Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 69 of 221
Found at i:20075744 original size:15 final size:16
Alignment explanation
Indices: 20075708--20075746 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
20075698 CAAAAATGTA
*
20075708 ATTTTTTCAAAATATG
1 ATTTTTGCAAAATATG
20075724 ATTTTTGCAAAATATG
1 ATTTTTGCAAAATATG
20075740 ATTTTTG
1 ATTTTTG
20075747 GGCTAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (16 bp):
ATTTTTGCAAAATATG
Found at i:20076178 original size:51 final size:52
Alignment explanation
Indices: 20076052--20076180 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 52
20076042 ACTAGTGACT
*
20076052 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCA
* * *
20076104 CAAGTGTGGTATTATTTGAAGGCCACTTTATGAAG-AAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTC-A
* *
20076155 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
20076181 CGGGTATCCG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.01
51 35 0.51
52 32 0.47
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCA
Found at i:20083070 original size:42 final size:42
Alignment explanation
Indices: 20082962--20083120 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
20082952 AGCTCATACA
* * * *
20082962 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCATAT-ATG
* * *
20083005 ATTCC-ACTGTCCCAGATAGGGTCTTACACGTAATCATATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCATATATG
* * * *
20083047 ACGCCAATGTCCCAGATATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCAT-ATAT-G
*
20083091 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
20083121 ATATCACATT
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 30 0.32
43 38 0.40
44 27 0.28
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCATATATG
Found at i:20086630 original size:29 final size:29
Alignment explanation
Indices: 20086588--20086647 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
20086578 GACTGAAATG
20086588 GAGATATAGGAATGGATAATATGAGTACA
1 GAGATATAGGAATGGATAATATGAGTACA
20086617 GAGATATAGGAATGGATAATATGAGTACA
1 GAGATATAGGAATGGATAATATGAGTACA
20086646 GA
1 GA
20086648 CTTGTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.28, T:0.23
Consensus pattern (29 bp):
GAGATATAGGAATGGATAATATGAGTACA
Found at i:20100196 original size:104 final size:104
Alignment explanation
Indices: 20100074--20100297 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
20100064 AATGGATATC
20100074 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20100139 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
20100178 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20100243 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
20100282 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
20100298 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:20100659 original size:29 final size:29
Alignment explanation
Indices: 20100626--20100689 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
20100616 TAATCCACCA
20100626 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
20100655 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
20100685 CCCAA
1 CCCAA
20100690 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:20100663 original size:30 final size:30
Alignment explanation
Indices: 20100633--20100689 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20100623 CCACCCAACT
20100633 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
20100662 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
20100690 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:20101528 original size:12 final size:12
Alignment explanation
Indices: 20101511--20101540 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20101501 CAGAACATGC
20101511 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
20101523 CCGTGTGCTAGG
1 CCGTGTGCCAGG
20101535 CCGTGT
1 CCGTGT
20101541 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:20102717 original size:25 final size:25
Alignment explanation
Indices: 20102673--20102742 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
20102663 CTGTACATGT
*
20102673 ATGCTCACACGAGCTATGAATCA-A
1 ATGCTCACACGAGCTGTGAATCAGA
* *
20102697 TATTCTTACACGAGCTGTGAATCAGA
1 -ATGCTCACACGAGCTGTGAATCAGA
20102723 ATGCTCACACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
20102743 AATAGGCCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAGA
Found at i:20105790 original size:137 final size:137
Alignment explanation
Indices: 20105544--20105817 Score: 512
Period size: 137 Copynumber: 2.0 Consensus size: 137
20105534 CAAACCGATG
*
20105544 TGAGTTTTTGTAAACTCAGTGTGTAACCCAACAGAGATAGCCATGGAACATACACAGAATTTCAT
1 TGAGTTTTTGTAAACTCAGTGTGTAACCCAACAGAGATAGCCATGCAACATACACAGAATTTCAT
*
20105609 ATACAGTCAGATATAGATTCGGACCTAAGTCCATAACAGAAACAAATATCGGAATCAGATAATTG
66 ATACAGTCAGATATAGATTCGGACCTAAGTCCATAACAGAAACAAATATCAGAATCAGATAATTG
20105674 GTAAGAT
131 GTAAGAT
20105681 TGAGTTTTTGTAAACTCAGTGTGTAACCCAACAGAGATAGCCATGCAACATACACAGAATTTCAT
1 TGAGTTTTTGTAAACTCAGTGTGTAACCCAACAGAGATAGCCATGCAACATACACAGAATTTCAT
* *
20105746 ATACAGTCAGATATAGATTCGGACCTAAGTCCATAACGGAAACAAATATTAGAATCAGATAATTG
66 ATACAGTCAGATATAGATTCGGACCTAAGTCCATAACAGAAACAAATATCAGAATCAGATAATTG
20105811 GTAAGAT
131 GTAAGAT
20105818 GTACAAAATC
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (137 bp):
TGAGTTTTTGTAAACTCAGTGTGTAACCCAACAGAGATAGCCATGCAACATACACAGAATTTCAT
ATACAGTCAGATATAGATTCGGACCTAAGTCCATAACAGAAACAAATATCAGAATCAGATAATTG
GTAAGAT
Found at i:20108311 original size:35 final size:34
Alignment explanation
Indices: 20108272--20108350 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
20108262 CCGGTAATCT
* * *
20108272 GACTAGCGTTGGGCACAATTATTTGTCGATTATTC
1 GACTAGCGCTGGGCACAACTA-TTGTCGATTATCC
* * *
20108307 GACTAGTGCTGGGCACAACTATTGTTGGTTATCC
1 GACTAGCGCTGGGCACAACTATTGTCGATTATCC
20108341 GACTAGCGCT
1 GACTAGCGCT
20108351 CGGCGCAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 19 0.51
35 18 0.49
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (34 bp):
GACTAGCGCTGGGCACAACTATTGTCGATTATCC
Found at i:20109588 original size:38 final size:38
Alignment explanation
Indices: 20109530--20109639 Score: 125
Period size: 38 Copynumber: 2.9 Consensus size: 38
20109520 AACATTTACT
* *
20109530 ACACCGACA-TCAAGCTTGCTACGCACTAAGCCTGAATA
1 ACACCGACACT-AAGCCTGCTAAGCACTAAGCCTGAATA
* *
20109568 ACACC-AGCACTAAGCCTGCTAAGCACTAAGCTTGATTA
1 ACACCGA-CACTAAGCCTGCTAAGCACTAAGCCTGAATA
* * *
20109606 ACATCGATACTAAGCCTACTAAGCACTAAGCCTG
1 ACACCGACACTAAGCCTGCTAAGCACTAAGCCTG
20109640 CTAGACACTA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.02
38 58 0.95
39 2 0.03
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (38 bp):
ACACCGACACTAAGCCTGCTAAGCACTAAGCCTGAATA
Found at i:20114869 original size:40 final size:41
Alignment explanation
Indices: 20114825--20114925 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 41
20114815 GCTTAGAGCT
*
20114825 TAGCAGGCTTATTGCCGGTGAAACACTTCAGAC-AAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
20114865 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
20114906 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
20114926 TACTGAATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 33 0.60
41 22 0.40
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:20122452 original size:41 final size:41
Alignment explanation
Indices: 20122407--20122508 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
20122397 GCTTAGAGCT
*
20122407 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * *
20122448 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
20122489 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
20122509 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:20124337 original size:39 final size:39
Alignment explanation
Indices: 20124293--20124373 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
20124283 TAACCACACT
20124293 AATTAGCTCATATGCTTTAATTGTCTCCTACACACCACA
1 AATTAGCTCATATGCTTTAATTGTCTCCTACACACCACA
* *
20124332 AATTAGCTCATATGTTTTAATTGTCTCCTATACACCACA
1 AATTAGCTCATATGCTTTAATTGTCTCCTACACACCACA
20124371 AAT
1 AAT
20124374 CTCTCAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (39 bp):
AATTAGCTCATATGCTTTAATTGTCTCCTACACACCACA
Found at i:20125445 original size:7 final size:7
Alignment explanation
Indices: 20125433--20125457 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20125423 CTTTCATATT
20125433 TTCTTTA
1 TTCTTTA
20125440 TTCTTTA
1 TTCTTTA
20125447 TTCTTTA
1 TTCTTTA
20125454 TTCT
1 TTCT
20125458 CTCATCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:20128339 original size:31 final size:31
Alignment explanation
Indices: 20128302--20128377 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
20128292 TGGCGTACGA
* *
20128302 CCCACACGCCCGTGCGACATGCTTGTGTAGG
1 CCCACACGCCCGTACGACATGCTTATGTAGG
* * * *
20128333 CTCACACGCCCATACGACTTGCTTATGTGGG
1 CCCACACGCCCGTACGACATGCTTATGTAGG
*
20128364 CCCACATGCCCGTA
1 CCCACACGCCCGTA
20128378 TGGCCCACAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.21
Consensus pattern (31 bp):
CCCACACGCCCGTACGACATGCTTATGTAGG
Found at i:20131953 original size:38 final size:39
Alignment explanation
Indices: 20131807--20132068 Score: 273
Period size: 40 Copynumber: 6.6 Consensus size: 39
20131797 GCTACTCGTT
* * *
20131807 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTATCTCGCA
* * * *
20131847 CAAATGCCTTCGAGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGAATTAGTATCTCGCA
* *
20131887 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
*
20131926 CAAATTCCTTCGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
*
20131964 CAAATGCCTTCGGATCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAATTAGTATCTCGCA
* * * *
20132004 CAAATGCCTTTGGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
20132045 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
20132069 GCATCATTCA
Statistics
Matches: 196, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
38 36 0.18
39 36 0.18
40 110 0.56
41 14 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:20133773 original size:27 final size:26
Alignment explanation
Indices: 20133737--20133802 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
20133727 ATAGAGCATG
*
20133737 CAGTTATTTTATAACATAGGGGCATAA
1 CAGTCATTTTATAACAT-GGGGCATAA
** * *
20133764 CAGTCATTTTACCACGTGGGGGATAA
1 CAGTCATTTTATAACATGGGGCATAA
*
20133790 CAATCATTTTATA
1 CAGTCATTTTATA
20133803 TCAATTTGAG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (26 bp):
CAGTCATTTTATAACATGGGGCATAA
Found at i:20143973 original size:19 final size:19
Alignment explanation
Indices: 20143951--20143987 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20143941 GGGAAGGAGT
20143951 AAAAGTTTTGGGGAAAATA
1 AAAAGTTTTGGGGAAAATA
20143970 AAAAGTTTTGGGGAAAAT
1 AAAAGTTTTGGGGAAAAT
20143988 TTCGGGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (19 bp):
AAAAGTTTTGGGGAAAATA
Found at i:20146650 original size:25 final size:25
Alignment explanation
Indices: 20146613--20146735 Score: 117
Period size: 25 Copynumber: 5.0 Consensus size: 25
20146603 AGCCCTCTCT
*
20146613 TGAGCCTTATAACGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * *
20146638 TGAGCCATGTAACGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATG
* ** *
20146663 TGGGCTGTATAACAGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
20146688 TGAGCCA-ATAAC-GGATAGCTC-TG
1 TGAGCCATATAACGGGA-AGCTCATG
* *
20146711 AAGAGCCATATAACGGGACGCTCAT
1 -TGAGCCATATAACGGGAAGCTCAT
20146736 AAGAGCTGCG
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
23 5 0.06
24 16 0.21
25 52 0.68
26 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATG
Found at i:20146707 original size:24 final size:24
Alignment explanation
Indices: 20146670--20146726 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
20146660 ATCTGGGCTG
*
20146670 TATAACAGGAAGCTCATG-TGAGCCA
1 TATAAC-GGAAGCTC-TGAAGAGCCA
20146695 -ATAACGGATAGCTCTGAAGAGCCA
1 TATAACGGA-AGCTCTGAAGAGCCA
20146719 TATAACGG
1 TATAACGG
20146727 GACGCTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
TATAACGGAAGCTCTGAAGAGCCA
Found at i:20149292 original size:26 final size:26
Alignment explanation
Indices: 20149237--20149292 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
20149227 TTCTCATCCC
*
20149237 AATTTTACCCTCGATAAAATTATAAC
1 AATTTTACCCTCGATAAAATTATAAA
20149263 AATTTTACCACT-GATAAAATT-TAAGA
1 AATTTTACC-CTCGATAAAATTATAA-A
20149289 AATT
1 AATT
20149293 GTTATTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 3 0.11
26 22 0.81
27 2 0.07
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (26 bp):
AATTTTACCCTCGATAAAATTATAAA
Found at i:20151621 original size:13 final size:13
Alignment explanation
Indices: 20151584--20151631 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
20151574 TTAATTAAAC
20151584 TTAATTAAATTAG-
1 TTAATT-AATTAGT
20151597 TTAATTACATTAGT
1 TTAATTA-ATTAGT
*
20151611 TTACTTAATTAGT
1 TTAATTAATTAGT
20151624 CTTAATTA
1 -TTAATTA
20151632 TAACAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 1 0.03
13 17 0.57
14 12 0.40
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (13 bp):
TTAATTAATTAGT
Found at i:20162916 original size:27 final size:27
Alignment explanation
Indices: 20162886--20162971 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
20162876 GTGGTGAGTC
*
20162886 ATGAAAGAAAAGCCTTTGTGGAGAAAT
1 ATGAAAGAAAAACCTTTGTGGAGAAAT
* *
20162913 ATGAAAGGAAATA-TTTTGT-GACG-AAT
1 ATGAAA-GAAAAACCTTTGTGGA-GAAAT
* * *
20162939 CATGAAAGAAAAACCATTGTGGCGAATT
1 -ATGAAAGAAAAACCTTTGTGGAGAAAT
20162967 ATGAA
1 ATGAA
20162972 GGGATAGCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
26 10 0.22
27 28 0.62
28 7 0.16
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24
Consensus pattern (27 bp):
ATGAAAGAAAAACCTTTGTGGAGAAAT
Found at i:20164704 original size:42 final size:42
Alignment explanation
Indices: 20164675--20164824 Score: 212
Period size: 42 Copynumber: 3.6 Consensus size: 42
20164665 ATAAGTGCTA
* **
20164675 AACAGAAACCCATAAGGGTTGAACTGAAGCTCGTAAGAGCTG
1 AACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
* * *
20164717 AACGGAAACCCATAAGGGTTAAATTGAAGCTCAAAAGAGTTG
1 AACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
*
20164759 AAC-GAAAACCGATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
1 AACAG-AAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
*
20164801 AATAGAAACCCATAAGGGTTAAAC
1 AACAGAAACCCATAAGGGTTAAAC
20164825 AAAAACTTAT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 93 0.98
43 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
Found at i:20164732 original size:21 final size:21
Alignment explanation
Indices: 20164655--20164732 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
20164645 CGAAGGTTGC
* * * *
20164655 ACAGAAGCACATAAGTGCTAA
1 ACAGAAACCCATAAGAGCTGA
* *
20164676 ACAGAAACCCATAAGGGTTGA
1 ACAGAAACCCATAAGAGCTGA
* * * *
20164697 ACTGAAGCTCGTAAGAGCTGA
1 ACAGAAACCCATAAGAGCTGA
*
20164718 ACGGAAACCCATAAG
1 ACAGAAACCCATAAG
20164733 GGTTAAATTG
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (21 bp):
ACAGAAACCCATAAGAGCTGA
Found at i:20173145 original size:5 final size:5
Alignment explanation
Indices: 20173135--20173175 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
20173125 TTAAAGTTAA
20173135 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
20173176 ATGATAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:20173240 original size:25 final size:26
Alignment explanation
Indices: 20173206--20173257 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
20173196 TAAAAGAAAG
* * *
20173206 AAAGATAGAAACGAAACA-GAAAGAA
1 AAAGAAAGAAAAGAAAAAGGAAAGAA
20173231 AAAGAAAGAAAAGAAAAAGGAAAGAA
1 AAAGAAAGAAAAGAAAAAGGAAAGAA
20173257 A
1 A
20173258 GGAAGGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.02
Consensus pattern (26 bp):
AAAGAAAGAAAAGAAAAAGGAAAGAA
Found at i:20173243 original size:15 final size:16
Alignment explanation
Indices: 20173197--20173257 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
20173187 AAGAATAAAT
20173197 AAAA-GAAAG-AAAGA
1 AAAACGAAAGAAAAGA
*
20173211 TAGAAACGAAACAGAAAGA
1 -A-AAACGAAAGA-AAAGA
20173230 AAAA-GAAAGAAAAGA
1 AAAACGAAAGAAAAGA
*
20173245 AAAAGGAAAGAAA
1 AAAACGAAAGAAA
20173258 GGAAGGAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 10 0.26
16 16 0.41
17 7 0.18
18 1 0.03
19 5 0.13
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAACGAAAGAAAAGA
Found at i:20173258 original size:15 final size:14
Alignment explanation
Indices: 20173197--20173258 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 14
20173187 AAGAATAAAT
20173197 AAAAGAAAGAAAGA
1 AAAAGAAAGAAAGA
20173211 TAGAAACGAAACAGAAAGA
1 -A-AAA-G-AA-AGAAAGA
20173230 AAAAGAAAGAAAAGA
1 AAAAGAAAG-AAAGA
20173245 AAAAGGAAAGAAAG
1 AAAA-GAAAGAAAG
20173259 GAAGGAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.05
15 16 0.39
16 9 0.22
17 4 0.10
18 3 0.07
19 7 0.17
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.02
Consensus pattern (14 bp):
AAAAGAAAGAAAGA
Found at i:20178136 original size:38 final size:38
Alignment explanation
Indices: 20178085--20178174 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
20178075 TTTGGTACAG
20178085 CATGGTGTGTAGGGATGGGTGGCTTGATTTAATCCCCA
1 CATGGTGTGTAGGGATGGGTGGCTTGATTTAATCCCCA
20178123 CATGGTGTGTAGGGATGGGTGGCTTGATTTAATCCCCA
1 CATGGTGTGTAGGGATGGGTGGCTTGATTTAATCCCCA
*
20178161 CATGGTATGTAGGG
1 CATGGTGTGTAGGG
20178175 TTGGACAGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (38 bp):
CATGGTGTGTAGGGATGGGTGGCTTGATTTAATCCCCA
Found at i:20180090 original size:5 final size:5
Alignment explanation
Indices: 20180065--20180218 Score: 249
Period size: 5 Copynumber: 30.8 Consensus size: 5
20180055 AGTTAAAATA
* * *
20180065 TATAT TATAA TATTAT AATAT TATAT CT-TAA T-TAT TATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT
20180115 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20180165 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20180215 TATA
1 TATA
20180219 ATGATAAAAT
Statistics
Matches: 140, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
4 4 0.03
5 132 0.94
6 4 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:20180252 original size:4 final size:4
Alignment explanation
Indices: 20180243--20180311 Score: 56
Period size: 4 Copynumber: 17.0 Consensus size: 4
20180233 AATAAAATAA
*
20180243 AAAG AAAG AAAG ATAG AAACG AAATAG AAAG -AA- AAAG AAAG AAAG AAAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG -AAAG
20180293 AAAG -AA- AAAG AAAAG AAAG
1 AAAG AAAG AAAG -AAAG AAAG
20180312 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
3 8 0.15
4 31 0.57
5 11 0.20
6 3 0.06
7 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:20180271 original size:11 final size:10
Alignment explanation
Indices: 20180245--20180311 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
20180235 TAAAATAAAA
20180245 AGAAAGAAAGAT
1 AGAAAG-AA-AT
20180257 AGAAACGAAAT
1 AGAAA-GAAAT
*
20180268 AGAAAGAAAA
1 AGAAAGAAAT
*
20180278 AGAAAGAAAG
1 AGAAAGAAAT
*
20180288 A-AAAGAAAG
1 AGAAAGAAAT
*
20180297 AAAAAGAAA-
1 AGAAAGAAAT
20180306 AGAAAG
1 AGAAAG
20180312 GAAGGAGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
9 14 0.28
10 21 0.42
11 7 0.14
12 7 0.14
13 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.03
Consensus pattern (10 bp):
AGAAAGAAAT
Found at i:20180272 original size:23 final size:20
Alignment explanation
Indices: 20180242--20180322 Score: 87
Period size: 19 Copynumber: 4.0 Consensus size: 20
20180232 GAATAAAATA
20180242 AAAAGAAAGAAAGATAGAAACG
1 AAAAGAAAGAAAGA-AGAAA-G
20180264 AAATAGAAAGAAA-AAGAAAG
1 AAA-AGAAAGAAAGAAGAAAG
20180284 -AAAGAAAAGAAAGAA-AAAG
1 AAAAG-AAAGAAAGAAGAAAG
* *
20180303 AAAAGAAAGGAAGGAGAAAG
1 AAAAGAAAGAAAGAAGAAAG
20180323 CTACGGCCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.04
19 21 0.40
20 11 0.21
21 5 0.10
22 4 0.08
23 9 0.17
ACGTcount: A:0.72, C:0.01, G:0.25, T:0.02
Consensus pattern (20 bp):
AAAAGAAAGAAAGAAGAAAG
Found at i:20180283 original size:33 final size:33
Alignment explanation
Indices: 20180224--20180310 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
20180214 TTATAATGAT
* *
20180224 AAAATAAAG-AATA-AAATAAAAAGAAAGAAAG
1 AAAAGAAAGAAATAGAAAGAAAAAGAAAGAAAG
*
20180255 -ATAGAAACGAAATAGAAAGAAAAAGAAAGAAAG
1 AAAAGAAA-GAAATAGAAAGAAAAAGAAAGAAAG
*
20180288 AAAAGAAAGAAAAAGAAAAGAAA
1 AAAAGAAAGAAATAG-AAAGAAA
20180311 GGAAGGAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 5 0.11
31 1 0.02
32 4 0.09
33 23 0.50
34 13 0.28
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (33 bp):
AAAAGAAAGAAATAGAAAGAAAAAGAAAGAAAG
Found at i:20180289 original size:29 final size:28
Alignment explanation
Indices: 20180241--20180311 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
20180231 AGAATAAAAT
* * *
20180241 AAAAAG-AAAGAAAGATAGAAACGAAAT
1 AAAAAGAAAAGAAAGAAAGAAAAGAAAG
*
20180268 AGAAAGAAAAAGAAAGAAAGAAAAGAAAG
1 AAAAAG-AAAAGAAAGAAAGAAAAGAAAG
20180297 AAAAAGAAAAGAAAG
1 AAAAAGAAAAGAAAG
20180312 GAAGGAGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.14
28 9 0.24
29 23 0.62
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (28 bp):
AAAAAGAAAAGAAAGAAAGAAAAGAAAG
Found at i:20180322 original size:15 final size:13
Alignment explanation
Indices: 20180243--20180322 Score: 55
Period size: 13 Copynumber: 6.3 Consensus size: 13
20180233 AATAAAATAA
20180243 AAAGAAAGAA-AG
1 AAAGAAAGAAGAG
* *
20180255 ATAGAAACGAAATAG
1 AAAGAAA-G-AAGAG
20180270 AAAG-AA-AA-AG
1 AAAGAAAGAAGAG
*
20180280 AAAGAAAGAAAAG
1 AAAGAAAGAAGAG
20180293 AAAGAAA-AAGA-
1 AAAGAAAGAAGAG
20180304 AAAGAAAGGAAGGAG
1 AAAGAAA-GAA-GAG
20180319 AAAG
1 AAAG
20180323 CTACGGCCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
10 6 0.11
11 11 0.20
12 11 0.20
13 12 0.22
14 6 0.11
15 9 0.16
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (13 bp):
AAAGAAAGAAGAG
Found at i:20181054 original size:21 final size:20
Alignment explanation
Indices: 20181003--20181065 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
20180993 TAGTATTTGA
* *
20181003 TGAATTTATTGGATTTATAT
1 TGAATATATTGGATATATAT
*
20181023 TGATTGA-ATTGGTATATATAT
1 TGAAT-ATATTGG-ATATATAT
20181044 TGAATATATT-GAT-TAT-T
1 TGAATATATTGGATATATAT
20181061 TGAAT
1 TGAAT
20181066 TGAAATGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 6 0.17
18 3 0.08
19 2 0.06
20 11 0.31
21 14 0.39
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (20 bp):
TGAATATATTGGATATATAT
Found at i:20181194 original size:41 final size:41
Alignment explanation
Indices: 20181150--20181284 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
20181140 GGCTTCGAGT
* *
20181150 CGATGAGACATTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATC
* ** *
20181191 CGATGAGGCACTGGGTACCAATTTACT--TT-GGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATC
* * *
20181228 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATC
*
20181268 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
20181285 CCAAACTGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 22 0.29
38 6 0.08
39 5 0.07
40 20 0.26
41 23 0.30
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATC
Found at i:20181271 original size:40 final size:40
Alignment explanation
Indices: 20181150--20181289 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
20181140 GGCTTCGAGT
* * * *
20181150 CGATGAGACATTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATC
* * * * * *
20181191 CGATGAGGCACTGGGT-ACCAA-T-TTACTTTGGTTTAAC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTATC
*
20181228 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTATC
* *
20181268 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
20181290 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 16 0.21
38 12 0.16
39 2 0.03
40 33 0.43
41 14 0.18
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTATC
Found at i:20182025 original size:13 final size:13
Alignment explanation
Indices: 20182007--20182036 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20181997 AGCTCAAACT
20182007 CAATTACCCAACC
1 CAATTACCCAACC
20182020 CAATTACCCAACC
1 CAATTACCCAACC
20182033 CAAT
1 CAAT
20182037 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:20182189 original size:9 final size:9
Alignment explanation
Indices: 20182177--20182253 Score: 66
Period size: 9 Copynumber: 8.4 Consensus size: 9
20182167 AAATAAAAAA
20182177 AATTCGGGT
1 AATTCGGGT
20182186 AATTCGGGT
1 AATTCGGGT
*
20182195 ATTTTTC-GGT
1 A--ATTCGGGT
*
20182205 AATTCGGTT
1 AATTCGGGT
* *
20182214 AATTTGGTT
1 AATTCGGGT
* *
20182223 AATTCAGTT
1 AATTCGGGT
*
20182232 AATTCGGAT
1 AATTCGGGT
20182241 AATTCGGGT
1 AATTCGGGT
20182250 AATT
1 AATT
20182254 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
8 3 0.05
9 46 0.82
10 4 0.07
11 3 0.05
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (9 bp):
AATTCGGGT
Found at i:20184835 original size:104 final size:104
Alignment explanation
Indices: 20184655--20184868 Score: 419
Period size: 104 Copynumber: 2.0 Consensus size: 104
20184645 AATAATATTC
20184655 CCTAACCGGCTATAGGAAAATGACAATATAACTTAGAAAACAATTTAAGTGCATTTAATATTCTC
1 CCTAACCGGCTATAGGAAAATGACAATATAACTTAGAAAACAATTTAAGTGCATTTAATATTCTC
20184720 AGTTACATGTATTTATCTATTTAAATTTATTTTCATGTG
66 AGTTACATGTATTTATCTATTTAAATTTATTTTCATGTG
20184759 CCTAACCGGCTATAGGAAAATGACAATATAACTTAGAAAACAATTTAAGTGCATTTAATATTCTC
1 CCTAACCGGCTATAGGAAAATGACAATATAACTTAGAAAACAATTTAAGTGCATTTAATATTCTC
20184824 AGTTACATGTATTTATCTATTTAAATTTATTTTCATGTG
66 AGTTACATGTATTTATCTATTTAAATTTATTTTCATGTG
20184863 CTCTAA
1 C-CTAA
20184869 ATATTTGACT
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 105 0.96
105 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (104 bp):
CCTAACCGGCTATAGGAAAATGACAATATAACTTAGAAAACAATTTAAGTGCATTTAATATTCTC
AGTTACATGTATTTATCTATTTAAATTTATTTTCATGTG
Found at i:20191096 original size:40 final size:39
Alignment explanation
Indices: 20191045--20191159 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 39
20191035 TACCACAATT
*
20191045 TTTTTTACTATTTTTAAAAATTTTGAATAATTTTTTACAA
1 TTTTTTACTATTTCTAAAAATTTT-AATAATTTTTTACAA
* * *
20191085 TTTTTTACTATTTCTAATAATTTTTATAATTTTTTTATAA
1 TTTTTTACTATTTCTAAAAATTTTAATAA-TTTTTTACAA
*** * *
20191125 TACCTTACAATTTCTAATAATTTT-ATAATTTTTTA
1 TTTTTTACTATTTCTAAAAATTTTAATAATTTTTTA
20191160 TAGTTGTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 7 0.11
39 8 0.12
40 51 0.77
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (39 bp):
TTTTTTACTATTTCTAAAAATTTTAATAATTTTTTACAA
Found at i:20191985 original size:23 final size:23
Alignment explanation
Indices: 20191959--20192004 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20191949 TGAAATCATC
*
20191959 TAATATATAACT-AAGTTAAATAT
1 TAATAT-TAACTGAAATTAAATAT
*
20191982 TAATATTAATTGAAATTAAATAT
1 TAATATTAACTGAAATTAAATAT
20192005 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
TAATATTAACTGAAATTAAATAT
Found at i:20192828 original size:72 final size:72
Alignment explanation
Indices: 20192711--20192853 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
20192701 TCTCGGATTT
* *
20192711 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCTC-GAGATCGTTTAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTC-CAGAGATCGTTTAAA
20192775 ACTTGAGA
65 ACTTGAGA
* *
20192783 AAAAAAGGGATCGTGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCATAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCAGAGATCGTTTAAAA
20192848 CTTGAG
66 CTTGAG
20192854 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
71 1 0.02
72 65 0.98
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCAGAGATCGTTTAAAA
CTTGAGA
Found at i:20193259 original size:10 final size:10
Alignment explanation
Indices: 20193244--20193272 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
20193234 AAAACATATA
20193244 TATATGTATC
1 TATATGTATC
20193254 TATATGTATC
1 TATATGTATC
20193264 TATATGTAT
1 TATATGTAT
20193273 ATAAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (10 bp):
TATATGTATC
Found at i:20193652 original size:23 final size:22
Alignment explanation
Indices: 20193625--20193674 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
20193615 TAGATAAATA
* *
20193625 AATAAAATAACAATAATAACAAT
1 AATAAAACAAAAATAATAAC-AT
* *
20193648 AATAATACAAAAATAATAGCAT
1 AATAAAACAAAAATAATAACAT
20193670 AATAA
1 AATAA
20193675 CGTATTAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.22
Consensus pattern (22 bp):
AATAAAACAAAAATAATAACAT
Found at i:20195799 original size:50 final size:50
Alignment explanation
Indices: 20195745--20196397 Score: 560
Period size: 50 Copynumber: 13.0 Consensus size: 50
20195735 ATTTGTTCTG
* * *
20195745 CTGCAATGTCAGAGAAATAAGATTCGCTGTTATAGCTTCAATCTATTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* ** * * * **
20195795 CTGCAATGTCGGGGAAACAAGATTCACTGTTGTAGCTTTAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * * *
20195845 CTACACTG-CTAGGGAAGTAAGATTCGCTGTTGCAGCTTTAACCTATTTAA
1 CTGCAATGTC-AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * * **
20195895 CTGTAATGTC-GGGAAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* **
20195945 CTACACCG-CTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTC-AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * * * **
20195995 CTGCAATATCGGGGAAGCAAGATTCGCTGTTATAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * *
20196045 CTAC-ATCGCCAAGGAAATAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAAT-GTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
** * * * * **
20196095 CTGCAATGTTGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
** * * *
20196145 CTGCACCGCCAAGGAAGTAAGATTTGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * * * * ***
20196195 CTGCAATGTCGGGGAAGTAAGACTCGCTACCTT-TAGCTTTAATTTGTTCCG
1 CTGCAATGTCAGGGAAGTAAGATTCGCT--GTTGTAGCTTCAATCTATTTAA
* * * *
20196246 CTGCAACGTTAGGGAAATAAGATTCGCTGTTATAGCTTCAATCTATTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* ** * * *
20196296 CTGCAATGTCGGGGAAACAAGATTCACTATTGCAGCTTCAATCTATTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * ** *
20196346 CCGTAATGTTGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
20196396 CT
1 CT
20196398 TTAGTCTTAA
Statistics
Matches: 464, Mismatches: 128, Indels: 22
0.76 0.21 0.04
Matches are distributed among these distances:
49 9 0.02
50 411 0.89
51 42 0.09
52 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (50 bp):
CTGCAATGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
Found at i:20195882 original size:100 final size:100
Alignment explanation
Indices: 20195762--20196397 Score: 789
Period size: 100 Copynumber: 6.3 Consensus size: 100
20195752 GTCAGAGAAA
*
20195762 TAAGATTCGCTGTTATAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTG
*
20195827 TAGCTTTAATCTGTTCCACTACACTGCTAGGGAAG
66 TAGCTTCAATCTGTTCCACTACACTGCTAGGGAAG
* * * *
20195862 TAAGATTCGCTGTTGCAGCTTTAACCTATTTAACTGTAATGTC-GGGAAAGCAAGATTCACTGTT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAA-CAAGATTCACTGTT
*
20195926 GTAGCTTCAATCTGTTCCACTACACCGCTAGGGAAG
65 GTAGCTTCAATCTGTTCCACTACACTGCTAGGGAAG
* * * *
20195962 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATATCGGGGAAGCAAGATTCGCTGTTA
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTG
* * *
20196027 TAGCTTCAATCTGTTCCACTACA-TCGCCAAGGAAA
66 TAGCTTCAATCTGTTCCACTACACT-GCTAGGGAAG
* * *
20196062 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAAGATTCACTATTG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTG
* * * *
20196127 TAGCTTCAATCTGTTCCACTGCACCGCCAAGGAAG
66 TAGCTTCAATCTGTTCCACTACACTGCTAGGGAAG
* ** * * *
20196162 TAAGATTTGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGTAAGACTCGCTACCT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACT--GT
* * * * * *
20196227 T-TAGCTTTAATTTGTTCCGCTGCAAC-GTTAGGGAAA
64 TGTAGCTTCAATCTGTTCCACTAC-ACTGCTAGGGAAG
* *
20196263 TAAGATTCGCTGTTATAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTATTG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTG
* * ** * *
20196328 CAGCTTCAATCTATTTAACCGTA-A-TGTTGGGGAAG
66 TAGCTTCAATCTGTTCCA-C-TACACTGCTAGGGAAG
*
20196363 CAAGATTCGCTGTTGTAGCTTCAATCTATTTAACT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACT
20196398 TTAGTCTTAA
Statistics
Matches: 466, Mismatches: 59, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
99 8 0.02
100 367 0.79
101 86 0.18
102 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (100 bp):
TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTG
TAGCTTCAATCTGTTCCACTACACTGCTAGGGAAG
Found at i:20197800 original size:6 final size:6
Alignment explanation
Indices: 20197789--20197843 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
20197779 TGGCCTCTCT
*
20197789 TTTTTC TTTTTC ---TTC TTTTTC TTTTTC -TTTTC TTTCTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT-TTC TTTTTC
20197834 TTTTT- TTTTT
1 TTTTTC TTTTT
20197844 AAATTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.07
5 10 0.24
6 24 0.57
7 5 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:20197809 original size:15 final size:15
Alignment explanation
Indices: 20197789--20197843 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
20197779 TGGCCTCTCT
20197789 TTTTTCTTTTTCTTC
1 TTTTTCTTTTTCTTC
20197804 TTTTTCTTTTTCTT-
1 TTTTTCTTTTTCTTC
*
20197818 TTCTTTCTTCTTCTTC
1 TT-TTTCTTTTTCTTC
20197834 TTTTT-TTTTT
1 TTTTTCTTTTT
20197844 AAATTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 6 0.17
15 28 0.78
16 2 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTCTTC
Found at i:20197815 original size:21 final size:21
Alignment explanation
Indices: 20197789--20197843 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 21
20197779 TGGCCTCTCT
*
20197789 TTTTTCTTTTTCTTCTTTTTC
1 TTTTTCTTTTTCTTCTTCTTC
20197810 TTTTTCTTTTCTTTCTTCTTCTTC
1 TTTTTC--TT-TTTCTTCTTCTTC
20197834 TTTTT-TTTTT
1 TTTTTCTTTTT
20197844 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.10
21 8 0.27
23 2 0.07
24 17 0.57
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTCTTTTTCTTCTTCTTC
Found at i:20197829 original size:24 final size:24
Alignment explanation
Indices: 20197797--20197843 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
20197787 CTTTTTTCTT
*
20197797 TTTCTTCTTTTTCTTTTTCTTTTC
1 TTTCTTCTTCTTCTTTTTCTTTTC
*
20197821 TTTCTTCTTCTTCTTTTTTTTTT
1 TTTCTTCTTCTTCTTTTTCTTTT
20197844 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTCTTCTTCTTCTTTTTCTTTTC
Found at i:20201370 original size:17 final size:17
Alignment explanation
Indices: 20201350--20201385 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20201340 AAGGTGAAGA
20201350 GTTAAGGAAAATGAAAG
1 GTTAAGGAAAATGAAAG
*
20201367 GTTAAGGAAGATGAAAG
1 GTTAAGGAAAATGAAAG
20201384 GT
1 GT
20201386 GAAAAGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (17 bp):
GTTAAGGAAAATGAAAG
Found at i:20202961 original size:13 final size:13
Alignment explanation
Indices: 20202943--20202967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20202933 AATTATTTGG
20202943 AGCATTTTAGCTA
1 AGCATTTTAGCTA
20202956 AGCATTTTAGCT
1 AGCATTTTAGCT
20202968 GGCATATGTA
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
AGCATTTTAGCTA
Found at i:20208429 original size:4 final size:4
Alignment explanation
Indices: 20208420--20208447 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
20208410 TTATTAGGGC
20208420 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
20208448 ATTCGCAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:20210313 original size:24 final size:22
Alignment explanation
Indices: 20210286--20210330 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20210276 AGAATTATAT
*
20210286 AAATTAAACTTCTTAAAAGAAATC
1 AAATTAAA-TT-TTAAAAAAAATC
20210310 AAATTAAATTTTAAAAAAAAT
1 AAATTAAATTTTAAAAAAAAT
20210331 ATTAGACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATTAAATTTTAAAAAAAATC
Found at i:20210832 original size:26 final size:30
Alignment explanation
Indices: 20210776--20210830 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
20210766 TGTTTTAAAA
*
20210776 AATTAATTTTCATGAAAATGAAAAAATATT
1 AATTAATTGTCATGAAAATGAAAAAATATT
20210806 AATT-ATTGTCAT-AAAAT-AAATAAAT
1 AATTAATTGTCATGAAAATGAAA-AAAT
20210831 TACAGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 3 0.13
28 9 0.39
29 7 0.30
30 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (30 bp):
AATTAATTGTCATGAAAATGAAAAAATATT
Found at i:20213721 original size:18 final size:19
Alignment explanation
Indices: 20213695--20213730 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20213685 ATAAGTGTGT
*
20213695 GATTCAACA-ATATTTAAA
1 GATTAAACAGATATTTAAA
20213713 GATTAAACAGATATTTAA
1 GATTAAACAGATATTTAA
20213731 TAAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
GATTAAACAGATATTTAAA
Found at i:20219225 original size:21 final size:21
Alignment explanation
Indices: 20219183--20219225 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20219173 GTCGAAAAAT
*
20219183 ATATAAAATTTTATATTATCC
1 ATATAAAAATTTATATTATCC
*
20219204 ATATAATAAATTTA-ATTCTCC
1 ATATAA-AAATTTATATTATCC
20219225 A
1 A
20219226 ATATTTACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATAAAAATTTATATTATCC
Found at i:20223194 original size:16 final size:16
Alignment explanation
Indices: 20223173--20223215 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
20223163 GGTTCACTGG
20223173 AATGGAATAGAAATGT
1 AATGGAATAGAAATGT
*
20223189 AATGGAATAGAACTGT
1 AATGGAATAGAAATGT
*
20223205 AATGAAATAGA
1 AATGGAATAGA
20223216 GCTGTAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (16 bp):
AATGGAATAGAAATGT
Found at i:20223220 original size:16 final size:16
Alignment explanation
Indices: 20223168--20223223 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
20223158 CGTTTGGTTC
* *
20223168 ACTGGAATGGAATAGA
1 ACTGTAATGAAATAGA
* *
20223184 AATGTAATGGAATAGA
1 ACTGTAATGAAATAGA
20223200 ACTGTAATGAAATAGA
1 ACTGTAATGAAATAGA
*
20223216 GCTGTAAT
1 ACTGTAAT
20223224 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (16 bp):
ACTGTAATGAAATAGA
Found at i:20226642 original size:30 final size:30
Alignment explanation
Indices: 20226608--20226810 Score: 126
Period size: 30 Copynumber: 6.8 Consensus size: 30
20226598 TGGTTGACAC
*
20226608 ATCCCTTTTCATAATTTGATAATCGAAGTT
1 ATCCCTTTTCATAATTTGATAATCGAAGCT
* * * *
20226638 ATCCCTTTTCATAGTTCGACAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAATCGAAGCT
** * *
20226668 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAATCG-AAGCT
* * * *** * *
20226698 ATCCATTTTAAT-TTTTCGACGGTCGTCA-CC
1 ATCCCTTTTCATAATTT-GATAATCG-AAGCT
* *
20226728 ATCCCTTTTCATAATTTGATAGTCGAAGAT
1 ATCCCTTTTCATAATTTGATAATCGAAGCT
** * *
20226758 ATCCCTTTTCAT-ATATCAATAGTCGAAGCC
1 ATCCCTTTTCATAAT-TTGATAATCGAAGCT
*
20226788 ATCCCTTTTCATAGTTTGATAAT
1 ATCCCTTTTCATAATTTGATAAT
20226811 TGTCCCCATC
Statistics
Matches: 136, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
29 6 0.04
30 125 0.92
31 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAATCGAAGCT
Found at i:20226680 original size:60 final size:59
Alignment explanation
Indices: 20226607--20226810 Score: 205
Period size: 60 Copynumber: 3.4 Consensus size: 59
20226597 ATGGTTGACA
*
20226607 CATCCCTTTTCATAATTTGATAATCGAAGTTATCCCTTTTCATAGTTCGACAGTCGAAGC
1 CATCCCTTTTCATAATTTGATAATCGAAGATATCCCTTTTCATA-TTCGACAGTCGAAGC
* ** * ** * * * * *
20226667 TATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCATTTTAATTTTTCGACGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAATCG-AAGATATCCCTTTTCA-TATTCGACAGTCG-AAGC
* * *
20226727 CATCCCTTTTCATAATTTGATAGTCGAAGATATCCCTTTTCATATATCAATAGTCGAAGC
1 CATCCCTTTTCATAATTTGATAATCGAAGATATCCCTTTTCATAT-TCGACAGTCGAAGC
*
20226787 CATCCCTTTTCATAGTTTGATAAT
1 CATCCCTTTTCATAATTTGATAAT
20226811 TGTCCCCATC
Statistics
Matches: 113, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
59 4 0.04
60 106 0.94
61 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (59 bp):
CATCCCTTTTCATAATTTGATAATCGAAGATATCCCTTTTCATATTCGACAGTCGAAGC
Found at i:20226820 original size:120 final size:119
Alignment explanation
Indices: 20226607--20226914 Score: 370
Period size: 120 Copynumber: 2.6 Consensus size: 119
20226597 ATGGTTGACA
* * *
20226607 CATCCCTTTTCATAATTTGATAATCGAAGTTATCCCTTTTCATAGT-TCGACAGTCGAAGCTATC
1 CATCCCTTTTCATAATTTGATAGTCGAAGATATCCCTTTTCATA-TATCGATAGTCGAAGCTATC
** *
20226671 CCTTTTCATAATTTGATGGTCGTCACCATCCATTTTAATTTTTCGACGGTCGTCAC
65 CCTTTTCATAATTTGATAATCGTCACCATCCATTTTAATTGTTC-ACGGTCGTCAC
* *
20226727 CATCCCTTTTCATAATTTGATAGTCGAAGATATCCCTTTTCATATATCAATAGTCGAAGCCATCC
1 CATCCCTTTTCATAATTTGATAGTCGAAGATATCCCTTTTCATATATCGATAGTCGAAGCTATCC
* * * * * * * *
20226792 CTTTTCATAGTTTGATAATTGTCCCCATCCCTTTTCATTGTTCATGGTTGTCTC
66 CTTTTCATAATTTGATAATCGTCACCATCCATTTTAATTGTTCACGGTCGTCAC
* * * * * *
20226846 CATCCCTTTTCGTAA-TCGATAG-CTGGAGCTATCCCTTTTCATAGATCGATAGTCGAAGTTATC
1 CATCCCTTTTCATAATTTGATAGTC-GAAGATATCCCTTTTCATATATCGATAGTCGAAGCTATC
20226909 CCTTTT
65 CCTTTT
20226915 TATTCATCGA
Statistics
Matches: 162, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
117 1 0.01
118 45 0.28
119 23 0.14
120 93 0.57
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (119 bp):
CATCCCTTTTCATAATTTGATAGTCGAAGATATCCCTTTTCATATATCGATAGTCGAAGCTATCC
CTTTTCATAATTTGATAATCGTCACCATCCATTTTAATTGTTCACGGTCGTCAC
Found at i:20226852 original size:29 final size:30
Alignment explanation
Indices: 20226786--20226856 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
20226776 ATAGTCGAAG
*
20226786 CCATCCCTTTTCATAGTTTGATAATTGTCC
1 CCATCCCTTTTCATAGTTTCATAATTGTCC
* ** *
20226816 CCATCCCTTTTCATTG-TTCATGGTTGTCT
1 CCATCCCTTTTCATAGTTTCATAATTGTCC
20226845 CCATCCCTTTTC
1 CCATCCCTTTTC
20226857 GTAATCGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.14, C:0.31, G:0.10, T:0.45
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTTCATAATTGTCC
Found at i:20226879 original size:29 final size:30
Alignment explanation
Indices: 20226847--20226914 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
20226837 GGTTGTCTCC
* *
20226847 ATCCCTTTTCGTA-ATCGATAG-CTGGAGCT
1 ATCCCTTTTCATAGATCGATAGTC-GAAGCT
*
20226876 ATCCCTTTTCATAGATCGATAGTCGAAGTT
1 ATCCCTTTTCATAGATCGATAGTCGAAGCT
20226906 ATCCCTTTT
1 ATCCCTTTT
20226915 TATTCATCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 12 0.35
30 21 0.62
31 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGATCGATAGTCGAAGCT
Found at i:20234522 original size:59 final size:60
Alignment explanation
Indices: 20234444--20234571 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 60
20234434 AGCCGAAGCT
* *
20234444 ATCCCCTTTCATAGATCGATAGCTAAAGCCA-TCATTTTACATA-TGTCGATGGTCGTCACC
1 ATCCCTTTTCATAGATCGATAACTAAAGCCATTCATTTT-CATAGT-TCGATGGTCGTCACC
* * *
20234504 ATCCCTTTTCATA-ATCGATAACTGAAGCTATTCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGATCGATAACTAAAGCCATTCATTTTCATAGTTCGATGGTCGTCACC
20234563 ATCCCTTTT
1 ATCCCTTTT
20234572 TATTATTGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
59 42 0.69
60 19 0.31
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (60 bp):
ATCCCTTTTCATAGATCGATAACTAAAGCCATTCATTTTCATAGTTCGATGGTCGTCACC
Found at i:20234624 original size:29 final size:29
Alignment explanation
Indices: 20234504--20234662 Score: 95
Period size: 29 Copynumber: 5.4 Consensus size: 29
20234494 GGTCGTCACC
* *
20234504 ATCCCTTTTCATAATCGATA-ACTGAAGCT
1 ATCCCTTTTCATAATCGATAGTC-GAAACT
* * * ** *
20234533 ATTCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATA-ATCGATAGTCGAAACT
* * * * ** *
20234563 ATCCCTTTTTATTATTGATGGTCGTCACC
1 ATCCCTTTTCATAATCGATAGTCGAAACT
*
20234592 ATCCCTTTTCATAATCGATAGTTGAAACT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
* * * *
20234621 ATCCATTTTCATAGATTGATAGCCGAAGCT
1 ATCCCTTTTCATA-ATCGATAGTCGAAACT
*
20234651 ATCCTTTTTCAT
1 ATCCCTTTTCAT
20234663 TCGTTGATGA
Statistics
Matches: 100, Mismatches: 27, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
29 59 0.59
30 40 0.40
31 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGTCGAAACT
Found at i:20234653 original size:30 final size:29
Alignment explanation
Indices: 20234592--20234662 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
20234582 GGTCGTCACC
* **
20234592 ATCCCTTTTCATAATCGATAGTTGAAACT
1 ATCCATTTTCATAATCGATAGCCGAAACT
* *
20234621 ATCCATTTTCATAGATTGATAGCCGAAGCT
1 ATCCATTTTCATA-ATCGATAGCCGAAACT
*
20234651 ATCCTTTTTCAT
1 ATCCATTTTCAT
20234663 TCGTTGATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (29 bp):
ATCCATTTTCATAATCGATAGCCGAAACT
Found at i:20236294 original size:13 final size:13
Alignment explanation
Indices: 20236276--20236315 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
20236266 AGCTTAGTAT
20236276 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
20236289 TGCTTTTGAGTAG
1 TGCTTTTGAGAAG
20236302 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
20236315 T
1 T
20236316 TTTGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:20238719 original size:80 final size:80
Alignment explanation
Indices: 20238607--20238766 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
20238597 AAAGCAAGTG
*
20238607 AGTAAAAAATTGAAAGAAATACTTAAGCAAATTACGCAAATAAAATATAGCAGACTTAAAAAATA
1 AGTAAAAAATTGAAAGAAATACTTAAGCAAATTACGCAAATAAAATATAGCAAACTTAAAAAATA
20238672 TCATAAGAGAAAGGA
66 TCATAAGAGAAAGGA
* * *
20238687 AGTAAAAAATTGAAAGAAATACTTAAGTAAATTATGCAAATAAAATATAGCAAACTTAAAAATTA
1 AGTAAAAAATTGAAAGAAATACTTAAGCAAATTACGCAAATAAAATATAGCAAACTTAAAAAATA
20238752 TCATAAGAGAAAGGA
66 TCATAAGAGAAAGGA
20238767 CATCTAAAAC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.22
Consensus pattern (80 bp):
AGTAAAAAATTGAAAGAAATACTTAAGCAAATTACGCAAATAAAATATAGCAAACTTAAAAAATA
TCATAAGAGAAAGGA
Found at i:20239112 original size:21 final size:21
Alignment explanation
Indices: 20239080--20239124 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
20239070 TTATGATGAT
*
20239080 AAACTAATAATAATACAAGAA
1 AAACTAATAATAATACAAAAA
20239101 AAACATAA-AATAATACAAAAA
1 AAAC-TAATAATAATACAAAAA
20239122 AAA
1 AAA
20239125 ACTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (21 bp):
AAACTAATAATAATACAAAAA
Found at i:20239145 original size:24 final size:22
Alignment explanation
Indices: 20239085--20239145 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
20239075 ATGATAAACT
20239085 AATAATAATACAAGAAAAACATAA
1 AATAATAATA-AA-AAAAACATAA
*
20239109 AATAATACA-AAAAAAAACTTTTAA
1 AATAATA-ATAAAAAAAAC--ATAA
20239133 AATAATAATAAAA
1 AATAATAATAAAA
20239146 CAATAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 6 0.19
23 3 0.09
24 22 0.69
25 1 0.03
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (22 bp):
AATAATAATAAAAAAAACATAA
Found at i:20239390 original size:25 final size:25
Alignment explanation
Indices: 20239362--20239411 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
20239352 AATAACATGG
20239362 AGGACTTAATGAAAAATATTCCCTT
1 AGGACTTAATGAAAAATATTCCCTT
20239387 AGGACTTAATGAAAAATATTCCCTT
1 AGGACTTAATGAAAAATATTCCCTT
20239412 CTCCTTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
AGGACTTAATGAAAAATATTCCCTT
Found at i:20240901 original size:44 final size:41
Alignment explanation
Indices: 20240789--20240904 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
20240779 ATTGGCTTTG
* * **
20240789 ATTTGCTCCACTGCAACTTCAAAGAGATAAGACCTGATGCG
1 ATTTGCTCCACTGCAACTTCAGAGAGATAAGACCTCATGAA
* * * *
20240830 ATCTGCTCTACTACAACCTT-AGAGAGATAAGATCCATCATTTAA
1 ATTTGCTCCACTGCAA-CTTCAGAGAGATAAGA-CC-TCA-TGAA
*
20240874 ATTTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTGCTCCACTGCAACTTCAGAGAGATAAG
20240905 GCTGGTGGCT
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
41 24 0.41
42 5 0.09
43 5 0.09
44 24 0.41
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (41 bp):
ATTTGCTCCACTGCAACTTCAGAGAGATAAGACCTCATGAA
Found at i:20241249 original size:44 final size:44
Alignment explanation
Indices: 20241189--20241380 Score: 120
Period size: 44 Copynumber: 4.4 Consensus size: 44
20241179 TATGCTCTAT
**
20241189 TGCAACTTCAAAGAGATAAGATCCATCATT-TT-AATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATCCAT--TTCTTCAATCCACTCCAC
* *** ** *
20241233 TGCAACTTCAGGGAGATATGATTGGTTTCTTCAATCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATCCATTTCTTCAATCCACTCCAC
*** * * ***
20241277 TGCAACTTCAGGGAGATAAGATTGGTTTATTCAGTCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGATCCATTTCTTCAATCCACTCCAC
* *** ** *
20241321 TGTAACTTCAGGGAGATAAGATGTGTAACTTCAA-CCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCCATTTCTTCAATCC-ACTCCAC
20241365 TGCAACTTCAGGGAGA
1 TGCAACTTCAGGGAGA
20241381 ATAGGTTTTC
Statistics
Matches: 121, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.02
43 3 0.02
44 116 0.96
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATCCATTTCTTCAATCCACTCCAC
Found at i:20241558 original size:42 final size:45
Alignment explanation
Indices: 20241441--20241650 Score: 137
Period size: 44 Copynumber: 4.6 Consensus size: 45
20241431 CAATTTATAG
*
20241441 CTTCAATCTG-TTCCACTGTAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTTCCACTGTAACTTCAGGGAGATAAGATTC-CTAT
* * * *
20241486 CTTCAGTCTGTCTATTCCACTGCAAATTCAGAGAGATAAGACTT-C-A-
1 CTTCAATCTG-C--TTCCACTGTAACTTCAGGGAGATAAGA-TTCCTAT
* ** **
20241532 CTTCAATCTGCTT-CACTGTAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTTCCACTGTAACTTCAGGGAGATAAGATTCCTAT
* * ** *
20241576 CTTTAATCTAC-TCCACTACAACTTCAGGGAGATAAGATTTTCCATCTT
1 CTTCAATCTGCTTCCACTGTAACTTCAGGGAGATAAGA--TTCC-T-AT
* *
20241624 CTTCAATCT-ATTCCACTGCAACTTCAG
1 CTTCAATCTGCTTCCACTGTAACTTCAG
20241651 TGGTATAGGA
Statistics
Matches: 127, Mismatches: 24, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
41 2 0.02
42 20 0.16
43 3 0.02
44 30 0.24
45 10 0.08
46 11 0.09
47 2 0.02
48 24 0.19
49 23 0.18
50 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCTTCCACTGTAACTTCAGGGAGATAAGATTCCTAT
Found at i:20252778 original size:14 final size:14
Alignment explanation
Indices: 20252759--20252787 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20252749 TGTTTAAACC
20252759 ATTTTTATTTTGAA
1 ATTTTTATTTTGAA
20252773 ATTTTTATTTTGAA
1 ATTTTTATTTTGAA
20252787 A
1 A
20252788 AATGGAGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
ATTTTTATTTTGAA
Found at i:20256119 original size:72 final size:71
Alignment explanation
Indices: 20255828--20256102 Score: 336
Period size: 72 Copynumber: 3.8 Consensus size: 71
20255818 TCATCTATGA
** * * * * *
20255828 ATAAATTTTATATCCAAAATC-AAATATAAACAACTATTGATAAAACTAATTTAGTATAACTAAG
1 ATAAATTCAATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGTTTAGCATAAATAAG
20255892 TAGAAC
66 TAGAAC
* * * * *
20255898 ATAAATTCAATATCCAAAAAAAAAAAACATAAACAATTATTGATAAAAATGACCTTAAGCATAAA
1 ATAAATTCAATATCC--AAAAACAAAACATAAACAACTATTGATAAAACT-A-GTTTAGCATAAA
*
20255963 TAAGTAGACC
62 TAAGTAGAAC
* * * *
20255973 ATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGTTTA-GCATAAATAA
20256038 GTAGAAC
65 GTAGAAC
*
20256045 ATAAATTCAATATTCAAAAACAAAACATAAACAACTATTGATAAAACTAGTTTAGCAT
1 ATAAATTCAATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGTTTAGCAT
20256103 TGTTGTTTAG
Statistics
Matches: 172, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
70 13 0.08
71 5 0.03
72 70 0.41
73 51 0.30
74 1 0.01
75 32 0.19
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (71 bp):
ATAAATTCAATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGTTTAGCATAAATAAG
TAGAAC
Found at i:20258559 original size:13 final size:14
Alignment explanation
Indices: 20258540--20258576 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
20258530 CAATTGCATA
20258540 GAAATAATATAAAC
1 GAAATAATATAAAC
20258554 -AAATAA-ATAAAC
1 GAAATAATATAAAC
20258566 GAAACTAATAT
1 GAAA-TAATAT
20258577 TCATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.30
13 9 0.45
14 3 0.15
15 2 0.10
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:20259310 original size:29 final size:29
Alignment explanation
Indices: 20259268--20259325 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20259258 AATAACATAG
20259268 AGCGGCTGGAAAGGAAATCATCCCTTCTC
1 AGCGGCTGGAAAGGAAATCATCCCTTCTC
20259297 AGCGGCTGGAAAGGAAATCATCCCTTCTC
1 AGCGGCTGGAAAGGAAATCATCCCTTCTC
20259326 CTCTAAAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (29 bp):
AGCGGCTGGAAAGGAAATCATCCCTTCTC
Found at i:20268051 original size:16 final size:19
Alignment explanation
Indices: 20268030--20268066 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
20268020 TTGCTCTCCC
20268030 ATTCTCT-T-TTTT-TTTT
1 ATTCTCTGTCTTTTATTTT
20268046 ATTCTCTGTCTTTTATTTT
1 ATTCTCTGTCTTTTATTTT
20268065 AT
1 AT
20268067 AATACGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 4 0.22
19 6 0.33
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.73
Consensus pattern (19 bp):
ATTCTCTGTCTTTTATTTT
Found at i:20272199 original size:9 final size:9
Alignment explanation
Indices: 20272185--20272245 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
20272175 ATAATTTTAT
20272185 TTTTTAAAA
1 TTTTTAAAA
20272194 TTTTTAATAA
1 TTTTTAA-AA
*
20272204 TTTTAAAAA
1 TTTTTAAAA
* *
20272213 TTTTCATAA
1 TTTTTAAAA
**
20272222 TTGTTTGCAA
1 TT-TTTAAAA
*
20272232 TTTTTATAA
1 TTTTTAAAA
20272241 TTTTT
1 TTTTT
20272246 TATTATTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 28 0.67
10 14 0.33
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:20272209 original size:18 final size:18
Alignment explanation
Indices: 20272186--20272223 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20272176 TAATTTTATT
*
20272186 TTTTAAAATTTTTAATAA
1 TTTTAAAAATTTTAATAA
*
20272204 TTTTAAAAATTTTCATAA
1 TTTTAAAAATTTTAATAA
20272222 TT
1 TT
20272224 GTTTGCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAAAAATTTTAATAA
Found at i:20277049 original size:30 final size:30
Alignment explanation
Indices: 20277009--20277077 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
20276999 GATAGTTGGA
* *
20277009 TACCAGATTATTCCAAATTATCATCTTACTT
1 TACCA-ATTATTCCAAATTATCACCTCACTT
*
20277040 TACCAATTATTCCAAATTATCGCCTCACTT
1 TACCAATTATTCCAAATTATCACCTCACTT
20277070 TACCAATT
1 TACCAATT
20277078 TTTATGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (30 bp):
TACCAATTATTCCAAATTATCACCTCACTT
Found at i:20278701 original size:19 final size:20
Alignment explanation
Indices: 20278659--20278707 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
20278649 TTAGTATTTG
*
20278659 TAAAATATAATTTGAATATA
1 TAAAATATAATTTAAATATA
* *
20278679 TAAATTATATTTTAAATAT-
1 TAAAATATAATTTAAATATA
20278698 TAAAATATAA
1 TAAAATATAA
20278708 CATTATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAAATATAATTTAAATATA
Found at i:20278865 original size:22 final size:23
Alignment explanation
Indices: 20278821--20278867 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
20278811 TATAAGGGTT
* **
20278821 AAAAACAATATAGTTTTTCACCA
1 AAAAAAAATATAGTTTTAAACCA
20278844 AAAAAAAATATAG-TTTAAACCA
1 AAAAAAAATATAGTTTTAAACCA
20278866 AA
1 AA
20278868 CTGGACTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAAAAATATAGTTTTAAACCA
Found at i:20279468 original size:17 final size:18
Alignment explanation
Indices: 20279446--20279482 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
20279436 ATAAATAAAT
20279446 AAAATAA-A-CTCTTCTAA
1 AAAATAAGACCTCTTC-AA
20279463 AAAATAAGACCTCTTCAA
1 AAAATAAGACCTCTTCAA
20279481 AA
1 AA
20279483 TAAGTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAATAAGACCTCTTCAA
Found at i:20303159 original size:30 final size:30
Alignment explanation
Indices: 20303125--20303185 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
20303115 TCCGGTGATA
* *
20303125 GAAAAATGCAACGTTTGTTCGTTGATCGTT
1 GAAAAATGCAACGTTTATTCATTGATCGTT
20303155 GAAAAATGCAACGTTTATTCATTGATCGTT
1 GAAAAATGCAACGTTTATTCATTGATCGTT
20303185 G
1 G
20303186 TAGAGGTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (30 bp):
GAAAAATGCAACGTTTATTCATTGATCGTT
Found at i:20303872 original size:89 final size:87
Alignment explanation
Indices: 20303649--20304039 Score: 323
Period size: 88 Copynumber: 4.5 Consensus size: 87
20303639 TTGTTTCCAA
* * * * *
20303649 ATTAAAAGTAAATAAAATCCGTTTCATGATTTATTCCCGCCATTCAACGGATTTTATTATATTAT
1 ATTAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAA-GGATTTTATTACA--A-
* ***
20303714 TTTTAATTTTATTTCCAAACGGGAA--
62 TTTTGATTTTATTTCCAAA-AATAAGT
* * * ** * *
20303739 ATTAAAGTTAAATAAAACCCGTTTGGGGATTTATTCCCGTCGTTCAATGGATTTTATTCCAATTT
1 ATTAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAA-GGATTTTATTACAATTT
*
20303804 TGATTTTATTACCAAAAATAAGT
65 TGATTTTATTTCCAAAAATAAGT
* * *
20303827 ATTAAAATTAAAATAAAATCTGTTTCAGGATTTATTCCCACCGTTCAACGAATTTATTAC-ATTT
1 ATTAAAATT-AAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAAGGATTTTATTACAATTT
* * *
20303891 TGATTTTTTTTGCCAAAAATGAGAA
65 TGATTTTATTT-CCAAAAATAAG-T
* * * * *
20303916 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTACCGCCGTTTAAGAAGATTTTATT-TAATT
1 ATTAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAAG--GATTTTATTACAATT
* * *
20303980 TT-ATGTTGTTTCC--AAATTAGT
64 TTGATTTTATTTCCAAAAATAAGT
*
20304001 ATT-AAATTAAATAAAATCTGTTT-TGAGATTTATTCCCGC
1 ATTAAAATTAAATAAAATCTGTTTCAG-GATTTATTCCCGC
20304040 TGTTTAACAA
Statistics
Matches: 247, Mismatches: 45, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
83 1 0.00
84 31 0.13
85 3 0.01
86 8 0.03
87 30 0.12
88 63 0.26
89 48 0.19
90 63 0.26
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (87 bp):
ATTAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAAGGATTTTATTACAATTTT
GATTTTATTTCCAAAAATAAGT
Found at i:20304031 original size:84 final size:78
Alignment explanation
Indices: 20303920--20304135 Score: 236
Period size: 84 Copynumber: 2.7 Consensus size: 78
20303910 TGAGAAATTA
* * *
20303920 AAATTAAATAAAATCTATTTCGGGATTTATTACCGCCGTTTAAGAAGATTTTATTTAATTTTATG
1 AAATTAAATAAAATCTGTTTCGAGATTTATTACCGCCGTTTAACAAGATTTTATTTAATTTTA--
20303985 TTGTTTCCAAATTAGTATT
64 ---TTTCCAAATTA-TATT
* * * *
20304004 AAATTAAATAAAATCTGTTTTGAGATTTATTCCCGCTGTTTAACAAGATTTTATTTTATTTTATT
1 AAATTAAATAAAATCTGTTTCGAGATTTATTACCGCCGTTTAACAAGATTTTATTTAATTTTATT
* *
20304069 TCTAAATTATTTT
66 TCCAAATTATATT
* * ****
20304082 AAATTAAATAAAATCTGTTT-GGGGTTTATTTTTTCCGTTTAACAAGATTTTATT
1 AAATTAAATAAAATCTGTTTCGAGATTTATTACCGCCGTTTAACAAGATTTTATT
20304136 CGATATTGTT
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 27 0.23
78 23 0.20
79 10 0.09
84 56 0.48
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (78 bp):
AAATTAAATAAAATCTGTTTCGAGATTTATTACCGCCGTTTAACAAGATTTTATTTAATTTTATT
TCCAAATTATATT
Found at i:20309008 original size:46 final size:46
Alignment explanation
Indices: 20308944--20309229 Score: 461
Period size: 46 Copynumber: 6.3 Consensus size: 46
20308934 TGACAAGTGG
* * *
20308944 AAAGTGATAGGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
20308990 AAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
20309036 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
20309082 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
20309128 AAAGTGATAAGTGGTGGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
* * * *
20309174 AAAGTGATAAGTGGTAGC-CTAACTACACTTATCTAATC-AGGGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
20309218 -AAGTGATAAGTG
1 AAAGTGATAAGTG
20309230 ATCATACCCA
Statistics
Matches: 229, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
43 12 0.05
44 5 0.02
45 17 0.07
46 195 0.85
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
Found at i:20311431 original size:3 final size:3
Alignment explanation
Indices: 20311408--20311479 Score: 60
Period size: 3 Copynumber: 24.3 Consensus size: 3
20311398 TATAAACAAA
* * * *
20311408 AAT AA- AAT AAT AA- AACC AAT AAT AAT AGT AAT AAT AGT AAT AAC
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
20311452 AAT AAT AAT ACT AAT AAAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
20311480 TTAAACTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:20311484 original size:15 final size:15
Alignment explanation
Indices: 20311407--20311498 Score: 50
Period size: 15 Copynumber: 6.2 Consensus size: 15
20311397 ATATAAACAA
20311407 AAATAAAATAATAA-
1 AAATAAAATAATAAT
** *
20311421 AACCAATAATAATAGT
1 AAATAA-AATAATAAT
*
20311437 -AATAATAGTAATAA-
1 AAATAA-AATAATAAT
* *
20311451 CAATAATAATACTAAT
1 AAATAA-AATAATAAT
*
20311467 AAATAAAATAATATT
1 AAATAAAATAATAAT
20311482 AAACTAAAA-AA-AAT
1 AAA-TAAAATAATAAT
20311496 AAA
1 AAA
20311499 ACAGCACAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.15
15 41 0.68
16 10 0.17
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATAAAATAATAAT
Found at i:20318262 original size:13 final size:14
Alignment explanation
Indices: 20318246--20318283 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
20318236 TGTCCATTCA
20318246 ACATTTCATAT-TT
1 ACATTTCATATGTT
*
20318259 ACATTTCATGTGTT
1 ACATTTCATATGTT
*
20318273 CCATTTCATAT
1 ACATTTCATAT
20318284 ATTAGTTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (14 bp):
ACATTTCATATGTT
Found at i:20329519 original size:24 final size:24
Alignment explanation
Indices: 20329492--20329548 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
20329482 AAGATTTAGT
*
20329492 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
20329516 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCATAATATATTTAAC
*
20329540 ATTGATTAG
1 ATTTATTAG
20329549 AATTAGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:20335465 original size:47 final size:47
Alignment explanation
Indices: 20335399--20335827 Score: 696
Period size: 47 Copynumber: 9.1 Consensus size: 47
20335389 GAAATGATAG
* *
20335399 TAAGGCTTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20335446 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20335495 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20335542 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20335589 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20335636 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20335683 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20335730 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
20335777 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20335824 TAAG
1 TAAG
20335828 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 314 0.87
49 47 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20336002 original size:37 final size:37
Alignment explanation
Indices: 20335946--20336024 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
20335936 CCGAGCTCTA
* *
20335946 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
20335983 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20336020 AAGAC
1 AAGAC
20336025 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20337939 original size:43 final size:43
Alignment explanation
Indices: 20337891--20337993 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
20337881 TTGGTTTTCA
20337891 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
20337934 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
20337977 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
20337994 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:20338010 original size:29 final size:29
Alignment explanation
Indices: 20337975--20338048 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
20337965 GTTGTGAGAT
* *
20337975 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
20338004 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
20338033 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20338049 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:20338490 original size:40 final size:40
Alignment explanation
Indices: 20338446--20338602 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
20338436 GAGTTACTAA
*
20338446 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
20338486 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
20338526 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * *
20338566 ATCCGTGCTAAATCCCAAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
20338603 CGTGTATTCG
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:20338504 original size:80 final size:80
Alignment explanation
Indices: 20338367--20338596 Score: 225
Period size: 80 Copynumber: 2.9 Consensus size: 80
20338357 TCGAATGATG
** * * *
20338367 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGCGA-TATATCCGGGCTAAG-TCCCGAAGAGC
** *
20338428 ATTGGTGCGAGTTACTAAA
63 ATTCATGCGAGTGA-TAAA
*
20338447 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAGTCCCGAAGAGCATT
* **
20338512 CATGCTAGTGATGTA
66 CATGCGAGTGATAAA
* * * * * * *
20338527 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCAAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAGTCCCGAAGAGCATT
20338592 CATGC
66 CATGC
20338597 TGGTGACGTG
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 101 0.80
81 18 0.14
82 6 0.05
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCGAGTGATAAA
Found at i:20338587 original size:120 final size:120
Alignment explanation
Indices: 20338367--20338597 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 120
20338357 TCGAATGATG
** *
20338367 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* * * *
20338432 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCAAAGAGCAATCATGCTAGCGATGTA
** * *
20338487 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* * *
20338550 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCAAAGAGCAATCATGCT
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCAAAGAGCAATCATGCT
20338598 GGTGACGTGT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
120 68 0.72
121 20 0.21
122 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCAAAGAGCAATCATGCTAGCGATGTA
Found at i:20342350 original size:47 final size:47
Alignment explanation
Indices: 20342284--20342759 Score: 772
Period size: 47 Copynumber: 10.1 Consensus size: 47
20342274 GAAATGATAG
20342284 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20342331 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20342380 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
20342427 TAAGGCCTAATAGCCGATTTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20342474 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20342521 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20342568 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20342615 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20342662 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
20342709 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATTTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20342756 TAAG
1 TAAG
20342760 TCCCGAAGGG
Statistics
Matches: 406, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 359 0.88
49 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20342934 original size:37 final size:37
Alignment explanation
Indices: 20342878--20342956 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
20342868 CCGAGCTCTA
* *
20342878 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
20342915 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20342952 AAGAC
1 AAGAC
20342957 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20351206 original size:16 final size:16
Alignment explanation
Indices: 20351185--20351245 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
20351175 TTGGACTTGA
*
20351185 TTATTATTTTTGTTTT
1 TTATTATTTGTGTTTT
20351201 TTATTATTTGTGTTTT
1 TTATTATTTGTGTTTT
*
20351217 TT-TGTATGTGTGTTTGT
1 TTAT-TATTTGTGTTT-T
*
20351234 GTATT-TTTGTGT
1 TTATTATTTGTGT
20351246 ATAGCATTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 1 0.03
16 33 0.87
17 3 0.08
18 1 0.03
ACGTcount: A:0.10, C:0.00, G:0.18, T:0.72
Consensus pattern (16 bp):
TTATTATTTGTGTTTT
Found at i:20353884 original size:19 final size:20
Alignment explanation
Indices: 20353847--20353885 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20353837 TTTTGGATGA
*
20353847 TGAACTAAGTTGTAATAAAC
1 TGAACTAAATTGTAATAAAC
20353867 TGAACTAAATTG-AATAAAC
1 TGAACTAAATTGTAATAAAC
20353886 CTAAAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
TGAACTAAATTGTAATAAAC
Found at i:20359840 original size:69 final size:68
Alignment explanation
Indices: 20359724--20359868 Score: 272
Period size: 69 Copynumber: 2.1 Consensus size: 68
20359714 TTCTTTATCT
20359724 ACTTGTGAGCGTAATAGTGGTATCAAAGCTTGGTTCAATCTAGTTAACCCCCCCCCCTAAAAAAA
1 ACTT-TGAGCGTAATAGTGGTATCAAAGCTTGGTTCAATCTAGTTAA-CCCCCCCCCTAAAAAAA
20359789 TTATA
64 TTATA
20359794 ACTTTGAGCGTAATAGTGGTATCAAAGCTTGGTTCAATCTAGTTAACCCCCCCCCTAAAAAAATT
1 ACTTTGAGCGTAATAGTGGTATCAAAGCTTGGTTCAATCTAGTTAACCCCCCCCCTAAAAAAATT
20359859 ATA
66 ATA
20359862 ACTTTGA
1 ACTTTGA
20359869 TTTGTTTTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 29 0.39
69 42 0.56
70 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (68 bp):
ACTTTGAGCGTAATAGTGGTATCAAAGCTTGGTTCAATCTAGTTAACCCCCCCCCTAAAAAAATT
ATA
Found at i:20368432 original size:12 final size:12
Alignment explanation
Indices: 20368415--20368440 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20368405 CAAAACAGGC
20368415 TTTTAGCGGCGT
1 TTTTAGCGGCGT
20368427 TTTTAGCGGCGT
1 TTTTAGCGGCGT
20368439 TT
1 TT
20368441 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:20368644 original size:74 final size:72
Alignment explanation
Indices: 20368509--20368681 Score: 238
Period size: 74 Copynumber: 2.4 Consensus size: 72
20368499 AAAATAAGCA
* *
20368509 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAATGACGCCGTTTCCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTCCTGAGCTTT
20368574 CGGGGAT
66 CGGGGAT
* * * **
20368581 TTAGTGGCGTTTTTGAGAAAGCACCGCAAAAAAAACATAAGCCCAACGATGCCGTTTTGTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC--AAAAAACATAAGCCCAACGACGCCGTTTCCTGAGCT
*
20368646 TTCGGGGTT
64 TTCGGGGAT
* *
20368655 TTAGCGGCATTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
20368682 TAATGCTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 25 0.29
74 62 0.71
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTCCTGAGCTTT
CGGGGAT
Found at i:20368874 original size:227 final size:228
Alignment explanation
Indices: 20368580--20368999 Score: 562
Period size: 227 Copynumber: 1.8 Consensus size: 228
20368570 CTTTCGGGGA
* * * * *
20368580 TTTAGTGGCGTTTTTGAGAAAGCACCGCAAAAAAAACATAAGCCCAACGATGCCGTTTTGTGAGC
1 TTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAAACATAAGCCCAACAACGCCGTTTTCTGAGC
* * *
20368645 TTTCGGGGTTTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTC
66 TTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCATTTT-
* * *
20368710 TCA-AAAATGCCGCAAGAAAA-CCTAAG-CTCAACGACGTCGTTTTGTGAGCTTTC-GAGGATTT
130 TCAGAAAACGCCGCAA-AAAATCCTAAGCCT-AACGACGCCGTTTTCTGAGCTTTCAG-GGATTT
20368771 AGCGGCGTTTTAAGAAAGCGCCGCTAATGCTTAAGGC
192 AGCGGCGTTTTAAGAAAGCGCCGCTAATGCTTAAGGC
* * **
20368808 TTTAGCGGCATTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGTTCAACAACGCCGTTTTCTGAGC
1 TTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAAACATAAGCCCAACAACGCCGTTTTCTGAGC
* * * * *
20368872 TTTCGGGGATTTAGCAGCGTTTTTAATAAAGCGCCGCTAATGTTCAGGGCTTTAGTGGCATTTTT
66 TTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCATTTTT
* * *
20368937 GAGAAAGCGCCGCAAAAAATTCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAG
131 CAGAAAACGCCGCAAAAAATCCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAG
20369000 TGGCCAAAAA
Statistics
Matches: 165, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
226 6 0.04
227 131 0.79
228 28 0.17
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (228 bp):
TTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAAACATAAGCCCAACAACGCCGTTTTCTGAGC
TTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCATTTTT
CAGAAAACGCCGCAAAAAATCCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCG
GCGTTTTAAGAAAGCGCCGCTAATGCTTAAGGC
Found at i:20368950 original size:114 final size:114
Alignment explanation
Indices: 20368580--20368999 Score: 531
Period size: 114 Copynumber: 3.7 Consensus size: 114
20368570 CTTTCGGGGA
* * * * * *
20368580 TTTAGTGGCGTTTTTGAGAAAGCACCGCAAAAAAAACATAAGCCCAACGATGCCGTTTTGTGAGC
1 TTTAGCGGCATTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* * *
20368645 TTTCGGGGTTTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAAGGC
* * ** * * * *
20368695 TTTAGCGGCGTTTTCTCA-AAAATGCCGCAAGAAAACCTAAGCTCAACGACGTCGTTTTGTGAGC
1 TTTAGCGGCATTTT-TGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
*
20368759 TTTCGAGGATTTAGCGGCG-TTTTAAGAAAGCGCCGCTAATGCTT-AAGGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATG-TTCAAGGC
** *
20368808 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTTCAACAACGCCGTTTTCTGAGCT
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
20368873 TTCGGGGATTTAGCAGCGTTTTTAATAAAGCGCCGCTAATGTTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAAGGC
* ** *
20368922 TTTAGTGGCATTTTTGAGAAAGCGCCGCAAAAAATTCTAAGCCTAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
20368987 TTCAGGGATTTAG
66 TTCGGGGATTTAG
20369000 TGGCCAAAAA
Statistics
Matches: 265, Mismatches: 35, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
112 2 0.01
113 98 0.37
114 143 0.54
115 20 0.08
116 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAAGGC
Found at i:20369611 original size:20 final size:21
Alignment explanation
Indices: 20369586--20369625 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20369576 TTATGAATTA
*
20369586 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
*
20369606 GGGATTTAAGGTTTAGGGGT
1 GGGATTTAAGGTTTAAGGGT
20369626 CAGGGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTT
Found at i:20369620 original size:21 final size:20
Alignment explanation
Indices: 20369586--20369647 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
20369576 TTATGAATTA
*
20369586 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
* *
20369606 GGGATTTAAGGTTTAGGGGTCA
1 GGGA-TTAAGGTTTAAGGGT-T
*
20369628 GGGATTAGAAG-TTAAGGGTT
1 GGGATTA-AGGTTTAAGGGTT
20369648 TAGGGGTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 4 0.12
21 23 0.70
22 6 0.18
ACGTcount: A:0.24, C:0.02, G:0.40, T:0.34
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:20369652 original size:22 final size:22
Alignment explanation
Indices: 20369627--20369677 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
20369617 TTTAGGGGTC
20369627 AGGGATT-AGAAGTTAAGGGTTT
1 AGGGATTAAGAAGTTAA-GGTTT
* *
20369649 AGGGGTTAAGGAGTTAAGGTTT
1 AGGGATTAAGAAGTTAAGGTTT
20369671 AGGGATT
1 AGGGATT
20369678 CAGGGATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.31
Consensus pattern (22 bp):
AGGGATTAAGAAGTTAAGGTTT
Found at i:20369674 original size:29 final size:29
Alignment explanation
Indices: 20369610--20369674 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
20369600 AGGGTTGGGA
* *
20369610 TTTAAGGTTTAGGGGTCAGGGATTAGAAG
1 TTTAGGGTTTAGGGGTCAAGGATTAGAAG
* * *
20369639 TTAAGGGTTTAGGGGTTAAGGAGTTA-AGG
1 TTTAGGGTTTAGGGGTCAAGGA-TTAGAAG
20369668 TTTAGGG
1 TTTAGGG
20369675 ATTCAGGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.40, T:0.32
Consensus pattern (29 bp):
TTTAGGGTTTAGGGGTCAAGGATTAGAAG
Done.