Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 232 of 362
Found at i:78445862 original size:124 final size:125
Alignment explanation
Indices: 78445403--78446140 Score: 889
Period size: 124 Copynumber: 5.9 Consensus size: 125
78445393 GCCAAGTAAT
* * * *
78445403 AACTACTGTAGAAAAAAACCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
* ** * * * * *
78445468 TGCTTAAAGTATTTTTCACACTATTTTTTCAAAACCGTCTTCTCAAATTTATTTTTTTAGT
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTTCAGG
* * * * * *
78445529 AA-TACCGTAGAAAAAGAGCATCCACGTGGGAG--TTTTTCTGTAATTTTACTAACAGTACATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
* * * ** * * *
78445591 TGCTTGAAGCATTTTTTACATTATTTTCACAGAACTGTCTTCTCAAATTTATATTTTCAAG
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAT-TTTTCAGG
* *
78445652 AACTACTATAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
* * **
78445717 TGCTTGAAGCGTTTTTTACACTATTTTTTTAGAATTGTCTTCTCAAAATTATTTTTCAGG
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGG
* * *
78445777 AACTACTGTAGAAAAAGAGCGTCCACGTGAGA-TTTTTTTCAGTAGA-TTTGCTGACAATGCATC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTA-ATTTTGCTAACAATGCATC
* * * * *
78445840 CTACTTAAAGTGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAACTATTTTTTCAAG
65 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTTCAGG
* * * *
78445902 AACTACAGTAG-AAAAGAGCATCCACGTGGGAG-TTTTTTAAGTAATTTTGCTAATAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
*
78445965 TTG-TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAACTATTTTTCAGG
66 -TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGG
* ** * * *
78446025 AACTACTGTATAAAAAGAGCGTCCACGTAAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
* * *
78446090 TGCTTGAAGCGTTTTAGACATTATCTTTTCAGAACCGTCTTCTCAAAATTA
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTA
78446141 ATTTGAAAGA
Statistics
Matches: 525, Mismatches: 75, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
122 1 0.00
123 93 0.18
124 207 0.39
125 151 0.29
126 73 0.14
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGG
Found at i:78445919 original size:249 final size:248
Alignment explanation
Indices: 78445403--78446137 Score: 922
Period size: 249 Copynumber: 2.9 Consensus size: 248
78445393 GCCAAGTAAT
* * * * *
78445403 AACTACTGTAGAAAAAAACCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCC
1 AACTACAGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
* ** * * * *
78445468 TGCTTAAAGTATTTTTCACACTATTTTTTCAAAACCGTCTTCTCAAATTTATTTTTTTAGTAA-T
66 TGCTTGAAGCGTTTTTCACACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTTCAGGAACT
* * * * * * * *
78445532 ACCGTAGAAAAAGAGCATCCACGTGGGAGTTTTTCTGTAATTTTACTAACAGTACATCCTGCTTG
130 ACTGTAGAAAAAGAGCGTCCACGTGAGATTTTTTCAGTAA-TTTGCTGACAGTGCATCCTGCTTG
* * ** * **
78445597 AAGCATTTTTTACATTATTTTCACAGAACTGTCTTCTCAAATTTATATTTTCAAG
194 AAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAACTATATTTTCAAG
*
78445652 AACTACTA-TAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATC
1 AACTAC-AGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATC
* * **
78445716 CTGCTTGAAGCGTTTTTTACACTATTTTTTTAGAATTGTCTTCTCAAAATTATTTTTCAGGAACT
65 CTGCTTGAAGCGTTTTTCACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGGAACT
* *
78445781 ACTGTAGAAAAAGAGCGTCCACGTGAGATTTTTTTCAGTAGATTTGCTGACAATGCATCCTACTT
130 ACTGTAGAAAAAGAGCGTCCACGTGAGA-TTTTTTCAGTA-ATTTGCTGACAGTGCATCCTGCTT
* * * *
78445846 AAAGTGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAACTATTTTTTCAAG
193 GAAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAACTATATTTTCAAG
* * *
78445902 AACTACAGTAG-AAAAGAGCATCCACGTGGGAG-TTTTTTAAGTAATTTTGCTAATAATGCATCC
1 AACTACAGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
* *
78445965 TTG-TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAACTATTTTTCAGGAACT
66 -TGCTTGAAGCGTTTTTCACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGGAACT
* * *
78446029 ACTGTATAAAAAGAGCGTCCACGTAAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCT
130 ACTGTAGAAAAAGAGCGTCCACGT--GAGATTTTTTCAGTA-ATTTGCTGACAGTGCATCCTGCT
* *
78446094 TGAAGCGTTTTAGACATTATCTTTTCAGAACCGTCTTCTCAAAA
192 TGAAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAA
78446138 TTAATTTGAA
Statistics
Matches: 420, Mismatches: 58, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
248 117 0.28
249 218 0.52
250 84 0.20
251 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (248 bp):
AACTACAGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
TGCTTGAAGCGTTTTTCACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGGAACTA
CTGTAGAAAAAGAGCGTCCACGTGAGATTTTTTCAGTAATTTGCTGACAGTGCATCCTGCTTGAA
GCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAACTATATTTTCAAG
Found at i:78446089 original size:373 final size:374
Alignment explanation
Indices: 78445403--78446140 Score: 1004
Period size: 373 Copynumber: 2.0 Consensus size: 374
78445393 GCCAAGTAAT
*
78445403 AACTACTGTAGAAAAAAACCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCC
1 AACTACTGTAGAAAAAAACCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCC
* ** *
78445468 TGCTTAAAGTATTTTTCACACTATTTTTTCAAAACCGTCTTCTCAAATTTATTTTTTTAGTAATA
66 TACTTAAAGTATTTTTCACACTATTTTTTCAAAACCGTCTTCTCAAAACTATTTTTTAAGTAATA
* *
78445533 CCGTAGAAAAAGAGCATCCACGTGGGAGTTTTTCTGTAATTTTACTAACAGTACATCCTGCTTGA
131 CAGTAGAAAAAGAGCATCCACGTGGGAGTTTTTCTGTAATTTTACTAACAATACATCCTGCTTGA
* * * **
78445598 AGCATTTTTTACATTATTTTCACAGAACTGTCTTCTCAAATTTATATTTTCAAGAACTACTATAG
196 AGCATTTTTGACACTATTTTCACAGAACCGTCTTCTCAAAACTATATTTTCAAGAACTACTATAG
* **
78445663 AAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCCTGCTTGAAGCG
261 AAAAAGAGCGTCCACGTAAGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCCTGCTTGAAGCG
** * * **
78445728 TTTTTTACACTATTTTTTTAGAATTGTCTTCTCAAAATTATTTTTCAGG
326 TTTTAGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGG
* * * *
78445777 AACTACTGTAGAAAAAGAGCGTCCACGTGAGA-TTTTTTTCAGTAGA-TTTGCTGACAATGCATC
1 AACTACTGTAGAAAAAAACCGTCCACATGAGAGCTTTTTTCAGTA-ATTTTGCTGACAATGCATC
* * *
78445840 CTACTTAAAGTGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAACTATTTTTTCAAG-AA
65 CTACTTAAAGTATTTTTCACACTATTTTTTCAAAACCGTCTTCTCAAAACTATTTTTT-AAGTAA
* * *
78445904 CTACAGTAG-AAAAGAGCATCCACGTGGGAGTTTTT-TAAGTAATTTTGCTAATAATGCATCCTT
129 -TACAGTAGAAAAAGAGCATCCACGTGGGAGTTTTTCT--GTAATTTTACTAACAATACATCC-T
* ** *
78445967 G-TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAACTAT-TTTTCAGGAACTA
190 GCTTGAAGCATTTTTGACACTATTTTCACAGAACCGTCTTCTCAAAACTATATTTTCAAGAACTA
* * * * *
78446030 CTGTATAAAAAGAGCGTCCACGTAAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTT
255 CTATAGAAAAAGAGCGTCCACGTAAGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCCTGCTT
*
78446095 GAAGCGTTTTAGACATTATCTTTTCAGAACCGTCTTCTCAAAATTA
320 GAAGCGTTTTAGACACTATCTTTTCAGAACCGTCTTCTCAAAATTA
78446141 ATTTGAAAGA
Statistics
Matches: 317, Mismatches: 41, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
372 1 0.00
373 216 0.68
374 98 0.31
375 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (374 bp):
AACTACTGTAGAAAAAAACCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCC
TACTTAAAGTATTTTTCACACTATTTTTTCAAAACCGTCTTCTCAAAACTATTTTTTAAGTAATA
CAGTAGAAAAAGAGCATCCACGTGGGAGTTTTTCTGTAATTTTACTAACAATACATCCTGCTTGA
AGCATTTTTGACACTATTTTCACAGAACCGTCTTCTCAAAACTATATTTTCAAGAACTACTATAG
AAAAAGAGCGTCCACGTAAGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCCTGCTTGAAGCG
TTTTAGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGG
Found at i:78446309 original size:35 final size:34
Alignment explanation
Indices: 78446243--78446343 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 34
78446233 AAAATTATTT
* *
78446243 TTAAAAAACCTAAACCCTAATTTAATTAATTTTC
1 TTAAAAACCCTAAACCCTAATTTAATTAATTTAC
**
78446277 TTAAAAACCCTAAACTTTAATTTTAATTAATTTAC
1 TTAAAAACCCTAAACCCTAA-TTTAATTAATTTAC
* * *
78446312 TTAAAACCCCTAAAACCTAATTGAATTAATTT
1 TTAAAAACCCTAAACCCTAATTTAATTAATTT
78446344 TTTTTAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 28 0.49
35 29 0.51
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.39
Consensus pattern (34 bp):
TTAAAAACCCTAAACCCTAATTTAATTAATTTAC
Found at i:78455646 original size:91 final size:91
Alignment explanation
Indices: 78455491--78455666 Score: 298
Period size: 91 Copynumber: 1.9 Consensus size: 91
78455481 ACAAAATCAG
* *
78455491 TTTAGAGATGAATTTGGTAGATAATTGTATATAACACAAGTTTAGTGGGAGTAAGGCTCTATATT
1 TTTAGAGATGAATTTGGTAGATAATTGTATATAACACAAGTTTAGTAGGACTAAGGCTCTATATT
*
78455556 TGGTTTTATATGTTAATGACTTACAT
66 TGATTTTATATGTTAATGACTTACAT
* * *
78455582 TTTAGAGATGAATTTGGTCGATAATTGTATATACCACAAGTTTAGTAGGACTAAGGTTCTATATT
1 TTTAGAGATGAATTTGGTAGATAATTGTATATAACACAAGTTTAGTAGGACTAAGGCTCTATATT
78455647 TGATTTTATATGTTAATGAC
66 TGATTTTATATGTTAATGAC
78455667 ATACTGCTTG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (91 bp):
TTTAGAGATGAATTTGGTAGATAATTGTATATAACACAAGTTTAGTAGGACTAAGGCTCTATATT
TGATTTTATATGTTAATGACTTACAT
Found at i:78458043 original size:21 final size:21
Alignment explanation
Indices: 78458019--78458067 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
78458009 CCGGGGTGGT
78458019 CCACACGGCTTGACCCACGGC
1 CCACACGGCTTGACCCACGGC
78458040 CCACACGGCTTGACCCACGGC
1 CCACACGGCTTGACCCACGGC
78458061 CCACACG
1 CCACACG
78458068 CCCAAATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.08
Consensus pattern (21 bp):
CCACACGGCTTGACCCACGGC
Found at i:78470039 original size:30 final size:30
Alignment explanation
Indices: 78469997--78470058 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
78469987 AGGGGGTAGG
78469997 ATGGGAGAGGAGTAAAAGTTTTGGGAGGAAA
1 ATGGGAGAGGAGTAAAAGTTTTGGG-GGAAA
78470028 ATGGGA-AGGAGTAAAAGTTTTGGGGGAAA
1 ATGGGAGAGGAGTAAAAGTTTTGGGGGAAA
78470057 AT
1 AT
78470059 AAAGAGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 7 0.23
30 18 0.58
31 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.40, T:0.21
Consensus pattern (30 bp):
ATGGGAGAGGAGTAAAAGTTTTGGGGGAAA
Found at i:78470714 original size:25 final size:25
Alignment explanation
Indices: 78470647--78470716 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
78470637 CTGTACATGT
* * * *
78470647 ATGCTCACATGAGTTGTAAATCAGA
1 ATGCTCACAAGAGCTATGAATCAGA
*
78470672 ATGCTCACAAGGGCTATGAATCAGA
1 ATGCTCACAAGAGCTATGAATCAGA
*
78470697 ATGCTCACACGAGCTATGAA
1 ATGCTCACAAGAGCTATGAA
78470717 AATGGGCCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (25 bp):
ATGCTCACAAGAGCTATGAATCAGA
Found at i:78472995 original size:12 final size:12
Alignment explanation
Indices: 78472978--78473004 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78472968 GAGCTTTAAT
78472978 TATTAAATAAAG
1 TATTAAATAAAG
78472990 TATTAAATAAAG
1 TATTAAATAAAG
78473002 TAT
1 TAT
78473005 GGATCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
TATTAAATAAAG
Found at i:78476254 original size:58 final size:58
Alignment explanation
Indices: 78476151--78476261 Score: 197
Period size: 57 Copynumber: 1.9 Consensus size: 58
78476141 GTTACCCAAC
* *
78476151 TATGAAAAGTTACAAAATGGTCACTCCTATTCAATATTGTCTTTTTTGGTCACCTAAT
1 TATGAAAAATTACAAAATGGTCACTCCAATTCAATATTGTCTTTTTTGGTCACCTAAT
78476209 TATGAAAAATTACAAAATGGTCACT-CAATTCAATATTGTCTTTTTTGGTCACC
1 TATGAAAAATTACAAAATGGTCACTCCAATTCAATATTGTCTTTTTTGGTCACC
78476262 AGCTAACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (58 bp):
TATGAAAAATTACAAAATGGTCACTCCAATTCAATATTGTCTTTTTTGGTCACCTAAT
Found at i:78477865 original size:16 final size:16
Alignment explanation
Indices: 78477846--78477876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78477836 TTTAAAACAC
78477846 TTTTTTGTTAAGTTTT
1 TTTTTTGTTAAGTTTT
*
78477862 TTTTTTTTTAAGTTT
1 TTTTTTGTTAAGTTT
78477877 CAGTTGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (16 bp):
TTTTTTGTTAAGTTTT
Found at i:78483353 original size:12 final size:12
Alignment explanation
Indices: 78483326--78483359 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
78483316 TCAGTTTAGG
78483326 CTTA-GTTTTC-
1 CTTAGGTTTTCT
78483336 CTTAGGTTTTCT
1 CTTAGGTTTTCT
78483348 CTTAGGTTTTCT
1 CTTAGGTTTTCT
78483360 TCTTCTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 6 0.27
12 12 0.55
ACGTcount: A:0.09, C:0.18, G:0.15, T:0.59
Consensus pattern (12 bp):
CTTAGGTTTTCT
Found at i:78504564 original size:21 final size:22
Alignment explanation
Indices: 78504540--78504590 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
78504530 TAGGTTGATC
*
78504540 ATTGTAATAC-TCTAGTGTTCT
1 ATTGTAATACAACTAGTGTTCT
78504561 ATTGTAATACAAACTAGTGTTCT
1 ATTGTAATAC-AACTAGTGTTCT
78504584 ATTGTAA
1 ATTGTAA
78504591 CACTACAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 10 0.37
23 17 0.63
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (22 bp):
ATTGTAATACAACTAGTGTTCT
Found at i:78506239 original size:40 final size:38
Alignment explanation
Indices: 78506188--78506328 Score: 133
Period size: 40 Copynumber: 3.6 Consensus size: 38
78506178 CTCATTCAAT
*
78506188 GCCTTCAGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTAGTA-CTCGCACAAA
*
78506227 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 -GCCTTCGGGACTTAACCCGGAATTAGT-ACTCGCACAAA
* ** *
78506267 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 -GCCTTCGGGA-CTTAACCCGGAAT-TAGT-AC-TCGCACAAA
*
78506308 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
78506329 CAGCATTCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
39 5 0.06
40 67 0.80
41 12 0.14
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (38 bp):
GCCTTCGGGACTTAACCCGGAATTAGTACTCGCACAAA
Found at i:78514541 original size:46 final size:46
Alignment explanation
Indices: 78514391--78514556 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 46
78514381 ATAAAGCGAC
* * * * *
78514391 ACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGAGA
* * *
78514437 ACTCGGACTCAAAC-AAACG-GTTCGGATGCCTAGT-GACAT-C-TCAA-CGA
1 ACTCGGACTC-AACTCAACGAGTTCGGA---C-ATTCG-CATCCAT-AAGAGA
78514484 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGAGA
1 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGAGA
*
78514530 ACTCGGACTCAA-TCAACGAGTTAGGAC
1 ACTCGGACTCAACTCAACGAGTTCGGAC
78514557 TCAACCATCC
Statistics
Matches: 96, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
44 5 0.05
45 24 0.25
46 31 0.32
47 20 0.21
48 12 0.12
49 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGAGA
Found at i:78525872 original size:39 final size:40
Alignment explanation
Indices: 78525795--78525901 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
78525785 TAGCTCCTCG
* * *
78525795 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
78525835 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
**
78525874 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
78525902 ATTAATAACT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:78525890 original size:40 final size:40
Alignment explanation
Indices: 78525838--78525981 Score: 143
Period size: 40 Copynumber: 3.6 Consensus size: 40
78525828 TAACTCATTC
* *
78525838 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
78525878 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
78525918 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
78525959 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
78525982 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
39 9 0.10
40 68 0.77
41 11 0.12
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:78528960 original size:61 final size:63
Alignment explanation
Indices: 78528819--78528960 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 63
78528809 CAAGCTTTAC
*
78528819 TAGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATA
1 TAGGCCAT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATA
* * * * *
78528881 TAGGCCATAGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATGTCAGTATCAATC
1 TAGGCCATAGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATA
*
78528941 TGGGCCATAGCCCTATTACA
1 TAGGCCATAGCCCTATTACA
78528961 AGTCGAGATA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
60 31 0.46
61 22 0.32
62 14 0.21
63 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (63 bp):
TAGGCCATAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATA
Found at i:78530524 original size:25 final size:22
Alignment explanation
Indices: 78530470--78530524 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
78530460 TTTTAGCTAG
78530470 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
78530492 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
78530517 AGGAAGAA
1 A-GAAGAA
78530525 TTCGGCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:78533749 original size:42 final size:42
Alignment explanation
Indices: 78533699--78533855 Score: 208
Period size: 42 Copynumber: 3.7 Consensus size: 42
78533689 CTGAGATTAT
*
78533699 GTGTAAGACCATATCTGGGATATGGCATTGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATTGATATGAGACTTC
*
78533741 GTGTAAGACCATATATGGGATATGACATTGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATTGATATGAGACTTC
* * * * **
78533783 GTGTAAGACCATAGCTGGGCTATTAGCATCGATGCGAGA-TTAC
1 GTGTAAGACCATATCTGGGATATGA-CATTGATATGAGACTT-C
*
78533826 ATGTAAGACCATATCTGGGATATGACATTG
1 GTGTAAGACCATATCTGGGATATGACATTG
78533856 GTACGATACT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 67 0.68
43 32 0.32
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGACATTGATATGAGACTTC
Found at i:78533850 original size:85 final size:84
Alignment explanation
Indices: 78533699--78533855 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 84
78533689 CTGAGATTAT
* * * * *
78533699 GTGTAAGACCATATCTGGGATATGGCATTGATATGAGACTTCGTGTAAGACCATATATGGGATAT
1 GTGTAAGACCATAGCTGGGATATAGCATCGATACGAGACTTCATGTAAGACCATATATGGGATAT
78533764 GACATTGATATGAGACTTC
66 GACATTGATATGAGACTTC
* * *
78533783 GTGTAAGACCATAGCTGGGCTATTAGCATCGATGCGAGA-TTACATGTAAGACCATATCTGGGAT
1 GTGTAAGACCATAGCTGGGATA-TAGCATCGATACGAGACTT-CATGTAAGACCATATATGGGAT
78533847 ATGACATTG
64 ATGACATTG
78533856 GTACGATACT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 22 0.35
85 41 0.65
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATAGCATCGATACGAGACTTCATGTAAGACCATATATGGGATAT
GACATTGATATGAGACTTC
Found at i:78533872 original size:85 final size:83
Alignment explanation
Indices: 78533698--78533872 Score: 208
Period size: 85 Copynumber: 2.1 Consensus size: 83
78533688 ACTGAGATTA
* * * * *
78533698 TGTGTAAGACCATATCTGGGATATGGCATTGATATGAGACTTCGTGTAAGACCATATATGGGATA
1 TGTGTAAGACCATAGCTGGGATATAGCATCGATACGAGACTTCATGTAAGACCATATATGGGATA
*
78533763 TGACATTGATATGAGACT
66 TGACATTGATACGAGACT
* * *
78533781 TCGTGTAAGACCATAGCTGGGCTATTAGCATCGATGCGAGA-TTACATGTAAGACCATATCTGGG
1 T-GTGTAAGACCATAGCTGGGATA-TAGCATCGATACGAGACTT-CATGTAAGACCATATATGGG
* *
78533845 ATATGACATTGGTACGATACT
63 ATATGACATTGATACGAGACT
78533866 GTGTGTA
1 -TGTGTA
78533873 CGAGATTCCT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
83 1 0.01
84 22 0.29
85 53 0.69
86 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (83 bp):
TGTGTAAGACCATAGCTGGGATATAGCATCGATACGAGACTTCATGTAAGACCATATATGGGATA
TGACATTGATACGAGACT
Found at i:78535928 original size:52 final size:51
Alignment explanation
Indices: 78535846--78535949 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 51
78535836 AAAGTGAAGC
78535846 ATGAACACAAATATTTTACGTGAAAAACCCTCAAAGAGGGAAAAACCACGGT
1 ATGAACACAAATATTTTACGTGAAAAACCCTCAAAGAGGG-AAAACCACGGT
* * * *
78535898 ATGAACATAAATATTTTACGTGAAATACCCTTAAAGAGGGAAAATCACGGT
1 ATGAACACAAATATTTTACGTGAAAAACCCTCAAAGAGGGAAAACCACGGT
78535949 A
1 A
78535950 AATGAGGCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 11 0.23
52 37 0.77
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.21
Consensus pattern (51 bp):
ATGAACACAAATATTTTACGTGAAAAACCCTCAAAGAGGGAAAACCACGGT
Found at i:78536194 original size:49 final size:49
Alignment explanation
Indices: 78536122--78536223 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
78536112 CAAACCCACC
*
78536122 CTAAGTAAACAAAAGAGAGTGCAATAAGGAGAAAATAAACATAAATGTA
1 CTAAGTAAACAAAAGAGAGTGCAATAAGGAAAAAATAAACATAAATGTA
* *
78536171 CTAAGTAAACAAAGGAGAGTGCAATAAGGAAAAAATAAACCTAAATGTA
1 CTAAGTAAACAAAAGAGAGTGCAATAAGGAAAAAATAAACATAAATGTA
78536220 CTAA
1 CTAA
78536224 CATATATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.17
Consensus pattern (49 bp):
CTAAGTAAACAAAAGAGAGTGCAATAAGGAAAAAATAAACATAAATGTA
Found at i:78536545 original size:12 final size:12
Alignment explanation
Indices: 78536515--78536545 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
78536505 ACTAAAAGAA
*
78536515 GAAGTCCTGCTC
1 GAAGTCTTGCTC
78536527 GAAGTCTTGCTC
1 GAAGTCTTGCTC
78536539 GAAGTCT
1 GAAGTCT
78536546 AAAACGCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (12 bp):
GAAGTCTTGCTC
Found at i:78538609 original size:27 final size:27
Alignment explanation
Indices: 78538572--78538776 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
78538562 TAAATTGTAC
*
78538572 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78538599 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
78538626 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
78538652 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
78538679 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGATTTGACTATGT
*
78538707 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
78538735 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78538762 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78538777 GACTTAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78538633 original size:54 final size:54
Alignment explanation
Indices: 78538573--78538776 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
78538563 AAATTGTACA
* * *
78538573 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
** ** *
78538627 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTC
** *
78538680 GACACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 G-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTC
* * *
78538736 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
78538777 GACTTAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 45 0.35
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
Found at i:78551249 original size:21 final size:21
Alignment explanation
Indices: 78551225--78551268 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78551215 CATGGTTGCA
*
78551225 TGGCTACCCCACATGTCCGTG
1 TGGCTACCCCACATGCCCGTG
* *
78551246 TGGCTACTCTACATGCCCGTG
1 TGGCTACCCCACATGCCCGTG
78551267 TG
1 TG
78551269 CTCAAATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.34, G:0.25, T:0.27
Consensus pattern (21 bp):
TGGCTACCCCACATGCCCGTG
Found at i:78555012 original size:48 final size:48
Alignment explanation
Indices: 78554910--78555026 Score: 157
Period size: 48 Copynumber: 2.4 Consensus size: 48
78554900 CACTTGGGTA
* * *
78554910 ATATGAGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCACG
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCAACG
*
78554958 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GACAATG
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAG-CAACG
*
78555006 -TAATGAGAGCTAGTGTAAGAC
1 AT-ATGAGAGCCAGTGTAAGAC
78555027 AATATATGGG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
47 2 0.03
48 60 0.97
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCAACG
Found at i:78556816 original size:40 final size:40
Alignment explanation
Indices: 78556722--78556866 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
78556712 TACTCGAATG
*
78556722 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
78556763 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
78556803 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
78556843 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
78556867 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:78564789 original size:40 final size:40
Alignment explanation
Indices: 78564695--78564839 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
78564685 TACTCGAATG
*
78564695 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
78564736 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
78564776 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
78564816 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
78564840 CTAGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:78572732 original size:40 final size:38
Alignment explanation
Indices: 78572620--78572759 Score: 113
Period size: 39 Copynumber: 3.6 Consensus size: 38
78572610 TTATCGAATG
* *
78572620 ATATCCGGGCTAAGTCCGAAGGC-TTTTGGGTAAGCGACT
1 ATATCTGGGCTAAGTCCGAAGGCATTTT-GCT-AGCGACT
* * *
78572659 ACATCTGGACTAAGAT-CGAAGGCATTTGCGCTAGCGACT
1 ATATCTGGGCTAAG-TCCGAAGGCATTT-TGCTAGCGACT
* *
78572698 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCTGGGCTAAGT-CCGAAGGCATTT-TGCTAGCGACT
* * *
78572738 ATAATCCGGGTTAAGACCGAAG
1 AT-ATCTGGGCTAAGTCCGAAG
78572760 CCTTGTGCGA
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 37 0.46
40 33 0.41
41 10 0.12
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (38 bp):
ATATCTGGGCTAAGTCCGAAGGCATTTTGCTAGCGACT
Found at i:78597413 original size:40 final size:39
Alignment explanation
Indices: 78597369--78597472 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 39
78597359 AGTGACTATA
* *
78597369 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGTT-TTAAT
** *
78597409 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTTT-AAT
**
78597449 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
78597473 GAATGAGTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAT
Found at i:78597493 original size:39 final size:39
Alignment explanation
Indices: 78597409--78597519 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
78597399 AGTTATTAAT
** *
78597409 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
78597449 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
78597489 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
78597520 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:78601450 original size:20 final size:20
Alignment explanation
Indices: 78601421--78601464 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
78601411 TGTTTTGTTG
78601421 TGGG-CCAACTGTATTAAAA
1 TGGGCCCAACTGTATTAAAA
* * *
78601440 TGGGCCCAACTTTGTTAATA
1 TGGGCCCAACTGTATTAAAA
78601460 TGGGC
1 TGGGC
78601465 AAGGCCTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (20 bp):
TGGGCCCAACTGTATTAAAA
Found at i:78601557 original size:60 final size:62
Alignment explanation
Indices: 78601486--78601628 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 62
78601476 TATCTCGACT
*
78601486 TGTAATAGGGCTACGGCCCAGATTGATACTGACAT-AGGCT-AGGCCCAG-TATACTCTGATAC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGACATGA-GCTAAGGCCCAGTTA-ACTCTGATAC
* * * *
78601547 TGTAAT-GGGCTATGGCCCAGATTAATATTGATATGAGCTAAGGCCCAGTTAACTCTGATTTC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGACATGAGCTAAGGCCCAGTTAACTCTGA-TAC
78601609 TG-AATAGGGCTTA-GGCCCAG
1 TGTAATAGGGC-TACGGCCCAG
78601629 TAAAGCTTGA
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
60 27 0.38
61 25 0.35
62 17 0.24
63 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (62 bp):
TGTAATAGGGCTACGGCCCAGATTAATACTGACATGAGCTAAGGCCCAGTTAACTCTGATAC
Found at i:78603298 original size:53 final size:53
Alignment explanation
Indices: 78603213--78603314 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
78603203 CCTCATTTAC
* * *
78603213 CGTGGTTTTTCCCTCTTTGAGGGTTTTTCACGTAAAATATTTGTGTTCAATAT
1 CGTGGTTTTTCCCTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCAATAT
*
78603266 CGTGGTTTTTCCTTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCA
1 CGTGGTTTTTCCCTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCA
78603315 TACTTCACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.47
Consensus pattern (53 bp):
CGTGGTTTTTCCCTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCAATAT
Found at i:78617666 original size:49 final size:50
Alignment explanation
Indices: 78617602--78617810 Score: 160
Period size: 50 Copynumber: 4.4 Consensus size: 50
78617592 TCCATCAAGT
* * *
78617602 CGATGCCATGGCCCAGACATAGTCTTACATTGACTATTGA-A-ATCGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGACT-CTGACATATC-AGTGC
* *
78617651 CGATGCCATGTCCCAGACTTGGTCTTACACT-AGCTCTGACATATCAGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGA-CTCTGACATATCAGTGC
* *
78617701 CGATGCCATGTCCCAGACATGGTTTTACATTGA--C--ACAT-TTAGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTGACATATCAGT-GC
* * * *
78617747 CAAAG-CATGTCCCAGACAT-GTCTTACATTGGCT-T-ACATCTCGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTGACATATC-AGTGC
*
78617793 TGATG-CATGTCCCAGACA
1 CGATGCCATGTCCCAGACA
78617811 AATCTTACAC
Statistics
Matches: 132, Mismatches: 17, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.08
45 18 0.14
46 30 0.23
47 1 0.01
48 7 0.05
49 32 0.24
50 33 0.25
51 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTGACATATCAGTGC
Found at i:78619998 original size:41 final size:41
Alignment explanation
Indices: 78619925--78620308 Score: 500
Period size: 41 Copynumber: 9.4 Consensus size: 41
78619915 CGTTCTAGAA
* * *
78619925 AAAATGCCGCT-AAAACTAGAGCATTAGCGGCGCTTTTCAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
78619965 AAAACGCCGCTAAAAACTAGAGCATTAGAGGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* *
78620006 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTCTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
*
78620047 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * * *
78620088 AAAACGCCGCAAAAAACCAGAGCATTAGCGTCGTTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* *
78620129 AAAACGTCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * * * * *
78620170 AAAAAGCCGCTAAACACCAAAGCATCAACAGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
78620211 AAAACGCCGCTAAATACCAGAGTATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * * *
78620252 AAAACGCTGCTAAACACCAGAGCATCAGTGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
*
78620293 AAAACGCCACTAAAAA
1 AAAACGCCGCTAAAAA
78620309 TCTGATAACC
Statistics
Matches: 304, Mismatches: 39, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
40 10 0.03
41 294 0.97
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
Found at i:78620488 original size:14 final size:14
Alignment explanation
Indices: 78620466--78620505 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
78620456 TTAATTATCA
* *
78620466 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
78620480 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
78620494 ATATGGTTTAAG
1 TTATGGTTTAAG
78620506 CATGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:78620593 original size:25 final size:24
Alignment explanation
Indices: 78620519--78620617 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 24
78620509 GTTTAATTAA
*
78620519 TTATGAGTTAACTATGGTTTAAGGT
1 TTATGA-TTAACTAGGGTTTAAGGT
* **
78620544 TTAGGAGTTAACTAGTATTTGAAGGT
1 TTATGA-TTAACTAGGGTTT-AAGGT
* *
78620570 TTATGATTAATTCAGGGTTTAAGGA
1 TTATGATTAACT-AGGGTTTAAGGT
78620595 TTATGATT---TAGGGTTTAAAGGT
1 TTATGATTAACTAGGGTTT-AAGGT
78620617 T
1 T
78620618 AGGGTTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
21 7 0.11
22 6 0.10
25 33 0.54
26 15 0.25
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.42
Consensus pattern (24 bp):
TTATGATTAACTAGGGTTTAAGGT
Found at i:78621455 original size:24 final size:24
Alignment explanation
Indices: 78621405--78621455 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
78621395 TATATGAGAT
* * *
78621405 AAATATATATAAAATATTATTTTA
1 AAATATATATAAAATATCATATGA
78621429 AAATATATAT-AAATATACATATGA
1 AAATATATATAAAATAT-CATATGA
78621453 AAA
1 AAA
78621456 GTGGTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATATAAAATATCATATGA
Found at i:78622447 original size:18 final size:17
Alignment explanation
Indices: 78622426--78622468 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
78622416 ATGATCTTAA
78622426 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
78622444 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
78622461 TCGATGAT
1 T-GATGAT
78622469 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:78623028 original size:61 final size:62
Alignment explanation
Indices: 78622915--78623034 Score: 215
Period size: 62 Copynumber: 2.0 Consensus size: 62
78622905 CCAAAATTTG
* *
78622915 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTC
1 ATTTCTTTTTTGTCAATTTTATGTCGGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTC
78622977 ATTTCTTTTTTGTCAATTTTATGTCGGTTGTTTGGAT-TTTTTGTTCTGAAATGGAAAA
1 ATTTCTTTTTTGTCAATTTTATGTCGGTTGTTTGGATATTTTTGTTCTGAAATGGAAAA
78623035 ACTAGTTTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 21 0.38
62 35 0.62
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.54
Consensus pattern (62 bp):
ATTTCTTTTTTGTCAATTTTATGTCGGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTC
Found at i:78623745 original size:15 final size:15
Alignment explanation
Indices: 78623725--78623756 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
78623715 AAACATATAA
78623725 TCCAAATATTCACTG
1 TCCAAATATTCACTG
78623740 TCCAAATATTCACTG
1 TCCAAATATTCACTG
78623755 TC
1 TC
78623757 AAAACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (15 bp):
TCCAAATATTCACTG
Found at i:78625585 original size:15 final size:15
Alignment explanation
Indices: 78625541--78625596 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
78625531 AACGACATGT
*
78625541 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
78625557 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
78625570 ATATTATTTAATTAA
1 ATATTATTTAATTAA
78625585 ATATTATTTAAT
1 ATATTATTTAAT
78625597 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:78625741 original size:9 final size:9
Alignment explanation
Indices: 78625701--78625852 Score: 180
Period size: 9 Copynumber: 17.0 Consensus size: 9
78625691 TATTTGATAT
*
78625701 CATAATTTA
1 CATAACTTA
*
78625710 TATAACTTA
1 CATAACTTA
* *
78625719 CAAAACGTA
1 CATAACTTA
78625728 CATAACTTA
1 CATAACTTA
*
78625737 TATAACTTA
1 CATAACTTA
* *
78625746 GATAA-ATA
1 CATAACTTA
*
78625754 TATAACTTA
1 CATAACTTA
*
78625763 TATAACTTA
1 CATAACTTA
78625772 CATAACTTA
1 CATAACTTA
* *
78625781 TATAACATA
1 CATAACTTA
78625790 CATAACTTA
1 CATAACTTA
78625799 CATAACTTA
1 CATAACTTA
*
78625808 TATAACTTA
1 CATAACTTA
78625817 CATAACTTA
1 CATAACTTA
78625826 CATAACTTA
1 CATAACTTA
*
78625835 TATAACTTA
1 CATAACTTA
78625844 CATAACTTA
1 CATAACTTA
78625853 TATGTTGTCA
Statistics
Matches: 121, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
8 6 0.05
9 115 0.95
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:78631742 original size:43 final size:43
Alignment explanation
Indices: 78631695--78631796 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
78631685 ATCTGCCAAA
78631695 TTTAGCGGCG-TTTGT-AAAAAAAGCGCCGCTAAAAGCCTTAACC
1 TTTAGCGGCGCTTT-TCAAAAAAA-CGCCGCTAAAAGCCTTAACC
** * *
78631738 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAAGCCTTAACC
78631781 TTTAGCGGCGCTTTTC
1 TTTAGCGGCGCTTTTC
78631797 CCACAAACGC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
43 46 0.87
44 7 0.13
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAAGCCTTAACC
Found at i:78631797 original size:43 final size:43
Alignment explanation
Indices: 78631718--78631807 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
78631708 GTAAAAAAAG
78631718 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCACAAA
*
78631761 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCACAAA
78631804 CGCC
1 CGCC
78631808 ACAAATTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:78641937 original size:25 final size:25
Alignment explanation
Indices: 78641904--78641982 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
78641894 GATTACTTGG
* *
78641904 AAAGACTTTGTGGCT-AATTTTATGA
1 AAAGCCTTTGTGG-TGAATTATATGA
*
78641929 AAAGCCTTTGTGGTGTATTATATGA
1 AAAGCCTTTGTGGTGAATTATATGA
* *
78641954 AAAGCCTTTGTGGTGTATTGTATGA
1 AAAGCCTTTGTGGTGAATTATATGA
78641979 AAAG
1 AAAG
78641983 ACTGTATGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 48 0.98
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAATTATATGA
Found at i:78642360 original size:27 final size:27
Alignment explanation
Indices: 78642329--78642382 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
78642319 GGAGACTTAG
78642329 TCAAAAAGTGGTACCCATAGGAATATT
1 TCAAAAAGTGGTACCCATAGGAATATT
* *
78642356 TCAAAGAGTGGTACCTATAGGAATATT
1 TCAAAAAGTGGTACCCATAGGAATATT
78642383 ACCTTAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (27 bp):
TCAAAAAGTGGTACCCATAGGAATATT
Found at i:78644315 original size:33 final size:33
Alignment explanation
Indices: 78644278--78644343 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
78644268 AATTAAGCCC
78644278 TTGCTCTTTTTTTTTTCTTGCACTCAATTGGGA
1 TTGCTCTTTTTTTTTTCTTGCACTCAATTGGGA
78644311 TTGCTCTTTTTTTTTTCTTGCACTCAATTGGGA
1 TTGCTCTTTTTTTTTTCTTGCACTCAATTGGGA
78644344 ACATGAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (33 bp):
TTGCTCTTTTTTTTTTCTTGCACTCAATTGGGA
Found at i:78644540 original size:87 final size:87
Alignment explanation
Indices: 78644321--78644602 Score: 383
Period size: 87 Copynumber: 3.2 Consensus size: 87
78644311 TTGCTCTTTT
* * ** *
78644321 TTTTTTCTTGCACTCAATTGGGAACATGAACTTTCAAAATGCATAAAAAGGCCCTCAAACTTTTT
1 TTTTTT-TTGCACTCAATTGGGTACTTGAA-TTTCAAAATGCATAAAAAAACCCTCAAAATTTTT
*
78644386 CAAAAAAAGCAATTAA-CCCCTACT
64 CAAAAAAAGCAATTAAGCCCCT-CC
78644410 TTTTTTTTGCACTCAATTGGGTACTTGAATTGTCAAAATGCATAAAAAAACCCTCAAAATTTTTC
1 TTTTTTTTGCACTCAATTGGGTACTTGAATT-TCAAAATGCATAAAAAAACCCTCAAAATTTTTC
78644475 AAAAAAAGCAATTAAGCCCC-CC
65 AAAAAAAGCAATTAAGCCCCTCC
* *
78644497 TTTTTTTTGCACTCAATTGGGTACTTGAATTATTAAAAGGCATAAAAAAACCCT-AAAATTTTTT
1 TTTTTTTTGCACTCAATTGGGTACTTGAATT-TCAAAATGCATAAAAAAACCCTCAAAA-TTTTT
* *
78644561 CAAAAAAAACAATTAAGCCCCTGC
64 CAAAAAAAGCAATTAAGCCCCTCC
*
78644585 -TTTTTTTACACTCAATTG
1 TTTTTTTTGCACTCAATTG
78644603 CCTAAATGAA
Statistics
Matches: 177, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
86 4 0.02
87 96 0.54
88 67 0.38
89 10 0.06
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (87 bp):
TTTTTTTTGCACTCAATTGGGTACTTGAATTTCAAAATGCATAAAAAAACCCTCAAAATTTTTCA
AAAAAAGCAATTAAGCCCCTCC
Found at i:78644772 original size:11 final size:10
Alignment explanation
Indices: 78644750--78644880 Score: 51
Period size: 10 Copynumber: 13.3 Consensus size: 10
78644740 AAAAATCAAT
78644750 AAAAATTATA
1 AAAAATTATA
78644760 AAAAATTACT-
1 AAAAATTA-TA
*
78644770 -AAACTT-TA
1 AAAAATTATA
*
78644778 ATAAAAATATAA
1 A-AAAATTAT-A
*
78644790 AAAAATTATTT
1 AAAAATTA-TA
*
78644801 AAAATTTACTA
1 AAAAATTA-TA
*
78644812 AAAAA-TA-G
1 AAAAATTATA
*
78644820 AAAATTTAT-
1 AAAAATTATA
* **
78644829 ATAAATCGTA
1 AAAAATTATA
*
78644839 AAAAAATATA
1 AAAAATTATA
**
78644849 AAATTTTAT-
1 AAAAATTATA
*
78644858 AAAAATCATA
1 AAAAATTATA
78644868 AAAAATTATA
1 AAAAATTATA
78644878 AAA
1 AAA
78644881 TGCATCAAAA
Statistics
Matches: 84, Mismatches: 26, Indels: 22
0.64 0.20 0.17
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 18 0.21
10 38 0.45
11 20 0.24
12 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:78644794 original size:30 final size:31
Alignment explanation
Indices: 78644747--78644851 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 31
78644737 AATAAAAATC
*
78644747 AATAAAAAT-TATAAAAAATTA-CTAAACTTT
1 AATAAAAATATA-AAAAAATTATCTAAAATTT
*
78644777 AATAAAAATATAAAAAAATTATTTAAAATTT
1 AATAAAAATATAAAAAAATTATCTAAAATTT
* * * * *
78644808 ACTAAAAA-ATAGAAAATTTATAT-AAATCGT
1 AATAAAAATATAAAAAAATTATCTAAAAT-TT
78644838 AA-AAAAATATAAAA
1 AATAAAAATATAAAA
78644852 TTTTATAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
29 9 0.15
30 37 0.60
31 16 0.26
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (31 bp):
AATAAAAATATAAAAAAATTATCTAAAATTT
Found at i:78644863 original size:29 final size:29
Alignment explanation
Indices: 78644811--78644881 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
78644801 AAAATTTACT
* * *
78644811 AAAAAATAGAAAA-TTTATATAAATCGTA
1 AAAAAATATAAAATTTTATAAAAATCATA
78644839 AAAAAATATAAAATTTTATAAAAATCATA
1 AAAAAATATAAAATTTTATAAAAATCATA
*
78644868 AAAAATTATAAAAT
1 AAAAAATATAAAAT
78644882 GCATCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
28 12 0.32
29 26 0.68
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
AAAAAATATAAAATTTTATAAAAATCATA
Found at i:78644890 original size:29 final size:29
Alignment explanation
Indices: 78644811--78644891 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
78644801 AAAATTTACT
* * * *
78644811 AAAAAATAGAAAATT-TATATAAATCGTA
1 AAAAAATATAAAATTGCATAAAAATCATA
**
78644839 AAAAAATATAAAATTTTATAAAAATCATA
1 AAAAAATATAAAATTGCATAAAAATCATA
*
78644868 AAAAATTATAAAA-TGCATCAAAAA
1 AAAAAATATAAAATTGCAT-AAAAA
78644892 CGCCCTTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 17 0.38
29 28 0.62
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (29 bp):
AAAAAATATAAAATTGCATAAAAATCATA
Found at i:78644891 original size:19 final size:19
Alignment explanation
Indices: 78644840--78644880 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
78644830 TAAATCGTAA
**
78644840 AAAAAT-ATAAAATTTTAT
1 AAAAATCATAAAAAATTAT
78644858 AAAAATCATAAAAAATTAT
1 AAAAATCATAAAAAATTAT
78644877 AAAA
1 AAAA
78644881 TGCATCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATCATAAAAAATTAT
Found at i:78645183 original size:29 final size:29
Alignment explanation
Indices: 78645130--78645212 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
78645120 TTCTTACGAA
* *
78645130 TTTATAAAATTTTGTATATTTTTTTTCTATAT
1 TTTATAAAA-TTT-TATAATTTTTTACTAT-T
*
78645162 TTCTAT-ATATTTTATAATTTTTTACTATT
1 TT-TATAAAATTTTATAATTTTTTACTATT
78645191 TTTATAAAATTTTATAATTTTT
1 TTTATAAAATTTTATAATTTTT
78645213 ATAATCTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 3 0.07
29 18 0.40
30 14 0.31
31 3 0.07
32 4 0.09
33 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTATAAAATTTTATAATTTTTTACTATT
Found at i:78645193 original size:19 final size:19
Alignment explanation
Indices: 78645069--78645236 Score: 69
Period size: 19 Copynumber: 8.5 Consensus size: 19
78645059 TGGTATAACA
*
78645069 ATTTTTATAATTATTTTACG
1 ATTTTTATAATT-TTTTACT
*
78645089 AATTTTAT-ATTTCTTTACCT
1 ATTTTTATAATTT-TTTA-CT
* *
78645109 -TTTTTATCATTTTCTTACGA
1 ATTTTTATAATTTT-TTAC-T
* * *
78645129 ATTTATAAAATTTTGTA-T
1 ATTTTTATAATTTTTTACT
* * *
78645147 ATTTTTTTTCTATATTTCTA-T
1 A-TTTTTAT-AAT-TTTTTACT
78645168 ATATTTTATAATTTTTTACT
1 AT-TTTTATAATTTTTTACT
**
78645188 ATTTTTATAAAATTTTA-T
1 ATTTTTATAATTTTTTACT
*
78645206 AATTTTTATAATCTTTT-CT
1 -ATTTTTATAATTTTTTACT
78645225 AATTTTTGATAA
1 -ATTTTT-ATAA
78645237 AAATTAAATA
Statistics
Matches: 113, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.03
19 59 0.52
20 29 0.26
21 22 0.19
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTTTTACT
Found at i:78645222 original size:11 final size:9
Alignment explanation
Indices: 78645171--78645236 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
78645161 TTTCTATATA
78645171 TTTTATAAT
1 TTTTATAAT
78645180 TTTT-TACTAT
1 TTTTATA--AT
*
78645190 TTTTATAAAA
1 TTTTAT-AAT
78645200 TTTTATAAT
1 TTTTATAAT
78645209 TTTTATAAT
1 TTTTATAAT
*
78645218 CTTTTCTAAT
1 -TTTTATAAT
78645228 TTTTGATAA
1 TTTT-ATAA
78645237 AAATTAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
8 2 0.04
9 19 0.40
10 24 0.51
11 1 0.02
12 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:78645283 original size:28 final size:29
Alignment explanation
Indices: 78645224--78645292 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
78645214 TAATCTTTTC
*
78645224 TAATTTTTGATAAAAATTAAATATTTCTTA
1 TAATTTTT-ATTAAAATTAAATATTTCTTA
*
78645254 T-ATTTTTATTAAAATTTAATATTT-TGTA
1 TAATTTTTATTAAAATTAAATATTTCT-TA
*
78645282 TAACTTTTATT
1 TAATTTTTATT
78645293 GATTTTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 1 0.03
28 18 0.53
29 14 0.41
30 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
TAATTTTTATTAAAATTAAATATTTCTTA
Found at i:78645626 original size:94 final size:91
Alignment explanation
Indices: 78645448--78645632 Score: 246
Period size: 94 Copynumber: 2.0 Consensus size: 91
78645438 GCAATTGAGT
* * *
78645448 GCAAAAAAAAAACAAGGGTTTAATTGCTTTTTTGAAAAAGTTTGAGAGCCTTTTTTATGCATTTT
1 GCAAAAAAAAAACAAGGGCTTAATTGCTATTTTGAAAAAGTTTGAGAGCCTTTATTATGCATTTT
**
78645513 GGCAGTTCAAGTACCCAATTAAGTGC
66 GAAAGTTCAAGTACCCAATTAAGTGC
* *
78645539 GCAAAAACAAAAGACACAGGGGCTTAATTGCTATTTTGAATAAGTTTGAGATCC-TTATTATGCA
1 GCAAAAA-AAAA-ACA-A-GGGCTTAATTGCTATTTTGAAAAAGTTTGAGAGCCTTTATTATGCA
* *
78645603 TTTTGAAATTTCAAGTATCCAATTAAGTGC
62 TTTTGAAAGTTCAAGTACCCAATTAAGTGC
78645633 AAAAAGAATC
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
91 7 0.09
92 4 0.05
93 3 0.04
94 36 0.44
95 31 0.38
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (91 bp):
GCAAAAAAAAAACAAGGGCTTAATTGCTATTTTGAAAAAGTTTGAGAGCCTTTATTATGCATTTT
GAAAGTTCAAGTACCCAATTAAGTGC
Found at i:78646402 original size:180 final size:181
Alignment explanation
Indices: 78646061--78646424 Score: 703
Period size: 180 Copynumber: 2.0 Consensus size: 181
78646051 AACATTTCCT
*
78646061 ACCATTTGAACTAAATCATTCAAAATGGACTTAAAACTAACTCAAGACCTTAGATACATATCAAT
1 ACCATTTGAACTAAATCATTCAAAATGGACTTAAAACTAAATCAAGACCTTAGATACATATCAAT
78646126 TGATATAAACATAAAAAAAATCTATACCAACTTTGCAGAGTCAAGATTTGGGTCCTGGATGTTGT
66 TGATATAAACATAAAAAAAATCTATACCAACTTTGCAGAGTCAAGATTTGGGTCCTGGATGTTGT
78646191 TCTCTTTGAAACCTCAAAACCTAACGATACTTGCGCATGGAAATAAACAAA
131 TCTCTTTGAAACCTCAAAACCTAACGATACTTGCGCATGGAAATAAACAAA
78646242 ACCATTTGAACTAAATCATTCAAAATGGACTTAAAACTAAATCAAGACCTTAGATACATATCAAT
1 ACCATTTGAACTAAATCATTCAAAATGGACTTAAAACTAAATCAAGACCTTAGATACATATCAAT
*
78646307 TGATATAAACAT-AAAAAAATCTATACCAACTTTGCAGAGTCGAGATTTGGGTCCTGGATGTTGT
66 TGATATAAACATAAAAAAAATCTATACCAACTTTGCAGAGTCAAGATTTGGGTCCTGGATGTTGT
78646371 TCTCTTTGAAACCTCAAAACCTAACGATACTTGCGCATGGAAATAAACAAA
131 TCTCTTTGAAACCTCAAAACCTAACGATACTTGCGCATGGAAATAAACAAA
78646422 ACC
1 ACC
78646425 GTATGCTGAG
Statistics
Matches: 181, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
180 105 0.58
181 76 0.42
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (181 bp):
ACCATTTGAACTAAATCATTCAAAATGGACTTAAAACTAAATCAAGACCTTAGATACATATCAAT
TGATATAAACATAAAAAAAATCTATACCAACTTTGCAGAGTCAAGATTTGGGTCCTGGATGTTGT
TCTCTTTGAAACCTCAAAACCTAACGATACTTGCGCATGGAAATAAACAAA
Found at i:78647257 original size:27 final size:27
Alignment explanation
Indices: 78647219--78647273 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
78647209 GTACAAGGAC
* *
78647219 TAAATCTTAAAAGTGGGAAAATTTTAA
1 TAAATCTTAAAAGTGGAAAAAATTTAA
78647246 TAAATCTTAAAAGTGGAAAAAATTTAA
1 TAAATCTTAAAAGTGGAAAAAATTTAA
78647273 T
1 T
78647274 CACTATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.33
Consensus pattern (27 bp):
TAAATCTTAAAAGTGGAAAAAATTTAA
Found at i:78654432 original size:93 final size:93
Alignment explanation
Indices: 78654320--78654491 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78654310 CGCCCATAAG
* *
78654320 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78654385 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78654413 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78654478 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78654492 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78654488 original size:46 final size:46
Alignment explanation
Indices: 78654313--78654488 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
78654303 TGTAACCCGC
* * *
78654313 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78654359 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78654409 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78654452 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78654489 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78661831 original size:45 final size:46
Alignment explanation
Indices: 78661767--78661937 Score: 208
Period size: 45 Copynumber: 3.7 Consensus size: 46
78661757 TGTAACCCGC
*
78661767 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
78661812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
78661862 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
78661905 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
78661938 TGGATGCTCA
Statistics
Matches: 107, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.34
46 25 0.23
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:78661932 original size:93 final size:92
Alignment explanation
Indices: 78661774--78661944 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
78661764 CGCCCATAAG
*
78661774 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78661839 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
78661866 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
78661931 ACGAGTTTGGATGC
65 ACGAGTTCGGATGC
78661945 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78672916 original size:93 final size:93
Alignment explanation
Indices: 78672804--78672975 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78672794 CCGCCATAAG
* *
78672804 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78672869 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78672897 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78672962 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78672976 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78672972 original size:46 final size:46
Alignment explanation
Indices: 78672797--78672972 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
78672787 ATGTAACCCG
* * *
78672797 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78672843 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78672893 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78672936 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78672973 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78680275 original size:46 final size:46
Alignment explanation
Indices: 78680208--78680381 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
78680198 TGTAACCCGC
*
78680208 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
78680254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
78680304 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
78680346 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
78680382 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 26 0.24
46 36 0.33
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:78680373 original size:92 final size:93
Alignment explanation
Indices: 78680215--78680385 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
78680205 CGCCCATAAG
* *
78680215 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78680280 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78680308 CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78680372 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78680386 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 49 0.65
93 26 0.35
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78681792 original size:27 final size:27
Alignment explanation
Indices: 78681760--78681813 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
78681750 AATGTTAAGG
78681760 TATGTTAACTAAATTTCATATAGACTT
1 TATGTTAACTAAATTTCATATAGACTT
78681787 TATGTTAACTAAATTTCATATAGACTT
1 TATGTTAACTAAATTTCATATAGACTT
78681814 ACTAAGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (27 bp):
TATGTTAACTAAATTTCATATAGACTT
Found at i:78688087 original size:46 final size:43
Alignment explanation
Indices: 78687918--78688134 Score: 186
Period size: 46 Copynumber: 4.7 Consensus size: 43
78687908 TGTGTGAGCT
* * *
78687918 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGC-C-TCA-GACGAGTC
* * *
78687964 AGTGTAAGAACATGTTTGGGACATGACATCGACATTCAGACGAGTGC
1 AGTGTAAG-ACATGTCTGGGACATG-CATCGGC-CTCAGACGAGT-C
* *
78688011 TAGTGTAAGACATGCCTGGGACATGCATCGGCCTCGAGACGTAAGTA
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGACG--AGTC
* *
78688058 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-C-AGACGAGTC
78688102 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
78688135 ACCTTACCCT
Statistics
Matches: 145, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 66 0.46
47 33 0.23
48 15 0.10
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGACGAGTC
Found at i:78696318 original size:17 final size:16
Alignment explanation
Indices: 78696291--78696335 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
78696281 GTGTCATAAA
*
78696291 AGAGTCCGCCAATCCCT
1 AGAGTTCGCCAA-CCCT
* *
78696308 AGAGTTTGCCAACCTT
1 AGAGTTCGCCAACCCT
78696324 AGAGTTCGCCAA
1 AGAGTTCGCCAA
78696336 ATGGTGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (16 bp):
AGAGTTCGCCAACCCT
Found at i:78698229 original size:13 final size:14
Alignment explanation
Indices: 78698208--78698240 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
78698198 AATTAATATT
*
78698208 TTAATTAAACTAA-
1 TTAAATAAACTAAC
78698221 TTAAATAAACTAAC
1 TTAAATAAACTAAC
78698235 TTAAAT
1 TTAAAT
78698241 TACCCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (14 bp):
TTAAATAAACTAAC
Found at i:78701580 original size:39 final size:39
Alignment explanation
Indices: 78701537--78701671 Score: 207
Period size: 39 Copynumber: 3.5 Consensus size: 39
78701527 AGCATTCACT
* * *
78701537 TTTAAGCATCTATCACATTACACATATAATCACATAATA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
*
78701576 TTTAAGCATATATCACAATACACATATGATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
* *
78701615 TTCAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
*
78701654 TTAAAGCATATATCACAA
1 TTTAAGCATATATCACAA
78701672 CACTTAAAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAACA
Found at i:78701630 original size:22 final size:22
Alignment explanation
Indices: 78701559--78701670 Score: 68
Period size: 22 Copynumber: 5.5 Consensus size: 22
78701549 TCACATTACA
* *
78701559 CATATAATCACATAATATTTAAG
1 CATAT-ATCACATAACATTCAAG
*
78701582 CATATATCAC---A-ATAC-A-
1 CATATATCACATAACATTCAAG
78701598 CATATGATCACATAACATTCAAG
1 CATAT-ATCACATAACATTCAAG
78701621 CATATATCACA-ATAC--TC-A-
1 CATATATCACATA-ACATTCAAG
* *
78701639 TATA-ATCACATAACATTAAAG
1 CATATATCACATAACATTCAAG
78701660 CATATATCACA
1 CATATATCACA
78701671 ACACTTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 29
0.66 0.06 0.28
Matches are distributed among these distances:
16 5 0.07
17 14 0.20
18 6 0.09
19 3 0.04
20 4 0.06
21 7 0.10
22 20 0.29
23 10 0.14
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.29
Consensus pattern (22 bp):
CATATATCACATAACATTCAAG
Found at i:78711431 original size:40 final size:40
Alignment explanation
Indices: 78711347--78711530 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
78711337 TTGAATGCTG
* * * *
78711347 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
78711386 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
78711427 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
78711467 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
78711507 TCCGGGTTAAGTCCTGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78711531 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 110 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:78711484 original size:80 final size:81
Alignment explanation
Indices: 78711347--78711527 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
78711337 TTGAATGCTG
* * *
78711347 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
78711411 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
78711427 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
78711488 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
78711507 TCCGGGTTAAGTCCTGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
78711528 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 4 0.05
80 75 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:78711551 original size:39 final size:39
Alignment explanation
Indices: 78711427--78711577 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
78711417 AGTTATTAAT
* ** * *
78711427 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-AAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
78711467 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* * *
78711507 TCCGGGTTAAGTCCTGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
78711547 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
78711578 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:78719376 original size:40 final size:40
Alignment explanation
Indices: 78719292--78719435 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
78719282 TTGAATGCTG
* *
78719292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
78719331 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
** *
78719372 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
**
78719412 TCCGGGTTTAAGT-CCGAAGGCATT
1 TCC-GGACTAAGTCCCGAAGGCATT
78719436 GAATGAGTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 64 0.75
41 20 0.24
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78727172 original size:82 final size:81
Alignment explanation
Indices: 78727056--78727211 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
78727046 AAATTGTACA
* * * *
78727056 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
78727120 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78727137 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
78727202 TGCGAGTTGA
65 TGCGAATTGA
78727212 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78727179 original size:55 final size:52
Alignment explanation
Indices: 78727055--78727208 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
78727045 TAAATTGTAC
* *
78727055 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
78727108 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
78727163 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
78727209 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:78727213 original size:27 final size:27
Alignment explanation
Indices: 78727056--78727211 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
78727046 AAATTGTACA
*
78727056 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
78727083 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
78727110 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
78727137 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
78727165 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
78727192 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
78727212 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:78727222 original size:27 final size:27
Alignment explanation
Indices: 78727048--78727232 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
78727038 GCGGGATTAA
*
78727048 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
78727075 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
78727102 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
78727129 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
78727157 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
78727184 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
78727211 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
78727233 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:78727223 original size:82 final size:81
Alignment explanation
Indices: 78727048--78727232 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
78727038 GCGGGATTAA
* * * *
78727048 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
78727113 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
78727129 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
78727193 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
78727211 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
78727233 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:78735151 original size:27 final size:27
Alignment explanation
Indices: 78735121--78735242 Score: 124
Period size: 27 Copynumber: 4.5 Consensus size: 27
78735111 AAATTGTACA
*
78735121 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGAT
* *
78735148 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
* **
78735175 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGAT
*
78735202 GCACTAAGTGTGCGAGTTGA-T-TGTAT
1 GCACTAAGTGTGCGAATTGACTATG-AT
*
78735228 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
78735243 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.03
27 75 0.95
28 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:78735233 original size:54 final size:55
Alignment explanation
Indices: 78735112--78735242 Score: 153
Period size: 54 Copynumber: 2.4 Consensus size: 55
78735102 CGCGGGATTA
* * **
78735112 AATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATG
1 AATTGTATAGCACTAAGTGTGCGATTCGACCATGCGGCACTAAGTGTGCGAAATG
**
78735167 AATATG-AT-GCACTAAGTGTGCGAATT-GACCATGCGGCACTAAGTGTGCGAGTTG
1 AAT-TGTATAGCACTAAGTGTGCG-ATTCGACCATGCGGCACTAAGTGTGCGAAATG
*
78735221 -ATTGTATAGCACTGAGTGTGCG
1 AATTGTATAGCACTAAGTGTGCG
78735243 GGCTCAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
52 2 0.03
53 4 0.06
54 50 0.77
55 7 0.11
56 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (55 bp):
AATTGTATAGCACTAAGTGTGCGATTCGACCATGCGGCACTAAGTGTGCGAAATG
Found at i:78736654 original size:48 final size:48
Alignment explanation
Indices: 78736598--78736847 Score: 261
Period size: 48 Copynumber: 5.2 Consensus size: 48
78736588 TACATTTGGA
* * *
78736598 ACATGGCATCGACAATG-TAATGAGAGCTAGTCTAAGACCATGTCCGGG
1 ACATGGCATCGGCAATGAT-ATGAGAGCTAGTGTAAGACCATGTCTGGG
* * * * * *
78736646 ACATGGCATTGGCCACGATATGAGAGCCAGTGTAAGACCATGTTTGGA
1 ACATGGCATCGGCAATGATATGAGAGCTAGTGTAAGACCATGTCTGGG
* * * *
78736694 ACATAGCATCGGCAATG-TAATGAGAGCCAGTGTAAGACTATGTCTAGG
1 ACATGGCATCGGCAATGAT-ATGAGAGCTAGTGTAAGACCATGTCTGGG
* * * * *
78736742 ACATGGCATCGGCATTGATATGTGCGCTAGTGCAATACCATGTCTGGG
1 ACATGGCATCGGCAATGATATGAGAGCTAGTGTAAGACCATGTCTGGG
* * * * *
78736790 ACATGGCATCGGCATTGAGAAGAGAGCTAGTGTAAGGCCATGTCTAGG
1 ACATGGCATCGGCAATGATATGAGAGCTAGTGTAAGACCATGTCTGGG
78736838 ACATGGCATC
1 ACATGGCATC
78736848 AGCCTCGACA
Statistics
Matches: 165, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 162 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
ACATGGCATCGGCAATGATATGAGAGCTAGTGTAAGACCATGTCTGGG
Found at i:78736762 original size:96 final size:96
Alignment explanation
Indices: 78736592--78736885 Score: 340
Period size: 96 Copynumber: 3.1 Consensus size: 96
78736582 GGGTGTTACA
* * ** *
78736592 TTTGGAACATGGCATCGACAATGTAATGAGAGCTAGTCTAAGACCATGTCCGGGACATGGCATTG
1 TTTGGAACATGGCATCGGCAATGTAATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
*
78736657 GCCA-CGATATGAGAGCCAGTGTAAGACCATG
66 G-CATCGATATGTGAGCCAGTGTAAGACCATG
* * *
78736688 TTTGGAACATAGCATCGGCAATGTAATGAGAGCCAGTGTAAGACTATGTCTAGGACATGGCATCG
1 TTTGGAACATGGCATCGGCAATGTAATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
* * * * *
78736753 GCATTGATATGTGCGCTAGTGCAATACCATG
66 GCATCGATATGTGAGCCAGTGTAAGACCATG
* * * * *
78736784 TCTGGGACATGGCATCGGCATTG-AGAAGAGAGCTAGTGTAAGGCCATGTCTAGGACATGGCATC
1 TTTGGAACATGGCATCGGCAATGTA-ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
* * * **
78736848 AGCCTCGACATGTGAGCCAGCATAAGACCATG
65 GGCATCGATATGTGAGCCAGTGTAAGACCATG
78736880 TTTGGA
1 TTTGGA
78736886 GTATGGCTTC
Statistics
Matches: 162, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
95 3 0.02
96 159 0.98
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (96 bp):
TTTGGAACATGGCATCGGCAATGTAATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
GCATCGATATGTGAGCCAGTGTAAGACCATG
Found at i:78736879 original size:48 final size:48
Alignment explanation
Indices: 78736617--78736880 Score: 230
Period size: 48 Copynumber: 5.5 Consensus size: 48
78736607 CGACAATGTA
* * ** *
78736617 ATGAGAGCTAGTCTAAGACCATGTCCGGGACATGGCATTGGCCA-CGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATCGAT
* *
78736665 ATGAGAGCCAGTGTAAGACCATGT-TTGGAACATAGCATCGGCAAT-G-T
1 ATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGC-ATCGAT
* *
78736712 AATGAGAGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCATTGAT
1 -ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAT
* * * * * * * *
78736761 ATGTGCGCTAGTGCAATACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAT
* * * * * *
78736809 AAGAGAGCTAGTGTAAGGCCATGTCTAGGACATGGCATCAGCCTCGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAT
* **
78736857 ATGTGAGCCAGCATAAGACCATGT
1 ATGAGAGCCAGTGTAAGACCATGT
78736881 TTGGAGTATG
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
47 6 0.03
48 165 0.94
49 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAT
Found at i:78754358 original size:14 final size:14
Alignment explanation
Indices: 78754339--78754366 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78754329 GTCGAGATTG
78754339 TGTATATGATATTA
1 TGTATATGATATTA
78754353 TGTATATGATATTA
1 TGTATATGATATTA
78754367 ATACCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
TGTATATGATATTA
Found at i:78754639 original size:24 final size:24
Alignment explanation
Indices: 78754612--78754660 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
78754602 CGAGCATGTT
78754612 TACAGACTTT-AAACCAACAGCTAA
1 TACAGA-TTTAAAACCAACAGCTAA
78754636 TACAGATTTAAAAACCAACAGCTAA
1 TACAGATTT-AAAACCAACAGCTAA
78754661 ATATTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.13
24 6 0.26
25 14 0.61
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.20
Consensus pattern (24 bp):
TACAGATTTAAAACCAACAGCTAA
Found at i:78755894 original size:41 final size:42
Alignment explanation
Indices: 78755805--78755914 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
78755795 TTGCAGTTCA
*
78755805 CCAAAAATGCCATTATAGCTCAATTTTTTAACGGCATTTTTG
1 CCAAAAATGCCACTATAGCTCAATTTTTTAACGGCATTTTTG
* ** *
78755847 CTAAAAATGCCACTATAGCTCAATTTTTT-GTGGC-GTTTTG
1 CCAAAAATGCCACTATAGCTCAATTTTTTAACGGCATTTTTG
*
78755887 TCCAAAAACGCCACTATTA-CTCAATTTT
1 -CCAAAAATGCCACTA-TAGCTCAATTTT
78755915 GATTTTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
40 5 0.08
41 25 0.42
42 29 0.49
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (42 bp):
CCAAAAATGCCACTATAGCTCAATTTTTTAACGGCATTTTTG
Found at i:78756774 original size:21 final size:20
Alignment explanation
Indices: 78756748--78756789 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
78756738 ACCAAACCCC
*
78756748 AAATCCTAGTCCATAAATCCT
1 AAATCCTAGACCATAAA-CCT
78756769 AAATCCTAGACCATAAACCT
1 AAATCCTAGACCATAAACCT
78756789 A
1 A
78756790 CACCCTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.43, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATCCTAGACCATAAACCT
Found at i:78757156 original size:7 final size:7
Alignment explanation
Indices: 78757144--78757195 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
78757134 ATAAATCCTA
78757144 AACCCCT
1 AACCCCT
*
78757151 ATCCCCT
1 AACCCCT
*
78757158 AACCTCT
1 AACCCCT
78757165 AACCCCT
1 AACCCCT
78757172 AACCCCT
1 AACCCCT
*
78757179 ATCCCCAT
1 AACCCC-T
*
78757187 AAACCCT
1 AACCCCT
78757194 AA
1 AA
78757196 ATCATAAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCCT
Found at i:78757184 original size:14 final size:14
Alignment explanation
Indices: 78757144--78757194 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
78757134 ATAAATCCTA
78757144 AACCCCTATCCCCT
1 AACCCCTATCCCCT
* *
78757158 AACCTCTAACCCCT
1 AACCCCTATCCCCT
78757172 AACCCCTATCCCCAT
1 AACCCCTATCCCC-T
*
78757187 AAACCCTA
1 AACCCCTA
78757195 AATCATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCCTATCCCCT
Found at i:78757201 original size:14 final size:14
Alignment explanation
Indices: 78757183--78757267 Score: 89
Period size: 14 Copynumber: 6.0 Consensus size: 14
78757173 ACCCCTATCC
*
78757183 CCATAAACCCTAAA
1 CCATAAACCATAAA
*
78757197 TCATAAACCATAAA
1 CCATAAACCATAAA
*
78757211 CCATAAACCATATA
1 CCATAAACCATAAA
*
78757225 CCATAAACCATAAT
1 CCATAAACCATAAA
* * *
78757239 CCCTAAACTGATAAT
1 CCATAAAC-CATAAA
*
78757254 CCATAAACCTTAAA
1 CCATAAACCATAAA
78757268 ATAGTAACTC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
14 46 0.79
15 12 0.21
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (14 bp):
CCATAAACCATAAA
Found at i:78757209 original size:21 final size:21
Alignment explanation
Indices: 78757183--78757267 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
78757173 ACCCCTATCC
* *
78757183 CCATAAACCCTAAATCATAAA
1 CCATAAACCATAAACCATAAA
*
78757204 CCATAAACCATAAACCATATA
1 CCATAAACCATAAACCATAAA
* *
78757225 CCATAAACCATAATCCCTAAA
1 CCATAAACCATAAACCATAAA
* * *
78757246 CTGATAATCCATAAACCTTAAA
1 C-CATAAACCATAAACCATAAA
78757268 ATAGTAACTC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
21 37 0.70
22 16 0.30
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (21 bp):
CCATAAACCATAAACCATAAA
Found at i:78757805 original size:40 final size:40
Alignment explanation
Indices: 78757617--78757806 Score: 170
Period size: 40 Copynumber: 4.8 Consensus size: 40
78757607 AATGTTTTTT
* * * *
78757617 GCGGCGTTTTTGATAAAGTGCCGCTAAAGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGAGCCGCTAATGCTCGATCTATA
* * * *
78757657 GTGGCGTTTTTCAAAAAGTGCCGCTAAT-CGTTGACCTATA
1 GCGGCGTTTTTCAAAAAGAGCCGCTAATGC-TCGATCTATA
* * * *
78757697 GCGGCGTTTTTTAAAAAGCGTCGCTAATGCTTGAT-TCATA
1 GCGGCGTTTTTCAAAAAGAGCCGCTAATGCTCGATCT-ATA
* * **
78757737 GCTGCTTTTTTTTAAAAGCA-CCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAG-AGCCGCTAATGCTCGATCTATA
* *
78757777 GCAGCGTTTTTCAAAAAGAGCCACTAATGC
1 GCGGCGTTTTTCAAAAAGAGCCGCTAATGC
78757807 CACTAAAGCT
Statistics
Matches: 122, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.02
40 117 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGAGCCGCTAATGCTCGATCTATA
Found at i:78757901 original size:40 final size:40
Alignment explanation
Indices: 78757856--78757947 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
78757846 TTTTTGTGGC
*
78757856 GTTTTTCAAAAAGCACCGCTAATGGTCGACCTATAGCGGCT
1 GTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGG-T
* * * * *
78757897 -TTTTTTAAAAAGCGCCTCTAATGCTCTATCTATAGCGGT
1 GTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGGT
78757936 GTTTTTCAAAAA
1 GTTTTTCAAAAA
78757948 TTGTCACTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (40 bp):
GTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGGT
Found at i:78771775 original size:46 final size:45
Alignment explanation
Indices: 78771725--78771900 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
78771715 TGTTTGGGCA
78771725 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
78771771 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
78771818 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
78771864 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78771901 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:78771880 original size:93 final size:93
Alignment explanation
Indices: 78771721--78771892 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78771711 AGGATGTTTG
* *
78771721 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78771786 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
78771814 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78771879 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
78771893 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:78774900 original size:29 final size:29
Alignment explanation
Indices: 78774814--78774897 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
78774804 CATAGTATCG
* * * *
78774814 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
78774844 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
78774873 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
78774898 TCTTGTTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.10
29 23 0.48
30 20 0.42
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:78774901 original size:14 final size:15
Alignment explanation
Indices: 78774823--78774901 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
78774813 GTATCTTGGG
*
78774823 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
78774838 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
78774853 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
78774867 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
78774882 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
78774896 TTTCTT
1 TTTCTT
78774902 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:78777332 original size:46 final size:45
Alignment explanation
Indices: 78777282--78777457 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
78777272 TGTTTGGGCA
78777282 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
78777328 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
78777375 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
78777421 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78777458 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:78777437 original size:93 final size:93
Alignment explanation
Indices: 78777278--78777449 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78777268 AGGATGTTTG
* *
78777278 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78777343 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
78777371 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78777436 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
78777450 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:78785473 original size:42 final size:43
Alignment explanation
Indices: 78785406--78785536 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 43
78785396 CAACATTCGT
78785406 ATCGAT-TTATGATTTACATGTAAGACCATGTCTGGGACGTTGGC
1 ATCGATATT-TGATTT-CATGTAAGACCATGTCTGGGACGTTGGC
* * *
78785450 ATCG-TGTTTGATTTCATGTAAGACCCTGTTTGGGACAG-TGGC
1 ATCGATATTTGATTTCATGTAAGACCATGTCTGGGAC-GTTGGC
* * **
78785492 ATCGATATTTGATTACATGTAACACCACATCTGGGACGTTGGC
1 ATCGATATTTGATTTCATGTAAGACCATGTCTGGGACGTTGGC
78785535 AT
1 AT
78785537 TGTAGAAGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.39
43 39 0.53
44 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
ATCGATATTTGATTTCATGTAAGACCATGTCTGGGACGTTGGC
Found at i:78792901 original size:42 final size:42
Alignment explanation
Indices: 78792842--78792926 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
78792832 GTGTTATGTG
*
78792842 ATAAGTTTATTTGTATATGGCTTACTGAGCTTTTGAAAGCTT
1 ATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
78792884 ATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
1 ATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
78792926 A
1 A
78792927 CTTTGCGTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (42 bp):
ATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTT
Found at i:78808052 original size:67 final size:66
Alignment explanation
Indices: 78807910--78808060 Score: 157
Period size: 67 Copynumber: 2.3 Consensus size: 66
78807900 AGCCAGTTTA
* * *
78807910 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATA
1 TCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACGCATGCGACCTAGCTACATA
78807975 TAT
64 TAT
* * *
78807978 CCT-GTAGCTCTCTTGTCTACATGGTG-TACACATAGTATCAC-CAATGC-ACCTAGCTACATCA
1 TCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACGC-ATGCGACCTAGCTACAT-A
78808039 TAAT
64 T-AT
*
78808043 GTCTCGTAGCTCCCTTGT
1 -TCTCGTAGCTCTCTTGT
78808061 ACACATGATG
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
63 13 0.19
64 16 0.23
65 2 0.03
66 2 0.03
67 35 0.50
68 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (66 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACGCATGCGACCTAGCTACATATA
T
Found at i:78812449 original size:15 final size:15
Alignment explanation
Indices: 78812431--78812460 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78812421 CATTTATGAT
78812431 TTTCAACTCATCACC
1 TTTCAACTCATCACC
78812446 TTTCAACTCATCACC
1 TTTCAACTCATCACC
78812461 AACACATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTCAACTCATCACC
Found at i:78814442 original size:49 final size:48
Alignment explanation
Indices: 78814366--78814477 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
78814356 AGAAATTTCA
* * **
78814366 GCACTATGTGTGCAAGGTTATGCGGCACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCGAGATTACACGGCACTATGTGTGCGAGAAAAC---GTG
*
78814415 GCACTATGTGTGCGAGATTACATGGCACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGCGAGATTACACGGCACTATGTGTGCGAGAAAACGTG
*
78814463 GCACTATGTCTGCGA
1 GCACTATGTGTGCGA
78814478 ATAAGTAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 17 0.31
49 32 0.58
50 1 0.02
51 5 0.09
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTACACGGCACTATGTGTGCGAGAAAACGTG
Found at i:78814445 original size:24 final size:24
Alignment explanation
Indices: 78814389--78814477 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
78814379 AAGGTTATGC
78814389 GGCACTATGTGTGC-A-AAAACTAAGT
1 GGCACTATGTGTGCGAGAAAAC--A-T
**
78814414 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACAT
*
78814438 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACAT
*
78814462 GGCACTATGTCTGCGA
1 GGCACTATGTGTGCGA
78814478 ATAAGTAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
24 37 0.66
25 15 0.27
26 1 0.02
27 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:78817368 original size:28 final size:28
Alignment explanation
Indices: 78817336--78817410 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
78817326 GAGTCATTCG
*
78817336 ATATTTTGCACACTGAA-TGCCATTCTCA
1 ATATTTCGCACACT-AAGTGCCATTCTCA
*
78817364 ATATTTCGCAGACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
78817392 ATATTTCGCACACTAAGTG
1 ATATTTCGCACACTAAGTG
78817411 TCATATTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:78817481 original size:23 final size:23
Alignment explanation
Indices: 78817451--78817498 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
78817441 GTACATAGCC
78817451 AAAGCTATCTCAAATCGCACACT
1 AAAGCTATCTCAAATCGCACACT
78817474 AAAGCTATCTCAAATCGCACACT
1 AAAGCTATCTCAAATCGCACACT
78817497 AA
1 AA
78817499 GTGCCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (23 bp):
AAAGCTATCTCAAATCGCACACT
Found at i:78825795 original size:39 final size:39
Alignment explanation
Indices: 78825591--78825813 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
78825581 TTGAATGCTG
* * * * * *
78825591 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
78825631 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
78825671 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
78825711 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
78825751 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
78825790 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78825814 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:78825833 original size:79 final size:80
Alignment explanation
Indices: 78825671--78825848 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
78825661 AGATACAAGT
* * * *
78825671 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
78825736 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
78825751 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
78825815 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
78825830 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
78825849 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:78830123 original size:70 final size:70
Alignment explanation
Indices: 78830010--78830151 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
78830000 ATCAGGTGTG
78830010 TATTTCTCACTACTCTAGCTATAGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATAT
1 TATTTCTCACTACTCTAGCTATAGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATAT
78830075 GGGCC
66 GGGCC
*
78830080 TATTTCTCACTACTCTAGCTGTAGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATAT
1 TATTTCTCACTACTCTAGCTATAGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATAT
78830145 GGGCC
66 GGGCC
78830150 TA
1 TA
78830152 CGGGCCCTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (70 bp):
TATTTCTCACTACTCTAGCTATAGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATAT
GGGCC
Done.