Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 286 of 333
Found at i:94461009 original size:16 final size:16
Alignment explanation
Indices: 94460988--94461024 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
94460978 ATCTTAAAAT
94460988 GGTTTAAGTTTTTCTA
1 GGTTTAAGTTTTTCTA
94461004 GGTTTAAGTTTTTCTA
1 GGTTTAAGTTTTTCTA
94461020 GGTTT
1 GGTTT
94461025 CTAAAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.22, T:0.57
Consensus pattern (16 bp):
GGTTTAAGTTTTTCTA
Found at i:94471983 original size:44 final size:44
Alignment explanation
Indices: 94471929--94472026 Score: 178
Period size: 44 Copynumber: 2.2 Consensus size: 44
94471919 TTGATATCTC
*
94471929 AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTGTACCAAGGAAACTAAGGAAGAATTGACGGA
*
94471973 AAAGTCCATGGTTGTACCATGGAAACTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTGTACCAAGGAAACTAAGGAAGAATTGACGGA
94472017 AAAGTCCATG
1 AAAGTCCATG
94472027 TTCATAACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (44 bp):
AAAGTCCATGGTTGTACCAAGGAAACTAAGGAAGAATTGACGGA
Found at i:94472038 original size:44 final size:44
Alignment explanation
Indices: 94471929--94472059 Score: 165
Period size: 44 Copynumber: 3.0 Consensus size: 44
94471919 TTGATATCTC
* * *
94471929 AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
* * *
94471973 AAAGTCCATGGTTGTACCATGGAAACTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
* * *
94472017 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGACGG
94472060 TTAAGGATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 3 0.04
44 75 0.96
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
Found at i:94472378 original size:55 final size:54
Alignment explanation
Indices: 94472249--94472445 Score: 254
Period size: 54 Copynumber: 3.6 Consensus size: 54
94472239 TTGGTAAGAT
* * *
94472249 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
94472303 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
94472358 AAAGG-TCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
94472411 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
94472446 ATGGCAAGTT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:94479636 original size:18 final size:18
Alignment explanation
Indices: 94479613--94479648 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94479603 CACTGTAAGA
94479613 AGATTGTCGAAGCGCCGT
1 AGATTGTCGAAGCGCCGT
94479631 AGATTGTCGAAGCGCCGT
1 AGATTGTCGAAGCGCCGT
94479649 CATTGCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (18 bp):
AGATTGTCGAAGCGCCGT
Found at i:94484059 original size:20 final size:21
Alignment explanation
Indices: 94484021--94484059 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
94484011 AGTTTATTTA
94484021 TGTTATAATTGTTGCAAATTG
1 TGTTATAATTGTTGCAAATTG
94484042 TGTT-TAATT-TTGCTAAAT
1 TGTTATAATTGTTGC-AAAT
94484060 CTATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
TGTTATAATTGTTGCAAATTG
Found at i:94491149 original size:16 final size:16
Alignment explanation
Indices: 94491120--94491190 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
94491110 TGAATTACTG
* * *
94491120 ATTACAACTTTATTCC
1 ATTACAGCTCTATTCA
*
94491136 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
94491152 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* * *
94491168 ATTACAACCCTATTCT
1 ATTACAGCTCTATTCA
94491184 ATTACAG
1 ATTACAG
94491191 TGAATCAAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:94493050 original size:39 final size:40
Alignment explanation
Indices: 94492895--94493117 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
94492885 CGGATGATAA
* * *
94492895 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
*
94492935 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
94492975 CTGGGCTAAGTCCCGAAGGCGTTTGTACGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
94493015 CCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
94493053 CCGGGGTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
*
94493093 CCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
94493118 AGCTAGTGGC
Statistics
Matches: 160, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 13 0.08
39 43 0.27
40 100 0.62
41 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:94505759 original size:6 final size:6
Alignment explanation
Indices: 94505744--94505786 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
94505734 ATTAAGTCAA
* * *
94505744 TTTA-T TTTATT TTTATT TCTATT TTTATG TTTATT GTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
94505787 CTTAGACTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:94505768 original size:12 final size:11
Alignment explanation
Indices: 94505744--94505786 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
94505734 ATTAAGTCAA
94505744 TTTATTTTATT
1 TTTATTTTATT
94505755 TTTATTTCTATT
1 TTTATTT-TATT
94505767 TTTATGTTTATT
1 TTTAT-TTTATT
*
94505779 GTTATTTT
1 TTTATTTT
94505787 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.34
12 17 0.59
13 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:94508446 original size:20 final size:20
Alignment explanation
Indices: 94508417--94508461 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
94508407 AGCACATGTA
* *
94508417 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
94508437 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
94508457 TTCAT
1 TTCAT
94508462 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:94510161 original size:30 final size:30
Alignment explanation
Indices: 94510127--94510187 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
94510117 GGACAAGCAA
94510127 ACGCTTAAGTGTGGGGATATTTGATAAACC
1 ACGCTTAAGTGTGGGGATATTTGATAAACC
*
94510157 ACGCTTAAGTGTGGGGATATTTGATATACC
1 ACGCTTAAGTGTGGGGATATTTGATAAACC
94510187 A
1 A
94510188 TAAAAGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (30 bp):
ACGCTTAAGTGTGGGGATATTTGATAAACC
Found at i:94514949 original size:27 final size:28
Alignment explanation
Indices: 94514904--94514959 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
94514894 ATATTGTTTG
* *
94514904 ACAAGTTTAAGTACTAAATTAGACAAAA
1 ACAAGTTTAAGTACTAAATAAGAAAAAA
94514932 ACAAG-TTAAGTA-TGAAATAAGAAAAAA
1 ACAAGTTTAAGTACT-AAATAAGAAAAAA
94514959 A
1 A
94514960 AACTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.04
27 19 0.76
28 5 0.20
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.21
Consensus pattern (28 bp):
ACAAGTTTAAGTACTAAATAAGAAAAAA
Found at i:94529929 original size:11 final size:10
Alignment explanation
Indices: 94529900--94529933 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
94529890 AGGTGATCAT
*
94529900 GGGTCGGGTC
1 GGGTCGGGCC
94529910 GGGTCGGGCC
1 GGGTCGGGCC
94529920 GGGTTCGGGCC
1 GGG-TCGGGCC
94529931 GGG
1 GGG
94529934 CCTATACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.24, G:0.62, T:0.15
Consensus pattern (10 bp):
GGGTCGGGCC
Found at i:94530177 original size:15 final size:16
Alignment explanation
Indices: 94530147--94530179 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
94530137 AAATGGTTAT
94530147 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
94530164 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
94530179 A
1 A
94530180 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:94533450 original size:46 final size:47
Alignment explanation
Indices: 94533395--94533562 Score: 188
Period size: 46 Copynumber: 3.6 Consensus size: 47
94533385 TATGTGTGCT
94533395 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGACGAGGC
* * * *
94533441 AATGTAAGACATGTCTGGGACATGCATCGGGCTCGAGA-TAT-ACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGC-C-ACATTATGACGAGGC
*
94533489 AGTGTAAGACATGTCTGGGACATGCATTGG---CATTGA-GACGAGAGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGACGAG-GC
94533534 TAGTGTAAGACATGTCTGGGACATGCATC
1 -AGTGTAAGACATGTCTGGGACATGCATC
94533563 AGCCTCGAGA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 5 0.05
45 1 0.01
46 54 0.52
47 6 0.06
48 33 0.32
49 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGACGAGGC
Found at i:94533544 original size:94 final size:92
Alignment explanation
Indices: 94533395--94533614 Score: 300
Period size: 94 Copynumber: 2.3 Consensus size: 92
94533385 TATGTGTGCT
94533395 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGGCAATGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTATGAGAGGCAATGTAAGACATGTCTGGG
* *
94533460 ACATGCATCGGGCTCGAGATATACAAGCC
64 ACATGCATCAGCCTCGAGATATACAAGCC
* *
94533489 AGTGTAAGACATGTCTGGGACATGCATTGG-CATTGA-GACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATT-ATGA-GAG-GC-AATGTAAGACATGTCTG
94533552 GGACATGCATCAGCCTCGAGATATACAAGCC
62 GGACATGCATCAGCCTCGAGATATACAAGCC
* * *
94533583 AATGTAAGACCTGTATGGGACATGGCATCGGC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC
94533615 TTTGATGTGC
Statistics
Matches: 112, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
91 6 0.05
92 4 0.04
93 2 0.02
94 94 0.84
95 6 0.05
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTATGAGAGGCAATGTAAGACATGTCTGGGAC
ATGCATCAGCCTCGAGATATACAAGCC
Found at i:94533656 original size:48 final size:47
Alignment explanation
Indices: 94533395--94533654 Score: 235
Period size: 48 Copynumber: 5.5 Consensus size: 47
94533385 TATGTGTGCT
* * *
94533395 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-ACATTATGA-GAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-TAT-ACAAGCC
*
94533441 AATGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATATACAAGCC
* * ** * *
94533489 AGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TCGAGATATACAAGCC
*
94533535 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATATACAAGCC
* * * ** * * * *
94533583 AATGTAAGACCTGTATGGGACATGGCATCGGCT-TTGATGTGCTACCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTCGAGATATACAAGCC
94533630 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
94533655 GCGTCGGCAT
Statistics
Matches: 173, Mismatches: 31, Indels: 19
0.78 0.14 0.09
Matches are distributed among these distances:
46 62 0.36
47 28 0.16
48 76 0.44
49 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATATACAAGCC
Found at i:94541519 original size:29 final size:29
Alignment explanation
Indices: 94541465--94541523 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
94541455 TATTATTATT
* *
94541465 ATTATTTTATTATATTATAGATTAAATTA
1 ATTATATTATTATATTATAGAATAAATTA
94541494 ATTATATTATTATATTAT-GAAATAAATTA
1 ATTATATTATTATATTATAG-AATAAATTA
94541523 A
1 A
94541524 GAAAAGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTATATTATTATATTATAGAATAAATTA
Found at i:94541928 original size:21 final size:20
Alignment explanation
Indices: 94541891--94541932 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
94541881 ATTTATTTAC
94541891 TTATTATTTAAGAAATAATAA
1 TTATTATTTAAGAAAT-ATAA
*
94541912 TTATTA-TTAAGTTAATATAA
1 TTATTATTTAAG-AAATATAA
94541932 T
1 T
94541933 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTATTATTTAAGAAATATAA
Found at i:94542654 original size:18 final size:18
Alignment explanation
Indices: 94542628--94542666 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
94542618 ACATTTAAAT
94542628 TGTTATTATTATTATATG
1 TGTTATTATTATTATATG
*
94542646 TGTTTTTATTATTATATG
1 TGTTATTATTATTATATG
94542664 TGT
1 TGT
94542667 ATGGAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (18 bp):
TGTTATTATTATTATATG
Found at i:94548555 original size:41 final size:43
Alignment explanation
Indices: 94548480--94548687 Score: 156
Period size: 44 Copynumber: 4.8 Consensus size: 43
94548470 TTTTATCAAA
* ** *
94548480 CCACCGGCATTTAGCCTACTAGGTTTTAAACCCGAAT-TCA-T
1 CCACCGGCATTTAGCCTACTAGGCTCGAAGCCCGAATATCATT
* *
94548521 CCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCG-ATATCATT
1 CCACCGGCATTTAGCCTACTAGGCTCGAAGCCCGAATATCATT
* * * * **
94548563 TCACCGACATTATAGCCTTCTAGGCTCGAAGCTCGAATAGGA-T
1 CCACCGGCATT-TAGCCTACTAGGCTCGAAGCCCGAATATCATT
* *
94548606 CTCACCGGCATTATAGCCTATTAGGCTCAAAGGCCCG-ATATCATT
1 C-CACCGGCATT-TAGCCTACTAGGCTCGAA-GCCCGAATATCATT
* * * * *
94548651 TCACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 CCACCGGCATT-TAGCCTACTAGGCTCGAA-GCCCGA
94548688 TTAGTACCGT
Statistics
Matches: 133, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 31 0.23
42 10 0.08
43 21 0.16
44 64 0.48
45 5 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
CCACCGGCATTTAGCCTACTAGGCTCGAAGCCCGAATATCATT
Found at i:94548620 original size:44 final size:43
Alignment explanation
Indices: 94548522--94548688 Score: 183
Period size: 44 Copynumber: 3.8 Consensus size: 43
94548512 CGAATTCATC
*
94548522 CACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATTT
* * * ** *
94548564 CACCGACATTATAGCCTTCTAGGCTCGAAGCTCGAATAGGATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCATTT
** *
94548608 CACCGGCATTATAGCCTATTAGGCTCAAAGGCCCGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGATATCATTT
* * *
94548652 CACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAT
1 CACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGAT
94548689 TAGTACCGTA
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 9 0.09
43 20 0.19
44 70 0.68
45 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATTT
Found at i:94550796 original size:29 final size:29
Alignment explanation
Indices: 94550754--94550854 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
94550744 CATGAAATTG
94550754 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
94550783 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * * *
94550812 GCACTAAGTGTCCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
94550840 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
94550855 ACTTACTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 18 0.29
29 45 0.71
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:94558588 original size:29 final size:29
Alignment explanation
Indices: 94558546--94558645 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
94558536 ATGAAATTGA
94558546 CACTAAGTGTGCGGGTTCAAATTGTATAG
1 CACTAAGTGTGCGGGTTCAAATTGTATAG
*
94558575 CACTAAGTGTGCGGGTTCAAGTTGTATAG
1 CACTAAGTGTGCGGGTTCAAATTGTATAG
* * * *
94558604 CACTAAGTGTGCGAGTTC-GATTATATAA
1 CACTAAGTGTGCGGGTTCAAATTGTATAG
94558632 CACTAAGTGTGCGG
1 CACTAAGTGTGCGG
94558646 ACTTACTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.30
29 45 0.70
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (29 bp):
CACTAAGTGTGCGGGTTCAAATTGTATAG
Found at i:94561331 original size:85 final size:85
Alignment explanation
Indices: 94561227--94561405 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
94561217 GGCCGGCCAT
94561227 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
94561292 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
94561312 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
94561377 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
94561397 GGGCATGGG
1 GAGCATGGG
94561406 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:94562725 original size:47 final size:47
Alignment explanation
Indices: 94562671--94563218 Score: 782
Period size: 47 Copynumber: 11.6 Consensus size: 47
94562661 TATTTGAATA
* * *
94562671 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94562718 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94562765 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
94562814 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
94562861 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94562910 AATGTGAACA-TGTGTCTGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94562957 AATGTGAACA-TGCATATATGAGATAAGGCCAAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94563004 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94563051 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94563098 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
94563145 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94563192 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
94563219 TCCCGAAGGG
Statistics
Matches: 469, Mismatches: 26, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 375 0.80
49 92 0.20
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:94562781 original size:94 final size:94
Alignment explanation
Indices: 94562671--94563950 Score: 816
Period size: 94 Copynumber: 13.8 Consensus size: 94
94562661 TATTTGAATA
* * *
94562671 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA-AGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATAT
* *
94562735 ATGTGATAAGGCCTAATGGCCGATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94562765 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTAT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTAT
94562829 ATATGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94562861 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTC
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATA
*
94562926 TGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
94562957 AATGTGAACA-TGCATATATGAGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGTGTAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
*
94563021 GTGTGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94563051 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
*
94563115 ATGAGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94563145 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTGTATAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGTATAT
* *
94563209 ATGTGATAAGTCCCGAA-GGGCAAT-TG-TG
65 ATGTGATAAG-GCCGAATGGCCAATGTGATG
* * * **** * * ** * ** * * * * *
94563237 TCA-GT---ACTATATCCGGGTTAAAACCCCGCA-GGCTTTATGCGA-GAATATTATCCTG-AT-
1 -AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC-CAATGTGATGAATGTGAACATGTATA
94563294 TAATGTCCG-T-AGGCTTCG--T-G-C--TCGT-ACT-
64 T-ATGT--GATAAGGC--CGAATGGCCAAT-GTGA-TG
** * * * * * * ** * * * *
94563322 ATATCCG--AGCTTTAAAGACGCG--ACGGCTAAAT-G-CTA-G-GATTCAA-GTAAGACTTTGA
1 A-ATGTGAAAG-TGTATATATGTGATAAGGCCGAATGGCCAATGTGA-TGAATGTGA-AC-ATG-
* * * **
94563378 TATTGAGTATCTGCATTAAGTTACC--AT--CAAATAAG-TG
60 TA-T-A-TATGTG-A-TAAG--GCCGAATGGCCAATGTGATG
* * * * * ** * * ** *
94563415 TATAT--ATGTG-ATA-A-G-GCCTAATAGCCG-ATGTGATGAATGTGA-AAGTGTATATATGTG
1 AATGTGAAAGTGTATATATGTG-ATAA-GGCCGAATG-G-CCAATGTGATGAATGTGAACATGT-
* **
94563472 ATA-A-G-GCCTAATGGCCG-ATGTGATGAATGTGA--
61 ATATATGTG-ATAA-GGCCGAATG-G-CCAATGTGATG
* * *
94563504 AA-GT----GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATAT
*
94563563 ATGTGATAAGGCCGAATGACCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94563593 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATA
* * *
94563658 TGTGTGATAAGGCTGAATGGCTAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94563689 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
94563753 GTGTGATAAGGCTGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
*
94563783 AATGTGAACATGTGTAT-T-TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
1 AATGTGAA-A-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATA
*
94563846 TATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94563877 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTGTATAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGTATAT
94563941 ATGTGATAAG
65 ATGTGATAAG
94563951 TCCCGAAGGG
Statistics
Matches: 945, Mismatches: 147, Indels: 188
0.74 0.11 0.15
Matches are distributed among these distances:
82 2 0.00
83 4 0.00
84 5 0.01
85 7 0.01
86 14 0.01
87 35 0.04
88 39 0.04
89 39 0.04
90 16 0.02
91 6 0.01
92 21 0.02
93 9 0.01
94 462 0.49
95 16 0.02
96 266 0.28
97 4 0.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:94562908 original size:22 final size:22
Alignment explanation
Indices: 94562880--94562955 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
94562870 GTGTATATAT
94562880 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
94562902 ATGTGATGAATG-TGAACATGTGTCT
1 ATGTGAT-AAGGCCG-A-ATG-GCCA
*
94562927 GTGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
94562949 ATGTGAT
1 ATGTGAT
94562956 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.41
23 7 0.18
24 7 0.18
25 9 0.23
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:94563096 original size:22 final size:22
Alignment explanation
Indices: 94563069--94563190 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
94563059 CATGTGTATG
94563069 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
94563091 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
94563116 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
94563138 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
94563163 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
94563185 TGTGAT
1 TGTGAT
94563191 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:94563464 original size:47 final size:47
Alignment explanation
Indices: 94563410--94563950 Score: 743
Period size: 47 Copynumber: 11.4 Consensus size: 47
94563400 ACCATCAAAT
* * *
94563410 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
94563457 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
94563504 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
94563553 AAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
94563600 AAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
94563649 ACA-TGTGTATGTGTGATAAGGCTGAATGGCTAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
94563696 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
94563743 ACA-TGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
94563790 ACATGTGTAT-T-TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-A-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
94563837 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
94563884 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
94563931 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
94563951 TCCCGAAGGG
Statistics
Matches: 455, Mismatches: 29, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
45 4 0.01
46 2 0.00
47 351 0.77
48 1 0.00
49 96 0.21
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:94563591 original size:22 final size:22
Alignment explanation
Indices: 94563563--94563640 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
94563553 AAGTGTATAT
94563563 ATGTGATAAGGCCGAATGACCA
1 ATGTGATAAGGCCGAATGACCA
* * **
94563585 ATGTGATGAATG-TGAAAGTGTATATA
1 ATGTGAT-AAGGCCG-AA-TG-A-CCA
94563611 TATGTGATAAGGCCGAATGACCA
1 -ATGTGATAAGGCCGAATGACCA
94563634 ATGTGAT
1 ATGTGAT
94563641 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
22 15 0.37
23 6 0.15
24 3 0.07
25 3 0.07
26 6 0.15
27 8 0.20
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGACCA
Found at i:94563758 original size:25 final size:25
Alignment explanation
Indices: 94563728--94563806 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
94563718 CGAATGGCCA
94563728 ATGTGATGAATGTGAACATGTGTAT
1 ATGTGATGAATGTGAACATGTGTAT
* * *
94563753 GTGTGAT-AAGGCTG-A-ATG-GCCA-
1 ATGTGATGAATG-TGAACATGTG-TAT
94563775 ATGTGATGAATGTGAACATGTGTAT
1 ATGTGATGAATGTGAACATGTGTAT
*
94563800 TTGTGAT
1 ATGTGAT
94563807 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.29, C:0.06, G:0.30, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGTGTAT
Found at i:94563828 original size:22 final size:22
Alignment explanation
Indices: 94563801--94563922 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
94563791 CATGTGTATT
94563801 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
94563823 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
94563848 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
94563870 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
94563895 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
94563917 TGTGAT
1 TGTGAT
94563923 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:94564081 original size:732 final size:732
Alignment explanation
Indices: 94562678--94564145 Score: 2864
Period size: 732 Copynumber: 2.0 Consensus size: 732
94562668 ATAAATGTGA
94562678 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
94562743 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
*
94562808 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
131 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG
* *
94562873 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTCTGTGTGATAAGG
196 TATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGG
94562938 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCAATGTGAT
261 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCAATGTGAT
94563003 GAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
326 GAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
94563068 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
391 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
94563133 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
456 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
94563198 GAAGTGTATAAATGTGATAAGTCCCGAAGGGCAATTGTGTCAGTACTATATCCGGGTTAAAACCC
521 GAAGTGTATAAATGTGATAAGTCCCGAAGGGCAATTGTGTCAGTACTATATCCGGGTTAAAACCC
94563263 CGCAGGCTTTATGCGAGAATATTATCCTGATTAATGTCCGTAGGCTTCGTGCTCGTACTATATCC
586 CGCAGGCTTTATGCGAGAATATTATCCTGATTAATGTCCGTAGGCTTCGTGCTCGTACTATATCC
94563328 GAGCTTTAAAGACGCGACGGCTAAATGCTAGGATTCAAGTAAGACTTTGATATTGAGTATCTGCA
651 GAGCTTTAAAGACGCGACGGCTAAATGCTAGGATTCAAGTAAGACTTTGATATTGAGTATCTGCA
94563393 TTAAGTTACCATCAAAT
716 TTAAGTTACCATCAAAT
94563410 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
94563475 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
94563540 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG
131 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG
94563605 TATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGG
196 TATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGG
* * *
94563670 CTGAATGGCTAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGAT
261 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCAATGTGAT
*
94563735 GAATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGTGTAT
326 GAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
*
94563800 TTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
391 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
94563865 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
456 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
94563930 GAAGTGTATAAATGTGATAAGTCCCGAAGGGCAATTGTGTCAGTACTATATCCGGGTTAAAACCC
521 GAAGTGTATAAATGTGATAAGTCCCGAAGGGCAATTGTGTCAGTACTATATCCGGGTTAAAACCC
94563995 CGCAGGCTTTATGCGAGAATATTATCCTGATTAATGTCCGTAGGCTTCGTGCTCGTACTATATCC
586 CGCAGGCTTTATGCGAGAATATTATCCTGATTAATGTCCGTAGGCTTCGTGCTCGTACTATATCC
94564060 GAGCTTTAAAGACGCGACGGCTAAATGCTAGGATTCAAGTAAGACTTTGATATTGAGTATCTGCA
651 GAGCTTTAAAGACGCGACGGCTAAATGCTAGGATTCAAGTAAGACTTTGATATTGAGTATCTGCA
94564125 TTAAGTTACCATCAAAT
716 TTAAGTTACCATCAAAT
94564142 AAGT
1 AAGT
94564146 ATTATGTATT
Statistics
Matches: 728, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
732 728 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (732 bp):
AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG
TATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCAATGTGAT
GAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
GAAGTGTATAAATGTGATAAGTCCCGAAGGGCAATTGTGTCAGTACTATATCCGGGTTAAAACCC
CGCAGGCTTTATGCGAGAATATTATCCTGATTAATGTCCGTAGGCTTCGTGCTCGTACTATATCC
GAGCTTTAAAGACGCGACGGCTAAATGCTAGGATTCAAGTAAGACTTTGATATTGAGTATCTGCA
TTAAGTTACCATCAAAT
Found at i:94568431 original size:38 final size:38
Alignment explanation
Indices: 94568380--94568456 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
94568370 TAAAACTAGG
94568380 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
1 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
*
94568418 TCCCTATACATGCCACTCACTTGATGTTTCTAACTTTA
1 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
94568456 T
1 T
94568457 AAATACTCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.40
Consensus pattern (38 bp):
TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
Found at i:94569540 original size:50 final size:50
Alignment explanation
Indices: 94569458--94569798 Score: 349
Period size: 50 Copynumber: 6.8 Consensus size: 50
94569448 CGAAGCTCTT
* * * * * *
94569458 TGGTACGCATAGTAGCTTGCACTTGGTGCTACACATGCGACCTAATAATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* ** *
94569508 TAGTACGCGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * ** * * *
94569558 TGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATC
* * *
94569609 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAAC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * * ** * * *
94569659 TGGTACACGTAGTAGCCTGTACTTAATACTACACACATGATCGAAGCTATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATC
* * * * *
94569710 GGGTATGCATAGTAGCCCGCACTTAGTACTACACATGCGACCTAACAATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* *
94569760 TGGTACACGTAGTAGCCTGTACTTAGTACTACACATGTG
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTG
94569799 TTCTCACAAT
Statistics
Matches: 232, Mismatches: 57, Indels: 4
0.79 0.19 0.01
Matches are distributed among these distances:
50 155 0.67
51 77 0.33
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
Found at i:94569641 original size:101 final size:101
Alignment explanation
Indices: 94569510--94569794 Score: 471
Period size: 101 Copynumber: 2.8 Consensus size: 101
94569500 TAATAATCTA
* ** * *
94569510 GTACGCGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
*
94569575 TGCACTTAGTACTACACACATGATCGAAGCTATCGG
66 TGTACTTAGTACTACACACATGATCGAAGCTATCGG
*
94569611 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
*
94569676 TGTACTTAATACTACACACATGATCGAAGCTATCGG
66 TGTACTTAGTACTACACACATGATCGAAGCTATCGG
* * *
94569712 GTATGCATAGTAGCCCGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
94569777 TGTACTTAGTACTACACA
66 TGTACTTAGTACTACACA
94569795 TGTGTTCTCA
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 171 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (101 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
TGTACTTAGTACTACACACATGATCGAAGCTATCGG
Found at i:94569695 original size:151 final size:151
Alignment explanation
Indices: 94569459--94569798 Score: 403
Period size: 151 Copynumber: 2.3 Consensus size: 151
94569449 GAAGCTCTTT
* * * * * * *
94569459 GGTACGCATAGTAGCTTGCACTTGGTGCTACACATGCGACCTAATAATCTAGTACGCGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACGTAGTAGC
* * * * *
94569524 CTGCACTTAGTACTACACACATGACCTAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACT
66 CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
* * *
94569588 ACACACATGATCGAAGCTATCG
131 ACACACACGACCGAA-CAATCG
*
94569610 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACGTAGTAGC
* * * * **
94569675 CTGTACTTAATACTACACACATGATCGAAGCTATCGGGTATGCATAGTAGCCCGCACTTAGTACT
66 CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
** * *
94569740 ACACATGCGACCTAACAATCT
131 ACACACACGACCGAACAATCG
* * *
94569761 GGTACACGTAGTAGCCTGTACTTAGTACTACACATGTG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTG
94569799 TTCTCACAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
151 121 0.76
152 38 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACGTAGTAGC
CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
ACACACACGACCGAACAATCG
Found at i:94571815 original size:27 final size:27
Alignment explanation
Indices: 94571774--94571875 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
94571764 AACACGCTAG
94571774 GAAAGGAATGCCTTTGTGGCAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
94571801 GAAAGGAATGACTTTGTGACAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
94571828 GGAAGGAATGCCTTTGTGGCAATATAC
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
94571855 GAAATGAATGCCTTCGTGGCA
1 GAAAGGAATGCCTTTGTGGCA
94571876 GACTCTGAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCAATATAT
Found at i:94579241 original size:42 final size:41
Alignment explanation
Indices: 94579194--94579314 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 41
94579184 AATACTGGAT
* *
94579194 ATCTCATACACTAAGTGCCAATACATAGTTGAAGCTATTATA
1 ATCTCACACACTAAGTGCC-ATACATAGCTGAAGCTATTATA
* * **
94579236 ATCTCACACACTAAGTTCCTTACATAGCTGAAGCTATCT-CG
1 ATCTCACACACTAAGTGCCATACATAGCTGAAGCTAT-TATA
* **
94579277 ATCTCGCACACTAAGTGCCATGTATAG-TCGAAGCTATT
1 ATCTCACACACTAAGTGCCATACATAGCT-GAAGCTATT
94579315 CCGAATCGCA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.03
41 46 0.70
42 18 0.27
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (41 bp):
ATCTCACACACTAAGTGCCATACATAGCTGAAGCTATTATA
Found at i:94579333 original size:40 final size:40
Alignment explanation
Indices: 94579242--94579382 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
94579232 TATAATCTCA
* * * * * *
94579242 CACACTAAGTTCCTTACATAGCTGAAGCTATCTCGATCTCG
1 CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGA-ATCG
*
94579283 CACACTAAGTGCCATGTATAGTC-GAAGCTATTC-CGAATCG
1 CACACTAAGTGCCATATATAG-CGGAAGCT-TTCTCGAATCG
* *
94579323 CACACTAAGTGCCAAATATAGCGGAAGCTTTCTTGAATCG
1 CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGAATCG
94579363 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
94579383 TATCCGAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
39 4 0.05
40 53 0.62
41 26 0.30
42 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGAATCG
Found at i:94585385 original size:43 final size:43
Alignment explanation
Indices: 94585336--94585457 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
94585326 AATTACCGAG
* *
94585336 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* *
94585378 ATTGTGATTACGTGTAAGACCATGTCTGAGACATGGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * *
94585422 ATATGATTTCGTGTAAGACCATGTTTGGGACATTGG
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGG
94585458 TATCCATATG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 66 0.96
44 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:94587308 original size:162 final size:162
Alignment explanation
Indices: 94587041--94587363 Score: 592
Period size: 162 Copynumber: 2.0 Consensus size: 162
94587031 GAATGAGGTG
* * *
94587041 TATAATCTGGTAATGCCTCGTAACTCTATTCCAGCGTCAGATACGGGTTAGGGGTGTTACATCTT
1 TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
* * *
94587106 TCACGTTGCCAACACTAGATATCGATGTATCTTGAGCTTTAGGAATGGTGTATTGCTTTCCACGA
66 TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
94587171 TCTCTATTCGAATATCCCGTTGAAGTGATCTC
131 TCTCTATTCGAATATCCCGTTGAAGTGATCTC
94587203 TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
1 TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
94587268 TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
66 TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
94587333 TCTCTATTCGAATATCCCGTTGAAGTGATCT
131 TCTCTATTCGAATATCCCGTTGAAGTGATCT
94587364 GCCGGTTAAA
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (162 bp):
TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
TCTCTATTCGAATATCCCGTTGAAGTGATCTC
Found at i:94591574 original size:24 final size:25
Alignment explanation
Indices: 94591526--94591574 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
94591516 AGACTTGATT
*
94591526 AAATAATAACATTTTTATTACAAAA
1 AAATAATAACATTTTTAATACAAAA
*
94591551 AAATAATAACA-TTTTAATAGAAAA
1 AAATAATAACATTTTTAATACAAAA
94591575 TACAACTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATAATAACATTTTTAATACAAAA
Found at i:94599259 original size:26 final size:26
Alignment explanation
Indices: 94599229--94599282 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
94599219 CCTTCGGGAC
94599229 ATAGCCCGGTTATAGTAACTCGCACA
1 ATAGCCCGGTTATAGTAACTCGCACA
94599255 ATAGCCCGGTTATAGTAACTCGCACA
1 ATAGCCCGGTTATAGTAACTCGCACA
94599281 AT
1 AT
94599283 TGCCTTCGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (26 bp):
ATAGCCCGGTTATAGTAACTCGCACA
Found at i:94599314 original size:40 final size:40
Alignment explanation
Indices: 94599256--94599423 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
94599246 ACTCGCACAA
*
94599256 TAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACT
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
*
94599296 TAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACT
* *
94599335 TAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CT
* * * * *
94599375 TAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACT
1 TAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACT
94599415 TAGCCCGGA
1 TAGCCCGGA
94599424 CATCATTCAA
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.30
40 62 0.56
41 13 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACT
Found at i:94599407 original size:79 final size:80
Alignment explanation
Indices: 94599267--94599423 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
94599257 AGCCCGGTTA
* * *
94599267 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGG
94599332 G-CTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
* ** * *
94599346 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAATGCCTTC
94599409 GGGACTTAGCCCGGA
64 GGGACTTAGCCCGGA
94599424 CATCATTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 45 0.67
80 19 0.28
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGG
GACTTAGCCCGGAAT
Found at i:94607449 original size:40 final size:40
Alignment explanation
Indices: 94607412--94607595 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
94607402 GCTACTCGTT
*
94607412 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
94607452 CAATTGCCTTCGGAACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
94607492 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
94607531 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
94607572 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
94607596 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 71 0.60
41 14 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:94607523 original size:79 final size:79
Alignment explanation
Indices: 94607379--94607596 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
94607369 AAATCACGTA
* ** * *
94607379 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGAACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
*
94607443 TAACTCGCACAATTG
65 TAACTCGCACAAATG
*
94607458 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGAACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
*
94607521 GTATCTCGCACAAATG
64 GTAACTCGCACAAATG
* * * * *
94607537 CCTTCGGATCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
94607597 CATCATTCAA
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
79 70 0.59
80 48 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGT
AACTCGCACAAATG
Found at i:94611040 original size:10 final size:11
Alignment explanation
Indices: 94611011--94611043 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
94611001 CATGATTATG
94611011 CAATGATTCGA
1 CAATGATTCGA
*
94611022 CAGTGATTCGA
1 CAATGATTCGA
94611033 -AATGATTCGA
1 CAATGATTCGA
94611043 C
1 C
94611044 TTGATTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (11 bp):
CAATGATTCGA
Found at i:94611276 original size:47 final size:47
Alignment explanation
Indices: 94611158--94611288 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 47
94611148 GTGCGAGTTA
***
94611158 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTTGGAAAGGAGT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACTCCGGGAAA-GAGT
* *
94611206 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATA-AGT
1 TACCTTGATTTGGCTA-CGGCCATGGTATAGGTACTCCGGGAAAGAGT
94611253 TACCTTGATTTGGCTACGTGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACG-GCCATGGTATAGGTACT
94611289 TATCGATTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.01
47 36 0.49
48 32 0.43
49 5 0.07
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGCCATGGTATAGGTACTCCGGGAAAGAGT
Found at i:94628604 original size:44 final size:43
Alignment explanation
Indices: 94628538--94628622 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 43
94628528 TAAAATTAGA
* ** * *
94628538 ATAACTTTTATTTCATTCTAATTATTTGTAAATATATTATTACC
1 ATAACTTCTATTAAATTATAATTATTT-TAAATATATAATTACC
*
94628582 ATAACTTCTATTAAATTATAATTATTTTAAATGTATAATTA
1 ATAACTTCTATTAAATTATAATTATTTTAAATATATAATTA
94628623 TCACAACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 12 0.34
44 23 0.66
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (43 bp):
ATAACTTCTATTAAATTATAATTATTTTAAATATATAATTACC
Found at i:94628618 original size:17 final size:16
Alignment explanation
Indices: 94628592--94628623 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
94628582 ATAACTTCTA
94628592 TTAAATTATAATTATT
1 TTAAATTATAATTATT
94628608 TTAAATGTATAATTAT
1 TTAAAT-TATAATTAT
94628624 CACAACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:94628768 original size:5 final size:5
Alignment explanation
Indices: 94628758--94628803 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
94628748 AAACTCATGC
*
94628758 TTATA TTATA TTATA ATATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
94628804 ATACAATCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:94632012 original size:24 final size:23
Alignment explanation
Indices: 94631979--94632025 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
94631969 ATAATTTTAA
94631979 TTTTTCTTTTCTTTTAACTTTCC
1 TTTTTCTTTTCTTTTAACTTTCC
*
94632002 TTTTTCTTTTTCTTTTAGCTTTCC
1 TTTTTC-TTTTCTTTTAACTTTCC
94632026 AGAACGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTCTTTTCTTTTAACTTTCC
Found at i:94632768 original size:24 final size:27
Alignment explanation
Indices: 94632732--94632783 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
94632722 TGAAAATTAA
94632732 TTTAAAAATT-AAA-AAATATTATCAT
1 TTTAAAAATTAAAACAAATATTATCAT
*
94632757 TTTAATAA-TAAAATCAAATATTATCAT
1 TTTAAAAATTAAAA-CAAATATTATCAT
94632784 GAGTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 1 0.04
25 10 0.43
27 12 0.52
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAAAAATTAAAACAAATATTATCAT
Found at i:94632930 original size:19 final size:19
Alignment explanation
Indices: 94632906--94632944 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
94632896 TTTCTTCAAT
94632906 ATTGGAGCTGACAATAAGA
1 ATTGGAGCTGACAATAAGA
94632925 ATTGGAGCTGACAATAAGA
1 ATTGGAGCTGACAATAAGA
94632944 A
1 A
94632945 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (19 bp):
ATTGGAGCTGACAATAAGA
Found at i:94659573 original size:44 final size:44
Alignment explanation
Indices: 94659520--94659604 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
94659510 GCATACATGA
94659520 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTCTT
1 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTCTT
94659564 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTT
1 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTT
94659605 TCAAGGATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (44 bp):
ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTCTT
Found at i:94689477 original size:20 final size:19
Alignment explanation
Indices: 94689454--94689495 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
94689444 TAAAGAAAGT
94689454 AAATAC-AATGGAAAGTAATG
1 AAATACAAAT-GAAAGTAA-G
*
94689474 AAATGCAAATGAAAGTAAG
1 AAATACAAATGAAAGTAAG
94689493 AAA
1 AAA
94689496 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATACAAATGAAAGTAAG
Found at i:94691056 original size:37 final size:37
Alignment explanation
Indices: 94690997--94691105 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
94690987 AGCTTAGACG
* * *
94690997 AAATCTCCACACGAAGTTATCGGGTCTTAACCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
94691034 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
94691071 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
94691106 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:94691370 original size:100 final size:96
Alignment explanation
Indices: 94691252--94691437 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 96
94691242 GCACATCACC
*
94691252 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
94691317 TT-GACCATTCGGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCGGCTTTACCACATATGCATATCTCA
*
94691352 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
94691417 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
94691438 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
96 36 0.43
97 1 0.01
100 46 0.55
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:94691378 original size:48 final size:48
Alignment explanation
Indices: 94691252--94691438 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 48
94691242 GCACATCACC
*
94691252 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
94691304 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
94691352 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
94691400 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
94691439 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
48 84 0.66
49 1 0.01
51 1 0.01
52 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:94691487 original size:47 final size:47
Alignment explanation
Indices: 94691408--94691555 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
94691398 CATACATATT
* * * *
94691408 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
94691455 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
94691502 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
94691549 TCACATT
1 TCACATT
94691556 AAAATCCTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:94699617 original size:40 final size:40
Alignment explanation
Indices: 94699379--94699603 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
94699369 TTGAATGATG
* * * *
94699379 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
94699419 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
94699459 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
94699498 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
94699538 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
94699579 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
94699604 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:94699625 original size:119 final size:119
Alignment explanation
Indices: 94699379--94699636 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
94699369 TTGAATGATG
* * *
94699379 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
* **
94699444 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
94699498 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
* * *
94699561 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
94699618 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
94699637 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:94703312 original size:52 final size:50
Alignment explanation
Indices: 94703183--94703314 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
94703173 ATGTGTTTTG
* * ** *
94703183 CATTTAATAAAGTCATGCATCATGTAACTCTTATGTTAGTTAAGTTTGTAT
1 CATTAAATTAAGTCATGCAT-ATGTAACTCCCATGTTAGTTAAGTTTGCAT
* *
94703234 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCA-TATGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
94703285 CATTAAATTAAGTCATGCGATAGGTAACTC
1 CATTAAATTAAGTCATGC-ATATGTAACTC
94703315 ATTTGTTCAT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
50 30 0.45
51 14 0.21
52 22 0.33
53 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (50 bp):
CATTAAATTAAGTCATGCATATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:94705414 original size:35 final size:35
Alignment explanation
Indices: 94705366--94705570 Score: 200
Period size: 35 Copynumber: 5.9 Consensus size: 35
94705356 AGGTAAGTAT
* * *
94705366 ATGTGAGGCTATATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
*
94705401 ATGTGAGGTTATATTGAACTTGTGA-ATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGT-ATATTCGGTTAC
*
94705436 ATGTGAGCTTATATTGAACTTGTATATTCGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
* ** *
94705471 ATGTGAGGTTATATTGAA-TTGGTATATTCAGCCAT
1 ATGTGAGGTTATATTGAACTT-GTATATTCGGTTAC
* * * * *
94705506 ATGAGATGTT-TATTTGAACTTGAACATTAGGTTAC
1 ATGTGAGGTTATA-TTGAACTTGTATATTCGGTTAC
* * * *
94705541 ATGTAATGATATATTGAACTTATATATTCG
1 ATGTGAGGTTATATTGAACTTGTATATTCG
94705571 ACCATATAGG
Statistics
Matches: 137, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
34 5 0.04
35 127 0.93
36 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
Found at i:94706490 original size:23 final size:23
Alignment explanation
Indices: 94706463--94706509 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
94706453 TTGAAATCTC
94706463 TTTCTAATTAAAACCCCTAGTGT
1 TTTCTAATTAAAACCCCTAGTGT
94706486 TTTCTAATTAAAACCCCTAGTGT
1 TTTCTAATTAAAACCCCTAGTGT
94706509 T
1 T
94706510 GCATTAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (23 bp):
TTTCTAATTAAAACCCCTAGTGT
Found at i:94721261 original size:25 final size:26
Alignment explanation
Indices: 94721226--94721294 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 26
94721216 ATTTCTGATT
*
94721226 TTGATGCATATTTT-GAGTTATGCCA
1 TTGATGAATATTTTAGAGTTATGCCA
94721251 TTGATGAATATTTGTGTTTAGAGTTATGCCA
1 TTGATGAATA----T-TTTAGAGTTATGCCA
94721282 TTGATGAATATTT
1 TTGATGAATATTT
94721295 GTGTTTAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
25 9 0.24
26 2 0.05
27 1 0.03
29 1 0.03
30 3 0.08
31 21 0.57
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (26 bp):
TTGATGAATATTTTAGAGTTATGCCA
Found at i:94721278 original size:31 final size:31
Alignment explanation
Indices: 94721240--94721302 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
94721230 TGCATATTTT
94721240 GAGTTATGCCATTGATGAATATTTGTGTTTA
1 GAGTTATGCCATTGATGAATATTTGTGTTTA
94721271 GAGTTATGCCATTGATGAATATTTGTGTTTA
1 GAGTTATGCCATTGATGAATATTTGTGTTTA
94721302 G
1 G
94721303 TGATGTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.44
Consensus pattern (31 bp):
GAGTTATGCCATTGATGAATATTTGTGTTTA
Found at i:94722267 original size:35 final size:35
Alignment explanation
Indices: 94722221--94722426 Score: 174
Period size: 35 Copynumber: 5.9 Consensus size: 35
94722211 AGGTAAGTAT
* * *
94722221 ATGTGAAGTTATATTGAACTTGTATATTTGGCTGC
1 ATGTGAAGTTATATTGAACTTGTATATTCGGTTAC
* * *
94722256 ATGTGAGGTTATATTGAACTAGTGA-ATTCGATTAC
1 ATGTGAAGTTATATTGAACTTGT-ATATTCGGTTAC
*
94722291 ATGTG-AGCTTATATTGAACTTGTATATTCAGTTAC
1 ATGTGAAG-TTATATTGAACTTGTATATTCGGTTAC
*
94722326 ATGTGAAGTTATATTGAA-TTGGTATATTCGG--CC
1 ATGTGAAGTTATATTGAACTT-GTATATTCGGTTAC
* * * *
94722359 ATCTGAGATGTT-TATTTGAACTTGAACATTAGGTTAC
1 ATGTGA-A-GTTATA-TTGAACTTGTATATTCGGTTAC
* *
94722396 ATGT-AATGATATATTGAACTTATATATTCGG
1 ATGTGAA-GTTATATTGAACTTGTATATTCGG
94722427 CCATATGAAA
Statistics
Matches: 136, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
33 6 0.04
34 7 0.05
35 111 0.82
36 8 0.06
37 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
ATGTGAAGTTATATTGAACTTGTATATTCGGTTAC
Found at i:94723207 original size:19 final size:19
Alignment explanation
Indices: 94723185--94723224 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
94723175 CTGGACAGGA
*
94723185 GCGTGTGCAAGGGACACGG
1 GCGTGTGCAAGGCACACGG
94723204 GCGTGTGCAAGGCACACGG
1 GCGTGTGCAAGGCACACGG
94723223 GC
1 GC
94723225 TGGACACACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.45, T:0.10
Consensus pattern (19 bp):
GCGTGTGCAAGGCACACGG
Found at i:94723499 original size:18 final size:18
Alignment explanation
Indices: 94723476--94723516 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
94723466 GAATGCATGA
94723476 AAGTTTTAAATTGTATGC
1 AAGTTTTAAATTGTATGC
94723494 AAGTTTTAAATTGTATGC
1 AAGTTTTAAATTGTATGC
94723512 AAGTT
1 AAGTT
94723517 ATTGTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (18 bp):
AAGTTTTAAATTGTATGC
Found at i:94725443 original size:29 final size:29
Alignment explanation
Indices: 94725406--94725486 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
94725396 CACCTTGACA
* *
94725406 CGAATTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAACGAACAAGTTCTTCATCG
* * *
94725435 CGAACTCTCAACGAACGAGTTCTTTATTG
1 CGAACTCTCAACGAACAAGTTCTTCATCG
94725464 CGAACTCTCAACGAACAAGTTCT
1 CGAACTCTCAACGAACAAGTTCT
94725487 CCACCTCTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTTCATCG
Found at i:94736365 original size:50 final size:49
Alignment explanation
Indices: 94736250--94736480 Score: 257
Period size: 50 Copynumber: 4.7 Consensus size: 49
94736240 CTGGTATGCA
* *
94736250 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
94736299 TAGTAGTCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
94736349 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* ** * * *
94736400 TAGTAGTCTGTACTTAGTAC-ACACATGCGGCCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
94736448 TAGTAGCCTACACTTAGTACTACACACATGACC
1 TAGTAGCCTACACTTAGTACTACACACGTGACC
94736481 TCACGATAGA
Statistics
Matches: 145, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
48 28 0.19
49 41 0.28
50 50 0.34
51 26 0.18
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:94736446 original size:99 final size:99
Alignment explanation
Indices: 94736250--94736474 Score: 274
Period size: 99 Copynumber: 2.3 Consensus size: 99
94736240 CTGGTATGCA
* *
94736250 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTCTACACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGTCTACACTTA
* *
94736315 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* * * * * **
94736349 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGTCTGTACT
1 TAGTAGCCTACACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGTCTACACT
* * ** *
94736414 TAGTAC-ACACATGCGGCC-AATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCGATACACG
94736448 TAGTAGCCTACACTTAGTACTACACAC
1 TAGTAGCCTACACTTAGTACTACACAC
94736475 ATGACCTCAC
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 66 0.62
100 12 0.11
101 29 0.27
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGTCTACACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:94739202 original size:16 final size:17
Alignment explanation
Indices: 94739169--94739214 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 17
94739159 TATCATTACT
*
94739169 AATT-TAAAATTTTATA
1 AATTATAAAAATTTATA
94739185 AATTATAAAAATTT-TA
1 AATTATAAAAATTTATA
94739201 AA-T-TAAAAATTTAT
1 AATTATAAAAATTTAT
94739215 CATTTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 9 0.33
15 2 0.07
16 8 0.30
17 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTATAAAAATTTATA
Found at i:94748945 original size:21 final size:21
Alignment explanation
Indices: 94748921--94748960 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94748911 GCCTAAAATG
*
94748921 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
94748942 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
94748961 CTAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:94788663 original size:30 final size:30
Alignment explanation
Indices: 94788627--94788689 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
94788617 GCTTTGTCCT
94788627 CATGACTTGCCACTAATAGTTATTCAGTGA
1 CATGACTTGCCACTAATAGTTATTCAGTGA
*
94788657 CATGACTTGCCACTGATAGTTATTCAGTGA
1 CATGACTTGCCACTAATAGTTATTCAGTGA
94788687 CAT
1 CAT
94788690 CTCCTCTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (30 bp):
CATGACTTGCCACTAATAGTTATTCAGTGA
Found at i:94795019 original size:13 final size:13
Alignment explanation
Indices: 94795001--94795028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94794991 CTAAGCCATC
94795001 TCACACGGGCATG
1 TCACACGGGCATG
94795014 TCACACGGGCATG
1 TCACACGGGCATG
94795027 TC
1 TC
94795029 CCTGTCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (13 bp):
TCACACGGGCATG
Found at i:94801908 original size:34 final size:34
Alignment explanation
Indices: 94801865--94801932 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
94801855 TAAATTAGAC
94801865 AATGGTTGGGTTACTTAGACCTCCAAAACTTTAT
1 AATGGTTGGGTTACTTAGACCTCCAAAACTTTAT
94801899 AATGGTTGGGTTACTTAGACCTCCAAAACTTTAT
1 AATGGTTGGGTTACTTAGACCTCCAAAACTTTAT
94801933 GTCATACATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (34 bp):
AATGGTTGGGTTACTTAGACCTCCAAAACTTTAT
Found at i:94805304 original size:27 final size:27
Alignment explanation
Indices: 94805274--94805715 Score: 475
Period size: 27 Copynumber: 16.4 Consensus size: 27
94805264 ATTACCAAAG
* *
94805274 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
94805301 TACCCTCAATTTTA-A-AATTACCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
** *
94805327 TACCCTCGATTTTTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
94805354 TACCCTCGATTTACAGAATTAACGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
94805381 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
**
94805408 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
94805435 TACCCTC-AGCTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
94805462 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * **
94805489 TACCCTCGATTTGTAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
94805516 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
94805543 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
94805570 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
94805597 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
94805624 CACCCTTGATTTACAGAATTACTAG-TT
1 TACCCTCGATTTACAGAATTAC-CGTTT
* *
94805651 TACCCTC-AGTTTACAAAATTATCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
94805678 TACCCTCGATTTAGAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
94805705 TACCCTTGATT
1 TACCCTCGATT
94805716 GTGAAATTAC
Statistics
Matches: 357, Mismatches: 45, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
25 3 0.01
26 24 0.07
27 321 0.90
28 9 0.03
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:94805469 original size:108 final size:108
Alignment explanation
Indices: 94805274--94805727 Score: 555
Period size: 108 Copynumber: 4.2 Consensus size: 108
94805264 ATTACCAAAG
* * ** * **
94805274 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTTA-A-AATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTGTAAAATTACTGTTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTC-A-
* * *
94805337 TTTTA-A-AATTACCGTTTTACCCTCGATTTACAGAATTAACGTTT
63 GTTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
*
94805381 TACCCTC-AGTT-TACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
1 TACCCTCGATTTGTA-A-AATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
* *
94805444 CTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTT
64 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
94805489 TACCCTCGATTTGTAAAATTACTATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAGTT
1 TACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTT
*
94805554 TACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
66 TACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
94805597 TACCCTCGATTTGTAAAATTACCGTTTCACCCTTGATTTACAGAATTACTAGTTTACCCTCAGTT
1 TACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTT
* * *
94805662 TACAAAATTA-TCGTTTTACCCTCGATTTAGAGAATTATCGTTT
66 TACAGAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTT
* *
94805705 TACCCTTGA-TTGTGAAATTACTG
1 TACCCTCGATTTGTAAAATTACTG
94805728 AAATACCCCT
Statistics
Matches: 303, Mismatches: 35, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
105 2 0.01
106 10 0.03
107 40 0.13
108 245 0.81
109 4 0.01
110 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (108 bp):
TACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTT
TACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:94805907 original size:27 final size:27
Alignment explanation
Indices: 94805720--94805896 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
94805710 TTGATTGTGA
*
94805720 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94805747 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
94805774 AATTACTGAAATACCCTTCTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
94805801 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94805828 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
94805855 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
94805882 AATTACCGAGATACC
1 AATTACCGAAATACC
94805897 TTTATGGGGT
Statistics
Matches: 131, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:94806152 original size:27 final size:26
Alignment explanation
Indices: 94806114--94806196 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
94806104 AGGAGGAAGC
*
94806114 GTTCTGGTGGCTATGCCGCAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
94806141 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
94806167 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
94806194 GTT
1 GTT
94806197 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:94806316 original size:22 final size:22
Alignment explanation
Indices: 94806284--94806342 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
94806274 CCCGTTATTA
*
94806284 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
94806306 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
94806328 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
94806343 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:94806529 original size:27 final size:27
Alignment explanation
Indices: 94806499--94806580 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
94806489 TATTCTGTTA
* *
94806499 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
94806526 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
94806553 GGTGACTCTGTCACGATATCTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
94806579 GG
1 GG
94806581 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 43 0.88
28 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:94806734 original size:6 final size:6
Alignment explanation
Indices: 94806723--94806854 Score: 121
Period size: 6 Copynumber: 21.8 Consensus size: 6
94806713 ATGTCACCTA
94806723 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
94806771 ATTCTG -TCACCTA ATTCTG ATCCTG ATTCTA ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
94806820 ATTCTG ATTCTG -TTACTG ATTTTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
94806855 CATTTTGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.08
6 86 0.83
7 7 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:94806797 original size:61 final size:61
Alignment explanation
Indices: 94806698--94806831 Score: 198
Period size: 61 Copynumber: 2.2 Consensus size: 61
94806688 TTGCATTCAC
* * **
94806698 ATTCTGATTCTGATTATGTCACCTAATTCTGATTCTGATTCTGATTCTGATT-CTGTTACTG
1 ATTCTGATTCTGATTATGTCACCTAATTCTGATCCTGATTCTAATTCTG-TTACTAATACTG
* *
94806759 ATTCTGATTCTGATTCTGTCACCTAATTCTGATCCTGATTCTAATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTATGTCACCTAATTCTGATCCTGATTCTAATTCTGTTACTAATACTG
94806820 ATTCTGATTCTG
1 ATTCTGATTCTG
94806832 TTACTGATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 2 0.03
61 64 0.97
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (61 bp):
ATTCTGATTCTGATTATGTCACCTAATTCTGATCCTGATTCTAATTCTGTTACTAATACTG
Found at i:94806859 original size:18 final size:18
Alignment explanation
Indices: 94806824--94806861 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
94806814 ATATTGATTC
*
94806824 TGATTCTGTTACTGATTT
1 TGATTCTGTTACTCATTT
94806842 TGATTCTGATT-CTCATTT
1 TGATTCTG-TTACTCATTT
94806860 TG
1 TG
94806862 GTTCCAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (18 bp):
TGATTCTGTTACTCATTT
Found at i:94808874 original size:26 final size:26
Alignment explanation
Indices: 94808845--94808912 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 26
94808835 TACTGAAATG
*
94808845 CCCTCGACTTGTAAATTACCAAAGTA
1 CCCTCGATTTGTAAATTACCAAAGTA
* ***
94808871 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTGTA-AATTACCAAAGTA
94808898 CCCTCGATTTGTAAA
1 CCCTCGATTTGTAAA
94808913 ATTATCGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (26 bp):
CCCTCGATTTGTAAATTACCAAAGTA
Found at i:94808891 original size:27 final size:27
Alignment explanation
Indices: 94808869--94809338 Score: 534
Period size: 27 Copynumber: 17.4 Consensus size: 27
94808859 ATTACCAAAG
*
94808869 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
94808896 TACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
94808923 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * * **
94808950 TACTCTTGATTTTTAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
94808977 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
94809004 TACCCTC-AGTTTACAGAATTACCGTTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
* *
94809031 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
94809058 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
94809085 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
** *
94809112 TACCCTCGATTTGGAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
94809139 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
94809166 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
* * *
94809193 TACCCTCGATTTACAGAATTGCTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
94809220 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
94809247 TACCCTTGATTTACAGAATTACTAG-TT
1 TACCCTCGATTTATAGAATTAC-CGTTT
* * * *
94809274 TACCTTC-AGTTTACAAAATTATCGTTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
94809301 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
94809328 TACCCTTGATT
1 TACCCTCGATT
94809339 GTGAAATTAC
Statistics
Matches: 379, Mismatches: 56, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.01
27 371 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:94809049 original size:108 final size:107
Alignment explanation
Indices: 94808869--94809348 Score: 594
Period size: 108 Copynumber: 4.5 Consensus size: 107
94808859 ATTACCAAAG
* * *
94808869 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTGTAAAATTACCGTTTTACCCTCGATT
* * *
94808934 TATAGAATTATCGTTTTACTCTTGATTTTTAAAATTACTATTT
66 TACAGAATTATCGTTTTAC-CTTCATTTATAAAATTACTATTT
*
94808977 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACCGTTTTACCCTCGA
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTGTA-A-AATTACCGTTTTACCCTCGA
* *
94809040 TTTACAGAATTA-CTGTTTTACCCTCAATTTATAGAATTACTATTT
64 TTTACAGAATTATC-GTTTTACCTTC-ATTTATAAAATTACTATTT
* * *
94809085 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGGAAAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTGTAAAATTACCGTTTTACCCTCGATT
* * * * *
94809150 TACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTT
66 TACAGAATTATCGTTTTACCTTCA-TTTATAAAATTACTATTT
* * * * *
94809193 TACCCTCGATTTACAGAATTGCTGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTGTAAAATTACCGTTTTACCCTCGATT
* * *
94809258 TACAGAATTACTAG-TTTACCTTCAGTTTACAAAATTA-TCGTTT
66 TACAGAATTA-TCGTTTTACCTTCA-TTTATAAAATTACT-ATTT
* *
94809301 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGA-TTGTGAAATTAC
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTGTAAAATTAC
94809349 TGAAATACCC
Statistics
Matches: 332, Mismatches: 30, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
106 2 0.01
107 20 0.06
108 303 0.91
109 6 0.02
110 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (107 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTGTAAAATTACCGTTTTACCCTCGATT
TACAGAATTATCGTTTTACCTTCATTTATAAAATTACTATTT
Found at i:94809373 original size:27 final size:27
Alignment explanation
Indices: 94809343--94809538 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
94809333 TTGATTGTGA
*
94809343 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94809370 AATTTCCGAAATACCTCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
94809397 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
94809424 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
94809451 AATTATCGAAATACCCTTGTAGGGTAAA
1 AATTACCGAAATACCCCTGTAGGGT-AG
94809479 AATT-CCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
94809505 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
94809532 AATTACC
1 AATTACC
94809539 ATTTTGCCCT
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
26 5 0.04
27 131 0.93
28 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:94809774 original size:27 final size:26
Alignment explanation
Indices: 94809736--94809818 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
94809726 CGGAGGAAGC
*
94809736 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
94809763 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
94809789 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
94809816 GTT
1 GTT
94809819 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:94810151 original size:27 final size:27
Alignment explanation
Indices: 94810121--94810202 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
94810111 TATTCTGTTA
* *
94810121 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
94810148 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * **
94810175 GGTGACTCTGTCATGATATCTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
94810201 GG
1 GG
94810203 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.10
27 42 0.88
28 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:94810329 original size:6 final size:6
Alignment explanation
Indices: 94810320--94810476 Score: 110
Period size: 6 Copynumber: 25.8 Consensus size: 6
94810310 TTGCATTCAC
* *
94810320 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
94810369 ATTCTG -TTACTG ATTTTG ATTCTG ATTCCG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * * *
94810418 ATTCTA ATTTTG -TTACTA ATAT-TG ATTCTG ATTCTG -TTACTG ATTTTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG
94810466 ATTCTG ATTCT
1 ATTCTG ATTCT
94810477 CATTTTGGTT
Statistics
Matches: 117, Mismatches: 20, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
5 9 0.08
6 97 0.83
7 8 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:94810444 original size:61 final size:61
Alignment explanation
Indices: 94810320--94810453 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
94810310 TTGCATTCAC
* * **
94810320 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCCGTCACCTAATTCTGATTCTGATTCTAATTCTGATTCTAATACTG
* * *
94810381 ATTTTGATTCTGATTCCGTCACCTAATTCTGATTCTGATTCTAATTTTG-TTACTAATATTG
1 ATTCTGATTCTGATTCCGTCACCTAATTCTGATTCTGATTCTAATTCTGATT-CTAATACTG
94810442 ATTCTGATTCTG
1 ATTCTGATTCTG
94810454 TTACTGATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 2 0.03
61 62 0.97
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (61 bp):
ATTCTGATTCTGATTCCGTCACCTAATTCTGATTCTGATTCTAATTCTGATTCTAATACTG
Found at i:94812876 original size:37 final size:37
Alignment explanation
Indices: 94812826--94812897 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
94812816 CCATAACAAG
*
94812826 TGACAAACAAGCCTATTTATAGCTTTTAGGTGGTCAT
1 TGACAAACAAGCCTATTTATAGCTTTCAGGTGGTCAT
*
94812863 TGACAAACAAGCCTATTTATTGCTTTCAGGTGGTC
1 TGACAAACAAGCCTATTTATAGCTTTCAGGTGGTC
94812898 GTCGTCCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (37 bp):
TGACAAACAAGCCTATTTATAGCTTTCAGGTGGTCAT
Found at i:94814226 original size:24 final size:25
Alignment explanation
Indices: 94814171--94814226 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
94814161 ACAGAAACTA
94814171 GAAATAATTTTGTTTTCTTTTAGGGT
1 GAAA-AATTTTGTTTTCTTTTAGGGT
94814197 GAAAAATTTTGTTTTCTTTTA-GGT
1 GAAAAATTTTGTTTTCTTTTAGGGT
94814221 GAAAAA
1 GAAAAA
94814227 GAAAATTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 9 0.30
25 17 0.57
26 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (25 bp):
GAAAAATTTTGTTTTCTTTTAGGGT
Found at i:94814896 original size:18 final size:18
Alignment explanation
Indices: 94814859--94814897 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
94814849 AATGAATTCA
**
94814859 TTTCATCTCCATTTTTAT
1 TTTCATCTCCATTTCAAT
*
94814877 TTTCATTTCCATTTCAAT
1 TTTCATCTCCATTTCAAT
94814895 TTT
1 TTT
94814898 GAGAAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCATCTCCATTTCAAT
Found at i:94825452 original size:42 final size:42
Alignment explanation
Indices: 94825405--94825568 Score: 222
Period size: 42 Copynumber: 3.9 Consensus size: 42
94825395 GGGATGTGAT
*
94825405 TTCATGTAAGACCATGTCTGGGAAATTGTCATCGATATGAGA
1 TTCATGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGA
* * *
94825447 TTCATGTAAAACCATGTCTGGGAAACTGGCATTGATATGAGA
1 TTCATGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGA
* * *
94825489 TTCGTGTAAGACCATGTCTAGGACATTGGCATCGATATGAGA
1 TTCATGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGA
* **
94825531 TTCGTGTAAGACCATAG-CTGGGCTATTGGCATCGATAT
1 TTCATGTAAGACCAT-GTCTGGGAAATTGGCATCGATAT
94825569 ACTATAACAT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 107 0.99
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TTCATGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGA
Found at i:94832033 original size:25 final size:25
Alignment explanation
Indices: 94832005--94832074 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
94831995 CTCTTTTAAT
*
94832005 AACTGGGGCAAAGCGCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
94832030 AACTGGGGCAAAGCCCTTTACGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
94832055 AACTGAGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
94832075 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:94844789 original size:22 final size:23
Alignment explanation
Indices: 94844764--94844807 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
94844754 ATGGTTCCGA
94844764 ACAAACTA-AAAAGAA-AATAAAC
1 ACAAA-TAGAAAAGAAGAATAAAC
*
94844786 ACAAATAGTAAAGAAGAATAAA
1 ACAAATAGAAAAGAAGAATAAA
94844808 AGGTTACCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 11 0.58
23 6 0.32
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.11
Consensus pattern (23 bp):
ACAAATAGAAAAGAAGAATAAAC
Found at i:94848559 original size:16 final size:16
Alignment explanation
Indices: 94848540--94848570 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94848530 CTTCTTCACT
94848540 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
94848556 TACTTACTTACTTAA
1 TACTCACTTACTTAA
94848571 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:94848576 original size:20 final size:20
Alignment explanation
Indices: 94848537--94848576 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
94848527 AAACTTCTTC
* *
94848537 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
94848557 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
94848577 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:94848912 original size:53 final size:55
Alignment explanation
Indices: 94848822--94848953 Score: 157
Period size: 53 Copynumber: 2.4 Consensus size: 55
94848812 TTACCATTTC
*
94848822 CATGTCTTGACATGGTCTT-CTATGGTATCCTTGCCTTAT-G-AACTCA-CTAATGA
1 CATGTCTTGACATGGTCTTAC-ATGGGATCCTTGCCTTATAGTAACTCATC-AATGA
* * * *
94848875 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTATAGTAACTCATCAATGA
94848930 CATGTCTTGACATGGTCTTACATG
1 CATGTCTTGACATGGTCTTACATG
94848954 ATTTCCTTAC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
52 2 0.03
53 31 0.46
54 2 0.03
55 31 0.46
56 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (55 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATAGTAACTCATCAATGA
Found at i:94849017 original size:55 final size:54
Alignment explanation
Indices: 94848762--94849017 Score: 210
Period size: 55 Copynumber: 4.8 Consensus size: 54
94848752 ACGCGGGTAC
* * *
94848762 CTTACC-ATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* *
94848811 CTTACC-ATTTCCATGTCTTGACATGGTCTT-CTATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTAC-ATGGTATCCTTACCTTA-GAAA
* * ** * * * *
94848864 CTCACTAA-TGACATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TAGAAA
* * * * *
94848919 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
*
94848972 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 -CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTA
94849018 AACCCTAATG
Statistics
Matches: 165, Mismatches: 27, Indels: 24
0.76 0.12 0.11
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
52 4 0.02
53 39 0.24
54 13 0.08
55 68 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
CTTACCAATTTCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
Found at i:94850434 original size:40 final size:40
Alignment explanation
Indices: 94850284--94850526 Score: 207
Period size: 40 Copynumber: 6.1 Consensus size: 40
94850274 TAATTATTGA
* * * *
94850284 TGATTGTACATATGTGCCCCTATTTATATTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
* * ** * * *
94850324 TAATTGCACATACATGCCTATGTTTGTACTTTGATACCCC
1 TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
* * * *
94850364 TGATTGCACATACGTGCCCTTGTTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
* **
94850404 TGATTGCGCATACGTGCCCCTATTTATACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
* * ** * *
94850444 TGAATGCACTTATATGCTCCTATTTATTCTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
* * * * * * *
94850484 TGAATACACTTACGTTCCCCTAATTATACTCTGGTAACCC
1 TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
94850524 TGA
1 TGA
94850527 ATCAAATGTA
Statistics
Matches: 161, Mismatches: 42, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 161 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTATACTTTGGTACCCC
Found at i:94857608 original size:56 final size:55
Alignment explanation
Indices: 94857548--94857679 Score: 201
Period size: 56 Copynumber: 2.4 Consensus size: 55
94857538 TCCTAGACAA
* * **
94857548 GGTCTTACTCACACACATATATTGGTGTCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACAT-TTAAACGT
*
94857604 GGTCTTACTTGCACACATATATCGAAGTCACATATCGATGCCAACATTTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATTTAAACGT
*
94857659 GGTCTTACACGCACACATATA
1 GGTCTTACTCGCACACATATA
94857680 CCGATGCCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 27 0.39
56 42 0.61
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATTTAAACGT
Found at i:94862196 original size:25 final size:25
Alignment explanation
Indices: 94862168--94862237 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
94862158 CTCTTTTAAT
**
94862168 AACTGGGGTGAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
94862193 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
94862218 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
94862238 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:94862462 original size:27 final size:28
Alignment explanation
Indices: 94862399--94862462 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
94862389 CAGTCGCTTG
*
94862399 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
94862427 CCCTC-AGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
94862453 CCCACAAGGG
1 CCCACAAGGG
94862463 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.14
27 21 0.72
28 4 0.14
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:94862472 original size:27 final size:27
Alignment explanation
Indices: 94862442--94862613 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
94862432 AGGGCAAAAT
* *
94862442 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
94862469 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
94862496 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
94862523 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
94862550 GGTATTTTTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
94862577 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
94862604 GAT-ATTTTAC
1 GGTAATTTTAC
94862614 AAATCGAGAG
Statistics
Matches: 120, Mismatches: 25, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 6 0.05
27 114 0.95
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:94862505 original size:54 final size:54
Alignment explanation
Indices: 94862442--94862611 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
94862432 AGGGCAAAAT
* * * * *
94862442 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTC
1 GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* *
94862496 GGTATTTTTACCCTACAAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTC
1 GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
*
94862550 GGTATTTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTC
1 GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
*
94862604 GATATTTT
1 GGTATTTT
94862612 ACAAATCGAG
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (54 bp):
GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
Found at i:94862743 original size:26 final size:27
Alignment explanation
Indices: 94862593--94862799 Score: 197
Period size: 27 Copynumber: 7.7 Consensus size: 27
94862583 TCTACCCTAT
* * *
94862593 AGGGGTATTTCGAT-ATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * * *
94862619 -GAGAGTATTTCGATAATTTCACAAATC
1 AG-GGGTATTTTGGTAATTTTACAAACC
*
94862646 AGGGGTATTTTGGTAATTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
94862673 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
94862700 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
94862727 AGGGGT-TTTTGGTAATTTTACTAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
94862753 -GAGGTTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* **
94862780 AAGGGTATTTCAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
94862800 GTAAATCGAA
Statistics
Matches: 151, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 30 0.20
27 118 0.78
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:94862779 original size:80 final size:81
Alignment explanation
Indices: 94862593--94862799 Score: 235
Period size: 80 Copynumber: 2.6 Consensus size: 81
94862583 TCTACCCTAT
* * * * * *
94862593 AGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTC-GATAATTTCACAAATCAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAG-TAATTTTACAAATCAGGGGTATTT
94862656 TGGTAATTTTACAAGCC
65 TGGTAATTTTACAAGCC
* *
94862673 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CTAGGGGT-TTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATC-AGGGGTATTT
* *
94862736 TGGTAATTTTACTAATCG
65 TGGTAATTTTAC-AAGCC
* **
94862754 A-GGTTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTT
94862800 GTAAATCGAA
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
80 68 0.63
81 39 0.36
82 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTT
GGTAATTTTACAAGCC
Found at i:94862955 original size:54 final size:54
Alignment explanation
Indices: 94862765--94862973 Score: 224
Period size: 54 Copynumber: 3.9 Consensus size: 54
94862755 GGTTATTTTG
* * * * * * * *
94862765 GTAATTTTGTAAACCAAGGGT-ATTTCAGTAATTTTGTAAATCGAAGGTAAAA-C
1 GTAATTCTGTAAATCAAGGGTAAATT-GGTAATTCTATAAATCGAGGGTAAAATA
* **
94862818 GATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 G-TAATTCTGTAAATCAAGGGTAAATTGGTAATTCTATAAATCGAGGGTAAAATA
* *
94862873 GTAATTCTATAAATCGAGGGTAAATTGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAATTGGTAATTCTATAAATCGAGGGTAAAATA
** * * *
94862927 GTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 GTAATTCTGTAAATCAAGGGTAAATTGGTAATTCTATAAATCGAGGG
94862974 CATTTCAGTA
Statistics
Matches: 132, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 129 0.98
55 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAATTGGTAATTCTATAAATCGAGGGTAAAATA
Found at i:94862959 original size:27 final size:27
Alignment explanation
Indices: 94862792--94862948 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
94862782 GGGTATTTCA
* * *
94862792 GTAATTTTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
94862819 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
94862846 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
94862873 GTAATTCTATAAATCGAGGGTAAATTG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
94862900 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
94862927 GTAATTCTGTAAATCAAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
94862949 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:94862973 original size:81 final size:80
Alignment explanation
Indices: 94862765--94862973 Score: 229
Period size: 81 Copynumber: 2.6 Consensus size: 80
94862755 GGTTATTTTG
* * * * *
94862765 GTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAAGGTAAAACGATAATTCTGTA
1 GTAATTCTGTAAATCAAGGGTATTT-AGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATA
*
94862830 AATCGAGGGTAAAACG
65 AATCGAGGGTAAAACA
* * ** * ** *
94862846 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAATTGGTAATTCTATA
1 GTAATTCTGTAAATCAAGGGT-ATTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATA
*
94862911 AATCGAGGGTAAAATA
65 AATCGAGGGTAAAACA
* * *
94862927 GTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 GTAATTCTGTAAATCAAGGGTA-TTTAGTAATTTTATAAATCGAGGG
94862974 CATTTCAGTA
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
80 1 0.01
81 100 0.97
82 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (80 bp):
GTAATTCTGTAAATCAAGGGTATTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAA
ATCGAGGGTAAAACA
Done.