Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 14 of 203
Found at i:4656877 original size:36 final size:35
Alignment explanation
Indices: 4656814--4657002 Score: 125
Period size: 35 Copynumber: 5.3 Consensus size: 35
4656804 CTAGCGCAAC
* *
4656814 GCACATTTA-TTTTCGGTTATACCGACCAGTGATGG
1 GCACACTTATTTTTCAGTTATACCGACCAGTG-TGG
* ** * *
4656849 GCACACTTATTTTTCAGTTCTATTGACCAGCGTAG
1 GCACACTTATTTTTCAGTTATACCGACCAGTGTGG
* *
4656884 G-ATGCATTTA-TTGTCAGTTATACCGACCAGTGCTGG
1 GCA--CACTTATTTTTCAGTTATACCGACCAGTG-TGG
* * * ** *
4656920 GCATACTTATTTTTCGGTTCTATAGACCAGCGTAGG
1 GCACACTTATTTTTCAGTTATACCGACCAGTGT-GG
* * * *
4656956 GCACATTTA-TTATCAGTTATACCGACTAGTGCTAG
1 GCACACTTATTTTTCAGTTATACCGACCAGTG-TGG
4656991 GCACACTTATTT
1 GCACACTTATTT
4657003 GTTGGTTTTA
Statistics
Matches: 112, Mismatches: 33, Indels: 17
0.69 0.20 0.10
Matches are distributed among these distances:
34 1 0.01
35 57 0.51
36 53 0.47
37 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (35 bp):
GCACACTTATTTTTCAGTTATACCGACCAGTGTGG
Found at i:4656976 original size:142 final size:142
Alignment explanation
Indices: 4656711--4657049 Score: 396
Period size: 142 Copynumber: 2.4 Consensus size: 142
4656701 ATTGAATGGC
4656711 CACTTA-TTGTCAGTTCTACTGACCAGCGCAGGACACATTTATTGTCGATTATACCGACCAGTGC
1 CACTTATTTGTCAGTTCTACTGACCAGCGCAGGACACATTTATTGTCGATTATACCGACCAGTGC
** * * *
4656775 TGGGCACGTTTATTCTTCAGTTCTATCAACTAGCGCAACGCACATTTATTTTCGGTTATACCGAC
66 TGGGCACACTTATTCTTCAGTTCTATCAACCAGCGCAACGCACATTTATTATCAGTTATACCGAC
*
4656840 CAGTGATGGGCA
131 CAGTGATAGGCA
* * * **
4656852 CACTTATTTTTCAGTTCTATTGACCAGCGTAGGATGCATTTATTGTC-AGTTATACCGACCAGTG
1 CACTTATTTGTCAGTTCTACTGACCAGCGCAGGACACATTTATTGTCGA-TTATACCGACCAGTG
* * * * **
4656916 CTGGGCATACTTATTTTTCGGTTCTAT-AGACCAGCGTAGGGCACATTTATTATCAGTTATACCG
65 CTGGGCACACTTATTCTTCAGTTCTATCA-ACCAGCGCAACGCACATTTATTATCAGTTATACCG
* *
4656980 ACTAGTGCTAGGCA
129 ACCAGTGATAGGCA
** * * * * *
4656994 CACTTATTTGTTGGTTTTACTGACCAGTGTAGGACATATTTATTTTTCGATTATAC
1 CACTTATTTGTCAGTTCTACTGACCAGCGCAGGACACATTTA-TTGTCGATTATAC
4657050 TGGCAAGTGC
Statistics
Matches: 164, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
141 8 0.05
142 145 0.88
143 10 0.06
144 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (142 bp):
CACTTATTTGTCAGTTCTACTGACCAGCGCAGGACACATTTATTGTCGATTATACCGACCAGTGC
TGGGCACACTTATTCTTCAGTTCTATCAACCAGCGCAACGCACATTTATTATCAGTTATACCGAC
CAGTGATAGGCA
Found at i:4657019 original size:71 final size:70
Alignment explanation
Indices: 4656723--4657037 Score: 321
Period size: 71 Copynumber: 4.4 Consensus size: 70
4656713 CTTATTGTCA
* * **
4656723 GTTCTACTGACCAGCGCAGGACACATTTATTGTC-GATTATACCGACCAGTGCTGGGCACGTTTA
1 GTTCTA-TGACCAGCGTAGGACACATTTATTATCAG-TTATACCGACCAGTGCTGGGCACACTTA
* *
4656787 TTCTTCA
64 TTTTTCG
* * * * * * *
4656794 GTTCTATCAACTAGCGCAACG-CACATTTATTTTCGGTTATACCGACCAGTGATGGGCACACTTA
1 GTTCTAT-GACCAGCG-TAGGACACATTTATTATCAGTTATACCGACCAGTGCTGGGCACACTTA
*
4656858 TTTTTCA
64 TTTTTCG
** * *
4656865 GTTCTATTGACCAGCGTAGGATGCATTTATTGTCAGTTATACCGACCAGTGCTGGGCATACTTAT
1 GTTCTA-TGACCAGCGTAGGACACATTTATTATCAGTTATACCGACCAGTGCTGGGCACACTTAT
4656930 TTTTCG
65 TTTTCG
* * *
4656936 GTTCTATAGACCAGCGTAGGGCACATTTATTATCAGTTATACCGACTAGTGCTAGGCACACTTAT
1 GTTCTAT-GACCAGCGTAGGACACATTTATTATCAGTTATACCGACCAGTGCTGGGCACACTTAT
4657001 TTGTT-G
65 TT-TTCG
* * *
4657007 GTTTTACTGACCAGTGTAGGACATATTTATT
1 GTTCTA-TGACCAGCGTAGGACACATTTATT
4657038 TTTCGATTAT
Statistics
Matches: 205, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
70 4 0.02
71 194 0.95
72 7 0.03
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (70 bp):
GTTCTATGACCAGCGTAGGACACATTTATTATCAGTTATACCGACCAGTGCTGGGCACACTTATT
TTTCG
Found at i:4665691 original size:11 final size:13
Alignment explanation
Indices: 4665671--4665702 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4665661 AATAAATTAA
4665671 TAAAATATCAT-T
1 TAAAATATCATAT
4665683 TAAAA-ATCATAT
1 TAAAATATCATAT
4665695 TAAAATAT
1 TAAAATAT
4665703 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:4667864 original size:19 final size:19
Alignment explanation
Indices: 4667829--4667871 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4667819 TTTTATGTGG
*
4667829 TTATTTGATCTATTTTGAC
1 TTATTTGATCTAGTTTGAC
4667848 ATTATTT-ATCTAGTTTGAC
1 -TTATTTGATCTAGTTTGAC
4667867 TTATT
1 TTATT
4667872 CTTTTGATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (19 bp):
TTATTTGATCTAGTTTGAC
Found at i:4668576 original size:17 final size:18
Alignment explanation
Indices: 4668554--4668592 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
4668544 ACTGAATTAG
4668554 AATTTGATTGAAA-AAA-T
1 AATTTGATT-AAAGAAATT
4668571 AATTTGATTAAAGAAATT
1 AATTTGATTAAAGAAATT
4668589 AATT
1 AATT
4668593 AATTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 12 0.60
18 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
AATTTGATTAAAGAAATT
Found at i:4668593 original size:13 final size:13
Alignment explanation
Indices: 4668567--4668625 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
4668557 TTGATTGAAA
* *
4668567 AAATAATTTGATT
1 AAATAAATTAATT
*
4668580 AAAGAAATTAATT
1 AAATAAATTAATT
*
4668593 AATTAAATTAATT
1 AAATAAATTAATT
*
4668606 -AATTAATTAATT
1 AAATAAATTAATT
*
4668618 AAACAAAT
1 AAATAAAT
4668626 AATATTTTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
12 10 0.28
13 26 0.72
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (13 bp):
AAATAAATTAATT
Found at i:4668594 original size:4 final size:4
Alignment explanation
Indices: 4668585--4668619 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
4668575 TGATTAAAGA
4668585 AATT AATT AATT AAATT AATT AATT AATT AATT AA
1 AATT AATT AATT -AATT AATT AATT AATT AATT AA
4668620 ACAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:4668597 original size:17 final size:17
Alignment explanation
Indices: 4668577--4668615 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4668567 AAATAATTTG
4668577 ATTAAAGAAATTAATTA
1 ATTAAAGAAATTAATTA
**
4668594 ATTAAATTAATTAATTA
1 ATTAAAGAAATTAATTA
4668611 ATTAA
1 ATTAA
4668616 TTAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTAAAGAAATTAATTA
Found at i:4669513 original size:15 final size:17
Alignment explanation
Indices: 4669494--4669534 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
4669484 TAATTTTTTA
4669494 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
4669510 -AAATTATAAAAATAAT
1 AAAATTATAAAAATAAT
4669526 AAAATTATA
1 AAAATTATA
4669535 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.57
16 2 0.09
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:4680743 original size:21 final size:20
Alignment explanation
Indices: 4680717--4680759 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4680707 TAAAAATCGG
4680717 TAGAAT-TATTATTTCAGAAAA
1 TAGAATCTA-TATTT-AGAAAA
*
4680738 TAGAATCTATATTTATAAAA
1 TAGAATCTATATTTAGAAAA
4680758 TA
1 TA
4680760 AACTCTCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 11 0.55
22 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
TAGAATCTATATTTAGAAAA
Found at i:4685251 original size:21 final size:21
Alignment explanation
Indices: 4685205--4685260 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
4685195 TACTCGCTCA
*
4685205 AATGTTGCGACCTTCAATACTG
1 AATGTTGCGA-CTTCAATACTC
*
4685227 AATGTTGCGACTTC-ATAGTCC
1 AATGTTGCGACTTCAATACT-C
*
4685248 AATGTTGCAACTT
1 AATGTTGCGACTT
4685261 TGCTTCCTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 10 0.33
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (21 bp):
AATGTTGCGACTTCAATACTC
Found at i:4686814 original size:76 final size:77
Alignment explanation
Indices: 4686668--4686820 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 77
4686658 AGTAAGTAAG
4686668 ATCTAAGTTCCTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTAGTGGGTC
1 ATCTAAGTTCCTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTAGTGGGTC
4686733 ATCTATCAAATT
66 ATCTATCAAATT
*
4686745 ATCTAAGTTCCTTCGCATCACTCTTGTCAA-TTTTTTTTTCTGGAATTGGTTTAATTATTGGGTC
1 ATCTAAGTTCCTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTAGTGGGTC
4686809 ATCTATCAAATT
66 ATCTATCAAATT
4686821 GCTTGTTGTT
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 45 0.60
77 30 0.40
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (77 bp):
ATCTAAGTTCCTTCGCATCACTCTTGTCAATTTTTTTTTTCTGGAATTGGTTTAATTAGTGGGTC
ATCTATCAAATT
Found at i:4695995 original size:19 final size:20
Alignment explanation
Indices: 4695963--4696012 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4695953 CTTAGGGACT
* *
4695963 AATTTGAAATAAATAAGA-A
1 AATTTCAAAAAAATAAGAGA
*
4695982 AATTTCAAAAAAATATGAGA
1 AATTTCAAAAAAATAAGAGA
4696002 AATTTCAAAAA
1 AATTTCAAAAA
4696013 CAAGGGACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (20 bp):
AATTTCAAAAAAATAAGAGA
Found at i:4709007 original size:25 final size:25
Alignment explanation
Indices: 4708949--4709012 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
4708939 TCGCATAATA
* *
4708949 CGCCATAAAGGCTTTATAGAGACTT
1 CGCCACAAAGGCTTTATAGAGAATT
*
4708974 CATCC-CAAAGGCTTTATAGAGAATT
1 C-GCCACAAAGGCTTTATAGAGAATT
*
4708999 CGCCACAAATGCTT
1 CGCCACAAAGGCTT
4709013 GGTTTGAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.06
25 28 0.88
26 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
CGCCACAAAGGCTTTATAGAGAATT
Found at i:4710288 original size:16 final size:16
Alignment explanation
Indices: 4710252--4710288 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4710242 AAAACATCTT
4710252 AAAAATAAATAGTATA
1 AAAAATAAATAGTATA
* *
4710268 TAAAATAGATAGTATA
1 AAAAATAAATAGTATA
4710284 AAAAA
1 AAAAA
4710289 ATTTTGCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
AAAAATAAATAGTATA
Found at i:4711565 original size:12 final size:12
Alignment explanation
Indices: 4711548--4711573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4711538 CTCATAACCA
4711548 AATGATTCTAAT
1 AATGATTCTAAT
4711560 AATGATTCTAAT
1 AATGATTCTAAT
4711572 AA
1 AA
4711574 CAAGATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AATGATTCTAAT
Found at i:4717755 original size:50 final size:50
Alignment explanation
Indices: 4717642--4717937 Score: 244
Period size: 50 Copynumber: 5.8 Consensus size: 50
4717632 ATTTGGGTAA
* *
4717642 AGAGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* * *
4717698 AGAGGTCCCATGTAAGACCATGTCTCGGAAATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
4717748 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGTGC--TGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACAT-G-GCATTGGCACCGAGACG
* * * * *
4717798 AGAGGCCCCCA--TAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * * *
4717847 AGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGACG
* ** * *
4717896 AAACATCCCATGTAAGACCATGTCCGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
4717938 TGTTATTATC
Statistics
Matches: 201, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
47 2 0.01
48 5 0.02
49 70 0.35
50 73 0.36
51 5 0.02
52 3 0.01
53 4 0.02
55 2 0.01
56 37 0.18
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:4719730 original size:48 final size:48
Alignment explanation
Indices: 4719642--4719880 Score: 307
Period size: 48 Copynumber: 5.0 Consensus size: 48
4719632 TAGATTTCTC
* * * * ** * * *
4719642 GGTGGCCTACACACAGTCCGTACCACCTTTGTGTAATAACAGACTCTC
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
* *
4719690 GGTGGCCTGCACATAGTCCGTGCCACCCCTGTATCTTAACAGAATATT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
* *
4719738 GGTGGCCTACACACAGTACGTGCCACCCTTGTATCTTAACAGAATATT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
* *
4719786 GGTGGTCTGCAAACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
* * * *
4719834 GGTGGCCTGTACACAGTCCGTGCCAACCTTGTATCTCAATAGAATAT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATAT
4719881 CAGTACTTAT
Statistics
Matches: 166, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 166 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
Found at i:4723163 original size:29 final size:29
Alignment explanation
Indices: 4723109--4723182 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
4723099 ATGGAGTACA
**
4723109 CCACAAAGGCT--ATATATATAGTGTATG
1 CCACAAAGGCTACATATATATAAAGTATG
4723136 CCACAAAGGCTACATATATATAAAGTATG
1 CCACAAAGGCTACATATATATAAAGTATG
*
4723165 CCACAAAGGCAACATATA
1 CCACAAAGGCTACATATA
4723183 CAGAGTACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 11 0.26
29 31 0.74
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (29 bp):
CCACAAAGGCTACATATATATAAAGTATG
Found at i:4731826 original size:167 final size:167
Alignment explanation
Indices: 4731545--4731988 Score: 746
Period size: 167 Copynumber: 2.7 Consensus size: 167
4731535 TGTAAGTCTT
* * *
4731545 ATGTTGAGTATCAAATTCATTTGGGATTCTATTTGATAAT-TAAAACATTGTATCCAACGAAATA
1 ATGTTGAGTATCAAAGTCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
* *
4731609 AGTTCGTTGTTGGGATCAACTTGAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
66 AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
4731674 CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
131 CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
* *
4731711 ATGTTAAGTATCAAAGTCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATT
1 ATGTTGAGTATCAAAGTCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
* * *
4731776 ATTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAATACTGAAATAAGTT
66 AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
* *
4731841 CTCATGTTTTCACCGAAAATTATAGTTGGAAGTTCTC
131 CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
*
4731878 ATGTTGAGTATCAAAGTCATTTGGGATACTATTTGATAATCTAAAACATTGTATTCACCGAAATA
1 ATGTTGAGTATCAAAGTCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
* *
4731943 AGTTCGTTGTTGGGATCGACTTAAATATATGGTGTGACTAGAATTC
66 AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTC
4731989 TACCAGTTGC
Statistics
Matches: 259, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
166 38 0.15
167 221 0.85
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (167 bp):
ATGTTGAGTATCAAAGTCATTTGGGATTCTATTTGATAATCTAAAACATTGTATTCACCGAAATA
AGTTCGTTGTTGGGATCGACTTAAAGATATGGTGTGACTGGAATTCAACAACACCGAAATAAGTT
CTCATGTTTTCACCGAAAATTATAGGTGAAAGTTCTC
Found at i:4747073 original size:144 final size:144
Alignment explanation
Indices: 4746807--4747094 Score: 513
Period size: 144 Copynumber: 2.0 Consensus size: 144
4746797 AATATTTTAA
* *
4746807 TAGATGGATTTTATTAAGGTCATTCCATCTCACCAATTATGGTTTACTTTAGTCCATTTAGCCAT
1 TAGAGGGATTTTATTAAGATCATTCCATCTCACCAATTATGGTTTACTTTAGTCCATTTAGCCAT
* *
4746872 TTAATTGATCTCATCAATTAATGTGGTTCATTATTATCAAATTTTAACATGTTTAAAATTTGGCA
66 TTAATTGATCTCATCAATTAATGTGGTTCAATATTATCAAATTTTAACATGTATAAAATTTGGCA
4746937 TGCTTTAGACATCC
131 TGCTTTAGACATCC
*
4746951 TAGAGGGATTTTATTAAGATCGTTCCATCTCACCAATTATGGTTTACTTTAGTCCATTTAGCCAT
1 TAGAGGGATTTTATTAAGATCATTCCATCTCACCAATTATGGTTTACTTTAGTCCATTTAGCCAT
*
4747016 TTAATTGATCTCATCAATTAATGTGGTTCAATATTATCAAATTTTAACATGTATAAAATTTGGCC
66 TTAATTGATCTCATCAATTAATGTGGTTCAATATTATCAAATTTTAACATGTATAAAATTTGGCA
*
4747081 TGCTTTAGATATCC
131 TGCTTTAGACATCC
4747095 ATAGCATCTC
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 137 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.42
Consensus pattern (144 bp):
TAGAGGGATTTTATTAAGATCATTCCATCTCACCAATTATGGTTTACTTTAGTCCATTTAGCCAT
TTAATTGATCTCATCAATTAATGTGGTTCAATATTATCAAATTTTAACATGTATAAAATTTGGCA
TGCTTTAGACATCC
Found at i:4751714 original size:37 final size:37
Alignment explanation
Indices: 4751664--4751742 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
4751654 TTATTACGAA
* * *
4751664 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
4751701 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
4751738 GTCTT
1 GTCTT
4751743 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:4751939 original size:47 final size:47
Alignment explanation
Indices: 4751861--4752428 Score: 1064
Period size: 47 Copynumber: 12.1 Consensus size: 47
4751851 CCCTTCGGGA
* * * * * *
4751861 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
4751908 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4751955 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752049 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752190 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752331 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4752425 CTTA
1 CTTA
4752429 CTATCATTTC
Statistics
Matches: 511, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 511 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4759030 original size:16 final size:16
Alignment explanation
Indices: 4759009--4759079 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
4758999 GTTTGGTTTA
*
4759009 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
4759025 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
4759041 CTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
4759057 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
4759073 TTGTAAT
1 CTGTAAT
4759080 CAATAATTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.37, C:0.06, G:0.30, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:4761313 original size:23 final size:25
Alignment explanation
Indices: 4761261--4761313 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
4761251 TAATATACTT
* * *
4761261 AGCATATCACATATTTACTCAATTC
1 AGCATAACAAATATTTACTCAATTA
4761286 A-CATAACAAATATTTA-TCAA-TA
1 AGCATAACAAATATTTACTCAATTA
4761308 AGCATA
1 AGCATA
4761314 CACTGAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 2 0.08
23 8 0.33
24 13 0.54
25 1 0.04
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
AGCATAACAAATATTTACTCAATTA
Found at i:4767315 original size:43 final size:42
Alignment explanation
Indices: 4767207--4767334 Score: 138
Period size: 42 Copynumber: 3.0 Consensus size: 42
4767197 AACTCGTACA
* *
4767207 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCAAACACATATC
*
4767249 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGCAAACACATA-TC
* *
4767291 GATGCCAACGTCCCCGACGTGGTCTTACACG-ATGACACATATC
1 -ATGCCAACGTCCCAGACGTGGTCTTACACGCA-AACACATATC
4767334 A
1 A
4767335 GAAATCCTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
41 3 0.04
42 35 0.48
43 32 0.44
44 3 0.04
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCAAACACATATC
Found at i:4770789 original size:16 final size:16
Alignment explanation
Indices: 4770768--4770799 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4770758 ATAATATTAT
4770768 TTTAATAAATTTAATA
1 TTTAATAAATTTAATA
*
4770784 TTTAATTAATTTAATA
1 TTTAATAAATTTAATA
4770800 CTTATCCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATAAATTTAATA
Found at i:4770946 original size:58 final size:58
Alignment explanation
Indices: 4770761--4770947 Score: 159
Period size: 58 Copynumber: 3.2 Consensus size: 58
4770751 TCAAAAAATA
* * * * *
4770761 ATATTATTTTAATAAATTTAATATTTAA-TTAATTTAATACTTATCCT-GAT-AGCATT
1 ATATTAATTTAATATATTTAATATTAAATTTAATTTAATATTTAT-CTGGATAAGTATT
* * ** * *
4770817 TTATTAATTT-A-ATATTAAAGTGATTATCTTAATATTTAATATTTATCTTGTAGATAAATATT
1 ATATTAATTTAATATATTTAA-T-ATTAAATTTA-ATTTAATATTTATC-TG--GATAAGTATT
* *
4770879 CTATTAATTTAATATATTTAATATTAAATTTAATCTAATATTTATCTGGATAAGTATT
1 ATATTAATTTAATATATTTAATATTAAATTTAATTTAATATTTATCTGGATAAGTATT
4770937 ATATTAATTTA
1 ATATTAATTTA
4770948 CTATTAAAGT
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
54 6 0.06
55 2 0.02
56 11 0.11
57 3 0.03
58 32 0.32
60 2 0.02
61 16 0.16
62 20 0.20
63 2 0.02
64 7 0.07
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (58 bp):
ATATTAATTTAATATATTTAATATTAAATTTAATTTAATATTTATCTGGATAAGTATT
Found at i:4770963 original size:58 final size:60
Alignment explanation
Indices: 4770818--4770971 Score: 163
Period size: 58 Copynumber: 2.6 Consensus size: 60
4770808 GATAGCATTT
** * * *
4770818 TATTAATTTAATATTAAAGTGATTATCTTAATATTTAATATTTATCTTGTAGATAAATATTC
1 TATTAATTTAATATTAAAGTGATTAAATTTA-ATCTAATATTTATCTTG-AGATAAATATTA
* *
4770880 TATTAATTTAATATATTTAA-T-ATTAAATTTAATCTAATATTTATC-TG-GATAAGTATTA
1 TATTAATTT-A-ATATTAAAGTGATTAAATTTAATCTAATATTTATCTTGAGATAAATATTA
* *
4770938 TATTAATTTACTATTAAAGTGATTAAGTTTAATC
1 TATTAATTTAATATTAAAGTGATTAAATTTAATC
4770972 ATAGTTGAAC
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
56 6 0.08
57 2 0.03
58 30 0.38
60 2 0.03
61 13 0.17
62 16 0.21
63 2 0.03
64 7 0.09
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (60 bp):
TATTAATTTAATATTAAAGTGATTAAATTTAATCTAATATTTATCTTGAGATAAATATTA
Found at i:4772848 original size:27 final size:27
Alignment explanation
Indices: 4772810--4772870 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
4772800 TTAGGTAGGC
4772810 GCCAATGAATGTGCCTCATAGAGAGGT
1 GCCAATGAATGTGCCTCATAGAGAGGT
*
4772837 GCCAATGAATGTGCCTCATAGGGAGGT
1 GCCAATGAATGTGCCTCATAGAGAGGT
4772864 GCCAATG
1 GCCAATG
4772871 GTGGCCTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (27 bp):
GCCAATGAATGTGCCTCATAGAGAGGT
Found at i:4773001 original size:17 final size:17
Alignment explanation
Indices: 4772978--4773019 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
4772968 AGAAAAAAAA
*
4772978 AAGAGAGAGAAAGGAGAAG
1 AAGAGA-AG-AAGAAGAAG
4772997 AAGAGAAGAAGAAGAAG
1 AAGAGAAGAAGAAGAAG
4773014 AA-AGAA
1 AAGAGAA
4773020 AAAAAAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 2 0.09
19 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AAGAGAAGAAGAAGAAG
Found at i:4773181 original size:21 final size:21
Alignment explanation
Indices: 4773156--4773341 Score: 176
Period size: 21 Copynumber: 9.1 Consensus size: 21
4773146 TGGGTTAGTA
*
4773156 TTTTGTATGAATATTCTAATT
1 TTTTGTATGAATATTGTAATT
*
4773177 TTTTGTATGAATATTATAA--
1 TTTTGTATGAATATTGTAATT
4773196 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
4773215 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
4773236 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
4773258 TATAGTTTTGGAT-TAGT-A--
1 TTTTG-TATGAATATTGTAATT
4773276 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
4773297 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
4773318 TTTTGGTATGAATATTGTAATT
1 TTTT-GTATGAATATTGTAATT
4773340 TT
1 TT
4773342 GTAATTTTGT
Statistics
Matches: 137, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
17 5 0.04
18 6 0.04
19 38 0.28
20 4 0.03
21 47 0.34
22 29 0.21
23 8 0.06
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:4773366 original size:120 final size:118
Alignment explanation
Indices: 4773137--4773366 Score: 322
Period size: 120 Copynumber: 1.9 Consensus size: 118
4773127 ATATTTAGTG
*
4773137 TTTATAGTTTGGGTTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTATAATTTTGT
1 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTATAATTTTGT
* *
4773202 ATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTA
66 ATGAATATTGTAATTTTG-ATGAATATTGTAATAATATTATAATTAAATTTGTA
* *
4773256 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTT
1 TTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTATAA--TTT
* *
4773321 TGGTATGAATATTGTAATTTTG-T-AATTTTGT-ATGAATATTGTAATT
63 T-GTATGAATATTGTAATTTTGATGAATATTGTAAT-AATATTATAATT
4773367 TCGGGATATA
Statistics
Matches: 99, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
119 9 0.09
120 65 0.66
121 1 0.01
122 4 0.04
123 20 0.20
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (118 bp):
TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTATAATTTTGT
ATGAATATTGTAATTTTGATGAATATTGTAATAATATTATAATTAAATTTGTA
Found at i:4773367 original size:19 final size:19
Alignment explanation
Indices: 4773155--4773344 Score: 163
Period size: 19 Copynumber: 9.4 Consensus size: 19
4773145 TTGGGTTAGT
*
4773155 ATTTTGTATGAATATTCTA
1 ATTTTGTATGAATATTGTA
*
4773174 ATTTTTTGTATGAATATTATA
1 A--TTTTGTATGAATATTGTA
4773195 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
4773214 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
4773233 ATTATTTTAT-AATTAAATTTGT-
1 ATT-TTGTATGAA-T--A-TTGTA
* * *
4773255 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
4773275 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
4773294 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
4773315 ATTTTTTGGTATGAATATTGTA
1 A--TTTT-GTATGAATATTGTA
4773337 ATTTTGTA
1 ATTTTGTA
4773345 ATTTTGTATG
Statistics
Matches: 145, Mismatches: 10, Indels: 32
0.78 0.05 0.17
Matches are distributed among these distances:
17 5 0.03
18 4 0.03
19 47 0.32
20 17 0.12
21 44 0.30
22 20 0.14
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.55
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:4773472 original size:60 final size:60
Alignment explanation
Indices: 4773406--4773527 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
4773396 TGTATGAATA
* * * * *
4773406 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
* *
4773466 TTGTAATTATTTAAAATTTAATTTATTTGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
4773526 TT
1 TT
4773528 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:4773665 original size:16 final size:15
Alignment explanation
Indices: 4773644--4773680 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
4773634 CTCATTTAAT
4773644 TTTTATATAATGTAA
1 TTTTATATAATGTAA
*
4773659 CTTTTATATAATTTAA
1 -TTTTATATAATGTAA
4773675 TTTTAT
1 TTTTAT
4773681 TTGATTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:4774270 original size:162 final size:162
Alignment explanation
Indices: 4774003--4774325 Score: 628
Period size: 162 Copynumber: 2.0 Consensus size: 162
4773993 TTCGGATCAG
*
4774003 CGGCATTGATTCGGACTTTTGATCTGCAATACGACTTGATTTCCGCTTTAGTCGAGCGATGGCGT
1 CGGCATTGATCCGGACTTTTGATCTGCAATACGACTTGATTTCCGCTTTAGTCGAGCGATGGCGT
4774068 CCGGAGACCCACACATTTTATTTGTCGTGCGGAGAGTGTGTCGTCACTCTAGAGGATGTTGCAGT
66 CCGGAGACCCACACATTTTATTTGTCGTGCGGAGAGTGTGTCGTCACTCTAGAGGATGTTGCAGT
4774133 ACAGCTCGGGCTTCCCATAGACGGGAATGCGA
131 ACAGCTCGGGCTTCCCATAGACGGGAATGCGA
*
4774165 CGGCATTTATCCGGACTTTTGATCTGCAATACGACTTGATTTCCGCTTTAGTCGAGCGATGGCGT
1 CGGCATTGATCCGGACTTTTGATCTGCAATACGACTTGATTTCCGCTTTAGTCGAGCGATGGCGT
4774230 CCGGAGACCCACACATTTTATTTGTCGTGCGGAGAGTGTGTCGTCACTCTAGAGGATGTTGCAGT
66 CCGGAGACCCACACATTTTATTTGTCGTGCGGAGAGTGTGTCGTCACTCTAGAGGATGTTGCAGT
4774295 ACAGCTCGGGCTTCCCATAGACGGGAATGCG
131 ACAGCTCGGGCTTCCCATAGACGGGAATGCG
4774326 GTCACGGGGA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 159 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (162 bp):
CGGCATTGATCCGGACTTTTGATCTGCAATACGACTTGATTTCCGCTTTAGTCGAGCGATGGCGT
CCGGAGACCCACACATTTTATTTGTCGTGCGGAGAGTGTGTCGTCACTCTAGAGGATGTTGCAGT
ACAGCTCGGGCTTCCCATAGACGGGAATGCGA
Found at i:4778789 original size:27 final size:27
Alignment explanation
Indices: 4778736--4778813 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
4778726 GAAAAATCAA
* * *
4778736 ACCATTGGCGCCTCTCA-ACATGACACC
1 ACCAATGGCGCCTCTCAGATA-GGCACC
*
4778763 ACTAATGGCGCCTCTCAGATAGGCACC
1 ACCAATGGCGCCTCTCAGATAGGCACC
* *
4778790 ACCATTGGCGCCTCTGAGATAGGC
1 ACCAATGGCGCCTCTCAGATAGGC
4778814 GCCAATACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.24, C:0.35, G:0.22, T:0.19
Consensus pattern (27 bp):
ACCAATGGCGCCTCTCAGATAGGCACC
Found at i:4779678 original size:25 final size:26
Alignment explanation
Indices: 4779644--4779695 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
4779634 TTGGTAGTTG
*
4779644 ATTATTGTT-ATTAAATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
*
4779669 ATTATTGTTAAATATATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
4779695 A
1 A
4779696 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAA
Found at i:4779753 original size:61 final size:57
Alignment explanation
Indices: 4779658--4779794 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 57
4779648 TTGTTATTAA
* * * * * *
4779658 ATTTTAATAAAATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAAT-AAAAT---AATAAATAATTTAATAAC
* *
4779719 ATTTTAACATAATTATTATTAAAAATAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAC
4779776 ATTCTTAATATAATTATTA
1 ATT-TTAATATAATTATTA
4779795 ATAATATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 18 0.27
58 14 0.21
60 5 0.08
61 29 0.44
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAC
Found at i:4779772 original size:12 final size:11
Alignment explanation
Indices: 4779705--4779823 Score: 61
Period size: 12 Copynumber: 10.5 Consensus size: 11
4779695 AATAAAAATA
4779705 AATAATTTAAT
1 AATAATTTAAT
* *
4779716 CATATTTTAACAT
1 AATAATTT-A-AT
* *
4779729 AATTATTATTAAA
1 AA-TAAT-TTAAT
4779742 AATAATTTAAT
1 AATAATTTAAT
4779753 AA-AA--TAAT
1 AATAATTTAAT
4779761 ATATAATTTAAT
1 A-ATAATTTAAT
* *
4779773 AACATTCTTAAT
1 AATAAT-TTAAT
4779785 -ATAATTATTAAT
1 AATAA-T-TTAAT
4779797 AAT-ATTTAAT
1 AATAATTTAAT
4779807 AATAATTTTAAT
1 AATAA-TTTAAT
4779819 -ATAAT
1 AATAAT
4779824 ATTATTATTA
Statistics
Matches: 84, Mismatches: 11, Indels: 27
0.69 0.09 0.22
Matches are distributed among these distances:
8 5 0.06
9 1 0.01
10 13 0.15
11 23 0.27
12 27 0.32
13 8 0.10
14 5 0.06
15 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:4779818 original size:34 final size:35
Alignment explanation
Indices: 4779757--4779827 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
4779747 TTTAATAAAA
*
4779757 TAATATATAATTTAATAACATTCTTAATATAATTAT
1 TAATATATAATTTAATAAAATTCTTAATATAA-TAT
4779793 TAATA-AT-ATTTAATAATAATT-TTAATATAATAT
1 TAATATATAATTTAATAA-AATTCTTAATATAATAT
4779826 TA
1 TA
4779828 TTATTAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
33 5 0.15
34 18 0.55
35 5 0.15
36 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (35 bp):
TAATATATAATTTAATAAAATTCTTAATATAATAT
Found at i:4784578 original size:3 final size:3
Alignment explanation
Indices: 4784570--4784638 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
4784560 TTTAGATTCT
* * *
4784570 ATA ATA ATA ATA ATA ATA ATA ATAA ATA CAGTT AGA A-A AT- TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA -A-TA ATA ATA ATA ATA ATA
*
4784616 TTA CATA ATA ATA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA A
4784639 ATACAGTTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
2 3 0.06
3 42 0.79
4 7 0.13
5 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4784629 original size:44 final size:44
Alignment explanation
Indices: 4784576--4784665 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
4784566 TTCTATAATA
4784576 ATAATAATAATAATAATAAATACAGTTAGAAAATTTAATATTAC
1 ATAATAATAATAATAATAAATACAGTTAGAAAATTTAATATTAC
4784620 ATAATAATAATAATAATAAATACAGTTAGAAAATTTAATATTAC
1 ATAATAATAATAATAATAAATACAGTTAGAAAATTTAATATTAC
4784664 AT
1 AT
4784666 TATAGTATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (44 bp):
ATAATAATAATAATAATAAATACAGTTAGAAAATTTAATATTAC
Found at i:4784658 original size:22 final size:22
Alignment explanation
Indices: 4784589--4784659 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
4784579 ATAATAATAA
4784589 TAATAAATACAGTTAGAAAATT
1 TAATAAATACAGTTAGAAAATT
* * * *
4784611 TAAT-ATTACA-TAATAATAATAA
1 TAATAAATACAGTTAGAA-AAT-T
4784633 TAATAAATACAGTTAGAAAATT
1 TAATAAATACAGTTAGAAAATT
4784655 TAATA
1 TAATA
4784660 TTACATTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 8 0.22
22 13 0.35
23 8 0.22
24 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (22 bp):
TAATAAATACAGTTAGAAAATT
Found at i:4784659 original size:25 final size:25
Alignment explanation
Indices: 4784586--4784659 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
4784576 ATAATAATAA
4784586 TAATAATAAATACAGTTAGAAAATT
1 TAATAATAAATACAGTTAGAAAATT
* * *
4784611 TAATATTACATA-A--TA-ATAA--
1 TAATAATAAATACAGTTAGAAAATT
4784630 TAATAATAAATACAGTTAGAAAATT
1 TAATAATAAATACAGTTAGAAAATT
4784655 TAATA
1 TAATA
4784660 TTACATTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 10 0.27
20 1 0.03
21 3 0.08
22 4 0.11
23 3 0.08
24 1 0.03
25 15 0.41
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (25 bp):
TAATAATAAATACAGTTAGAAAATT
Found at i:4786017 original size:13 final size:13
Alignment explanation
Indices: 4786001--4786025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4785991 ATTCAACCCA
4786001 ACCCAACCCAATT
1 ACCCAACCCAATT
4786014 ACCCAACCCAAT
1 ACCCAACCCAAT
4786026 CCAATCATAA
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:4786017 original size:18 final size:18
Alignment explanation
Indices: 4785996--4786030 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4785986 CAAGTATTCA
4785996 ACCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
*
4786014 ACCCAACCCAATCCAAT
1 ACCCAACCCAACCCAAT
4786031 CATAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:4786151 original size:9 final size:9
Alignment explanation
Indices: 4786137--4786194 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
4786127 GTAGTGATTC
*
4786137 AATTTGGTT
1 AATTCGGTT
*
4786146 AATTTGGTT
1 AATTCGGTT
*
4786155 AATTCGGGT
1 AATTCGGTT
4786164 AATTCGGTT
1 AATTCGGTT
*
4786173 AATTCGGGT
1 AATTCGGTT
4786182 AATTCGGTT
1 AATTCGGTT
4786191 AATT
1 AATT
4786195 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4786166 original size:18 final size:18
Alignment explanation
Indices: 4786145--4786194 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
4786135 TCAATTTGGT
*
4786145 TAATTTGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
4786163 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
4786181 TAATTCGGTTAATT
1 TAATTCGGTTAATT
4786195 TTTAACCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:4786373 original size:12 final size:12
Alignment explanation
Indices: 4786356--4786380 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4786346 TGTTATTTCG
4786356 GGTCGGTTAACC
1 GGTCGGTTAACC
4786368 GGTCGGTTAACC
1 GGTCGGTTAACC
4786380 G
1 G
4786381 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:4788514 original size:22 final size:22
Alignment explanation
Indices: 4788489--4788532 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4788479 CTTAATGAAA
*
4788489 TGAAAGAAAAAAAAAAGAAAAT
1 TGAAAGAAAAAAAAAACAAAAT
* *
4788511 TGAAAGAATAGAAAAACAAAAT
1 TGAAAGAAAAAAAAAACAAAAT
4788533 CATAGAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (22 bp):
TGAAAGAAAAAAAAAACAAAAT
Found at i:4788730 original size:27 final size:27
Alignment explanation
Indices: 4788691--4788759 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
4788681 CCTTGGTTAC
* *
4788691 GCCAAAACGATTGGCGGCACCAAAGGT
1 GCCAAAGCCATTGGCGGCACCAAAGGT
* *
4788718 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAAAGCCATTGGCGGCACCAAAGGT
*
4788745 GCCAAAGGCATTGGC
1 GCCAAAGCCATTGGC
4788760 AGCATTACTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (27 bp):
GCCAAAGCCATTGGCGGCACCAAAGGT
Found at i:4788865 original size:11 final size:11
Alignment explanation
Indices: 4788849--4788888 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
4788839 AGTGTTGCGG
4788849 AAAAGAAGAGA
1 AAAAGAAGAGA
4788860 AAAAG-AGAGA
1 AAAAGAAGAGA
*
4788870 AAGAGAAGAGA
1 AAAAGAAGAGA
4788881 AAAAGAAG
1 AAAAGAAG
4788889 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:4788876 original size:21 final size:20
Alignment explanation
Indices: 4788848--4788886 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
4788838 AAGTGTTGCG
4788848 GAAAAGAAGAGAAAAAGAGA
1 GAAAAGAAGAGAAAAAGAGA
4788868 GAAAGAGAAGAGAAAAAGA
1 GAAA-AGAAGAGAAAAAGA
4788887 AGGTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAAGAAGAGAAAAAGAGA
Found at i:4789907 original size:18 final size:18
Alignment explanation
Indices: 4789892--4789928 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4789882 GTTGGTGGTG
*
4789892 AAGAAGAAGGTGGTGGCA
1 AAGAAGAAGATGGTGGCA
4789910 AAGAAGAAGATGGTGGCA
1 AAGAAGAAGATGGTGGCA
4789928 A
1 A
4789929 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.41, T:0.11
Consensus pattern (18 bp):
AAGAAGAAGATGGTGGCA
Found at i:4795715 original size:29 final size:29
Alignment explanation
Indices: 4795666--4795747 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
4795656 TTACCTTTTT
4795666 TTTTCTTTTTTTCCTTCCTTC-CCTCTT-C
1 TTTTCTTTTTTTCCTTCCTTCTCCT-TTCC
*
4795694 TTCTTCTTTTTTT-TTTCTCTTCTCCTTTCC
1 TT-TTCTTTTTTTCCTTC-CTTCTCCTTTCC
*
4795724 TTTTCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTT--TTTTCCTTCCTTCT
4795748 TTTTTCTTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
28 5 0.11
29 22 0.48
30 6 0.13
31 9 0.20
32 4 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTCTTTTTTTCCTTCCTTCTCCTTTCC
Found at i:4795716 original size:16 final size:16
Alignment explanation
Indices: 4795695--4795796 Score: 50
Period size: 15 Copynumber: 6.4 Consensus size: 16
4795685 TCCCTCTTCT
4795695 TCTTCTTTTTTTTTTC
1 TCTTCTTTTTTTTTTC
**
4795711 TCTTCTCCTTTCCTTTTC
1 TCTTCT--TTTTTTTTTC
* *
4795729 T-TTC-CTTTTCTTTC
1 TCTTCTTTTTTTTTTC
* *
4795743 -CTTCTTTTTTCTTCC
1 TCTTCTTTTTTTTTTC
* * *
4795758 CCTTTCCTTTTCTTCTTC
1 TC-TT-CTTTTTTTTTTC
*
4795776 T-TTCTTTGTTTTTTC
1 TCTTCTTTTTTTTTTC
4795791 TCTTCT
1 TCTTCT
4795797 CCTTCCCTTT
Statistics
Matches: 62, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
14 9 0.15
15 18 0.29
16 13 0.21
17 5 0.08
18 17 0.27
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (16 bp):
TCTTCTTTTTTTTTTC
Found at i:4795733 original size:10 final size:10
Alignment explanation
Indices: 4795718--4795745 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4795708 TTCTCTTCTC
4795718 CTTTCCTTTT
1 CTTTCCTTTT
4795728 CTTTCCTTTT
1 CTTTCCTTTT
4795738 CTTTCCTT
1 CTTTCCTT
4795746 CTTTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:4795796 original size:26 final size:25
Alignment explanation
Indices: 4795688--4795838 Score: 78
Period size: 26 Copynumber: 5.8 Consensus size: 25
4795678 CCTTCCTTCC
4795688 CTCTTCTTCTTCTTT-TTT--TTTT
1 CTCTTCTTCTTCTTTCTTTCCTTTT
*
4795710 CTCTTCTCCTTTCCTTTTCTTTCCTTTT
1 CTCTTCTTC-TT-C-TTTCTTTCCTTTT
* * *
4795738 CT-TTCCTTCTTTTTTCTTCCCCTTTC
1 CTCTT-CTTCTTCTTTCTT-TCCTTTT
* **
4795764 CTTTTCTTCTTCTTTCTTTGTTTTTT
1 CTCTTCTTCTTCTTTCTTT-CCTTTT
* * *
4795790 CTCTTCTCCTTCCCTTTTCTTTCCTCTC
1 CTCTTCTTCTT--C-TTTCTTTCCTTTT
4795818 CT-TTCGTTCTTTCTTTCTTTC
1 CTCTTC-TTC-TTCTTTCTTTC
4795839 TTTCCCTCTC
Statistics
Matches: 97, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
22 8 0.08
23 2 0.02
24 1 0.01
25 9 0.09
26 42 0.43
27 10 0.10
28 16 0.16
29 9 0.09
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.66
Consensus pattern (25 bp):
CTCTTCTTCTTCTTTCTTTCCTTTT
Found at i:4795800 original size:80 final size:80
Alignment explanation
Indices: 4795689--4795836 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 80
4795679 CTTCCTTCCC
* * * *
4795689 TCTTCTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTCTTTCCTTCTTT-TTT
1 TCTTCTTCTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTCTCCTTTCCTTCTTTCTTT
4795753 CTTCCCCTTTCCTTT
66 CTTCCCCTTTCCTTT
*
4795768 TCTTCTTCTTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTCTCCTTTCGTTCTTTCTT
1 TCTTCTTC-TTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTCTCCTTTCCTTCTTTCTT
4795833 TCTT
65 TCTT
4795837 TCTTTCCCTC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 8 0.13
80 48 0.77
81 6 0.10
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (80 bp):
TCTTCTTCTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTCTCCTTTCCTTCTTTCTTT
CTTCCCCTTTCCTTT
Found at i:4795806 original size:85 final size:79
Alignment explanation
Indices: 4795689--4795851 Score: 184
Period size: 85 Copynumber: 2.0 Consensus size: 79
4795679 CTTCCTTCCC
* * * *
4795689 TCTTCTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTCTTTCCTTCTTT-TTT
1 TCTTCTTCTTCTTTTTTTTTTCTCTCCTCCTTTCCTTTCCTCTCC-TTTCGTTCCTTCTTTCTTT
*
4795753 CTTCCCCTTTCCTTT
65 CTTCCCCTCTCCTTT
* *
4795768 TCTTCTTCTTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTCTCCTTTCGTTCTTTCTT
1 TCTTCTTC-TTCTTT-TTTTTT-TC-TCTCC-T-CCTTTCCTTTCCTCTCCTTTCGTTCCTTCTT
*
4795833 TCTTTCTTTCCCTCTCCTT
60 TCTTTCTTCCCCTCTCCTT
4795852 CTGCCCACCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
79 8 0.12
80 6 0.09
81 6 0.09
82 2 0.03
83 4 0.06
84 14 0.20
85 29 0.42
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (79 bp):
TCTTCTTCTTCTTTTTTTTTTCTCTCCTCCTTTCCTTTCCTCTCCTTTCGTTCCTTCTTTCTTTC
TTCCCCTCTCCTTT
Found at i:4795807 original size:20 final size:21
Alignment explanation
Indices: 4795703--4795822 Score: 94
Period size: 20 Copynumber: 6.0 Consensus size: 21
4795693 CTTCTTCTTT
*
4795703 TTTTTTTCTCTTCTCCTTTCC
1 TTTTCTTCTCTTCTCCTTTCC
*
4795724 TTTTCTT-TCCTT-TTCTTTCC
1 TTTTCTTCT-CTTCTCCTTTCC
* *
4795744 TTCTT-TTTTCTTCCCCTTTCC
1 TT-TTCTTCTCTTCTCCTTTCC
*
4795765 TTTTCTTCTTCTT-T-CTTT-G
1 TTTTCTTC-TCTTCTCCTTTCC
*
4795784 TTTT-TTCTCTTCTCCTTCCC
1 TTTTCTTCTCTTCTCCTTTCC
*
4795804 TTTTCTT-TCCTCTCCTTTC
1 TTTTCTTCTCTTCTCCTTTC
4795823 GTTCTTTCTT
Statistics
Matches: 78, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
17 4 0.05
18 4 0.05
19 7 0.09
20 35 0.45
21 24 0.31
22 4 0.05
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTCTTCTCTTCTCCTTTCC
Found at i:4795853 original size:26 final size:27
Alignment explanation
Indices: 4795772--4795853 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 27
4795762 TCCTTTTCTT
* *
4795772 CTTCTTTCTTTGTTT-TTTCTCTTCTC
1 CTTCTTTCTTTCTTTCTTTCTCCTCTC
** * *
4795798 CTTCCCT-TTTCTTTC-CTCTCCTTTC
1 CTTCTTTCTTTCTTTCTTTCTCCTCTC
*
4795823 GTTCTTTCTTTCTTTCTTTC-CCTCTC
1 CTTCTTTCTTTCTTTCTTTCTCCTCTC
4795849 CTTCT
1 CTTCT
4795854 GCCCACCACC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
25 17 0.41
26 22 0.54
27 2 0.05
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.62
Consensus pattern (27 bp):
CTTCTTTCTTTCTTTCTTTCTCCTCTC
Found at i:4795853 original size:80 final size:79
Alignment explanation
Indices: 4795667--4795853 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 79
4795657 TACCTTTTTT
* * * * * *
4795667 TTTCTTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTT
1 TTTCTTTCTTTCTTTCCCTCTC-CTTCTTCTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTT
* *
4795732 CCTTTTCTTTCCTTC
65 CCTCTCCTTTCCTTC
* * *
4795747 TTT-TTTCTTCCCCTTT-CCTTTTCTTCTTCTTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCT
1 TTTCTTTCTT--TCTTTCCCTCTCCTTCTTC-TTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCT
*
4795810 TTCCTCTCCTTTCGTTC
63 TTCCTCTCCTTTCCTTC
4795827 TTTCTTTCTTTCTTTCCCTCTCCTTCT
1 TTTCTTTCTTTCTTTCCCTCTCCTTCT
4795854 GCCCACCACC
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 16 0.18
80 62 0.71
81 9 0.10
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (79 bp):
TTTCTTTCTTTCTTTCCCTCTCCTTCTTCTTCTTTGTTTTTTCTCTTCTCCTTCCCTTTTCTTTC
CTCTCCTTTCCTTC
Found at i:4795956 original size:27 final size:27
Alignment explanation
Indices: 4795879--4795957 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
4795869 CCCTATTATA
* * *
4795879 CATTGGTGCTGCCAATGATATTGGCAC
1 CATTGGTACCGCCAATGACATTGGCAC
* * *
4795906 CATTGGTACCGTCAATGGCTTTGGCAC
1 CATTGGTACCGCCAATGACATTGGCAC
* *
4795933 CTTTGGTACCGCCAATGCCATTGGC
1 CATTGGTACCGCCAATGACATTGGC
4795958 GTGACCAGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (27 bp):
CATTGGTACCGCCAATGACATTGGCAC
Found at i:4797899 original size:17 final size:18
Alignment explanation
Indices: 4797858--4797892 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4797848 TTATTATTAA
4797858 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
4797876 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
4797893 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:4798006 original size:14 final size:15
Alignment explanation
Indices: 4797957--4798008 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4797947 ATAAAATATA
4797957 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4797972 TATTAAATATATTAT
1 AATTAAATATATTAT
4797987 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4798000 AATTTAATA
1 AATTAAATA
4798009 AAATCCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4798110 original size:117 final size:120
Alignment explanation
Indices: 4797841--4798129 Score: 451
Period size: 120 Copynumber: 2.4 Consensus size: 120
4797831 ATCATATTTA
* *
4797841 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATCCTTAATAATCAA
* * *
4797906 TATTTTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATGTCTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATT
* *
4797961 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATCCTTAATAATCAA
*
4798026 TA-GTCT-TATGAATTTACTAAAATCATAATATATGAT-CTATAAAATATAATTT
66 TATGTCTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATT
* *
4798078 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAAT
4798130 TTAAAATAAT
Statistics
Matches: 157, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
117 61 0.39
118 31 0.20
119 2 0.01
120 63 0.40
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATCCTTAATAATCAA
TATGTCTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATT
Found at i:4798181 original size:47 final size:46
Alignment explanation
Indices: 4798127--4798280 Score: 131
Period size: 47 Copynumber: 3.3 Consensus size: 46
4798117 GATTTAATAA
4798127 AATTTAAAATAATTATAACTAATAAATTTTCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTTTCTTATATGAATTTGTAT
* ** * * *
4798174 AATTTAAAATAATTAT--TATTTCATGTAAT-TTA-AT-AATGATATAT
1 AATTTAAAATAATTATAATAATAAAT-T-TTCTTATATGAAT-TTGTAT
* * *
4798218 AATTTCATAA-AATTCTTGATAATAAATTTTCTTATATGAATTTGTAT
1 AATTT-AAAATAATT-ATAATAATAAATTTTCTTATATGAATTTGTAT
4798265 AATTTAAAATAATTAT
1 AATTTAAAATAATTAT
4798281 TATTTCATGT
Statistics
Matches: 80, Mismatches: 16, Indels: 23
0.67 0.13 0.19
Matches are distributed among these distances:
43 3 0.04
44 20 0.25
45 9 0.11
46 9 0.11
47 36 0.45
48 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTTTCTTATATGAATTTGTAT
Found at i:4798200 original size:28 final size:28
Alignment explanation
Indices: 4798173--4798225 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
4798163 TGAATTTGTA
*
4798173 TAATTTAA-AATAAT-TATTATTTCATG
1 TAATTTAATAATAATATATAATTTCATG
*
4798199 TAATTTAATAATGATATATAATTTCAT
1 TAATTTAATAATAATATATAATTTCAT
4798226 AAAATTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 5 0.22
28 10 0.43
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TAATTTAATAATAATATATAATTTCATG
Found at i:4798222 original size:91 final size:91
Alignment explanation
Indices: 4798146--4798351 Score: 412
Period size: 91 Copynumber: 2.3 Consensus size: 91
4798136 TAATTATAAC
4798146 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTTCATGTAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTTCATGTAATTTAATAAT
4798211 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
4798237 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTTCATGTAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTTCATGTAATTTAATAAT
4798302 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
4798328 TAATAAATTTTCTTATATGAATTT
1 TAATAAATTTTCTTATATGAATTT
4798352 AGAATCTTAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 115 1.00
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTTCATGTAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:4798231 original size:28 final size:26
Alignment explanation
Indices: 4798174--4798231 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
4798164 GAATTTGTAT
* **
4798174 AATTTAAAATAATTATTATTTCATGT
1 AATTTAAAATAATTATAATTTCATAA
*
4798200 AATTTAATAATGATATATAATTTCATAA
1 AATTTAA-AATAAT-TATAATTTCATAA
4798228 AATT
1 AATT
4798232 CTTGATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.27
27 5 0.19
28 14 0.54
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (26 bp):
AATTTAAAATAATTATAATTTCATAA
Found at i:4798291 original size:28 final size:28
Alignment explanation
Indices: 4798264--4798316 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
4798254 TGAATTTGTA
*
4798264 TAATTTAA-AATAAT-TATTATTTCATG
1 TAATTTAATAATAATATATAATTTCATG
*
4798290 TAATTTAATAATGATATATAATTTCAT
1 TAATTTAATAATAATATATAATTTCAT
4798317 AAAATTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 5 0.22
28 10 0.43
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TAATTTAATAATAATATATAATTTCATG
Found at i:4798310 original size:44 final size:44
Alignment explanation
Indices: 4798171--4798313 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 44
4798161 TATGAATTTG
4798171 TATAATTTAAAATAATTATTATTTCATGTAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTTCATGTAATTTAATAATGATA
* * ** * * *
4798215 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAAT-TTG
1 TATAATTT-AAAATAATTATT-AT--TTCATGTAAT-TTA-AT-AATGATA
4798262 TATAATTTAAAATAATTATTATTTCATGTAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTTCATGTAATTTAATAATGATA
4798306 TATAATTT
1 TATAATTT
4798314 CATAAAATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
43 3 0.04
44 28 0.38
45 10 0.14
46 10 0.14
47 20 0.27
48 3 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (44 bp):
TATAATTTAAAATAATTATTATTTCATGTAATTTAATAATGATA
Found at i:4798322 original size:28 final size:26
Alignment explanation
Indices: 4798265--4798322 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
4798255 GAATTTGTAT
* **
4798265 AATTTAAAATAATTATTATTTCATGT
1 AATTTAAAATAATTATAATTTCATAA
*
4798291 AATTTAATAATGATATATAATTTCATAA
1 AATTTAA-AATAAT-TATAATTTCATAA
4798319 AATT
1 AATT
4798323 CTTGATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.27
27 5 0.19
28 14 0.54
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (26 bp):
AATTTAAAATAATTATAATTTCATAA
Found at i:4798388 original size:6 final size:6
Alignment explanation
Indices: 4798377--4798404 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4798367 CAAAAAATAG
4798377 AACATT AACATT AACATT AACATT AACA
1 AACATT AACATT AACATT AACATT AACA
4798405 ATGAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.29
Consensus pattern (6 bp):
AACATT
Found at i:4802386 original size:16 final size:16
Alignment explanation
Indices: 4802365--4802429 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
4802355 CGCTGTATTG
4802365 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
4802381 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
* * *
4802397 GAATAAATGTGTAATA
1 GAATAGAGGCGTAATA
4802413 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
4802429 G
1 G
4802430 CAAATCAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.22
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:4802468 original size:45 final size:44
Alignment explanation
Indices: 4802406--4802503 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
4802396 AGAATAAATG
4802406 TGTAATAGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* * *
4802451 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
*
4802495 TGAAATAGA
1 TGTAATAGA
4802504 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:4802689 original size:14 final size:15
Alignment explanation
Indices: 4802634--4802691 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
4802624 AAATAATTTA
* *
4802634 ATTATATTTAAACAT
1 ATTATAATTAAATAT
*
4802649 AATTATTATTAAATAT
1 -ATTATAATTAAATAT
4802665 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4802679 A-TATAATTTAATA
1 ATTATAATTAAATA
4802692 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 9 0.25
14 4 0.11
15 11 0.31
16 12 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4802741 original size:61 final size:61
Alignment explanation
Indices: 4802676--4802983 Score: 221
Period size: 61 Copynumber: 5.1 Consensus size: 61
4802666 TTATAATTAA
**
4802676 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCGAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTAAAATCAT
* * * * ** *
4802737 AATATATGATACTATAAAAGATAATT-TAACATAATTATTATT-AAATAT--ATTT--T--AATT
1 AATATAT-A-A-TTTAATA-A-AATTCTTA-ATAATTAATATTCTTATATGAATTTACTAAAATC
*
4802794 AA
60 AT
*
4802796 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTAAAATCAT
* * ** * * * * * * *
4802857 AATATATGATACT-ATAAAA--GGTAAT--TTAACATAATTATTAT-TAAATATATTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTAAAATCAT
*
4802916 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTAAAATCAT
4802977 AATATAT
1 AATATAT
4802984 GATACTNNNN
Statistics
Matches: 185, Mismatches: 38, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
54 15 0.08
55 7 0.04
56 5 0.03
57 7 0.04
58 3 0.02
59 46 0.25
60 14 0.08
61 51 0.28
62 3 0.02
63 7 0.04
64 5 0.03
65 7 0.04
66 15 0.08
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTAAAATCAT
Found at i:4802779 original size:120 final size:120
Alignment explanation
Indices: 4802639--4802989 Score: 648
Period size: 120 Copynumber: 2.9 Consensus size: 120
4802629 ATTTAATTAT
4802639 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
4802704 ATTAATATTCTTATATGAATTTACTCGAATCATAATATATGATACTATAAAAGATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
4802760 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
4802825 TTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAAGGTA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
4802880 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
4802945 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
4802990 NNNNNNNNNN
Statistics
Matches: 222, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
120 218 0.98
121 4 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:4802802 original size:18 final size:17
Alignment explanation
Indices: 4802781--4802815 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4802771 TTATTATTAA
*
4802781 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4802799 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4802816 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4802929 original size:14 final size:15
Alignment explanation
Indices: 4802890--4802931 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4802880 ATTTAACATA
*
4802890 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4802905 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4802919 A-TATAATTTAATA
1 ATTATAATTAAATA
4802932 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4805420 original size:274 final size:277
Alignment explanation
Indices: 4804926--4805477 Score: 1038
Period size: 274 Copynumber: 2.0 Consensus size: 277
4804916 TCCCTCACAA
4804926 TTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAATAATTTTTTTTTAAAATGATTAA
1 TTTGTGTATCCAGCATCAACTAGATAATAACAACCTAT--AATAATTTTTTTTTAAAATGATTAA
4804991 TTCAGCACAAAAAGTTTTAGTCCATATGAACAATATCAAAGTCCTCTAACTATCCACTTTACCAT
64 TTCAGCACAAAAAGTTTTAGTCCATATGAACAATATCAAAGTCCTCTAACTATCCACTTTACCAT
* *
4805056 GAGGAACTTTTAGTCCATGTCTTCTACTAATGGCATCTCGAAGCACCCGTCCATCGGCAACTGAA
129 GAGGAACTTTTAGTCCATGTCATCTACTAATGGCATCTCGAAGAACCCGTCCATCGGCAACTGAA
4805121 CCTTCCCAACCAGGAAGAACATAAACAAATTGCATCTCAGGTGTACAAACACCTAGCATATTTGT
194 CCTTCCCAACCAGGAAGAACATAAACAAATTGCATCTCAGGTGTACAAACACCTAGCATATTTGT
4805186 TGCTATGTCACCTTTTCGC
259 TGCTATGTCACCTTTTCGC
4805205 TTTGTGTATCCAGCATCAACTAGATAATAACAACCTAT-A-AA-TTTTTTTTAAAATGATTAATT
1 TTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAATAATTTTTTTTTAAAATGATTAATT
4805267 CAGCACAAAAAGTTTTAGTCCATATGAACAATATCAAAGTCCTCTAACTATCCACTTTACCATGA
66 CAGCACAAAAAGTTTTAGTCCATATGAACAATATCAAAGTCCTCTAACTATCCACTTTACCATGA
*
4805332 GGAACTTTTAGTCCTTGTCATCTACTAATGGCATCTCGAAGAACCCGTCCATCGGCAACTGAACC
131 GGAACTTTTAGTCCATGTCATCTACTAATGGCATCTCGAAGAACCCGTCCATCGGCAACTGAACC
4805397 TTCCCAACCAGGAAGAACATAAACAAATTGCATCTCAGGTGTACAAACACCTAGCATATTTGTTG
196 TTCCCAACCAGGAAGAACATAAACAAATTGCATCTCAGGTGTACAAACACCTAGCATATTTGTTG
4805462 CTATGTCACCTTTTCG
261 CTATGTCACCTTTTCG
4805478 GGTTCGATAT
Statistics
Matches: 270, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
274 229 0.85
275 2 0.01
276 1 0.00
279 38 0.14
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (277 bp):
TTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAATAATTTTTTTTTAAAATGATTAATT
CAGCACAAAAAGTTTTAGTCCATATGAACAATATCAAAGTCCTCTAACTATCCACTTTACCATGA
GGAACTTTTAGTCCATGTCATCTACTAATGGCATCTCGAAGAACCCGTCCATCGGCAACTGAACC
TTCCCAACCAGGAAGAACATAAACAAATTGCATCTCAGGTGTACAAACACCTAGCATATTTGTTG
CTATGTCACCTTTTCGC
Found at i:4813037 original size:27 final size:27
Alignment explanation
Indices: 4812939--4813028 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
4812929 CTAAAATAAA
** *
4812939 TAAAATGACCGAAATACCTTCATAGGA
1 TAAAATGACCGAAATACCCCCATAGGG
*
4812966 TAAAATGACCGAAATACCCCCATATGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
4812993 TAAAATGACCGAGATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
4813020 TAAAATGAC
1 TAAAATGAC
4813029 TGTTATACCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:4814822 original size:26 final size:25
Alignment explanation
Indices: 4814793--4814876 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
4814783 CCTAATAAGA
*
4814793 TTGAGTGGGCTCAAGGACCCTTGAGT
1 TTGAGTGGGTTCAA-GACCCTTGAGT
* * * *
4814819 TTGAAATGGGTTGGATGTCCCTTGAGT
1 TTG-AGTGGGTT-CAAGACCCTTGAGT
*
4814846 TTGAGTGGGTTCGAAGACCCTTTAGT
1 TTGAGTGGGTTC-AAGACCCTTGAGT
*
4814872 ATGAG
1 TTGAG
4814877 CTGGTCAGAG
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
26 24 0.55
27 19 0.43
28 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.32
Consensus pattern (25 bp):
TTGAGTGGGTTCAAGACCCTTGAGT
Found at i:4816193 original size:26 final size:25
Alignment explanation
Indices: 4816164--4816224 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
4816154 TACCCCTAAC
* *
4816164 AAAAATTTGACGATTTTAGCTCTTGT
1 AAAATTTTGACGATTTT-GCCCTTGT
* *
4816190 AAAATTTTGATGATTTTTCCCTTGT
1 AAAATTTTGACGATTTTGCCCTTGT
4816215 AAAATTTTGA
1 AAAATTTTGA
4816225 AAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (25 bp):
AAAATTTTGACGATTTTGCCCTTGT
Found at i:4817539 original size:370 final size:370
Alignment explanation
Indices: 4816831--4817573 Score: 1012
Period size: 370 Copynumber: 2.0 Consensus size: 370
4816821 CCTATAAAGA
* * *
4816831 GATACGAAATCTCGATACGAAAGGTTGATTTTCCTTTTTCGAATCAATTATTGCATAACGCTCCA
1 GATACGAAATCCCGATACGAAAGGTTGATTTCCCTTTTTCGAATCAATCATTGCATAACGCTCCA
* * * *
4816896 ATATCTTATCTATGTATGAAACCTGAGACAGTGCTATCACTTTGTTCTTTCGATCCCTTAGGTTT
66 ATATCTTATCTATGTATGAAACATGAGACAGTGCTATCACTTTGTTCTTTCGATCCATTAAGATT
** ** * * * ** *
4816961 CGAATACCTAGAATGAAATTAGCTTTTCCCAAGTCATTCATGCTAAATTTTTGGGTTAGTCATAG
131 CGAATACCTAGAAAAAAATTAAATTCTCCCAAGTCATTCATGCTAAACTGTTGGGTTAACCACAG
* **
4817026 TTTAACCAATAACAATGTCTCTACAACATTTTCAATGAGTAGAATGTCATCGACATATAGAATGA
196 TTTAACCAATAACAATGTCCCTACAACATTTTCAATGAGTAGAATGTCATCGACATATAGAACAA
* * * *
4817091 GAAAGATCACCTTTCTATCTCCTAAATGTTTGTAAACACAAGGTTCATCTATATTTTTCTCAAAT
261 GAAAGACCACCTTTCTATCCCCTAAATATTTGTAAACACAAGGTTCATCTACATTTTTCTCAAAT
* *
4817156 CCAAAAGTCTTGATTGCTTGATCAAATCTTTGGTTCCATGAGCGG
326 CCAAAAGTCTTGATTGCTTGATCAAATCTTTGATTCCATGAGCAG
* * * * *
4817201 GATATGAAATCCCGATAC-AGAAGGTTGATTTCCCTTTATT-GAATCAGTCATTGTATAATGTTC
1 GATACGAAATCCCGATACGA-AAGGTTGATTTCCCTTT-TTCGAATCAATCATTGCATAACGCTC
* *
4817264 CAATATCTTATCTATTTATGAAGCATGAGACAGTGCTATCACTTTGTTCTTTCGATCCATTAAGA
64 CAATATCTTATCTATGTATGAAACATGAGACAGTGCTATCACTTTGTTCTTTCGATCCATTAAGA
* * *
4817329 TTCGAATACCTAGAAAAAAATTAAATTCTCTCGAGTCCTTCATGCTAAACTGTTGGGTTAACCAC
129 TTCGAATACCTAGAAAAAAATTAAATTCTCCCAAGTCATTCATGCTAAACTGTTGGGTTAACCAC
** * *
4817394 AGTTTAACTGATGACAATGTCCCTACATA-A-TTTCTAATGAGTTGAATGTCATCGACATATAGA
194 AGTTTAACCAATAACAATGTCCCTACA-ACATTTTC-AATGAGTAGAATGTCATCGACATATAGA
*
4817457 ACAAGAAAGACCACCTTT-TGATCCCCTAAATATTTGTAAACACAATGTTCATCTACATTTTGT-
257 ACAAGAAAGACCACCTTTCT-ATCCCCTAAATATTTGTAAACACAAGGTTCATCTACATTTT-TC
*
4817520 TCAAATCCAAAATTCTTGATTGCTTGATCAAATCTTTGATTCCATGAGCAG
320 TCAAATCCAAAAGTCTTGATTGCTTGATCAAATCTTTGATTCCATGAGCAG
4817571 GAT
1 GAT
4817574 GCTTGCTTAA
Statistics
Matches: 325, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
369 6 0.02
370 315 0.97
371 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (370 bp):
GATACGAAATCCCGATACGAAAGGTTGATTTCCCTTTTTCGAATCAATCATTGCATAACGCTCCA
ATATCTTATCTATGTATGAAACATGAGACAGTGCTATCACTTTGTTCTTTCGATCCATTAAGATT
CGAATACCTAGAAAAAAATTAAATTCTCCCAAGTCATTCATGCTAAACTGTTGGGTTAACCACAG
TTTAACCAATAACAATGTCCCTACAACATTTTCAATGAGTAGAATGTCATCGACATATAGAACAA
GAAAGACCACCTTTCTATCCCCTAAATATTTGTAAACACAAGGTTCATCTACATTTTTCTCAAAT
CCAAAAGTCTTGATTGCTTGATCAAATCTTTGATTCCATGAGCAG
Found at i:4829500 original size:25 final size:25
Alignment explanation
Indices: 4829470--4829570 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
4829460 TAGCTATGTT
* *
4829470 CCGATTTGCAGCTCGTGTGAGCATG
1 CCGATTTACAGCTCGTGTGAGCATA
* *
4829495 CCGATTTATAGCTCGTGAGAGCATA
1 CCGATTTACAGCTCGTGTGAGCATA
* *
4829520 CCGATTTACAGCTCGAGTGAGCATT
1 CCGATTTACAGCTCGTGTGAGCATA
* * * * *
4829545 CCAATTCATAGCTCATATGAGCATA
1 CCGATTTACAGCTCGTGTGAGCATA
4829570 C
1 C
4829571 ATGTACATGA
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
CCGATTTACAGCTCGTGTGAGCATA
Found at i:4829567 original size:50 final size:50
Alignment explanation
Indices: 4829470--4829570 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
4829460 TAGCTATGTT
* * * * *
4829470 CCGATTTGCAGCTCGTGTGAGCATGCCGATTTATAGCTCGTGAGAGCATA
1 CCGATTTACAGCTCGAGTGAGCATGCCAATTCATAGCTCATGAGAGCATA
*
4829520 CCGATTTACAGCTCGAGTGAGCATTCCAATTCATAGCTCAT-ATGAGCATA
1 CCGATTTACAGCTCGAGTGAGCATGCCAATTCATAGCTCATGA-GAGCATA
4829570 C
1 C
4829571 ATGTACATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 43 0.98
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (50 bp):
CCGATTTACAGCTCGAGTGAGCATGCCAATTCATAGCTCATGAGAGCATA
Found at i:4829869 original size:16 final size:16
Alignment explanation
Indices: 4829848--4829878 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4829838 CATGGCTAAC
4829848 TTGTTTGATGTATATA
1 TTGTTTGATGTATATA
4829864 TTGTTTGATGTATAT
1 TTGTTTGATGTATAT
4829879 GTATAGGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (16 bp):
TTGTTTGATGTATATA
Found at i:4832035 original size:55 final size:55
Alignment explanation
Indices: 4831973--4832102 Score: 188
Period size: 55 Copynumber: 2.4 Consensus size: 55
4831963 ATGTCTTAGG
* ***
4831973 CCATGTAACTCACTGACTTGGGTCACACGGTCAACCACACGCTTGTGGGACTAGC
1 CCATGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCCAATGGGACTAGC
* * *
4832028 CCGTGTAACTCACTGACTTGGGTCACATGGCCAACCACACGCCAATGTGACTAGC
1 CCATGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCCAATGGGACTAGC
*
4832083 CCATGTAACTCAATGACTTG
1 CCATGTAACTCACTGACTTG
4832103 CTTCCATTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (55 bp):
CCATGTAACTCACTGACTTGGGTCACACGGCCAACCACACGCCAATGGGACTAGC
Found at i:4837773 original size:109 final size:108
Alignment explanation
Indices: 4837619--4837833 Score: 279
Period size: 109 Copynumber: 2.0 Consensus size: 108
4837609 TATGGAAAAC
*
4837619 GATGTAAAGCATAAGGTTGAGTTCTCACTCTTAATAAAATAATATCCCAAGATTTGGGTGGTCCA
1 GATGTAAAGCATAAGGTTGAGTTCTCACTCTTAATAAAATAATATCCCAAGATTTGAGTGGTCCA
* * *
4837684 ATTAAGAC-AGACTTGATGTATTCACTGACAAGTGAGGTTGAAT
66 ATTAAGACGA-ACTTGATGAATTCACCGACAAGTGAAGTTGAAT
* * * * * * *
4837727 GATGTACATGCATAAGGTTGAGTTCTCACTTTTAATGAATTCATATCCTAGGATTTGAGTGGTCC
1 GATGTA-AAGCATAAGGTTGAGTTCTCACTCTTAATAAAATAATATCCCAAGATTTGAGTGGTCC
* * *
4837792 TATTGAGACGAACTTGATGAATTCACCGACATGTGAAGTTGA
65 AATTAAGACGAACTTGATGAATTCACCGACAAGTGAAGTTGA
4837834 GTTTATTACT
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 6 0.07
109 84 0.92
110 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (108 bp):
GATGTAAAGCATAAGGTTGAGTTCTCACTCTTAATAAAATAATATCCCAAGATTTGAGTGGTCCA
ATTAAGACGAACTTGATGAATTCACCGACAAGTGAAGTTGAAT
Found at i:4840229 original size:16 final size:16
Alignment explanation
Indices: 4840210--4840289 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 16
4840200 TTAAAAATAA
4840210 AAAAAATATAATTTAT
1 AAAAAATATAATTTAT
* *
4840226 AAAAAATATAAATTAGG
1 AAAAAATATAATTTA-T
* * *
4840243 AAAAATATAAAACTTGT
1 AAAAA-ATATAATTTAT
*
4840260 AAAAAATTATGAATTTTT
1 AAAAAA-TAT-AATTTAT
4840278 AAAAATATATAA
1 AAAAA-ATATAA
4840290 AATATATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 15 0.30
17 14 0.28
18 20 0.40
19 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAAATATAATTTAT
Found at i:4840676 original size:17 final size:16
Alignment explanation
Indices: 4840638--4840676 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4840628 AATTGTAAAG
*
4840638 ATTTTTTTATATTTTT
1 ATTTTTATATATTTTT
*
4840654 AATTTTATATAATTTTT
1 ATTTTTATAT-ATTTTT
4840671 ATTTTT
1 ATTTTT
4840677 TTTCTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTATATATTTTT
Found at i:4841725 original size:20 final size:22
Alignment explanation
Indices: 4841700--4841740 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4841690 TTTAATTAAA
4841700 TTATTA-ATAAATTT-ATATTT
1 TTATTACATAAATTTAATATTT
*
4841720 TTATTACTTAAATTTAATATT
1 TTATTACATAAATTTAATATT
4841741 ATATAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTACATAAATTTAATATTT
Found at i:4841823 original size:29 final size:31
Alignment explanation
Indices: 4841762--4841825 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
4841752 ATTATTCAAA
*
4841762 TATTAAAAAGATTCTATTTAAGTTAGTGAAT
1 TATTAAAAAGATTCTATTTAAGTTACTGAAT
*
4841793 TATT-AAAA-ATTTTATTTAAGTTACT-AGAT
1 TATTAAAAAGATTCTATTTAAGTTACTGA-AT
4841822 TATT
1 TATT
4841826 TTTTTTCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 1 0.03
29 21 0.70
30 4 0.13
31 4 0.13
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (31 bp):
TATTAAAAAGATTCTATTTAAGTTACTGAAT
Found at i:4843540 original size:115 final size:112
Alignment explanation
Indices: 4843341--4843551 Score: 325
Period size: 115 Copynumber: 1.9 Consensus size: 112
4843331 TAATCACTGT
* * *
4843341 ATATTTAGCCATTTGTTTTAGGGTTCATAAGAAATTGTGTGATTTTTTTTATTTTTTAATTGGAT
1 ATATTTAGCCATTTATTTTAAGGTTCATAAGAAATTGTGGGATTTTTTTTATTTTTTAATTGGAT
4843406 ATTAATGAAACATTTCTTTCCCATGCATGAAATGTATTCGGGTAAGC
66 ATTAATGAAACATTTCTTTCCCATGCATGAAATGTATTCGGGTAAGC
*
4843453 ATATTTAGCCGATTTATTTTAAGGTTCATAAGAAATTG-GGGATTCTTTTTTTATTTTTTTATTT
1 ATATTTAGCC-ATTTATTTTAAGGTTCATAAGAAATTGTGGGA-T-TTTTTTTA-TTTTTTAATT
* *
4843517 GGATATTGATGAAACATTTCTTTCCCATGCTTGAA
62 GGATATTAATGAAACATTTCTTTCCCATGCATGAA
4843552 TATTAGAGTA
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
112 13 0.15
113 26 0.29
114 8 0.09
115 42 0.47
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (112 bp):
ATATTTAGCCATTTATTTTAAGGTTCATAAGAAATTGTGGGATTTTTTTTATTTTTTAATTGGAT
ATTAATGAAACATTTCTTTCCCATGCATGAAATGTATTCGGGTAAGC
Found at i:4845028 original size:82 final size:82
Alignment explanation
Indices: 4844891--4845093 Score: 318
Period size: 82 Copynumber: 2.5 Consensus size: 82
4844881 GGTATACATC
*
4844891 TTTCAACAAATCATTCCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATAGC-AA
1 TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATA-CTAA
*
4844955 TAAGATGTTAACCAATCA
65 TAAGATGTTAACCAACCA
* * * *
4844973 TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATACTAGT
1 TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATACTAAT
*
4845038 AAGTTGTTAACCAACCA
66 AAGATGTTAACCAACCA
*
4845055 TTTCAGCAAATCATTTCAAAAAACAAATAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTA
4845094 ACAATCTCAA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 1 0.01
82 109 0.99
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.28
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAATAAAATATGTTATACTAACAAAATGATCCTATACTAAT
AAGATGTTAACCAACCA
Found at i:4847699 original size:45 final size:45
Alignment explanation
Indices: 4847634--4847761 Score: 151
Period size: 39 Copynumber: 3.0 Consensus size: 45
4847624 ACCACTTCTA
* * * *
4847634 TCACTCTCACCACCTCTACTGTCAGCAACCTCACCACCCTCACCC
1 TCACCCTCACCACATCTACTGCCAACAACCTCACCACCCTCACCC
*
4847679 TCACCCTCACCACATTTACTGCCAACAACCT---CA--C-CACCC
1 TCACCCTCACCACATCTACTGCCAACAACCTCACCACCCTCACCC
* *
4847718 TCACCCTCACCACATTTACTGCCAACAACCTTACCACCCTCACC
1 TCACCCTCACCACATCTACTGCCAACAACCTCACCACCCTCACC
4847762 AACTTCATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
39 36 0.50
40 1 0.01
42 4 0.06
44 1 0.01
45 30 0.42
ACGTcount: A:0.26, C:0.52, G:0.03, T:0.20
Consensus pattern (45 bp):
TCACCCTCACCACATCTACTGCCAACAACCTCACCACCCTCACCC
Found at i:4847717 original size:39 final size:39
Alignment explanation
Indices: 4847674--4847761 Score: 167
Period size: 39 Copynumber: 2.3 Consensus size: 39
4847664 TCACCACCCT
4847674 CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
1 CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
*
4847713 CACCCTCACCCTCACCACATTTACTGCCAACAACCTTAC
1 CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
4847752 CACCCTCACC
1 CACCCTCACC
4847762 AACTTCATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.27, C:0.52, G:0.02, T:0.18
Consensus pattern (39 bp):
CACCCTCACCCTCACCACATTTACTGCCAACAACCTCAC
Found at i:4850249 original size:18 final size:18
Alignment explanation
Indices: 4850216--4850254 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4850206 TCTAATTGTT
*
4850216 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
4850233 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
4850252 TTT
1 TTT
4850255 GCTGATGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:4862806 original size:38 final size:38
Alignment explanation
Indices: 4862745--4862822 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
4862735 TTCAATGGAG
* *
4862745 TATGGCCAAGGACCAGTCATGAGATGATTGTAATAACA
1 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
*
4862783 TATGCCCAAAGACCAGTCATGAGATGATTGTAATGACA
1 TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
4862821 TA
1 TA
4862823 CTTGTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (38 bp):
TATGCCCAAAGACCAGTCATGAGATGATTGTAATAACA
Found at i:4868594 original size:533 final size:533
Alignment explanation
Indices: 4867285--4868871 Score: 2717
Period size: 533 Copynumber: 3.0 Consensus size: 533
4867275 TACTCACATT
* * *
4867285 CCATTTGTTGGAATAACTGATGAGATCTCACACCACTCTGGCAAACTAAATAGCAATTGGGTTTA
1 CCATTTATTGGAATAACTGATGAGATCCCACACCACTCTGGCAAGCTAAATAGCAATTGGGTTTA
* *
4867350 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTACGTTACCTCACTCTTATACATAACAT
66 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
* *
4867415 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAGATAATTGTCATCTAAGTTCACGATTT
131 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
*
4867480 CGCTTACACGTTGGTTACCATGGAACTACCCATTTGGCT-AGTACTTCACAACATAATCCCCTTA
196 CGCTTACATGTTGGTTACCATGGAACTACCCATTTGG-TGAGTACTTCACAACATAATCCCCTTA
* *
4867544 AAGAGGAATAGTCTTAACAGACATATTTGTCACTTGATATATCCCTTTGTGTGACTCTCTCTGAC
260 AAGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGAC
4867609 TATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAA
325 TATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAA
* *
4867674 CATGCAGGTTTTCACTGAGCACCCTTTGGTGGTTTTTATTGGTGGATCTTTATCTGTGATCCTCG
390 CATGTAGGTTTTCACTGAGCACCCTTTGGTGGTTATTATTGGTGGATCTTTATCTGTGATCCTCG
* *
4867739 GATAAACCTTCTTTTTTTTTTACCTATACACCAGGCACCTAATAGTGTGTTTATTGTTCTTGAAT
455 GATAAACCTTC---TTTTTTTACCTATACACCAGGCACCTACTAGTGTG-TTATTGTTCATGAAT
4867804 AACTGATGAGATCCCACA
516 AACTGATGAGATCCCACA
*
4867822 CCATTTATTGGAATAACTGATGAGATCCCACACCACTCTGGCAAGCTAAATAGAAATTGGGTTTA
1 CCATTTATTGGAATAACTGATGAGATCCCACACCACTCTGGCAAGCTAAATAGCAATTGGGTTTA
4867887 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
66 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
* * *
4867952 GACCATCAATTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATTTAAGTTCACGATTC
131 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
*
4868017 CGCTTACATGTTGGTTACCATGGAACTACCCATTTGGCGAGTACTTCACAACATAATCCCCTTAA
196 CGCTTACATGTTGGTTACCATGGAACTACCCATTTGGTGAGTACTTCACAACATAATCCCCTTAA
*
4868082 AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTAACT
261 AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
* * ***
4868147 ATGGCTTCTAGCTAAAACCTCTTTATTCAATGGACTAGTTGTCGTATTTATGCTCAATCTCTAAC
326 ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
* *
4868212 ATGTAGGTTTTCACTGAGCACCTTTTGGTGGTTCTTATTGGTGGATCTTTATCTGTGATCCTCGG
391 ATGTAGGTTTTCACTGAGCACCCTTTGGTGGTTATTATTGGTGGATCTTTATCTGTGATCCTCGG
* * *
4868277 ATAAACCTTGTTTTTTTACCTATACACCAGGCACCTACTAGCGTGTTATTGTTCATGAATAATTG
456 ATAAACCTTCTTTTTTTACCTATACACCAGGCACCTACTAGTGTGTTATTGTTCATGAATAACTG
4868342 ATGAGATCCCACA
521 ATGAGATCCCACA
* * * *
4868355 CCATTTATTGGAATAATTGATGAGATCCCATACCACTATGGCAAGCTAAATAGCAATTGGGTTTC
1 CCATTTATTGGAATAACTGATGAGATCCCACACCACTCTGGCAAGCTAAATAGCAATTGGGTTTA
*
4868420 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACATGCGTTACCTTACTCTTATACATAACAT
66 ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
*
4868485 GCCCATCAACTATGGATTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
131 GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
* * *
4868550 CTCTTACATGTTGGTTCCCATGGAACTACCCATTTGGTGAGTACTTCGCAACATAATCCCCTTAA
196 CGCTTACATGTTGGTTACCATGGAACTACCCATTTGGTGAGTACTTCACAACATAATCCCCTTAA
* * *
4868615 AGAGGAATAGTATTAACAGACATATTTGTTACTCGATATATCCCTCTGTGTGACTCACTCTGACT
261 AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
4868680 ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
326 ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
*
4868745 ATGTAGGTTTTCACTAAGCACCCTTTGGTGGTTATTATTGGTGGATCTTTATCTGTGATCCTCGG
391 ATGTAGGTTTTCACTGAGCACCCTTTGGTGGTTATTATTGGTGGATCTTTATCTGTGATCCTCGG
*
4868810 ATAAACCTTCTTTTGTTTGCCTATACACCAGGCACCTACTAGTGTGTTATTGTTCATGAATA
456 ATAAACCTTCTTTT-TTTACCTATACACCAGGCACCTACTAGTGTGTTATTGTTCATGAATA
4868872 CTTCAAGATG
Statistics
Matches: 990, Mismatches: 58, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
533 473 0.48
534 78 0.08
537 439 0.44
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (533 bp):
CCATTTATTGGAATAACTGATGAGATCCCACACCACTCTGGCAAGCTAAATAGCAATTGGGTTTA
ATAGTGATGGGATTACATCTTTGTAACCCAATTCACCTGCGTTACCTTACTCTTATACATAACAT
GCCCATCAACTATGGACTATCTTGGCCTATTGTACTCAAATAATTGTCATCTAAGTTCACGATTC
CGCTTACATGTTGGTTACCATGGAACTACCCATTTGGTGAGTACTTCACAACATAATCCCCTTAA
AGAGGAATAGTCTTAACAGACATATTTGTCACTCGATATATCCCTCTGTGTGACTCTCTCTGACT
ATGGCTTCTAGCTAAACCCTCTTTACTCAATGGACTAACCGTCGTATTTATGCTCAATCTCTAAC
ATGTAGGTTTTCACTGAGCACCCTTTGGTGGTTATTATTGGTGGATCTTTATCTGTGATCCTCGG
ATAAACCTTCTTTTTTTACCTATACACCAGGCACCTACTAGTGTGTTATTGTTCATGAATAACTG
ATGAGATCCCACA
Found at i:4869314 original size:27 final size:27
Alignment explanation
Indices: 4869284--4869357 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
4869274 CTGTTCTGAT
*
4869284 TTTAGTG-CCCCTATAGACTATCTCGTG
1 TTTAGTGTCCCCT-CAGACTATCTCGTG
* *
4869311 TTTATTGTCCCGTCAGACTATCTCGTG
1 TTTAGTGTCCCCTCAGACTATCTCGTG
* **
4869338 TTTAATGTCCTGTCAGACTA
1 TTTAGTGTCCCCTCAGACTA
4869358 ACTATGATGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 37 0.90
28 4 0.10
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (27 bp):
TTTAGTGTCCCCTCAGACTATCTCGTG
Found at i:4872397 original size:22 final size:22
Alignment explanation
Indices: 4872372--4872420 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4872362 TACGCATAGA
*
4872372 TATGAAAACCCTTTACGAGTAG
1 TATGAAAACCCTTTAAGAGTAG
** *
4872394 TATGAATGCCCTTTAAGGGTAG
1 TATGAAAACCCTTTAAGAGTAG
4872416 TATGA
1 TATGA
4872421 GACTTTGCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (22 bp):
TATGAAAACCCTTTAAGAGTAG
Found at i:4876153 original size:26 final size:26
Alignment explanation
Indices: 4876117--4876178 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
4876107 CTTGTAAGTG
4876117 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
4876143 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
4876169 TTTTGAAACT
1 TTCTGAAACT
4876179 ACTATAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:4884494 original size:12 final size:13
Alignment explanation
Indices: 4884477--4884505 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4884467 CTCATACATG
4884477 AATAAATAAA-GC
1 AATAAATAAATGC
4884489 AATAAATAAATGC
1 AATAAATAAATGC
4884502 AATA
1 AATA
4884506 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:4886672 original size:267 final size:267
Alignment explanation
Indices: 4886197--4886731 Score: 1034
Period size: 267 Copynumber: 2.0 Consensus size: 267
4886187 CCCTGATATC
4886197 TTAAGTAGACTATGATATACAAATAAGTATGACATCTCATATCAGCTTATTTGAGCATGGCCATG
1 TTAAGTAGACTATGATATACAAATAAGTATGACATCTCATATCAGCTTATTTGAGCATGGCCATG
4886262 CATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTACTCCCACTATGTAAGAGGGACTTATC
66 CATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTACTCCCACTATGTAAGAGGGACTTATC
4886327 ATATATCGATCAACCATATCCCTCTACACAGATCGTGGTATATCCAACATCAGCCTTTATAGAAC
131 ATATATCGATCAACCATATCCCTCTACACAGATCGTGGTATATCCAACATCAGCCTTTATAGAAC
* *
4886392 AACCAGTTACGGTGTACGTTTGACTGTATCAAAATATACAACTCACGATGTTGGGATTATGATGA
196 AACCAGTTACGGTGTACGTTTGACTATATCAAAATATACAACTCAAGATGTTGGGATTATGATGA
4886457 TCTCAAG
261 TCTCAAG
4886464 TTAAGTAGACTATGATATACAAATAAGTATGACATCTCATATCAGCTTATTTGAGCATGGCCATG
1 TTAAGTAGACTATGATATACAAATAAGTATGACATCTCATATCAGCTTATTTGAGCATGGCCATG
4886529 CATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTACTCCCACTATGTAAGAGGGACTTATC
66 CATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTACTCCCACTATGTAAGAGGGACTTATC
4886594 ATATATCGATCAACCATATCCCTCTACACAGATCGTGGTATATCCAACATCAGCCTTTATAGAAC
131 ATATATCGATCAACCATATCCCTCTACACAGATCGTGGTATATCCAACATCAGCCTTTATAGAAC
* *
4886659 AACCAGTTACGGTGTATGTTTGACTATATCAAAATATATAACTCAAGATGTTGGGATTATGATGA
196 AACCAGTTACGGTGTACGTTTGACTATATCAAAATATACAACTCAAGATGTTGGGATTATGATGA
4886724 TCTCAAG
261 TCTCAAG
4886731 T
1 T
4886732 CTGAGGATCA
Statistics
Matches: 264, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
267 264 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (267 bp):
TTAAGTAGACTATGATATACAAATAAGTATGACATCTCATATCAGCTTATTTGAGCATGGCCATG
CATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTACTCCCACTATGTAAGAGGGACTTATC
ATATATCGATCAACCATATCCCTCTACACAGATCGTGGTATATCCAACATCAGCCTTTATAGAAC
AACCAGTTACGGTGTACGTTTGACTATATCAAAATATACAACTCAAGATGTTGGGATTATGATGA
TCTCAAG
Found at i:4888368 original size:23 final size:21
Alignment explanation
Indices: 4888301--4888392 Score: 80
Period size: 21 Copynumber: 4.4 Consensus size: 21
4888291 CCTGATCAGT
* *
4888301 ATACGACACA-TAACTGCCTA
1 ATACGACACACGAAGTGCCTA
*
4888321 ATACGACACACGAAGTGCCTG
1 ATACGACACACGAAGTGCCTA
* *
4888342 ATACAACACACGAGGTGCCTAAA
1 ATACGACACACGAAGTGCCT--A
** *
4888365 ATACGACACATAAAGTGTCTA
1 ATACGACACACGAAGTGCCTA
4888386 AT-CGACA
1 ATACGACA
4888393 AAGCCGATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
20 15 0.26
21 28 0.48
23 15 0.26
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.17
Consensus pattern (21 bp):
ATACGACACACGAAGTGCCTA
Found at i:4889584 original size:18 final size:19
Alignment explanation
Indices: 4889549--4889584 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4889539 TTAATAAGCC
4889549 ATACATATTGTATTATTAA
1 ATACATATTGTATTATTAA
*
4889568 ATACATGTTGT-TTATTA
1 ATACATATTGTATTATTA
4889585 TTACACATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (19 bp):
ATACATATTGTATTATTAA
Found at i:4889695 original size:30 final size:30
Alignment explanation
Indices: 4889661--4889730 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
4889651 ATTTATTTTC
*
4889661 TTAATATAATAATTATTGTTTTAAATTGGT
1 TTAATATAATAATTATTGTTTTAAATTAGT
4889691 TTAATATAATAATTATTGTTTTAAATTAGT
1 TTAATATAATAATTATTGTTTTAAATTAGT
*
4889721 TTAACATAAT
1 TTAATATAAT
4889731 TTATATCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (30 bp):
TTAATATAATAATTATTGTTTTAAATTAGT
Found at i:4902385 original size:44 final size:44
Alignment explanation
Indices: 4902322--4902412 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
4902312 AACTACGTTT
* *
4902322 TTAGTTTCTCACTTAAACTCTAATTAGCGTAGGTTTTTTTAATA
1 TTAGTTTCTCACTTAAACTCTAATTAGCGTAGGTTATTTCAATA
* *
4902366 TTAGTTT-TCCACTTAAACTCTTATTAGTGTAGGTTATTTCAATA
1 TTAGTTTCT-CACTTAAACTCTAATTAGCGTAGGTTATTTCAATA
4902410 TTA
1 TTA
4902413 TTTGACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.48
Consensus pattern (44 bp):
TTAGTTTCTCACTTAAACTCTAATTAGCGTAGGTTATTTCAATA
Found at i:4905179 original size:38 final size:36
Alignment explanation
Indices: 4905089--4905185 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 36
4905079 TCTATTAAAT
* * * *
4905089 AAAAATTAACGCATAATTATAATTTTAGGAGTAATA
1 AAAAATAAACACATAATTGTAATTTTAGGACTAATA
* *
4905125 AAAAATAAGCACATAATTGTAATCTTTTGGACTAATAA
1 AAAAATAAACACATAATTGTAAT-TTTAGGACTAAT-A
*
4905163 AAAAATAAACATATAATTGTAAT
1 AAAAATAAACACATAATTGTAAT
4905186 ATCTGAGACT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 19 0.37
37 10 0.20
38 22 0.43
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (36 bp):
AAAAATAAACACATAATTGTAATTTTAGGACTAATA
Found at i:4905196 original size:38 final size:37
Alignment explanation
Indices: 4905120--4905197 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
4905110 ATTTTAGGAG
* * *
4905120 TAATAAAAAATAAGCACATAATTGTAATCTTTTGGAC
1 TAATAAAAAATAAACACATAATTGTAATCATCTGGAC
*
4905157 TAATAAAAAAATAAACATATAATTGTAAT-ATCTGAGAC
1 TAAT-AAAAAATAAACACATAATTGTAATCATCTG-GAC
4905195 TAA
1 TAA
4905198 CTTTAAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 7 0.20
38 28 0.80
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (37 bp):
TAATAAAAAATAAACACATAATTGTAATCATCTGGAC
Found at i:4912800 original size:16 final size:16
Alignment explanation
Indices: 4912781--4912836 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
4912771 GTTTGGTTTA
*
4912781 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
**
4912797 CTGTAATTCAATAGAG
1 CTGTAATGGAATAGAG
4912813 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
4912829 TTGTAATG
1 CTGTAATG
4912837 TAATGCCCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:4913280 original size:29 final size:27
Alignment explanation
Indices: 4913223--4913280 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
4913213 TCTCTTATTC
** * *
4913223 TTTCTTTTTTCTCAAAATTTGAATTAG
1 TTTCTTTTTTCAAAAAAATTGAATCAG
4913250 TTTCTTTTTTACAAAAAAATTGACATCAG
1 TTTCTTTTTT-CAAAAAAATTGA-ATCAG
4913279 TT
1 TT
4913281 CTATTGCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 10 0.40
28 9 0.36
29 6 0.24
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (27 bp):
TTTCTTTTTTCAAAAAAATTGAATCAG
Found at i:4917795 original size:156 final size:156
Alignment explanation
Indices: 4917507--4917821 Score: 486
Period size: 156 Copynumber: 2.0 Consensus size: 156
4917497 TTGGTTTACT
* *
4917507 CTAAGACCGAGGATGAACATGATGAATATCTTAGAGTAGTGCTTCAGATACTTCGAGAGAAACAA
1 CTAAGACCGAGGATGAACATGATGAACATATTAGAGTAGTGCTTCAGATACTTCGAGAGAAACAA
* ** * *
4917572 CTCTACGCTAAGTTGATCAAGTGTGAGTTCTAGTTGTGAGAGGTGACTTTTCTGGGGTACGTAGT
66 CTCTACGCTAAGTTGAGCAAGTGTGAGTTCTAGTTACGAGAGGTGACTTTTCTAGGGCACGTAGT
** *
4917637 TTCTGCTGAGGTGATTTGAGTTTATC
131 TTCTGCTGAGGCAATTTGAATTTATC
* * *
4917663 CTAAGACCGAGGATGAGCATGATGAACATATTAGAGTAGTGTTTCAGATATTTCGAGAGAAACAA
1 CTAAGACCGAGGATGAACATGATGAACATATTAGAGTAGTGCTTCAGATACTTCGAGAGAAACAA
* *
4917728 CTCTACGCTAAGTTGAGCAAGTGTGAGTTCTGGTTACGAGAGGTGACTTTTCTAGGGCACGTGGT
66 CTCTACGCTAAGTTGAGCAAGTGTGAGTTCTAGTTACGAGAGGTGACTTTTCTAGGGCACGTAGT
*
4917793 TTCTGTTGAGGCAATTTGAATTTATC
131 TTCTGCTGAGGCAATTTGAATTTATC
4917819 CTA
1 CTA
4917822 GAAAGATTGA
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
156 143 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (156 bp):
CTAAGACCGAGGATGAACATGATGAACATATTAGAGTAGTGCTTCAGATACTTCGAGAGAAACAA
CTCTACGCTAAGTTGAGCAAGTGTGAGTTCTAGTTACGAGAGGTGACTTTTCTAGGGCACGTAGT
TTCTGCTGAGGCAATTTGAATTTATC
Done.