Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 305 of 425
Found at i:94659116 original size:131 final size:131
Alignment explanation
Indices: 94658953--94659208 Score: 404
Period size: 131 Copynumber: 2.0 Consensus size: 131
94658943 TAGAGAGTAT
* * * * *
94658953 GAGTGAAATTCTAAAGGAATCTTCGATCATTTTGGACACACTAGAAATTGCAACCCAGCACGATA
1 GAGTAAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* *
94659018 GGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTTGTTTAAAGAATTTTTAAAAGACG
66 GGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAAAGACG
94659083 C
131 C
* * *
94659084 GAGTAAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCATGATA
1 GAGTAAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
**
94659149 GGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAA
66 GGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAA
94659209 TGAATAATTA
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 113 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (131 bp):
GAGTAAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
GGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAAAGACG
C
Found at i:94660566 original size:2 final size:2
Alignment explanation
Indices: 94660559--94660587 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
94660549 GCACATACAA
94660559 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 A
94660588 GAAAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94663280 original size:28 final size:28
Alignment explanation
Indices: 94663240--94663318 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
94663230 GCAATCAAAT
* * *
94663240 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
94663268 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
94663296 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
94663319 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:94665188 original size:28 final size:28
Alignment explanation
Indices: 94665157--94665333 Score: 161
Period size: 29 Copynumber: 6.5 Consensus size: 28
94665147 GTGAACATAG
*
94665157 GCACTGTGTGTGTGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
94665185 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
94665213 GGCACTGTGTGTGCGAGTTTCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
*
94665242 GCAC----TGTGCGAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * * *
94665266 GCACTGTGTGTGCGAGATCGGTTGA-TGA
1 GCACTGTGTGTGCGAGTTCCG-TAACCGA
94665294 GGCACTGTGTGTGCGAGTT--GTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
94665321 GCACTGTGTGTGC
1 GCACTGTGTGTGC
94665334 AAGATCGGTT
Statistics
Matches: 117, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
24 22 0.19
26 15 0.13
27 3 0.03
28 37 0.32
29 40 0.34
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.28
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:94665254 original size:24 final size:24
Alignment explanation
Indices: 94665222--94665273 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
94665212 AGGCACTGTG
* *
94665222 TGTGCGAGTTTCGTAACCGAGCAC
1 TGTGCGAGTTCCGTAACCAAGCAC
94665246 TGTGCGAGTTCCGTAACCAAGCAC
1 TGTGCGAGTTCCGTAACCAAGCAC
94665270 TGTG
1 TGTG
94665274 TGTGCGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (24 bp):
TGTGCGAGTTCCGTAACCAAGCAC
Found at i:94665305 original size:81 final size:79
Alignment explanation
Indices: 94665165--94665328 Score: 283
Period size: 81 Copynumber: 2.1 Consensus size: 79
94665155 AGGCACTGTG
* * *
94665165 TGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTGCGAG
1 TGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGATGAGGCACTGTGTGTGCGAG
94665230 TTTCGTAACCGAGCAC
66 -TT-GTAACCGAGCAC
94665246 TGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGATGAGGCACTGTGTGTGCGAG
1 TGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGATGAGGCACTGTGTGTGCGAG
94665311 TTGTAACCGAGCAC
66 TTGTAACCGAGCAC
94665325 TGTG
1 TGTG
94665329 TGTGCAAGAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 16 0.20
80 2 0.03
81 62 0.77
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.27
Consensus pattern (79 bp):
TGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGATGAGGCACTGTGTGTGCGAG
TTGTAACCGAGCAC
Found at i:94665329 original size:55 final size:56
Alignment explanation
Indices: 94665246--94665362 Score: 166
Period size: 55 Copynumber: 2.1 Consensus size: 56
94665236 AACCGAGCAC
*
94665246 TGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGATGAGGCACT-GTG
1 TGTGCGAGTT-CGTAACCAAGCACTGTGTGTGCAAGATCGGTTGATG-GGCACTAGTG
* *
94665303 TGTGCGAGTT-GTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTGGGCACTAAGTG
1 TGTGCGAGTTCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGATGGGCACT-AGTG
94665359 TGTG
1 TGTG
94665363 AAATGAGATC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
54 6 0.11
55 32 0.58
56 7 0.13
57 10 0.18
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (56 bp):
TGTGCGAGTTCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGATGGGCACTAGTG
Found at i:94669703 original size:28 final size:28
Alignment explanation
Indices: 94669663--94669732 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
94669653 GCAATCAAAT
* *
94669663 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
94669691 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
94669719 ATGACACTTAGTGT
1 ATGGCACTTAGTGT
94669733 GAAAAATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:94669733 original size:28 final size:28
Alignment explanation
Indices: 94669672--94669733 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
94669662 TATGGTACTC
* *
94669672 AGTGTACGAAATATTGAGAATGGCACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
94669700 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
94669728 AGTGTG
1 AGTGTG
94669734 AAAAATATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:94669741 original size:28 final size:28
Alignment explanation
Indices: 94669680--94669741 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
94669670 TCAGTGTACG
* **
94669680 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAGTGTGAA
*
94669708 AGATATTGAGAATGACACTTAGTGTGAA
1 AAATATTGAGAATGACACTTAGTGTGAA
94669736 AAATAT
1 AAATAT
94669742 CGAATGATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGAA
Found at i:94671461 original size:133 final size:133
Alignment explanation
Indices: 94671223--94671500 Score: 403
Period size: 133 Copynumber: 2.1 Consensus size: 133
94671213 GGGTGTTACA
*
94671223 GAAACGAGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAA
1 GAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAA
* * * *
94671288 ATCTGCTTTACTGCAACTTCAGAAAGACCAAATTCGCCGTCTTCGATCTGCTCCACTGCAACTTC
66 ATATGCATCACTGCAACTTCAGAAAGACCAAATTCGCCGTCTTCGATCTACTCCACTGCAACTTC
94671353 AGG
131 AGG
* *
94671356 GAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAA
1 GAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAA
* * * * * * * *
94671421 ATATGCATCACTGTAACTTCAGAAAGGCTAGATTCGCCGTCTTCGATTTACTCCGCTGTAACTTT
66 ATATGCATCACTGCAACTTCAGAAAGACCAAATTCGCCGTCTTCGATCTACTCCACTGCAACTTC
94671486 AGG
131 AGG
* *
94671489 GAGACAGGATCT
1 GAAACAAGATCT
94671501 GTAGAATCGG
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 128 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (133 bp):
GAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAA
ATATGCATCACTGCAACTTCAGAAAGACCAAATTCGCCGTCTTCGATCTACTCCACTGCAACTTC
AGG
Found at i:94683234 original size:131 final size:131
Alignment explanation
Indices: 94683069--94683326 Score: 399
Period size: 131 Copynumber: 2.0 Consensus size: 131
94683059 TTTAGAGAGT
* * *
94683069 ATGAGTGAAATTCTAAAGGAATCTTCGATCATTTTGGACAAACGAGAAATTGCAACCCAGCACGA
1 ATGAGTGAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * *
94683134 TAGGACACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTCGTTTAAAGAATTTTTAAAAGA
66 TAGGACACGATCCCGCGAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAAAGA
94683199 C
131 C
* * * *
94683200 ATGAGTGACATTCTAAAGGGACCTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGA
1 ATGAGTGAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * *
94683265 TAGGGCACGATCCCGCGAATTGCCAAATATCGAACTTCGCCTTTGCTTAAAGAATTTTTAAA
66 TAGGACACGATCCCGCGAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAA
94683327 TGAATAATTA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 114 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (131 bp):
ATGAGTGAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAACACGA
TAGGACACGATCCCGCGAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAAAGA
C
Found at i:94684691 original size:2 final size:2
Alignment explanation
Indices: 94684684--94684724 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
94684674 GCACATACAA
*
94684684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94684725 AATAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:94685942 original size:17 final size:17
Alignment explanation
Indices: 94685920--94685982 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
94685910 TTGGGTCTAG
94685920 GTTTGGGCTTGTAATAA
1 GTTTGGGCTTGTAATAA
*
94685937 GTTTGGGCTATGTTA-AA
1 GTTTGGGCT-TGTAATAA
94685954 GTATTTGGGTCATTGTAATAA
1 G--TTTGGG-C-TTGTAATAA
*
94685975 CTTTGGGC
1 GTTTGGGC
94685983 CTTGGATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
17 12 0.32
18 5 0.14
19 12 0.32
20 5 0.14
21 3 0.08
ACGTcount: A:0.22, C:0.08, G:0.29, T:0.41
Consensus pattern (17 bp):
GTTTGGGCTTGTAATAA
Found at i:94686465 original size:17 final size:19
Alignment explanation
Indices: 94686425--94686466 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
94686415 AAATATATTT
*
94686425 AAAAATATAATAAAAAATT
1 AAAAATATAATAAAAAATA
*
94686444 GAAAATAT-AT-AAAAATA
1 AAAAATATAATAAAAAATA
94686461 AAAAAT
1 AAAAAT
94686467 TTATTGTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATATAATAAAAAATA
Found at i:94688553 original size:6 final size:6
Alignment explanation
Indices: 94688540--94688570 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
94688530 ATATTTATTT
94688540 AATA-A AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AATATA AA
94688571 ATTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AATATA
Found at i:94688628 original size:30 final size:31
Alignment explanation
Indices: 94688592--94688658 Score: 111
Period size: 29 Copynumber: 2.2 Consensus size: 31
94688582 TTATTATAAA
*
94688592 TTTAAAAAATATTTATTTATTTTTATAT-TT
1 TTTAAAAAATATTTATCTATTTTTATATATT
94688622 TTT-AAAAATATTTATCTATTTTTATATATT
1 TTTAAAAAATATTTATCTATTTTTATATATT
94688652 TTTAAAA
1 TTTAAAA
94688659 TTTATTGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 23 0.68
30 8 0.24
31 3 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTAAAAAATATTTATCTATTTTTATATATT
Found at i:94688645 original size:10 final size:10
Alignment explanation
Indices: 94688603--94688655 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
94688593 TTAAAAAATA
*
94688603 TTTATTTATT
1 TTTATATATT
94688613 TTTATAT-TT
1 TTTATATATT
* * *
94688622 TTTAAAAATA
1 TTTATATATT
*
94688632 TTTATCTATT
1 TTTATATATT
94688642 TTTATATATT
1 TTTATATATT
94688652 TTTA
1 TTTA
94688656 AAATTTATTG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATATATT
Found at i:94688653 original size:29 final size:29
Alignment explanation
Indices: 94688585--94688659 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
94688575 AAATTAATTA
* * *
94688585 TTATAAATTTAAAAAATATTTATTTATTT
1 TTATATATTTTAAAAATATTTATCTATTT
*
94688614 TTATATTTTTTAAAAATATTTATCTATTT
1 TTATATATTTTAAAAATATTTATCTATTT
*
94688643 TTATATATTTTTAAAAT
1 TTATATATTTTAAAAAT
94688660 TTATTGTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATATATTTTAAAAATATTTATCTATTT
Found at i:94691949 original size:35 final size:35
Alignment explanation
Indices: 94691884--94692049 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
94691874 TCCTCATTGA
** *
94691884 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
94691918 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
94691958 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
94691993 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
94692028 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
94692050 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:94692008 original size:75 final size:72
Alignment explanation
Indices: 94691879--94692051 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
94691869 GGTTTTCCTC
* * * **
94691879 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
94691943 CAGTATGG
65 CAGTATGG
94691951 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
94692015 ACTCAGTATGG
62 ACTCAGTATGG
94692026 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
94692052 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:94699450 original size:75 final size:73
Alignment explanation
Indices: 94699362--94699533 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
94699352 GGTTTTCCTC
*** * * **
94699362 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
94699426 TCAGTATGG
65 TCAGTATGG
*
94699435 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
94699500 CTCAGTATGG
64 CTCAGTATGG
94699510 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
94699534 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:94699531 original size:35 final size:35
Alignment explanation
Indices: 94699367--94699533 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
94699357 TCCTCATTGA
*** *
94699367 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
94699402 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
94699442 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
94699477 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
94699512 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
94699534 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:94701453 original size:5 final size:5
Alignment explanation
Indices: 94701443--94701474 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94701433 CCGTTGTGAA
94701443 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94701475 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:94701463 original size:14 final size:14
Alignment explanation
Indices: 94701444--94701474 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94701434 CGTTGTGAAA
94701444 AAATAAAATAAAAT
1 AAATAAAATAAAAT
94701458 AAATAAAATAAAAT
1 AAATAAAATAAAAT
94701472 AAA
1 AAA
94701475 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:94711199 original size:35 final size:36
Alignment explanation
Indices: 94711132--94711210 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 36
94711122 CAAATTACAT
* *
94711132 AACCTAAATTTAAAACCCAAAACATTACAAACC-CA
1 AACCCAAATTTAAAACCCAAAACAATACAAACCTCA
*
94711167 AACCCAAATTTAAAACCCAAAACTAATA-AAACCTTA
1 AACCCAAATTTAAAACCCAAAAC-AATACAAACCTCA
94711203 AACCCAAA
1 AACCCAAA
94711211 AAGGCCCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 27 0.69
36 12 0.31
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (36 bp):
AACCCAAATTTAAAACCCAAAACAATACAAACCTCA
Found at i:94713625 original size:127 final size:128
Alignment explanation
Indices: 94713394--94713627 Score: 314
Period size: 127 Copynumber: 1.8 Consensus size: 128
94713384 CTGTTTGCCC
*
94713394 AAATAATCAAATATTCCTTTGAAATTTCATCCGTACTTTGAAAATTCCTTAAAACGAAGACAATG
1 AAATAATCAAATATTCCTTTGAAATTTCATCCGTA-TTTCAAAATT-CTTAAAACGAAGACAATG
* * * *
94713459 TTCAATGTTTGGAAATTCGGGGAATCGTGTCCTATTGTGCTGGGTTGCAATTTCCCGTTTGTTCG
64 TTCAATGTTTAGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTTCG
* * *
94713524 AAATAATCAAATATTCCTTT-AGAATTTCACTCATGT-TTTCTAAATT-TTAAAAC-AAGGCAAT
1 AAATAATCAAATATTCCTTTGA-AATTTCA-TC-CGTATTTCAAAATTCTTAAAACGAAGACAAT
*
94713585 GTTCAATGTTTAGAAATTCGAGGAATTGTGCCCTACTGTGCTG
63 GTTCAATGTTTAGAAATTCGAGGAATCGTGCCCTACTGTGCTG
94713628 AGTTTCGATT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
127 45 0.49
128 7 0.08
129 1 0.01
130 35 0.38
131 2 0.02
132 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (128 bp):
AAATAATCAAATATTCCTTTGAAATTTCATCCGTATTTCAAAATTCTTAAAACGAAGACAATGTT
CAATGTTTAGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTTCG
Found at i:94721728 original size:13 final size:13
Alignment explanation
Indices: 94721710--94721740 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
94721700 CCTTGGATCT
94721710 GACCCAGTTAGAG
1 GACCCAGTTAGAG
94721723 GACCCAGTTAGAG
1 GACCCAGTTAGAG
94721736 GACCC
1 GACCC
94721741 GAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.13
Consensus pattern (13 bp):
GACCCAGTTAGAG
Found at i:94722505 original size:35 final size:35
Alignment explanation
Indices: 94722439--94722505 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
94722429 ATTAATTAAT
* *
94722439 TGTGCCTAGCATCGGGTAGTAAAATCGACAATGAG
1 TGTGCCTAGCATCGGGTAGTAAAACCAACAATGAG
* *
94722474 TGTGCCTAGCAT-TGGTCAGTATAACCAACAAT
1 TGTGCCTAGCATCGGGT-AGTAAAACCAACAAT
94722506 AAATGCGCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 3 0.11
35 24 0.89
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (35 bp):
TGTGCCTAGCATCGGGTAGTAAAACCAACAATGAG
Found at i:94727551 original size:42 final size:42
Alignment explanation
Indices: 94727432--94727593 Score: 123
Period size: 43 Copynumber: 3.8 Consensus size: 42
94727422 TAGGATTTCG
* * *
94727432 GTATGTGATTTCGTGTAGGACCAC-GTCTGGGACGTTGGCATC
1 GTATATGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATC
* * * *
94727474 G-ATTTGAGATTTACGTGTAAAACCATGTCTAGGACATTGGCATC
1 GTATAT--GATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATC
* * *
94727518 GTATATGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATT
1 GTATATGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATC
* * * *
94727560 GATATTTAATTACATGTAAGA-CCTCGTCTGGGAC
1 G-TATATGATTTCGTGTAAGACCCT-GTCTGGGAC
94727594 GTTAGCATTG
Statistics
Matches: 95, Mismatches: 18, Indels: 13
0.75 0.14 0.10
Matches are distributed among these distances:
41 3 0.03
42 30 0.32
43 33 0.35
44 26 0.27
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GTATATGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATC
Found at i:94733859 original size:19 final size:19
Alignment explanation
Indices: 94733837--94733903 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
94733827 ATAAATAAAA
94733837 TAAAATTCTTAAAATATAC
1 TAAAATTCTTAAAATATAC
*
94733856 TAAAATTAACTTATAAAATAAAC
1 TAAAATT--C-T-TAAAATATAC
* *
94733879 TAAAA-TCCTAAAATCCTAC
1 TAAAATTCTTAAAAT-ATAC
94733898 TAAAAT
1 TAAAAT
94733904 AAAATACAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
18 6 0.16
19 14 0.37
20 1 0.03
21 1 0.03
22 2 0.05
23 14 0.37
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTCTTAAAATATAC
Found at i:94735271 original size:19 final size:19
Alignment explanation
Indices: 94735247--94735310 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
94735237 AACTCTGATA
94735247 TTATCAAAAAAAAGGATTG
1 TTATCAAAAAAAAGGATTG
** * *
94735266 TTATCATGAATTAAATGA-TA
1 TTATCA--AAAAAAAGGATTG
94735286 TTATCAAAAAAAAGGATTG
1 TTATCAAAAAAAAGGATTG
94735305 TTATCA
1 TTATCA
94735311 TGAATTAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 7 0.21
19 13 0.38
20 7 0.21
21 7 0.21
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (19 bp):
TTATCAAAAAAAAGGATTG
Found at i:94735285 original size:39 final size:39
Alignment explanation
Indices: 94735242--94735320 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
94735232 AGCTCAACTC
94735242 TGATATTATCAAAAAAAAGGATTGTTATCATGAATTAAA
1 TGATATTATCAAAAAAAAGGATTGTTATCATGAATTAAA
94735281 TGATATTATCAAAAAAAAGGATTGTTATCATGAATTAAA
1 TGATATTATCAAAAAAAAGGATTGTTATCATGAATTAAA
94735320 T
1 T
94735321 TTTATAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (39 bp):
TGATATTATCAAAAAAAAGGATTGTTATCATGAATTAAA
Found at i:94747229 original size:46 final size:46
Alignment explanation
Indices: 94747162--94747382 Score: 288
Period size: 46 Copynumber: 4.8 Consensus size: 46
94747152 TGTAACCCGC
* *
94747162 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
94747208 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
94747254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
94747304 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
94747347 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
94747383 ATGCTCAACC
Statistics
Matches: 154, Mismatches: 12, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 2 0.01
46 107 0.69
47 27 0.18
48 3 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:94747350 original size:93 final size:93
Alignment explanation
Indices: 94747216--94747386 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
94747206 ATCCATAAGT
* *
94747216 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94747281 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
94747309 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94747374 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94747387 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94752743 original size:4 final size:4
Alignment explanation
Indices: 94752734--94752778 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
94752724 GAATGCCCTT
*
94752734 TTTA TTTA TTTA TTTA TTTG TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
94752779 ATAAATTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:94752912 original size:15 final size:15
Alignment explanation
Indices: 94752894--94752926 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
94752884 AAAAAAATCA
94752894 TAATT-AAAACATATT
1 TAATTAAAAACA-ATT
94752909 TAATTAAAAACAATT
1 TAATTAAAAACAATT
94752924 TAA
1 TAA
94752927 ATATAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATTAAAAACAATT
Found at i:94756780 original size:16 final size:18
Alignment explanation
Indices: 94756761--94756793 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
94756751 CATACAAATT
94756761 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
94756777 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
94756794 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:94757427 original size:43 final size:44
Alignment explanation
Indices: 94757356--94757482 Score: 186
Period size: 46 Copynumber: 2.9 Consensus size: 44
94757346 GTCTGAACTC
*
94757356 ATTCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCCGA-TATTA
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATTATTA
*
94757398 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTATTA
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCG--ATTATTA
*
94757444 ACTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGA
94757483 ATAGTACCAT
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
42 14 0.18
43 20 0.26
45 2 0.03
46 36 0.47
47 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATTATTA
Found at i:94767186 original size:17 final size:19
Alignment explanation
Indices: 94767150--94767187 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94767140 TGACTTTCAT
*
94767150 TTAAGCATTTTAGTAAAAG
1 TTAAACATTTTAGTAAAAG
94767169 TTAAACATTTT-G-AAAAG
1 TTAAACATTTTAGTAAAAG
94767186 TT
1 TT
94767188 TGACCCTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (19 bp):
TTAAACATTTTAGTAAAAG
Found at i:94778356 original size:64 final size:64
Alignment explanation
Indices: 94778277--94778401 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 64
94778267 TATTTATTAA
*
94778277 AAATATTTACGAAGTTAATTGTGTGGTTAATTAGGTTTTAGCTAGGTGAATTAGCTTGAATAAT
1 AAATATTTACGAAGTTAATTGTGTGGTTAATTAAGTTTTAGCTAGGTGAATTAGCTTGAATAAT
*
94778341 AAATATTTACGAAGTTAATTGTGTGGTTAATTAAGTTTTGGCTAGGTGAATTAGCTTGAAT
1 AAATATTTACGAAGTTAATTGTGTGGTTAATTAAGTTTTAGCTAGGTGAATTAGCTTGAAT
94778402 CAAGGTTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (64 bp):
AAATATTTACGAAGTTAATTGTGTGGTTAATTAAGTTTTAGCTAGGTGAATTAGCTTGAATAAT
Found at i:94778554 original size:23 final size:23
Alignment explanation
Indices: 94778527--94778572 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
94778517 TAATGGTAAT
94778527 ATACATTTGTAATAAATACATAC
1 ATACATTTGTAATAAATACATAC
* *
94778550 ATACATTTGTAATATATATATAC
1 ATACATTTGTAATAAATACATAC
94778573 TTACTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
ATACATTTGTAATAAATACATAC
Found at i:94778606 original size:5 final size:5
Alignment explanation
Indices: 94778596--94778724 Score: 176
Period size: 5 Copynumber: 25.4 Consensus size: 5
94778586 AAGAAAATAT
94778596 TATTA TATTA TATTA TA-T- TATTA TATTA TATTA TA-T- TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
94778642 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
94778693 TTATTA TTATTA TTATTA TTATTA TTATTA TA
1 -TATTA -TATTA -TATTA -TATTA -TATTA TA
94778725 ATTAAAACAA
Statistics
Matches: 119, Mismatches: 0, Indels: 10
0.92 0.00 0.08
Matches are distributed among these distances:
3 4 0.03
4 4 0.03
5 76 0.64
6 35 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:94778728 original size:18 final size:16
Alignment explanation
Indices: 94778593--94778724 Score: 171
Period size: 18 Copynumber: 7.9 Consensus size: 16
94778583 TTTAAGAAAA
94778593 TATTATTATATTATATT
1 TATTATTATATTATA-T
94778610 ATATTATTATATTATATT
1 -TATTATTATATTATA-T
94778628 ATATTATTATATTATAT
1 -TATTATTATATTATAT
94778645 TA-TATTATATTATAT
1 TATTATTATATTATAT
94778660 TA-TATTATATTATAT
1 TATTATTATATTATAT
94778675 TA-TATTATATTATTAT
1 TATTATTATATTA-TAT
94778691 TATTATTATTATTATTAT
1 TATTATTA-TATTA-TAT
94778709 TATTATTATTATTATA
1 TATTATTA-TATTATA
94778725 ATTAAAACAA
Statistics
Matches: 111, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
15 40 0.36
16 7 0.06
17 8 0.07
18 56 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:94779916 original size:11 final size:11
Alignment explanation
Indices: 94779900--94779924 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94779890 TATAAATGAA
94779900 ATGCATGAACC
1 ATGCATGAACC
94779911 ATGCATGAACC
1 ATGCATGAACC
94779922 ATG
1 ATG
94779925 GGTTCATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (11 bp):
ATGCATGAACC
Found at i:94782793 original size:17 final size:17
Alignment explanation
Indices: 94782772--94782815 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
94782762 ATGGAATTAG
94782772 AATTTAGTTGAGAAAATT
1 AATTTAGTT-AGAAAATT
* *
94782790 -ATTTAATTATAAAATT
1 AATTTAGTTAGAAAATT
94782806 AATTTAGTTA
1 AATTTAGTTA
94782816 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
AATTTAGTTAGAAAATT
Found at i:94784423 original size:40 final size:40
Alignment explanation
Indices: 94784375--94784541 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
94784365 TTCTTCGAAT
* * *
94784375 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
94784414 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
94784454 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
94784494 TTAGCCCGGAT-TAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
94784533 TTAGCCCGG
1 TTAGCCCGG
94784542 GTATCATTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 34 0.32
40 72 0.68
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:94792529 original size:40 final size:40
Alignment explanation
Indices: 94792480--94792647 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
94792470 TCTTCGGAAT
* * *
94792480 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
94792519 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
94792559 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGAGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * * *
94792599 TTAGCCCAGATTTGATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AACAACTAGCACAAATGCCTTCGGGTC
94792639 TTAGCCCGG
1 TTAGCCCGG
94792648 GTATCATTCA
Statistics
Matches: 101, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
39 3 0.03
40 96 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:94792611 original size:80 final size:80
Alignment explanation
Indices: 94792471--94792647 Score: 214
Period size: 80 Copynumber: 2.2 Consensus size: 80
94792461 AACCGAGCTT
* * * * * *
94792471 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGAGTCTTAACCCAGATTTGAT
*
94792535 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* ** *
94792550 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGAGTCTTAGCCCAGATTTGA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGAGTCTTAACCCAGATTTGA
* *
94792614 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
94792630 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
94792648 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 10 0.12
80 70 0.85
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGAGTCTTAACCCAGATTTGAT
AACTAGCACAAATGC
Found at i:94796632 original size:18 final size:16
Alignment explanation
Indices: 94796590--94796632 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
94796580 ATTGTAATTT
94796590 TTTAAAAAATAAAAAA
1 TTTAAAAAATAAAAAA
94796606 TTATGAAAAAATAAAAACTA
1 TT-T-AAAAAATAAAAA--A
94796626 TTTAAAA
1 TTTAAAA
94796633 TTCAAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 1 0.04
18 16 0.70
19 1 0.04
20 3 0.13
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
TTTAAAAAATAAAAAA
Found at i:94796668 original size:21 final size:20
Alignment explanation
Indices: 94796642--94796696 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
94796632 ATTCAAAGTT
*
94796642 AAAAATAAAAATTATTTTTAA
1 AAAAATAAAAA-TAATTTTAA
*
94796663 AAAAATATAAATAATTTTAA
1 AAAAATAAAAATAATTTTAA
* *
94796683 AAATATAAATATAA
1 AAAAATAAAAATAA
94796697 ATTACAAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATAAAAATAATTTTAA
Found at i:94796686 original size:18 final size:18
Alignment explanation
Indices: 94796640--94796693 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
94796630 AAATTCAAAG
* *
94796640 TTAAAAATAAAAATTATTT
1 TTAAAAATATAAA-TAATT
94796659 TTAAAAAAATATAAATAATT
1 TT--AAAAATATAAATAATT
94796679 TTAAAAATATAAATA
1 TTAAAAATATAAATA
94796694 TAAATTACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 13 0.42
19 2 0.06
20 6 0.19
21 10 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAATATAAATAATT
Found at i:94796705 original size:20 final size:18
Alignment explanation
Indices: 94796663--94796705 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
94796653 TTATTTTTAA
**
94796663 AAAAATATAAATAATTTT
1 AAAAATATAAATAAAATT
94796681 AAAAATATAAATATAAATT
1 AAAAATATAAATA-AAATT
94796700 ACAAAA
1 A-AAAA
94796706 CTCAATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 4 0.19
20 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATATAAATAAAATT
Found at i:94797172 original size:27 final size:25
Alignment explanation
Indices: 94797142--94797207 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
94797132 AATAAATTTT
94797142 AAAAAATTTAAAACTAAAAAAGATAAA
1 AAAAAATTTAAAA-TAAAAAA-ATAAA
* **
94797169 AAAATATTTAAAATTCAAAAATAAA
1 AAAAAATTTAAAATAAAAAAATAAA
*
94797194 AAAGAATTATAAAA
1 AAAAAATT-TAAAA
94797208 AATACTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 11 0.33
26 10 0.30
27 12 0.36
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAAAATTTAAAATAAAAAAATAAA
Found at i:94799772 original size:40 final size:40
Alignment explanation
Indices: 94799684--94799761 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
94799674 GTAAGATTAT
*
94799684 ACTGAAAGATGTTATTACATCATAAATGAGTAAGACCACA
1 ACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACA
*
94799724 ACTGAAAGATGTTATGACATTATAAATGAGTAAGACCA
1 ACTGAAAGATGTTATGACATCATAAATGAGTAAGACCA
94799762 TAGTTGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.26
Consensus pattern (40 bp):
ACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACA
Found at i:94800441 original size:40 final size:40
Alignment explanation
Indices: 94800386--94800489 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
94800376 AAATTTAAAT
* * **
94800386 ATGAGTGAGATCATAGCTGAAAGATGTTATGGTATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAA
*
94800426 ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAA
94800466 ATGAGTAAGACCATAGCTGAAAGA
1 ATGAGTAAGACCATAGCTGAAAGA
94800490 CACCATGGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (40 bp):
ATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAA
Found at i:94801062 original size:717 final size:716
Alignment explanation
Indices: 94799666--94801068 Score: 2033
Period size: 717 Copynumber: 2.0 Consensus size: 716
94799656 GCTATACATC
* * *
94799666 AAATATGAGTAAGATTATACTGAAAGATGTTATTACATCATAAATGAGTAAGACCACAACTGAAA
1 AAATATGAGTAAGATCATACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACAACTAAAA
* * *
94799731 GATGTTATGACATTATAAATGAGTAAGACCATAGTTGAAAGACACTATAACATCCTCTGATAGTC
66 GATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATAACATCCTCTGATAGTC
* * * * *
94799796 CATCGAGACAGTAAACACGAGATTATATCGTGTAAGACCATAGATGAAAGACGCTATAGCATCGT
131 CATCGAAACAGTAAACACGAGATTATATCATGTAAGACCATAGATAAAAGACGCCATAGCATCCT
*
94799861 AGATAGTCCGTCGAGACAACAAACACGGGATAATCCATCGAGACAATAATCATGGGACAATTCGC
196 AGATAGTCCATCGAGACAACAAACACGGGATAATCCATCGAGACAATAATCATGGGACAATTCGC
*
94799926 CAAGACAGAAAGGGTGGGAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCAT
261 CAAGACAGAAAGCGTGGGAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCAT
** * * * *
94799991 AAATCAGTTATGGCATCATGAAGACTCAATCGATAAGGTGAACATGAGAGTTTAAAAGGTGTAAA
326 AAATCAGTTATAACATCATGAAAACTCAACCAATAAGGTGAACACGAGAGTTTAAAAGGTGTAAA
* *
94800056 TTCTAGGCTTGTTGATAGAGGTTGGTAAAGATCATCGAATGAAGTGGACTTTAAGGCTTATTGAA
391 TTCTAGGCTCGGTGATAGAGGTTGGTAAAGATCATCGAATGAAGTGGACTTTAAGGCTTATTGAA
* * *
94800121 CAAGATGATATATTTAATCAAGGACCGAGACTTAAGAGTCTGCGGATAAAGGGGGGAATTAAGGG
456 CAAGAGGATATATTTAATCAAGGACCGAGACTTAAGAGTCTGCAGACAAAGGGGGGAATTAAGGG
* * * * *
94800186 TGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCTGGGTTGGCAAAAGAAGGAATCTGTTA
521 CGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGCAAAAGAAGAAACCTGTTA
* * * *
94800251 AAGACTAACTTGGGGCGGGTAGTCTACCAGGAAATATAGAGGATAAAAATTTGAAACCTAAGGAA
586 AAGACTAACCTGGGGCGGGCAGTCTACCAAGAAATATAGAGGATAAAAATTTAAAACCTAAGGAA
94800316 ATAAATGTCAGACAACCAATGACCGACATTGGGTCTTCCGATATATGTTGTGAGAGAAAAAAATT
651 ATAAATGTCAGACAACCAATGACCGACATTGGGTCTTCCGATATATGTTGTGAGAGAAAAAAATT
94800381 T
716 T
* ** * *
94800382 AAATATGAGTGAGATCATAGCTGAAAGATGTTATGGTATCATAAATGAGTAAGACCATAGCTAAA
1 AAATATGAGTAAGATCATA-CTGAAAGATGTTATGACATCATAAATGAGTAAGACCACAACTAAA
** *
94800447 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATGGCATCCTTTGATAGT
65 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATAACATCCTCTGATAGT
* * * * * *
94800512 TCGTCGAAATAGTAAACACGAGGTTATATCATGTAAGACCATAGCTAAAAGATGCCATAGCATCC
130 CCATCGAAACAGTAAACACGAGATTATATCATGTAAGACCATAGATAAAAGACGCCATAGCATCC
* * * * * *
94800577 TAGATAGTTCATCGGGATAATAAACACGGGATAATCTATCGAGACAATAATCATGGGGCAATTCG
195 TAGATAGTCCATCGAGACAACAAACACGGGATAATCCATCGAGACAATAATCATGGGACAATTCG
* ** * *
94800642 CCAAGATAGAAAGCGTGTTAACATCTACCAAGACAATTTGCTTGGAAAGAAAGAGTGAAAGACCA
260 CCAAGACAGAAAGCGTGGGAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCA
94800707 TAAATCAGTTATAACATCATGAAAACTCAACCAATAAGGTGAACACGAGAGTTTAAAAGGTGTAA
325 TAAATCAGTTATAACATCATGAAAACTCAACCAATAAGGTGAACACGAGAGTTTAAAAGGTGTAA
* * * * *
94800772 ATTCTAGGCTCGGTGGTGGTGGTTGGTAAAGATC-GCTGAATGGAGTGGA-TTCTAAGGCTTATT
390 ATTCTAGGCTCGGTGATAGAGGTTGGTAAAGATCATC-GAATGAAGTGGACTT-TAAGGCTTATT
* * * * *
94800835 GAACAAGAGGATATATTTAATCAAGGACCGATACTTAAGGATTC-GTAGACAAATGGGGTAATTA
453 GAACAAGAGGATATATTTAATCAAGGACCGAGACTTAA-GAGTCTGCAGACAAAGGGGGGAATTA
* * *
94800899 AGGGCGGTTATGTCCGTCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGTAAAAGAAGAAACCT
517 AGGGCGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGCAAAAGAAGAAACCT
* * *
94800964 GTTAAGGACTAACCTGGGGCGGGCAGTGC-ACCAAGAAATA-GGGGCGATAAAAATTTAAAACCT
582 GTTAAAGACTAACCTGGGGCGGGCAGT-CTACCAAGAAATATAGAG-GATAAAAATTTAAAACCT
* *
94801027 AAGGAAGTAAATGTCAGACAACCAATGATCGACATTGGGTCT
645 AAGGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCT
94801069 CCCATTCAAG
Statistics
Matches: 605, Mismatches: 76, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
716 22 0.04
717 578 0.96
718 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (716 bp):
AAATATGAGTAAGATCATACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACAACTAAAA
GATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATAACATCCTCTGATAGTC
CATCGAAACAGTAAACACGAGATTATATCATGTAAGACCATAGATAAAAGACGCCATAGCATCCT
AGATAGTCCATCGAGACAACAAACACGGGATAATCCATCGAGACAATAATCATGGGACAATTCGC
CAAGACAGAAAGCGTGGGAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCAT
AAATCAGTTATAACATCATGAAAACTCAACCAATAAGGTGAACACGAGAGTTTAAAAGGTGTAAA
TTCTAGGCTCGGTGATAGAGGTTGGTAAAGATCATCGAATGAAGTGGACTTTAAGGCTTATTGAA
CAAGAGGATATATTTAATCAAGGACCGAGACTTAAGAGTCTGCAGACAAAGGGGGGAATTAAGGG
CGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGCAAAAGAAGAAACCTGTTA
AAGACTAACCTGGGGCGGGCAGTCTACCAAGAAATATAGAGGATAAAAATTTAAAACCTAAGGAA
ATAAATGTCAGACAACCAATGACCGACATTGGGTCTTCCGATATATGTTGTGAGAGAAAAAAATT
T
Found at i:94802602 original size:13 final size:13
Alignment explanation
Indices: 94802570--94802608 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
94802560 AATAATTTGT
*
94802570 AAAATAATTAATAA
1 AAAATAAAT-ATAA
*
94802584 ATAATAAATATAA
1 AAAATAAATATAA
94802597 AAAATAAATATA
1 AAAATAAATATA
94802609 TGATGGGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:94803038 original size:12 final size:12
Alignment explanation
Indices: 94803021--94803051 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
94803011 TAATGTTGGC
94803021 GTGGCAACTTGT
1 GTGGCAACTTGT
94803033 GTGGCAACTTGT
1 GTGGCAACTTGT
94803045 GTGGCAA
1 GTGGCAA
94803052 TCTATGTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.29
Consensus pattern (12 bp):
GTGGCAACTTGT
Found at i:94803841 original size:7 final size:8
Alignment explanation
Indices: 94803825--94803866 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
94803815 TAAAGTTACA
94803825 AAAAATAT
1 AAAAATAT
94803833 AAAAA-AT
1 AAAAATAT
94803840 AAAATATACT
1 AAAA-ATA-T
94803850 AAAAATAT
1 AAAAATAT
*
94803858 TAAAATAT
1 AAAAATAT
94803866 A
1 A
94803867 TATTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 6 0.21
8 14 0.48
9 4 0.14
10 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:94805663 original size:18 final size:17
Alignment explanation
Indices: 94805636--94805669 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
94805626 ACAAGTGTTG
94805636 CTTTTGTTTTTCTTTTCC
1 CTTTTGTTTTT-TTTTCC
*
94805654 CTTTTTTTTTTTTTTC
1 CTTTTGTTTTTTTTTC
94805670 AAATTCTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTGTTTTTTTTTCC
Found at i:94806527 original size:81 final size:80
Alignment explanation
Indices: 94806392--94806553 Score: 252
Period size: 81 Copynumber: 2.0 Consensus size: 80
94806382 AGAATTAGGA
* *
94806392 TAAAGAAATTATTTTCTTGTTGACTTATTTAAATGAAAAATGATAGGGATTCAAATTTAGAGAGA
1 TAAAGAAATTATTTTCTTGTTAACTTATTTAAATAAAAAATGATAGGGATTCAAATTTAGAGAGA
94806457 GAGAGAGTTCATGCTT
66 GAG-GAGTTCATGCTT
* * *
94806473 TAAAGGAATTATTTTTTTGTTAACTTATTTAAATAAAAAATGATATGGATTCAAATTTAGAGAGA
1 TAAAGAAATTATTTTCTTGTTAACTTATTTAAATAAAAAATGATAGGGATTCAAATTTAGAGAGA
* *
94806538 TAGGGGTTCATGCTT
66 GAGGAGTTCATGCTT
94806553 T
1 T
94806554 GTATTTTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 12 0.16
81 62 0.84
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (80 bp):
TAAAGAAATTATTTTCTTGTTAACTTATTTAAATAAAAAATGATAGGGATTCAAATTTAGAGAGA
GAGGAGTTCATGCTT
Found at i:94806924 original size:31 final size:31
Alignment explanation
Indices: 94806889--94806947 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
94806879 AAACATCCTT
94806889 AATATAATTATTTTATATTAAATTATATGGA
1 AATATAATTATTTTATATTAAATTATATGGA
**
94806920 AATATTTTTATTTTATATTAAATTATAT
1 AATATAATTATTTTATATTAAATTATAT
94806948 TAAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
AATATAATTATTTTATATTAAATTATATGGA
Found at i:94806954 original size:31 final size:31
Alignment explanation
Indices: 94806896--94806957 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
94806886 CTTAATATAA
*
94806896 TTATTTTATATTAAATTATATGGAAATATTT
1 TTATTTTATATTAAATTATATGAAAATATTT
*
94806927 TTATTTTATATTAAATTATATTAAAATATTT
1 TTATTTTATATTAAATTATATGAAAATATTT
94806958 AAAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TTATTTTATATTAAATTATATGAAAATATTT
Found at i:94811428 original size:28 final size:28
Alignment explanation
Indices: 94811406--94811467 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
94811396 ATTAACTTCA
*
94811406 AGAAAACAAAGGCAGAATATTAATCAAT
1 AGAAAACAAAGGCAAAATATTAATCAAT
*
94811434 ATAAAACAAAGGCAAAATATTAATCAAT
1 AGAAAACAAAGGCAAAATATTAATCAAT
*
94811462 AAAAAA
1 AGAAAA
94811468 AGTATTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.18
Consensus pattern (28 bp):
AGAAAACAAAGGCAAAATATTAATCAAT
Found at i:94812371 original size:16 final size:16
Alignment explanation
Indices: 94812352--94812384 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
94812342 GGAACCGTGT
94812352 TGTAATGGCTATGCCA
1 TGTAATGGCTATGCCA
94812368 TGTAATGGCTATGCCA
1 TGTAATGGCTATGCCA
94812384 T
1 T
94812385 TACATTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (16 bp):
TGTAATGGCTATGCCA
Found at i:94815229 original size:46 final size:46
Alignment explanation
Indices: 94815156--94815288 Score: 187
Period size: 46 Copynumber: 2.9 Consensus size: 46
94815146 ATAATCTCAC
* *
94815156 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTT-GCAT
* * *
94815202 CCATAATGAACTCGAAACACAAATCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
*
94815248 CCATAGGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
94815289 CTCATAATTC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 43 0.57
47 33 0.43
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
Found at i:94815277 original size:47 final size:47
Alignment explanation
Indices: 94815156--94815329 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
94815146 ATAATCTCAC
* *
94815156 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
* * *
94815202 CCATAATGAACTCGAAACACAAATCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
* * **
94815248 CCATAGGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTC-GCAT
* * * *
94815297 TC-TCATGAACTCGGACCACAACTCAACGAGTTC
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC
94815330 CGATCTCAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
46 43 0.40
47 60 0.56
48 1 0.01
49 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:94818791 original size:28 final size:27
Alignment explanation
Indices: 94818728--94818791 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
94818718 CTTCAGAATA
94818728 CAGTCAAATATAGTTTGGGCTTGAGCC
1 CAGTCAAATATAGTTTGGGCTTGAGCC
*
94818755 CATTACAAAT-TCAGTTTGGGGCCTT-AGCC
1 CAGT-CAAATAT-AGTTT-GGG-CTTGAGCC
94818784 CAGTCAAA
1 CAGTCAAA
94818792 CACAGCCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 10 0.32
30 3 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (27 bp):
CAGTCAAATATAGTTTGGGCTTGAGCC
Found at i:94824133 original size:16 final size:16
Alignment explanation
Indices: 94824108--94824145 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
94824098 TAGAGCAATC
*
94824108 TTGTTTAGAATAGTTG
1 TTGTTCAGAATAGTTG
*
94824124 TTGTTCAGAATATTTG
1 TTGTTCAGAATAGTTG
94824140 TTGTTC
1 TTGTTC
94824146 GAAAATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (16 bp):
TTGTTCAGAATAGTTG
Found at i:94827997 original size:43 final size:44
Alignment explanation
Indices: 94827949--94828054 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 44
94827939 TTACCGAGAA
* * *
94827949 GTGATTACATGTAATACCATGTCTAGGACATTGGCATTG-TATT
1 GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
* *
94827992 GTGATTACGTGTAAAACCATGTCTGGGACAGTGGCATCGATATT
1 GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
* *
94828036 -TGATAACATGTAAGACCAT
1 GTGATTACATGTAAAACCAT
94828055 ATTTGGGATA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (44 bp):
GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
Found at i:94830255 original size:34 final size:33
Alignment explanation
Indices: 94830202--94830290 Score: 117
Period size: 34 Copynumber: 2.7 Consensus size: 33
94830192 TACAATGTTA
* *
94830202 TTTGGTGAGTTGGTGGATTAACTCATATGAGTT
1 TTTGGTGTGTTGGTGGATTAACTCATACGAGTT
* *
94830235 TTTGGTGTGTTAGTTGGATTAGCTCATACGAGTT
1 TTTGGTGTGTT-GGTGGATTAACTCATACGAGTT
94830269 TTTGGTGTGTTGGATGG-TTAAC
1 TTTGGTGTGTTGG-TGGATTAAC
94830291 CGTATACTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 15 0.31
34 33 0.69
ACGTcount: A:0.18, C:0.07, G:0.31, T:0.44
Consensus pattern (33 bp):
TTTGGTGTGTTGGTGGATTAACTCATACGAGTT
Found at i:94838207 original size:3 final size:3
Alignment explanation
Indices: 94838199--94838228 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
94838189 AGTTTTGCAA
94838199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94838229 GAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94841432 original size:15 final size:17
Alignment explanation
Indices: 94841412--94841443 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
94841402 GAGGTTGAGG
94841412 GAGAAA-GA-AGATGAA
1 GAGAAATGAGAGATGAA
94841427 GAGAAATGAGAGATGAA
1 GAGAAATGAGAGATGAA
94841444 CAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.09
Consensus pattern (17 bp):
GAGAAATGAGAGATGAA
Found at i:94842705 original size:20 final size:19
Alignment explanation
Indices: 94842680--94842733 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
94842670 AAAATATAAT
94842680 ATAAATTTTAAAATAAATAC
1 ATAAATTTTAAAAT-AATAC
* * *
94842700 ATAAATATATAAAGTAATAT
1 ATAAAT-TTTAAAATAATAC
94842720 ATAATATTTTAAAA
1 ATAA-ATTTTAAAA
94842734 ATATCAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAATTTTAAAATAATAC
Found at i:94842732 original size:28 final size:28
Alignment explanation
Indices: 94842701--94842755 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
94842691 AATAAATACA
*
94842701 TAAATATAT-AAAGTAATATATAATATTT
1 TAAAAATATCAAAGTAATATA-AATATTT
* *
94842729 TAAAAATATCAAATTTATATAAATATT
1 TAAAAATATCAAAGTAATATAAATATT
94842756 AATAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAAATATCAAAGTAATATAAATATTT
Found at i:94842966 original size:25 final size:24
Alignment explanation
Indices: 94842938--94842984 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
94842928 TTGGCTTCAA
* *
94842938 TCTCTAATTTGATATCTGAGTTTTT
1 TCTCCAATTTGATACCT-AGTTTTT
94842963 TCTCCAATTTGATACCTAGTTT
1 TCTCCAATTTGATACCTAGTTT
94842985 GGTTTCAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (24 bp):
TCTCCAATTTGATACCTAGTTTTT
Found at i:94843229 original size:2 final size:2
Alignment explanation
Indices: 94843222--94843252 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
94843212 TACTAACCTT
94843222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94843253 TGAAAAAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94843916 original size:28 final size:27
Alignment explanation
Indices: 94843868--94843946 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 27
94843858 TGTTTTAGAG
* * *
94843868 ATTAAATGAAGGAAAAGGCATTAATAA
1 ATTAAATGTAGGAAAAAGCATTAAGAA
*
94843895 ATTAAATGTAGGGAAAAAGCATTAAGAT
1 ATTAAATGTA-GGAAAAAGCATTAAGAA
*
94843923 ATTAAATGTATGAAAAAGCCATTA
1 ATTAAATGTAGGAAAAAG-CATTA
94843947 GGCATTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 16 0.36
28 29 0.64
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (27 bp):
ATTAAATGTAGGAAAAAGCATTAAGAA
Found at i:94843965 original size:28 final size:28
Alignment explanation
Indices: 94843868--94843965 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
94843858 TGTTTTAGAG
* * * *
94843868 ATTAAATG-AAGGAAAAGGCATTAATAA
1 ATTAAATGTAGGGAAAAAGCATTAAGAC
*
94843895 ATTAAATGTAGGGAAAAAGCATTAAGAT
1 ATTAAATGTAGGGAAAAAGCATTAAGAC
* *
94843923 ATTAAATGTA-TGAAAAAGCCATT-AGGC
1 ATTAAATGTAGGGAAAAAG-CATTAAGAC
*
94843950 ATTAAATGCAGGGAAA
1 ATTAAATGTAGGGAAA
94843966 TGACTTATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 26 0.44
28 33 0.56
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.23
Consensus pattern (28 bp):
ATTAAATGTAGGGAAAAAGCATTAAGAC
Found at i:94844166 original size:90 final size:89
Alignment explanation
Indices: 94843993--94844166 Score: 194
Period size: 88 Copynumber: 1.9 Consensus size: 89
94843983 CATAAACTTG
*
94843993 TTTTTTGTTTCACTTTTCCAACTTTTTTTTTCTATAAGATTTTTCTTTTAAATTCATCAGTGCCA
1 TTTTTTGTTTCACTTTTCCAACTTTTTTTTCCTATAAGATTTTTCTTTTAAATTCATCAGTGCCA
* *
94844058 TCAATGTATTAGGTGACATTACAA
66 TCAATGTATTAAGCGACATTACAA
** * * *
94844082 TTTTTT-TTTCACTTTTTTAGCTTTTTTTTCCTATCAGGTTTATT-TTTTAAAAGTTCATCAGTG
1 TTTTTTGTTTCACTTTTCCAACTTTTTTTTCCTATAAGATTT-TTCTTTT-AAA-TTCATCAGTG
*
94844145 -C-TGCTAATGTGTTAAGCGACAT
63 CCAT-C-AATGTATTAAGCGACAT
94844167 CCAAAGCTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
88 34 0.48
89 13 0.18
90 24 0.34
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (89 bp):
TTTTTTGTTTCACTTTTCCAACTTTTTTTTCCTATAAGATTTTTCTTTTAAATTCATCAGTGCCA
TCAATGTATTAAGCGACATTACAA
Found at i:94849304 original size:24 final size:24
Alignment explanation
Indices: 94849273--94849321 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
94849263 AGAACATTAT
*
94849273 TGAGTTAGTATTAAAGTTTTGTTA
1 TGAGTTAGTATTAAAGTTTCGTTA
94849297 TGAGTTAGTATTAAAGTTTCGTTA
1 TGAGTTAGTATTAAAGTTTCGTTA
94849321 T
1 T
94849322 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (24 bp):
TGAGTTAGTATTAAAGTTTCGTTA
Found at i:94850525 original size:21 final size:21
Alignment explanation
Indices: 94850501--94850566 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
94850491 CAAATTAACC
94850501 CTTTTGGGTTTCAGTTCAGCT
1 CTTTTGGGTTTCAGTTCAGCT
* * * *
94850522 CTTTTGAGCTTCAGTTTAGCC
1 CTTTTGGGTTTCAGTTCAGCT
* *
94850543 CTTATGGGTTTCCGTTCAGCT
1 CTTTTGGGTTTCAGTTCAGCT
94850564 CTT
1 CTT
94850567 ATGAGATTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (21 bp):
CTTTTGGGTTTCAGTTCAGCT
Found at i:94853677 original size:47 final size:47
Alignment explanation
Indices: 94853608--94853713 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
94853598 TCATTCTGGG
94853608 AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
1 AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
* * * *
94853655 AATAGATTGGTTGACGAAGCATGATGCTGTAGTAAATTGTAGAGAAA
1 AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
*
94853702 AAAAGATTGGTT
1 AATAGATTGGTT
94853714 TGAAATGTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.27
Consensus pattern (47 bp):
AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
Found at i:94858208 original size:21 final size:21
Alignment explanation
Indices: 94858184--94858230 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
94858174 ACTCATAAGA
*
94858184 GTTTCAGATTAACCCTTTTGG
1 GTTTCAGATTAACCCTTATGG
*
94858205 GTTTCAGTTTAACCCTTATGG
1 GTTTCAGATTAACCCTTATGG
94858226 GTTTC
1 GTTTC
94858231 TGTTCATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (21 bp):
GTTTCAGATTAACCCTTATGG
Found at i:94858258 original size:42 final size:42
Alignment explanation
Indices: 94858211--94858296 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
94858201 TTGGGTTTCA
* * * *
94858211 GTTTAACCCTTATGGGTTTCTGTTCATCTCCTATGAGCTTCT
1 GTTTAACCCTTACGGGTTTCCGTTCAGCACCTATGAGCTTCT
* *
94858253 GTTTAACCCTTACGGGTTTCCGTTTAGCACCTATGTGCTTCT
1 GTTTAACCCTTACGGGTTTCCGTTCAGCACCTATGAGCTTCT
94858295 GT
1 GT
94858297 ACAGCCTTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (42 bp):
GTTTAACCCTTACGGGTTTCCGTTCAGCACCTATGAGCTTCT
Found at i:94862632 original size:41 final size:41
Alignment explanation
Indices: 94862587--94862679 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
94862577 ATTATTGTAT
* *
94862587 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCTTG
1 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
* *
94862628 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
*
94862669 AATTACACATA
1 AATTGCACATA
94862680 TGTGACTCGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
Found at i:94862693 original size:41 final size:41
Alignment explanation
Indices: 94862587--94862702 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 41
94862577 ATTATTGTAT
* * ** * * *
94862587 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCTTG
1 AATTACACATACGTGACCCGGTTTGTACTTTGGTACCCCTA
* * *
94862628 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTACACATACGTGACCCGGTTTGTACTTTGGTACCCCTA
* * *
94862669 AATTACACATATGTGACTCGGTTTGTATTTTGGT
1 AATTACACATACGTGACCCGGTTTGTACTTTGGT
94862703 GCTCCTGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (41 bp):
AATTACACATACGTGACCCGGTTTGTACTTTGGTACCCCTA
Found at i:94870675 original size:55 final size:55
Alignment explanation
Indices: 94870610--94870721 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 55
94870600 AGCCTGGGGG
* * *
94870610 TTAATTTGTAAA-ATTGTTAAATGTTGAGGGTTATGCTATGAATGTTCTTGAATGA
1 TTAATTTGTAAATA-TATTAAAGGTTAAGGGTTATGCTATGAATGTTCTTGAATGA
94870665 TTAATTTGTAAATATATTAAAGGTTAAGGGTTATGCTATGAATGTTCTTGAATGA
1 TTAATTTGTAAATATATTAAAGGTTAAGGGTTATGCTATGAATGTTCTTGAATGA
94870720 TT
1 TT
94870722 TTTTATGTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
55 52 0.98
56 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (55 bp):
TTAATTTGTAAATATATTAAAGGTTAAGGGTTATGCTATGAATGTTCTTGAATGA
Found at i:94873731 original size:40 final size:39
Alignment explanation
Indices: 94873579--94873733 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
94873569 AATGTGCAAA
*
94873579 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTATGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
94873618 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
94873657 CTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
94873696 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
94873734 GGTTACCATA
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:94873749 original size:40 final size:40
Alignment explanation
Indices: 94873588--94873769 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
94873578 ATTGTGATAT
* * *** *
94873588 CCGGGCTAAG-CCCGAAGGCAATTATGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
94873627 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
94873666 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
94873705 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
94873745 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
94873770 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.64
40 45 0.36
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:94878495 original size:13 final size:13
Alignment explanation
Indices: 94878477--94878506 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
94878467 TTTATTATAT
*
94878477 ATATTCAACACTA
1 ATATTCAAAACTA
94878490 ATATTCAAAACTA
1 ATATTCAAAACTA
94878503 ATAT
1 ATAT
94878507 ATATTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATTCAAAACTA
Found at i:94886271 original size:2 final size:2
Alignment explanation
Indices: 94886224--94886256 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
94886214 ATAATGTATG
94886224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94886257 TAATAGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94886933 original size:22 final size:21
Alignment explanation
Indices: 94886898--94886951 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
94886888 CACAAACTCA
*
94886898 AAACCCAAGCCAATACCAAAC
1 AAACCCAAACCAATACCAAAC
* *
94886919 AAACCCAAACTCAATGCCAATC
1 AAACCCAAAC-CAATACCAAAC
94886941 AAACCCAAACC
1 AAACCCAAACC
94886952 TAAGCCAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.50, C:0.39, G:0.04, T:0.07
Consensus pattern (21 bp):
AAACCCAAACCAATACCAAAC
Found at i:94887221 original size:17 final size:17
Alignment explanation
Indices: 94887192--94887229 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
94887182 ATATTATTAA
*
94887192 ATTA-ATATATTATGTT
1 ATTATATATATTATATT
*
94887208 ATTATATATTTTATATT
1 ATTATATATATTATATT
94887225 ATTAT
1 ATTAT
94887230 CAAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTATATATATTATATT
Found at i:94887229 original size:8 final size:8
Alignment explanation
Indices: 94887176--94887229 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
94887166 TATAACACCA
*
94887176 ATTATCAT
1 ATTATTAT
*
94887184 ATTATTAA
1 ATTATTAT
*
94887192 ATTAATAT
1 ATTATTAT
94887200 ATTATGT-T
1 ATTAT-TAT
94887208 ATTA-TAT
1 ATTATTAT
94887215 ATT-TTAT
1 ATTATTAT
94887222 ATTATTAT
1 ATTATTAT
94887230 CAAATTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
6 1 0.03
7 10 0.27
8 25 0.68
9 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (8 bp):
ATTATTAT
Found at i:94891644 original size:13 final size:13
Alignment explanation
Indices: 94891626--94891654 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
94891616 TCATATGAAA
94891626 TAAAAATCAAGCC
1 TAAAAATCAAGCC
94891639 TAAAAATCAAGCC
1 TAAAAATCAAGCC
94891652 TAA
1 TAA
94891655 TATAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (13 bp):
TAAAAATCAAGCC
Found at i:94912528 original size:35 final size:35
Alignment explanation
Indices: 94912487--94912660 Score: 210
Period size: 35 Copynumber: 5.0 Consensus size: 35
94912477 ATGGCAAATT
* * * *
94912487 TATGACACATAGGTATGGAATTATCCATGCTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACTGAGC
* *
94912522 TATGACACGTAGGTATGGTATTATCCATACCGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACTGAGC
*
94912557 TAT-AATACGTAGGTATGGTATT-TCCCATA-TCGAGT
1 TATGAA-ACGTAGGTATGGTATTAT-CCATACT-GAGC
*
94912592 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACTGAGC
* *
94912627 TATGAAACGTAGGTATGGTATTAACCATATTGAG
1 TATGAAACGTAGGTATGGTATTATCCATACTGAG
94912661 TTGTGAATCG
Statistics
Matches: 122, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
34 2 0.02
35 116 0.95
36 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTATCCATACTGAGC
Found at i:94914783 original size:47 final size:46
Alignment explanation
Indices: 94914664--94914804 Score: 142
Period size: 47 Copynumber: 3.0 Consensus size: 46
94914654 TCACATGTCG
* * * * * * *
94914664 CACACTGAAGCCATAGCCCAGCCATGGTTTTACACGGATCACAAAT
1 CACACTGATGCCATAGCCCAACTATGGTCTTACACGAAGCACATAT
* *
94914710 CACACTGATGCTATATCCCAGA-TATGGTCTTACACAGAAGCACATAT
1 CACACTGATGCCATAGCCCA-ACTATGGTCTTACAC-GAAGCACATAT
*
94914757 -ATCACTGATGCCATAGCCCAACTATGGTCTTATACGGAAGCACATAT
1 CA-CACTGATGCCATAGCCCAACTATGGTCTTACAC-GAAGCACATAT
94914804 C
1 C
94914805 TCATCACACC
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
46 30 0.39
47 47 0.61
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (46 bp):
CACACTGATGCCATAGCCCAACTATGGTCTTACACGAAGCACATAT
Found at i:94914835 original size:52 final size:47
Alignment explanation
Indices: 94914673--94914853 Score: 136
Period size: 47 Copynumber: 3.8 Consensus size: 47
94914663 GCACACTGAA
* * * * *
94914673 GCCATAGCCCAGCCATGGTTTTACACGG-ATCACA-A-ATCACACTGAT
1 GCCATAGCCCAACTATGGTCTTATACGGAAGCACATATATCAC-C-GAT
* * * * *
94914719 GCTATATCCCAGA-TATGGTCTTACACAGAAGCACATATATCACTGAT
1 GCCATAGCCCA-ACTATGGTCTTATACGGAAGCACATATATCACCGAT
94914766 GCCATAGCCCAACTATGGTCTTATACGGAAGCACATATCTCATCACACCGAT
1 GCCATAGCCCAACTATGGTCTTATACGGAAGCACATA--T-AT--CACCGAT
* * * *
94914818 GCCATAGTCTAGCTATGGTCTTATACGGGAGCACAT
1 GCCATAGCCCAACTATGGTCTTATACGGAAGCACAT
94914854 GTCACATGTT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
46 22 0.20
47 39 0.36
48 1 0.01
49 6 0.06
50 2 0.02
52 38 0.35
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (47 bp):
GCCATAGCCCAACTATGGTCTTATACGGAAGCACATATATCACCGAT
Found at i:94921544 original size:39 final size:39
Alignment explanation
Indices: 94921501--94921580 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
94921491 AACATGTTTT
*
94921501 TGAGTATTGCGACATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGACATATGCTTAAATGTTATGTGATTATA
* *
94921540 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGCGACATATGCTTAAATGTTATGTGATTATA
94921579 TG
1 TG
94921581 TGTAATATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.44
Consensus pattern (39 bp):
TGAGTATTGCGACATATGCTTAAATGTTATGTGATTATA
Found at i:94921595 original size:39 final size:39
Alignment explanation
Indices: 94921514--94921602 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
94921504 GTATTGCGAC
* * *
94921514 ATATGCTTGAATGTTATGTGATTATATGAGTATTGTGAT
1 ATATGCTTAAATGTTATGTGATTATATGAGTAATATGAT
* *
94921553 ATATGCTTAAATGTTATGTGATTATATGTGTAATATGGT
1 ATATGCTTAAATGTTATGTGATTATATGAGTAATATGAT
*
94921592 ATATGATTAAA
1 ATATGCTTAAA
94921603 AGTGAATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (39 bp):
ATATGCTTAAATGTTATGTGATTATATGAGTAATATGAT
Found at i:94926093 original size:41 final size:41
Alignment explanation
Indices: 94926036--94926117 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
94926026 GGTGGGTCCT
*
94926036 CCTGAAATGTAGGGATATCATCAGGAATATCATCGGCGTCA
1 CCTGAAATGCAGGGATATCATCAGGAATATCATCGGCGTCA
94926077 CCTGAAATGCAGGGATATCATCAGGAATATCATCGGCGTCA
1 CCTGAAATGCAGGGATATCATCAGGAATATCATCGGCGTCA
94926118 TACTCATCGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (41 bp):
CCTGAAATGCAGGGATATCATCAGGAATATCATCGGCGTCA
Found at i:94941201 original size:24 final size:24
Alignment explanation
Indices: 94941148--94941202 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
94941138 TTCGTAGATC
* *
94941148 AAATAAATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
94941172 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
94941196 AAATATA
1 AAATATA
94941203 CTAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:94941204 original size:19 final size:19
Alignment explanation
Indices: 94941180--94941218 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
94941170 CTAAATATAT
*
94941180 TATACTAATAAATGCTAAA
1 TATACTAATAAATACTAAA
94941199 TATACTAATAAATACTAAA
1 TATACTAATAAATACTAAA
94941218 T
1 T
94941219 CTTCTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (19 bp):
TATACTAATAAATACTAAA
Found at i:94943699 original size:42 final size:40
Alignment explanation
Indices: 94943653--94943732 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
94943643 TATATCCATT
* *
94943653 TTTTATAATTAATAGAAAATAATATTTTAAAATTATAATATA
1 TTTTAAAATTAATAGAAAAT-A-ATCTTAAAATTATAATATA
* *
94943695 TTTTAAAATTAATTGAAGATAATCTTAAAATTATAATA
1 TTTTAAAATTAATAGAAAATAATCTTAAAATTATAATA
94943733 ATTAGATGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 16 0.47
41 1 0.03
42 17 0.50
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (40 bp):
TTTTAAAATTAATAGAAAATAATCTTAAAATTATAATATA
Found at i:94944271 original size:17 final size:17
Alignment explanation
Indices: 94944241--94944273 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
94944231 TTTTACCATT
94944241 TAAATATTACAAATTAA
1 TAAATATTACAAATTAA
94944258 TAAATCATTA-AAATTA
1 TAAAT-ATTACAAATTA
94944274 TATTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATATTACAAATTAA
Found at i:94945392 original size:13 final size:14
Alignment explanation
Indices: 94945356--94945393 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
94945346 TTTATAATTT
*
94945356 TATTTTTTTAAATAA
1 TATTTTATT-AATAA
94945371 TATTTTATTAAT-A
1 TATTTTATTAATAA
94945384 TATTTTATTA
1 TATTTTATTA
94945394 TTTTAGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTTTATTAATAA
Found at i:94950072 original size:28 final size:30
Alignment explanation
Indices: 94950040--94950103 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
94950030 ATTTATATAC
* *
94950040 ATTATTT-GTAATAATTATA-TATTTTCTT
1 ATTATTTAGTAATAATTATATTATTATATT
*
94950068 ATTATTTAAGTAATTATTATATTATTATATT
1 ATTATTT-AGTAATAATTATATTATTATATT
94950099 ATTAT
1 ATTAT
94950104 AATTAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
30 11 0.37
31 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTATTTAGTAATAATTATATTATTATATT
Found at i:94950093 original size:8 final size:8
Alignment explanation
Indices: 94950080--94950104 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
94950070 TATTTAAGTA
94950080 ATTATTAT
1 ATTATTAT
94950088 ATTATTAT
1 ATTATTAT
94950096 ATTATTAT
1 ATTATTAT
94950104 A
1 A
94950105 ATTAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTATTAT
Found at i:94950136 original size:13 final size:13
Alignment explanation
Indices: 94950115--94950163 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
94950105 ATTAAAACAT
94950115 AAAGTAAATAAATA
1 AAAG-AAATAAATA
94950129 AAAGAAATAAATA
1 AAAGAAATAAATA
*
94950142 AATGAAATGAAATA
1 AAAGAAAT-AAATA
94950156 GAAAGAAA
1 -AAAGAAA
94950164 CAAAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 16 0.52
14 9 0.29
15 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAAGAAATAAATA
Found at i:94952476 original size:19 final size:20
Alignment explanation
Indices: 94952439--94952476 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
94952429 AGCGGGACAA
*
94952439 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
94952459 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
94952477 AAATGTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:94959217 original size:17 final size:17
Alignment explanation
Indices: 94959206--94959240 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
94959196 ACCCAATACC
94959206 AACCCAATCCCAAAACA
1 AACCCAATCCCAAAACA
94959223 AACCCAATTACCCAAAAC
1 AACCCAA-T-CCCAAAAC
94959241 CCAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (17 bp):
AACCCAATCCCAAAACA
Found at i:94971195 original size:30 final size:32
Alignment explanation
Indices: 94971161--94971232 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 32
94971151 AATTTTTGAA
* *
94971161 AATATAAAAATAAAATAT-TTTTAACAT-TTT
1 AATATAAAAATAAAAAATCTTATAACATATTT
*
94971191 AATATAAAAATAAAAAATCTTATAATATAATTT
1 AATATAAAAATAAAAAATCTTATAACAT-ATTT
94971224 AATATAAAA
1 AATATAAAA
94971233 TATTATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 17 0.47
31 7 0.19
33 12 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
AATATAAAAATAAAAAATCTTATAACATATTT
Found at i:94971293 original size:20 final size:21
Alignment explanation
Indices: 94971256--94971294 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94971246 TTTTATATTT
*
94971256 AAATATTATTCTTTTAATAGA
1 AAATATTAATCTTTTAATAGA
94971277 AAATATTAATC-TTTAATA
1 AAATATTAATCTTTTAATA
94971295 TTAAATTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AAATATTAATCTTTTAATAGA
Found at i:94974112 original size:2 final size:2
Alignment explanation
Indices: 94974107--94974132 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94974097 AAAAACATTA
94974107 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94974133 GTTATTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94983192 original size:23 final size:22
Alignment explanation
Indices: 94983149--94983193 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
94983139 AAGTAAATAT
94983149 ACTAAATTCCTTAAAATAAAAAA
1 ACTAAATT-CTTAAAATAAAAAA
94983172 ACTAAATT-TTAAATATAAAAAA
1 ACTAAATTCTTAAA-ATAAAAAA
94983194 TACATGAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 8 0.38
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (22 bp):
ACTAAATTCTTAAAATAAAAAA
Found at i:94990200 original size:6 final size:6
Alignment explanation
Indices: 94990191--94990219 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
94990181 TTTAATTTTA
94990191 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
94990220 ATATAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:94990943 original size:17 final size:18
Alignment explanation
Indices: 94990917--94990950 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94990907 AGGTTTAATA
94990917 ATATT-AAAAAAATAAAT
1 ATATTAAAAAAAATAAAT
*
94990934 ATATTTAAAAAAATAAA
1 ATATTAAAAAAAATAAA
94990951 AATTTGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATTAAAAAAAATAAAT
Found at i:94991487 original size:14 final size:14
Alignment explanation
Indices: 94991464--94991493 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94991454 CAATTATCAC
94991464 TTTTTGATTTTCAA
1 TTTTTGATTTTCAA
*
94991478 TTTTTTATTTTCAA
1 TTTTTGATTTTCAA
94991492 TT
1 TT
94991494 GTCAATTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTTGATTTTCAA
Done.