Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 93 of 362
Found at i:29876294 original size:42 final size:41
Alignment explanation
Indices: 29876231--29876384 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 41
29876221 TAAGTCTATG
* *
29876231 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCA
* * *
29876273 TGTAAGACTATATCTGAGATATGGCATCGATATAAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCA
* * * *
29876315 TGTAAGGCCATAACTGGGTTATTGGCACCGATATGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-CA
*
29876358 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
29876385 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
Found at i:29883814 original size:32 final size:31
Alignment explanation
Indices: 29883772--29883831 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
29883762 CCTACAAAGT
*
29883772 AAAAAAAGAAATTTAAA-AAATAAAAATAAAC
1 AAAAAAAGAAA-TAAAAGAAATAAAAATAAAC
29883803 AAAAAATAGAAATAAAAGAAATAAAAATA
1 AAAAAA-AGAAATAAAAGAAATAAAAATA
29883832 TCATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (31 bp):
AAAAAAAGAAATAAAAGAAATAAAAATAAAC
Found at i:29889663 original size:40 final size:40
Alignment explanation
Indices: 29889601--29889784 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
29889591 TATTCGAATG
*
29889601 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
29889641 ATATCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
29889681 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
29889721 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
29889761 ATATACGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
29889785 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:29889734 original size:80 final size:79
Alignment explanation
Indices: 29889601--29889820 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
29889591 TATTCGAATG
* * * * *
29889601 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAG-TCCCGAAGGC
* *
29889665 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
*
29889681 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
*
29889746 TTTATGCTAGTGACC
65 TTTATGCGAGTGACC
* * * * *
29889761 ATATACGGGCTAAGACCCGAAGGCCTTGTGCAAGTGGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAG
29889821 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 88 0.72
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTGACC
Found at i:29895404 original size:13 final size:13
Alignment explanation
Indices: 29895345--29895404 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
29895335 ATTTATTCCC
*
29895345 ATATAACCAATTG
1 ATATAACCATTTG
* *
29895358 ATATAACCATCTC
1 ATATAACCATTTG
* *
29895371 TTGTAACCATTTCG
1 ATATAACCATTT-G
*
29895385 -TACAACCATTTG
1 ATATAACCATTTG
29895397 ATATAACC
1 ATATAACC
29895405 CTTTCATTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
12 1 0.03
13 34 0.97
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (13 bp):
ATATAACCATTTG
Found at i:29895651 original size:26 final size:26
Alignment explanation
Indices: 29895622--29895692 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
29895612 TAACTGTAAT
*
29895622 TGCTCACATGAGCTATGGAATGGGCC
1 TGCTCACATGAGCTGTGGAATGGGCC
** *
29895648 TGCTCACACAAGCTGTGAAATGGGCC
1 TGCTCACATGAGCTGTGGAATGGGCC
*
29895674 TACTCACATGAGCTGTGGA
1 TGCTCACATGAGCTGTGGA
29895693 GAATCCGCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (26 bp):
TGCTCACATGAGCTGTGGAATGGGCC
Found at i:29898697 original size:29 final size:28
Alignment explanation
Indices: 29898665--29898720 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
29898655 TTAATTGAGA
29898665 TTTTTTTAAAAATTTTCTATTTTTTTTAG
1 TTTTTTTAAAAATTTTC-ATTTTTTTTAG
* *
29898694 TTTTTTTTACAATTTTCATTTTTTTTA
1 TTTTTTTAAAAATTTTCATTTTTTTTA
29898721 TAAAAAACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTTTTTAAAAATTTTCATTTTTTTTAG
Found at i:29904456 original size:24 final size:23
Alignment explanation
Indices: 29904388--29904457 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
29904378 TTCGTTTAAC
*
29904388 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTTACGAACA
* * * *
29904411 TTAAACGAGCATCTTTATGAACA
1 TTAATCGAACATGTTTACGAACA
*
29904434 TATAATTGAACATGTTTACGAACA
1 T-TAATCGAACATGTTTACGAACA
29904458 ATGTTAATGA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
TTAATCGAACATGTTTACGAACA
Found at i:29906813 original size:20 final size:20
Alignment explanation
Indices: 29906800--29906980 Score: 247
Period size: 20 Copynumber: 9.1 Consensus size: 20
29906790 GGCTTGATGT
29906800 CGCTACTGATGGCTTTGTGC
1 CGCTACTGATGGCTTTGTGC
*
29906820 CGCTATTGATGGCTTTGTGC
1 CGCTACTGATGGCTTTGTGC
*
29906840 CACTACTGATGGCTTTGTGC
1 CGCTACTGATGGCTTTGTGC
*
29906860 CGCTACTGATGGCTTTGTGT
1 CGCTACTGATGGCTTTGTGC
*
29906880 CGATA-TCGATGGCTTTGTGC
1 CGCTACT-GATGGCTTTGTGC
* *
29906900 CACTACTGATGGCTTTGGGC
1 CGCTACTGATGGCTTTGTGC
* *
29906920 CACTATTGATGGCTTTGTGC
1 CGCTACTGATGGCTTTGTGC
* *
29906940 CGCTACTGACGGCTTCGTGC
1 CGCTACTGATGGCTTTGTGC
*
29906960 CGCTACTCATGGCTTTGTGC
1 CGCTACTGATGGCTTTGTGC
29906980 C
1 C
29906981 ATATACTGAT
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
19 1 0.01
20 138 0.99
21 1 0.01
ACGTcount: A:0.12, C:0.25, G:0.28, T:0.35
Consensus pattern (20 bp):
CGCTACTGATGGCTTTGTGC
Found at i:29907060 original size:26 final size:26
Alignment explanation
Indices: 29906987--29907066 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
29906977 TGCCATATAC
* * *
29906987 TGATACTGGCAACTTTACTGC-ATTAC
1 TGATACTGGCAGCTTTGCTGCGA-TAT
* *
29907013 TGTTACAGGCAGCTTTGCTGCGATAT
1 TGATACTGGCAGCTTTGCTGCGATAT
29907039 TGATACTGGCAGCTTTGCTGCGATAT
1 TGATACTGGCAGCTTTGCTGCGATAT
29907065 TG
1 TG
29907067 GTGTGTTGGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 45 0.98
27 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATACTGGCAGCTTTGCTGCGATAT
Found at i:29907555 original size:17 final size:17
Alignment explanation
Indices: 29907533--29907565 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29907523 CAACCAATGT
29907533 TTTAAAA-GTAATAACAA
1 TTTAAAATG-AATAACAA
29907550 TTTAAAATGAATAACA
1 TTTAAAATGAATAACA
29907566 GATAGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
TTTAAAATGAATAACAA
Found at i:29912581 original size:14 final size:13
Alignment explanation
Indices: 29912546--29912610 Score: 64
Period size: 13 Copynumber: 4.9 Consensus size: 13
29912536 TATAAAAGGA
29912546 TATATG-AATGAGT
1 TATATGAAATGA-T
29912559 TATATGAAATGAT
1 TATATGAAATGAT
29912572 TATATGGAAATAGAT
1 TATAT-GAAAT-GAT
29912587 T-TATGAAATGAAT
1 TATATGAAATG-AT
*
29912600 TCT-TGAAATGA
1 TATATGAAATGA
29912611 AAATGTGAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.04
13 27 0.57
14 14 0.30
15 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:29925748 original size:35 final size:36
Alignment explanation
Indices: 29925702--29925774 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
29925692 AGAAAATCAT
29925702 ATCTCGAGTTATGAAACTC-AAATCAAGATCCGTAA
1 ATCTCGAGTTATGAAACTCAAAATCAAGATCCGTAA
29925737 ATCTCGAGTTATGAAACTCAAAATCAAGATCCGTAA
1 ATCTCGAGTTATGAAACTCAAAATCAAGATCCGTAA
29925773 AT
1 AT
29925775 TTTTCCTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.51
36 18 0.49
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (36 bp):
ATCTCGAGTTATGAAACTCAAAATCAAGATCCGTAA
Found at i:29926786 original size:43 final size:43
Alignment explanation
Indices: 29926725--29926892 Score: 196
Period size: 43 Copynumber: 3.8 Consensus size: 43
29926715 AACCCGCCCC
*
29926725 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGTTCGCATCCA
* *
29926768 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-GCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGTTCG-C-A--TCCA
* * *
29926814 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCG--GTTCGCATCCA
29926860 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
29926893 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 1 0.01
43 34 0.33
44 3 0.03
45 27 0.26
46 6 0.06
47 27 0.26
48 3 0.03
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGTTCGCATCCA
Found at i:29926885 original size:92 final size:90
Alignment explanation
Indices: 29926730--29926896 Score: 298
Period size: 92 Copynumber: 1.8 Consensus size: 90
29926720 GCCCCTAAGT
*
29926730 GAACTCGGACTCAACTCAACGAGCTCGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
1 GAACTCGGACTCAACTCAACGAGCTCGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
29926795 GTTCGGATGCCTAGTTACATCTCAC
66 GTTCGGATGCCTAGTTACATCTCAC
*
29926820 GAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCG--ATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
29926885 GAGTTCGGATGC
64 GAGTTCGGATGC
29926897 TCAACCATCC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
90 26 0.36
92 47 0.64
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (90 bp):
GAACTCGGACTCAACTCAACGAGCTCGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
GTTCGGATGCCTAGTTACATCTCAC
Found at i:29927345 original size:29 final size:29
Alignment explanation
Indices: 29927313--29927368 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
29927303 ATTTAATACG
29927313 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
29927342 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
29927369 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:29975195 original size:47 final size:45
Alignment explanation
Indices: 29975126--29975337 Score: 160
Period size: 47 Copynumber: 4.5 Consensus size: 45
29975116 TTGTGCGTCG
*
29975126 GTGTAAGACATGTCTGGAACATGCTTCGGCCATATTATGAGAGCTA
1 GTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGAGCTA
* * * * *
29975172 GTGTAAGACCATATCTGGGACATGGCATT-GACATCCA-AACGAGGGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GC-TTCGCCAT--ATTATGAGAGCTA
* *
29975220 GTGTAAGACATGTCTAGGG-CATGCATCAGCCATATTATGAGAGCCA
1 GTGTAAGACATGTCT-GGGACATGCTTC-GCCATATTATGAGAGCTA
* ** ** * *
29975266 GTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGATGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCTTCGCCATA-TTATGAGAGCTA
*
29975314 GAGTAAGACATGTCTGGGACATGC
1 GTGTAAGACATGTCTGGGACATGC
29975338 ATCAGCCTCG
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
45 2 0.01
46 30 0.22
47 57 0.43
48 42 0.31
49 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCTTCGCCATATTATGAGAGCTA
Found at i:29975320 original size:94 final size:91
Alignment explanation
Indices: 29975126--29975483 Score: 334
Period size: 94 Copynumber: 3.8 Consensus size: 91
29975116 TTGTGCGTCG
* * * * *
29975126 GTGTAAGACATGTCTGGAACATGCTTCGGCCATATTATGAGAGCTAGTGTAAGACCATATCTGGG
1 GTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGGG
* ** *
29975191 ACATGGCATTGACATCCAA-ACGAGGGCTA
65 ACATGGCATCGGTAT--AAGA-GAGTGCTA
29975220 GTGTAAGACATGTCTAGGG-CATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 GTGTAAGACATGTCT-GGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGG
*
29975284 GACATGGCATCGGTATAGAGATGAGTGCCA
64 GACATGGCATCGGTATA-AGA-GAGTGCTA
* * *
29975314 GAGTAAGACATGTCTGGGACATGCATCAGCC-TCGACA-GAGACAGCCAGTGTAAGA-CGTGTCT
1 GTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATATGAG--AGCCAGTGTAAGACCATGTCT
** * *
29975376 GGGACA-CACATCGGT-TAAGAGTTGTACTA
62 GGGACATGGCATCGGTATAAGAG-AGTGCTA
* *
29975405 GTGTAAGACATGTTTGGGACATGCATCAGCACGCACATATGAGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACATGTCTGGGACATGCATCAG--C-CATATATGAGAGCCAGTGTAAGACCATGTCTG
* *
29975470 AGACATGTCATCGG
63 GGACATGGCATCGG
29975484 CAATATATCC
Statistics
Matches: 221, Mismatches: 27, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
90 1 0.00
91 34 0.15
92 16 0.07
93 29 0.13
94 125 0.57
95 16 0.07
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (91 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCATATATGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGTATAAGAGAGTGCTA
Found at i:29976446 original size:42 final size:41
Alignment explanation
Indices: 29976393--29976506 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 41
29976383 TCCAATATGA
*
29976393 GATTTCGTGTAAGACCACATTTGGGACATCAGCATCG-TATAT
1 GATTTCATGTAAGACCAC-TTTGGGACAT-AGCATCGATATAT
* * *
29976435 GATTTCATGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTT
1 GATTTCATGTAAGACCACT-T-TGGGACA-TAGCATCGATATAT
* *
29976478 GATTACATGTAAGACCATGTTTGGGACAT
1 GATTTCATGTAAGACCA-CTTTGGGACAT
29976507 TGGCATTGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.03
42 28 0.47
43 26 0.44
44 1 0.02
45 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
GATTTCATGTAAGACCACTTTGGGACATAGCATCGATATAT
Found at i:29976492 original size:43 final size:42
Alignment explanation
Indices: 29976424--29976512 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
29976414 TGGGACATCA
* * *
29976424 GCATCGTATATGATTTCATGTAAGACCCTGTCTGGGATAGTG
1 GCATCGTATATGATTACATGTAAGACCATGTCTGGGACAGTG
* * *
29976466 GCATCGATATTTGATTACATGTAAGACCATGTTTGGGACATTG
1 GCATCG-TATATGATTACATGTAAGACCATGTCTGGGACAGTG
29976509 GCAT
1 GCAT
29976513 TGTACGAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
GCATCGTATATGATTACATGTAAGACCATGTCTGGGACAGTG
Found at i:29977707 original size:30 final size:30
Alignment explanation
Indices: 29977671--29977736 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
29977661 ATGGCCAAAG
29977671 CACACGGGCATGGTTGATAACCGTGTGAGT
1 CACACGGGCATGGTTGATAACCGTGTGAGT
*
29977701 CACACGGGCATGTTTGATAACCGTGTGAGT
1 CACACGGGCATGGTTGATAACCGTGTGAGT
29977731 CACACG
1 CACACG
29977737 AGCTATTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (30 bp):
CACACGGGCATGGTTGATAACCGTGTGAGT
Found at i:29982308 original size:150 final size:142
Alignment explanation
Indices: 29982126--29982419 Score: 421
Period size: 150 Copynumber: 2.0 Consensus size: 142
29982116 TGAGTCAATA
*
29982126 TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGTTTAG
1 TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGATTAG
29982191 ATAG-T-TAAGTAAAAAGGACTAATTCGTAAAATCTGCAAAAGTTAGTTTCTATTAGCTATAGGT
66 ATAGTTGTAAGTAAAAAGGACTAATTCGTAAAA---GC------TAGTTTCTATTAGCTA-AGGT
* *
29982254 GTTAAGTGGCTATAGAAATGTG
121 ATTAAATGGCTATAGAAATGTG
* *
29982276 TTTTATTATTTATATAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAAGGATTAG
1 TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGATTAG
29982341 ATAGTTAGGTAAGTAAAAAGGACTAATTCGTAAAAGCTAGTTTCTATTAGCTAAGGTATTAAATG
66 ATAGTT--GTAAGTAAAAAGGACTAATTCGTAAAAGCTAGTTTCTATTAGCTAAGGTATTAAATG
29982406 GCTATAGAAATGTG
129 GCTATAGAAATGTG
29982420 GGTTGATGGA
Statistics
Matches: 135, Mismatches: 5, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
144 24 0.18
145 16 0.12
150 66 0.49
151 3 0.02
154 26 0.19
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (142 bp):
TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGATTAG
ATAGTTGTAAGTAAAAAGGACTAATTCGTAAAAGCTAGTTTCTATTAGCTAAGGTATTAAATGGC
TATAGAAATGTG
Found at i:29986671 original size:47 final size:45
Alignment explanation
Indices: 29986564--29986830 Score: 161
Period size: 47 Copynumber: 5.7 Consensus size: 45
29986554 TGTGTGAGCT
**
29986564 AGTGTAAGACATGTCCAGGACATGCATCGACCACCTTATA-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CA--TTA-AGAGATAGCC
* *
29986610 AGTGTAAGGCCATGTCTGGGACATGACATCGACATTAAGACGATAGCT
1 AGTGTAA-GACATGTCTGGGACATG-CATCGACATTAAGA-GATAGCC
* ** *
29986658 AGTGTAAGACATGTCTGGGACATGCATC-AGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CATTAAGAGAT-AGCC
* * * **
29986704 AGTGTATGACATGTCTGAGACATGCATCGGC--TACGAGATGATAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTA--AGA-GATAGCC
* * * * *
29986750 AGTGTAAGACCATGTCTAGGAAATGGCATCAAC-TTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTAAGAGAT-AGCC
*
29986797 AGTGTAAGACCATGTCTGGGATATGGCATCGACA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACA
29986831 CCTTACCCAC
Statistics
Matches: 173, Mismatches: 31, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
45 7 0.04
46 62 0.36
47 80 0.46
48 22 0.13
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTAAGAGATAGCC
Found at i:29994117 original size:35 final size:35
Alignment explanation
Indices: 29994071--29994139 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
29994061 ATTAAGTGCT
* *
29994071 CTAATGGGTACCCTTGATTATGAGTTGACGGCTTA
1 CTAATGGGTACCCCTAATTATGAGTTGACGGCTTA
29994106 CTAATGGGTACCCCTAATTATGAGTTGACGGCTT
1 CTAATGGGTACCCCTAATTATGAGTTGACGGCTT
29994140 TCTATTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (35 bp):
CTAATGGGTACCCCTAATTATGAGTTGACGGCTTA
Found at i:29998369 original size:34 final size:34
Alignment explanation
Indices: 29998318--29998385 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
29998308 CTGTGACCGC
*
29998318 TACTGAATTGGGCTAAGGCCC-ACACTGATACTGA
1 TACTGAATTGGGCTAAGGCCCTA-ACTGAAACTGA
*
29998352 TACTGTAA-TGGGTTAAGGCCCTAACTGAAACTGA
1 TACTG-AATTGGGCTAAGGCCCTAACTGAAACTGA
29998386 GCTGTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGAATTGGGCTAAGGCCCTAACTGAAACTGA
Found at i:30001218 original size:45 final size:47
Alignment explanation
Indices: 30001169--30001276 Score: 134
Period size: 46 Copynumber: 2.3 Consensus size: 47
30001159 GAGACGAGTG
*
30001169 CTAGTGTAAGACATGTC-GAGATATGCATCGGCCT-CGAGA-CATAAA
1 CTAGTGTAAGACATGTCTGAGACATGCATCGG-CTACGAGATCATAAA
* * *
30001214 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAAT
1 CTAGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATCATAAA
30001261 C-AGTGTAAGACCATGT
1 CTAGTGTAAGA-CATGT
30001277 ATGGGATATG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
45 19 0.35
46 26 0.47
47 10 0.18
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATCATAAA
Found at i:30001266 original size:46 final size:45
Alignment explanation
Indices: 30001171--30001341 Score: 150
Period size: 47 Copynumber: 3.7 Consensus size: 45
30001161 GACGAGTGCT
* * *
30001171 AGTGTAAGACATGTC-GAGATAT-GCATCGGCCTCGAGACATAAAC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGATATAAAC
*
30001215 TAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAATC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGAT-ATAAAC
* * * * **
30001262 AGTGTAAGACCATGTATGGGATATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGATAT-AAAC
* *
30001309 AGCGTAAGAACATGTTTGGGACATGGCATCGGC
1 AGTGTAAG-ACATGTCTGGGACATGGCATCGGC
30001342 ACCTTATCCC
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 17 0.16
46 28 0.27
47 51 0.49
48 9 0.09
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAGATATAAAC
Found at i:30002248 original size:40 final size:42
Alignment explanation
Indices: 30002204--30002284 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
30002194 CATGTTTTTA
* *
30002204 CACATGGGCTA-GGAAACGGGCATGT-CAAGGCCGTGTGAAG
1 CACATGGGCCAGGGAAACGGGCATGTGCAAGGCCATGTGAAG
* * *
30002244 CACATGGGCCAGGGACACGGGCGTGTGCCAGGCCATGTGAA
1 CACATGGGCCAGGGAAACGGGCATGTGCAAGGCCATGTGAA
30002285 AATCCCTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 10 0.29
41 12 0.35
42 12 0.35
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.14
Consensus pattern (42 bp):
CACATGGGCCAGGGAAACGGGCATGTGCAAGGCCATGTGAAG
Found at i:30004377 original size:47 final size:47
Alignment explanation
Indices: 30004306--30004710 Score: 666
Period size: 47 Copynumber: 8.6 Consensus size: 47
30004296 CCCTTCGGGA
* * * * * *
30004306 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
30004353 CCTATCACATATATACACTCTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30004400 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30004447 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30004494 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30004541 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30004588 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30004637 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30004684 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30004711 TATTCAAATA
Statistics
Matches: 339, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 294 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30004385 original size:25 final size:24
Alignment explanation
Indices: 30004356--30004434 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
30004346 ACTCGGCCCT
30004356 ATCACATATATACACTCTCACATTC
1 ATCACATATATACACT-TCACATTC
*** * *
30004381 ATCACAT-TGGCCA-TTCGGCCTT-
1 ATCACATATATACACTTC-ACATTC
30004403 ATCACATATATACACTTTCACATTC
1 ATCACATATATACAC-TTCACATTC
30004428 ATCACAT
1 ATCACAT
30004435 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 9 0.23
23 7 0.18
24 6 0.15
25 17 0.44
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (24 bp):
ATCACATATATACACTTCACATTC
Found at i:30012836 original size:46 final size:45
Alignment explanation
Indices: 30012754--30012884 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 45
30012744 GACGAGTGCT
* *
30012754 AGTGTAAGACATGTC-GAGATATGCATCGACCTCGAGA-CATAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTCGAGATCAT-AACC
* *
30012799 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGATAATC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGATCATAACC
* * *
30012845 AGTGTAAGACCATGTATGGGGCATGGCATCGACTTGAGAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGAT
30012885 ATGAGCCAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
45 17 0.23
46 29 0.39
47 19 0.26
48 9 0.12
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATCATAACC
Found at i:30020539 original size:50 final size:47
Alignment explanation
Indices: 30020426--30020791 Score: 289
Period size: 50 Copynumber: 7.6 Consensus size: 47
30020416 AGATGCTGAC
* * * * *** *
30020426 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGTCGAT
1 GCCATGTCCC-AACATGGTCTTACACTAGCTCTCATATCTGGGCCGAT
30020474 GCCATGTCCCAAACATGGTCTTACACT-GACTCTCATATACTGGGACCGAT
1 GCCATGTCCC-AACATGGTCTTACACTAG-CTCTCATAT-CTGGG-CCGAT
* *
30020524 GCCATGTCCCTAACATGGTCTTACACTAGCTCTCATCTGTCGGTGCCGAT
1 GCCATGTCCC-AACATGGTCTTACACTAGCTCTCATATCT-GG-GCCGAT
* * * ** *
30020574 GCCATGTCCCAACATGGTCTTACACTA--ACACAAATC-AAGCTGAT
1 GCCATGTCCCAACATGGTCTTACACTAGCTCTCATATCTGGGCCGAT
* *
30020618 GCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGAT
1 GCCATGTCCCA-ACATGGTCTTACACTAGCTCTCATATCT-G-GGCCGAT
* * * ***
30020668 GCCATGTCCCAAACATGGTCTTACACTAGCTTTCGTCTCAACGCCGAT
1 GCCATGTCCC-AACATGGTCTTACACTAGCTCTCATATCTGGGCCGAT
* * *
30020716 GCCATGTCCCAGACATGGTCTTACACTTA-CTCTCATA-ATGCAGCCTAT
1 GCCATGTCCCA-ACATGGTCTTACAC-TAGCTCTCATATCTG-GGCCGAT
30020764 G-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCATGTCCCA-ACATGGTCTTACACTAGC
30020792 ACACATGTCA
Statistics
Matches: 260, Mismatches: 41, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
44 15 0.06
45 18 0.07
46 10 0.04
47 25 0.10
48 73 0.28
49 22 0.08
50 94 0.36
51 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAACATGGTCTTACACTAGCTCTCATATCTGGGCCGAT
Found at i:30020634 original size:94 final size:97
Alignment explanation
Indices: 30020426--30020789 Score: 331
Period size: 98 Copynumber: 3.8 Consensus size: 97
30020416 AGATGCTGAC
* * * * * * *
30020426 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACA--TCAAAGTCGATGCCATGTCCCAAACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAAACA
* * * ***
30020489 TGGTCTTACACTGACTCTCATATACTGGGACCGAT
66 TGGTCTTACACTAACT-ACAAAT-CAACG-CCGAT
* *
30020524 GCCATGTCCCTA-ACATGGTCTTACACTAGCTCTCATCTGTCG-GTGCCGATGCCATGTCCC-AA
1 GCCATGTCCC-AGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCCGATGCCATGTCCCAAA
*
30020586 CATGGTCTTACACTAAC-ACAAATCAA-GCTGAT
64 CATGGTCTTACACTAACTACAAATCAACGCCGAT
* *
30020618 GCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGATGCCATGTCCCAAACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAAACA
* * ***
30020683 TGGTCTTACACTAGCTTTCGTCTCAACGCCGAT
66 TGGTCTTACACTAAC-TACAAATCAACGCCGAT
* * *
30020716 GCCATGTCCCAGACATGGTCTTACACTTA-CTCTCATA-AT-GCA-GCCTATG-CATGTCCCAGA
1 GCCATGTCCCAGACATGGTCTTACAC-TAGCTCTCATATCTCG-AGGCCGATGCCATGTCCCAAA
30020776 CAT-GTCTTACACTA
64 CATGGTCTTACACTA
30020790 GCACACATGT
Statistics
Matches: 225, Mismatches: 29, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
93 1 0.00
94 67 0.30
95 33 0.15
96 8 0.04
97 11 0.05
98 68 0.30
99 20 0.09
100 17 0.08
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (97 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAACTACAAATCAACGCCGAT
Found at i:30020783 original size:144 final size:143
Alignment explanation
Indices: 30020426--30020791 Score: 399
Period size: 144 Copynumber: 2.5 Consensus size: 143
30020416 AGATGCTGAC
* ** * *
30020426 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAG-TCGATGCCATGTCCCAAACAT
1 GCCATGTCCC-AACATGGTCTTACACT--AACACAAATC-AAGCT-GATGCCATGTCCCAGACAT
*
30020490 GGTCTTACACT-GACTCTCATATACTGGGACCGATGCCATGTCCCTAACATGGTCTTACACTAGC
61 GGTCTTACACTAG-CTCTCATATACTGGGACCGATGCCATGTCCCAAACATGGTCTTACACTAGC
***
30020554 TCTCATCTGTCGGTGCCGAT
125 TCTCATC-GTCAACGCCGAT
*
30020574 GCCATGTCCCAACATGGTCTTACACTAACACAAATCAAGCTGATGCCATGTCTCAGACATGGTCT
1 GCCATGTCCCAACATGGTCTTACACTAACACAAATCAAGCTGATGCCATGTCCCAGACATGGTCT
* *
30020639 TACACTAGCTTTCATAT-CTCGAGG-CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTTC
66 TACACTAGCTCTCATATACT-G-GGACCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC
*
30020702 GTC-TCAACGCCGAT
129 ATCGTCAACGCCGAT
* *
30020716 GCCATGTCCCAGACATGGTCTTACACTTACTCTCATAATGC-AGCCT-ATG-CATGTCCCAGACA
1 GCCATGTCCCA-ACATGGTCTTACAC-TA-ACACA-AAT-CAAG-CTGATGCCATGTCCCAGACA
30020778 T-GTCTTACACTAGC
60 TGGTCTTACACTAGC
30020792 ACACATGTCA
Statistics
Matches: 192, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
142 19 0.10
143 16 0.08
144 94 0.49
145 27 0.14
146 8 0.04
147 18 0.09
148 10 0.05
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (143 bp):
GCCATGTCCCAACATGGTCTTACACTAACACAAATCAAGCTGATGCCATGTCCCAGACATGGTCT
TACACTAGCTCTCATATACTGGGACCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT
CGTCAACGCCGAT
Found at i:30023673 original size:13 final size:13
Alignment explanation
Indices: 30023655--30023680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30023645 TACATTTGAC
30023655 ACATGGCCATGTG
1 ACATGGCCATGTG
30023668 ACATGGCCATGTG
1 ACATGGCCATGTG
30023681 TCACACATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCATGTG
Found at i:30024286 original size:28 final size:28
Alignment explanation
Indices: 30024254--30024309 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30024244 ATCACCGGAG
30024254 TAGGGTTACGAGGTATTACCTATCAATA
1 TAGGGTTACGAGGTATTACCTATCAATA
30024282 TAGGGTTACGAGGTATTACCTATCAATA
1 TAGGGTTACGAGGTATTACCTATCAATA
30024310 CACATCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (28 bp):
TAGGGTTACGAGGTATTACCTATCAATA
Found at i:30039949 original size:40 final size:40
Alignment explanation
Indices: 30039847--30040031 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
30039837 TATTCGAATG
* *
30039847 ATATCCGGGCCAAGTCCCGAAGGCTTTTGTGCTAAG-TGACT
1 ATATCCGGGCCAAGACCCGAAGGCATTTGTGC-AAGCT-ACT
* * * *
30039888 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACT
1 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCAAGCTACT
* * * *
30039928 ATATCCGGGCCAAAACTCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCAAGCTACT
* * * * *
30039968 ATATCCGGGCTAAGTCCCGAAGGCATTTCTGCTAG-TGACC
1 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCAAGCT-ACT
** *
30040008 ATATCTAGGCTAAGACCCGAAGGC
1 ATATCCGGGCCAAGACCCGAAGGC
30040032 CTTGTGTGAG
Statistics
Matches: 119, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
40 91 0.76
41 28 0.24
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCCAAGACCCGAAGGCATTTGTGCAAGCTACT
Found at i:30039995 original size:80 final size:81
Alignment explanation
Indices: 30039847--30039995 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 81
30039837 TATTCGAATG
** * *
30039847 ATATCCGGGCCAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
30039912 ATTTGTGCGAGCTACT
66 ATTTGTGCGAGCTACT
* *
30039928 ATATCCGGGCCAAAACTCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAGG
30039991 CATTT
65 CATTT
30039996 CTGCTAGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.02
80 31 0.51
81 29 0.48
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGCTACT
Found at i:30040012 original size:80 final size:81
Alignment explanation
Indices: 30039847--30040031 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 81
30039837 TATTCGAATG
** * *
30039847 ATATCCGGGCCAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
* *
30039912 ATTTGTGCGAGCTACT
66 ATTTCTGCGAGCTACC
* *
30039928 ATATCCGGGCCAAAACTCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAGG
*
30039991 CATTTCTGCTAG-TGACC
65 CATTTCTGCGAGCT-ACC
** * *
30040008 ATATCTAGGCTAAGACCCGAAGGC
1 ATATCCGGGCCAAAACCCGAAGGC
30040032 CTTGTGTGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.02
80 57 0.65
81 29 0.33
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTCTGCGAGCTACC
Found at i:30048063 original size:79 final size:80
Alignment explanation
Indices: 30047946--30048097 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 80
30047936 GACCTAAGTC
* * * * *
30047946 CCGAAGGCTTTTTTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAG-TCCCGAAGGCATTTATGCGAGTGAC
*
30048010 TATATCCGGTCCAAAA
65 CATATCCGGTCCAAAA
* *
30048026 CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 CCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGTCCCGAAGGCATTTATGCGAGTGACC
30048090 ATATCCGG
66 ATATCCGG
30048098 GCTAAGACCC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 1 0.02
79 47 0.75
80 15 0.24
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGTCCCGAAGGCATTTATGCGAGTGACC
ATATCCGGTCCAAAA
Found at i:30048083 original size:40 final size:40
Alignment explanation
Indices: 30047930--30048149 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
30047920 TATTCGAATG
** * *
30047930 ATATCCGACCTAAGTCCCGAAGGCTTTTTTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
30047971 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* * ** *
30048011 ATATCCGGTCCAA-AACCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
30048050 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * **
30048090 ATATCCGGGCTAAGACCCGACGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
30048129 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
30048150 ATACTTGGGT
Statistics
Matches: 146, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
38 12 0.08
39 47 0.32
40 60 0.41
41 26 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:30048119 original size:79 final size:79
Alignment explanation
Indices: 30047967--30048149 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 79
30047957 TTTGCTAAGT
* * * * *
30047967 GACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGTCCAAAACCGAA
1 GACTATATCCGGGCTAAG-TCCCGAAGGCATTTATGCGAGTGACCATATCCGGGCCAAAACCGAA
* *
30048031 GGCATTTGTGCTAGC
65 GGCACTTGTGCGAGC
* * * *
30048046 GACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACCCGAC
1 GACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACCATATCCGGGCCAA-AACCGAA
*
30048111 GGC-CTTGTGCGAGT
65 GGCACTTGTGCGAGC
** *
30048125 GGTTATATCC-GGCTAAATCCCGAAG
1 GACTATATCCGGGCTAAGTCCCGAAG
30048150 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 15 0.17
79 64 0.74
80 8 0.09
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (79 bp):
GACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACCATATCCGGGCCAAAACCGAAG
GCACTTGTGCGAGC
Found at i:30053378 original size:42 final size:44
Alignment explanation
Indices: 30053303--30053402 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 44
30053293 CCGGACGTGG
* * ** *
30053303 TCTTACATGTAATTC-AATATCGATGCCTCTGTCCTAGATATGC
1 TCTTACACGTAAATCAAATATCGATGCCAATGTCCTAGACATGC
* *
30053346 TCTTACACG-AAATCAAATA-CGATGCCAATGTCCTCGACATGG
1 TCTTACACGTAAATCAAATATCGATGCCAATGTCCTAGACATGC
*
30053388 TCTTATACGTAAATC
1 TCTTACACGTAAATC
30053403 TTAAATCGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTACACGTAAATCAAATATCGATGCCAATGTCCTAGACATGC
Found at i:30055679 original size:49 final size:49
Alignment explanation
Indices: 30055626--30055857 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
30055616 CTGGTACGCA
* *
30055626 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
** ** *
30055675 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGATACACG
* * * * * * *
30055725 TAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGATACACG
* * *
30055776 TAGTAGCCTACACTTAGTACTATACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
* * *
30055825 TAGTAGCCTACACTTATTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
30055858 TCACAATAGA
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 69 0.46
50 46 0.31
51 35 0.23
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
Found at i:30055850 original size:100 final size:99
Alignment explanation
Indices: 30055626--30055857 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 99
30055616 CTGGTACGCA
* * * *
30055626 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTACACTTA
* *
30055691 GTACTACACACATGACCTAACCATCTGATACACG
66 GTACTACACACACGACCTAACCATCCGATACACG
* * * *
30055725 TAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTACACT
* ** **
30055790 TAGTACTATACATGCGACC-AATTATCCGATACACG
64 TAGTACTACACACACGACCTAACCATCCGATACACG
* *
30055825 TAGTAGCCTACACTTATTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
30055858 TCACAATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 29 0.26
100 44 0.39
101 39 0.35
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACACGACCTAACCATCCGATACACG
Found at i:30056134 original size:27 final size:27
Alignment explanation
Indices: 30056104--30056157 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30056094 TCATACAACC
* *
30056104 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
30056131 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
30056158 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:30069761 original size:10 final size:10
Alignment explanation
Indices: 30069746--30069773 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30069736 CAGAAGCCTA
30069746 TATGTTTTGT
1 TATGTTTTGT
30069756 TATGTTTTGT
1 TATGTTTTGT
30069766 TATGTTTT
1 TATGTTTT
30069774 AGCCATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.18, T:0.71
Consensus pattern (10 bp):
TATGTTTTGT
Found at i:30072883 original size:43 final size:43
Alignment explanation
Indices: 30072822--30072908 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
30072812 TGAGTTAGTA
*
30072822 CCGGGAACATCACCGATATCAATAGCTCTGTACAAAATGGCTC
1 CCGGGAACATCACCGATATCAATAGCTCCGTACAAAATGGCTC
*
30072865 CCGGGAACATCATCGATATCAATAGCTCCGTACAAAATGGCTC
1 CCGGGAACATCACCGATATCAATAGCTCCGTACAAAATGGCTC
30072908 C
1 C
30072909 GACAGAGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
CCGGGAACATCACCGATATCAATAGCTCCGTACAAAATGGCTC
Found at i:30078280 original size:101 final size:99
Alignment explanation
Indices: 30078107--30078295 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 99
30078097 ATCTGGTACG
* *
30078107 CATAGTAGCCTGCACTTAGTACTACACATCCGACCAATAGTCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACATCCGACCAATAGTCGGGTACACATAGTAGCCTGCACT
*
30078172 TAGTACTACACACGTGACCTCACCATCTAATATA
66 TAGTACTACACACGCGACCTCACCATCTAATATA
* * * ** *
30078206 CATAGTAGCCTGCCCTTAGTACTACACA-CGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACATC-CGA-C-CAATAGTCGGGTACACATAGTAGCCTGC
*
30078270 ACTTAGTACTACACATGCGACCTCAC
63 ACTTAGTACTACACACGCGACCTCAC
30078296 AATAGATCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 1 0.01
99 29 0.38
100 1 0.01
101 46 0.60
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACATCCGACCAATAGTCGGGTACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCTCACCATCTAATATA
Found at i:30085796 original size:19 final size:21
Alignment explanation
Indices: 30085758--30085796 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30085748 AAATTTATTT
*
30085758 TTGAATTATTTTAGATTGTTA
1 TTGAATTATTTTAGACTGTTA
30085779 TTGAATT-TTTTA-ACTGTT
1 TTGAATTATTTTAGACTGTT
30085797 GTAAGACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (21 bp):
TTGAATTATTTTAGACTGTTA
Found at i:30089361 original size:47 final size:47
Alignment explanation
Indices: 30089307--30089594 Score: 441
Period size: 47 Copynumber: 6.1 Consensus size: 47
30089297 TTAGGATTTT
** * *
30089307 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30089354 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30089401 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30089448 ATGTGATGAATGTGAGCATGCATATATGTGATAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30089495 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** *
30089542 ATGTGATGAATATGAACATGCATATATGTGGTAAATCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30089589 ATGTGA
1 ATGTGA
30089595 AATATGTATG
Statistics
Matches: 224, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30089663 original size:141 final size:139
Alignment explanation
Indices: 30089328--30089638 Score: 354
Period size: 141 Copynumber: 2.2 Consensus size: 139
30089318 GTGAATGTGT
* * * * * *
30089328 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCTG
1 ATATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTG-AGA-GCATATGTGTGATAAGGCCG
* * * *
30089393 AATGGCCAATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
64 AATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATAAA
30089458 TGTGAGCATGC
129 TGTGAGCATGC
** *
30089469 ATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAG-A-GCATATGTGTGATAAGGCCG
* * *
30089534 AATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAATCCGAATGGCTAATGTGA-AAT
64 AATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATAA-
* *
30089598 ATGTATGAGATATGT
128 ATG--TGAG-CATGC
*
30089613 ATGTATATGTGGTAAAGCCGAATGGC
1 A--TATATGTGATAAAGCCGAATGGC
30089639 TAGTGTGAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
140 2 0.01
141 116 0.79
143 4 0.03
144 4 0.03
146 20 0.14
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (139 bp):
ATATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAGAGCATATGTGTGATAAGGCCGAA
TGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATAAATG
TGAGCATGC
Found at i:30089909 original size:37 final size:37
Alignment explanation
Indices: 30089802--30089909 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
30089792 GAAATATATC
*
30089802 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
30089839 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
* *
30089876 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTT
30089910 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
Found at i:30092972 original size:16 final size:16
Alignment explanation
Indices: 30092947--30092990 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
30092937 AGTAGATCGG
*
30092947 AAAAAGCTGAAATGCC
1 AAAAAGCTGAAATACC
*
30092963 AAAAACCTGAAATACC
1 AAAAAGCTGAAATACC
30092979 AAAAAGCTGAAA
1 AAAAAGCTGAAA
30092991 GCTTAACTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.57, C:0.18, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAAGCTGAAATACC
Found at i:30093285 original size:28 final size:28
Alignment explanation
Indices: 30093203--30093292 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
30093193 TGCGCATGAC
30093203 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
30093232 TATAAATGAGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
30093261 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
30093289 TATA
1 TATA
30093293 CAGGTATGCG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:30097134 original size:27 final size:27
Alignment explanation
Indices: 30097104--30097298 Score: 121
Period size: 27 Copynumber: 7.3 Consensus size: 27
30097094 TAATGAAGAG
30097104 AAATTACAAAAATACCCCC-AGTTTGTA
1 AAATTACAAAAATACCCCCGA-TTTGTA
** *
30097131 AAATTACCGAAATACTCCCGATTTGTA
1 AAATTACAAAAATACCCCCGATTTGTA
* * *
30097158 AAATTATC-GAAATACCCTCGA-TTGTG
1 AAATTA-CAAAAATACCCCCGATTTGTA
** ***
30097184 AAATTACTGAAATACCTTAGATTTGTA
1 AAATTACAAAAATACCCCCGATTTGTA
* * * *
30097211 AAATTATC-GAAATACTCCCTATTTGTG
1 AAATTA-CAAAAATACCCCCGATTTGTA
* * *
30097238 AAATTATC-GAAACACCCTCGATTTGTA
1 AAATTA-CAAAAATACCCCCGATTTGTA
** * *
30097265 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACAAAAATACCCCCGATTTGTA
30097292 AAATTAC
1 AAATTAC
30097299 CGAAATATCC
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 22 0.15
27 116 0.82
28 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACAAAAATACCCCCGATTTGTA
Found at i:30097236 original size:80 final size:81
Alignment explanation
Indices: 30097125--30097305 Score: 274
Period size: 80 Copynumber: 2.2 Consensus size: 81
30097115 ATACCCCCAG
* *
30097125 TTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCGAAATACCCTCGA-TTGTGAAATT
1 TTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATT
* * *
30097189 ACTGAAATACCTTAGA
66 ACCGAAACACCCTAGA
* * *
30097205 TTTGTAAAATTATCGAAATACTCCCTATTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATT
*
30097270 ACCGAAACACCCTCGA
66 ACCGAAACACCCTAGA
30097286 TTTGTAAAATTACCGAAATA
1 TTTGTAAAATTACCGAAATA
30097306 TCCTTGTAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 50 0.56
81 40 0.44
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (81 bp):
TTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATT
ACCGAAACACCCTAGA
Found at i:30097299 original size:27 final size:27
Alignment explanation
Indices: 30097125--30097305 Score: 224
Period size: 27 Copynumber: 6.7 Consensus size: 27
30097115 ATACCCCCAG
30097125 TTTGTAAAATTACCGAAATACTCC-CGA
1 TTTGTAAAATTACCGAAATAC-CCTCGA
*
30097152 TTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGA
* * * *
30097179 -TTGTGAAATTACTGAAATACCTTAGA
1 TTTGTAAAATTACCGAAATACCCTCGA
* *
30097205 TTTGTAAAATTATCGAAATACTCC-CTA
1 TTTGTAAAATTACCGAAATAC-CCTCGA
* * *
30097232 TTTGTGAAATTATCGAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGA
*
30097259 TTTGTAAAATTACCGAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGA
30097286 TTTGTAAAATTACCGAAATA
1 TTTGTAAAATTACCGAAATA
30097306 TCCTTGTAGT
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.19
27 106 0.80
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCTCGA
Found at i:30097318 original size:27 final size:27
Alignment explanation
Indices: 30097127--30097349 Score: 102
Period size: 27 Copynumber: 8.3 Consensus size: 27
30097117 ACCCCCAGTT
* *
30097127 TGTAAAATTACCGAAATACTCC-CG-ATT
1 TGTAAAATTACCGAAATAC-CCTTGTA-G
* * *
30097154 TGTAAAATTATCGAAATACCCTCG-AT
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
30097180 TGTGAAATTACTGAAATA-CCTTAG-ATT
1 TGTAAAATTACCGAAATACCCTT-GTA-G
* * * *
30097207 TGTAAAATTATCGAAATACTCCCTAT-T
1 TGTAAAATTACCGAAATAC-CCTTGTAG
* * * * *
30097234 TGTGAAATTATCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
30097261 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
30097288 TGTAAAATTACCGAAATATCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
30097315 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
30097342 GGTAAAAT
1 TGTAAAAT
30097350 AACTGTTTTG
Statistics
Matches: 161, Mismatches: 26, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
25 3 0.02
26 22 0.14
27 132 0.82
28 1 0.01
29 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:30097319 original size:54 final size:54
Alignment explanation
Indices: 30097125--30097335 Score: 216
Period size: 54 Copynumber: 3.9 Consensus size: 54
30097115 ATACCCCCAG
*
30097125 TTTGTAAAATTACCGAAATACTCC-CGATTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATA-TCCTCGATTTGTAAAATTACCGAAATACCCTCGA
* * * * *
30097179 -TTGTGAAATTACTGAAATA-CCTTAGATTTGTAAAATTATCGAAATACTCC-CTA
1 TTTGTAAAATTACCGAAATATCC-TCGATTTGTAAAATTACCGAAATAC-CCTCGA
* * * * *
30097232 TTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAACACCCTCGA
1 TTTGTAAAATTACCGAAATATCCTCGATTTGTAAAATTACCGAAATACCCTCGA
* * * *
30097286 TTTGTAAAATTACCGAAATATCCTTG-TAGTGTAAAATGACCGACATACCC
1 TTTGTAAAATTACCGAAATATCCTCGAT-TTGTAAAATTACCGAAATACCC
30097336 CTGTAGGGTA
Statistics
Matches: 130, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
51 2 0.02
53 45 0.35
54 81 0.62
55 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATATCCTCGATTTGTAAAATTACCGAAATACCCTCGA
Found at i:30100381 original size:23 final size:23
Alignment explanation
Indices: 30100355--30100429 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
30100345 TGATAAACAG
30100355 TAAGCTCTATTAAGCTGAAACGA
1 TAAGCTCTATTAAGCTGAAACGA
* *
30100378 TAAGCTCTATTGAGCTG-ATC-A
1 TAAGCTCTATTAAGCTGAAACGA
* *
30100399 GTAAGCTC-ATACAAGCTGAAACGG
1 -TAAGCTCTAT-TAAGCTGAAACGA
30100423 TAAGCTC
1 TAAGCTC
30100430 CAATGAGCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.07
22 14 0.33
23 25 0.60
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
TAAGCTCTATTAAGCTGAAACGA
Found at i:30100406 original size:45 final size:45
Alignment explanation
Indices: 30100352--30100440 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
30100342 AGCTGATAAA
* * *
30100352 CAGTAAGCTC-TATTAAGCTGAAACGATAAGCTCTATTGAGCTGAT
1 CAGTAAGCTCATA-CAAGCTGAAACGATAAGCTCCAATGAGCTGAT
*
30100397 CAGTAAGCTCATACAAGCTGAAACGGTAAGCTCCAATGAGCTGA
1 CAGTAAGCTCATACAAGCTGAAACGATAAGCTCCAATGAGCTGA
30100441 AAATAGTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (45 bp):
CAGTAAGCTCATACAAGCTGAAACGATAAGCTCCAATGAGCTGAT
Found at i:30100438 original size:23 final size:23
Alignment explanation
Indices: 30100340--30100453 Score: 72
Period size: 23 Copynumber: 4.9 Consensus size: 23
30100330 AAGCTCCTCC
* *
30100340 TAAGCTGATAAACAGTAAGCTCTAT
1 TAAGCTG--AAACAGTAAGCTCCAA
* *
30100365 TAAGCTGAAAC-GATAAGCTCTAT
1 TAAGCTGAAACAG-TAAGCTCCAA
* *
30100388 TGAGCTG-ATCAGTAAGCT-CATA
1 TAAGCTGAAACAGTAAGCTCCA-A
* *
30100410 CAAGCTGAAACGGTAAGCTCCAA
1 TAAGCTGAAACAGTAAGCTCCAA
* *
30100433 TGAGCTGAAAATAGTAAGCTC
1 TAAGCTG-AAACAGTAAGCTC
30100454 TTTCGAGCTG
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.01
22 14 0.20
23 36 0.51
24 13 0.18
25 7 0.10
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (23 bp):
TAAGCTGAAACAGTAAGCTCCAA
Found at i:30104115 original size:50 final size:49
Alignment explanation
Indices: 30103994--30104231 Score: 212
Period size: 50 Copynumber: 4.8 Consensus size: 49
30103984 AGCCGAAGCT
* * * *
30103994 ATCTGATACGCATAGTAGCCTGCAATTAGTACTACATATGCGA-TCAACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTC-ATA
* * * * *
30104043 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCATT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CTCATA
* * *
30104093 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TCGA-A
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTC-ATA
* ** * * *
30104141 GTCATTGAGTATGCATAGTAGCCTGCACTAAGTACTACACATGCGACTTAAA
1 ATC--TGA-TACACATAGTAGCCTGCACTTAGTACTACACATGCGACTCATA
* *
30104193 AGTATGATACACATAGTAGCCTACACTTAGTACTACACA
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACA
30104232 CGTGTATTCA
Statistics
Matches: 153, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
48 4 0.03
49 37 0.24
50 72 0.47
51 37 0.24
52 2 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTCATA
Found at i:30106123 original size:12 final size:11
Alignment explanation
Indices: 30106108--30106195 Score: 67
Period size: 12 Copynumber: 7.9 Consensus size: 11
30106098 AAATCAAATT
30106108 AAAAAGAACAAG
1 AAAAAGAA-AAG
*
30106120 AAAAAAAAGAATG
1 AAAAAGAA-AA-G
30106133 AAAAAGAAAATG
1 AAAAAGAAAA-G
*
30106145 AACAAG-AAA-
1 AAAAAGAAAAG
30106154 AAAAAG-AAAG
1 AAAAAGAAAAG
30106164 AAAAAGAAAAG
1 AAAAAGAAAAG
*
30106175 AAAGTAGAAAA-
1 AAA-AAGAAAAG
*
30106186 AAAAGGAAAA
1 AAAAAGAAAA
30106196 AGTGAGAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
9 8 0.12
10 11 0.17
11 13 0.20
12 24 0.38
13 8 0.12
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:30106128 original size:15 final size:14
Alignment explanation
Indices: 30106108--30106195 Score: 63
Period size: 15 Copynumber: 5.7 Consensus size: 14
30106098 AAATCAAATT
30106108 AAAAAGAACAAGAAA
1 AAAAAGAA-AAGAAA
30106123 AAAAAGAATGAA-AAA
1 AAAAAGAA--AAGAAA
*
30106138 GAAAATGAACAAGAAA
1 -AAAAAGAA-AAGAAA
30106154 AAAAAG-AAAGAAAA
1 AAAAAGAAAAG-AAA
30106168 AGAAAAGAAAGTAGAAA
1 A-AAAAGAAA--AGAAA
30106185 AAAAAGGAAAA
1 AAAAA-GAAAA
30106196 AGTGAGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
13 3 0.05
14 5 0.08
15 24 0.40
16 18 0.30
17 8 0.13
18 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:30106141 original size:19 final size:18
Alignment explanation
Indices: 30106111--30106190 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 18
30106101 TCAAATTAAA
*
30106111 AAGAACAAGAAAAAAAAG
1 AAGAAAAAGAAAAAAAAG
30106129 AATGAAAAAGAAAATGAACAAG
1 AA-GAAAAAGAAAA--AA-AAG
*
30106151 AAAAAAAAGAAAGAAAAAG
1 AAGAAAAAGAAA-AAAAAG
*
30106170 AAAAGAAAGTAGAAAAAAAAG
1 --AAGAAA-AAGAAAAAAAAG
30106191 GAAAAAGTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
18 2 0.04
19 13 0.26
20 2 0.04
21 22 0.44
22 11 0.22
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (18 bp):
AAGAAAAAGAAAAAAAAG
Found at i:30106148 original size:31 final size:30
Alignment explanation
Indices: 30106109--30106190 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 30
30106099 AATCAAATTA
*
30106109 AAAAGAACAAGAAAAAAAAGAATGAAAAAG
1 AAAAGAACAAGAAAAAAAAGAAAGAAAAAG
30106139 AAAATGAACAAGAAAAAAAAGAAAGAAAAAG
1 AAAA-GAACAAGAAAAAAAAGAAAGAAAAAG
30106170 AAAAGAA-AGTAGAAAAAAAAG
1 AAAAGAACA--AGAAAAAAAAG
30106191 GAAAAAGTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
29 1 0.02
30 7 0.15
31 40 0.83
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (30 bp):
AAAAGAACAAGAAAAAAAAGAAAGAAAAAG
Found at i:30106196 original size:10 final size:9
Alignment explanation
Indices: 30106117--30106196 Score: 70
Period size: 10 Copynumber: 8.0 Consensus size: 9
30106107 TAAAAAGAAC
30106117 AAGAAAAAA
1 AAGAAAAAA
*
30106126 AAGAATGAAA
1 AAGAA-AAAA
30106136 AAGAAAATGAA
1 AAGAAAA--AA
30106147 CAAGAAAAAA
1 -AAGAAAAAA
30106157 AAGAAAGAAA
1 AAGAAA-AAA
30106167 AAGAAAAGAA
1 AAGAAAA-AA
30106177 AGTAGAAAAAA
1 A--AGAAAAAA
*
30106188 AAGGAAAAA
1 AAGAAAAAA
30106197 GTGAGAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
9 20 0.33
10 22 0.37
11 5 0.08
12 13 0.22
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:30110497 original size:45 final size:45
Alignment explanation
Indices: 30110434--30110558 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
30110424 TAAGATTTCG
* *
30110434 ATATGTATTTTCGAGTAAGACCACGTCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * * *
30110479 ATATGTGTTTTCGTGTAAGACAACATTTGGTACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* *
30110524 ATATGTGGTTAT-GTGTAAGACCATGTCTGGGACAT
1 ATATGT-GTTTTCGTGTAAGACCACGTCTGGGACAT
30110559 CGACATCGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 63 0.94
46 4 0.06
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:30110566 original size:45 final size:45
Alignment explanation
Indices: 30110434--30110648 Score: 160
Period size: 45 Copynumber: 4.9 Consensus size: 45
30110424 TAAGATTTCG
* * * *
30110434 ATATGTATTTTCGAGTAAGACCACGTCTGGGACATTGGCATCGAT
1 ATATGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
30110479 ATATGTGTTTTCGTGTAAGACAACAT-T-TGGTACATTGGCATCGAT
1 ATATGTGTTATCGTGTAAGAC--CATGTCTGGGACATTGGCATCGAT
* *
30110524 ATATGTGGTTAT-GTGTAAGACCATGTCTGGGACATCGACATCG-T
1 ATATGT-GTTATCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * * * *
30110568 AT-T-CGAT-TCGTGTAAAACCCTATCTGGGACAGTGGCATCG--
1 ATATGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * * * *
30110608 ATATGAGATAGCATGTAAAACCATGTATGGGACATTGGCAT
1 ATATGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCAT
30110649 TGTTTGATAT
Statistics
Matches: 138, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.02
41 28 0.20
42 3 0.02
43 29 0.21
44 4 0.03
45 64 0.46
46 5 0.04
47 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
ATATGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:30121098 original size:45 final size:45
Alignment explanation
Indices: 30121032--30121136 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
30121022 CCGATTTGTA
* * * *
30121032 TTTTCGAGTAAGACCACGTCTGGGATGTTGGCATCGATATATGTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTCGACATCGATATATGTG
* *
30121077 TTTTCGTGTAAGACTATGTCTGGGACGTCGACATCGATATATGTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTCGACATCGATATATGTG
* *
30121122 GTTACGTGTAAGACC
1 TTTTCGTGTAAGACC
30121137 TTGTTTGAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (45 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTCGACATCGATATATGTG
Found at i:30122985 original size:46 final size:47
Alignment explanation
Indices: 30122932--30123026 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 47
30122922 GTGTTACAGT
*
30122932 TAATTAGTTTCA-ACAATTAATATGTCATAAGTTAA-TTAATATGTTC
1 TAATTAG-TTCAGACAATTAATATGTCATAAGCTAATTTAATATGTTC
* * * * *
30122978 TAATTAGTTCAGCCATTTATTATGTCTTAAGCTAATTTAATTTGTTC
1 TAATTAGTTCAGACAATTAATATGTCATAAGCTAATTTAATATGTTC
30123025 TA
1 TA
30123027 GTTAATACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 4 0.10
46 25 0.61
47 12 0.29
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (47 bp):
TAATTAGTTCAGACAATTAATATGTCATAAGCTAATTTAATATGTTC
Found at i:30123045 original size:47 final size:46
Alignment explanation
Indices: 30122952--30123055 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 46
30122942 CAACAATTAA
* * * *
30122952 TATGTCATAAGTTAATTAATATGTTCTAATTAGTTCAGCCATTTAT
1 TATGTCATAAGCTAATTAATATGTTCTAATTAATACAGCCACTTAT
* * * *
30122998 TATGTCTTAAGCTAATTTAATTTGTTCTAGTTAATACAGCTACTTAT
1 TATGTCATAAGCTAA-TTAATATGTTCTAATTAATACAGCCACTTAT
* *
30123045 TGTGTCCTAAG
1 TATGTCATAAG
30123056 TTTAGACAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
46 13 0.28
47 34 0.72
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (46 bp):
TATGTCATAAGCTAATTAATATGTTCTAATTAATACAGCCACTTAT
Found at i:30129069 original size:28 final size:28
Alignment explanation
Indices: 30129006--30129187 Score: 321
Period size: 28 Copynumber: 6.5 Consensus size: 28
30128996 ATATTAAGTC
* *
30129006 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
* *
30129033 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
30129061 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
30129089 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
30129117 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
30129145 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
30129173 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30129188 GTACAATTTA
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 24 0.16
28 127 0.84
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:30136196 original size:21 final size:21
Alignment explanation
Indices: 30136172--30136236 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
30136162 AAGTCTAGCT
30136172 GAAGCACATAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACA
** *
30136193 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACA
30136211 GAAGCACATAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACA
30136232 GAAGC
1 GAAGC
30136237 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACA
Found at i:30136197 original size:39 final size:39
Alignment explanation
Indices: 30136154--30136254 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
30136144 ATCGTGATCT
* *
30136154 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
30136193 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
30136232 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
30136255 TCATCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
Found at i:30142545 original size:6 final size:6
Alignment explanation
Indices: 30142523--30142564 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
30142513 AGGTGAAATT
* *
30142523 AATAAA AACATAA AATAAA AATAAA AAT-AA AATAAA ATTAAA
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA
30142565 CATCATTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 5 0.16
6 21 0.68
7 5 0.16
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:30147675 original size:40 final size:39
Alignment explanation
Indices: 30147657--30147918 Score: 322
Period size: 40 Copynumber: 6.7 Consensus size: 39
30147647 AAGTGACCAT
30147657 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT-A
30147697 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
* *
30147736 ATTCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTA
1 A-TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
30147774 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
* *
30147813 ATTCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAA
1 A-TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT-A
**
30147852 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA
* * *
30147891 TAACCGGGCTATG-TCCCGAAGGCATTTG
1 -ATCCGGACTAAGAT-CCGAAGGCATTTG
30147919 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
37 10 0.05
38 58 0.29
39 30 0.15
40 104 0.51
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
Found at i:30147797 original size:77 final size:78
Alignment explanation
Indices: 30147671--30147918 Score: 378
Period size: 77 Copynumber: 3.2 Consensus size: 78
30147661 GGACTAAGAT
*
30147671 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
30147736 ATTCCGGGCTAAG
66 ATTCCGGGCTAAG
30147749 CCGAAGGCATTTGTGCGAGTTACT-AATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
30147813 ATTCCGGGCTAAG
66 ATTCCGGGCTAAG
**
30147826 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA-ATTAC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TAC
* *
30147889 T-ATAACCGGGCTATG
64 TAAT-TCCGGGCTAAG
30147904 TCCCGAAGGCATTTG
1 --CCGAAGGCATTTG
30147919 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
77 81 0.51
78 65 0.41
80 13 0.08
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
ATTCCGGGCTAAG
Found at i:30147870 original size:117 final size:119
Alignment explanation
Indices: 30147618--30147918 Score: 425
Period size: 117 Copynumber: 2.6 Consensus size: 119
30147608 TTGAATGATG
* * *
30147618 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGACTAAGATCCGAAGGCATT
*
30147682 TGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
65 TGTGCGAGATACTAAATCCGGACTAAGA-CCGAAGGCATTTGTGCGAGATACTAAA
30147738 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTA-ATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTT
* * *
30147800 GTGCGAGATACTAATTCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAAATCCGGACTAAGACCGAAGGCATTTGTGCGAGATACTAAA
* * * * *
30147853 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGAT-CCGAAGGCATT
30147917 TG
65 TG
30147919 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
115 35 0.21
117 75 0.46
118 36 0.22
119 7 0.04
120 11 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGACCGAAGGCATTTGTGCGAGATACTAAA
Found at i:30155710 original size:40 final size:39
Alignment explanation
Indices: 30155662--30155926 Score: 327
Period size: 40 Copynumber: 6.7 Consensus size: 39
30155652 AAGTGACCAT
30155662 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTAA
*
30155702 ATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTAA
* * * *
30155742 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTAA
*
30155781 ATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTAA
* * * *
30155821 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTAA
**
30155860 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-A
* *
30155901 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGACTAAGT-CCGAAGGCATTTG
30155927 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
39 69 0.35
40 128 0.64
41 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTAA
Found at i:30155783 original size:79 final size:79
Alignment explanation
Indices: 30155676--30155926 Score: 391
Period size: 79 Copynumber: 3.2 Consensus size: 79
30155666 GGACTAAGAT
*
30155676 CCGAAGGCATTTGTGCGAGATACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
30155741 ATTCCGGGCTAAGC
66 ATTCCGGGCTAAGC
30155755 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
30155820 ATTCCGGGCTAAGC
66 ATTCCGGGCTAAGC
* **
30155834 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA-ATTAC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TAC
* *
30155897 T-ATAACCGGGCTATGTC
64 TAAT-TCCGGGCTAAG-C
30155914 CCGAAGGCATTTG
1 CCGAAGGCATTTG
30155927 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
78 4 0.02
79 144 0.89
80 14 0.09
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
ATTCCGGGCTAAGC
Found at i:30155877 original size:119 final size:120
Alignment explanation
Indices: 30155626--30155926 Score: 405
Period size: 119 Copynumber: 2.5 Consensus size: 120
30155616 AATGATGTCT
* * * *
30155626 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGT
* * *
30155690 GCGAGATACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
65 GCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCC
*
30155746 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
* * *
30155810 CGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
66 CGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCC
* * * *
30155864 GGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
30155927 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
118 36 0.22
119 108 0.67
120 17 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCC
Found at i:30155940 original size:40 final size:39
Alignment explanation
Indices: 30155626--30155926 Score: 264
Period size: 40 Copynumber: 7.6 Consensus size: 39
30155616 AATGATGTCT
* * *
30155626 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACC
* *
30155666 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AATCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA-CC
* *
30155706 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-ACC
*
30155746 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-CC
* *
30155785 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-ACC
30155825 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-CC
* *
30155864 GGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAACC
*
30155904 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
30155927 AACGAGGAGC
Statistics
Matches: 224, Mismatches: 22, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
39 68 0.30
40 144 0.64
41 12 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAACC
Found at i:30155957 original size:79 final size:78
Alignment explanation
Indices: 30155676--30155959 Score: 335
Period size: 79 Copynumber: 3.6 Consensus size: 78
30155666 GGACTAAGAT
* * *
30155676 CCGAAGGCATTTGTGCGAGATACTAAATCTGGACTAAGA-TCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGG-TTAA-ATTCCGAAGGCATTTGTGCGAGATACT
30155740 AATTCCGGGCTAAGC
64 AATTCCGGGCTAAGC
* *
30155755 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGA-TCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGG-TTAA-ATTCCGAAGGCATTTGTGCGAGATACT
30155819 AATTCCGGGCTAAGC
64 AATTCCGGGCTAAGC
* *
30155834 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGTTAAATTCCGAAGGCATTTGTGCGAGA-TACT
* *
30155898 -ATAACCGGGCTATGTC
64 AAT-TCCGGGCTAAG-C
** * *
30155914 CCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGTTAAATTCCGAAGG
30155960 TACGTGATTT
Statistics
Matches: 186, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
78 3 0.02
79 156 0.84
80 27 0.15
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGTTAAATTCCGAAGGCATTTGTGCGAGATACTAA
TTCCGGGCTAAGC
Found at i:30168060 original size:32 final size:32
Alignment explanation
Indices: 30168020--30168100 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
30168010 TGAAATTCGT
*
30168020 TTGTTGGATTTTGAAATTATTATGTTTTAAAG-
1 TTGTTGGATATTGAAATTATTATGTTTT-AAGC
*
30168052 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
30168084 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
30168101 GATTGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:30169067 original size:19 final size:19
Alignment explanation
Indices: 30169043--30169079 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30169033 TGCTTTAATG
*
30169043 TGGTGTAGTACTAATTATA
1 TGGTGTAATACTAATTATA
*
30169062 TGGTGTAATACTAGTTAT
1 TGGTGTAATACTAATTAT
30169080 GCACTTAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (19 bp):
TGGTGTAATACTAATTATA
Found at i:30169609 original size:14 final size:14
Alignment explanation
Indices: 30169590--30169629 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
30169580 GAAAAGTAAT
30169590 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
30169604 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
30169618 CCATTTT-CAGAA
1 TCATTTTCCAGAA
30169630 CAAATGGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:30171426 original size:31 final size:31
Alignment explanation
Indices: 30171391--30171452 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
30171381 AGGGGCACTA
30171391 TCCTTACATACTTTCATCATTTTAGTTACTT
1 TCCTTACATACTTTCATCATTTTAGTTACTT
* *
30171422 TCCTTACATGCTTTTATCATTTTAGTTACTT
1 TCCTTACATACTTTCATCATTTTAGTTACTT
30171453 GACGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (31 bp):
TCCTTACATACTTTCATCATTTTAGTTACTT
Found at i:30171959 original size:14 final size:14
Alignment explanation
Indices: 30171940--30171969 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30171930 AATGACAAGT
30171940 AACTAAAAGGATAA
1 AACTAAAAGGATAA
*
30171954 AACTAAAATGATAA
1 AACTAAAAGGATAA
30171968 AA
1 AA
30171970 AATATGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AACTAAAAGGATAA
Found at i:30174175 original size:17 final size:17
Alignment explanation
Indices: 30174133--30174178 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
30174123 AATAATAAAT
30174133 AATA-ATAAAGAAATAA
1 AATATATAAAGAAATAA
30174149 AAT-TACTAAA-AAATAA
1 AATATA-TAAAGAAATAA
30174165 GAATATATAAAGAA
1 -AATATATAAAGAA
30174179 CTAGTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 10 0.40
17 11 0.44
18 4 0.16
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (17 bp):
AATATATAAAGAAATAA
Found at i:30175906 original size:21 final size:23
Alignment explanation
Indices: 30175880--30175926 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30175870 TGACATAGCA
30175880 TTTTT-AAT-TTAAAAAATTGAT
1 TTTTTAAATATTAAAAAATTGAT
* *
30175901 TTTTTAAATATTAAAATATTTAT
1 TTTTTAAATATTAAAAAATTGAT
30175924 TTT
1 TTT
30175927 CTTTTTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 3 0.14
23 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTAAATATTAAAAAATTGAT
Found at i:30176407 original size:23 final size:24
Alignment explanation
Indices: 30176381--30176426 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30176371 CCAAAATTGC
* *
30176381 AATATATAT-TTTCATAAAACAAT
1 AATATATATGATTCACAAAACAAT
30176404 AATATATATGATTCACAAAACAA
1 AATATATATGATTCACAAAACAA
30176427 AATTGGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATATATGATTCACAAAACAAT
Found at i:30176822 original size:3 final size:3
Alignment explanation
Indices: 30176814--30176848 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
30176804 TGGGAAGGGA
30176814 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
30176849 AATGAAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30184008 original size:69 final size:69
Alignment explanation
Indices: 30183881--30184484 Score: 446
Period size: 69 Copynumber: 8.8 Consensus size: 69
30183871 GAGTTTTTAA
* * * * * * * *
30183881 CTCTCG-TAAACTGTGTTGGAGGCTGC-GATCTTTATCCTGCAAGCCTTAGTATGGCAGTTGGGA
1 CTCTCGCT-AACTATGTTGGAGGCTACAG-TTTTTATCCTACGAGCCTTAATATGACAGCTGGGA
30183944 GCTTTG
64 GCTTTG
* * *
30183950 CTCTTGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGC
1 CTCTCGCTAACTATGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGACAGCTGGGAGC
*
30184015 TTTA
66 TTTG
** * * * * **
30184019 CTCTTACTAACTATATTGGAGGCTATAGTTTTTATCCTATGAGCCTTAGTATGATTGCTGGGAGC
1 CTCTCGCTAACTATGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGACAGCTGGGAGC
30184084 TTTG
66 TTTG
* * * * * * * *** * *
30184088 CTTTCGCTAACTGTGTTTGAGGTTGCAGTTTTTATTCTACAAATTTTAACATGACAACTGGGAGC
1 CTCTCGCTAACTATGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGACAGCTGGGAGC
30184153 TTTG
66 TTTG
* * * * ** * * * *
30184157 CTCTCACTAGCTATATTGGA-GCTGCAGTTTTTATCCTGTGAGCTTTAATAGGACAGTTGGGAAC
1 CTCTCGCTAACTATGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGACAGCTGGGAGC
*
30184221 TTTT
66 TTTG
* * * * * **
30184225 CTCTCGCTAACTATATTAGAGGCTA-TGATTTTTATCCTACGAGCATTAATATAACAGCTAAGAG
1 CTCTCGCTAACTATGTTGGAGGCTACAG-TTTTTATCCTACGAGCCTTAATATGACAGCTGGGAG
*
30184289 CTTTT
65 CTTTG
* * * * * * * * *
30184294 CTCTCTCTAACTATGTTGAAGGCTATGACTCTTCA-CTTACGAGCCTTAATATAACAGCTAGGAG
1 CTCTCGCTAACTATGTTGGAGGCTA-CAGTTTTTATCCTACGAGCCTTAATATGACAGCTGGGAG
30184358 CTTTG
65 CTTTG
* * *** * * * * * * *
30184363 CTCTCGCTAACTGTGTTGGAGGTTGTGGCTCTTCA-CCTGCAAGCCTTAATAAGACAGTTGGAAG
1 CTCTCGCTAACTATGTTGGAGGCTACAG-TTTTTATCCTACGAGCCTTAATATGACAGCTGGGAG
30184427 CTTTG
65 CTTTG
* * *
30184432 CTCTCGCTAATTATGTTGGAGGCTACGGTTTTTATCCTAGGAGCCTTAATATG
1 CTCTCGCTAACTATGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATG
30184485 GCATAAATGT
Statistics
Matches: 417, Mismatches: 110, Indels: 16
0.77 0.20 0.03
Matches are distributed among these distances:
68 57 0.14
69 354 0.85
70 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (69 bp):
CTCTCGCTAACTATGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGACAGCTGGGAGC
TTTG
Found at i:30184292 original size:206 final size:207
Alignment explanation
Indices: 30183939--30184310 Score: 478
Period size: 206 Copynumber: 1.8 Consensus size: 207
30183929 GTATGGCAGT
** * * *
30183939 TGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATGA
1 TGGGAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATAGGA
* * * * * *
30184004 CAGTTGGGAGCTTTACTCTTACTAACTATATTGGAGGCTATAGTTTTTATCCTATGAGCCTTAGT
66 CAGTTGGGAACTTTACTCTCACTAACTATATTAGAGGCTATAGTTTTTATCCTACGAGCATTAAT
* ** ** * *
30184069 ATGATTGCTGGGAGCTTTGCTTTCGCTAACTGTGTTTGAGGTTGCAGTTTTTATTCTACAAATTT
131 ATAACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTTGAGGTTGCAGTTTTTATTCTACAAATTT
30184134 TAACATGACAAC
196 TAACATGACAAC
* * ** *
30184146 TGGGAGCTTTGCTCTCACTAGCTATATTGGA-GCTGCAGTTTTTATCCTGTGAGCTTTAATAGGA
1 TGGGAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATAGGA
* *
30184210 CAGTTGGGAACTTTTCTCTCGCTAACTATATTAGAGGCTAT-GATTTTTATCCTACGAGCATTAA
66 CAGTTGGGAACTTTACTCTCACTAACTATATTAGAGGCTATAG-TTTTTATCCTACGAGCATTAA
* *
30184274 TATAACAGCTAAGAGCTTTTCTCTCTCTAACTATGTT
130 TATAACAGCTAAGAGCTTTGCTCTCGCTAACTATGTT
30184311 GAAGGCTATG
Statistics
Matches: 137, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
205 1 0.01
206 110 0.80
207 26 0.19
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (207 bp):
TGGGAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATAGGA
CAGTTGGGAACTTTACTCTCACTAACTATATTAGAGGCTATAGTTTTTATCCTACGAGCATTAAT
ATAACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTTGAGGTTGCAGTTTTTATTCTACAAATTT
TAACATGACAAC
Found at i:30196874 original size:93 final size:93
Alignment explanation
Indices: 30196715--30196927 Score: 327
Period size: 93 Copynumber: 2.3 Consensus size: 93
30196705 AAGAGAAAAC
* ** ** * *
30196715 CAAGAAGAAGATCAGCAAAGCTAAAGAATCTGTTGAACCTCCAAGGGGTTCATTAATTTCGGAAG
1 CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
30196780 TTGTCCAAGAGAAAACAGAGAAGAAGAA
66 TTGTCCAAGAGAAAACAGAGAAGAAGAA
* *
30196808 CAAGAAAAAGATCAGTAAAGCTGAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
1 CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
* *
30196873 TTGTCGAAGAGAAAACCGAGAAGAAGAA
66 TTGTCCAAGAGAAAACAGAGAAGAAGAA
30196901 CAAGAAGAAGATCAGTAAAGCTAAAGA
1 CAAGAAGAAGATCAGTAAAGCTAAAGA
30196928 TAACAAGGCT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.16
Consensus pattern (93 bp):
CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
TTGTCCAAGAGAAAACAGAGAAGAAGAA
Found at i:30201858 original size:36 final size:36
Alignment explanation
Indices: 30201818--30201889 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
30201808 ACTTAAGAGA
30201818 CACAAAGTTAGAATAATAATCTAAGAATGAAAATAC
1 CACAAAGTTAGAATAATAATCTAAGAATGAAAATAC
*
30201854 CACAAAGTTAGAATAATAATCTAAGACTGAAAATAC
1 CACAAAGTTAGAATAATAATCTAAGAATGAAAATAC
30201890 TAACTTGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.22
Consensus pattern (36 bp):
CACAAAGTTAGAATAATAATCTAAGAATGAAAATAC
Found at i:30207715 original size:3 final size:3
Alignment explanation
Indices: 30207707--30207731 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30207697 TAGAAATGGA
30207707 AGG AGG AGG AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG A
30207732 AGTGAAACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:30209007 original size:17 final size:18
Alignment explanation
Indices: 30208985--30209020 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30208975 ATCCTAGATG
*
30208985 TATTTTTT-TAAAATATT
1 TATTTTTTAAAAAATATT
30209002 TATTTTTTAAAAAATATT
1 TATTTTTTAAAAAATATT
30209020 T
1 T
30209021 GTTGATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTTAAAAAATATT
Found at i:30211080 original size:32 final size:32
Alignment explanation
Indices: 30211044--30211111 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
30211034 CACAAAACTA
30211044 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
1 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
30211076 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
1 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
30211108 -AAAA
1 GAAAA
30211112 CTTTCTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (32 bp):
GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
Found at i:30211553 original size:15 final size:15
Alignment explanation
Indices: 30211529--30211558 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30211519 TATTTATTAA
*
30211529 ATTAATTAATTTTCT
1 ATTAAATAATTTTCT
30211544 ATTAAATAATTTTCT
1 ATTAAATAATTTTCT
30211559 TAATCCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTAAATAATTTTCT
Found at i:30214421 original size:39 final size:39
Alignment explanation
Indices: 30214376--30214535 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
30214366 AATTATATTA
* * *
30214376 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
***
30214415 CCAGCACGAAGCCTATGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
*
30214454 CTAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
* *
30214493 CTAGCACGAAGCTTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
30214532 CCAG
1 CCAG
30214536 TGTCTTGCAT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
Found at i:30217996 original size:31 final size:29
Alignment explanation
Indices: 30217873--30218059 Score: 191
Period size: 29 Copynumber: 6.5 Consensus size: 29
30217863 GATCTCATTT
* *
30217873 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
*** * *
30217904 CACACACAGTG-CTC-GTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
30217931 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* *
30217960 CACACACAGTGCTTCAACAACCGATTTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
30217989 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
30218017 CACACACAGTGCCTCAACAACCGATCTCA
1 CACACACAGTGCCTCAACAACCGATCTCG
30218046 CACACACAGTGCCT
1 CACACACAGTGCCT
30218060 ATGTTCACTT
Statistics
Matches: 124, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
27 18 0.15
28 25 0.20
29 74 0.60
31 7 0.06
ACGTcount: A:0.30, C:0.37, G:0.16, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:30218041 original size:86 final size:85
Alignment explanation
Indices: 30217889--30218057 Score: 295
Period size: 86 Copynumber: 2.0 Consensus size: 85
30217879 CTTAGTGCCC
30217889 CAACAACCGATCTTGCACACACAGTGCTCGTTACAGAACTCGCACACACAGTGCCTCAACAACCG
1 CAACAACCGATCTTGCACACACAGTGCTCGTTACAGAACTCGCACACACAGTGCCTCAACAACCG
*
30217954 ATCTCGCACACACAGTGCTT
66 ATCTCACACACACAGTGCTT
*
30217974 CAACAACCGAT-TTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCTCAACAAC
1 CAACAACCGATCTT-GCACACACAGTGCTC-GTTACAGAACTCGCACACACAGTGCCTCAACAAC
30218038 CGATCTCACACACACAGTGC
64 CGATCTCACACACACAGTGC
30218058 CTATGTTCAC
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
84 2 0.03
85 26 0.32
86 52 0.65
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.17
Consensus pattern (85 bp):
CAACAACCGATCTTGCACACACAGTGCTCGTTACAGAACTCGCACACACAGTGCCTCAACAACCG
ATCTCACACACACAGTGCTT
Found at i:30220323 original size:39 final size:39
Alignment explanation
Indices: 30220268--30220418 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
30220258 TTACCAGACA
*
30220268 AAGCCTGCAGG-CTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
30220306 AAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
** *
30220345 AAGCCTGTAGGACTTTAGCCCGGATACATTTCTAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
30220384 AAGCTTGCGAGACTTTAGCCCGGATACATTTCCAG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
30220419 TGTCTTGCAT
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 9 0.09
39 92 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:30222718 original size:205 final size:205
Alignment explanation
Indices: 30222360--30222772 Score: 790
Period size: 205 Copynumber: 2.0 Consensus size: 205
30222350 TATTTTCAAT
30222360 ATAAGCTAAATCATGACCGAATTATCACTATAAGTGACAACATTAACAAACCATTTCCAAAACAT
1 ATAAGCTAAATCATGACCGAATTATCACTATAAGTGACAACATTAACAAACCATTTCCAAAACAT
30222425 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCATTTCAAATCAATAACAAAA
66 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCATTTCAAATCAATAACAAAA
*
30222490 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAATTAACTCAATTTCACATAAATTATCAAGAAAT
131 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAAGTAACTCAATTTCACATAAATTATCAAGAAAT
30222555 AAAATCAAAC
196 AAAATCAAAC
* * *
30222565 ATAAGTTAAATCATGACCGAATTATCACTATGAGTGACAACATTAACAAACCATTTCCAAAATAT
1 ATAAGCTAAATCATGACCGAATTATCACTATAAGTGACAACATTAACAAACCATTTCCAAAACAT
30222630 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCATTTCAAATCAATAACAAAA
66 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCATTTCAAATCAATAACAAAA
30222695 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAAGTAACTCAATTTCACATAAATTATCAAGAAAT
131 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAAGTAACTCAATTTCACATAAATTATCAAGAAAT
30222760 AAAATCAAAC
196 AAAATCAAAC
30222770 ATA
1 ATA
30222773 CCTCCAATTA
Statistics
Matches: 204, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
205 204 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.24
Consensus pattern (205 bp):
ATAAGCTAAATCATGACCGAATTATCACTATAAGTGACAACATTAACAAACCATTTCCAAAACAT
ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCATTTCAAATCAATAACAAAA
ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAAGTAACTCAATTTCACATAAATTATCAAGAAAT
AAAATCAAAC
Found at i:30223549 original size:25 final size:25
Alignment explanation
Indices: 30223504--30223573 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
30223494 AGCATCTCAG
* *
30223504 ATAATTTCGCCACTAAGGCTTCCCAA
1 ATAATTT-GCCACAAAGGCTTCACAA
* * *
30223530 ATAATTTGTCACAAAGGCTTTACAG
1 ATAATTTGCCACAAAGGCTTCACAA
*
30223555 GTAATTTGCCACAAAGGCT
1 ATAATTTGCCACAAAGGCT
30223574 GAGTTTGGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 30 0.81
26 7 0.19
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (25 bp):
ATAATTTGCCACAAAGGCTTCACAA
Found at i:30225512 original size:45 final size:45
Alignment explanation
Indices: 30225471--30225622 Score: 252
Period size: 45 Copynumber: 3.4 Consensus size: 45
30225461 CTATAGTATA
30225471 TTTCAACTATGGTCTTATTCGA-TTCCAGTATAGTGCCATAGTGTC
1 TTTCAACTATGGTCTTATTC-ATTTCCAGTATAGTGCCATAGTGTC
*
30225516 TTTCAACTATGGTCTTATTCATTTCCGGTATAGTGCCATAGTGTC
1 TTTCAACTATGGTCTTATTCATTTCCAGTATAGTGCCATAGTGTC
* * *
30225561 TTTCAACTATGGTCTTATTCATTTCTAGTATAATGCCATAGTGTT
1 TTTCAACTATGGTCTTATTCATTTCCAGTATAGTGCCATAGTGTC
30225606 TTTCAACTATGGTCTTA
1 TTTCAACTATGGTCTTA
30225623 CTCGTTTGAT
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
44 1 0.01
45 100 0.99
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTCAACTATGGTCTTATTCATTTCCAGTATAGTGCCATAGTGTC
Found at i:30225585 original size:21 final size:21
Alignment explanation
Indices: 30225516--30225585 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
30225506 CCATAGTGTC
30225516 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** * *
30225537 TTTCCGGTATAGTGCCATAGTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
30225561 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
30225582 TTTC
1 TTTC
30225586 TAGTATAATG
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.35
22 5 0.15
23 5 0.15
24 8 0.24
25 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:30225642 original size:45 final size:44
Alignment explanation
Indices: 30225456--30225672 Score: 179
Period size: 45 Copynumber: 4.8 Consensus size: 44
30225446 ATTTCCGACA
* * * * **
30225456 TGATGCTATAGTATATTTCAACTATGGTCTTATTCGATTCCAGTAT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTC-ATTTGA-TAT
* * *
30225502 AG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTAT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT--GATAT
* * *
30225547 AG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT-CTAGT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTGATA-T
* * * *
30225590 ATAATGCCATAGTGTTTTTCAACTATGGTCTTACTCGTTTGATTT
1 -TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTGATAT
***
30225635 GTGATGCCATAACATCTTTCAACTATGGTCTTACTCAT
1 -TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCAT
30225673 ATTTTAACCA
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 3 0.02
45 135 0.94
46 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (44 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTGATAT
Found at i:30225643 original size:90 final size:90
Alignment explanation
Indices: 30225456--30225672 Score: 260
Period size: 90 Copynumber: 2.4 Consensus size: 90
30225446 ATTTCCGACA
* * *
30225456 TGATGCTATAGTATATTTCAACTATGGTCTTATTCGA-TTCCAGTATAGTGCCATAGTGTCTTTC
1 TGATGCCATAGTATCTTTCAACTATGGTCTTATTC-ATTTCCAGTATAATGCCATAGTGTCTTTC
* *
30225520 AACTATGGTCTTATTCATTTCCGGTAT
65 AACTATGGTCTTACTCATTT-CGATAT
* * * *
30225547 AG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTAGTATAATGCCATAGTGTTTTTCA
1 TGATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCCAGTATAATGCCATAGTGTCTTTCA
* *
30225611 ACTATGGTCTTACTCGTTT-GATTT
66 ACTATGGTCTTACTCATTTCGATAT
** *
30225635 GTGATGCCATAACATCTTTCAACTATGGTCTTACTCAT
1 -TGATGCCATAGTATCTTTCAACTATGGTCTTATTCAT
30225673 ATTTTAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
88 3 0.03
89 2 0.02
90 101 0.94
91 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (90 bp):
TGATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCCAGTATAATGCCATAGTGTCTTTCA
ACTATGGTCTTACTCATTTCGATAT
Found at i:30232483 original size:43 final size:44
Alignment explanation
Indices: 30232346--30232486 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 44
30232336 TGTATAAAAG
* * *
30232346 CACGTCTGGGAC-GTTGGCATCGATATGTGATTTATGTGTAAGAC
1 CACGTCTGGGACAG-TGGCATCGGTATGTGAGTTACGTGTAAGAC
* ** * *
30232390 CATGTCTGGGACA-TCGATATC-GTATATGAGTT-CGTGTAAAAC
1 CACGTCTGGGACAGT-GGCATCGGTATGTGAGTTACGTGTAAGAC
*
30232432 C-CTGTCTGGGACAGTGGCATCGGTATGTGA-TTACATGTAAGAC
1 CAC-GTCTGGGACAGTGGCATCGGTATGTGAGTTACGTGTAAGAC
30232475 CACGTCTGGGAC
1 CACGTCTGGGAC
30232487 GTAGGCGTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
42 25 0.33
43 35 0.46
44 16 0.21
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
CACGTCTGGGACAGTGGCATCGGTATGTGAGTTACGTGTAAGAC
Found at i:30237996 original size:11 final size:11
Alignment explanation
Indices: 30237980--30238004 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30237970 AACAAAATGC
30237980 AATAAATTATT
1 AATAAATTATT
30237991 AATAAATTATT
1 AATAAATTATT
30238002 AAT
1 AAT
30238005 GAGTTTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAAATTATT
Found at i:30247291 original size:42 final size:42
Alignment explanation
Indices: 30247232--30247394 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
30247222 TAGGGTTACC
*
30247232 GAGACTAT-GTGTAAGACCATTTCTGGGATATGGCATC-ATCAT
1 GAGACT-TCGTGTAAGACCATATCTGGGATATGGCATCGAT-AT
30247274 GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
* * * * * *
30247316 GAGATTTTGTGTAAGACCATAGCTAGGCTATGGACATCGATAC
1 GAGACTTCGTGTAAGACCATATCTGGGATATGG-CATCGATAT
* *
30247359 GAGA-TCCTATGTAAGACCATATCTGGGATATGGCAT
1 GAGACTTC-GTGTAAGACCATATCTGGGATATGGCAT
30247395 TTGTATATTA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 68 0.65
43 35 0.34
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
Found at i:30247372 original size:43 final size:42
Alignment explanation
Indices: 30247283--30247394 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
30247273 TGAGACTTCG
* * * ** *
30247283 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTTG
1 TGTAAGACCATAGCTAGGATATGGCATCGATACGAGATCCTA
*
30247325 TGTAAGACCATAGCTAGGCTATGGACATCGATACGAGATCCTA
1 TGTAAGACCATAGCTAGGATATGG-CATCGATACGAGATCCTA
* *
30247368 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATAGCTAGGATATGGCAT
30247395 TTGTATATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTAGGATATGGCATCGATACGAGATCCTA
Found at i:30248278 original size:40 final size:42
Alignment explanation
Indices: 30248198--30248289 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
30248188 ACATGGGTAG
*
30248198 ACACACGGGCAGACACACGGGCGTGTGTCTATGCCGTGTGTC
1 ACACACGGGCAGACACACGGACGTGTGTCTATGCCGTGTGTC
*
30248240 ACACACGGGCAGACACACGGACGTGTGTCTATGCTGTGTGTC
1 ACACACGGGCAGACACACGGACGTGTGTCTATGCCGTGTGTC
30248282 ACACACGG
1 ACACACGG
30248290 CTTGCTCTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (42 bp):
ACACACGGGCAGACACACGGACGTGTGTCTATGCCGTGTGTC
Found at i:30251058 original size:47 final size:47
Alignment explanation
Indices: 30251018--30251321 Score: 511
Period size: 47 Copynumber: 6.4 Consensus size: 47
30251008 ATCACAGTTT
* * * *
30251018 TACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATA
1 TACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACA
*
30251065 TATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
30251112 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
30251159 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACA
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACA
30251208 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
30251255 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACA
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACA
30251304 TACACTTTCACATTCATC
1 TACACTTTCACATTCATC
30251322 GTAACAAAAT
Statistics
Matches: 246, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
47 174 0.71
48 2 0.01
49 70 0.28
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACA
Found at i:30251246 original size:96 final size:96
Alignment explanation
Indices: 30251018--30251321 Score: 533
Period size: 96 Copynumber: 3.2 Consensus size: 96
30251008 ATCACAGTTT
* * * * *
30251018 TACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCAT
1 TACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
30251082 CACATTGGCCATTCGGCCTTATCAC--ATACA
65 CACATTGGCCATTCGGCCTTATCACATATACA
30251112 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATC
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATC
30251177 ACATTGGCCATTCGGCCTTATCACATATACA
66 ACATTGGCCATTCGGCCTTATCACATATACA
30251208 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATC
1 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATC
30251273 ACATTGGCCATTCGGCCTTATCACATATACA
66 ACATTGGCCATTCGGCCTTATCACATATACA
30251304 TACACTTTCACATTCATC
1 TACACTTTCACATTCATC
30251322 GTAACAAAAT
Statistics
Matches: 202, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
94 81 0.40
95 2 0.01
96 119 0.59
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (96 bp):
TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATC
ACATTGGCCATTCGGCCTTATCACATATACA
Done.