Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 74 of 290
Found at i:24494177 original size:6 final size:6
Alignment explanation
Indices: 24494144--24494210 Score: 61
Period size: 6 Copynumber: 11.8 Consensus size: 6
24494134 AACAAAATTG
* * *
24494144 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-- AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
24494189 AAATAA GAATAA ATA-AA AAATA
1 AAATAA AAATAA AAATAA AAATA
24494211 GGAGCATTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.08
5 8 0.16
6 37 0.76
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:24494190 original size:21 final size:21
Alignment explanation
Indices: 24494156--24494206 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24494146 ATGAAAATAA
24494156 AAATCAAAAGAAAAATAAAAAT
1 AAAT-AAAAGAAAAATAAAAAT
* *
24494178 AAATAAAATAAAAATAAGAAT
1 AAATAAAAGAAAAATAAAAAT
24494199 AAATAAAA
1 AAATAAAA
24494207 AATAGGAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (21 bp):
AAATAAAAGAAAAATAAAAAT
Found at i:24499586 original size:13 final size:13
Alignment explanation
Indices: 24499564--24499596 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24499554 AAGGGTTTGT
24499564 TTAT-TAAACTAA
1 TTATCTAAACTAA
24499576 TTATCTAAACTAA
1 TTATCTAAACTAA
*
24499589 TTAACTAA
1 TTATCTAA
24499597 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:24503148 original size:40 final size:40
Alignment explanation
Indices: 24503074--24503207 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 40
24503064 TCTGAATTCT
* * *
24503074 TGAAAAGGTT-AAAAAGGTATATCCGAAATAGATATCAAA
1 TGAAAAGGTTGAAAAGGGTATATCTGAAATGGATATCAAA
*
24503113 TGAAAAGGTTGAAAAGGGTATATCTAAAATGGATATCAAA
1 TGAAAAGGTTGAAAAGGGTATATCTGAAATGGATATCAAA
* * * *
24503153 TGAAAAGGTTGAAAAGGATATATGTGAAACGGATATCCAA
1 TGAAAAGGTTGAAAAGGGTATATCTGAAATGGATATCAAA
* *
24503193 TTAAAAGGTTAAAAA
1 TGAAAAGGTTGAAAA
24503208 AGCTTGTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 10 0.12
40 73 0.88
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (40 bp):
TGAAAAGGTTGAAAAGGGTATATCTGAAATGGATATCAAA
Found at i:24525398 original size:16 final size:16
Alignment explanation
Indices: 24525379--24525409 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24525369 CTTCTTCACT
24525379 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24525395 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24525410 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24525415 original size:20 final size:20
Alignment explanation
Indices: 24525376--24525415 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24525366 AAACTTCTTC
* *
24525376 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24525396 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24525416 TTATTAATGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24529125 original size:25 final size:26
Alignment explanation
Indices: 24529068--24529128 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
24529058 ACATATTTTC
*
24529068 TCAAAATTTTACCAAAGGAAATATTG
1 TCAAAATTTTACCAAAGGAAATATTA
*
24529094 TCAAAATTTTTCC-AAGGTAAA-ATTA
1 TCAAAATTTTACCAAAGG-AAATATTA
*
24529119 TCTAAATTTT
1 TCAAAATTTT
24529129 GTTGAGGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (26 bp):
TCAAAATTTTACCAAAGGAAATATTA
Found at i:24533537 original size:49 final size:49
Alignment explanation
Indices: 24533475--24533580 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 49
24533465 CTGTGACCGC
* * * *
24533475 ATAACCACTATCAACTAGGA-TCCTGAGTTATACTCCAAC-CTGTGATTGT
1 ATAACCACTATCAACTAAGAGCCCT-AGTTATACTCCAACTC-ATGATCGT
*
24533524 ATAACCA-TCATCAACTAAGAGCCCTAGTTATACTTCAACTCATGATCGT
1 ATAACCACT-ATCAACTAAGAGCCCTAGTTATACTCCAACTCATGATCGT
24533573 ATAACCAC
1 ATAACCAC
24533581 CGTTAACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
48 1 0.02
49 43 0.90
50 4 0.08
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (49 bp):
ATAACCACTATCAACTAAGAGCCCTAGTTATACTCCAACTCATGATCGT
Found at i:24536530 original size:39 final size:41
Alignment explanation
Indices: 24536435--24536618 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
24536425 TTGAATGATG
*
24536435 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
24536474 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
24536514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
24536553 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
24536593 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24536619 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:24536570 original size:79 final size:81
Alignment explanation
Indices: 24536435--24536618 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
24536425 TTGAATGATG
24536435 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
24536498 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
24536513 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
24536574 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
24536593 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24536619 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:24536640 original size:79 final size:79
Alignment explanation
Indices: 24536487--24536651 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
24536477 GGACTAAGAT
* ** *
24536487 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
24536552 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
24536566 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
24536628 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
24536645 CCGAAGG
1 CCGAAGG
24536652 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:24538030 original size:48 final size:47
Alignment explanation
Indices: 24537958--24538118 Score: 171
Period size: 48 Copynumber: 3.4 Consensus size: 47
24537948 CGGGGTGTTA
* *
24537958 CATATCTGGGATATGGCATCGGCATCAGTATGAGATCCAATGCAAGAC
1 CATATCTGGGACATGGCATCGGCATCAGTATGAGATCC-ATGTAAGAC
* * * * * *
24538006 CATATCTGGGATATGGCATTGGCATCAATATGAGGTCCCGTATAAGAC
1 CATATCTGGGACATGGCATCGGCATCAGTATGAGAT-CCATGTAAGAC
* * *
24538054 CATGTCTGGGACATGGCATCGGCA-CCGTTATGAGACTTCATGTAAGAC
1 CATATCTGGGACATGGCATCGGCATCAG-TATGAGA-TCCATGTAAGAC
*
24538102 CATGTCTGGGACATGGC
1 CATATCTGGGACATGGC
24538119 TTTGATATGA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
47 1 0.01
48 91 0.96
49 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (47 bp):
CATATCTGGGACATGGCATCGGCATCAGTATGAGATCCATGTAAGAC
Found at i:24538141 original size:42 final size:42
Alignment explanation
Indices: 24538025--24538316 Score: 191
Period size: 42 Copynumber: 6.8 Consensus size: 42
24538015 GATATGGCAT
* * ** *
24538025 TGGCATCAATATGAGGTCCCGTATAAGACCATGTCTGGGACA
1 TGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACA
* *
24538067 TGGCATCGGCACCGTTATGAGACTTCATGTAAGACCATGTCTGGGACA
1 TGGCATC-G-A----TATGAGATTTCGTGTAAGACCATGTCTGGGACA
* * * * *
24538115 TGGCTTTGATATGATATTTTGTGTAAGACCATGTCTTGGACA
1 TGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACA
* *
24538157 TGG-AGCCGATACGAGA-TTCTGTGTAAGACCATAGT-TGGG-CTA
1 TGGCA-TCGATATGAGATTTC-GTGTAAGACCAT-GTCTGGGAC-A
* * * *
24538199 TTGGCATCGGTATGATATTACGTGTAAGACCATGTCTGAGACA
1 -TGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACA
* *
24538242 TGGCATCGTTATGAGATTTCGCGTAAGACCATAG-CTGGG-CTA
1 TGGCATCGATATGAGATTTCGTGTAAGACCAT-GTCTGGGAC-A
* * * * *
24538284 TTGTCTTCAATATGAGATTACATGTAAGACCAT
1 -TGGCATCGATATGAGATTTCGTGTAAGACCAT
24538317 ATCCAGGATA
Statistics
Matches: 193, Mismatches: 39, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
41 4 0.02
42 96 0.50
43 54 0.28
44 5 0.03
46 1 0.01
47 1 0.01
48 32 0.17
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACA
Found at i:24538242 original size:85 final size:85
Alignment explanation
Indices: 24538123--24538316 Score: 223
Period size: 85 Copynumber: 2.3 Consensus size: 85
24538113 CATGGCTTTG
** *
24538123 ATATGATATTTTGTGTAAGACCATGTCTTGGACATGG-AGCCGATACGAGA-TTCTGTGTAAGAC
1 ATATGATATTACGTGTAAGACCATGTCTTGGACATGGCA-CCGATACGAGATTTC-GCGTAAGAC
* *
24538186 CATAGTTGGGCTATTGGCATCG
64 CATAGCTGGGCTATTGGCATCA
* * * *
24538208 GTATGATATTACGTGTAAGACCATGTC-TGAGACATGGCATCGTTATGAGATTTCGCGTAAGACC
1 ATATGATATTACGTGTAAGACCATGTCTTG-GACATGGCACCGATACGAGATTTCGCGTAAGACC
* *
24538272 ATAGCTGGGCTATTGTCTTCA
65 ATAGCTGGGCTATTGGCATCA
* *
24538293 ATATGAGATTACATGTAAGACCAT
1 ATATGATATTACGTGTAAGACCAT
24538317 ATCCAGGATA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
84 2 0.02
85 86 0.93
86 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
ATATGATATTACGTGTAAGACCATGTCTTGGACATGGCACCGATACGAGATTTCGCGTAAGACCA
TAGCTGGGCTATTGGCATCA
Found at i:24547019 original size:21 final size:20
Alignment explanation
Indices: 24546995--24547038 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 20
24546985 TTGAAGTGAA
24546995 TGAATGAATATTTGTTAAGT
1 TGAATGAATATTTGTTAAGT
24547015 T---TGAATATTTGTTAAGTT
1 TGAATGAATATTTGTTAAG-T
24547033 TGAATG
1 TGAATG
24547039 GCATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
17 15 0.75
18 2 0.10
20 1 0.05
21 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (20 bp):
TGAATGAATATTTGTTAAGT
Found at i:24547021 original size:17 final size:17
Alignment explanation
Indices: 24546999--24547037 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
24546989 AGTGAATGAA
24546999 TGAATATTTGTTAAGTT
1 TGAATATTTGTTAAGTT
24547016 TGAATATTTGTTAAGTT
1 TGAATATTTGTTAAGTT
24547033 TGAAT
1 TGAAT
24547038 GGCATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (17 bp):
TGAATATTTGTTAAGTT
Found at i:24556228 original size:40 final size:40
Alignment explanation
Indices: 24556151--24556368 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
24556141 AAACCAAGTA
* *
24556151 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
24556190 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24556230 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24556270 CCTTCAGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
24556310 CCTTCGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
24556350 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24556369 TTATCATCCG
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 147 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24559520 original size:21 final size:21
Alignment explanation
Indices: 24559480--24559530 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
24559470 ATTTATATGA
* *
24559480 AAATATGATAGTAAATAAATAT
1 AAATATGATAGAAAAAAAAT-T
24559502 AAATAT-ATAGAAAAAAAATT
1 AAATATGATAGAAAAAAAATT
24559522 AAA-ATGATA
1 AAATATGATA
24559531 TATCAATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 7 0.27
21 11 0.42
22 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
AAATATGATAGAAAAAAAATT
Found at i:24561795 original size:23 final size:23
Alignment explanation
Indices: 24561759--24561803 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24561749 TTCATATTTT
24561759 TAAAAAGATAACAAAAA-AAAAG
1 TAAAAAGATAACAAAAATAAAAG
*
24561781 TAAAAGAGATCACAAAAATAAAA
1 TAAAA-AGATAACAAAAATAAAA
24561804 TATAATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (23 bp):
TAAAAAGATAACAAAAATAAAAG
Found at i:24562824 original size:17 final size:16
Alignment explanation
Indices: 24562801--24562853 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
24562791 ATATACATAA
24562801 TTATAAAATATATTAT
1 TTATAAAATATATTAT
* *
24562817 TTATTAAATTAAATTAT
1 TTA-TAAAATATATTAT
*
24562834 TTATAATAATATATTGT
1 TTATAA-AATATATTAT
24562851 TTA
1 TTA
24562854 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 6 0.20
17 24 0.80
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATAAAATATATTAT
Found at i:24567523 original size:20 final size:18
Alignment explanation
Indices: 24567490--24567531 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
24567480 TTTCCTTTTT
24567490 TTTTTTTTCTTTTTTAAC
1 TTTTTTTTCTTTTTTAAC
*
24567508 TTTTTTTTCTGCTTTTTCAC
1 TTTTTTTTCT--TTTTTAAC
24567528 TTTT
1 TTTT
24567532 ATATTTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTAAC
Found at i:24568559 original size:11 final size:11
Alignment explanation
Indices: 24568539--24568567 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24568529 TCTCTCTCTT
24568539 TATA-TATATA
1 TATATTATATA
24568549 TATATTATATA
1 TATATTATATA
24568560 TATATTAT
1 TATATTAT
24568568 TCATCCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATTATATA
Found at i:24574848 original size:21 final size:21
Alignment explanation
Indices: 24574822--24574861 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24574812 AGGGTTTATA
24574822 TTAAAAAACTATAAAAATGTT
1 TTAAAAAACTATAAAAATGTT
* *
24574843 TTAAAAAATTATTAAAATG
1 TTAAAAAACTATAAAAATG
24574862 ATAAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
TTAAAAAACTATAAAAATGTT
Found at i:24576212 original size:23 final size:23
Alignment explanation
Indices: 24576161--24576206 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24576151 TAGATTTTTC
24576161 CTAAATATGATCACAAAATAATT
1 CTAAATATGATCACAAAATAATT
* *
24576184 CTAAATATTATCACTAAATAATT
1 CTAAATATGATCACAAAATAATT
24576207 TGAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (23 bp):
CTAAATATGATCACAAAATAATT
Found at i:24583711 original size:48 final size:48
Alignment explanation
Indices: 24583640--24583782 Score: 286
Period size: 48 Copynumber: 3.0 Consensus size: 48
24583630 TGGAAAGTAT
24583640 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
1 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
24583688 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
1 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
24583736 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAA
1 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAA
24583783 CTAAGCCTTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 95 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (48 bp):
AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
Found at i:24585009 original size:16 final size:16
Alignment explanation
Indices: 24584988--24585027 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
24584978 CTGTATTAGC
24584988 CATTACGCGCGTATTA
1 CATTACGCGCGTATTA
24585004 CATTACGCGCGTATTA
1 CATTACGCGCGTATTA
24585020 CATTACGC
1 CATTACGC
24585028 CCCTAATCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (16 bp):
CATTACGCGCGTATTA
Found at i:24589471 original size:25 final size:26
Alignment explanation
Indices: 24589439--24589493 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
24589429 TTATTAAATT
*
24589439 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
24589464 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
24589489 A-ATAT
1 ATATAT
24589494 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:24589680 original size:44 final size:45
Alignment explanation
Indices: 24589631--24589725 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
24589621 TTACACCTCT
* *
24589631 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
24589675 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
24589720 ATTACA
1 ATTACA
24589726 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:24589725 original size:16 final size:16
Alignment explanation
Indices: 24589706--24589757 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
24589696 GATTTGCTAT
* *
24589706 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
24589722 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24589738 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24589754 TACA
1 TACA
24589758 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24596594 original size:19 final size:19
Alignment explanation
Indices: 24596570--24596618 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
24596560 AAAGTTCATT
**
24596570 CAATTTAGTTTAATTTTTA
1 CAATTTAGTCCAATTTTTA
24596589 CAATTTAGTCCAATTTTTA
1 CAATTTAGTCCAATTTTTA
24596608 CAATTTAGTCC
1 CAATTTAGTCC
24596619 TTGTACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (19 bp):
CAATTTAGTCCAATTTTTA
Found at i:24604368 original size:27 final size:25
Alignment explanation
Indices: 24604335--24604412 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
24604325 TGTAATAATG
24604335 ATATATACACAATATGGTATTAAGAA
1 ATATATACACAATATGGTATTAA-AA
* *
24604361 TATATATATACAATATAGTATTTAAAA
1 -ATATATACACAATATGGTA-TTAAAA
* *
24604388 ATATATACATAAGATGGTA-TAAAA
1 ATATATACACAATATGGTATTAAAA
24604412 A
1 A
24604413 CATGTACATG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.14
26 15 0.34
27 19 0.43
28 4 0.09
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATATACACAATATGGTATTAAAA
Found at i:24604410 original size:24 final size:23
Alignment explanation
Indices: 24604383--24604443 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
24604373 ATATAGTATT
24604383 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
* *
24604407 TAAAAACATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
24604431 TAAGAAATATATA
1 TAA-AAATATATA
24604444 TAATTAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 19 0.63
25 9 0.30
26 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:24604588 original size:21 final size:21
Alignment explanation
Indices: 24604563--24604618 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
24604553 ACACATATAT
*
24604563 ATATA-AATAATAGCATTAGAA
1 ATATACAAT-ATAACATTAGAA
*
24604584 ATATACAATATAATATTAGAA
1 ATATACAATATAACATTAGAA
24604605 ATATAC-ATATAACA
1 ATATACAATATAACA
24604619 ATATAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 21 0.68
22 3 0.10
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
ATATACAATATAACATTAGAA
Found at i:24604588 original size:23 final size:23
Alignment explanation
Indices: 24604561--24604676 Score: 98
Period size: 23 Copynumber: 5.2 Consensus size: 23
24604551 ACACACATAT
**
24604561 ATATATAAATAATAGCATTAGAA
1 ATATATAAATAATAATATTAGAA
*
24604584 ATATA-CAAT-ATAATATTAGAA
1 ATATATAAATAATAATATTAGAA
* * * * *
24604605 ATATACATATAACAATATAAAAA
1 ATATATAAATAATAATATTAGAA
*
24604628 ATATATAACTAATAATATTA-AA
1 ATATATAAATAATAATATTAGAA
*
24604650 ATATAT--ATAATAATATATAAAA
1 ATATATAAATAATAATAT-TAGAA
24604672 ATATA
1 ATATA
24604677 ATATTGAAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
20 9 0.12
21 17 0.23
22 20 0.27
23 29 0.39
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (23 bp):
ATATATAAATAATAATATTAGAA
Found at i:24604675 original size:8 final size:10
Alignment explanation
Indices: 24604611--24604679 Score: 54
Period size: 10 Copynumber: 6.8 Consensus size: 10
24604601 AGAAATATAC
*
24604611 ATATAACAAT
1 ATATAATAAT
*
24604621 ATA-AAAAAT
1 ATATAATAAT
24604630 ATATAACTAAT
1 ATATAA-TAAT
*
24604641 AATATTAAAATAT
1 -ATA-TAATA-AT
24604654 ATATAATAAT
1 ATATAATAAT
24604664 ATATAA-AA-
1 ATATAATAAT
24604672 ATATAATA
1 ATATAATA
24604680 TTGAAAACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 6 0.12
9 11 0.22
10 13 0.27
11 7 0.14
12 7 0.14
13 5 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
ATATAATAAT
Found at i:24604680 original size:23 final size:21
Alignment explanation
Indices: 24604593--24604676 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 21
24604583 AATATACAAT
*
24604593 ATAATATTAGAAATATACATATA
1 ATAATATTA-AAA-ATATATATA
* *
24604616 ACAATATAAAAAATATATAACTA
1 ATAATATTAAAAATATAT-A-TA
24604639 ATAATATT-AAAATATATATA
1 ATAATATTAAAAATATATATA
24604659 ATAATATATAAAAATATA
1 ATAATAT-TAAAAATATA
24604677 ATATTGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 21 0.40
23 15 0.29
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (21 bp):
ATAATATTAAAAATATATATA
Found at i:24604904 original size:17 final size:16
Alignment explanation
Indices: 24604878--24604909 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24604868 CTATATGTAA
24604878 ATATATATACATACAT
1 ATATATATACATACAT
24604894 ATATAATATACATACA
1 ATAT-ATATACATACA
24604910 CTAATGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:24604925 original size:3 final size:3
Alignment explanation
Indices: 24604917--24605074 Score: 53
Period size: 3 Copynumber: 52.7 Consensus size: 3
24604907 ACACTAATGT
*
24604917 TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA TAA TAA
* * * ** * *
24604963 TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG TAA TGAA
1 TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
24605009 -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA
* * **
24605052 TCA TAG TAA TAA TGT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
24605075 TGTAAAAAAA
Statistics
Matches: 111, Mismatches: 28, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
2 13 0.12
3 86 0.77
4 11 0.10
5 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:24610921 original size:73 final size:73
Alignment explanation
Indices: 24610802--24610949 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 73
24610792 ACTGTGATCC
* * *
24610802 CTCTTCCTTCTGCACTCCAAGCACCTAGCCTGAAGTGTTTCACCATACGCCTTAACTCTTGCCGC
1 CTCTTCCTGCTGCACTCCAAGCACCTAACCTGAAGTGTTTCACCATACGCCTTAACTCTTACCGC
24610867 GAACACTT
66 GAACACTT
* *
24610875 CTCTTCCTGCTGCACTCCAAGCACCTAACCTGAAGTGTTTTACCATACGCCTTAACTCTTACCTC
1 CTCTTCCTGCTGCACTCCAAGCACCTAACCTGAAGTGTTTCACCATACGCCTTAACTCTTACCGC
24610940 GAACACTT
66 GAACACTT
24610948 CT
1 CT
24610950 TCCAGCACTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.22, C:0.36, G:0.12, T:0.30
Consensus pattern (73 bp):
CTCTTCCTGCTGCACTCCAAGCACCTAACCTGAAGTGTTTCACCATACGCCTTAACTCTTACCGC
GAACACTT
Found at i:24613686 original size:20 final size:20
Alignment explanation
Indices: 24613656--24613700 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
24613646 CTGTTTTGTT
24613656 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
24613675 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
24613695 ATGGGC
1 ATGGGC
24613701 GAGGCCCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:24621598 original size:317 final size:315
Alignment explanation
Indices: 24620992--24621615 Score: 1054
Period size: 317 Copynumber: 2.0 Consensus size: 315
24620982 AAGGTCTATA
* * * * *
24620992 GGCCAAAGTCCAAGTTACTTTAAAAAAAACCAAAATAAATTACACGAGCCATGACTTGAACCCAG
1 GGCCAAAGTCCAAGTTACATTAAAAAAAACAAAAATAAATTACACGAACCAAGACTTGAACCCAA
* * *
24621057 GCTCCCTTGCAACCTTAAATACGCCACAACCACTATACCACAAGCTTTCTTGTGTCATTTATTTA
66 GCTCCCTTGCAACCTTAAATACGCCAAAACCACTAGACCACAAGCTTCCTTGTGTCATTTATTTA
* * *
24621122 CTACAATAATTTAAAAGGCCTTCATCCAAGCACCCAGGGTTTTATTCACTTAAAACCAATATTTT
131 CCACAATAATTTAAAAAGCCTTCATCCAAACACCCAGGGTTTTATTCACTTAAAACCAATATTTT
24621187 TGCTAATGCACAGGTTTGAACCCAAGATTTCTCCAACACTTTTCAGGGCCATTAACCACCAAAGT
196 TGCTAATGCACAGGTTTGAACCCAAGATTTCTCCAACACTTTTCAGGGCCATTAACCACCAAAGT
24621252 AGACATTTAATTTTGTCACTTCCTTGTACAATTAAATGCTTATATGTGGTTTCTC
261 AGACATTTAATTTTGTCACTTCCTTGTACAATTAAATGCTTATATGTGGTTTCTC
* *
24621307 GGCCAAAGTCCAGGTTCCATTAGAAGAAAAACAAAAATAAATTACAAC-AACCAAGACTTGAACC
1 GGCCAAAGTCCAAGTTACATTA-AA-AAAAACAAAAATAAATTAC-ACGAACCAAGACTTGAACC
*
24621371 CAAGCTCCCTTGCAACCTT-AATGATGCCAAAACCACTAGACCACAAGCTTCCTTGTGTCATTTA
63 CAAGCTCCCTTGCAACCTTAAAT-ACGCCAAAACCACTAGACCACAAGCTTCCTTGTGTCATTTA
* *
24621435 TTTACCATAATAATTTAAAAAGCCTTCATCCAAACACTCAGGGTTTTATTCACTTAAAACCAATA
127 TTTACCACAATAATTTAAAAAGCCTTCATCCAAACACCCAGGGTTTTATTCACTTAAAACCAATA
24621500 TTTTTGCTAATGCACAGGTTTGAACCCAAGATTTCTCCAACACTTTTCAGGGCCATTAACCACCA
192 TTTTTGCTAATGCACAGGTTTGAACCCAAGATTTCTCCAACACTTTTCAGGGCCATTAACCACCA
24621565 AAGTAGACATTTAATTTTGTCACTTCCTTGTACAATTAAATGCTTATATGT
257 AAGTAGACATTTAATTTTGTCACTTCCTTGTACAATTAAATGCTTATATGT
24621616 AACCTCCTTA
Statistics
Matches: 289, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
315 19 0.07
316 5 0.02
317 263 0.91
318 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (315 bp):
GGCCAAAGTCCAAGTTACATTAAAAAAAACAAAAATAAATTACACGAACCAAGACTTGAACCCAA
GCTCCCTTGCAACCTTAAATACGCCAAAACCACTAGACCACAAGCTTCCTTGTGTCATTTATTTA
CCACAATAATTTAAAAAGCCTTCATCCAAACACCCAGGGTTTTATTCACTTAAAACCAATATTTT
TGCTAATGCACAGGTTTGAACCCAAGATTTCTCCAACACTTTTCAGGGCCATTAACCACCAAAGT
AGACATTTAATTTTGTCACTTCCTTGTACAATTAAATGCTTATATGTGGTTTCTC
Found at i:24624664 original size:63 final size:63
Alignment explanation
Indices: 24624565--24624886 Score: 635
Period size: 63 Copynumber: 5.1 Consensus size: 63
24624555 ACCGATTTAC
24624565 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
1 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
24624628 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
1 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
24624691 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
1 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
24624754 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
1 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
24624817 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
1 GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
24624880 GGAAAAC
1 -GAAAAC
24624887 CGCGATCTAC
Statistics
Matches: 258, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
63 252 0.98
64 6 0.02
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (63 bp):
GAAAACGTGATGTTTAAACGTTAAGTTGTGAAAACATAGTGTTTTGAAAATAGGTATTATTTT
Found at i:24628960 original size:18 final size:18
Alignment explanation
Indices: 24628937--24628974 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
24628927 AGTAAGTTTG
24628937 TATAACAAGAATTAAACT
1 TATAACAAGAATTAAACT
24628955 TATAACAAGAATTAAACT
1 TATAACAAGAATTAAACT
24628973 TA
1 TA
24628975 CCAATCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (18 bp):
TATAACAAGAATTAAACT
Found at i:24635675 original size:29 final size:29
Alignment explanation
Indices: 24635642--24635715 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
24635632 GTTGTGAGAT
* *
24635642 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
24635671 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
24635700 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24635716 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:24648029 original size:18 final size:20
Alignment explanation
Indices: 24647993--24648039 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
24647983 ATTTGTAAGT
24647993 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
24648013 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
24648032 ATGATATA
1 AT-ATATA
24648040 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:24648511 original size:50 final size:50
Alignment explanation
Indices: 24648437--24648719 Score: 302
Period size: 50 Copynumber: 5.7 Consensus size: 50
24648427 TAAGACAGTT
24648437 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
* * * * * * *
24648487 TTAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTA-CACGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCA-GATTG
* * * * *
24648537 TTTCA-ATCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCATATGG
1 -TT-AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
* * * * *
24648588 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGCATCAGA-TG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
* * * *
24648637 ATAAGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
* * *
24648687 ATAGGTCGCATGTGTAGTACTAAGTGCAAGCTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTA
24648720 TTATCGTACC
Statistics
Matches: 190, Mismatches: 37, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
49 44 0.23
50 108 0.57
51 35 0.18
52 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
Found at i:24648569 original size:101 final size:98
Alignment explanation
Indices: 24648441--24648728 Score: 373
Period size: 101 Copynumber: 2.9 Consensus size: 98
24648431 ACAGTTTTAG
24648441 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* *
24648506 TTAAGTGCAGGCTACTATGCGTACACGATAGTTTCAA
66 CTAAGTGCAGGCTACTATGCGTACA-GAT-G-AT-AA
* * * * * *
24648543 -TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCATATGGTTAGGTCACGTGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* * *
24648607 CTAAGTGTAGGCTACTATGTGCATCAGATGATAA
66 CTAAGTGCAGGCTACTATGCGTA-CAGATGATAA
* * *
24648641 GTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* *
24648706 CTAAGTGCAAGCTATTAT-CGTAC
66 CTAAGTGCAGGCTACTATGCGTAC
24648729 CAGAGATCTT
Statistics
Matches: 159, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
97 1 0.01
98 4 0.03
99 71 0.45
100 1 0.01
101 80 0.50
102 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (98 bp):
GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACAGATGATAA
Found at i:24649539 original size:180 final size:180
Alignment explanation
Indices: 24649273--24649610 Score: 509
Period size: 180 Copynumber: 1.9 Consensus size: 180
24649263 TCCAAGAGCT
* * *
24649273 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGATAGTGAAACAGGGGTA
1 GTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAAACAGTGAAACAGGGGTA
* * * * *
24649338 TTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATT-TTAAAATTTTTATGTTAAGAAT
66 TCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAA-TTTTATGGTAAGAAG
* *
24649402 ATATGTGAGTATA-TTTTCTGGTAAAATTAGTGGTTTTCAATTTGGAGTCTC
130 ATATATGAGTATAGTTTT-AGGTAAAATTAGTGGTTTTCAATTTGGAGTCTC
* *
24649453 GTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAAACAGTGAAATAGGGGTA
1 GTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAAACAGTGAAACAGGGGTA
* *
24649518 TCTTTAATGAATAAGCTGTACTAATTGGCTAAACCAAAAATTCTGAACATTTTATGGTAAGAAGA
66 TCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGA
*
24649583 TATATGAGTCTAGTTTTAGGTAAAATTA
131 TATATGAGTATAGTTTTAGGTAAAATTA
24649611 ACAGATCTTA
Statistics
Matches: 141, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
180 133 0.94
181 8 0.06
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (180 bp):
GTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAAACAGTGAAACAGGGGTA
TCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGA
TATATGAGTATAGTTTTAGGTAAAATTAGTGGTTTTCAATTTGGAGTCTC
Found at i:24660555 original size:46 final size:46
Alignment explanation
Indices: 24660505--24660680 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
24660495 TGGTTGAGCA
*
24660505 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * ** *
24660551 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGAT--ATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAT-GC-AAACG
* *
24660598 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
24660644 TCCGAGCTCGTTGATTTGAGTTTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24660681 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24663666 original size:15 final size:15
Alignment explanation
Indices: 24663594--24663671 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
24663584 TATAGTATCG
*
24663594 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
* **
24663609 TATCCTGGACCTCTT
1 TATCTTGGATTTCTT
*
24663624 TATTTTGGATTTCTT
1 TATCTTGGATTTCTT
* * *
24663639 TAT-TCCGGGTTTCTC
1 TATCT-TGGATTTCTT
24663654 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
24663669 TAT
1 TAT
24663672 TCGATTTTCT
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:24666119 original size:46 final size:46
Alignment explanation
Indices: 24666069--24666244 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
24666059 TGGTTGAGCA
*
24666069 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
* *** * * ** *
24666115 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-ACTTATGGATGC-AAACG
* * *
24666162 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
* * *
24666208 CCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
24666245 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
Found at i:24666225 original size:93 final size:93
Alignment explanation
Indices: 24666066--24666236 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
24666056 GGATGGTTGA
* * *
24666066 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
24666131 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCAAGTTCGAGAGATGTAACTAG
* * * *
24666159 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
24666224 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
24666237 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCAAGTTCGAGAGATGTAACTAG
Found at i:24675373 original size:22 final size:21
Alignment explanation
Indices: 24675342--24675382 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24675332 CTCTTAACAC
*
24675342 AGGGGAACACGCCCATGTGGG
1 AGGGGAACACACCCATGTGGG
*
24675363 AGGGGCAACACACCCGTGTG
1 AGGGG-AACACACCCATGTG
24675383 ACAATTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.24, C:0.27, G:0.39, T:0.10
Consensus pattern (21 bp):
AGGGGAACACACCCATGTGGG
Found at i:24676850 original size:15 final size:15
Alignment explanation
Indices: 24676830--24676879 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
24676820 TAATCGAATA
24676830 GCATTGCATTTGCTC
1 GCATTGCATTTGCTC
24676845 GCATTGCATTTGCTC
1 GCATTGCATTTGCTC
* *
24676860 ACATTGCAATTTACTC
1 GCATTGC-ATTTGCTC
24676876 GCAT
1 GCAT
24676880 AACATGTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (15 bp):
GCATTGCATTTGCTC
Found at i:24678501 original size:43 final size:42
Alignment explanation
Indices: 24678442--24678537 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
24678432 TCCTAGGCGT
* * *
24678442 GGTCTTACATGTAATCAAACATCGATGCC-ACTATCCCAGACAG
1 GGTCTTACACGAAATCAAACA-CGATACCGA-TATCCCAGACAG
* * * *
24678485 GGTCTTACACGAAATCAGATACGATACCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAACACGATACCGATATCCCAGACAG
24678527 GGTCTTACACG
1 GGTCTTACACG
24678538 TAAAATAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGATACCGATATCCCAGACAG
Found at i:24688771 original size:53 final size:55
Alignment explanation
Indices: 24688703--24688843 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 55
24688693 TTCCTTTTTA
*
24688703 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
* ** * *
24688756 AACTCACCATTGCCATCCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
** * * *
24688811 AGTTTATCAATGCCATGTCTTGACATTGTCTTA
1 AACTTACCATTGCCATGTCTTGACATGGTCTTA
24688844 AATGATTTCA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.65
54 1 0.01
55 24 0.34
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
Found at i:24692533 original size:54 final size:54
Alignment explanation
Indices: 24692469--24692629 Score: 202
Period size: 54 Copynumber: 3.0 Consensus size: 54
24692459 AGAATTACTA
*
24692469 AAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAAGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTACCG
* **
24692523 AAATACCCCTGT-AGGATAGGATTA-TCGAAATACCCTTGTAGCATAGAAA-TACCG
1 AAATACCCCTGTAAGG-TAGAATTACT-GAAATACCCTTGTAGGGTA-AAATTACCG
* * * *
24692577 AAATACCCCTGTAGGGTAAAATTACTGAGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAAGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTACC
24692630 ATTTTGCCCC
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
53 7 0.08
54 77 0.86
55 6 0.07
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAAGGTAGAATTACTGAAATACCCTTGTAGGGTAAAATTACCG
Found at i:24692620 original size:27 final size:27
Alignment explanation
Indices: 24692461--24692628 Score: 178
Period size: 27 Copynumber: 6.2 Consensus size: 27
24692451 TAAGTTGTAG
* * *
24692461 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAA
24692488 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAA
* * *
24692515 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAA
* * **
24692542 GATTA-TCGAAATACCCTTGTAGCATAGA
1 AATTACT-GAAATACCCCTGTAGGGTA-A
*
24692570 AA-TACCGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAA
* * *
24692596 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAA
24692623 AATTAC
1 AATTAC
24692629 CATTTTGCCC
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.03
27 113 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAA
Found at i:24699989 original size:27 final size:26
Alignment explanation
Indices: 24699955--24700127 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 26
24699945 TGGATAAGTT
**
24699955 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGT-AG
24699982 GTAGAATTACCGAAATACCCCTGTAG
1 GTAGAATTACCGAAATACCCCTGTAG
*
24700008 GATAGAATTACCGAAATACCCCTATAG
1 G-TAGAATTACCGAAATACCCCTGTAG
* *
24700035 GATAGAATTACCAAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTA-G
*
24700063 GTAGAAATACCGAAATACCCCTGTAG
1 GTAGAATTACCGAAATACCCCTGTAG
* *
24700089 GATAGAATTACCGAGATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTA-G
*
24700117 GTAAAATTACC
1 GTAGAATTACC
24700128 ATTTTGCCCC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.04
27 120 0.93
28 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCCTGTAG
Found at i:24700041 original size:54 final size:54
Alignment explanation
Indices: 24699955--24700127 Score: 249
Period size: 54 Copynumber: 3.2 Consensus size: 54
24699945 TGGATAAGTT
** *
24699955 GTAGAATTACTAAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGT-AGGATAGAATTACCGAAATACCCTTGTAGG
* * *
24700009 ATAGAATTACCGAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGG
* *
24700063 GTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGG
*
24700117 GTAAAATTACC
1 GTAGAATTACC
24700128 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
53 3 0.03
54 102 0.97
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGG
Found at i:24700091 original size:81 final size:81
Alignment explanation
Indices: 24699956--24700128 Score: 265
Period size: 81 Copynumber: 2.1 Consensus size: 81
24699946 GGATAAGTTG
* *
24699956 TAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCG
24700021 AAATACCCCTATAGGA
66 AAATACCCCTATAGGA
* *
24700037 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCG
* * * *
24700102 AGATACCCTTGTAGGG
66 AAATACCCCTATAGGA
*
24700118 TAAAATTACCA
1 TAGAATTACCA
24700129 TTTTGCCCCT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCG
AAATACCCCTATAGGA
Found at i:24700651 original size:26 final size:27
Alignment explanation
Indices: 24700622--24700680 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
24700612 CCACATATAT
* *
24700622 ATATCTG-TTCTGGTGGCTTAGCCACA
1 ATATCTGCATCTGGTGACTTAGCCACA
* *
24700648 ATATCTGCATCTGGTGACTTCGTCACA
1 ATATCTGCATCTGGTGACTTAGCCACA
24700675 ATATCT
1 ATATCT
24700681 AGCAGCTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
ATATCTGCATCTGGTGACTTAGCCACA
Found at i:24703238 original size:39 final size:41
Alignment explanation
Indices: 24703143--24703326 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
24703133 TTGAATTCTG
*
24703143 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
24703182 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
24703222 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
24703261 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
24703301 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24703327 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:24703278 original size:79 final size:81
Alignment explanation
Indices: 24703143--24703326 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
24703133 TTGAATTCTG
24703143 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
24703206 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
24703221 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
24703282 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
24703301 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24703327 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:24703348 original size:79 final size:79
Alignment explanation
Indices: 24703195--24703359 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
24703185 GGACTAAGAT
* ** *
24703195 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
24703260 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
24703274 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
24703336 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
24703353 CCGAAGG
1 CCGAAGG
24703360 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:24706272 original size:408 final size:408
Alignment explanation
Indices: 24705517--24706743 Score: 2420
Period size: 408 Copynumber: 3.0 Consensus size: 408
24705507 TTAACACAAA
24705517 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
1 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
24705582 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
66 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
24705647 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
131 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
24705712 GATTTTCAATGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
196 GATTTTCAATGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
24705777 GCTTTAGCTGTCCAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
261 GCTTTAGCTGTCCAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
24705842 TTCAAGGATGCATCACTATAAATCACAACCTCTTTATCCGGTTCTAGTTGTACTAAGACAGGAGC
326 TTCAAGGATGCATCACTATAAATCACAACCTCTTTATCCGGTTCTAGTTGTACTAAGACAGGAGC
24705907 TTCAGTCAATAATGCCTT
391 TTCAGTCAATAATGCCTT
24705925 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
1 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
24705990 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
66 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
24706055 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
131 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
24706120 GATTTTCAATGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
196 GATTTTCAATGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
24706185 GCTTTAGCTGTCCAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
261 GCTTTAGCTGTCCAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
24706250 TTCAAGGATGCATCACTATAAATCACAACCTCTTTATCCGGTTCTAGTTGTACTAAGACAGGAGC
326 TTCAAGGATGCATCACTATAAATCACAACCTCTTTATCCGGTTCTAGTTGTACTAAGACAGGAGC
24706315 TTCAGTCAATAATGCCTT
391 TTCAGTCAATAATGCCTT
24706333 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
1 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
24706398 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
66 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
24706463 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
131 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
*
24706528 GATTTTCAACGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
196 GATTTTCAATGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
*
24706593 GCTTTAGCTGTCTAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
261 GCTTTAGCTGTCCAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
24706658 TTCAAGGATGCATCACTATAAATCACAACCTCTTTA-CTCGGTTCTAGTTGTACTAAGACAGGAG
326 TTCAAGGATGCATCACTATAAATCACAACCTCTTTATC-CGGTTCTAGTTGTACTAAGACAGGAG
24706722 CTTCAGTCAATAATGCCTT
390 CTTCAGTCAATAATGCCTT
24706741 TAA
1 TAA
24706744 CTTGTCAAAA
Statistics
Matches: 816, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
407 1 0.00
408 815 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (408 bp):
TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
GATTTTCAATGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
GCTTTAGCTGTCCAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
TTCAAGGATGCATCACTATAAATCACAACCTCTTTATCCGGTTCTAGTTGTACTAAGACAGGAGC
TTCAGTCAATAATGCCTT
Found at i:24707549 original size:10 final size:10
Alignment explanation
Indices: 24707536--24707560 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24707526 ATTGCAGTCA
24707536 ACCAATCCAT
1 ACCAATCCAT
24707546 ACCAATCCAT
1 ACCAATCCAT
24707556 ACCAA
1 ACCAA
24707561 GAATCACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (10 bp):
ACCAATCCAT
Found at i:24710636 original size:45 final size:45
Alignment explanation
Indices: 24710585--24710673 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
24710575 CTATCTGGTG
*
24710585 CTGAACCGCAAGGGCGATGAGATAGGCAAGGTCGATGACGTGCCT
1 CTGAACCGCAAGGGCGATGAAATAGGCAAGGTCGATGACGTGCCT
*
24710630 CTGAACCGCAAGGGTGATGAAATAGGCAAGGTCGATGACGTGCC
1 CTGAACCGCAAGGGCGATGAAATAGGCAAGGTCGATGACGTGCC
24710674 CTTGCGACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.35, T:0.16
Consensus pattern (45 bp):
CTGAACCGCAAGGGCGATGAAATAGGCAAGGTCGATGACGTGCCT
Found at i:24711709 original size:43 final size:43
Alignment explanation
Indices: 24711661--24711748 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
24711651 TGTAATGAGT
*
24711661 AAGATGTTAAACATGAAAAAGATGATAACTTGTTTGATCAATG
1 AAGATGTTAAACATGAAAAAGATGATAACTTGTTTGATAAATG
24711704 AAGATGTTAAACATGAAAAAGATGATAACTTGTTTGATAAATG
1 AAGATGTTAAACATGAAAAAGATGATAACTTGTTTGATAAATG
24711747 AA
1 AA
24711749 ATTTATGTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.30
Consensus pattern (43 bp):
AAGATGTTAAACATGAAAAAGATGATAACTTGTTTGATAAATG
Found at i:24725801 original size:40 final size:40
Alignment explanation
Indices: 24725741--24725876 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
24725731 CAATTGAGGA
*
24725741 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
24725781 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGTTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * * *
24725821 TTATTTTCGGGTTAAGTCTCGAAGGCATTTGTGCTGGCTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
24725861 TTATATCCGGGCTTAA
1 TTATATCCGGG-TTAA
24725877 AGACTCGCAG
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 81 0.95
41 4 0.05
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.37
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:24725990 original size:43 final size:43
Alignment explanation
Indices: 24725942--24726036 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
24725932 GCTGGTATTA
* *
24725942 TATTCGGGCCTTCGTTCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
**
24725985 TATTCGATCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
24726028 TATTCGGGC
1 TATTCGGGC
24726037 TTTCAATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
Found at i:24728705 original size:54 final size:54
Alignment explanation
Indices: 24728642--24728750 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
24728632 CTTTTAGATC
*
24728642 CAAAAAGCAAGAAGGAATAGAATGAGGGAGATAGGAGAAGCATTCAACTCAATG
1 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
24728696 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
1 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
24728750 C
1 C
24728751 CAAGGTAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.49, C:0.12, G:0.27, T:0.13
Consensus pattern (54 bp):
CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
Found at i:24755927 original size:46 final size:46
Alignment explanation
Indices: 24755894--24756359 Score: 656
Period size: 46 Copynumber: 10.1 Consensus size: 46
24755884 TGTTTCAAAT
* * * *
24755894 ATGGTCTTACTCATTTTCTGTCAGGTTGCCATAGTATCTTTCACCC
1 ATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
* * *
24755940 ATGGTCTTATGT-ATTTCCCCGTCATATTGCCATGGTATCTTTCAACC
1 ATGGTCTTAT-TCATTT-TCTGTCATGTTGCCATGGTATCTTTCAACC
* *
24755987 ATGGTCTTGTTCA-TTTCATGTCATGTTTCCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACC
*
24756033 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
* *
24756079 ATGGTCTTGTTCA-TTTCATGTCATGTTTCCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACC
*
24756125 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
* *
24756171 ATGGTCTTGTTCA-TTTCATGTCATGTTTCCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACC
*
24756217 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
*
24756263 ATGGTCTTGTTCA-TTTCATGTCATGTTGCCATGGTATCTTTCAA-C
1 ATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACC
* * *
24756308 ATGGTCTTATTCATTTCCCGTCATGTTACCATGGTATCTTTCAACC
1 ATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
24756354 ATGGTC
1 ATGGTC
24756360 CTACACATTT
Statistics
Matches: 375, Mismatches: 33, Indels: 24
0.87 0.08 0.06
Matches are distributed among these distances:
45 47 0.13
46 284 0.76
47 44 0.12
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
ATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
Found at i:24756091 original size:92 final size:92
Alignment explanation
Indices: 24755894--24756359 Score: 785
Period size: 92 Copynumber: 5.1 Consensus size: 92
24755884 TGTTTCAAAT
** * * * *
24755894 ATGGTCTTACTCATTTTC-TGTCAGGTTGCCATAGTATCTTTCACCCATGGTCTTATGT-ATTTC
1 ATGGTCTTGTTCA-TTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTAT-TCATTT-
* *
24755957 CCCGTCATATTGCCATGGTATCTTTCAACC
63 CCTGTCATGTTGCCATGGTATCTTTCAACC
24755987 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
1 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
24756052 GTCATGTTGCCATGGTATCTTTCAACC
66 GTCATGTTGCCATGGTATCTTTCAACC
24756079 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
1 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
24756144 GTCATGTTGCCATGGTATCTTTCAACC
66 GTCATGTTGCCATGGTATCTTTCAACC
24756171 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
1 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
24756236 GTCATGTTGCCATGGTATCTTTCAACC
66 GTCATGTTGCCATGGTATCTTTCAACC
* *
24756263 ATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTATCTTTCAA-CATGGTCTTATTCATTTCCC
1 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
*
24756327 GTCATGTTACCATGGTATCTTTCAACC
66 GTCATGTTGCCATGGTATCTTTCAACC
24756354 ATGGTC
1 ATGGTC
24756360 CTACACATTT
Statistics
Matches: 360, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
91 51 0.14
92 260 0.72
93 49 0.14
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (92 bp):
ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
GTCATGTTGCCATGGTATCTTTCAACC
Found at i:24756164 original size:138 final size:138
Alignment explanation
Indices: 24755894--24756359 Score: 738
Period size: 138 Copynumber: 3.4 Consensus size: 138
24755884 TGTTTCAAAT
* * * * *
24755894 ATGGTCTTACTCATTTTCTGTCAGGTTGCCATAGTATCTTTCACCCATGGTCTTATGT-ATTTCC
1 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTAT-TCATTT-C
* * *
24755958 CCGTCATATTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTA
64 CTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTA
24756023 TCTTTCAACC
129 TCTTTCAACC
* *
24756033 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCAT
1 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
* * *
24756098 GTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATC
66 GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTATC
24756163 TTTCAACC
131 TTTCAACC
* * *
24756171 ATGGTCTTGTTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
1 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
24756236 GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTATC
66 GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTATC
24756301 TTTCAA-C
131 TTTCAACC
* *
24756308 ATGGTCTTATTCATTTCCCGTCATGTTACCATGGTATCTTTCAACCATGGTC
1 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTC
24756360 CTACACATTT
Statistics
Matches: 301, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
137 49 0.16
138 198 0.66
139 54 0.18
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (138 bp):
ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTATC
TTTCAACC
Found at i:24758499 original size:8 final size:8
Alignment explanation
Indices: 24758486--24758510 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24758476 AATAAATAAC
24758486 AATAAAAT
1 AATAAAAT
24758494 AATAAAAT
1 AATAAAAT
24758502 AATAAAAT
1 AATAAAAT
24758510 A
1 A
24758511 TCTCATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:24758543 original size:19 final size:20
Alignment explanation
Indices: 24758509--24758546 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24758499 AATAATAAAA
*
24758509 TATCTCATTAAAATAATATT
1 TATCTAATTAAAATAATATT
24758529 TATCTAATT-AAATAATAT
1 TATCTAATTAAAATAATAT
24758547 AAAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TATCTAATTAAAATAATATT
Found at i:24763217 original size:20 final size:20
Alignment explanation
Indices: 24763179--24763218 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24763169 TCTAAACAGA
**
24763179 GTACAAAAGTACACCCAGGG
1 GTACAAAAGTACAAACAGGG
*
24763199 GTACCAAAGTACAAACAGGG
1 GTACAAAAGTACAAACAGGG
24763219 CATGTTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (20 bp):
GTACAAAAGTACAAACAGGG
Found at i:24763272 original size:41 final size:40
Alignment explanation
Indices: 24763194--24763358 Score: 215
Period size: 41 Copynumber: 4.0 Consensus size: 40
24763184 AAAGTACACC
* * *
24763194 CAGGGGTACCAAAGTACAAACAGGGCATGTTTTTGCAATAT
1 CAGGGGTACCAAAGTACAAACAGGGCACGTATGTGCAAT-T
* *
24763235 -AGAGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAAC-AGGGCACGTATGTGCAATT
*
24763275 CAGGGGTACCAAAGTACAAACAGGAGCACATATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAGG-GCACGTATGTGCAATT
* *
24763316 CAGGGGTACCAAAGTACAAACAAGGGCACGCATGTGTAATT
1 CAGGGGTACCAAAGTACAAAC-AGGGCACGTATGTGCAATT
24763357 CA
1 CA
24763359 TCATTATTCT
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 22 0.20
41 84 0.77
42 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAGGGCACGTATGTGCAATT
Found at i:24763298 original size:20 final size:20
Alignment explanation
Indices: 24763275--24763337 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
24763265 ATGTGCAATT
24763275 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * * * *
24763295 CAGGAGCA-CATATGTGCAATT
1 CAGGGGTACCA-AAGTACAA-A
24763316 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
24763336 CA
1 CA
24763338 AGGGCACGCA
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 12 0.40
22 2 0.07
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:24766525 original size:25 final size:22
Alignment explanation
Indices: 24766480--24766524 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24766470 TCCAAAGGTC
24766480 CTACAACAAGGACAGAGATCAT
1 CTACAACAAGGACAGAGATCAT
*
24766502 CTACAACAAGGAGAGAGATCAT
1 CTACAACAAGGACAGAGATCAT
24766524 C
1 C
24766525 AAGCTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (22 bp):
CTACAACAAGGACAGAGATCAT
Found at i:24769056 original size:40 final size:40
Alignment explanation
Indices: 24769012--24769239 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
24769002 GCTACTTGCT
24769012 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
24769052 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
24769092 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
24769132 CAAATTCCTTCGGGACTTAGCCCCGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
24769172 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
24769211 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
24769240 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:24769111 original size:80 final size:79
Alignment explanation
Indices: 24768979--24769235 Score: 367
Period size: 80 Copynumber: 3.2 Consensus size: 79
24768969 AAACCAAGTA
* * * *
24768979 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATA
24769042 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
24769058 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAG
*
24769123 TAACTCGCACAAATT
65 TAACTCGCACAAATG
* * *
24769138 CCTTCGGGACTTAGCCCCGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG-AATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTA-TAG
* *
24769202 TCACTAGCACAAATG
65 TAACTCGCACAAATG
24769217 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24769236 TTATCATCCG
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 58 0.36
80 103 0.64
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:24771244 original size:21 final size:21
Alignment explanation
Indices: 24771215--24771255 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24771205 TATAGGCAAC
**
24771215 CAAAACATGTTATTTAAAATA
1 CAAAACATGCCATTTAAAATA
*
24771236 CAAATCATGCCATTTAAAAT
1 CAAAACATGCCATTTAAAAT
24771256 CCATCCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
CAAAACATGCCATTTAAAATA
Found at i:24772139 original size:43 final size:43
Alignment explanation
Indices: 24772059--24772166 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
24772049 TAGCCCAACT
* *
24772059 ATGGTCTTACACAAAATCA-ATAATGATGCCAACGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
* *
24772101 ATGGTCCTACACATAATCACATAATGATACCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
24772144 ATGGTCTTACACATAATCACATA
1 ATGGTCTTACACATAATCACATA
24772167 TCGTTAATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 17 0.28
43 43 0.72
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
Found at i:24776912 original size:62 final size:62
Alignment explanation
Indices: 24776805--24776923 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
24776795 TTTCCTACTC
* * * *
24776805 ATTTCATTGTCTTAGATTTTGAAGCAGACAAGGAAATACCGATCATCCTTGGGAGACTGCTG
1 ATTTCATTATCTTAGATTTTGAAGCAAACAAGGAAATACCAATCATCCTTGAGAGACTGCTG
* * **
24776867 ATTTCATTATCTTAGATTTTGAAGCAAATAAGGAAGTGTCAATCATCCTTGAGAGAC
1 ATTTCATTATCTTAGATTTTGAAGCAAACAAGGAAATACCAATCATCCTTGAGAGAC
24776924 CTTTCTTAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (62 bp):
ATTTCATTATCTTAGATTTTGAAGCAAACAAGGAAATACCAATCATCCTTGAGAGACTGCTG
Found at i:24780056 original size:18 final size:18
Alignment explanation
Indices: 24780033--24780072 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
24780023 GGAAAGGACC
24780033 TTATACTGTCTATCGAGT
1 TTATACTGTCTATCGAGT
24780051 TTATACTGTCTATCGAGT
1 TTATACTGTCTATCGAGT
24780069 TTAT
1 TTAT
24780073 CCTTATGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATACTGTCTATCGAGT
Found at i:24784493 original size:17 final size:18
Alignment explanation
Indices: 24784471--24784504 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24784461 CTTCATTACC
24784471 TCATTCATCA-TCTCTCG
1 TCATTCATCATTCTCTCG
24784488 TCATTCATCATTCTCTC
1 TCATTCATCATTCTCTC
24784505 TTCTCTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.35, G:0.03, T:0.44
Consensus pattern (18 bp):
TCATTCATCATTCTCTCG
Found at i:24787875 original size:22 final size:19
Alignment explanation
Indices: 24787850--24787902 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
24787840 TTCGTATAAC
24787850 TAAATTGTATATGTTATATG
1 TAAATTGTATATG-TATATG
* *
24787870 CTTAAATTGAATGATGTGTATG
1 --TAAATTGTAT-ATGTATATG
24787892 TAAATTGTATA
1 TAAATTGTATA
24787903 AATGCCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
22 14 0.52
23 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (19 bp):
TAAATTGTATATGTATATG
Found at i:24788353 original size:57 final size:57
Alignment explanation
Indices: 24788285--24788425 Score: 248
Period size: 57 Copynumber: 2.5 Consensus size: 57
24788275 TGTTACAATT
24788285 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATGT-TGGAGAC
1 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATAT-TCTGGAGAC
**
24788342 AGGATTTAGCCTAGACCAGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
1 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
24788399 AGGATTTAGCCTAGACTGGTAATCCTA
1 AGGATTTAGCCTAGACTGGTAATCCTA
24788426 TTATACGATA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 1 0.01
57 78 0.99
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (57 bp):
AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
Found at i:24797778 original size:20 final size:21
Alignment explanation
Indices: 24797753--24797791 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24797743 TGGGCCCGTA
*
24797753 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
24797773 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
24797792 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:24801682 original size:27 final size:26
Alignment explanation
Indices: 24801626--24801682 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
24801616 CAACCTTAAC
* * * *
24801626 CCTAGGGGTATATGAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
24801652 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
24801679 CCTA
1 CCTA
24801683 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:24807874 original size:26 final size:26
Alignment explanation
Indices: 24807845--24807894 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
24807835 CCAGCACACC
*
24807845 AATATCACAGCAAAGCTGCCAGTAAT
1 AATAACACAGCAAAGCTGCCAGTAAT
* **
24807871 AATAACGCAGCGTAGCTGCCAGTA
1 AATAACACAGCAAAGCTGCCAGTA
24807895 GTAGTAAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
AATAACACAGCAAAGCTGCCAGTAAT
Found at i:24812592 original size:16 final size:18
Alignment explanation
Indices: 24812563--24812602 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
24812553 AGTTCGTTTC
24812563 GGTAGTAAATTAA-TGT-
1 GGTAGTAAATTAATTGTA
24812579 GGTAGT-AATATAATTGTA
1 GGTAGTAAAT-TAATTGTA
24812597 GGTAGT
1 GGTAGT
24812603 TCATGCATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 3 0.14
16 9 0.43
17 3 0.14
18 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (18 bp):
GGTAGTAAATTAATTGTA
Found at i:24816154 original size:7 final size:7
Alignment explanation
Indices: 24816142--24816167 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24816132 ATAATTATAT
24816142 TAAAATA
1 TAAAATA
24816149 TAAAATA
1 TAAAATA
24816156 TAAAATA
1 TAAAATA
24816163 TAAAA
1 TAAAA
24816168 ATATCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:24816358 original size:27 final size:26
Alignment explanation
Indices: 24816328--24816382 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
24816318 TTCATGTGTT
*
24816328 TATTTTTTA-AATTTATTAAATAATATA
1 TATTTTTAATAATTT-TTAAA-AATATA
24816355 TA-TTTTAATAATTTTTAAAAATATA
1 TATTTTTAATAATTTTTAAAAATATA
24816380 TAT
1 TAT
24816383 ATTCTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 8 0.32
26 10 0.40
27 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTTTTAATAATTTTTAAAAATATA
Found at i:24820571 original size:33 final size:33
Alignment explanation
Indices: 24820529--24820595 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
24820519 TTTTTTCTTA
24820529 CCAAGCATGCTAATGGAAATATATATATGTTCT
1 CCAAGCATGCTAATGGAAATATATATATGTTCT
24820562 CCAAGCATGCTAATGGAAATATATATATGTTCT
1 CCAAGCATGCTAATGGAAATATATATATGTTCT
24820595 C
1 C
24820596 TATCCTCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (33 bp):
CCAAGCATGCTAATGGAAATATATATATGTTCT
Found at i:24828030 original size:23 final size:23
Alignment explanation
Indices: 24827995--24828050 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
24827985 ACATCCATTA
24827995 AAAATCTAAACTCA-TAAAATTT
1 AAAATCTAAACTCATTAAAATTT
*
24828017 AAAATCTAACACTCATTAATATTT
1 AAAATCTAA-ACTCATTAAAATTT
*
24828041 AAAATTTAAA
1 AAAATCTAAA
24828051 TTGATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 6 0.20
24 15 0.50
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATCTAAACTCATTAAAATTT
Found at i:24832440 original size:25 final size:25
Alignment explanation
Indices: 24832393--24832471 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
24832383 TTAGCTCTTT
* *
24832393 TGAGCTTACCGATACTCAGCTCGTA
1 TGAGCTTACCGTTATTCAGCTCGTA
* * *
24832418 TGAGCTTAGCGTTATTCATCTCGGA
1 TGAGCTTACCGTTATTCAGCTCGTA
* * *
24832443 GGAGCTTATCGTT-TACAGCTCGTA
1 TGAGCTTACCGTTATTCAGCTCGTA
24832467 TGAGC
1 TGAGC
24832472 ATACATGTAC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 12 0.28
25 31 0.72
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (25 bp):
TGAGCTTACCGTTATTCAGCTCGTA
Found at i:24834668 original size:15 final size:15
Alignment explanation
Indices: 24834650--24834680 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24834640 TGAACAATGA
24834650 AAAAATATGCAATAT
1 AAAAATATGCAATAT
24834665 AAAAATATGCAATAT
1 AAAAATATGCAATAT
24834680 A
1 A
24834681 TGGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAATATGCAATAT
Found at i:24853606 original size:13 final size:13
Alignment explanation
Indices: 24853588--24853612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24853578 GTAATTGATT
24853588 TTGATGATTTTTC
1 TTGATGATTTTTC
24853601 TTGATGATTTTT
1 TTGATGATTTTT
24853613 GTATTTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:24856215 original size:9 final size:9
Alignment explanation
Indices: 24856197--24856226 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24856187 ATACTCCAAG
24856197 TCCCCCACC
1 TCCCCCACC
*
24856206 TCCCCTACC
1 TCCCCCACC
24856215 TCCCCCACC
1 TCCCCCACC
24856224 TCC
1 TCC
24856227 TCAAATTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.73, G:0.00, T:0.17
Consensus pattern (9 bp):
TCCCCCACC
Found at i:24862969 original size:20 final size:21
Alignment explanation
Indices: 24862931--24862969 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24862921 TCTTAATGAT
24862931 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
24862952 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
24862970 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:24863441 original size:20 final size:21
Alignment explanation
Indices: 24863403--24863441 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24863393 TGATGGCATT
*
24863403 TCCCGATGATCCTCGAGTCGG
1 TCCCGACGATCCTCGAGTCGG
24863424 TCCCGACGATCC-CGAGTC
1 TCCCGACGATCCTCGAGTC
24863442 CGAGCTAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (21 bp):
TCCCGACGATCCTCGAGTCGG
Found at i:24863526 original size:38 final size:38
Alignment explanation
Indices: 24863484--24863564 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
24863474 AAGAACACAC
*
24863484 AAAGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAAT
1 AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
24863522 AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
1 AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
24863560 AAAGT
1 AAAGT
24863565 CATCATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (38 bp):
AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
Found at i:24863529 original size:20 final size:20
Alignment explanation
Indices: 24863504--24863564 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
24863494 TTAAAAGCTT
24863504 AGTAAGCCATATACAAATAA
1 AGTAAGCCATATACAAATAA
* * *
24863524 AGTAAG-C-TTTA-AAAGATT
1 AGTAAGCCATATACAAATA-A
24863542 AGTAAGCCATATACAAATAA
1 AGTAAGCCATATACAAATAA
24863562 AGT
1 AGT
24863565 CATCATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.13
18 9 0.29
19 2 0.06
20 12 0.39
21 4 0.13
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (20 bp):
AGTAAGCCATATACAAATAA
Found at i:24863547 original size:18 final size:18
Alignment explanation
Indices: 24863486--24863548 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
24863476 GAACACACAA
*
24863486 AGTAAGCTTTAAAAGCTT
1 AGTAAGCTTTAAAAGATT
* * *
24863504 AGTAAGCCATATACAA-ATAA
1 AGTAAG-C-TTTAAAAGAT-T
24863524 AGTAAGCTTTAAAAGATT
1 AGTAAGCTTTAAAAGATT
24863542 AGTAAGC
1 AGTAAGC
24863549 CATATACAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 18 0.53
19 5 0.15
20 11 0.32
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AGTAAGCTTTAAAAGATT
Found at i:24863911 original size:43 final size:42
Alignment explanation
Indices: 24863819--24863960 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 42
24863809 TATAGCTCAT
* **
24863819 ACAATGCCATATCCCAGATATGGTCTTACATGTTATCACATA
1 ACAATGCCATGTCCCAGATATGGTCTTACATGAAATCACATA
* * * *
24863861 TCGATGCCACTGTCCCAGATAGGGTCTTACATGAAATCGA-TTA
1 ACAATGCCA-TGTCCCAGATATGGTCTTACATGAAATC-ACATA
* * *
24863904 ACAATGCCAATGTCCGAGATATGGTCTTACACGTAATCACA-A
1 ACAATGCC-ATGTCCCAGATATGGTCTTACATGAAATCACATA
24863946 TACAATGCCAATGTC
1 -ACAATGCC-ATGTC
24863961 AAAGGAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 9 0.11
43 70 0.86
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
ACAATGCCATGTCCCAGATATGGTCTTACATGAAATCACATA
Found at i:24871105 original size:43 final size:43
Alignment explanation
Indices: 24870941--24871107 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
24870931 AACTCTTACA
* * ** *
24870941 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAT-G
** * * *
24870983 ATGCTGATAG-CCCAG-CTATGGTCTTACACAAAATCAAATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACATAATCACATAATG
** * ***
24871026 ATGCCAATGTCTTAGACACGGTCTTACATGCAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
24871069 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
24871108 CTCGTTAATC
Statistics
Matches: 94, Mismatches: 25, Indels: 11
0.72 0.19 0.08
Matches are distributed among these distances:
42 5 0.05
43 87 0.93
44 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
Found at i:24873422 original size:46 final size:46
Alignment explanation
Indices: 24873355--24873480 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
24873345 AACCCGCCCC
* * * * *
24873355 TAAGTGAACTAGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
24873401 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
24873447 TAGGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24873481 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24873936 original size:30 final size:30
Alignment explanation
Indices: 24873902--24873962 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24873892 CATTTAATAC
24873902 AAACTTTAAAAAAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
*** *
24873932 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
24873962 A
1 A
24873963 TGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
AAACTTTAAAAAAATTACACTTTTGCCCCT
Found at i:24881095 original size:43 final size:43
Alignment explanation
Indices: 24880947--24881097 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 43
24880937 TATCCCAGAT
** * *
24880947 ATGGTCTTACATGTTATCACATATA-GATGCCGATAG-CCC-AAC
1 ATGGTCTTACACATAATCACATA-ACGATGCCAAT-GTCCCAAAC
* * *
24880989 TATGGTCTTACACAAAATCAAATAACGATGCCAATGTCTCAAAC
1 -ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
* * *
24881033 ATGGTCTTACACGTAATCACATAATGATGCTAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
24881076 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
24881098 CTCGTTAATC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.02
43 86 0.95
44 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
Found at i:24885249 original size:40 final size:40
Alignment explanation
Indices: 24885187--24885364 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
24885177 AAGCCAAGTA
* * *
24885187 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
24885226 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24885266 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
24885306 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
24885346 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24885365 TTATCATCCA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24892376 original size:77 final size:77
Alignment explanation
Indices: 24892240--24892391 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
24892230 CATCTCCCTG
*
24892240 TACAGGGCTTCAATACTGATGGCGTTTGTTTCTATAGAAACTAGACTCAAAAAATAATCTATACA
1 TACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAAAATAATCTATACA
24892305 TATATGGCATAA
66 TATATGGCATAA
*
24892317 TACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTC-GAAAATGAATCTATAC
1 TACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAAAAT-AATCTATAC
24892381 ATATATGGCAT
65 ATATATGGCAT
24892392 GACTTCTAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 5 0.07
77 67 0.93
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (77 bp):
TACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAAAATAATCTATACA
TATATGGCATAA
Found at i:24895462 original size:8 final size:8
Alignment explanation
Indices: 24895449--24895473 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24895439 CTAGGGTTTG
24895449 TTTCAAGC
1 TTTCAAGC
24895457 TTTCAAGC
1 TTTCAAGC
24895465 TTTCAAGC
1 TTTCAAGC
24895473 T
1 T
24895474 CCATAGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TTTCAAGC
Found at i:24907140 original size:18 final size:18
Alignment explanation
Indices: 24907117--24907151 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24907107 TGTGTTAAAT
24907117 TTTCATGAAGAAATTCTG
1 TTTCATGAAGAAATTCTG
24907135 TTTCATGAAGAAATTCT
1 TTTCATGAAGAAATTCT
24907152 AAGTATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTCATGAAGAAATTCTG
Found at i:24915289 original size:39 final size:39
Alignment explanation
Indices: 24915246--24915321 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
24915236 AAAGTTCGTG
24915246 TAACATGAATATGTATGCTAATTTTCCTAAAATGAATCA
1 TAACATGAATATGTATGCTAATTTTCCTAAAATGAATCA
*
24915285 TAACATGAATATGTATGTTAATTTTCCTAAAATGAAT
1 TAACATGAATATGTATGCTAATTTTCCTAAAATGAAT
24915322 TATGTAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (39 bp):
TAACATGAATATGTATGCTAATTTTCCTAAAATGAATCA
Found at i:24918333 original size:22 final size:22
Alignment explanation
Indices: 24918308--24918351 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24918298 GCCAAAATAA
24918308 AGCCAAAACAATTGTCTATCTT
1 AGCCAAAACAATTGTCTATCTT
24918330 AGCCAAAACAATTGTCTATCTT
1 AGCCAAAACAATTGTCTATCTT
24918352 CTTCCTCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
AGCCAAAACAATTGTCTATCTT
Found at i:24921833 original size:20 final size:20
Alignment explanation
Indices: 24921808--24921846 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24921798 TGTTATGGGT
24921808 CAACTGTATTAAAATGGGCC
1 CAACTGTATTAAAATGGGCC
* *
24921828 CAACTGTGTTAATATGGGC
1 CAACTGTATTAAAATGGGC
24921847 AAGGCCCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (20 bp):
CAACTGTATTAAAATGGGCC
Found at i:24923090 original size:34 final size:35
Alignment explanation
Indices: 24923039--24923110 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
24923029 ATTCTGTAGT
*
24923039 TAGGGTAATACTGAAACTATAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTATAGAAGACTGAGACAG
* *
24923073 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTATAGAAGACTGAGACAG
24923108 TAG
1 TAG
24923111 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTATAGAAGACTGAGACAG
Done.