1 GCGGCGCTTC-TCCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTA
47720892 GGTTTTTTGCGACGC
65 GGTTTTTTGCGACGC
47720907 TTTATAGAAA
Statistics
Matches: 251, Mismatches: 47, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
113 37 0.15
114 210 0.84
115 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (114 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTAG
GTTTTTTGCGACGCATTCCTCAGAAACGCCGCTAAAACCCTGAGCATTA
Found at i:47720845 original size:41 final size:40
Alignment explanation
Indices: 47720783--47720859 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 40
47720773 GCTTAGGTTT
* * *
47720783 CTTTGCGGCGCATTCTTAAAAATGCCGTTAAATCCCTGAG
1 CTTTGCGGCGCATTCTAAAAAACGCCGCTAAATCCCTGAG
*
47720823 CTTTAGCGGCGC-TTCATAAAAAACGCTGCTAAATCCC
1 CTTT-GCGGCGCATTC-TAAAAAACGCCGCTAAATCCC
47720860 CGAATGCGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 7 0.23
41 24 0.77
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (40 bp):
CTTTGCGGCGCATTCTAAAAAACGCCGCTAAATCCCTGAG
Found at i:47722649 original size:47 final size:47
Alignment explanation
Indices: 47722549--47722649 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 47
47722539 TAGAAGATTT
* *
47722549 ACTGCAATTATAGTGGTTCGACCACACATATCTGTTTTGGCATGTTA
1 ACTGCAATTATAATGGTTCGACCACACATATCTGTTATGGCATGTTA
* * *
47722596 GCTGCAA-TATAATGGCTT-GACCACATATATCT-TATATGGCATTTTTA
1 ACTGCAATTATAATGG-TTCGACCACACATATCTGT-TATGGCA-TGTTA
47722643 ACTGCAA
1 ACTGCAA
47722650 CCCTAGTGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
45 1 0.02
46 26 0.58
47 18 0.40
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (47 bp):
ACTGCAATTATAATGGTTCGACCACACATATCTGTTATGGCATGTTA
Found at i:47723637 original size:18 final size:17
Alignment explanation
Indices: 47723616--47723661 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
47723606 TTACTTTTGT
47723616 TTTCTTTAAATATTTTA
1 TTTCTTTAAATATTTTA
*
47723633 GTTTCTTTAATATGTTTTA
1 -TTTCTTTAA-ATATTTTA
47723652 TTTCTTTAAA
1 TTTCTTTAAA
47723662 AAGATTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.69
19 7 0.27
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTCTTTAAATATTTTA
Found at i:47732764 original size:16 final size:15
Alignment explanation
Indices: 47732743--47732790 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
47732733 GATGTGAATA
47732743 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
47732759 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
47732774 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
47732790 A
1 A
47732791 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:47732773 original size:8 final size:8
Alignment explanation
Indices: 47732739--47732790 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
47732729 CAATGATGTG
*
47732739 AATAATAA
1 AATATTAA
47732747 AATATATAA
1 AATAT-TAA
47732756 AATA-TAA
1 AATATTAA
47732763 AATATTAA
1 AATATTAA
*
47732771 AATATCAA
1 AATATTAA
*
47732779 AATATTAG
1 AATATTAA
47732787 AATA
1 AATA
47732791 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:47732790 original size:24 final size:24
Alignment explanation
Indices: 47732738--47732794 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
47732728 ACAATGATGT
*
47732738 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
47732762 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
47732786 GAATAATAA
1 GAATAATAA
47732795 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:47732970 original size:25 final size:25
Alignment explanation
Indices: 47732942--47733006 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
47732932 TGTGATAATA
*
47732942 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
47732967 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
47732990 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
47733007 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:47733050 original size:16 final size:16
Alignment explanation
Indices: 47733021--47733083 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
47733011 ACATGTAGAA
47733021 AAAT-ATATATATATAT
1 AAATAATATA-ATATAT
47733037 AAATAATATAATAT-T
1 AAATAATATAATATAT
*
47733052 AAAGATATATAA-ATA-
1 AAATA-ATATAATATAT
* *
47733067 AAATAGTATAAAATAT
1 AAATAATATAATATAT
47733083 A
1 A
47733084 TATATACGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 15 0.38
17 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATAATATAATATAT
Found at i:47733065 original size:25 final size:25
Alignment explanation
Indices: 47733031--47733164 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
47733021 AAATATATAT
47733031 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
47733056 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
47733081 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
47733107 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
47733129 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
47733152 AAATAT-AATAATA
1 ATATATAAATAATA
47733165 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:47733687 original size:30 final size:30
Alignment explanation
Indices: 47733651--47733795 Score: 254
Period size: 30 Copynumber: 4.8 Consensus size: 30
47733641 TAGGTACAAG
*
47733651 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
47733681 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
47733711 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
47733741 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
47733771 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
47733796 TGAGAAAATT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 109 1.00
ACGTcount: A:0.21, C:0.03, G:0.50, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:47734609 original size:74 final size:73
Alignment explanation
Indices: 47734511--47735090 Score: 360
Period size: 74 Copynumber: 7.5 Consensus size: 73
47734501 TGAACCCAAA
*
47734511 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTAAAAATACCTCAGCG
47734576 TGTCCTGAG
65 TGTCCTGAG
* * * *
47734585 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAATACCTCAGCG
47734650 TGTCCTGAG
65 TGTCCTGAG
* * ** * **
47734659 GCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAGAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AA-AA-A-TACCT
* * * *
47734724 GAAAAGACCTCAG-CATGTG
60 ---CAG-CGT--GTCCTGAG
* * * * *
47734743 AGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTAC
1 -GCTC-A-ACTC-----ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATAC
*
47734807 CTCAGCGTGTCCCGAG
58 CTCAGCGTGTCCTGAG
* * ** *
47734823 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACTAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAA--A-TACCTCA
*** * *
47734888 AAATACCTCAGCGTGTG
62 GCGT--GTC--C-TGAG
* * * ** * **
47734905 AGC-CAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCAC
1 -GCTCAA--CT-----CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATAC
47734969 CTCAGCGTGTCCTGAG
58 CTCAGCGTGTCCTGAG
* * * *
47734985 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT
*
47735048 GTCTTGAG
66 GTCCTGAG
*
47735056 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
47735091 TTTGAAACAT
Statistics
Matches: 390, Mismatches: 76, Indels: 83
0.71 0.14 0.15
Matches are distributed among these distances:
71 41 0.11
73 83 0.21
74 85 0.22
75 33 0.08
76 1 0.00
77 6 0.02
78 5 0.01
79 10 0.03
80 10 0.03
81 4 0.01
82 9 0.02
83 6 0.02
84 7 0.02
85 10 0.03
86 3 0.01
87 2 0.01
88 5 0.01
89 51 0.13
91 19 0.05
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT
GTCCTGAG
Found at i:47734718 original size:14 final size:14
Alignment explanation
Indices: 47734699--47734726 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47734689 TTTTTTTTAC
47734699 GAACAGAAATTGAA
1 GAACAGAAATTGAA
47734713 GAACAGAAATTGAA
1 GAACAGAAATTGAA
47734727 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:47734794 original size:89 final size:89
Alignment explanation
Indices: 47734625--47734801 Score: 243
Period size: 89 Copynumber: 2.0 Consensus size: 89
47734615 TTTTTTTAAC
** *
47734625 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
* * *
47734690 TTTTTTTACGAACAGAAATTGAAG
66 ATTTTTGACAAACAGAAATTGAAG
*
47734714 AACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AACAGAAATTGAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTAGCAATATGAGTT
47734778 -A-ATTTTTGACAAACAGAAATTGAA
63 GATATTTTTGACAAACAGAAATTGAA
47734802 ATTACCTCAG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
89 42 0.54
90 1 0.01
91 33 0.42
92 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (89 bp):
AACAGAAATTGAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
ATTTTTGACAAACAGAAATTGAAG
Found at i:47734839 original size:73 final size:74
Alignment explanation
Indices: 47734708--47734876 Score: 250
Period size: 73 Copynumber: 2.3 Consensus size: 74
47734698 CGAACAGAAA
* *
47734708 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
47734773 GAGTTAATTT
65 GAGTCAATTT
* ** *
47734783 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
47734847 AGTCGATTT
66 AGTCAATTT
47734856 TTGAAAAACAGAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
47734877 CTAGAAATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 58 0.69
75 26 0.31
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTCAATTT
Found at i:47734875 original size:14 final size:15
Alignment explanation
Indices: 47734856--47734890 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
47734846 GAGTCGATTT
47734856 TTGAAAAAC-AGAAA
1 TTGAAAAACTAGAAA
47734870 TTG-AAAACTAGAAA
1 TTGAAAAACTAGAAA
47734884 TTGAAAA
1 TTGAAAA
47734891 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 11 0.58
15 3 0.16
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (15 bp):
TTGAAAAACTAGAAA
Found at i:47734935 original size:162 final size:160
Alignment explanation
Indices: 47734548--47735037 Score: 689
Period size: 162 Copynumber: 3.0 Consensus size: 160
47734538 TGATTTTTGA
*
47734548 AAAACAGAAATTTAAAAATACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAACAGAAA-TTGAAAATACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGA
* * *
47734610 GTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTA
64 GTT-AATTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
47734675 GCAATATGAGTTGATTTTTTTTACGAACAGAAATTG
127 GCAATATGAGTTGA--TTTTTGACAAACAGAAATTG
* *
47734711 AAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-AACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
47734776 TTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
65 TTAATTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
* *
47734841 AATATGAGTCGATTTTTGAAAAACAGAAATTG
129 AATATGAGTTGATTTTTGACAAACAGAAATTG
* *
47734873 AAAACTAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAC-AGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * **
47734938 CTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
65 TTAATTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
47735003 AATATGAGTTGATTTTTGACAAACAAAAATTG
129 AATATGAGTTGATTTTTGACAAACAGAAATTG
47735035 AAA
1 AAA
47735038 TTACCTCAGC
Statistics
Matches: 295, Mismatches: 26, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
161 3 0.01
162 163 0.55
163 19 0.06
164 76 0.26
165 32 0.11
166 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (160 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TAATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTGACAAACAGAAATTG
Found at i:47734945 original size:89 final size:86
Alignment explanation
Indices: 47734783--47734965 Score: 235
Period size: 89 Copynumber: 2.1 Consensus size: 86
47734773 GAGTTAATTT
* *
47734783 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
*
47734848 GTCGATTTTTGAAAAACAGAAA
65 GTCAATTTTTGAAAAACAGAAA
* *
47734870 TTGAAAACTAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAC-AGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
** *
47734935 GAG-CTAATTTTTGATGAACATAAA
63 GAGTC-AATTTTTGAAAAACAGAAA
47734959 TT-AAAAC
1 TTGAAAAC
47734966 CACCTCAGCG
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
86 4 0.05
87 28 0.33
88 6 0.07
89 46 0.55
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (86 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAG
TCAATTTTTGAAAAACAGAAA
Found at i:47735005 original size:73 final size:71
Alignment explanation
Indices: 47734910--47735109 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
47734900 GTGTGAGCCA
* * *
47734910 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
47734975 GTGTCCTG
66 --GTCCTG
** * * **
47734983 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
*
47735048 GTCTTG
66 GTCCTG
* **
47735054 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATG-AACATAAATTAAAA
47735110 AAATGAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
71 41 0.38
72 12 0.11
73 56 0.51
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
GTCCTG
Found at i:47735035 original size:235 final size:232
Alignment explanation
Indices: 47734719--47735675 Score: 734
Period size: 235 Copynumber: 4.3 Consensus size: 232
47734709 TGAAGAACAG
* ** *
47734719 AAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AAATTGAAAACACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
47734784 TGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
64 TGACAAACAAAAATTGAAATTACCTCAGC--GTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
47734849 TCGA-TTTTTGAAAAACAGAAATT-GAAAACT-AGAAATTGAAAATACCTCAGCGTGTGAGCC-A
127 TCGATTTTTTGAAAAACAGAAATTAAAAAAATGA-AAATTGAAAATACCTCAGCGTGT---CCTA
* * ** *
47734910 AGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTTGATGA-ACAT
188 AGGCTCAACTCACCTCTCGCAATATGAGCTGAA--ATT-AAAACACAA
* *
47734956 AAATT-AAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAA-CACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** * *
47735020 GACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
65 GACAAACAAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCG
*** * *
47735085 ATTTTTTTTGAAACATAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
130 ATTTTTTGAAAAACAGAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCA
*
47735150 ACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAA
195 ACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAA
* * *
47735188 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTG
1 AAATTGAAAACACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * * * * *
47735252 ----A-AAAAGTAGAAATTA----A-------AAGGTTTAACCCACCTCTCGCAATATGAGTTGA
66 ACAAACAAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA
* * *
47735301 -TTCTTGACAAACAGAAA-T-------TG-AAA-T-----TACCTCATCGTGTCCTAAGGCTCAA
131 TTTTTTGAAAAACAGAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAA
** * *
47735350 CTCACCTCTCGCAATATGAATTGAAA--AAAATACCA
196 CTCACCTCTCGCAATATGAGCTGAAATTAAAACACAA
* * * * *
47735385 CAGTGTG--TA-A--T---C-T-----GAAGCTCAACTCACCTTTCGCAATATGAGTTGATTTTT
1 AAAT-TGAAAACACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT
* * * * *
47735436 TTTTAAAAACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATA
62 TTTGACAAACAAAAATTGAAATTACCTCAGC--GT--CCCGAGGCTCAACTCACCTCTCGCAATA
* * * **
47735501 TAAGTTGATTTTTTTG--AAACATAAATTTAAAAAAAAACAAAAATTGAAAATACCTCAGCGTGT
123 TGAGTCGA-TTTTTTGAAAAACAGAAA-TT--AAAAAAATGAAAATTGAAAATACCTCAGCGTGT
* *
47735564 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAA
184 CCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAA
* * * *
47735613 AAATTGAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
1 AAATTGAAAACACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
47735676 GAAAAAGTAG
Statistics
Matches: 573, Mismatches: 78, Indels: 137
0.73 0.10 0.17
Matches are distributed among these distances:
184 29 0.05
188 4 0.01
189 1 0.00
190 1 0.00
192 1 0.00
193 11 0.02
195 1 0.00
196 1 0.00
197 10 0.02
198 2 0.00
199 48 0.08
204 1 0.00
205 3 0.01
206 2 0.00
208 36 0.06
210 6 0.01
213 1 0.00
214 12 0.02
215 28 0.05
220 3 0.01
221 1 0.00
222 1 0.00
226 60 0.10
227 3 0.01
228 9 0.02
229 1 0.00
230 1 0.00
231 7 0.01
232 57 0.10
233 66 0.12
234 17 0.03
235 97 0.17
236 6 0.01
237 13 0.02
238 4 0.01
241 29 0.05
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (232 bp):
AAATTGAAAACACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
ACAAACAAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA
TTTTTTGAAAAACAGAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAA
CTCACCTCTCGCAATATGAGCTGAAATTAAAACACAA
Found at i:47735176 original size:79 final size:72
Alignment explanation
Indices: 47735101--47735242 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 72
47735091 TTTGAAACAT
* *
47735101 AAATTAAAA-AAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
1 AAATTAAAACAAA--AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAA
47735165 TATGAGTTG
64 TATGAGTTG
* *
47735174 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATA
1 AAATTAAAACAAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
47735239 TGAG
66 TGAG
47735243 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 53 0.83
73 9 0.14
74 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (72 bp):
AAATTAAAACAAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTG
Found at i:47735269 original size:160 final size:157
Alignment explanation
Indices: 47734967--47735256 Score: 415
Period size: 160 Copynumber: 1.8 Consensus size: 157
47734957 AATTAAAACC
** *
47734967 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAA
* ** * *
47735032 TTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAA
66 TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAA
*
47735097 ACATAAATTAAAAAAATGAAAATTGAAAAT
128 AAATAAATTAAAAAAATGAAAATTGAAAAT
47735127 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAA
*
47735190 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAA
65 ATTGAAAATACCTCAGCGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAA
47735254 AAA
128 AAA
47735257 GTAGAAATTA
Statistics
Matches: 117, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
157 9 0.08
158 3 0.03
159 26 0.22
160 48 0.41
161 31 0.26
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (157 bp):
ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAA
TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
TAAATTAAAAAAATGAAAATTGAAAAT
Found at i:47735654 original size:72 final size:72
Alignment explanation
Indices: 47735532--47735667 Score: 227
Period size: 72 Copynumber: 1.9 Consensus size: 72
47735522 TAAATTTAAA
* *
47735532 AAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
47735597 TGAAATT
66 TGAAATT
* * *
47735604 AAAACACAAAAATTGAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
47735668 CTGATTTTGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.22
Consensus pattern (72 bp):
AAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGAAATT
Found at i:47735862 original size:425 final size:421
Alignment explanation
Indices: 47734980--47736084 Score: 1719
Period size: 425 Copynumber: 2.7 Consensus size: 421
47734970 TCAGCGTGTC
* * * * *
47734980 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACCT
1 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
* * *
47735044 CAGC--GT---CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAA
66 CAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTGAAACATAAA
**
47735104 -TTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
129 TTTAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
47735168 GAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTT
194 GAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTT
*
47735233 GCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTTAACCCACCTCTCGCAATATGAGT
259 GCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGT
47735298 TGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTAAGGCTCAACTCACCTCTCGCA
324 TGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTAAGGCTCAACTCACCTCTCGCA
47735363 ATATGAATTGAAAAAAATACCACAGTGTGTAAT
389 ATATGAATTGAAAAAAATACCACAGTGTGTAAT
*
47735396 CTGAAGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAAAAACAGAAATTGAAAATAC
47735461 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAACATAAA
64 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAACATAAA
47735526 TTTAAAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
129 TTT--AAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
47735591 ATGAGTTGAAATTAAAACACAAAAATTGAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTC
192 ATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTC
47735656 TTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGA
257 TTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGA
*
47735721 GTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCG
322 GTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTAAGGCTCAACTCACCTCTCG
47735786 CAATATGAATTGAAAAAAATACCACAGTGTGTAAT
387 CAATATGAATTGAAAAAAATACCACAGTGTGTAAT
47735821 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
*
47735886 GAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTT------T---TT
66 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAACATAAATT
* * * * ** *
47735941 T--GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAA
131 TAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * * ** *
47736004 GTTGAATTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
196 GTTGAA-ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTG
*
47736068 CAATATGAGTTGATTTT
260 CAATATGAGCTGATTTT
47736085 TTTTTTAACA
Statistics
Matches: 643, Mismatches: 34, Indels: 31
0.91 0.05 0.04
Matches are distributed among these distances:
409 119 0.19
410 5 0.01
413 3 0.00
416 34 0.05
419 29 0.05
421 2 0.00
422 23 0.04
423 108 0.17
424 1 0.00
425 319 0.50
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (421 bp):
CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAACATAAATT
TAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGC
AATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTG
ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTAAGGCTCAACTCACCTCTCGCAAT
ATGAATTGAAAAAAATACCACAGTGTGTAAT
Found at i:47735997 original size:77 final size:77
Alignment explanation
Indices: 47735821--47736161 Score: 405
Period size: 77 Copynumber: 4.5 Consensus size: 77
47735811 AGTGTGTAAT
* *
47735821 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTAAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
* * *
47735883 CCTGAGCATGTGAAC
66 CCTCA--ACGTG-TC
*
47735898 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
47735962 CCTCAACGTGTC
66 CCTCAACGTGTC
* ** * * *
47735974 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-----ATTTTGAAAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
*
47736034 CCTCAGCGTGTC
66 CCTCAACGTGTC
** * *
47736046 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTT-AACAATAGAAATTGAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAA-AACAGAAATTGAAAAT
*
47736110 ACCTCAGCGTGTC
65 ACCTCAACGTGTC
*
47736123 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
47736162 GAAAAACAAA
Statistics
Matches: 235, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
72 67 0.29
76 34 0.14
77 104 0.44
79 30 0.13
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (77 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
CCTCAACGTGTC
Found at i:47736085 original size:149 final size:150
Alignment explanation
Indices: 47735821--47736179 Score: 467
Period size: 149 Copynumber: 2.4 Consensus size: 150
47735811 AGTGTGTAAT
* * *
47735821 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCT
*
47735886 GAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAA-AACAG
64 CAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTT-AACAACAG
47735950 AAATTGAAAATACCTCAACGTGTC
127 AAATTGAAAATACCTCAACGTGTC
* ** * *
47735974 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** * *
47736039 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAATAGAAA
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTAACAACAGAAA
* *
47736102 TTGAAATTACCTCAGCGTGTC
130 TTGAAAATACCTCAACGTGTC
* *
47736123 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
47736180 GGCTTAACTC
Statistics
Matches: 180, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
148 13 0.07
149 109 0.61
151 28 0.16
153 30 0.17
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (150 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTAACAACAGAAAT
TGAAAATACCTCAACGTGTC
Found at i:47736327 original size:71 final size:70
Alignment explanation
Indices: 47736179--47736354 Score: 205
Period size: 71 Copynumber: 2.5 Consensus size: 70
47736169 AAAAATTAAA
* * * * * **
47736179 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
47736243 CCCCG
66 CCCCG
*
47736248 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAA-CTAAAAATACCTCAACG
* **
47736312 TGTCTTG
64 TGCCCCG
47736319 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
47736355 CCTTGGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
69 26 0.28
70 10 0.11
71 56 0.61
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:47744872 original size:25 final size:25
Alignment explanation
Indices: 47744844--47744908 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
47744834 CGTGATAATA
*
47744844 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
47744869 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
47744892 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
47744909 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:47744963 original size:25 final size:25
Alignment explanation
Indices: 47744929--47745059 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
47744919 AGAAAAGTAT
47744929 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
47744954 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
** *
47744979 ATATATACGTAATATAGA-ATTTAA-
1 ATATATAAATAATATA-ATATTAAAG
** *
47745003 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
47745025 ATATAT--ATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
47745047 AAATAT-AATAATA
1 ATATATAAATAATA
47745060 ACAAAAAAGG
Statistics
Matches: 83, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
21 10 0.12
22 11 0.13
23 23 0.28
24 1 0.01
25 38 0.46
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:47744992 original size:50 final size:44
Alignment explanation
Indices: 47744929--47745054 Score: 112
Period size: 48 Copynumber: 2.7 Consensus size: 44
47744919 AGAAAAGTAT
*
47744929 ATATATAAATAATATAATATTAAAGATATATAAATAAAATAGTATAAA
1 ATATATATATAATATAATATT-AAGA-ATATAAATAAAATA-T-TAAA
** *
47744977 ATATATATACGTAATATAGA-ATTTAA-AATATACCTAATATATTAAA
1 ATATATATA--TAATATA-ATA-TTAAGAATATAAATAAAATATTAAA
*
47745023 AGATATATATAATATAATATTAAGAAATATAA
1 ATATATATATAATATAATATTAAG-AATATAA
47745055 TAATAACAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
43 5 0.08
44 8 0.12
45 6 0.09
46 12 0.18
47 1 0.02
48 19 0.29
49 1 0.02
50 10 0.15
51 3 0.05
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (44 bp):
ATATATATATAATATAATATTAAGAATATAAATAAAATATTAAA
Found at i:47745581 original size:30 final size:30
Alignment explanation
Indices: 47745545--47745654 Score: 175
Period size: 30 Copynumber: 3.7 Consensus size: 30
47745535 TAGGTACAAG
* *
47745545 TGGTGGTGGAGAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGTGTGGCTAGTGGAGT
*
47745575 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGTGTGGCTAGTGGAGT
*
47745605 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGTGTGGCTAGTGGAGT
*
47745635 TGGTGGTGGAAAAAGAGTGG
1 TGGTGGTGGAAAAAGTGTGG
47745655 AAAAGGTGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGTGTGGCTAGTGGAGT
Found at i:47745638 original size:60 final size:60
Alignment explanation
Indices: 47745545--47745760 Score: 270
Period size: 60 Copynumber: 3.4 Consensus size: 60
47745535 TAGGTACAAG
* * *
47745545 TGGTGGTGGAGAATGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
47745605 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGAAAAGGTGTGGCTAG
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGG-AAAA-A---G---A---GTGGCTAG
47745670 TGGAGT
55 TGGAGT
* * *
47745676 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
47745736 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
47745761 TGAGAAAAGT
Statistics
Matches: 138, Mismatches: 7, Indels: 22
0.83 0.04 0.13
Matches are distributed among these distances:
60 75 0.54
61 4 0.03
62 1 0.01
65 1 0.01
66 1 0.01
68 1 0.01
70 4 0.03
71 51 0.37
ACGTcount: A:0.24, C:0.03, G:0.48, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:47745656 original size:41 final size:41
Alignment explanation
Indices: 47745610--47745695 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
47745600 GGAGTTGGTG
47745610 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
1 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
47745651 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
1 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
47745692 GTGG
1 GTGG
47745696 CTAGTGGAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.28, C:0.02, G:0.48, T:0.22
Consensus pattern (41 bp):
GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
Found at i:47745685 original size:30 final size:30
Alignment explanation
Indices: 47745651--47745760 Score: 193
Period size: 30 Copynumber: 3.7 Consensus size: 30
47745641 TGGAAAAAGA
*
47745651 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTG
1 GTGGAAAAGGAGTGGCTAGTGGAGTTGGTG
*
47745681 GTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
1 GTGGAAAAGGAGTGGCTAGTGGAGTTGGTG
*
47745711 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTG
1 GTGGAAAAGGAGTGGCTAGTGGAGTTGGTG
47745741 GTGGAAAAGGAGTGGCTAGT
1 GTGGAAAAGGAGTGGCTAGT
47745761 TGAGAAAAGT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.25
Consensus pattern (30 bp):
GTGGAAAAGGAGTGGCTAGTGGAGTTGGTG
Found at i:47745696 original size:71 final size:71
Alignment explanation
Indices: 47745580--47745718 Score: 242
Period size: 71 Copynumber: 2.0 Consensus size: 71
47745570 GGAGTTGGTG
* *
47745580 GTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGA
1 GTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
47745645 AAAAGA
66 AAAAGA
* *
47745651 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
1 GTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
47745716 AAA
66 AAA
47745719 GGTGTGGCTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.27, C:0.03, G:0.47, T:0.23
Consensus pattern (71 bp):
GTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
AAAAGA
Found at i:47745725 original size:101 final size:101
Alignment explanation
Indices: 47745550--47745755 Score: 385
Period size: 101 Copynumber: 2.0 Consensus size: 101
47745540 ACAAGTGGTG
* *
47745550 GTGGAGAATGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
1 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
47745615 AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
66 AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
47745651 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
1 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
*
47745716 AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
66 AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
47745752 GTGG
1 GTGG
47745756 CTAGTTGAGA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.24, C:0.03, G:0.49, T:0.24
Consensus pattern (101 bp):
GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGA
AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
Found at i:47753158 original size:34 final size:34
Alignment explanation
Indices: 47753119--47753183 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
47753109 AAAATTTATA
47753119 TTTAATACAAT-AAA-ATGCTTATTATATTTATTTT
1 TTTAATACAATGAAACATGC--ATTATATTTATTTT
47753153 TTTAATACAATGAAACATGCATTATATTTAT
1 TTTAATACAATGAAACATGCATTATATTTAT
47753184 AGTGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 22 0.76
35 3 0.10
36 4 0.14
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (34 bp):
TTTAATACAATGAAACATGCATTATATTTATTTT
Found at i:47753287 original size:17 final size:16
Alignment explanation
Indices: 47753259--47753300 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
47753249 TATATTATAT
47753259 TTTAAAA-AAAATTAA
1 TTTAAAATAAAATTAA
47753274 TTTAAAATATAAATTAA
1 TTTAAAATA-AAATTAA
*
47753291 TCTAAAATAA
1 TTTAAAATAA
47753301 GCACATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 2 0.08
17 15 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TTTAAAATAAAATTAA
Found at i:47754777 original size:27 final size:25
Alignment explanation
Indices: 47754755--47754809 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
47754745 CTTTTTCATA
47754755 TTTAGAATTTAATTTAATTTTTTAAAT
1 TTTAGAATTT--TTTAATTTTTTAAAT
*
47754782 TTTAGGATTTTTTAATTTTTTTAAAT
1 TTTAGAATTTTTTAA-TTTTTTAAAT
47754808 TT
1 TT
47754810 AAAAATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 12 0.46
27 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTAGAATTTTTTAATTTTTTAAAT
Found at i:47779557 original size:44 final size:44
Alignment explanation
Indices: 47779476--47779566 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
47779466 AGATTCATTT
* * * *
47779476 TTTTCATGAAGCTAACTAACTATAAAGCTTTCCCCTTTTTTTTC
1 TTTTCATGAACCTAACTAACTATAAAGCTTTCACCTTTCTTTAC
*
47779520 TTTTCATGAACCTAACCTAACTATAAAG-TTTTACCTTTCTTTAC
1 TTTTCATGAACCTAA-CTAACTATAAAGCTTTCACCTTTCTTTAC
47779564 TTT
1 TTT
47779567 ACTTTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 29 0.71
45 12 0.29
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.46
Consensus pattern (44 bp):
TTTTCATGAACCTAACTAACTATAAAGCTTTCACCTTTCTTTAC
Found at i:47784987 original size:17 final size:17
Alignment explanation
Indices: 47784947--47785000 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 17
47784937 TAACTTTTTT
47784947 TATTTTT-ATTTTAAAA
1 TATTTTTAATTTTAAAA
*
47784963 TA-CTTT--TTTT-AAA
1 TATTTTTAATTTTAAAA
47784976 T-TTTTTAATTTTAAAA
1 TATTTTTAATTTTAAAA
47784992 TATTTTTAA
1 TATTTTTAA
47785001 AATACATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 7 0.23
16 6 0.19
17 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTAATTTTAAAA
Found at i:47784988 original size:40 final size:40
Alignment explanation
Indices: 47784955--47785038 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
47784945 TTTATTTTTA
*
47784955 TTTTAAAATACTTTTTTTAA-ATTTTTTAATTTTAAAATAT
1 TTTTAAAATAC-ATTTTTAATATTTTTTAATTTTAAAATAT
*
47784995 TTTTAAAATACATTTTTAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACATTTTTAATATTTTTTAATTTTAAAATAT
47785035 TTTT
1 TTTT
47785039 TTAATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 7 0.17
40 34 0.83
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACATTTTTAATATTTTTTAATTTTAAAATAT
Found at i:47785010 original size:29 final size:28
Alignment explanation
Indices: 47784947--47785004 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
47784937 TAACTTTTTT
* *
47784947 TATTTTTATTTTAAAATACTTTTTTTAAA
1 TATTTTAATTTTAAAATAC-TTTTTAAAA
*
47784976 TTTTTTAATTTTAAAATA-TTTTTAAAA
1 TATTTTAATTTTAAAATACTTTTTAAAA
47785003 TA
1 TA
47785005 CATTTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 9 0.36
29 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTTTAATTTTAAAATACTTTTTAAAA
Found at i:47785017 original size:19 final size:20
Alignment explanation
Indices: 47785017--47785060 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47785007 TTTTTAATTT
**
47785017 TTTTTAA-TTTTAAAATATT
1 TTTTTAATTTTTAAAATAAA
47785036 TTTTTAATTTTTAAAATAAA
1 TTTTTAATTTTTAAAATAAA
47785056 TTTTT
1 TTTTT
47785061 GGTATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATAAA
Found at i:47785060 original size:40 final size:40
Alignment explanation
Indices: 47784972--47785060 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
47784962 ATACTTTTTT
47784972 TAAATTTTTTAATTTTAAAATATTTTTAAAATACATTTTTAA
1 TAAATTTTTTAATTTTAAAATATTTTT--AATACATTTTTAA
* *
47785014 T--TTTTTTTAATTTTAAAATATTTTT-TTA-ATTTTTAAAA
1 TAAATTTTTTAATTTTAAAATATTTTTAATACATTTTT--AA
47785052 TAAATTTTT
1 TAAATTTTT
47785061 GGTATTTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
36 6 0.15
37 2 0.05
38 3 0.08
40 28 0.70
42 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (40 bp):
TAAATTTTTTAATTTTAAAATATTTTTAATACATTTTTAA
Found at i:47785990 original size:16 final size:16
Alignment explanation
Indices: 47785963--47786003 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47785953 CCCAAACCTC
47785963 TAACAT-AACCCAAGT
1 TAACATGAACCCAAGT
* *
47785978 TGACATGAACCCACGT
1 TAACATGAACCCAAGT
47785994 TAACATGAAC
1 TAACATGAAC
47786004 TTGAACTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (16 bp):
TAACATGAACCCAAGT
Found at i:47786232 original size:16 final size:16
Alignment explanation
Indices: 47786211--47786251 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
47786201 TCCCAAAGCC
47786211 GAAATTGACTTCAACA
1 GAAATTGACTTCAACA
*
47786227 GAAATTGGCTTCAACA
1 GAAATTGACTTCAACA
47786243 GAAA-TGACT
1 GAAATTGACT
47786252 CAAGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (16 bp):
GAAATTGACTTCAACA
Found at i:47790615 original size:3 final size:3
Alignment explanation
Indices: 47790609--47790638 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47790599 TCGCATCATC
47790609 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47790639 TAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47790664 original size:8 final size:8
Alignment explanation
Indices: 47790637--47790685 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
47790627 ATTATTATTA
47790637 TTTAATATT
1 TTTAA-ATT
*
47790646 TTAATAATT
1 TTTA-AATT
*
47790655 TTT-AAGT
1 TTTAAATT
47790662 TTTAAATT
1 TTTAAATT
47790670 TTTAAATT
1 TTTAAATT
47790678 TTTAAATT
1 TTTAAATT
47790686 ATATCTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 6 0.18
8 19 0.56
9 8 0.24
10 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (8 bp):
TTTAAATT
Found at i:47791250 original size:2 final size:2
Alignment explanation
Indices: 47791243--47791284 Score: 50
Period size: 2 Copynumber: 20.5 Consensus size: 2
47791233 ATTACTCTTT
*
47791243 TA TA TA TA TA TA TA TA TA TA TA CT- TA TA TC TA TA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA T
47791285 TAAGCACTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 1 0.03
2 31 0.89
3 3 0.09
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47795977 original size:12 final size:11
Alignment explanation
Indices: 47795946--47795983 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
47795936 TTTTTTTAAA
47795946 TTTTAAAATAT
1 TTTTAAAATAT
47795957 TTTTAAAATACT
1 TTTTAAAATA-T
*
47795969 TTTTTAAAT-T
1 TTTTAAAATAT
47795979 TTTTA
1 TTTTA
47795984 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 10 0.42
12 9 0.38
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:47796643 original size:21 final size:20
Alignment explanation
Indices: 47796608--47796648 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
47796598 TTTGATAATT
47796608 TTTTAAACCTAAATCTTAAA
1 TTTTAAACCTAAATCTTAAA
*
47796628 TTTTAAATCCTGAATCTTAAA
1 TTTTAAA-CCTAAATCTTAAA
47796649 CTCTGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTTAAACCTAAATCTTAAA
Found at i:47797781 original size:22 final size:21
Alignment explanation
Indices: 47797742--47797783 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47797732 AATTTTAAAA
*
47797742 TATTTTAAAAATACTTTTTTT
1 TATTTTAAAAATAATTTTTTT
* *
47797763 TATTTTTAAAATAAATTTTTT
1 TATTTTAAAAATAATTTTTTT
47797784 GTGTTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTAAAAATAATTTTTTT
Found at i:47798381 original size:23 final size:26
Alignment explanation
Indices: 47798334--47798382 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
47798324 ATTTTTAAAA
*
47798334 AATTCAATTAAAACTCCAATTTTTTT
1 AATTCAATTAAAACTCCAATATTTTT
47798360 AATT-AATT-AAAC-CCAATATTTTT
1 AATTCAATTAAAACTCCAATATTTTT
47798383 GTAAAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 4 0.18
25 4 0.18
26 4 0.18
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTCAATTAAAACTCCAATATTTTT
Found at i:47804437 original size:11 final size:10
Alignment explanation
Indices: 47804423--47804464 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
47804413 AGGGTCGTAG
47804423 AAAATAAACAA
1 AAAATAAA-AA
47804434 AAAATAAAAA
1 AAAATAAAAA
47804444 AACAAT-AAAA
1 AA-AATAAAAA
*
47804454 TAAATAAAAA
1 AAAATAAAAA
47804464 A
1 A
47804465 CACAAGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.11
10 13 0.48
11 11 0.41
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:47809274 original size:18 final size:18
Alignment explanation
Indices: 47809251--47809287 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47809241 AACCCTCTAA
47809251 TACATCGCCCCTGTATTT
1 TACATCGCCCCTGTATTT
47809269 TACATCGCCCCTGTATTT
1 TACATCGCCCCTGTATTT
47809287 T
1 T
47809288 TTAGTCCAAA
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:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (18 bp):
TACATCGCCCCTGTATTT
Found at i:47816103 original size:13 final size:13
Alignment explanation
Indices: 47816085--47816110 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47816075 GGGCCACCCC
47816085 CAAAACCCAATAA
1 CAAAACCCAATAA
47816098 CAAAACCCAATAA
1 CAAAACCCAATAA
47816111 ACCAAATAAA
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:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAACCCAATAA
Found at i:47816932 original size:11 final size:11
Alignment explanation
Indices: 47816916--47816950 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
47816906 CCCTTCCCCC
47816916 CTCCCTTCTCT
1 CTCCCTTCTCT
47816927 CTCCCTTCTCT
1 CTCCCTTCTCT
47816938 CTTCCC-TCTCT
1 C-TCCCTTCTCT
47816949 CT
1 CT
47816951 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:47817438 original size:3 final size:3
Alignment explanation
Indices: 47817430--47817454 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47817420 TGTATTTCAA
47817430 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
47817455 GTACATTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47817543 original size:122 final size:124
Alignment explanation
Indices: 47817417--47817659 Score: 316
Period size: 122 Copynumber: 2.0 Consensus size: 124
47817407 ATATTACATT
* * * *
47817417 TTTTGTATTTCAATATTATTATTATTATTATTATTATTGTACATTAGTGTATA-TCTTCATGT-A
1 TTTTGTATTTCAATATTATTATTATTATTATTATCATT-AACATTACTATATATTCTT-AT-TAA
* * *
47817480 TGTATATAT-ATGTAGTAATGTTTTT-ATTACTTTATTTTAATAT-TTTTTATTATAATAGC
63 TGTATATATAATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
*
47817539 TTTTGTATTTCAATATTATTATTTTTATTATTATCATTAACATTACTATATATTCTTATTAGATG
1 TTTTGTATTTCAATATTATTATTATTATTATTATCATTAACATTACTATATATTCTTATTA-ATG
* *
47817604 TATATATACATATATTACTGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
65 TATATATA-ATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
47817660 TTTACTTTTT
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
120 1 0.01
121 13 0.12
122 50 0.48
124 13 0.12
125 17 0.16
126 10 0.10
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (124 bp):
TTTTGTATTTCAATATTATTATTATTATTATTATCATTAACATTACTATATATTCTTATTAATGT
ATATATAATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
Found at i:47817961 original size:11 final size:11
Alignment explanation
Indices: 47817945--47817971 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47817935 GTACGTATTG
47817945 TATATGTTCTA
1 TATATGTTCTA
47817956 TATATGTTCTA
1 TATATGTTCTA
47817967 TATAT
1 TATAT
47817972 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:47821138 original size:17 final size:16
Alignment explanation
Indices: 47821107--47821148 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
47821097 AGGGTCGTAG
*
47821107 AAAATAAACAAAAAAT
1 AAAAAAAACAAAAAAT
47821123 AAAAAAAACAATAAAAT
1 AAAAAAAACAA-AAAAT
47821140 AAATAAAAA
1 AAA-AAAAA
47821149 ACACAAGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 8 0.35
18 5 0.22
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAAAACAAAAAAT
Found at i:47821763 original size:16 final size:16
Alignment explanation
Indices: 47821723--47821763 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
47821713 TAACAATTTA
* *
47821723 AACCCTAAAATAATAT
1 AACCCTAAACTAAAAT
47821739 AA-CCT-AACTAAAAT
1 AACCCTAAACTAAAAT
47821753 AACCCTAAACT
1 AACCCTAAACT
47821764 TTAAAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 9 0.43
15 6 0.29
16 6 0.29
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (16 bp):
AACCCTAAACTAAAAT
Found at i:47823233 original size:17 final size:17
Alignment explanation
Indices: 47823204--47823241 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47823194 TAATAATATT
*
47823204 ATTAAAATAAAAACTAA
1 ATTAAAATAAAAAATAA
47823221 ATTATAAAT-AAAAATAA
1 ATTA-AAATAAAAAATAA
47823238 ATTA
1 ATTA
47823242 CATAGACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAATAAAAAATAA
Found at i:47841280 original size:24 final size:25
Alignment explanation
Indices: 47841247--47841297 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
47841237 TAATCCTTTA
*
47841247 AAAATTATAAAA-AAATAGTCTATT
1 AAAATGATAAAATAAATAGTCTATT
*
47841271 AAAATGATAAAATTATATAGTCTATT
1 AAAATGATAAAA-TAAATAGTCTATT
47841297 A
1 A
47841298 TAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAATGATAAAATAAATAGTCTATT
Found at i:47841339 original size:16 final size:16
Alignment explanation
Indices: 47841311--47841359 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
47841301 AAATATAGAC
47841311 TATAAAAAT-ATAATT
1 TATAAAAATAATAATT
*
47841326 TTTAAAAATAATAA-T
1 TATAAAAATAATAATT
*
47841341 CATAAAAATATATAATT
1 TATAAAAATA-ATAATT
47841358 TA
1 TA
47841360 ATTATGACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 17 0.63
16 8 0.30
17 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TATAAAAATAATAATT
Found at i:47843053 original size:5 final size:6
Alignment explanation
Indices: 47843008--47843060 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
47842998 TTAGTTCATC
** * *
47843008 TTTATT TTTCCT TTTATT TCTATT TGTAGTGT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT
47843058 TTT
1 TTT
47843061 TTAATTTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 32 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:47843094 original size:3 final size:3
Alignment explanation
Indices: 47843086--47843125 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
47843076 TTTTTAATCC
47843086 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47843126 TCTCCTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47845193 original size:11 final size:11
Alignment explanation
Indices: 47845177--47845207 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
47845167 CCTTCAAAAA
47845177 TTCTCTTAAGT
1 TTCTCTTAAGT
47845188 TTCTCTTAAGT
1 TTCTCTTAAGT
47845199 TTCTCTTAA
1 TTCTCTTAA
47845208 CTTCCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:47846369 original size:7 final size:7
Alignment explanation
Indices: 47846357--47846381 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47846347 AGTCGATTGA
47846357 TATTTAG
1 TATTTAG
47846364 TATTTAG
1 TATTTAG
47846371 TATTTAG
1 TATTTAG
47846378 TATT
1 TATT
47846382 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:47847243 original size:24 final size:24
Alignment explanation
Indices: 47847228--47847276 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47847218 AACACCGTCG
47847228 CCGGTCGTGATGCAAACACCTCCA
1 CCGGTCGTGATGCAAACACCTCCA
47847252 CCGGTCGTGATGCAAACACCTCCA
1 CCGGTCGTGATGCAAACACCTCCA
47847276 C
1 C
47847277 ATACACTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.16
Consensus pattern (24 bp):
CCGGTCGTGATGCAAACACCTCCA
Done.