Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 342 of 427
Found at i:99768507 original size:3 final size:3
Alignment explanation
Indices: 99768501--99768543 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
99768491 TTATTTAAAA
99768501 ATT ATT ATT A-T ATT ATT A-T ATT ATT A-T ATT ATT A-T ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
99768544 AACTAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 28 0.78
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:99768516 original size:8 final size:8
Alignment explanation
Indices: 99768503--99768544 Score: 84
Period size: 8 Copynumber: 5.2 Consensus size: 8
99768493 ATTTAAAAAT
99768503 TATTATTA
1 TATTATTA
99768511 TATTATTA
1 TATTATTA
99768519 TATTATTA
1 TATTATTA
99768527 TATTATTA
1 TATTATTA
99768535 TATTATTA
1 TATTATTA
99768543 TA
1 TA
99768545 ACTAAAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:99775439 original size:19 final size:17
Alignment explanation
Indices: 99775415--99775457 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
99775405 CTACATGGCA
99775415 AAATTTGGTAATTTTCTTT
1 AAATTTGGTAA-TTT-TTT
*
99775434 AAATTTTGTTAATTTTTT
1 AAA-TTTGGTAATTTTTT
99775452 AAATTT
1 AAATTT
99775458 TTAGAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 6 0.27
20 7 0.32
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (17 bp):
AAATTTGGTAATTTTTT
Found at i:99775528 original size:20 final size:21
Alignment explanation
Indices: 99775486--99775532 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
99775476 ATAAAAATTG
*
99775486 AAAAATATATAAAAATTTATT
1 AAAAATATATAAAAATATATT
99775507 AAAAATA-ATAAAAA-ATATT
1 AAAAATATATAAAAATATATT
*
99775526 TAAAATA
1 AAAAATA
99775533 CTTAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATATAAAAATATATT
Found at i:99775637 original size:9 final size:9
Alignment explanation
Indices: 99775588--99775661 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
99775578 AGAAGTTATA
99775588 AAAAATATT
1 AAAAATATT
*
99775597 AAATATATT
1 AAAAATATT
*
99775606 AAAAATAAT
1 AAAAATATT
*
99775615 ATAAAAT-TGC
1 A-AAAATAT-T
99775625 AAAAATATT
1 AAAAATATT
99775634 AAAAATA-T
1 AAAAATATT
99775642 AAAAACTATT
1 AAAAA-TATT
*
99775652 AAAATTATT
1 AAAAATATT
99775661 A
1 A
99775662 TAAGAATTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
8 6 0.11
9 35 0.66
10 12 0.23
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:99775638 original size:46 final size:46
Alignment explanation
Indices: 99775588--99775680 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
99775578 AGAAGTTATA
*
99775588 AAAAATATTAAATA-TATTAAAAATAATATAA-AATTGCAAAAATATT
1 AAAAATA-TAAAAACTATTAAAAATAATATAAGAATTGCAAAAA-ATT
* * *
99775634 AAAAATATAAAAACTATTAAAATTATTATAAGAATTGTAAAAAATT
1 AAAAATATAAAAACTATTAAAAATAATATAAGAATTGCAAAAAATT
99775680 A
1 A
99775681 TATAAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 5 0.12
46 26 0.63
47 10 0.24
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (46 bp):
AAAAATATAAAAACTATTAAAAATAATATAAGAATTGCAAAAAATT
Found at i:99791996 original size:2 final size:2
Alignment explanation
Indices: 99791989--99792019 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
99791979 ATGTAAAATA
99791989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99792020 AGAATCTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99799647 original size:23 final size:21
Alignment explanation
Indices: 99799592--99799647 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
99799582 TAGTTCATAT
*
99799592 ATTTTTATTTTTAAAATTTTA
1 ATTTTAATTTTTAAAATTTTA
99799613 ATCTTTATATTTTTAAAATTTTTAA
1 AT-TTTA-ATTTTTAAAA-TTTT-A
99799638 ATTTTAATTT
1 ATTTTAATTT
99799648 AATCATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 14 0.47
24 8 0.27
25 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTAATTTTTAAAATTTTA
Found at i:99799886 original size:30 final size:29
Alignment explanation
Indices: 99799847--99799925 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
99799837 ATGTGTTTTT
*
99799847 TTTATAAAAATAACTTGAATTTTTTTATTA
1 TTTACAAAAATAAC-TGAATTTTTTTATTA
* * *
99799877 TTTACAAAAATGACTCACTTTTTTTTATTA
1 TTTACAAAAATAACTGA-ATTTTTTTATTA
* *
99799907 TGTACATAAATAACCTGAA
1 TTTACAAAAATAA-CTGAA
99799926 ATGAATAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
29 2 0.05
30 33 0.87
31 3 0.08
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTACAAAAATAACTGAATTTTTTTATTA
Found at i:99817589 original size:6 final size:6
Alignment explanation
Indices: 99817578--99817616 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
99817568 AGGCAGCCAA
*
99817578 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGAAGG AGA
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGA
99817617 GAGATTAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:99817890 original size:12 final size:12
Alignment explanation
Indices: 99817873--99817897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99817863 AATGGTTGCA
99817873 TTATTTTCTCAC
1 TTATTTTCTCAC
99817885 TTATTTTCTCAC
1 TTATTTTCTCAC
99817897 T
1 T
99817898 ATCTCGTACT
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:0.00, T:0.60
Consensus pattern (12 bp):
TTATTTTCTCAC
Found at i:99822144 original size:29 final size:30
Alignment explanation
Indices: 99822078--99822146 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 30
99822068 AATATTAAAT
99822078 CTAAATTT-TGAAATTGAAAGAATAGAGAGA
1 CTAAATTTCTGAAATTGAAAG-ATAGAGAGA
*
99822108 CTAAATTTCATGAAA-TGAAAG-TATAGAGA
1 CTAAATTTC-TGAAATTGAAAGATAGAGAGA
99822137 CTAAATTTCT
1 CTAAATTTCT
99822147 AATTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 1 0.03
29 16 0.44
30 8 0.22
31 6 0.17
32 5 0.14
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (30 bp):
CTAAATTTCTGAAATTGAAAGATAGAGAGA
Found at i:99822526 original size:16 final size:16
Alignment explanation
Indices: 99822505--99822542 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
99822495 TTTGGTTGGT
99822505 TGTAATGGAATA-AGGC
1 TGTAATGGAATAGA-GC
*
99822521 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAGC
99822537 TGTAAT
1 TGTAAT
99822543 AAGTAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:99822812 original size:17 final size:17
Alignment explanation
Indices: 99822790--99822822 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
99822780 GATTATTATT
99822790 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
99822807 AAATATAATTTAATAA
1 AAATATAATTTAATAA
99822823 CTTTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:99823049 original size:25 final size:25
Alignment explanation
Indices: 99822995--99823058 Score: 112
Period size: 26 Copynumber: 2.6 Consensus size: 25
99822985 AATTAAATAT
99822995 TAAAAA-TAATAAATAACTCATTGC
1 TAAAAAGTAATAAATAACTCATTGC
99823019 TAAAAAAGTAATAAATAACTCATTGC
1 T-AAAAAGTAATAAATAACTCATTGC
99823045 TAAAAAGTAATAAA
1 TAAAAAGTAATAAA
99823059 CTGAGATTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 1 0.03
25 18 0.47
26 19 0.50
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (25 bp):
TAAAAAGTAATAAATAACTCATTGC
Found at i:99823327 original size:34 final size:34
Alignment explanation
Indices: 99823284--99823351 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
99823274 ACAAAACCCA
99823284 ATTTCTATATTTAGTTAACTTGTTGAAAAAATAT
1 ATTTCTATATTTAGTTAACTTGTTGAAAAAATAT
99823318 ATTTCTATATTTAGTTAACTTGTTGAAAAAATAT
1 ATTTCTATATTTAGTTAACTTGTTGAAAAAATAT
99823352 TATAGAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (34 bp):
ATTTCTATATTTAGTTAACTTGTTGAAAAAATAT
Found at i:99840449 original size:28 final size:28
Alignment explanation
Indices: 99840416--99840472 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
99840406 TTATAGTATT
99840416 TTATATTATGTTATTTTTATATGTTATG
1 TTATATTATGTTATTTTTATATGTTATG
*
99840444 TTATATTATGTTATTTTTTTATGTTATG
1 TTATATTATGTTATTTTTATATGTTATG
99840472 T
1 T
99840473 AATTTAGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.67
Consensus pattern (28 bp):
TTATATTATGTTATTTTTATATGTTATG
Found at i:99840807 original size:21 final size:21
Alignment explanation
Indices: 99840781--99840821 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99840771 TGGACCGATT
99840781 TTTTTTTTACTATTTTGTTGA
1 TTTTTTTTACTATTTTGTTGA
* *
99840802 TTTTTTTTATTGTTTTGTTG
1 TTTTTTTTACTATTTTGTTG
99840822 CTATTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.76
Consensus pattern (21 bp):
TTTTTTTTACTATTTTGTTGA
Found at i:99840828 original size:21 final size:21
Alignment explanation
Indices: 99840783--99840828 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
99840773 GACCGATTTT
*
99840783 TTTTTTACTATTTTGTTGATT
1 TTTTTTACTATTTTGTTGATA
* * *
99840804 TTTTTTATTGTTTTGTTGCTA
1 TTTTTTACTATTTTGTTGATA
99840825 TTTT
1 TTTT
99840829 CTTGTTCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.74
Consensus pattern (21 bp):
TTTTTTACTATTTTGTTGATA
Found at i:99841092 original size:18 final size:18
Alignment explanation
Indices: 99841069--99841103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99841059 TATTATATTT
*
99841069 TAAAAAATATATAAATAA
1 TAAAAAATAAATAAATAA
99841087 TAAAAAATAAATAAATA
1 TAAAAAATAAATAAATA
99841104 TGGGTGGTCT
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAAATAAATAAATAA
Found at i:99843006 original size:29 final size:27
Alignment explanation
Indices: 99842965--99843037 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
99842955 AGTTTTTAGA
* * *
99842965 AAATTATTAAATTTCTTACAATTTTGT
1 AAATTACTGAATTTCTTACAACTTTGT
* *
99842992 AATATTTACCT-AATTCCTTATAACTTTGT
1 AA-A-TTA-CTGAATTTCTTACAACTTTGT
99843021 AAATTACTGAATTTCTT
1 AAATTACTGAATTTCTT
99843038 GCGAAATTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 2 0.05
29 20 0.54
30 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.49
Consensus pattern (27 bp):
AAATTACTGAATTTCTTACAACTTTGT
Found at i:99847801 original size:30 final size:29
Alignment explanation
Indices: 99847767--99847826 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
99847757 ATATATGAAC
99847767 TGTTGTCATCCCTTCAGTTAAGGGATTCTG
1 TGTTGTCATCCCTTCAGTTAA-GGATTCTG
99847797 TGTTGTCATCCCTTCAGTTAAGGATTCTG
1 TGTTGTCATCCCTTCAGTTAAGGATTCTG
99847826 T
1 T
99847827 AAATATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.42
Consensus pattern (29 bp):
TGTTGTCATCCCTTCAGTTAAGGATTCTG
Found at i:99854908 original size:48 final size:48
Alignment explanation
Indices: 99854833--99855105 Score: 248
Period size: 48 Copynumber: 5.7 Consensus size: 48
99854823 TGAAATATGT
* * * * *
99854833 GCCAGTGTAAGACTATGTCTGGGACATGGAATCGGCCACGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCATGATATGAGA
* * * * * *
99854881 GCCAATGTAAGACCATGTTTGGAACATGGCATCAACAATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCATGATATGAGA
* * *
99854929 GCTAGTGTAAGACCATGTCT-GAGACATGGCATC-GGCATTGATATGTA-C
1 GCCAGTGTAAGACCATGTCTGGA-ACATGGCATCAGCCA-TGATATG-AGA
* * * * *
99854977 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACAATGAGATGAGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCATGATATGAGA
* * * * * *
99855025 GCTAGTGTAATACCATGACTGGGACATGGCATCAGCC-TCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCAT-GATATGAGA
*
99855073 GCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATC
99855106 GGTAATTCAC
Statistics
Matches: 181, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
47 5 0.03
48 173 0.96
49 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCATGATATGAGA
Found at i:99855004 original size:96 final size:95
Alignment explanation
Indices: 99854836--99855105 Score: 346
Period size: 96 Copynumber: 2.8 Consensus size: 95
99854826 AATATGTGCC
* * * *
99854836 AGTGTAAGACTATGTCTGGGACATGGAATCGGCCA-CGATATGAGAGCCAATGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATG-TAGCCAGTGTAAGACCATGTT
*
99854900 TGGAACATGGCATCAACAATGTTG-TGAGAGCT
64 TGGAACATGGCATCAACAATG-AGATGAGAGCT
* * * *
99854932 AGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGATATGTACGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTA-GCCAGTGTAAGACCATGTTT
*
99854997 GGGACATGGCATCAACAATGAGATGAGAGCT
65 GGAACATGGCATCAACAATGAGATGAGAGCT
* * * * *
99855028 AGTGTAATACCATGACTGGGACATGGCATCAGCCTCGACATGTGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT-AGCCAGTGTAAGACCATGTTT
99855093 GGAACATGGCATC
65 GGAACATGGCATC
99855106 GGTAATTCAC
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
95 4 0.03
96 145 0.97
97 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTAGCCAGTGTAAGACCATGTTTG
GAACATGGCATCAACAATGAGATGAGAGCT
Found at i:99856938 original size:40 final size:37
Alignment explanation
Indices: 99856835--99856969 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
99856825 TTTTTCTCAT
* *
99856835 TGAAATACCATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
* ** **
99856871 -GAAATGCTGTACCTACATTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
99856907 TTTGATAATACCATACCTACATTTCACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTCAGTATGGA
99856947 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
99856970 CTTTTCCATG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
35 49 0.60
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGGA
Found at i:99864953 original size:48 final size:48
Alignment explanation
Indices: 99864882--99865057 Score: 205
Period size: 48 Copynumber: 3.7 Consensus size: 48
99864872 TATGTGTGCT
*
99864882 AGTGTTAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
* * *
99864930 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CA-ATGA-GACAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATG---AGAGCC
* * * *
99864978 AGTGTAAGACCATGACTGGGACATGGCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
* * *
99865026 AGTCTAAGACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
99865058 AAATTCACCT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 2 0.02
48 97 0.91
49 1 0.01
50 2 0.02
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
Found at i:99865050 original size:96 final size:96
Alignment explanation
Indices: 99864879--99865055 Score: 282
Period size: 96 Copynumber: 1.8 Consensus size: 96
99864869 TGATATGTGT
* * * *
99864879 GCTAGTGTTAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCACAACATGAGAGCCAGTCTAAGACCATG
*
99864944 TCTGGGACATGGCATCAGCAATGAGACAAGA
66 TCTGGAACATGGCATCAGCAATGAGACAAGA
* *
99864975 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTCTAAGACCATG
1 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCACAACATGAGAGCCAGTCTAAGACCATG
*
99865040 TTTGGAACATGGCATC
66 TCTGGAACATGGCATC
99865056 GGAAATTCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCCACAACATGAGAGCCAGTCTAAGACCATG
TCTGGAACATGGCATCAGCAATGAGACAAGA
Found at i:99870429 original size:42 final size:40
Alignment explanation
Indices: 99870369--99870551 Score: 158
Period size: 39 Copynumber: 4.6 Consensus size: 40
99870359 GGGCCATGAG
* * * *
99870369 CCTAGCAGGCATAATGCCGGTGAATGAGTTTCAGACTTAATG
1 CCTAGCAGGCCTAGTGCCGGTGAATAAG-TTCAG-CTTAATA
* * * *
99870411 TCTAGCAGGCCTCGTGCCGGTG-ATAAGTTCAGGTTTATA
1 CCTAGCAGGCCTAGTGCCGGTGAATAAGTTCAGCTTAATA
* * *
99870450 CCTAGCAGGCCTAGTGCCGGTG-ATAAGCTCAGGTTTATA
1 CCTAGCAGGCCTAGTGCCGGTGAATAAGTTCAGCTTAATA
* * * * *
99870489 CCTAGCAGGCCTTGTGCCGGCG-ATAAGTTTAGGTTTATA
1 CCTAGCAGGCCTAGTGCCGGTGAATAAGTTCAGCTTAATA
*
99870528 CCTAGCAGG-CTAATTGCCGGTGAA
1 CCTAGCAGGCCT-AGTGCCGGTGAA
99870552 ATAATAAAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
38 2 0.02
39 91 0.75
40 6 0.05
41 4 0.03
42 18 0.15
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCTAGCAGGCCTAGTGCCGGTGAATAAGTTCAGCTTAATA
Found at i:99870467 original size:39 final size:39
Alignment explanation
Indices: 99870412--99870550 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
99870402 GACTTAATGT
*
99870412 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
*
99870451 CTAGCAGGCCTAGTGCCGGTGATAAGCTCAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
* * *
99870490 CTAGCAGGCCTTGTGCCGGCGATAAGTTTAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
*
99870529 CTAGCAGG-CTAATTGCCGGTGA
1 CTAGCAGGCCT-AGTGCCGGTGA
99870551 AATAATAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 88 0.98
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
Found at i:99876997 original size:30 final size:30
Alignment explanation
Indices: 99876962--99877019 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
99876952 CACGGCCATG
99876962 ACACATGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACATGGGCGTGTGGATC-ACCCGTGTGTC
99876992 ACACATGGGCGTGTGGATCACCCGTGTG
1 ACACATGGGCGTGTGGATCACCCGTGTG
99877020 GAAGTGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.16, C:0.26, G:0.34, T:0.24
Consensus pattern (30 bp):
ACACATGGGCGTGTGGATCACCCGTGTGTC
Found at i:99879760 original size:22 final size:22
Alignment explanation
Indices: 99879669--99879764 Score: 70
Period size: 22 Copynumber: 4.4 Consensus size: 22
99879659 GTATTTTAAT
* *
99879669 AGTAGGCACCGAAGTGCAAAAC
1 AGTAGGCACTGAAGTGCAAATC
* *
99879691 AATAGGCACTGTAGTGCAAAAT-
1 AGTAGGCACTGAAGTGC-AAATC
* * ** *
99879713 TGTAGGTA-TCGAAGTGTGAATT
1 AGTAGGCACT-GAAGTGCAAATC
*
99879735 AGTAGGCACTGTAGTGCAAATC
1 AGTAGGCACTGAAGTGCAAATC
99879757 AGTAGGCA
1 AGTAGGCA
99879765 TCATGGTGCA
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
21 4 0.07
22 46 0.85
23 4 0.07
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (22 bp):
AGTAGGCACTGAAGTGCAAATC
Found at i:99880884 original size:20 final size:20
Alignment explanation
Indices: 99880861--99880899 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99880851 TTTTATGATA
*
99880861 TTACTAAAATTCTTACAAAT
1 TTACTAAAACTCTTACAAAT
*
99880881 TTACTAAAACTCTTGCAAA
1 TTACTAAAACTCTTACAAA
99880900 ATTGTAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (20 bp):
TTACTAAAACTCTTACAAAT
Found at i:99883183 original size:14 final size:15
Alignment explanation
Indices: 99883159--99883187 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
99883149 CTTTACTATT
99883159 TTATCAAAATATTAG
1 TTATCAAAATATTAG
99883174 TTAT-AAAATATTAG
1 TTATCAAAATATTAG
99883188 CTAAGAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (15 bp):
TTATCAAAATATTAG
Found at i:99894778 original size:21 final size:21
Alignment explanation
Indices: 99894754--99894811 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
99894744 TACAGGGCTC
99894754 ACACGCCCGTGTGGTTTAGGG
1 ACACGCCCGTGTGGTTTAGGG
*
99894775 ACACGCTCGTGTGGTTTAGGG
1 ACACGCCCGTGTGGTTTAGGG
*
99894796 ACACGTCCGTGTGGTT
1 ACACGCCCGTGTGGTT
99894812 AGGTCGTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.14, C:0.22, G:0.36, T:0.28
Consensus pattern (21 bp):
ACACGCCCGTGTGGTTTAGGG
Found at i:99895158 original size:12 final size:12
Alignment explanation
Indices: 99895141--99895168 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
99895131 ATTACTATAG
99895141 TATATTATATTA
1 TATATTATATTA
99895153 TATATTATATTA
1 TATATTATATTA
99895165 TATA
1 TATA
99895169 AATAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATTATATTA
Found at i:99896482 original size:15 final size:15
Alignment explanation
Indices: 99896435--99896485 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
99896425 CGATGAATTT
*
99896435 ATTGAATTTATATTG
1 ATTGAAATTATATTG
* *
99896450 ATCGAAATTATTTTG
1 ATTGAAATTATATTG
99896465 ATTGAAATTATATTG
1 ATTGAAATTATATTG
99896480 ATTGAA
1 ATTGAA
99896486 TATAATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:99896564 original size:18 final size:16
Alignment explanation
Indices: 99896517--99896561 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
99896507 AGAAATTTGA
99896517 ATATTGAATGA-ATGTT
1 ATATTGAAT-ATATGTT
99896533 ATATTGAATATATGTT
1 ATATTGAATATATGTT
*
99896549 ATATTGAAAATAT
1 ATATTGAATATAT
99896562 ATGAGATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 1 0.04
16 26 0.96
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (16 bp):
ATATTGAATATATGTT
Found at i:99896583 original size:21 final size:21
Alignment explanation
Indices: 99896557--99896628 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
99896547 TTATATTGAA
99896557 AATATATGAGATTGTGATTTG
1 AATATATGAGATTGTGATTTG
* *
99896578 AATATATGAGGAAAT-TGA-TTA
1 AATATATGA-G-ATTGTGATTTG
99896599 AATATATGAGATTGTGATATTTG
1 AATATATGAGATTGTG--ATTTG
99896622 AATATAT
1 AATATAT
99896629 TGAATTGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.05
20 3 0.07
21 20 0.49
22 5 0.12
23 11 0.27
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
AATATATGAGATTGTGATTTG
Found at i:99896662 original size:16 final size:16
Alignment explanation
Indices: 99896641--99896681 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
99896631 AATTGAAAAA
*
99896641 GTGAATT-TGAATGTAT
1 GTGAATTATGAAT-AAT
99896657 GTGAATTATGAATAAT
1 GTGAATTATGAATAAT
99896673 GTGAATTAT
1 GTGAATTAT
99896682 TAATTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (16 bp):
GTGAATTATGAATAAT
Found at i:99896956 original size:21 final size:21
Alignment explanation
Indices: 99896898--99897058 Score: 223
Period size: 21 Copynumber: 7.5 Consensus size: 21
99896888 AGGCACTTTA
99896898 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
99896921 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
99896944 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
99896965 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
99896986 TGTGTCGTAACAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
99897007 TGTGTCGTAACAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
99897028 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
99897049 TGTGTCGTAT
1 TGTGTCGTAT
99897059 ACTGATCAGG
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
21 98 0.75
23 32 0.25
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:99897241 original size:18 final size:19
Alignment explanation
Indices: 99897220--99897260 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
99897210 AATGAAATGA
99897220 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
99897238 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
99897257 GAAA
1 GAAA
99897261 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:99899960 original size:3 final size:3
Alignment explanation
Indices: 99899952--99899989 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
99899942 TTTGATGCAA
99899952 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
99899990 AAATGAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:99901775 original size:5 final size:5
Alignment explanation
Indices: 99901751--99901798 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
99901741 TGTTAAAATA
* *
99901751 TATAT TAAAT TATTAT TATAG TATAT TATATT ATATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATA-T -TATAT TATAT TATAT
99901799 AAATAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 26 0.72
6 6 0.17
7 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:99901789 original size:12 final size:12
Alignment explanation
Indices: 99901749--99901799 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
99901739 TGTGTTAAAA
*
99901749 TATATATTAAAT
1 TATATATTATAT
99901761 TAT-TATTATA-
1 TATATATTATAT
*
99901771 -GTATATTATAT
1 TATATATTATAT
99901782 TATATATTATAT
1 TATATATTATAT
99901794 TATATA
1 TATATA
99901800 AATAAGTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
11 6 0.18
12 19 0.58
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:99903097 original size:15 final size:15
Alignment explanation
Indices: 99903074--99903123 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
99903064 TTTATTGAAT
99903074 TTATATTGATCGAAA
1 TTATATTGATCGAAA
* *
99903089 TTATTTTGATTGAAA
1 TTATATTGATCGAAA
*
99903104 TTATATTGATTG-AA
1 TTATATTGATCGAAA
99903118 TTATAT
1 TTATAT
99903124 AATATATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 8 0.25
15 24 0.75
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATCGAAA
Found at i:99903526 original size:23 final size:23
Alignment explanation
Indices: 99903508--99903626 Score: 160
Period size: 21 Copynumber: 5.4 Consensus size: 23
99903498 AGGCACTTTA
99903508 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
99903531 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
99903554 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
99903575 TGTGTCGTA--ACAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
99903596 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
99903617 TGTGTCGTAT
1 TGTGTCGTAT
99903627 ACTGATCAGG
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
21 55 0.62
22 1 0.01
23 32 0.36
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:99903809 original size:18 final size:19
Alignment explanation
Indices: 99903788--99903828 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
99903778 AATGAAATGA
99903788 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
99903806 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
99903825 GAAA
1 GAAA
99903829 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:99912140 original size:21 final size:21
Alignment explanation
Indices: 99912099--99912140 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
99912089 TTTATTAACT
* *
99912099 TATATATTATAAATTTGTATA
1 TATATATTAAAAATCTGTATA
99912120 TATATATTTAAAAATCT-TATA
1 TATATA-TTAAAAATCTGTATA
99912141 GCCTTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATATTAAAAATCTGTATA
Found at i:99914091 original size:15 final size:17
Alignment explanation
Indices: 99914061--99914093 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
99914051 TAATTTTCAA
99914061 TTTCTCCAACTTTTTCT
1 TTTCTCCAACTTTTTCT
99914078 TTTCTCC-A-TTTTTCT
1 TTTCTCCAACTTTTTCT
99914093 T
1 T
99914094 GCAGTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCTCCAACTTTTTCT
Found at i:99915413 original size:14 final size:14
Alignment explanation
Indices: 99915396--99915431 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
99915386 TAAATTTGTG
*
99915396 TTGTTAATTTGGTT
1 TTGTTAATTTGGCT
99915410 TTGTTAATTTGGCT
1 TTGTTAATTTGGCT
99915424 TTGTTAAT
1 TTGTTAAT
99915432 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.19, T:0.61
Consensus pattern (14 bp):
TTGTTAATTTGGCT
Found at i:99920428 original size:21 final size:21
Alignment explanation
Indices: 99920303--99920447 Score: 148
Period size: 21 Copynumber: 6.9 Consensus size: 21
99920293 TCTCCTACGT
*
99920303 CATCCCCTGGTTACAG-CCCA
1 CATCTCCTGGTTACAGTCCCA
* **
99920323 TCATCTCCTGGATACAGTCCGT
1 -CATCTCCTGGTTACAGTCCCA
* *
99920345 CATCACCTGGTTACAGTCCTA
1 CATCTCCTGGTTACAGTCCCA
* *
99920366 CCTCTCCTGGTTACAGTCCTA
1 CATCTCCTGGTTACAGTCCCA
*
99920387 CATCTCCTGGGTACAGTCCCA
1 CATCTCCTGGTTACAGTCCCA
* *
99920408 CCTCTCCTGGTTACAGCCCCA
1 CATCTCCTGGTTACAGTCCCA
* **
99920429 CATCACCTACTTACAGTCC
1 CATCTCCTGGTTACAGTCC
99920448 TAGCTCACCA
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
21 100 0.98
22 2 0.02
ACGTcount: A:0.19, C:0.39, G:0.14, T:0.27
Consensus pattern (21 bp):
CATCTCCTGGTTACAGTCCCA
Found at i:99920432 original size:42 final size:42
Alignment explanation
Indices: 99920303--99920447 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
99920293 TCTCCTACGT
* * * **
99920303 CATCCCCTGGTTACAG-CCCATCATCTCCTGGATACAGTCCGT
1 CATCACCTGGTTACAGTCCCA-CCTCTCCTGGTTACAGTCCCA
* *
99920345 CATCACCTGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTA
1 CATCACCTGGTTACAGTCCCACCTCTCCTGGTTACAGTCCCA
* * *
99920387 CATCTCCTGGGTACAGTCCCACCTCTCCTGGTTACAGCCCCA
1 CATCACCTGGTTACAGTCCCACCTCTCCTGGTTACAGTCCCA
**
99920429 CATCACCTACTTACAGTCC
1 CATCACCTGGTTACAGTCC
99920448 TAGCTCACCA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 84 0.97
43 3 0.03
ACGTcount: A:0.19, C:0.39, G:0.14, T:0.27
Consensus pattern (42 bp):
CATCACCTGGTTACAGTCCCACCTCTCCTGGTTACAGTCCCA
Found at i:99920443 original size:63 final size:63
Alignment explanation
Indices: 99920324--99920468 Score: 157
Period size: 63 Copynumber: 2.3 Consensus size: 63
99920314 TACAGCCCAT
** * * * * **
99920324 CATCTCCTGGATACAGTCCGTCATCACCTGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTA
1 CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
* * *
99920387 CATCTCCTGGGTACAGTCCCACCTCTCCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
1 CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
* *
99920450 GC-TCACCAGGATACAGTCC
1 -CATCTCCTGGATACAGTCC
99920469 GACAAGTCCA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
63 66 0.99
64 1 0.01
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (63 bp):
CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
Found at i:99920542 original size:21 final size:21
Alignment explanation
Indices: 99920512--99920591 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
99920502 ATATTCTCCA
* * *
99920512 ACCTCACCAAGCTATAGCCCT
1 ACCTCTCCAAGTTACAGCCCT
99920533 ACCTCTCCAAGTTACAGCCCT
1 ACCTCTCCAAGTTACAGCCCT
* *
99920554 ACATCTCCAAGTTACAGTCCT
1 ACCTCTCCAAGTTACAGCCCT
*
99920575 ACTTCTCCAAGTTACAG
1 ACCTCTCCAAGTTACAG
99920592 TCCCACATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.28, C:0.38, G:0.10, T:0.25
Consensus pattern (21 bp):
ACCTCTCCAAGTTACAGCCCT
Found at i:99920592 original size:21 final size:21
Alignment explanation
Indices: 99920530--99920600 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
99920520 AAGCTATAGC
* *
99920530 CCTACCTCTCCAAGTTACAGC
1 CCTACATCTCCAAGTTACAGT
99920551 CCTACATCTCCAAGTTACAGT
1 CCTACATCTCCAAGTTACAGT
*
99920572 CCTACTTCTCCAAGTTACAGT
1 CCTACATCTCCAAGTTACAGT
*
99920593 CCCACATC
1 CCTACATC
99920601 CCCCAGCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.25, C:0.39, G:0.08, T:0.27
Consensus pattern (21 bp):
CCTACATCTCCAAGTTACAGT
Found at i:99920614 original size:21 final size:21
Alignment explanation
Indices: 99920587--99920646 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
99920577 TTCTCCAAGT
*
99920587 TACAGTCCCACATCCCCCAGC
1 TACAGTCCCACATCACCCAGC
* *
99920608 TATAGTCCCACTTCACCCAGC
1 TACAGTCCCACATCACCCAGC
* *
99920629 TACAGCCCCACTTCACCC
1 TACAGTCCCACATCACCC
99920647 GTATATAGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.50, G:0.08, T:0.18
Consensus pattern (21 bp):
TACAGTCCCACATCACCCAGC
Found at i:99920615 original size:42 final size:41
Alignment explanation
Indices: 99920518--99920636 Score: 130
Period size: 42 Copynumber: 2.9 Consensus size: 41
99920508 TCCAACCTCA
* * *
99920518 CCAAGCTATAGCCCTACCTCTCCAAGTTACAGCCCTACATCT
1 CCAAGCTATAGTCCTACTTCTCCAAGTTACAGCCC-ACATCC
* *
99920560 CCAAGTTACAGTCCTACTTCTCCAAGTTACAGTCCCACATCC
1 CCAAGCTATAGTCCTACTTCTCCAAGTTACAG-CCCACATCC
* * * * *
99920602 CCCAGCTATAGTCCCACTTCACCCAGCTACAGCCC
1 CCAAGCTATAGTCCTACTTCTCCAAGTTACAGCCC
99920637 CACTTCACCC
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.05
42 58 0.91
43 3 0.05
ACGTcount: A:0.25, C:0.42, G:0.10, T:0.23
Consensus pattern (41 bp):
CCAAGCTATAGTCCTACTTCTCCAAGTTACAGCCCACATCC
Found at i:99920654 original size:42 final size:41
Alignment explanation
Indices: 99920608--99920720 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 41
99920598 ATCCCCCAGC
*
99920608 TATAGTCCCACTTCACCCAGC-TACAGCCCCACTTCACCCGTA
1 TATAG-CCCACTTCA-CCAGCATACAGCCCCACTTCACCCGCA
* * *
99920650 TATAGCCCTACCTCACCAGCATATAGCCCCACTTCACCTGCA
1 TATAGCCC-ACTTCACCAGCATACAGCCCCACTTCACCCGCA
* * *
99920692 TACAGCCCCACTTCTCCATCATACAGCCC
1 TATAG-CCCACTTCACCAGCATACAGCCC
99920721 TACATCTCCA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 8 0.14
42 48 0.81
43 3 0.05
ACGTcount: A:0.25, C:0.45, G:0.09, T:0.21
Consensus pattern (41 bp):
TATAGCCCACTTCACCAGCATACAGCCCCACTTCACCCGCA
Found at i:99920656 original size:21 final size:21
Alignment explanation
Indices: 99920608--99920705 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
99920598 ATCCCCCAGC
*
99920608 TATAGTCCCACTTCACCCAGC-
1 TATAGCCCCACTTCACCC-GCA
* *
99920629 TACAGCCCCACTTCACCCGTA
1 TATAGCCCCACTTCACCCGCA
* * *
99920650 TATAGCCCTACCTCACCAGCA
1 TATAGCCCCACTTCACCCGCA
*
99920671 TATAGCCCCACTTCACCTGCA
1 TATAGCCCCACTTCACCCGCA
*
99920692 TACAGCCCCACTTC
1 TATAGCCCCACTTC
99920706 TCCATCATAC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 1 0.02
21 63 0.98
ACGTcount: A:0.24, C:0.45, G:0.09, T:0.21
Consensus pattern (21 bp):
TATAGCCCCACTTCACCCGCA
Found at i:99920714 original size:21 final size:21
Alignment explanation
Indices: 99920629--99920810 Score: 107
Period size: 21 Copynumber: 8.7 Consensus size: 21
99920619 TTCACCCAGC
* *
99920629 TACAGCCCCACTTCACCCGT-A
1 TACAGCCCCACTTC-TCCATCA
* * * * *
99920650 TATAGCCCTACCTCACCAGCA
1 TACAGCCCCACTTCTCCATCA
* *
99920671 TATAGCCCCACTTCACC-TGCA
1 TACAGCCCCACTTCTCCAT-CA
99920692 TACAGCCCCACTTCTCCATCA
1 TACAGCCCCACTTCTCCATCA
* * *
99920713 TACAGCCCTACATCTCCATCG
1 TACAGCCCCACTTCTCCATCA
* * * *
99920734 TACAGCCCGACATCTCCTTCG
1 TACAGCCCCACTTCTCCATCA
* * * *
99920755 TACAGCCCTACTTCACCGTCC
1 TACAGCCCCACTTCTCCATCA
* * *
99920776 TATAGCCCCACATCTCCTTCA
1 TACAGCCCCACTTCTCCATCA
* *
99920797 TATAGCCCTACTTC
1 TACAGCCCCACTTC
99920811 ACCCGCTTAT
Statistics
Matches: 129, Mismatches: 29, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
20 2 0.02
21 126 0.98
22 1 0.01
ACGTcount: A:0.23, C:0.44, G:0.09, T:0.24
Consensus pattern (21 bp):
TACAGCCCCACTTCTCCATCA
Found at i:99920738 original size:42 final size:42
Alignment explanation
Indices: 99920692--99920835 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 42
99920682 TTCACCTGCA
* * * *
99920692 TACAGCCCCACTTCTCCATCATACAGCCCTACATCTCCATCG
1 TACAGCCCCACATCTCCTTCATACAGCCCTACATCACCATCC
* * * *
99920734 TACAGCCCGACATCTCCTTCGTACAGCCCTACTTCACCGTCC
1 TACAGCCCCACATCTCCTTCATACAGCCCTACATCACCATCC
* * * ** *
99920776 TATAGCCCCACATCTCCTTCATATAGCCCTACTTCACCCGCT
1 TACAGCCCCACATCTCCTTCATACAGCCCTACATCACCATCC
*
99920818 TATAGCCCCACATCTCCT
1 TACAGCCCCACATCTCCT
99920836 GGGTACAGTC
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.22, C:0.44, G:0.08, T:0.26
Consensus pattern (42 bp):
TACAGCCCCACATCTCCTTCATACAGCCCTACATCACCATCC
Found at i:99920741 original size:63 final size:62
Alignment explanation
Indices: 99920608--99920834 Score: 195
Period size: 63 Copynumber: 3.6 Consensus size: 62
99920598 ATCCCCCAGC
* * * * * *
99920608 TATAGTCCCACTTCACCCAGCTACAGCCCCACTTCACCCGT-ATATAGCCCTACCTCACCAGCA
1 TATAGCCCCACTTCA-CCTGCTACAGCCCCACTTC-TCCGTCATATAGCCCTACATCTCCATCA
* * *
99920671 TATAGCCCCACTTCACCTGCATACAGCCCCACTTCTCCATCATACAGCCCTACATCTCCATCG
1 TATAGCCCCACTTCACCTGC-TACAGCCCCACTTCTCCGTCATATAGCCCTACATCTCCATCA
* * * * * * * * * *
99920734 TACAGCCCGACATCTCCTTCGTACAGCCCTACTTCACCGTCCTATAGCCCCACATCTCCTTCA
1 TATAGCCCCACTTCACCTGC-TACAGCCCCACTTCTCCGTCATATAGCCCTACATCTCCATCA
* * * *
99920797 TATAGCCCTACTTCACCCGCTTATAGCCCCACATCTCC
1 TATAGCCCCACTTCACCTGC-TACAGCCCCACTTCTCC
99920835 TGGGTACAGT
Statistics
Matches: 128, Mismatches: 34, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
62 7 0.05
63 121 0.95
ACGTcount: A:0.23, C:0.44, G:0.09, T:0.24
Consensus pattern (62 bp):
TATAGCCCCACTTCACCTGCTACAGCCCCACTTCTCCGTCATATAGCCCTACATCTCCATCA
Found at i:99920855 original size:42 final size:42
Alignment explanation
Indices: 99920629--99920855 Score: 109
Period size: 42 Copynumber: 5.4 Consensus size: 42
99920619 TTCACCCAGC
* * * * * *
99920629 TACAGCCCCACTTCACCCG-TATATAGCCCTACCTCACCAGCA
1 TACAGCCCAACCTCACCCGCT-TATAGCCCCACATCTCCTGCA
* * * * * * *
99920671 TATAGCCCCACTTCACCTGCATACAGCCCCACTTCTCCAT-CA
1 TACAGCCCAACCTCACCCGCTTATAGCCCCACATCTCC-TGCA
* * * ** * * * * *
99920713 TACAGCCCTACATCTCCATCGTACAGCCCGACATCTCCTTCG
1 TACAGCCCAACCTCACCCGCTTATAGCCCCACATCTCCTGCA
* * * *
99920755 TACAGCCCTACTTCA-CCGTCCTATAGCCCCACATCTCCTTCA
1 TACAGCCCAACCTCACCCG-CTTATAGCCCCACATCTCCTGCA
* * * **
99920797 TATAGCCCTACTTCACCCGCTTATAGCCCCACATCTCCTGGG
1 TACAGCCCAACCTCACCCGCTTATAGCCCCACATCTCCTGCA
*
99920839 TACAGTCCAACCTCACC
1 TACAGCCCAACCTCACC
99920856 AAGTTACAGT
Statistics
Matches: 145, Mismatches: 35, Indels: 10
0.76 0.18 0.05
Matches are distributed among these distances:
41 2 0.01
42 140 0.97
43 3 0.02
ACGTcount: A:0.23, C:0.44, G:0.10, T:0.23
Consensus pattern (42 bp):
TACAGCCCAACCTCACCCGCTTATAGCCCCACATCTCCTGCA
Found at i:99920855 original size:84 final size:84
Alignment explanation
Indices: 99920695--99920855 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 84
99920685 ACCTGCATAC
* * * * *
99920695 AGCCCCACTTCTCCATCATACAGCCCTACATCTCCATCGTACAGCCCGACATCTCCTTCGTACAG
1 AGCCCCACATCTCCATCATACAGCCCTACATCACCAGCGTACAGCCCCACATCTCCTGCGTACAG
* *
99920760 CCCTACTTCACCGTCCTAT
66 CCCAACCTCACCGTCCTAT
* * * * * * *
99920779 AGCCCCACATCTCCTTCATATAGCCCTACTTCACCCGCTTATAGCCCCACATCTCCTGGGTACAG
1 AGCCCCACATCTCCATCATACAGCCCTACATCACCAGCGTACAGCCCCACATCTCCTGCGTACAG
*
99920844 TCCAACCTCACC
66 CCCAACCTCACC
99920856 AAGTTACAGT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.22, C:0.44, G:0.10, T:0.24
Consensus pattern (84 bp):
AGCCCCACATCTCCATCATACAGCCCTACATCACCAGCGTACAGCCCCACATCTCCTGCGTACAG
CCCAACCTCACCGTCCTAT
Found at i:99920865 original size:21 final size:21
Alignment explanation
Indices: 99920839--99920905 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
99920829 ATCTCCTGGG
99920839 TACAGTCCAACCTCACCAAGT
1 TACAGTCCAACCTCACCAAGT
* * *
99920860 TACAGTCCCACATCACCAAGC
1 TACAGTCCAACCTCACCAAGT
* * * *
99920881 TATAGCCCTACCTCTCCAAGT
1 TACAGTCCAACCTCACCAAGT
99920902 TACA
1 TACA
99920906 ACCCGCAGTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.39, G:0.09, T:0.21
Consensus pattern (21 bp):
TACAGTCCAACCTCACCAAGT
Found at i:99927252 original size:48 final size:48
Alignment explanation
Indices: 99927196--99927290 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
99927186 GGTTGTTGGA
*
99927196 TCCCCGCTTCACATCTCGTGGTCTCTCATTGCCACTTGTGCTATCAGC
1 TCCCCGCTTCACATCTCGTGGTCTCTCATTGCCACTTATGCTATCAGC
* *
99927244 TCCCCGCTTCGCATCTCGTGGTTTCTCATTGCCACTTATGCTATCAG
1 TCCCCGCTTCACATCTCGTGGTCTCTCATTGCCACTTATGCTATCAG
99927291 TACTGTGGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.13, C:0.36, G:0.17, T:0.35
Consensus pattern (48 bp):
TCCCCGCTTCACATCTCGTGGTCTCTCATTGCCACTTATGCTATCAGC
Found at i:99929871 original size:48 final size:48
Alignment explanation
Indices: 99929795--99929886 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
99929785 CAATTTCAAA
* * * *
99929795 ATCTTGCAACTCTAGGTGCATTTGATCATAAAAAGCTTTAGATAGAAG
1 ATCTTGCAACTCTAGGTGAATCTAATCATAAAAAGCTTGAGATAGAAG
*
99929843 ATCTTGCAACT-TCAGGTGAATCTAATCATAATAAGCTTGAGATA
1 ATCTTGCAACTCT-AGGTGAATCTAATCATAAAAAGCTTGAGATA
99929887 AAATTATTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 1 0.03
48 37 0.97
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (48 bp):
ATCTTGCAACTCTAGGTGAATCTAATCATAAAAAGCTTGAGATAGAAG
Found at i:99930126 original size:20 final size:21
Alignment explanation
Indices: 99930101--99930154 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
99930091 TCTCTTTCAA
99930101 CAAAAA-TTACAAA-AAAATTT
1 CAAAAATTTA-AAATAAAATTT
99930121 CAAAAATTTAAAATAAAATTT
1 CAAAAATTTAAAATAAAATTT
*
99930142 --AAAATTCAAAATA
1 CAAAAATTTAAAATA
99930155 TTTATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 12 0.39
20 9 0.29
21 10 0.32
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
CAAAAATTTAAAATAAAATTT
Found at i:99930292 original size:3 final size:3
Alignment explanation
Indices: 99930284--99930309 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99930274 TGATTCCAAT
99930284 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
99930310 CTTTGAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:99934849 original size:18 final size:19
Alignment explanation
Indices: 99934809--99934852 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
99934799 ATTTATACAT
* *
99934809 ATTTGAATCTGTAATTTGG
1 ATTTGGATCTGTAATTTGA
*
99934828 ATTTGGATCTG-ATTTTGA
1 ATTTGGATCTGTAATTTGA
99934846 ATTTGGA
1 ATTTGGA
99934853 ACTGCTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.48
Consensus pattern (19 bp):
ATTTGGATCTGTAATTTGA
Found at i:99936165 original size:35 final size:35
Alignment explanation
Indices: 99936119--99936187 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
99936109 TTAAACTTCC
99936119 TGATATCTCAACTTTTATAAGGTCATTGATTAGTT
1 TGATATCTCAACTTTTATAAGGTCATTGATTAGTT
99936154 TGATATCTCAACTTTTATAAGGTCATTGATTAGT
1 TGATATCTCAACTTTTATAAGGTCATTGATTAGT
99936188 CCAAATGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (35 bp):
TGATATCTCAACTTTTATAAGGTCATTGATTAGTT
Found at i:99939285 original size:25 final size:27
Alignment explanation
Indices: 99939248--99939300 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99939238 TCAAACATGC
99939248 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
99939274 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
99939300 A
1 A
99939301 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:99940753 original size:26 final size:26
Alignment explanation
Indices: 99940717--99940851 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
99940707 GACATGATTC
99940717 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
99940743 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
99940769 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
99940795 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
99940821 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
99940846 TTATCA
1 TTATCA
99940852 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
25 22 0.21
26 82 0.79
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:99944993 original size:25 final size:27
Alignment explanation
Indices: 99944956--99945008 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99944946 TCAAACATGC
99944956 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
99944982 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
99945008 A
1 A
99945009 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:99946432 original size:11 final size:11
Alignment explanation
Indices: 99946416--99946442 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
99946406 AACTTTGTTC
99946416 TTTTCACCCCT
1 TTTTCACCCCT
99946427 TTTTCACCCCT
1 TTTTCACCCCT
99946438 TTTTC
1 TTTTC
99946443 TTTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTCACCCCT
Found at i:99946538 original size:26 final size:26
Alignment explanation
Indices: 99946502--99946637 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
99946492 CATGATATTC
99946502 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
99946528 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
99946554 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
99946580 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
99946606 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
99946632 TTATCA
1 TTATCA
99946638 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
26 102 0.98
27 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:99948652 original size:63 final size:63
Alignment explanation
Indices: 99948542--99948678 Score: 186
Period size: 63 Copynumber: 2.2 Consensus size: 63
99948532 GCCGTGTGGT
* * *
99948542 AGGCCGTGTAACTCACTGTTTTGGAATTAGAGGCACACGAGATAGAGACATGGGCGTGTGTCC
1 AGGCCGTGTAACTCACTGTTTTGGAACTAGAGGCACACGAGACAGAGACATGAGCGTGTGTCC
* * * *
99948605 AGGCCGTGTAACTCACTGTTTTGGAACTAG-GGACACATGGGCCAGAGACATGAGTGTGTGTCC
1 AGGCCGTGTAACTCACTGTTTTGGAACTAGAGG-CACACGAGACAGAGACATGAGCGTGTGTCC
*
99948668 AGACCGTGTAA
1 AGGCCGTGTAA
99948679 ATTTTGAAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
62 2 0.03
63 63 0.97
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (63 bp):
AGGCCGTGTAACTCACTGTTTTGGAACTAGAGGCACACGAGACAGAGACATGAGCGTGTGTCC
Found at i:99950297 original size:33 final size:34
Alignment explanation
Indices: 99950244--99950311 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 34
99950234 ATATCAAATT
*
99950244 ATGAGCCAAAAATGTCCTCCCTTTGGGTTTTCAG
1 ATGAGCCAAAAATGTCCTCCCTTTGAGTTTTCAG
*
99950278 ATGAGCC-AAAATGTTCTCCCTTTGAGTTTTCAG
1 ATGAGCCAAAAATGTCCTCCCTTTGAGTTTTCAG
99950311 A
1 A
99950312 CAAGTACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.78
34 7 0.22
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (34 bp):
ATGAGCCAAAAATGTCCTCCCTTTGAGTTTTCAG
Found at i:99950426 original size:14 final size:14
Alignment explanation
Indices: 99950407--99950437 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99950397 GTTTGGTGCC
99950407 TTTCTTCTTTTTCT
1 TTTCTTCTTTTTCT
*
99950421 TTTCTTTTTTTTCT
1 TTTCTTCTTTTTCT
99950435 TTT
1 TTT
99950438 TTCACTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTCTTCTTTTTCT
Found at i:99950711 original size:25 final size:26
Alignment explanation
Indices: 99950668--99950718 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
99950658 GGTAGGGGAT
99950668 TTTTATTTTGTTTAATATAAATATAA
1 TTTTATTTTGTTTAATATAAATATAA
99950694 TTTTATTTT-TTTAATATAAATATAA
1 TTTTATTTTGTTTAATATAAATATAA
99950719 ATGTTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTATTTTGTTTAATATAAATATAA
Found at i:99952200 original size:26 final size:26
Alignment explanation
Indices: 99952170--99952220 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
99952160 AAAAGGAAAG
99952170 AATGAAATTAAAAAGATAAAATGATA
1 AATGAAATTAAAAAGATAAAATGATA
99952196 AATGAAATTAAAAAGATAAAATGAT
1 AATGAAATTAAAAAGATAAAATGAT
99952221 TTTTCCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (26 bp):
AATGAAATTAAAAAGATAAAATGATA
Found at i:99954226 original size:35 final size:34
Alignment explanation
Indices: 99954163--99954263 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 34
99954153 AGTGAACCTC
** * *
99954163 TTTTCAGGTGTCGCTTTGTAGAGCCTGTAGACCA
1 TTTTCAGGTGTCGCTCCGTAAAGACTGTAGACCA
* * *
99954197 TTTTCATGGTGTCGCTCCGTAAAGTCTGTACACTA
1 TTTTCA-GGTGTCGCTCCGTAAAGACTGTAGACCA
* *
99954232 TTTACACGGTGTCACTCCGTAAAGACTGTAGA
1 TTTTCA-GGTGTCGCTCCGTAAAGACTGTAGA
99954264 TAATTTATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
34 6 0.11
35 49 0.89
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (34 bp):
TTTTCAGGTGTCGCTCCGTAAAGACTGTAGACCA
Found at i:99955811 original size:18 final size:19
Alignment explanation
Indices: 99955779--99955818 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
99955769 ATAATATTAT
99955779 TAAAAATATATAAAAATTG
1 TAAAAATATATAAAAATTG
*
99955798 TAAAATTATA-AAAAATTG
1 TAAAAATATATAAAAATTG
99955816 TAA
1 TAA
99955819 TTTAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAATATATAAAAATTG
Found at i:99955820 original size:16 final size:17
Alignment explanation
Indices: 99955785--99955827 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
99955775 TTATTAAAAA
99955785 TATATAAAAATTGTAAAAT
1 TATA-AAAAATTGT-AAAT
99955804 TATAAAAAATTGT-AAT
1 TATAAAAAATTGTAAAT
99955820 T-TAAAAAA
1 TATAAAAAA
99955828 GTTTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
18 9 0.38
19 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TATAAAAAATTGTAAAT
Found at i:99955827 original size:17 final size:18
Alignment explanation
Indices: 99955790--99955827 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
99955780 AAAAATATAT
*
99955790 AAAAATTGTAAAATTATA
1 AAAAATTGTAAAATTAAA
*
99955808 AAAAATTGT-AATTTAAA
1 AAAAATTGTAAAATTAAA
99955825 AAA
1 AAA
99955828 GTTTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAATTGTAAAATTAAA
Found at i:99956630 original size:18 final size:17
Alignment explanation
Indices: 99956577--99956630 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
99956567 TTTCTCTAAA
* *
99956577 TTTTATATTTATAATTT
1 TTTTAGATTTATATTTT
*
99956594 TGTTATGATTTATATTTT
1 TTTTA-GATTTATATTTT
99956612 TTTTAGATTATATATTTT
1 TTTTAGATT-TATATTTT
99956630 T
1 T
99956631 AATTTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 8 0.26
18 23 0.74
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTAGATTTATATTTT
Found at i:99956648 original size:42 final size:44
Alignment explanation
Indices: 99956559--99956640 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
99956549 CTTTCAATTA
*
99956559 TTATATTTTTTCTCTAAATTTTATATTTATAATTTTGTTATGAT
1 TTATATTTTTTCTCTAAATTATATATTTATAATTTTGTTATGAT
* *
99956603 TTATATTTTTT-T-TAGATTATATATTTTTAATTTT-TTAT
1 TTATATTTTTTCTCTAAATTATATATTTATAATTTTGTTAT
99956641 TTATTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 4 0.11
42 19 0.54
43 1 0.03
44 11 0.31
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (44 bp):
TTATATTTTTTCTCTAAATTATATATTTATAATTTTGTTATGAT
Found at i:99957269 original size:13 final size:15
Alignment explanation
Indices: 99957242--99957272 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99957232 TATTTGCTTA
99957242 ATTTTTTTAATATTT
1 ATTTTTTTAATATTT
99957257 ATTTTTTTAAT-TTT
1 ATTTTTTTAATATTT
99957271 AT
1 AT
99957273 AAGCATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTTAATATTT
Found at i:99963411 original size:19 final size:20
Alignment explanation
Indices: 99963365--99963412 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
99963355 TTAAAAAATA
99963365 TTAAACAAATAAATTATAACT
1 TTAAA-AAATAAATTATAACT
* *
99963386 ATAAAAAATAAATT-TACCT
1 TTAAAAAATAAATTATAACT
99963405 TTAAAAAA
1 TTAAAAAA
99963413 CTATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 11 0.46
20 9 0.38
21 4 0.17
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAAAATAAATTATAACT
Found at i:99963442 original size:30 final size:29
Alignment explanation
Indices: 99963382--99963441 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
99963372 AATAAATTAT
99963382 AACTATAAAAAATAAATTTACCTTTAAAA
1 AACTATAAAAAATAAATTTACCTTTAAAA
99963411 AACTATAAAAAATAAATTTACCTTTAAAA
1 AACTATAAAAAATAAATTTACCTTTAAAA
99963440 AA
1 AA
99963442 ATTGTTGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (29 bp):
AACTATAAAAAATAAATTTACCTTTAAAA
Found at i:99975406 original size:22 final size:22
Alignment explanation
Indices: 99975359--99975406 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
99975349 CAAAAACAAC
* * *
99975359 AAAATAGTAGCAACATAATATT
1 AAAATAGTAGCAAAATAAGATG
99975381 AAAATAGTAGCAAAATAGAGA-G
1 AAAATAGTAGCAAAATA-AGATG
99975403 AAAA
1 AAAA
99975407 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGATG
Found at i:99976707 original size:35 final size:35
Alignment explanation
Indices: 99976661--99976728 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
99976651 TCTGATTTCT
*
99976661 TTAGTTAACATACGATGGATAATTTGATGGTTTAA
1 TTAGTTAACATACGATGGATAATTTGATAGTTTAA
* *
99976696 TTAGTTAACATATGATGGATAGTTTGATAGTTT
1 TTAGTTAACATACGATGGATAATTTGATAGTTT
99976729 TATTTTGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (35 bp):
TTAGTTAACATACGATGGATAATTTGATAGTTTAA
Found at i:99980312 original size:21 final size:19
Alignment explanation
Indices: 99980280--99980331 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
99980270 TATAACCAAA
99980280 ATATATAATAATATAAACC
1 ATATATAATAATATAAACC
99980299 ATATAATAAGTAATATAAA--
1 ATAT-ATAA-TAATATAAACC
99980318 ATATATATATAATA
1 ATATATA-ATAATA
99980332 AAATGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 4 0.13
21 9 0.30
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
ATATATAATAATATAAACC
Found at i:99980347 original size:17 final size:17
Alignment explanation
Indices: 99980313--99980363 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
99980303 AATAAGTAAT
*
99980313 ATAAAATAT-ATATATA
1 ATAAAATGTAATATATA
*
99980329 ATAAAATGTAATATGTA
1 ATAAAATGTAATATATA
99980346 ATAAAATGTAA-ATATA
1 ATAAAATGTAATATATA
99980362 AT
1 AT
99980364 GAAGGATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATAAAATGTAATATATA
Found at i:99980474 original size:19 final size:19
Alignment explanation
Indices: 99980447--99980521 Score: 66
Period size: 19 Copynumber: 4.0 Consensus size: 19
99980437 TTAAAAAAAT
*
99980447 AATATATATAAAATATATA
1 AATAAATATAAAATATATA
*
99980466 AATAAATAT--AATTTATA
1 AATAAATATAAAATATATA
* * *
99980483 AGTAAAAATAATATA-ATA
1 AATAAATATAAAATATATA
99980501 AATAATATATAAAATAGTATA
1 AATAA-ATATAAAATA-TATA
99980522 TACTATTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
17 14 0.33
18 7 0.17
19 18 0.43
21 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AATAAATATAAAATATATA
Found at i:99980488 original size:17 final size:17
Alignment explanation
Indices: 99980462--99980505 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
99980452 ATATAAAATA
*
99980462 TATAAATAAATATAATT
1 TATAAATAAAAATAATT
*
99980479 TATAAGTAAAAATAATAT
1 TATAAATAAAAATAAT-T
*
99980497 AATAAATAA
1 TATAAATAA
99980506 TATATAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
TATAAATAAAAATAATT
Found at i:99980515 original size:12 final size:12
Alignment explanation
Indices: 99980442--99980523 Score: 59
Period size: 12 Copynumber: 7.1 Consensus size: 12
99980432 TTTTTTTAAA
99980442 AAAATAATATAT
1 AAAATAATATAT
*
99980454 ATAA-AATATAT
1 AAAATAATATAT
99980465 -AAATAA-ATAT
1 AAAATAATATAT
* *
99980475 -AATTTATA-AGT
1 AAAATAATATA-T
99980486 AAAAATAATATA-
1 -AAAATAATATAT
99980498 ATAAATAATATAT
1 A-AAATAATATAT
*
99980511 AAAATAGTATAT
1 AAAATAATATAT
99980523 A
1 A
99980524 CTATTTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
10 11 0.20
11 12 0.22
12 24 0.44
13 7 0.13
14 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAAATAATATAT
Found at i:99983220 original size:21 final size:22
Alignment explanation
Indices: 99983180--99983220 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
99983170 CTTTTCCTTG
*
99983180 AAAAAAAACTTTTTTTTCAAAA
1 AAAAAAAACTTTTTTCTCAAAA
99983202 AAAAAAAAC-TTTTTCTCAA
1 AAAAAAAACTTTTTTCTCAA
99983221 TCTTTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAAAAACTTTTTTCTCAAAA
Found at i:99989826 original size:1 final size:1
Alignment explanation
Indices: 99989820--99989864 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
99989810 CATACATGCA
* * * *
99989820 TTTTTTTTTTATTTCTTTCTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
99989865 GGGTTGGGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.02, C:0.04, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:99989850 original size:22 final size:22
Alignment explanation
Indices: 99989822--99989865 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
99989812 TACATGCATT
99989822 TTTTTTTTATTTCTTTCTTTTG
1 TTTTTTTTATTTCTTTCTTTTG
* * *
99989844 TTTTTTTTTTTTTTTTTTTTTG
1 TTTTTTTTATTTCTTTCTTTTG
99989866 GGTTGGGGGA
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:0.02, C:0.05, G:0.05, T:0.89
Consensus pattern (22 bp):
TTTTTTTTATTTCTTTCTTTTG
Found at i:99991435 original size:5 final size:5
Alignment explanation
Indices: 99991425--99991451 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
99991415 ATCTAGTTGT
99991425 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
99991452 GGTGGTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:99994854 original size:180 final size:179
Alignment explanation
Indices: 99994502--99994857 Score: 482
Period size: 180 Copynumber: 2.0 Consensus size: 179
99994492 AGCATAAACC
*
99994502 AAAAAGAAAAGAAGGAATTCATCACAATCTCAGGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
1 AAAAAGAAAAGAAGGAATTCATCACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
* ** * * *
99994567 AAGAAAGGTACACTATCTTTAAGAATGCTTTCCTCTGAATATCTATTGCCAGTTTCTTGACATAG
66 AAGAAAGGCACACTAAATTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACATAG
* * * *
99994632 GATTTCTTGGTTACTACCTAAGTTCATTATTATAGCTTAAACTATAAAAT
131 GA-TTCTTAGTTACAACCTAAATTCACTATTATAGCTTAAACTATAAAAT
* * *
99994682 AAAAAGAAATGAAGGACTTCATTACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
1 AAAAAGAAAAGAAGGAATTCATCACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
* ** *
99994747 TAGAAAGGCATTCTAAATTTAAGAATGCCTCCCTCTGAGTATCCATTGCCAGTTTCTTGACATGA
66 AAGAAAGGCACACTAAATTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACAT-A
* *
99994812 GTG-TTCTTATTTACAACCTAAATTCACTATTATTA-TTTAAACTATA
130 G-GATTCTTAGTTACAACCTAAATTCACTATTA-TAGCTTAAACTATA
99994858 CTATTCACAT
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
180 148 0.97
181 4 0.03
182 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (179 bp):
AAAAAGAAAAGAAGGAATTCATCACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
AAGAAAGGCACACTAAATTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACATAG
GATTCTTAGTTACAACCTAAATTCACTATTATAGCTTAAACTATAAAAT
Found at i:99997966 original size:13 final size:14
Alignment explanation
Indices: 99997948--99997978 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
99997938 AATTTTAATA
99997948 TATTTAAAAT-ATT
1 TATTTAAAATGATT
99997961 TATTTAAAATGATT
1 TATTTAAAATGATT
99997975 TATT
1 TATT
99997979 AAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TATTTAAAATGATT
Found at i:99998989 original size:2 final size:2
Alignment explanation
Indices: 99998982--99999011 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
99998972 AATATCTTTG
*
99998982 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99999012 CAAGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:99999415 original size:15 final size:16
Alignment explanation
Indices: 99999397--99999434 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
99999387 AGAAATTATT
99999397 TTTTTATACTAA-TAA
1 TTTTTATACTAATTAA
*
99999412 TTTTTATAGTAATTAA
1 TTTTTATACTAATTAA
*
99999428 TATTTAT
1 TTTTTAT
99999435 TTAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTTTATACTAATTAA
Found at i:100000403 original size:23 final size:23
Alignment explanation
Indices: 100000351--100000416 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
100000341 ATTTTATAAA
**
100000351 TAATATATTTATATAGTTTTTTTTC
1 TAATATATTTATATAG--TTTAATC
*
100000376 AAATATATTTATATAGTTTAATC
1 TAATATATTTATATAGTTTAATC
100000399 TAATATA-TTATA-AGTTTA
1 TAATATATTTATATAGTTTA
100000417 TTAATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.16
22 5 0.14
23 11 0.30
25 15 0.41
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (23 bp):
TAATATATTTATATAGTTTAATC
Found at i:100000424 original size:22 final size:23
Alignment explanation
Indices: 100000350--100000427 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 23
100000340 AATTTTATAA
**
100000350 ATAATATATTTATATAGTTTTTT
1 ATAATATATTTATATAGTTTAAT
*
100000373 TTCAAATATATTTATATAGTTTAAT
1 AT--AATATATTTATATAGTTTAAT
* *
100000398 CTAATATA-TTATA-AGTTTATT
1 ATAATATATTTATATAGTTTAAT
100000419 AATAATATA
1 -ATAATATA
100000428 ATATTTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 7 0.15
22 12 0.26
23 7 0.15
25 20 0.43
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (23 bp):
ATAATATATTTATATAGTTTAAT
Found at i:100002289 original size:25 final size:27
Alignment explanation
Indices: 100002252--100002305 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
100002242 TCAAACATGC
100002252 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
100002278 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
100002304 AT
1 AT
100002306 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:100003818 original size:26 final size:26
Alignment explanation
Indices: 100003787--100003894 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
100003777 TGAAATGCCC
*
100003787 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
100003813 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
100003839 ATCATGGAATATTTACCTAATCCGTT
1 ATCATGGAACATTTACCTAACCCATT
100003865 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100003891 ATCA
1 ATCA
100003895 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100007368 original size:21 final size:19
Alignment explanation
Indices: 100007328--100007378 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
100007318 AAGTACAAGT
*
100007328 GTATCGGTACCCTTGTAAA
1 GTATCGGTACCCTTGAAAA
*
100007347 GTATTGGTACCCTGATGAAAA
1 GTATCGGTACCCT--TGAAAA
*
100007368 GTATCGATACC
1 GTATCGGTACC
100007379 TTAGTCCGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (19 bp):
GTATCGGTACCCTTGAAAA
Found at i:100012951 original size:45 final size:45
Alignment explanation
Indices: 100012902--100013112 Score: 192
Period size: 45 Copynumber: 4.7 Consensus size: 45
100012892 ACTAGAAACG
* * *
100012902 AGTAAGATCATAGTTGAAAGACGTTATGGCATCACTATTCTATCA
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
** * * *
100012947 AGTAAGACGGTAGCTAAAAGACGTTATGGCATCATGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
* * * * * *
100012992 AGTAAAACCATAGCGGAAATACTTTATGGCATCACGATTTTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
* * * * *
100013037 AGTAAGACCATCA-CTGAAAGACGATATGACATCACGAATCAAACGA
1 AGTAAGACCAT-AGCTGAAAGACGTTATGGCATCACGATTCTATC-A
* **
100013083 A-TAAGACCATAGTTGAAAGACACTATGGCA
1 AGTAAGACCATAGCTGAAAGACGTTATGGCA
100013113 ACACAATGAA
Statistics
Matches: 131, Mismatches: 32, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
44 1 0.01
45 128 0.98
46 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
Found at i:100013184 original size:45 final size:46
Alignment explanation
Indices: 100013081--100013196 Score: 146
Period size: 46 Copynumber: 2.5 Consensus size: 46
100013071 CGAATCAAAC
*
100013081 GAATAAGACCATAGTTGAAAGACACTATGGCAACACAATGAAAAAT
1 GAATAAGACCATGGTTGAAAGACACTATGGCAACACAATGAAAAAT
* * * * *
100013127 GAATAAGACCATGGTTGAAAGGCACTGTGGCATCA-AGTTG-AGAAT
1 GAATAAGACCATGGTTGAAAGACACTATGGCAACACA-ATGAAAAAT
*
100013172 GAATAAGACCATGATTGAAAGACAC
1 GAATAAGACCATGGTTGAAAGACAC
100013197 CATGACACCC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 28 0.46
46 33 0.54
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (46 bp):
GAATAAGACCATGGTTGAAAGACACTATGGCAACACAATGAAAAAT
Found at i:100015795 original size:19 final size:19
Alignment explanation
Indices: 100015771--100015807 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
100015761 CCAAATTTCC
*
100015771 CTTTTTCTTTCTTTCCTTT
1 CTTTTTCCTTCTTTCCTTT
100015790 CTTTTTCCTTCTTTCCTT
1 CTTTTTCCTTCTTTCCTT
100015808 CCCTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTTCCTTCTTTCCTTT
Found at i:100015913 original size:13 final size:13
Alignment explanation
Indices: 100015887--100015925 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
100015877 TTACTTTACT
100015887 ATATATATATATATA
1 ATATA-ATA-ATATA
*
100015902 TTATAATAATATA
1 ATATAATAATATA
100015915 ATATAATAATA
1 ATATAATAATA
100015926 ATTCTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 15 0.68
14 3 0.14
15 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:100016054 original size:15 final size:16
Alignment explanation
Indices: 100016034--100016076 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
100016024 ATTTATTTCA
*
100016034 TAATAAATATCAA-TT
1 TAATAAATATCAACAT
*
100016049 TAATAAAAAT-AACAT
1 TAATAAATATCAACAT
100016064 TAATAAATATCAA
1 TAATAAATATCAA
100016077 ATATAAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATAAATATCAACAT
Found at i:100021044 original size:18 final size:18
Alignment explanation
Indices: 100021023--100021082 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
100021013 AATCAGTTAA
*
100021023 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
100021041 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
100021059 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
100021077 TCAGTA
1 TCAGTA
100021083 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:100021223 original size:6 final size:6
Alignment explanation
Indices: 100021214--100021246 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
100021204 CACCGTAAGG
100021214 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
100021247 GCGGTACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:100021632 original size:3 final size:3
Alignment explanation
Indices: 100021624--100021659 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100021614 ATTCAATACC
100021624 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100021660 CTTACCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100022302 original size:19 final size:19
Alignment explanation
Indices: 100022278--100022314 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
100022268 CCATCTTTCC
*
100022278 CTTTTTCTTTCTTTCCTTT
1 CTTTTTCCTTCTTTCCTTT
100022297 CTTTTTCCTTCTTTCCTT
1 CTTTTTCCTTCTTTCCTT
100022315 CCCTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTTCCTTCTTTCCTTT
Found at i:100022544 original size:15 final size:16
Alignment explanation
Indices: 100022524--100022566 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
100022514 ATTTATTTCA
*
100022524 TAATAAATATCAA-TT
1 TAATAAATATCAACAT
*
100022539 TAATAAAAAT-AACAT
1 TAATAAATATCAACAT
100022554 TAATAAATATCAA
1 TAATAAATATCAA
100022567 ATATAAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATAAATATCAACAT
Done.