Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 73
Found at i:7182999 original size:402 final size:401
Alignment explanation
Indices: 7182251--7183247 Score: 1473
Period size: 401 Copynumber: 2.5 Consensus size: 401
7182241 ATTTTCAAAA
* * *
7182251 GTATCGACACTAATTTAA-AAAGTATCGATACAT-TCTGTAGACCTATTTTCTCATAAAACCGGT
1 GTATCGACAC-AAATGAATAAAGTATCGACACATAT-TGTAGACCTATTTTCTCATAAAACCGGT
* * * *
7182314 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTA-ATTACAATTATGGGTTTCGATGTATTTA
64 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
* * * *
7182378 GGATCGACACTT--TTTAAATGTATCGACACTT-TTCGTGAAC-----TTGTTTGGAAAATTATT
129 GGATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAA-CATT
* * * *
7182435 ATGGACATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTAAAT
193 ATGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAAAT
*
7182500 AACCAGTATATTTACACCGATTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGAT
258 AACCAGTATATTTACACCGATTACATTGTTATGTTACCGATTACATTATAATTACGTGTTTCGAT
*
7182565 GTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATA
323 GTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTAG-AATA
7182630 CATTCTGGACAACAT
387 CATTCTGGACAACAT
*
7182645 GTATCGACACAAATGAATAAAGTATCGACACATATTGTAGACCTATTTTCTCATAAAATCGGTAA
1 GTATCGACACAAATGAATAAAGTATCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
* *
7182710 ATTTAAATCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGG
7182775 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACATTATG
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACATTATG
* ** * * * *
7182840 GACACAAATTATCGGTAC-AATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCATA-A
196 GACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCT-TTTT-TCAAATA
* * * * *
7182903 ACCGGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTACG-GATTTCGAT
259 ACCAGTATATTTACACCGATTACATTGTTATGTTACCGATTACATTATAATTACGTG-TTTCGAT
* * *
7182967 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTAGAATAC
323 GTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTAGAATAC
7183032 ATTCTGGACAACAT
388 ATTCTGGACAACAT
*
7183046 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
1 GTATCGACACAAATGAATAAAGTATCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
* *
7183111 ACTTAAACCGGTTACATTTTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGG
7183176 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGG-AAA-ACATTA
7183241 TGGACAC
194 TGGACAC
7183248 TTTTACCTTT
Statistics
Matches: 546, Mismatches: 41, Indels: 23
0.90 0.07 0.04
Matches are distributed among these distances:
393 5 0.01
394 86 0.16
395 36 0.07
397 17 0.03
398 8 0.01
401 227 0.42
402 139 0.25
403 28 0.05
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (401 bp):
GTATCGACACAAATGAATAAAGTATCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGG
ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACATTATG
GACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAAATAAC
CAGTATATTTACACCGATTACATTGTTATGTTACCGATTACATTATAATTACGTGTTTCGATGTT
TGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTAGAATACATT
CTGGACAACAT
Found at i:7183827 original size:160 final size:161
Alignment explanation
Indices: 7183655--7183975 Score: 635
Period size: 160 Copynumber: 2.0 Consensus size: 161
7183645 CTTTTGAGCA
7183655 TCACTCATCGAATTACATTTCGACCTCACATCTTTTTCACTTAATATTAAGCATAAACGTTTCTT
1 TCACTCATCGAATTACATTTCGACCTCACATCTTTTTCACTTAATATTAAGCATAAACGTTTCTT
7183720 AATCAATACATTAACGCTAAATAATACTCAATGTCAATTTCA-TTTACATACCGAACCGCTGTGT
66 AATCAATACATTAACGCTAAATAATACTCAATGTCAATTTCATTTTACATACCGAACCGCTGTGT
7183784 GTGCCATCTTCCTTCATCATTTTGCATTCGT
131 GTGCCATCTTCCTTCATCATTTTGCATTCGT
7183815 TCACTCATCGAATTACATTTCGACCTCACATCTTTTTCACTTAATATTAAGCATAAACGTTTCTT
1 TCACTCATCGAATTACATTTCGACCTCACATCTTTTTCACTTAATATTAAGCATAAACGTTTCTT
7183880 AATCAATACATTAACGCTAAATAATACTCAATGTCAATTTCATTTTACATACCGAACCGCTGTGT
66 AATCAATACATTAACGCTAAATAATACTCAATGTCAATTTCATTTTACATACCGAACCGCTGTGT
7183945 GTGCCATCTTCCTTCATCATTTTGCATTCGT
131 GTGCCATCTTCCTTCATCATTTTGCATTCGT
7183976 CCATACTGTC
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 107 0.67
161 53 0.33
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (161 bp):
TCACTCATCGAATTACATTTCGACCTCACATCTTTTTCACTTAATATTAAGCATAAACGTTTCTT
AATCAATACATTAACGCTAAATAATACTCAATGTCAATTTCATTTTACATACCGAACCGCTGTGT
GTGCCATCTTCCTTCATCATTTTGCATTCGT
Found at i:7184943 original size:20 final size:20
Alignment explanation
Indices: 7184897--7184943 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
7184887 ACCGGTAGCG
*
7184897 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTATCATTT
**
7184917 CGATACCGGTTTTATCATATT
1 CTTTACCGGTTTTATCAT-TT
7184938 -TTTACC
1 CTTTACC
7184944 TATTATATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTATCATTT
Found at i:7185519 original size:182 final size:182
Alignment explanation
Indices: 7184871--7185520 Score: 901
Period size: 182 Copynumber: 3.6 Consensus size: 182
7184861 ATTAAAGTAC
* * * *
7184871 CGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCGGTTTTATCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * * * *
7184936 TTTTTACCTATTATATTATTATGGATCGATACATTTTCT-TAAAGTATCAACACTTTTTAGGCGC
66 TTATTACCTGTTATATTACTATGGATCGATACATTTT-TATAAAGTATCGACACCTTTTAGGCGC
* *
7185000 TATAATTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* **** * ** *
7185053 CGACACTTTTAATATATCCGGTATATTTTTACCGATTTTATCATTTCGAGACCTCTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * * *
7185118 TTATTACCGGATATATTACTATGGATCAATACATTTGTATAAAGTATCGACA-CTTTTCAGGCGC
66 TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTT-AGGCGC
7185182 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* ** * * *
7185235 CGACACTTTCAATATATACGGTAGCTTTTTACCGGTTTTATCATTTTGAGACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* *
7185300 TTATTACCTGTTATATTGCTATGGATCGACACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
66 TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
* *
7185365 ATAACTTCTTCTCTTTTAAATTACAAAAGTATCGACACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * *
7185417 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATAAT-GACATCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTATCAT
* *
7185481 ATTTTTACCTGTTATATTGCTATGGATCGATACATTTTTA
65 ATTATTACCTGTTATATTACTATGGATCGATACATTTTTA
7185521 ATTTGTATCG
Statistics
Matches: 415, Mismatches: 49, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
181 5 0.01
182 404 0.97
183 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (182 bp):
CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
Found at i:7195422 original size:13 final size:13
Alignment explanation
Indices: 7195406--7195431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7195396 AAAAAAAATT
7195406 GAAAAAATAGAAA
1 GAAAAAATAGAAA
7195419 GAAAAAATAGAAA
1 GAAAAAATAGAAA
7195432 AAAGGACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
GAAAAAATAGAAA
Found at i:7198344 original size:19 final size:19
Alignment explanation
Indices: 7198301--7198345 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
7198291 TCAAGGACGA
7198301 GAAGACCCTTCACAAAGGGAT
1 GAAGACCCTTCACAAA--GAT
7198322 GAAGACCACTTCACAAA-AT
1 GAAGACC-CTTCACAAAGAT
7198341 GAAGA
1 GAAGA
7198346 TCTCATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (19 bp):
GAAGACCCTTCACAAAGAT
Found at i:7198777 original size:32 final size:32
Alignment explanation
Indices: 7198741--7198802 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
7198731 ATTTGTGAGT
7198741 GGTCATTAGAGTAAAAGGATTTCATGATGGGC
1 GGTCATTAGAGTAAAAGGATTTCATGATGGGC
*
7198773 GGTCATTAGAGTAAAAGGATTTTATGATGG
1 GGTCATTAGAGTAAAAGGATTTCATGATGG
7198803 ACAAAGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (32 bp):
GGTCATTAGAGTAAAAGGATTTCATGATGGGC
Found at i:7200980 original size:44 final size:44
Alignment explanation
Indices: 7200917--7201008 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
7200907 GAAGTTAACA
* *
7200917 ATACTACTATACATAGTAGTATCGATACTCCTTGGACGGTATCG
1 ATACTACTACACATAGTAGTATCGATACTCCTTGAACGGTATCG
*
7200961 ATACTACTACACATAGTAGTATCGATACTCCTTGAAGGGTATCG
1 ATACTACTACACATAGTAGTATCGATACTCCTTGAACGGTATCG
7201005 ATAC
1 ATAC
7201009 CGTTGGGTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (44 bp):
ATACTACTACACATAGTAGTATCGATACTCCTTGAACGGTATCG
Found at i:7204512 original size:38 final size:38
Alignment explanation
Indices: 7204461--7204542 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
7204451 GTGATCAAGA
7204461 CCCAACCCGATTGGACCTGAACCGACCCGAGATCCAGG
1 CCCAACCCGATTGGACCTGAACCGACCCGAGATCCAGG
*
7204499 CCCAACCCGATTGGACCTGAACCGACCTGAGATCCAGG
1 CCCAACCCGATTGGACCTGAACCGACCCGAGATCCAGG
7204537 CCCAAC
1 CCCAAC
7204543 ATCCATCCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.27, C:0.40, G:0.22, T:0.11
Consensus pattern (38 bp):
CCCAACCCGATTGGACCTGAACCGACCCGAGATCCAGG
Found at i:7205518 original size:30 final size:30
Alignment explanation
Indices: 7205482--7205539 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
7205472 TCTGTTAATA
7205482 CTATTTTAGTCCTTTAAATTTTTGTTTTTG
1 CTATTTTAGTCCTTTAAATTTTTGTTTTTG
7205512 CTATTTTAGTCCTTTAAATTTTTGTTTT
1 CTATTTTAGTCCTTTAAATTTTTGTTTT
7205540 ATTATTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.10, G:0.09, T:0.64
Consensus pattern (30 bp):
CTATTTTAGTCCTTTAAATTTTTGTTTTTG
Found at i:7205801 original size:16 final size:17
Alignment explanation
Indices: 7205764--7205801 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7205754 GCAAACCAAT
7205764 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
* *
7205781 ATTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
7205797 TTTTT
1 TTTTT
7205802 AAAAGACATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:7208534 original size:20 final size:21
Alignment explanation
Indices: 7208509--7208562 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7208499 CTCTTGCTAG
*
7208509 GTATCGATACTACTAGC-CTA
1 GTATCGATACTACTAGCACGA
* *
7208529 GTATCGATACTGCTATCATCGA
1 GTATCGATACTACTAGCA-CGA
7208551 GTATCGATACTA
1 GTATCGATACTA
7208563 TTCTTACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 15 0.54
22 13 0.46
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (21 bp):
GTATCGATACTACTAGCACGA
Found at i:7208777 original size:16 final size:16
Alignment explanation
Indices: 7208756--7208788 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7208746 TCATCTCTAA
7208756 AACCCCAAATCCCCAC
1 AACCCCAAATCCCCAC
7208772 AACCCCAAATCCCCAC
1 AACCCCAAATCCCCAC
7208788 A
1 A
7208789 TTACTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.55, G:0.00, T:0.06
Consensus pattern (16 bp):
AACCCCAAATCCCCAC
Found at i:7210787 original size:2 final size:2
Alignment explanation
Indices: 7210780--7210804 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7210770 TCTTAGCAGC
7210780 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7210805 CAATTTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7211051 original size:23 final size:23
Alignment explanation
Indices: 7211025--7211078 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
7211015 AAGATTTTAT
*
7211025 ATTCGATTTAAATATTATATTCG
1 ATTCAATTTAAATATTATATTCG
*
7211048 ATTCAATTTAGATATTATATTCG
1 ATTCAATTTAAATATTATATTCG
7211071 ATTCAATT
1 ATTCAATT
7211079 ATTCGAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (23 bp):
ATTCAATTTAAATATTATATTCG
Found at i:7211081 original size:18 final size:18
Alignment explanation
Indices: 7211021--7211081 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 18
7211011 TTTTAAGATT
* *
7211021 TTATATTCGATTTAAATA
1 TTATATTCGATTCAATTA
7211039 TTATATTCGATTCAATTTAGATA
1 TTATATTCGATTCAA--T---TA
7211062 TTATATTCGATTCAATTA
1 TTATATTCGATTCAATTA
7211080 TT
1 TT
7211082 CGAATATTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 18 0.50
21 1 0.03
23 17 0.47
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (18 bp):
TTATATTCGATTCAATTA
Found at i:7211426 original size:44 final size:44
Alignment explanation
Indices: 7211371--7211469 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
7211361 TACCATGTTC
* * * * *
7211371 GATATCAATACTACTATACATAGTAGTATCGATACTCCTTGGAT
1 GATATCGATACTACTACACATACTAGTATCGATACTCCTTGAAG
7211415 GATATCGATACTACTACACATACTAGTATCGATACTCCTTGAAG
1 GATATCGATACTACTACACATACTAGTATCGATACTCCTTGAAG
*
7211459 GGTATCGATAC
1 GATATCGATAC
7211470 CGTTGGGTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (44 bp):
GATATCGATACTACTACACATACTAGTATCGATACTCCTTGAAG
Found at i:7217451 original size:41 final size:42
Alignment explanation
Indices: 7217346--7217451 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 42
7217336 TCTTATTTAG
* * * *
7217346 TAAGT-CTTTGGGCCAT-CAGTAAGTATTTTGAGCATGATGCT
1 TAAGTCCTTAGGGCCATCCA-TAAGTATTTTGAGAAAGATGCA
* * *
7217387 TAAATCCTTCA-GGTCATCTATAAGTATTTTGAGAAAGATG-A
1 TAAGTCCTT-AGGGCCATCCATAAGTATTTTGAGAAAGATGCA
7217428 TAAGTCCTTAGGGCCATCCATAAG
1 TAAGTCCTTAGGGCCATCCATAAG
7217452 ACCTTCGGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.02
41 23 0.45
42 26 0.51
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGTCCTTAGGGCCATCCATAAGTATTTTGAGAAAGATGCA
Found at i:7217666 original size:21 final size:21
Alignment explanation
Indices: 7217642--7217692 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
7217632 GTCATGTTGA
7217642 AGTC-TTTCGAGCAAGATGATG
1 AGTCATTT-GAGCAAGATGATG
* *
7217663 AGTCATTTGGGCAAGATGATT
1 AGTCATTTGAGCAAGATGATG
7217684 AGTCATTTG
1 AGTCATTTG
7217693 GGCCATCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (21 bp):
AGTCATTTGAGCAAGATGATG
Found at i:7217693 original size:21 final size:21
Alignment explanation
Indices: 7217652--7217695 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
7217642 AGTCTTTCGA
7217652 GCAAGATGATGAGTCATTTGG
1 GCAAGATGATGAGTCATTTGG
*
7217673 GCAAGATGATTAGTCATTTGG
1 GCAAGATGATGAGTCATTTGG
7217694 GC
1 GC
7217696 CATCCATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (21 bp):
GCAAGATGATGAGTCATTTGG
Found at i:7217870 original size:254 final size:251
Alignment explanation
Indices: 7217421--7218299 Score: 893
Period size: 254 Copynumber: 3.6 Consensus size: 251
7217411 TATTTTGAGA
* * * *
7217421 AAGATGATAAGTCCTTAGGGCCATCCATAAGACCTTCGGGTAGGATGTATTCACATGTTTTTCGA
1 AAGATGAT-AGTCATTTGGGCCATCCATAAGACCTTCGGGCAGGATGT-TTTACATGTTTTTCGA
* *
7217486 AAAATGAGAAAAGTTTATCATTTAAATCTGAAAATT-AAATTTTTTTAAAAGTAAGAAAAGTTTC
64 AAAATGAGAAAAGTTTCTCATTTAAATATG-AAATTGAAA-TTTTTTAAAAGTAAGAAAAGTTTC
* * * * ** * *
7217550 TTACATAGTACACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
127 TTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGGCTGTCAGTAAATCTTTCAAGCATG
* *
7217615 ATACTTAAATCCTTCGGGTCATGT-TGAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGC
192 ATACTTAACTCCTTCGAGTCATGTGT-AAGTCTTTCGAGCAAGATGATGAGTCATTTGGGC
*
7217675 AAGATGATTAGTCATTTGGGCCATCCATAAGACCTTAGGGCAGGATGTTTTATCATGTTTTTCGA
1 AAGATGA-TAGTCATTTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTA-CATGTTTTTCGA
* * *
7217740 AAAATAAGAAACGTTTCTCATTTAAATATGAAATTTGAAATTTTTTAAAAGTAAGAAAATTTTCT
64 AAAATGAGAAAAGTTTCTCATTTAAATATGAAA-TTGAAATTTTTTAAAAGTAAGAAAAGTTTCT
** *
7217805 TACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGAATGTCAATAAATCTTTCAAGCATGA
128 TACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGGCTGTCAGTAAATCTTTCAAGCATGA
*
7217870 TACTTAACTCCTTCGAGTCATGCGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGC
193 TACTTAACTCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGC
* * * *
7217929 -----------CA--T---CCA--C--AAGACCTTCGAGCAGGATATTTTCACATATTTTTAGAA
1 AAGATGATAGTCATTTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTT-ACATGTTTTTCGAA
*** * **
7217974 AAATGAGAAAAAAAATCTAATTT-AA-AT---A-TGAAATTTTCGAAAAGTAAGAAAAGTTTCTT
65 AAATGAG-AAAAGTTTCTCATTTAAATATGAAATTGAAATTTTTTAAAAGTAAGAAAAGTTTCTT
*
7218033 ACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGGCTGTCAGTAAATCTTTCCAGCATGAT
129 ACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGGCTGTCAGTAAATCTTTCAAGCATGAT
7218098 ACTTAACTCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATGATGAG-----T---C
194 ACTTAACTCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGC
* *
7218148 -----G-T--TC----GGGCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTTGAA
1 AAGATGATAGTCATTTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTT-ACATGTTTTTCG-A
** * *
7218201 AAAATGAGAAAAAAATTCTCATTTAAATATGAAAATTG-AATTTTTTGTAAATTAAGAAAAGTTT
64 AAAATGAG-AAAAGTTTCTCATTTAAATATG-AAATTGAAATTTTTT-AAAAGTAAGAAAAGTTT
* *
7218265 CTTACCTAGCAAACTATTTCCAAAATTTGTAAGTC
126 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTC
7218300 CTTCGGGCCA
Statistics
Matches: 544, Mismatches: 55, Indels: 71
0.81 0.08 0.11
Matches are distributed among these distances:
219 1 0.00
222 2 0.00
223 3 0.01
225 1 0.00
227 168 0.31
228 23 0.04
229 3 0.01
230 2 0.00
232 2 0.00
233 39 0.07
234 18 0.03
235 51 0.09
237 3 0.01
240 1 0.00
242 2 0.00
253 6 0.01
254 214 0.39
255 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (251 bp):
AAGATGATAGTCATTTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTACATGTTTTTCGAAA
AATGAGAAAAGTTTCTCATTTAAATATGAAATTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTAC
CTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGGCTGTCAGTAAATCTTTCAAGCATGATAC
TTAACTCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGC
Found at i:7218054 original size:227 final size:228
Alignment explanation
Indices: 7217770--7218299 Score: 801
Period size: 227 Copynumber: 2.3 Consensus size: 228
7217760 TTTAAATATG
* * *
7217770 AAATTTGAAATTTTTTAAAAGTAAGAAAATTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
1 AAATATGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
7217835 GTCATTTGGAATGTCAATAAATCTTTCAAGCATGATACTTAACTCCTTCGAGTCATGCGTAAGTC
66 GTCATTTGGAATGTCAATAAATCTTTCAAGCATGATACTTAACTCCTTCGAGTCATGCGTAAGTC
*
7217900 TTTCGAGCAAGATGATGAGTCATTTGGGCCATCCACAAGACCTTCGAGCAGGATATTTTCACATA
131 TTTCGAGCAAGATGATGAGTCATTCGGGCCATCCACAAGACCTTCGAGCAGGATATTTTCACATA
7217965 TTTTTAG-AAAAATGAGAAAAAAAATCTAATTT
196 TTTTTAGAAAAAATGAGAAAAAAAATCTAATTT
*
7217997 AAATATGAAATTTTCGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
1 AAATATGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
** * * *
7218062 GTCATTTGGGCTGTCAGTAAATCTTTCCAGCATGATACTTAACTCCTTCGAGTCATGTGTAAGTC
66 GTCATTTGGAATGTCAATAAATCTTTCAAGCATGATACTTAACTCCTTCGAGTCATGCGTAAGTC
* * * *
7218127 TTTCGAGCAAGATGATGAGTCGTTCGGGCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATG
131 TTTCGAGCAAGATGATGAGTCATTCGGGCCATCCACAAGACCTTCGAGCAGGATATTTTCACATA
* * *
7218192 TTTTTTGAAAAAATGAGAAAAAAATTCTCATTT
196 TTTTTAGAAAAAATGAGAAAAAAAATCTAATTT
* * *
7218225 AAATATGAAAATTGAATTTTTTGTAAATTAAGAAAAGTTTCTTACCTAGCAAACTATTTCCAAAA
1 AAATATG---A---AA-TTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
*
7218290 TTTGTAAGTC
59 TTGGTAAGTC
7218300 CTTCGGGCCA
Statistics
Matches: 273, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
227 187 0.68
228 30 0.11
231 1 0.00
234 2 0.01
235 53 0.19
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (228 bp):
AAATATGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
GTCATTTGGAATGTCAATAAATCTTTCAAGCATGATACTTAACTCCTTCGAGTCATGCGTAAGTC
TTTCGAGCAAGATGATGAGTCATTCGGGCCATCCACAAGACCTTCGAGCAGGATATTTTCACATA
TTTTTAGAAAAAATGAGAAAAAAAATCTAATTT
Found at i:7218438 original size:193 final size:194
Alignment explanation
Indices: 7218178--7218534 Score: 522
Period size: 193 Copynumber: 1.8 Consensus size: 194
7218168 CTTCGGGCAG
*
7218178 GATGTTTTCACATGTTTTTTGAAAAAATGAGAAAAAAATTCTCATTTAAATATGAAAATTGAATT
1 GATGTTTTCACATGTTTTTCGAAAAAATGAGAAAAAAATTCTCATTTAAATATGAAAATTGAATT
* * * *
7218243 TTTTGTAAATTAAGAAAAGTTTCTTACCTAGCAAACTATTTCCAAAATTTGTAAGTCCTTCGGGC
66 TTTTGAAAAGTAAGAAAAGTTTCTTACCTAGCAAACTATTTCCAAAATTAGTAAGCCCTTCGGGC
* * *
7218308 CATGAATAAGTCTTTCGAGCATGATGT-TTAAATCATTCGGTCCATTCATAAGAACTTTGAGCAT
131 CATCAATAAATCTTTCAAGCATGAT-TCTTAAATCATTCGGTCCATTCATAAGAACTTTGAGCAT
* ** * *
7218372 GATGTTTTCACGTGTTTTTCG-AAAAATGAG-AAAAGTTTCTCATTTAAATCTGAAATTTGAAAT
1 GATGTTTTCACATGTTTTTCGAAAAAATGAGAAAAAAATTCTCATTTAAATATGAAAATTG-AAT
* * *
7218435 TTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTAGTAAGCCCTTTGGG
65 TTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGCAAACTATTTCCAAAATTAGTAAGCCCTTCGGG
*
7218500 CCATCAGTAAATCTTTCAAGCATGATTCTTAAATC
130 CCATCAATAAATCTTTCAAGCATGATTCTTAAATC
7218535 CTTTGGGTCT
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
192 26 0.18
193 99 0.69
194 19 0.13
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (194 bp):
GATGTTTTCACATGTTTTTCGAAAAAATGAGAAAAAAATTCTCATTTAAATATGAAAATTGAATT
TTTTGAAAAGTAAGAAAAGTTTCTTACCTAGCAAACTATTTCCAAAATTAGTAAGCCCTTCGGGC
CATCAATAAATCTTTCAAGCATGATTCTTAAATCATTCGGTCCATTCATAAGAACTTTGAGCAT
Found at i:7218954 original size:655 final size:654
Alignment explanation
Indices: 7217686--7219001 Score: 1714
Period size: 655 Copynumber: 2.0 Consensus size: 654
7217676 AGATGATTAG
* * *
7217686 TCATTTGGGCCATCCATAAGACCTTAGGGCAGGATGTTTTATCATGTTTTTCGAAAAATAAGAAA
1 TCATTCGGGCCATCCATAAGAACTTAGAGCAGGATGTTTTATCATGTTTTTCGAAAAATAAGAAA
* *
7217751 CGTTTCTCATTTAAATATGAAATTTGAAATTTTTTAAAAGTAAGAAAATTTTCTTACCTAGTAAA
66 AGTTTCTCATTTAAATATGAAATTTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAA
* * ** *
7217816 CTATTTCCAAAATTGGTAAGTCATTTGGAATGTCAATAAATCTTTCAAGCATGATACTTAACTCC
131 CTATTTCCAAAATTAGTAAGCCATTTGGAACATCAATAAATCTTTCAAGCATGATACTTAAATCC
*
7217881 TTCGAGTCATGCGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGCCATCCACAAGACCTTCG
196 TTCGAGTCATGCGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGCAATCCACAAGACCTTCG
*
7217946 AGCAGGATATTTTCACATATTTTTAGAAAAATGAGAAAAAAAATCTAATTTAAATATGAAATTTT
261 AGCAGGATATTTTCACATATTTTTAGAAAAATGAGAAAAAAAATCTAATTTAAATATGAAATATT
** * * *
7218011 CGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTTGGGCTGT
326 CGAAAAAAAAGAAAAGTTTCTTACCTAGAAAACTATTTCCAAAATTGGTAAGTCATTCGGGCTAT
* *
7218076 CAGTAAATCTTTCCAGCATGATACTTAACTCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATG
391 CAGTAAATCTTTCCAGCACGATACTTAAATCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATG
* ** * * * *
7218141 ATGAGTCGTTCGGGCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTTGAAAAAAT
456 ATGAGTCCTTCAAGCCATCAACAAGACATTCGGGCAGGATGTTTTCACATGTTTTTCGAAAAAAC
* * *
7218206 GAGAAAAAAATTCTCATTTAAATATGAAAATTGAATTTTTTGTAAATTAAGAAAAGTTTCTTACC
521 GAGAAAAAAATTCTCATTTAAATATGAAAATTGAATATTTTGAAAAGTAAGAAAAGTTTCTTACC
* * * * * *
7218271 TAGCAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATGAATAAGTCTTTCGAGCATGATGTT
586 TAGCAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCAATCAATAAATCTTTCAAGCATGATGCT
7218336 TAAA
651 TAAA
* * * * * *
7218340 TCATTCGGTCCATTCATAAGAACTTTGAGCATGATGTTTTCA-CGTGTTTTTCGAAAAATGAGAA
1 TCATTCGGGCCATCCATAAGAACTTAGAGCAGGATGTTTT-ATCATGTTTTTCGAAAAATAAGAA
*
7218404 AAGTTTCTCATTTAAATCTGAAATTTGAAATTTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTA
65 AAGTTTCTCATTTAAATATGAAATTTGAAATTTTTT-AAAAGTAAGAAAAGTTTCTTACCTAGTA
* * ** * *
7218469 AATTATTTCCAAAATTAGTAAGCCCTTTGGGCCATCAGTAAATCTTTCAAGCATGATTCTTAAAT
129 AACTATTTCCAAAATTAGTAAGCCATTTGGAACATCAATAAATCTTTCAAGCATGATACTTAAAT
* * * * * * *
7218534 CCTTTGGGTC-TTCTGTAAGTCTTTCGAGCAAGATGATTAGTCCTTTGGGCAATCCATAAGATCT
194 CCTTCGAGTCATGC-GTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGCAATCCACAAGACCT
* * * * **** *
7218598 TCGGGCAGGATGTTTTCACATTTTTTTCGAAACAATGAG-AAACTTTTCTCATTTAAATATGAAA
258 TCGAGCAGGATATTTTCACATATTTTTAGAAA-AATGAGAAAAAAAATCTAATTTAAATATGAAA
* *
7218662 -ATT-GAAATTTTTAAAAAGAAAAGTTTCTTACCTAGAAAACTATTTCCAAAATTTGTAAGTCCT
322 TATTCGAAA-----AAAAAGAAAAGTTTCTTACCTAGAAAACTATTTCCAAAATTGGTAAGTCAT
* * *** * *
7218725 TCGGGTTATCAGTAAGTCTTTTGGGCACGATGCTTAAATCCTTCGGGTCATGTGTAAGTCTTTCG
382 TCGGGCTATCAGTAAATCTTTCCAGCACGATACTTAAATCCTTCGAGTCATGTGTAAGTCTTTCG
* *
7218790 AGTAAGATGATGAGTCCTTCAAGCCATCAATAAGACATTCGGGC-GTGATGTTTTCACATGTTTT
447 AGCAAGATGATGAGTCCTTCAAGCCATCAACAAGACATTCGGGCAG-GATGTTTTCACATGTTTT
* ** * *
7218854 TCG-AAAAACGA-TAAAAGTTTCTCGTTTAAATATGAAATTTG-ATATTTTGAAAAGTAAGAAAA
511 TCGAAAAAACGAGAAAAAAATTCTCATTTAAATATGAAAATTGAATATTTTGAAAAGTAAGAAAA
* * * *
7218916 GTTTTTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGGGCAATCAGTAAATCTTTCAA
576 GTTTCTTACCTAGCAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCAATCAATAAATCTTTCAA
7218981 GCATGATGCTTAAA
641 GCATGATGCTTAAA
*
7218995 TCCTTCG
1 TCATTCG
7219002 AGTCATATGT
Statistics
Matches: 567, Mismatches: 85, Indels: 19
0.85 0.13 0.03
Matches are distributed among these distances:
653 4 0.01
654 91 0.16
655 276 0.49
656 31 0.05
657 8 0.01
658 157 0.28
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (654 bp):
TCATTCGGGCCATCCATAAGAACTTAGAGCAGGATGTTTTATCATGTTTTTCGAAAAATAAGAAA
AGTTTCTCATTTAAATATGAAATTTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAA
CTATTTCCAAAATTAGTAAGCCATTTGGAACATCAATAAATCTTTCAAGCATGATACTTAAATCC
TTCGAGTCATGCGTAAGTCTTTCGAGCAAGATGATGAGTCATTTGGGCAATCCACAAGACCTTCG
AGCAGGATATTTTCACATATTTTTAGAAAAATGAGAAAAAAAATCTAATTTAAATATGAAATATT
CGAAAAAAAAGAAAAGTTTCTTACCTAGAAAACTATTTCCAAAATTGGTAAGTCATTCGGGCTAT
CAGTAAATCTTTCCAGCACGATACTTAAATCCTTCGAGTCATGTGTAAGTCTTTCGAGCAAGATG
ATGAGTCCTTCAAGCCATCAACAAGACATTCGGGCAGGATGTTTTCACATGTTTTTCGAAAAAAC
GAGAAAAAAATTCTCATTTAAATATGAAAATTGAATATTTTGAAAAGTAAGAAAAGTTTCTTACC
TAGCAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCAATCAATAAATCTTTCAAGCATGATGCT
TAAA
Found at i:7218997 original size:232 final size:231
Alignment explanation
Indices: 7218372--7219435 Score: 1368
Period size: 232 Copynumber: 4.6 Consensus size: 231
7218362 CTTTGAGCAT
* *
7218372 GATGTTTTCACGTGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAATTTGAAATTT
1 GATGTTTTCACATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAA--T
* * * *
7218437 TTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTAGTAAGCCCTTTGGGCC
64 TTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCC
* * *
7218502 ATCAGTAAATCTTTCAAGCATGATTCTTAAATCCTTTGGGTCTTCTGTAAGTCTTTCGAGCAAGA
129 ATCAGTAAATCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGA
* * *
7218567 TGATTAGTCCTTTGGGCAATCCATAAGATCTTCGGGCAG
194 TGATGAGTCCTTCGGGCCATCCATAAGATCTTCGGG-AG
* ** *
7218606 GATGTTTTCACATTTTTTTCGAAACAATGAGAAACTTTTCTCATTTAAATATGAAAATTGAAATT
1 GATGTTTTCACATGTTTTTCGAAA-AATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAATT
* * * **
7218671 TT-TAAA--AAGAAAAGTTTCTTACCTAGAAAACTATTTCCAAAATTTGTAAGTCCTTCGGGTTA
65 TTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCA
* *** * * *
7218733 TCAGTAAGTCTTTTGGGCACGATGCTTAAATCCTTCGGGTCATGTGTAAGTCTTTCGAGTAAGAT
130 TCAGTAAATCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGAT
** * *
7218798 GATGAGTCCTTCAAGCCATCAATAAGA-CATTCGGGCG
195 GATGAGTCCTTCGGGCCATCCATAAGATC-TTCGGGAG
* * * *
7218835 TGATGTTTTCACATGTTTTTCGAAAAACGATAAAAGTTTCTCGTTTAAATATGAAATTTGATATT
1 -GATGTTTTCACATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAATT
* * *
7218900 TTGAAAAGTAAGAAAAGTTTTTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGGGCAA
65 TTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCA
* *
7218965 TCAGTAAATCTTTCAAGCATGATGCTTAAATCCTTCGAGTCATATGTAAGTCTTTCGAGCAAGAT
130 TCAGTAAATCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGAT
* * * * *
7219030 GATGAGTTCTTTGGGCCATCCATGAGATCATTAGGAAG
195 GATGAGTCCTTCGGGCCATCCATAAGATC-TTCGGGAG
* * * * *
7219068 CATGTTTGCACATGTTTTTCGAAAAATGAGGAAAGTTTCTCATTTAAATATAAAATATGAAAATT
1 GATGTTTTCACATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTG-AAATT
* * *
7219133 TTGAAAAATAAGAAAAGTTTCTTACCTAGTAAACTATTTCTAAAATTTGTAAGTCCTTCGGGCCA
65 TTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCA
** * * *
7219198 TTTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT-ATTCTGTAAGTCTTTCG-GGAAGA
130 TCAGTAAATCTTTCAAGCATGATGCTTAAATCCTTCGGGTCA-TCTGTAAGTCTTTCGAGCAAGA
*
7219261 TGATGAGTCCTTCGGGCCATCCATAAGATCTTTGGGAAG
194 TGATGAGTCCTTCGGGCCATCCATAAGATCTTCGGG-AG
* * * * *
7219300 GATGTTCTCACATGTTTTTCGAAAAATGAGAAAAGATTCTTATTTAAATCTGAAATTTGAATTTT
1 GATGTTTTCACATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAATTT
* *
7219365 TCGAAAAGTAAGAAAAGTTTCTTA-CTAGTAAATTATTTCCAAAATTGGAAAGTCCTTCGGGCCA
66 T-GAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCA
*
7219429 TCTGTAA
130 TCAGTAA
7219436 CACCCATCTA
Statistics
Matches: 713, Mismatches: 106, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
229 37 0.05
230 157 0.22
231 52 0.07
232 288 0.40
233 123 0.17
234 22 0.03
235 34 0.05
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (231 bp):
GATGTTTTCACATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAATTT
TGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCAT
CAGTAAATCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
ATGAGTCCTTCGGGCCATCCATAAGATCTTCGGGAG
Found at i:7220001 original size:55 final size:54
Alignment explanation
Indices: 7219934--7220337 Score: 450
Period size: 55 Copynumber: 7.4 Consensus size: 54
7219924 TTTATTAAAA
* * ** * *
7219934 TGCACA-ATTAGTGCCTATACAGTAATTCATCAACTCATAATGAATTCATTCGTTT
1 TGCACACA-TAGTGCCTATACACT-ATTCATCAACTCATGATGAATTCCGTGGATT
*
7219989 TGCACACATAGTGCCTATACGACTATTCATCAACTCATGATGAATTCCGTGGAAT
1 TGCACACATAGTGCCTATAC-ACTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
7220044 TGCACACCTAGTGCTTGTACGACTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTATAC-ACTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * *
7220099 TGCACACCTAGTTCCTGTACAGTTATTCATCATCTCATGTTGAATTCCGTGGATT
1 TGCACACATAGTGCCTATACA-CTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
7220154 TGCACACATAATGCCTATAGGACTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTATA-CACTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * *
7220209 TGGACATATAGTGCCTGTACGACTATTCATCAACTCATGATGAATTCTGTAGAAT
1 TGCACACATAGTGCCTATAC-ACTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
7220264 TGCACACCTAGTGCCTGTACGGCTATTCATCATCCCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTATAC-ACTATTCATCAACTCATGATGAATTCCGTGGATT
*
7220319 TGCATACATAGTGCCTATA
1 TGCACACATAGTGCCTATA
7220338 GTACACTTAG
Statistics
Matches: 298, Mismatches: 46, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
54 1 0.00
55 293 0.98
56 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACACTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:7220127 original size:110 final size:110
Alignment explanation
Indices: 7219958--7220334 Score: 504
Period size: 110 Copynumber: 3.4 Consensus size: 110
7219948 CTATACAGTA
* ** * * *
7219958 ATTCATCAACTCATAATGAATTCATTCGTTTTGCACACATAGTGCCTATACGACTATTCATCAAC
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGACTATTCATCAAC
*
7220023 TCATGATGAATTCCGTGGAATTGCACACCTAGTGCTTGTACGACT
66 TCATGATGAATTCCGTGGAATTGCACACCTAGTGCCTGTACGACT
* * * *
7220068 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACCTAGTTCCTGTAC-AGTTATTCATCAT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGA-CTATTCATCAA
* * * * * *
7220132 CTCATGTTGAATTCCGTGGATTTGCACACATAATGCCTATAGGACT
65 CTCATGATGAATTCCGTGGAATTGCACACCTAGTGCCTGTACGACT
* * *
7220178 ATTCATCAACTCATGATGAATTCCATGGATTTGGACATATAGTGCCTGTACGACTATTCATCAAC
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGACTATTCATCAAC
* * *
7220243 TCATGATGAATTCTGTAGAATTGCACACCTAGTGCCTGTACGGCT
66 TCATGATGAATTCCGTGGAATTGCACACCTAGTGCCTGTACGACT
* * *
7220288 ATTCATCATCCCATGATGAATTCCGTGGATTTGCATACATAGTGCCT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCT
7220335 ATAGTACACT
Statistics
Matches: 226, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
109 1 0.00
110 224 0.99
111 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (110 bp):
ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGACTATTCATCAAC
TCATGATGAATTCCGTGGAATTGCACACCTAGTGCCTGTACGACT
Found at i:7220230 original size:165 final size:165
Alignment explanation
Indices: 7219942--7220338 Score: 569
Period size: 165 Copynumber: 2.4 Consensus size: 165
7219932 AATGCACAAT
* * * * ** * *
7219942 TAGTGCCTATACAGTAATTCATCAACTCATAATGAATTCATTCGTTTTGCACACATAGTGCCTAT
1 TAGTGCCTGTACAGTTATTCATCATCTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTAT
* * * *
7220007 ACGACTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACCTAGTGCTTGTACGACTATTC
66 AGGACTATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCCTGTACGACTATTC
* *
7220072 ATCAACTCATGATGAATTCCGTGGATTTGCACACC
131 ATCAACTCATGATGAATTCCGTAGAATTGCACACC
* * *
7220107 TAGTTCCTGTACAGTTATTCATCATCTCATGTTGAATTCCGTGGATTTGCACACATAATGCCTAT
1 TAGTGCCTGTACAGTTATTCATCATCTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTAT
* * *
7220172 AGGACTATTCATCAACTCATGATGAATTCCATGGATTTGGACATATAGTGCCTGTACGACTATTC
66 AGGACTATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCCTGTACGACTATTC
*
7220237 ATCAACTCATGATGAATTCTGTAGAATTGCACACC
131 ATCAACTCATGATGAATTCCGTAGAATTGCACACC
* * * *
7220272 TAGTGCCTGTACGGCTATTCATCATCCCATGATGAATTCCGTGGATTTGCATACATAGTGCCTAT
1 TAGTGCCTGTACAGTTATTCATCATCTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTAT
7220337 AG
66 AG
7220339 TACACTTAGT
Statistics
Matches: 204, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
165 204 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (165 bp):
TAGTGCCTGTACAGTTATTCATCATCTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTAT
AGGACTATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCCTGTACGACTATTC
ATCAACTCATGATGAATTCCGTAGAATTGCACACC
Found at i:7226240 original size:55 final size:55
Alignment explanation
Indices: 7226174--7226552 Score: 447
Period size: 55 Copynumber: 6.9 Consensus size: 55
7226164 CTATACGGTA
* * **
7226174 ATTCATCAACTCATGATGAATTCCTTGGTTTTGCAAACATAGTGGTTGTACGACT
1 ATTCATCAACTCATGATGAATTCCTTGGATTTGCACACATAGTGCCTGTACGACT
* * * * * **
7226229 ATTCATGAACTCATGATGAATTCCATGGAATTGCACACCTAGTGCCTATACGGTT
1 ATTCATCAACTCATGATGAATTCCTTGGATTTGCACACATAGTGCCTGTACGACT
* ** * *
7226284 ATTCATCAACTCATGATAAATTTCGGTGGATTTGCACACCTAGTGCCTGTACGGCT
1 ATTCATCAACTCATGATGAA-TTCCTTGGATTTGCACACATAGTGCCTGTACGACT
* * * *
7226340 ATTCATCATCACATGATGAATT-CTATGGATTTGTACACATAGTGCTTGTACGACT
1 ATTCATCAACTCATGATGAATTCCT-TGGATTTGCACACATAGTGCCTGTACGACT
* * *
7226395 ATTCATCAACTCAGGATGAATTCCCTGGATTTGCGCACATAGTGCCTGTACGACT
1 ATTCATCAACTCATGATGAATTCCTTGGATTTGCACACATAGTGCCTGTACGACT
* * * * * *
7226450 ATTCATCAACTCATGATGAATT-CTGTGGAATTGCATACCTAGTGCATGAACGGCT
1 ATTCATCAACTCATGATGAATTCCT-TGGATTTGCACACATAGTGCCTGTACGACT
*
7226505 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
1 ATTCATCAACTCATGATGAATTCCTTGGATTTGCACACATAGTGCCTG
7226553 AAGTACACTT
Statistics
Matches: 271, Mismatches: 48, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.00
55 221 0.82
56 49 0.18
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTCCTTGGATTTGCACACATAGTGCCTGTACGACT
Found at i:7226290 original size:110 final size:110
Alignment explanation
Indices: 7226158--7226552 Score: 515
Period size: 110 Copynumber: 3.6 Consensus size: 110
7226148 AATGCACAAG
* * * **
7226158 TAGTGCCTATACGG-TAATTCATCAACTCATGATGAATTCCTTGGTTTTGCAAACATAGTGGTTG
1 TAGTGCCTATACGGCT-ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* *
7226222 TACGACTATTCATGAACTCATGATGAATTCCATGGAATTGCACACC
65 TACGACTATTCATCAACTCATGATGAATTCTATGGAATTGCACACC
* * * *
7226268 TAGTGCCTATACGGTTATTCATCAACTCATGATAAATTTCGGTGGATTTGCACACCTAGTGCCTG
1 TAGTGCCTATACGGCTATTCATCAACTCATGATGAA-TTCCGTGGATTTGCACACATAGTGCCTG
* * * * * *
7226333 TACGGCTATTCATCATCACATGATGAATTCTATGGATTTGTACACA
65 TACGACTATTCATCAACTCATGATGAATTCTATGGAATTGCACACC
* * * * * *
7226379 TAGTGCTTGTACGACTATTCATCAACTCAGGATGAATTCCCTGGATTTGCGCACATAGTGCCTGT
1 TAGTGCCTATACGGCTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGT
* *
7226444 ACGACTATTCATCAACTCATGATGAATTCTGTGGAATTGCATACC
66 ACGACTATTCATCAACTCATGATGAATTCTATGGAATTGCACACC
*
7226489 TAGTGCATGA-ACGGCTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
1 TAGTGCCT-ATACGGCTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
7226553 AAGTACACTT
Statistics
Matches: 242, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
110 152 0.63
111 90 0.37
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (110 bp):
TAGTGCCTATACGGCTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGT
ACGACTATTCATCAACTCATGATGAATTCTATGGAATTGCACACC
Found at i:7227307 original size:41 final size:42
Alignment explanation
Indices: 7227207--7227307 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
7227197 CCAAAATTGG
* * * *
7227207 TAAGTCCTTCAGGCCATCAGTAAATCTTTCGAGCATGATGCT
1 TAAGTCCTTCGGGTCATCAGTAAATCTTTCGAGCAAGATGCA
* * * *
7227249 TAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG-A
1 TAAGTCCTTCGGGTCATCAGTAAATCTTTCGAGCAAGATGCA
7227290 TAAGTCCTTCGGGTCATC
1 TAAGTCCTTCGGGTCATC
7227308 CACAAGACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCAGTAAATCTTTCGAGCAAGATGCA
Found at i:7227513 original size:42 final size:42
Alignment explanation
Indices: 7227439--7227518 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
7227429 TCCAAACTTA
* * * *
7227439 GTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCT
1 GTAAGTCATTCGAGCATGATGATCAAACCCTTCAGGTCATCT
*
7227481 GTAAGTC-TTCCGAGGATGATGATCAAACCCTTCAGGTC
1 GTAAGTCATT-CGAGCATGATGATCAAACCCTTCAGGTC
7227519 TTCGGTCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.06
42 30 0.94
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
GTAAGTCATTCGAGCATGATGATCAAACCCTTCAGGTCATCT
Found at i:7227676 original size:3 final size:3
Alignment explanation
Indices: 7227661--7227697 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
7227651 GACGTTTTAT
*
7227661 TTA TTA CTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7227698 TTGATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7227800 original size:20 final size:20
Alignment explanation
Indices: 7227777--7227816 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7227767 CTACAAACCC
*
7227777 AAAACCCAAGCCCAAACTAA
1 AAAACCCAAGACCAAACTAA
*
7227797 AAAACCCTAGACCAAACTAA
1 AAAACCCAAGACCAAACTAA
7227817 CCTAACCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.33, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAACCCAAGACCAAACTAA
Found at i:7228201 original size:26 final size:25
Alignment explanation
Indices: 7228171--7228255 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 25
7228161 GGGGAAACAT
7228171 AAAAACAATAAAAAGAAAGAGAAAGA
1 AAAAACAA-AAAAAGAAAGAGAAAGA
*
7228197 AAAAACAAAAAAAAAGAAGAGAAGGAGA
1 AAAAACAAAAAAAGA-AAGAGAA--AGA
* *
7228225 AAAATCGAGAAAAAAAGAAAGGAAAAAGA
1 AAAA---ACAAAAAAAGAAA-GAGAAAGA
7228254 AA
1 AA
7228256 GAAAAGAGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
25 6 0.12
26 15 0.31
28 7 0.15
29 5 0.10
30 2 0.04
31 13 0.27
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (25 bp):
AAAAACAAAAAAAGAAAGAGAAAGA
Found at i:7228254 original size:29 final size:28
Alignment explanation
Indices: 7228171--7228255 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 28
7228161 GGGGAAACAT
* *
7228171 AAAAAC-AATAAAAAGAAA-GAGAAAGA
1 AAAAACAAAAAAAAAGAAAGGAAAAAGA
**
7228197 AAAAACAAAAAAAAAG-AAGAGAAGGAGA
1 AAAAACAAAAAAAAAGAAAG-GAAAAAGA
* *
7228225 AAAATCGAGAAAAAAAGAAAGGAAAAAGA
1 AAAAAC-AAAAAAAAAGAAAGGAAAAAGA
7228254 AA
1 AA
7228256 GAAAAGAGAC
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
26 8 0.17
27 8 0.17
28 10 0.22
29 17 0.37
30 3 0.07
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (28 bp):
AAAAACAAAAAAAAAGAAAGGAAAAAGA
Found at i:7231122 original size:20 final size:20
Alignment explanation
Indices: 7231097--7231134 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7231087 CCGATTGTTA
7231097 TTTGTCATGAAAGTCTATCG
1 TTTGTCATGAAAGTCTATCG
*
7231117 TTTGTCGTGAAAGTCTAT
1 TTTGTCATGAAAGTCTAT
7231135 TGTTCTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTCATGAAAGTCTATCG
Found at i:7238920 original size:89 final size:90
Alignment explanation
Indices: 7238765--7238941 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 90
7238755 CCTAACACAC
* * *
7238765 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATATAT
* *
7238830 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATTAAAATTAAATAAT
* *
7238855 CCTTTTATATCCAAGTTACCCTAATCAT-TCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATATAT
7238919 ATTTAATTAATTAAAATTAAATA
66 ATTTAATTAATTAAAATTAAATA
7238942 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 54 0.68
90 26 0.32
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATATAT
ATTTAATTAATTAAAATTAAATAAT
Found at i:7245939 original size:100 final size:100
Alignment explanation
Indices: 7245766--7245949 Score: 368
Period size: 100 Copynumber: 1.8 Consensus size: 100
7245756 CTTTCCTCAA
7245766 CGACTGAAGAAACATAATGACAAAATACAGTTCAAGAAATTTGTTGATGTTCTAGATCAGTTGTA
1 CGACTGAAGAAACATAATGACAAAATACAGTTCAAGAAATTTGTTGATGTTCTAGATCAGTTGTA
7245831 TATCAATGTACTTTTACTTTCCTCAAACCTCTGAT
66 TATCAATGTACTTTTACTTTCCTCAAACCTCTGAT
7245866 CGACTGAAGAAACATAATGACAAAATACAGTTCAAGAAATTTGTTGATGTTCTAGATCAGTTGTA
1 CGACTGAAGAAACATAATGACAAAATACAGTTCAAGAAATTTGTTGATGTTCTAGATCAGTTGTA
7245931 TATCAATGTACTTTTACTT
66 TATCAATGTACTTTTACTT
7245950 GAAGCTATCG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (100 bp):
CGACTGAAGAAACATAATGACAAAATACAGTTCAAGAAATTTGTTGATGTTCTAGATCAGTTGTA
TATCAATGTACTTTTACTTTCCTCAAACCTCTGAT
Found at i:7265607 original size:45 final size:45
Alignment explanation
Indices: 7265558--7265867 Score: 399
Period size: 45 Copynumber: 6.9 Consensus size: 45
7265548 GCCTTTCATA
* * * *
7265558 TATAGCATACTTTTATGTTGATAATGCACCCACATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
7265603 TATAGCATACTTTTCTGTTGAAAATGTACCCATATATATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
7265648 TATAGCATACTTTTCTGTTGACAATGTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
7265693 TATAGTATACTTTTCTGTTGATAATGTACCCATATAC-TTTGCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTT-CAAC
* * * *
7265738 TATAGCATA-TTTTCTTTTGATTATATACCCATATACATATCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
7265782 TATAGCTTACTTTTCAGTTGATCATGTACCCATATACATATCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * ** * *
7265827 TATAACATTCTTTAATGTTGATAATGCACCCATATGCATTT
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTT
7265868 TTTTCATTCA
Statistics
Matches: 232, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
44 39 0.17
45 193 0.83
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.40
Consensus pattern (45 bp):
TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:7265811 original size:134 final size:135
Alignment explanation
Indices: 7265558--7265867 Score: 419
Period size: 134 Copynumber: 2.3 Consensus size: 135
7265548 GCCTTTCATA
* *
7265558 TATAGCATACTTTTATGTTGATAATGCACCCACATGCATTTCAACTATAGCATACTTTTCTGTTG
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTG
* * * * *
7265623 AAAATGTACCCATATATATTTCAACTATAGCATACTTTTCTGTTGACAATGTACCCATATACATT
66 AAAATATACCCATATACATATCAACTATAGCATACTTTTCAGTTGACAATGTACCCATATACATA
7265688 TCAAC
131 TCAAC
* * * *
7265693 TATAGTATACTTTTCTGTTGATAATGTACCCATATAC-TTTGCAACTATAGCATA-TTTTCTTTT
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATTT-CAACTATAGCATACTTTTCTGTT
** *
7265756 GATTATATACCCATATACATATCAACTATAGCTTACTTTTCAGTTGATC-ATGTACCCATATACA
65 GAAAATATACCCATATACATATCAACTATAGCATACTTTTCAGTTGA-CAATGTACCCATATACA
7265820 TATCAAC
129 TATCAAC
* * * *
7265827 TATAACATTCTTTAATGTTGATAATGCACCCATATGCATTT
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATTT
7265868 TTTTCATTCA
Statistics
Matches: 151, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
134 102 0.68
135 49 0.32
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.40
Consensus pattern (135 bp):
TATAGCATACTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTG
AAAATATACCCATATACATATCAACTATAGCATACTTTTCAGTTGACAATGTACCCATATACATA
TCAAC
Found at i:7266298 original size:20 final size:20
Alignment explanation
Indices: 7266270--7266331 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
7266260 CTAACCCCAA
*
7266270 AGTATCGATACCCCTATCCT
1 AGTACCGATACCCCTATCCT
** *
7266290 AGTACCGATACTTCTAACCT
1 AGTACCGATACCCCTATCCT
7266310 ATGGTACCGATACCCCT-TCCT
1 A--GTACCGATACCCCTATCCT
7266331 A
1 A
7266332 ATATTGATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 17 0.52
21 4 0.12
22 12 0.36
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (20 bp):
AGTACCGATACCCCTATCCT
Found at i:7266461 original size:95 final size:95
Alignment explanation
Indices: 7266308--7266494 Score: 250
Period size: 95 Copynumber: 2.0 Consensus size: 95
7266298 TACTTCTAAC
* * * *
7266308 CTATGGTACCGATACCCCTTCCTAATATTGATACCAAAATTAGGTTCGATGTTTCTTGGTATCAA
1 CTATGATACCGATACCCCTTACTAATATCGATACCAAAATTAGATTCGATGTTTCTTGGTATCAA
* *
7266373 TACCCTTACCATGGTATCTATACTACTCTT
66 TACCCTTACAATGGTATCGATACTACTCTT
** ** *
7266403 CTATGATACCGATACCCCTTAC-GGTATCGATACTGAAATTAGATTCGATGTTTGCTTGGTATCG
1 CTATGATACCGATACCCCTTACTAATATCGATACCAAAATTAGATTCGATGTTT-CTTGGTATCA
*
7266467 ATACCCTTACAATTGTATCGATACTACT
65 ATACCCTTACAATGGTATCGATACTACT
7266495 TCAATGGTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 25 0.32
95 54 0.68
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (95 bp):
CTATGATACCGATACCCCTTACTAATATCGATACCAAAATTAGATTCGATGTTTCTTGGTATCAA
TACCCTTACAATGGTATCGATACTACTCTT
Found at i:7266499 original size:20 final size:21
Alignment explanation
Indices: 7266459--7266511 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7266449 GATGTTTGCT
*
7266459 TGGTATCGATAC-CCTTACAA
1 TGGTATCGATACTACTTACAA
*
7266479 TTGTATCGATACTACTT-CAA
1 TGGTATCGATACTACTTACAA
*
7266499 TGGTATCAATACT
1 TGGTATCGATACT
7266512 GCTTGAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
TGGTATCGATACTACTTACAA
Found at i:7277764 original size:45 final size:45
Alignment explanation
Indices: 7277715--7278018 Score: 331
Period size: 45 Copynumber: 6.8 Consensus size: 45
7277705 TATAAAGAAA
* * * *
7277715 ACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAACAT
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
* * * * *
7277760 ACTTTTCTGTTGAAAATATACCCATATACATTTGAAATGTAGCAT
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
* * * *
7277805 ACTTTTCTGTTGACAATGTACCTATATGCATTTCAACTATAGTAT
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
* * *
7277850 ACTTTTCTTTTGACAATGTACCTATATACATTTCAACTATAGCAT
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
* * * * *
7277895 AC-TTTCTATTTATCATGTACCCATATACATATCAACTATAGCTT
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
* *
7277939 ACTTTTCTGTTGATCATGTACCCATATACATATCAACTATAGCAT
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
* ** ** * *
7277984 TCTTTAATACTAATAATGTACCCATATGCATTTCA
1 ACTTTTCTGTTGATAATGTACCCATATACATTTCA
7278019 TTTTTTTCAT
Statistics
Matches: 219, Mismatches: 39, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 37 0.17
45 182 0.83
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (45 bp):
ACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCAT
Found at i:7278574 original size:22 final size:23
Alignment explanation
Indices: 7278532--7278583 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
7278522 TTGGTATCGA
*
7278532 TACCCTTACCATGGTATCGATAC
1 TACCCTTACCATGGTACCGATAC
*
7278555 TACCCTT-CTATGGTACCGATAC
1 TACCCTTACCATGGTACCGATAC
7278577 --CCCTTAC
1 TACCCTTAC
7278584 GGTATTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 13 0.50
23 7 0.27
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.31
Consensus pattern (23 bp):
TACCCTTACCATGGTACCGATAC
Found at i:7278623 original size:95 final size:93
Alignment explanation
Indices: 7278468--7278650 Score: 235
Period size: 95 Copynumber: 1.9 Consensus size: 93
7278458 ACTTCTAACA
* * * *
7278468 TATGGTACTGATACCCCTTCCTGGTATCGATACCAAAATTAGGTTCGATGTTTCTTGGTATCGAT
1 TATGGTACCGATACCCCTTACTGGTATCGATACCAAAATTAGATTCGATGTTTCTCGGTATCGAT
*
7278533 ACCCTTACCATGGTATCGATACTACCCTTC
66 ACCCTTACAATGGTAT--ATACTACCCTTC
* * *
7278563 TATGGTACCGATACCCCTTAC-GGTATTC-ATATCGAAATTAGATTCTATGTTTGCTCGGTATCG
1 TATGGTACCGATACCCCTTACTGGTA-TCGATACCAAAATTAGATTCGATGTTT-CTCGGTATCG
*
7278626 ATACCCTTATAATGGTATATACTAC
64 ATACCCTTACAATGGTATATACTAC
7278651 TTCAACGGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
93 7 0.09
94 24 0.31
95 46 0.60
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (93 bp):
TATGGTACCGATACCCCTTACTGGTATCGATACCAAAATTAGATTCGATGTTTCTCGGTATCGAT
ACCCTTACAATGGTATATACTACCCTTC
Found at i:7278669 original size:20 final size:21
Alignment explanation
Indices: 7278644--7278695 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7278634 ATAATGGTAT
7278644 ATACTACTTCAA-CGGTATCG
1 ATACTACTTCAATCGGTATCG
* * **
7278664 ATACTATTTGAATCGGTATTT
1 ATACTACTTCAATCGGTATCG
7278685 ATACTACTTCA
1 ATACTACTTCA
7278696 TCAAATTCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (21 bp):
ATACTACTTCAATCGGTATCG
Found at i:7283571 original size:30 final size:30
Alignment explanation
Indices: 7283537--7283594 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7283527 TCCAATGGTG
7283537 AATATTCTAAGAAGAAAACAAATGAAATGA
1 AATATTCTAAGAAGAAAACAAATGAAATGA
* * *
7283567 AATATTCTAAGAGGAAAAGAAATTAAAT
1 AATATTCTAAGAAGAAAACAAATGAAAT
7283595 ATTCAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (30 bp):
AATATTCTAAGAAGAAAACAAATGAAATGA
Found at i:7283608 original size:24 final size:25
Alignment explanation
Indices: 7283548--7283612 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
7283538 ATATTCTAAG
7283548 AAGAAAACAAATGAAATGAAATATTCT
1 AAGAAAA-AAA-GAAATGAAATATTCT
** *
7283575 AAGAGGAAAAGAAATTAAATATTC-
1 AAGAAAAAAAGAAATGAAATATTCT
7283599 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
7283613 GAGAGATTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 12 0.36
25 13 0.39
26 3 0.09
27 5 0.15
ACGTcount: A:0.65, C:0.05, G:0.14, T:0.17
Consensus pattern (25 bp):
AAGAAAAAAAGAAATGAAATATTCT
Found at i:7283834 original size:49 final size:49
Alignment explanation
Indices: 7283762--7283858 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
7283752 TTTTTAAACA
* *
7283762 GATAAAACCTAATTCTAAATAAATTAGAACTTAGAATTTAGGATGAACG
1 GATAAAACCTAATCCTAAATAAATTAGAACTTAGAATTTAGGACGAACG
* *
7283811 GATAAAACCTAATCCTAACTAAATTTGAACTTAGAATTTAGGACGAAC
1 GATAAAACCTAATCCTAAATAAATTAGAACTTAGAATTTAGGACGAAC
7283859 AAAAACTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (49 bp):
GATAAAACCTAATCCTAAATAAATTAGAACTTAGAATTTAGGACGAACG
Found at i:7286286 original size:53 final size:53
Alignment explanation
Indices: 7286206--7286311 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
7286196 CTCTCGTTCA
7286206 TGACTGAATTTTTTTTTATATGTATATAAAAGGAAGGACTTTTTCTATGGTTT
1 TGACTGAATTTTTTTTTATATGTATATAAAAGGAAGGACTTTTTCTATGGTTT
7286259 TGACTGAATTTTTTTTTATATGTATATAAAAGGAAGGACTTTTTCTATGGTTT
1 TGACTGAATTTTTTTTTATATGTATATAAAAGGAAGGACTTTTTCTATGGTTT
7286312 AAAGAGCACC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (53 bp):
TGACTGAATTTTTTTTTATATGTATATAAAAGGAAGGACTTTTTCTATGGTTT
Found at i:7286704 original size:15 final size:16
Alignment explanation
Indices: 7286666--7286706 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7286656 CCAGAGCCTC
* *
7286666 TGAATCATTCAGCATT
1 TGAATCATTCAACACT
7286682 TGAATCATTCAACACT
1 TGAATCATTCAACACT
7286698 T-AATCATTC
1 TGAATCATTC
7286707 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:7299606 original size:36 final size:36
Alignment explanation
Indices: 7299559--7299631 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7299549 AATGAATGAA
7299559 TTTTCTCCTTCTGCTCCTTAATTGAAACATCAATTC
1 TTTTCTCCTTCTGCTCCTTAATTGAAACATCAATTC
7299595 TTTTCTCCTTCTGCTCCTTAATTGAAACATCAATTC
1 TTTTCTCCTTCTGCTCCTTAATTGAAACATCAATTC
7299631 T
1 T
7299632 GGAAAACCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTTCTCCTTCTGCTCCTTAATTGAAACATCAATTC
Found at i:7300558 original size:17 final size:17
Alignment explanation
Indices: 7300536--7300569 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7300526 TAAAAATGAA
7300536 AAGAAAAACCTACCTCC
1 AAGAAAAACCTACCTCC
* *
7300553 AAGAAAACCCTATCTCC
1 AAGAAAAACCTACCTCC
7300570 CCTGCCCCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (17 bp):
AAGAAAAACCTACCTCC
Found at i:7302929 original size:31 final size:31
Alignment explanation
Indices: 7302894--7302963 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
7302884 TTTAAAAACA
***
7302894 TAAGTTTTCGTCACCTACGTTATGGTTTTAT
1 TAAGTTTTCGTCACCTACGTTAACATTTTAT
* *
7302925 TAAGTTTTGGTCACTTACGTTAACATTTTAT
1 TAAGTTTTCGTCACCTACGTTAACATTTTAT
7302956 TAAGTTTT
1 TAAGTTTT
7302964 AGTTAATTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (31 bp):
TAAGTTTTCGTCACCTACGTTAACATTTTAT
Found at i:7324810 original size:110 final size:110
Alignment explanation
Indices: 7324616--7324838 Score: 403
Period size: 110 Copynumber: 2.0 Consensus size: 110
7324606 AAATAAGTTG
* *
7324616 TAATCTATTGATTCTTTAGAAGATAGAGAAAATAAGAATGTTTTTCCTCTCCTAGGTTTGTTCAC
1 TAATCTATTGATTCTTTAGAAGATA-AGAAAACAAGAATGTTTTTCCTCTCCTAGGTTTGCTCAC
7324681 GTTTGGATGAGGAATTTTAAAATTTTGTAGAAACATAAGAGTAAGA
65 GTTTGGATGAGGAATTTTAAAATTTTGTAGAAACATAAGAGTAAGA
7324727 TAATCTATTGATTCTTTAGAAGAT-AGAAAACAAGAATGTTTTTTCCTCTCCTAGGTTTGCTCAC
1 TAATCTATTGATTCTTTAGAAGATAAGAAAACAAGAATG-TTTTTCCTCTCCTAGGTTTGCTCAC
7324791 GTTTGGATGAGGAATTTTAAAATTTTGTAGAAACATAAGAGTAAGA
65 GTTTGGATGAGGAATTTTAAAATTTTGTAGAAACATAAGAGTAAGA
7324837 TA
1 TA
7324839 TTTTAAAATG
Statistics
Matches: 109, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
109 13 0.12
110 72 0.66
111 24 0.22
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (110 bp):
TAATCTATTGATTCTTTAGAAGATAAGAAAACAAGAATGTTTTTCCTCTCCTAGGTTTGCTCACG
TTTGGATGAGGAATTTTAAAATTTTGTAGAAACATAAGAGTAAGA
Found at i:7330217 original size:18 final size:18
Alignment explanation
Indices: 7330196--7330235 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7330186 AGAGAGATAA
*
7330196 AGAGGGAGCAAGAGAGGG
1 AGAGGGAGCAAGAGAGCG
**
7330214 AGAGGGAGGGAGAGAGCG
1 AGAGGGAGCAAGAGAGCG
7330232 AGAG
1 AGAG
7330236 AGACGCAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.57, T:0.00
Consensus pattern (18 bp):
AGAGGGAGCAAGAGAGCG
Found at i:7333026 original size:22 final size:23
Alignment explanation
Indices: 7332986--7333032 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
7332976 AACCCTAAAC
*
7332986 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGCATCTGCTA
* *
7333009 AAGCCC-AGAATCGCATCTTCTA
1 AAGCCCAAAAATCGCATCTGCTA
7333031 AA
1 AA
7333033 CTCACGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (23 bp):
AAGCCCAAAAATCGCATCTGCTA
Found at i:7335548 original size:39 final size:39
Alignment explanation
Indices: 7335494--7335611 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
7335484 AGCATTAAAT
* * *
7335494 TATTTGATTTAGTAGTTTAGGTTAGCTAGAACTCTATCC
1 TATTTGATTTAGTAGTTTAGATTAACTATAACTCTATCC
7335533 TATTTGATTTAGTAGTTTAGATTAACTATAACTCTATCC
1 TATTTGATTTAGTAGTTTAGATTAACTATAACTCTATCC
* *
7335572 TATTTGATTTAATAGTTTAGATTAACTATAACTTTATCC
1 TATTTGATTTAGTAGTTTAGATTAACTATAACTCTATCC
7335611 T
1 T
7335612 TTTATTCTCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (39 bp):
TATTTGATTTAGTAGTTTAGATTAACTATAACTCTATCC
Found at i:7342988 original size:26 final size:26
Alignment explanation
Indices: 7342958--7343138 Score: 281
Period size: 26 Copynumber: 6.8 Consensus size: 26
7342948 CACGCTTACT
7342958 ATATTCATACAATCATACATCGCAAG
1 ATATTCATACAATCATACATCGCAAG
*
7342984 ATATTCATGCAATCATACATCGCAAG
1 ATATTCATACAATCATACATCGCAAG
*
7343010 ATATTCATGCAATCATACATCGCAAG
1 ATATTCATACAATCATACATCGCAAG
*
7343036 ATATTCATGCAATCATACATCGCAAG
1 ATATTCATACAATCATACATCGCAAG
7343062 ATATTCATACATACAATCATACATCGCAAG
1 ATA-T--T-CATACAATCATACATCGCAAG
**
7343092 ATATTCATACAATCATACATCTTAAG
1 ATATTCATACAATCATACATCGCAAG
7343118 ATATTCATACAATCATACATC
1 ATATTCATACAATCATACATC
7343139 ACAACATAAA
Statistics
Matches: 147, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
26 120 0.82
27 2 0.01
29 2 0.01
30 23 0.16
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (26 bp):
ATATTCATACAATCATACATCGCAAG
Found at i:7343071 original size:18 final size:18
Alignment explanation
Indices: 7343048--7343102 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
7343038 ATTCATGCAA
7343048 TCATACATCGCAAGATAT
1 TCATACATCGCAAGATAT
*
7343066 TCATACAT----ACA-A-
1 TCATACATCGCAAGATAT
7343078 TCATACATCGCAAGATAT
1 TCATACATCGCAAGATAT
7343096 TCATACA
1 TCATACA
7343103 ATCATACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 8 0.28
13 1 0.03
14 2 0.07
16 2 0.07
17 1 0.03
18 15 0.52
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (18 bp):
TCATACATCGCAAGATAT
Found at i:7343105 original size:56 final size:56
Alignment explanation
Indices: 7342963--7343128 Score: 268
Period size: 56 Copynumber: 3.0 Consensus size: 56
7342953 TTACTATATT
7342963 CATACAATCATACATCGCAAGATATTCATGCAATCATACATCGCAAGATA-T--T-
1 CATACAATCATACATCGCAAGATATTCATGCAATCATACATCGCAAGATATTCATA
*
7343015 CATGCAATCATACATCGCAAGATATTCATGCAATCATACATCGCAAGATATTCATA
1 CATACAATCATACATCGCAAGATATTCATGCAATCATACATCGCAAGATATTCATA
* **
7343071 CATACAATCATACATCGCAAGATATTCATACAATCATACATCTTAAGATATTCATA
1 CATACAATCATACATCGCAAGATATTCATGCAATCATACATCGCAAGATATTCATA
7343127 CA
1 CA
7343129 ATCATACATC
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
52 49 0.47
53 1 0.01
55 1 0.01
56 54 0.51
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (56 bp):
CATACAATCATACATCGCAAGATATTCATGCAATCATACATCGCAAGATATTCATA
Found at i:7343950 original size:23 final size:23
Alignment explanation
Indices: 7343905--7343955 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
7343895 AATATATGGA
7343905 ATATATAATTCTAAAATTCTAAT
1 ATATATAATTCTAAAATTCTAAT
* * ** *
7343928 TTATATAGTTCTAATGTTGTAAT
1 ATATATAATTCTAAAATTCTAAT
7343951 ATATA
1 ATATA
7343956 GCTTTGAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (23 bp):
ATATATAATTCTAAAATTCTAAT
Found at i:7343972 original size:18 final size:18
Alignment explanation
Indices: 7343949--7344009 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
7343939 TAATGTTGTA
*
7343949 ATATATAGCTTTGAATAT
1 ATATATAGTTTTGAATAT
*
7343967 ATATATAATTTTGAA-ATT
1 ATATATAGTTTTGAATA-T
* *
7343985 TTATATAGTTTTTAATAT
1 ATATATAGTTTTGAATAT
7344003 ATATATA
1 ATATATA
7344010 TATAACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 1 0.03
18 33 0.94
19 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
ATATATAGTTTTGAATAT
Found at i:7344038 original size:28 final size:29
Alignment explanation
Indices: 7343987--7344041 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
7343977 TTGAAATTTT
*
7343987 ATATAGTTTTTAATATATATATATATAAC
1 ATATAGTTTTTAAAATATATATATATAAC
7344016 ATATAG-TTTTAAAATCATA-ATATATA
1 ATATAGTTTTTAAAAT-ATATATATATA
7344042 GTTTTGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (29 bp):
ATATAGTTTTTAAAATATATATATATAAC
Found at i:7357442 original size:19 final size:20
Alignment explanation
Indices: 7357420--7357471 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
7357410 TAGGATAAAG
7357420 ATAAAAAG-AAAATAGATAA
1 ATAAAAAGTAAAATAGATAA
* *
7357439 ATAAATGAGTAAAATATATAA
1 ATAAA-AAGTAAAATAGATAA
7357460 A-AAAAAGTAAAA
1 ATAAAAAGTAAAA
7357472 GCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
ATAAAAAGTAAAATAGATAA
Found at i:7357556 original size:2 final size:2
Alignment explanation
Indices: 7357551--7357591 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
7357541 AAAATAGAAA
*
7357551 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7357592 ATAACACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7357562 original size:8 final size:8
Alignment explanation
Indices: 7357549--7357594 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
7357539 GTAAAATAGA
7357549 AAATATAT
1 AAATATAT
7357557 AAATATAT
1 AAATATAT
*
7357565 ATATATAT
1 AAATATAT
*
7357573 ATATATAT
1 AAATATAT
*
7357581 ATATATAT
1 AAATATAT
7357589 ATAATA
1 A-AATA
7357595 ACACTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 32 0.91
9 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATATAT
Found at i:7357948 original size:21 final size:22
Alignment explanation
Indices: 7357905--7357948 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7357895 GTTTACAATA
*
7357905 GCTTTGCCTTTGTATTTTCTGT
1 GCTTTGCCTCTGTATTTTCTGT
* *
7357927 GCTTT-CCTCTGTGTTTTGTGT
1 GCTTTGCCTCTGTATTTTCTGT
7357948 G
1 G
7357949 TAAATCGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.02, C:0.18, G:0.23, T:0.57
Consensus pattern (22 bp):
GCTTTGCCTCTGTATTTTCTGT
Found at i:7358042 original size:37 final size:37
Alignment explanation
Indices: 7358001--7358098 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
7357991 GTGCTTGTGG
* * * *
7358001 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
* * *
7358038 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
*
7358075 ATCATATTTTTAGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTGAATC
7358099 CTAATAGGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
Found at i:7359180 original size:106 final size:106
Alignment explanation
Indices: 7358836--7359986 Score: 1559
Period size: 106 Copynumber: 10.9 Consensus size: 106
7358826 GCATTGTTTT
* * ** *
7358836 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCT-GGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAGTTGTTTGTTGACA
* * * *
7358900 ACCAGTC-GTCCCTTCGTTGTGTAGTTGAACTTGTGTTGTCTC
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7358942 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * ** *
7359001 TCAGTC-GCCCCTTTGTCGTGAAGTTGAGCTTGTATTGCCTTG
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * * * *
7359043 G-GTTCAAGATCCTTCGCTGAGAAGTTAAAATTGGCTATGAAATTGGGAAGGTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
7359107 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7359148 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
7359213 CCAGCGGTCCCTTCGTCGTGAAGTTGAAATTGGCGTGGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTT-GCGTTGTCTG
* * * *
7359255 GAGTCCAATATCTTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
7359320 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7359361 GAGTCCAAAATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
7359426 CCAACGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
7359467 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
7359532 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
7359573 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
7359638 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7359679 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
7359744 CCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7359785 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
7359850 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
7359891 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
7359955 CCAGCCGTCCCTTCGTTGTGAAGTTAAACTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
7359987 TGTTATCTTG
Statistics
Matches: 928, Mismatches: 107, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
100 72 0.08
101 5 0.01
102 4 0.00
103 1 0.00
104 4 0.00
105 42 0.05
106 704 0.76
107 96 0.10
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:7360402 original size:18 final size:19
Alignment explanation
Indices: 7360373--7360409 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
7360363 TGTTGAATCC
7360373 CCAAATAATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
7360392 CCAAA-AATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
7360410 TTGATGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAATAATGCCCCAATAT
Found at i:7360851 original size:22 final size:22
Alignment explanation
Indices: 7360825--7360901 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
7360815 TTATGTTTGG
7360825 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
7360847 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
7360869 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
7360891 TCAACGGTTTG
1 TCAAAGGTTTG
7360902 ATGGGGTAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:7361549 original size:9 final size:9
Alignment explanation
Indices: 7361515--7361603 Score: 85
Period size: 9 Copynumber: 9.9 Consensus size: 9
7361505 TTTTTGTCCC
7361515 TTTTTCTTT
1 TTTTTCTTT
7361524 TTGATTT-TTGT
1 TT--TTTCTT-T
*
7361535 TATTTCTTT
1 TTTTTCTTT
7361544 TTTTTCTTT
1 TTTTTCTTT
* *
7361553 TGTTTCTCT
1 TTTTTCTTT
7361562 TTTTTC-TT
1 TTTTTCTTT
7361570 TTTTTCTTT
1 TTTTTCTTT
*
7361579 TTTTGC-TT
1 TTTTTCTTT
*
7361587 CTTTTCTTT
1 TTTTTCTTT
7361596 TTTTTCTT
1 TTTTTCTT
7361604 GATTGGATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 13 0.20
9 42 0.66
10 4 0.06
11 5 0.08
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.81
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:7361564 original size:17 final size:16
Alignment explanation
Indices: 7361537--7361599 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 16
7361527 ATTTTTGTTA
7361537 TTTCTTTTTTTTCTTTT
1 TTTC-TTTTTTTCTTTT
7361554 GTTTCTCTTTTTTCTTTT
1 -TTTCT-TTTTTTCTTTT
*
7361572 TTTCTTTTTTTGCTTCT
1 TTTCTTTTTTT-CTTTT
7361589 TTTCTTTTTTT
1 TTTCTTTTTTT
7361600 TCTTGATTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
16 6 0.14
17 21 0.50
18 15 0.36
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTT
Found at i:7361578 original size:26 final size:25
Alignment explanation
Indices: 7361537--7361599 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
7361527 ATTTTTGTTA
*
7361537 TTTCTTTTTTTTCTTTTGTTT-CTCTTT
1 TTTC-TTTTTTTCTTTT-TTTGCT-TCT
7361564 TTTCTTTTTTTCTTTTTTTGCTTCT
1 TTTCTTTTTTTCTTTTTTTGCTTCT
7361589 TTTCTTTTTTT
1 TTTCTTTTTTT
7361600 TCTTGATTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 16 0.47
26 14 0.41
27 4 0.12
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (25 bp):
TTTCTTTTTTTCTTTTTTTGCTTCT
Found at i:7361600 original size:26 final size:25
Alignment explanation
Indices: 7361537--7361603 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
7361527 ATTTTTGTTA
7361537 TTTCTTTTTTTTCTTTTGTTTCTCT
1 TTTCTTTTTTTTCTTTTGTTTCTCT
*
7361562 TTTTTCTTTTTTTCTTTT-TTTGCTTCT
1 TTTCT-TTTTTTTCTTTTGTTT-C-TCT
7361589 TTTCTTTTTTTTCTT
1 TTTCTTTTTTTTCTT
7361604 GATTGGATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 7 0.19
26 23 0.62
27 7 0.19
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (25 bp):
TTTCTTTTTTTTCTTTTGTTTCTCT
Found at i:7361932 original size:14 final size:14
Alignment explanation
Indices: 7361913--7361945 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7361903 ATGCATGATA
*
7361913 GAATTATTTCGGAT
1 GAATTATTTCAGAT
7361927 GAATTATTTCAGAT
1 GAATTATTTCAGAT
7361941 GAATT
1 GAATT
7361946 CTTCTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (14 bp):
GAATTATTTCAGAT
Found at i:7366268 original size:39 final size:40
Alignment explanation
Indices: 7366212--7366295 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 40
7366202 GGATAAAGAT
*
7366212 AAAAAGAAAATAGATATATAAATGAGTAAAAT-AT-ATAA-A
1 AAAAAGAAAATAGATATAT--ATAAGTAAAATAATAATAATA
*
7366251 AAAAAGTAAA-AGCATATATATAAGTAAAATAATAATAATA
1 AAAAAGAAAATAG-ATATATATAAGTAAAATAATAATAATA
7366291 AAAAA
1 AAAAA
7366296 AAATCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
37 10 0.26
38 4 0.10
39 19 0.49
40 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (40 bp):
AAAAAGAAAATAGATATATATAAGTAAAATAATAATAATA
Found at i:7366291 original size:18 final size:18
Alignment explanation
Indices: 7366236--7366291 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
7366226 TATATAAATG
* *
7366236 AGTAAAATATATAAAAAAA
1 AGTAAAATA-ATAATAATA
**
7366255 AGTAAAAGCAT-ATATATA
1 AGTAAAATAATAATA-ATA
7366273 AGTAAAATAATAATAATA
1 AGTAAAATAATAATAATA
7366291 A
1 A
7366292 AAAAAAATCA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.07
18 17 0.59
19 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (18 bp):
AGTAAAATAATAATAATA
Found at i:7366396 original size:2 final size:2
Alignment explanation
Indices: 7366338--7366377 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
7366328 AAAATAGGAA
*
7366338 AT AT AT A- AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7366378 ACACTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7366824 original size:37 final size:37
Alignment explanation
Indices: 7366783--7366887 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
7366773 GTGCTTGTGG
* * *
7366783 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
7366820 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
7366857 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
7366888 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:7374205 original size:24 final size:24
Alignment explanation
Indices: 7374169--7374214 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7374159 TGACACATAT
*
7374169 ATTTGTCCCGAAGGACCGCGTAGA
1 ATTTGTCCCGAAGGACCACGTAGA
**
7374193 ATTTGTCTTGAAGGACCACGTA
1 ATTTGTCCCGAAGGACCACGTA
7374215 AAACCCTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (24 bp):
ATTTGTCCCGAAGGACCACGTAGA
Found at i:7394094 original size:22 final size:21
Alignment explanation
Indices: 7394063--7394103 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
7394053 CATCTCCATT
7394063 TCATCATCAAGACCATCAACA
1 TCATCATCAAGACCATCAACA
7394084 TCATCCATCAAGACCATCAA
1 TCAT-CATCAAGACCATCAA
7394104 TTTCGTAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.41, C:0.34, G:0.05, T:0.20
Consensus pattern (21 bp):
TCATCATCAAGACCATCAACA
Found at i:7394430 original size:17 final size:17
Alignment explanation
Indices: 7394408--7394471 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
7394398 CAAAATTGGT
7394408 ACAAAAAGAAAGAAAAG
1 ACAAAAAGAAAGAAAAG
*
7394425 ACAAAAAGAATAAAAATTTAG
1 ACAAAAAGAA-AGAAA---AG
7394446 A-AAAAA-AAAGAAAAG
1 ACAAAAAGAAAGAAAAG
*
7394461 AAAAAAAGAAA
1 ACAAAAAGAAA
7394472 TTCAAAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
15 3 0.08
16 5 0.13
17 13 0.33
18 8 0.21
19 2 0.05
20 5 0.13
21 3 0.08
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.06
Consensus pattern (17 bp):
ACAAAAAGAAAGAAAAG
Found at i:7397358 original size:55 final size:55
Alignment explanation
Indices: 7397274--7397386 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
7397264 AAAGAAGGGG
7397274 AGGATGATGTGATCCAATTCAGCATTATGTTTGCCATGGCTATTCTAATATTTCA
1 AGGATGATGTGATCCAATTCAGCATTATGTTTGCCATGGCTATTCTAATATTTCA
7397329 AGGATGATGTGATCCAATTCAGCATTATGTTTGCCATGGCTATTCTAATATTTCA
1 AGGATGATGTGATCCAATTCAGCATTATGTTTGCCATGGCTATTCTAATATTTCA
7397384 AGG
1 AGG
7397387 GAAGAAACTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (55 bp):
AGGATGATGTGATCCAATTCAGCATTATGTTTGCCATGGCTATTCTAATATTTCA
Found at i:7404191 original size:19 final size:20
Alignment explanation
Indices: 7404158--7404195 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7404148 CAATTCAAAC
*
7404158 ATTTAGCATTTAAAGTCAAG
1 ATTTAGCATTAAAAGTCAAG
7404178 ATTT-GCATTAAAAGTCAA
1 ATTTAGCATTAAAAGTCAA
7404196 ATTAAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (20 bp):
ATTTAGCATTAAAAGTCAAG
Found at i:7409224 original size:85 final size:85
Alignment explanation
Indices: 7409117--7409287 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
7409107 AACATAGTCT
7409117 TTTTATGGAGTTATTACACCCCCAAACTTAAGTTATTGCTTATCCTCGAGCAATGGATAATAAGT
1 TTTTATGGAGTTATTACACCCCCAAACTTAAGTTATTGCTTATCCTCGAGCAATGGATAATAAGT
7409182 AGTAGAAAAATAAATTGCCA
66 AGTAGAAAAATAAATTGCCA
7409202 TTTTATGGAGTTATTACACCCCCAAACTTAAGTTATTGCTTATCCTCGAGCAATGGATAATAAGT
1 TTTTATGGAGTTATTACACCCCCAAACTTAAGTTATTGCTTATCCTCGAGCAATGGATAATAAGT
7409267 AGTAGAAAAATAAATTGCCA
66 AGTAGAAAAATAAATTGCCA
7409287 T
1 T
7409288 GGCAAAGCAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (85 bp):
TTTTATGGAGTTATTACACCCCCAAACTTAAGTTATTGCTTATCCTCGAGCAATGGATAATAAGT
AGTAGAAAAATAAATTGCCA
Found at i:7414145 original size:27 final size:27
Alignment explanation
Indices: 7414106--7414169 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
7414096 AGAGGAAGTG
*
7414106 GTGAGGAGCGGTGTGTTGAAACAATTT
1 GTGAGGAGGGGTGTGTTGAAACAATTT
7414133 GTGAGGAGGGGTGTGTTGAAACAATTT
1 GTGAGGAGGGGTGTGTTGAAACAATTT
7414160 GTGAGGAGGG
1 GTGAGGAGGG
7414170 ATAACAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.05, G:0.44, T:0.27
Consensus pattern (27 bp):
GTGAGGAGGGGTGTGTTGAAACAATTT
Found at i:7418409 original size:34 final size:34
Alignment explanation
Indices: 7418371--7418436 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
7418361 TGTCATACTA
7418371 AGGTTTTATTTAGTTCAAAGTATTAAATGTTGTG
1 AGGTTTTATTTAGTTCAAAGTATTAAATGTTGTG
7418405 AGGTTTTATTTAGTTCAAAGTATTAAATGTTG
1 AGGTTTTATTTAGTTCAAAGTATTAAATGTTG
7418437 AGATTGGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (34 bp):
AGGTTTTATTTAGTTCAAAGTATTAAATGTTGTG
Found at i:7418581 original size:36 final size:36
Alignment explanation
Indices: 7418471--7418581 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 36
7418461 GTTTTTAAAA
* * ** *
7418471 ACATTACATTTAGGAGATAAAAATGACAAACCATAA
1 ACATTACATTAAGGAGATAAAAATAACAAACTTTAC
* * * *
7418507 ACATTACATTAAGAAGATAAAAACAACAAAATTAAC
1 ACATTACATTAAGGAGATAAAAATAACAAACTTTAC
* * *
7418543 ACATTACGTTAAGGACATAAATATAACAAACTTTAC
1 ACATTACATTAAGGAGATAAAAATAACAAACTTTAC
7418579 ACA
1 ACA
7418582 CATTTTAAAC
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (36 bp):
ACATTACATTAAGGAGATAAAAATAACAAACTTTAC
Found at i:7425473 original size:21 final size:21
Alignment explanation
Indices: 7425457--7425501 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
7425447 AAGCTTCTCT
*
7425457 AAAAGATTTTATGGCTTCGAC
1 AAAAGATTTCATGGCTTCGAC
*
7425478 AAAAGATTTCATGGCTTCAAC
1 AAAAGATTTCATGGCTTCGAC
7425499 AAA
1 AAA
7425502 GTCCTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (21 bp):
AAAAGATTTCATGGCTTCGAC
Found at i:7425563 original size:21 final size:21
Alignment explanation
Indices: 7425530--7425582 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
7425520 CTAATCAACA
* *
7425530 ATTA-AAAGTCAAGGCACACTT
1 ATTACAAAGCCAA-GCAAACTT
*
7425551 -TTACAAAGCCAAGCAAATTT
1 ATTACAAAGCCAAGCAAACTT
7425571 ATTACAAAGCCA
1 ATTACAAAGCCA
7425583 TAGCTCATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (21 bp):
ATTACAAAGCCAAGCAAACTT
Found at i:7434391 original size:256 final size:256
Alignment explanation
Indices: 7433936--7434448 Score: 990
Period size: 256 Copynumber: 2.0 Consensus size: 256
7433926 ATCCATTTGT
7433936 TAGAAGCCTTATGTGCATATGTGAACAGTTTCTCCCCTTTCTACATGTCAAGAAAGAATGCATAC
1 TAGAAGCCTTATGTGCATATGTGAACAGTTTCTCCCCTTTCTACATGTCAAGAAAGAATGCATAC
*
7434001 TTGCAAATTAACGAGGTGCAATGTCATTAAGCTAATACTTTTTTCCTTCATCAGTTTTAGAAATA
66 TTGCAAATTAACGAGATGCAATGTCATTAAGCTAATACTTTTTTCCTTCATCAGTTTTAGAAATA
* *
7434066 CATTTTCTCAATGAATGAGGAAAATAACACTTGAATATCAAGAAGTATTGTGTTTTCAAGGATGC
131 CATTTTCTCAATGAATGAGGAAAAGAACACTTGAATAACAAGAAGTATTGTGTTTTCAAGGATGC
7434131 AAACTGCACTTTAGGTGCTAGGGCCGTTGTATAGCTGAGGAATGTGGTGCAAGAAAAATGC
196 AAACTGCACTTTAGGTGCTAGGGCCGTTGTATAGCTGAGGAATGTGGTGCAAGAAAAATGC
7434192 TAGAAGCCTTATGTGCATATGTGAACAGTTTCTCCCCTTTCTACATGTCAAGAAAGAATGCATAC
1 TAGAAGCCTTATGTGCATATGTGAACAGTTTCTCCCCTTTCTACATGTCAAGAAAGAATGCATAC
*
7434257 TTGCAAATTAACGAGATGCAATGTCATTAAGCTAATACTTTTTTCCTTCATCAGTTTTAGAAGTA
66 TTGCAAATTAACGAGATGCAATGTCATTAAGCTAATACTTTTTTCCTTCATCAGTTTTAGAAATA
7434322 CATTTTCTCAATGAATGAGGAAAAGAACACTTGAATAACAAGAAGTATTGTGTTTTCAAGGATGC
131 CATTTTCTCAATGAATGAGGAAAAGAACACTTGAATAACAAGAAGTATTGTGTTTTCAAGGATGC
7434387 AAACTGCACTTTAGGTGCTAGGGCCGTTGTATAGCTGAGGAATGTGGTGCAAGAAAAATGC
196 AAACTGCACTTTAGGTGCTAGGGCCGTTGTATAGCTGAGGAATGTGGTGCAAGAAAAATGC
7434448 T
1 T
7434449 CAGACACATG
Statistics
Matches: 253, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
256 253 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (256 bp):
TAGAAGCCTTATGTGCATATGTGAACAGTTTCTCCCCTTTCTACATGTCAAGAAAGAATGCATAC
TTGCAAATTAACGAGATGCAATGTCATTAAGCTAATACTTTTTTCCTTCATCAGTTTTAGAAATA
CATTTTCTCAATGAATGAGGAAAAGAACACTTGAATAACAAGAAGTATTGTGTTTTCAAGGATGC
AAACTGCACTTTAGGTGCTAGGGCCGTTGTATAGCTGAGGAATGTGGTGCAAGAAAAATGC
Found at i:7435194 original size:2 final size:2
Alignment explanation
Indices: 7435187--7435211 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7435177 TTTGCTATTT
7435187 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
7435212 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7440112 original size:27 final size:27
Alignment explanation
Indices: 7440080--7440146 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
7440070 AACAGCAGCC
7440080 GAAAGCAACCAGCAAACGTGAACTGCT
1 GAAAGCAACCAGCAAACGTGAACTGCT
7440107 GAAAGCAACCAGCAAACGTGAACTGCT
1 GAAAGCAACCAGCAAACGTGAACTGCT
*
7440134 GAAAGCAATCAGC
1 GAAAGCAACCAGC
7440147 TAGCAACCGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.25, G:0.22, T:0.10
Consensus pattern (27 bp):
GAAAGCAACCAGCAAACGTGAACTGCT
Found at i:7441338 original size:29 final size:29
Alignment explanation
Indices: 7441289--7441350 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
7441279 AAATTGAAAG
* *
7441289 TTCAATGAGTAAATTCAGAGAGAATAAAA
1 TTCAATGAATAAAATCAGAGAGAATAAAA
* *
7441318 TTCAATGAATAAAAT-AGGAGAGAGTAAAG
1 TTCAATGAATAAAATCA-GAGAGAATAAAA
7441347 TTCA
1 TTCA
7441351 GCGAGGAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.24
Consensus pattern (29 bp):
TTCAATGAATAAAATCAGAGAGAATAAAA
Found at i:7462369 original size:24 final size:25
Alignment explanation
Indices: 7462322--7462381 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
7462312 TAAGCGATCA
* * *
7462322 TTCGAGACAAATTTCTATGTGGTCC
1 TTCGGGACAAATTTATATGCGGTCC
7462347 TTCGGGACAAA-TTATATGCGGTCC
1 TTCGGGACAAATTTATATGCGGTCC
7462371 TTCGGGACAAA
1 TTCGGGACAAA
7462382 CCTATGTGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 22 0.69
25 10 0.31
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
TTCGGGACAAATTTATATGCGGTCC
Found at i:7462396 original size:23 final size:24
Alignment explanation
Indices: 7462322--7462390 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
7462312 TAAGCGATCA
* *
7462322 TTCGAGACAAATTTCTATGTGGTCC
1 TTCGGGACAAA-TCCTATGTGGTCC
** *
7462347 TTCGGGACAAATTATATGCGGTCC
1 TTCGGGACAAATCCTATGTGGTCC
7462371 TTCGGGACAAA-CCTATGTGG
1 TTCGGGACAAATCCTATGTGG
7462391 CACTTCAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.16
24 22 0.58
25 10 0.26
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (24 bp):
TTCGGGACAAATCCTATGTGGTCC
Found at i:7463013 original size:16 final size:17
Alignment explanation
Indices: 7462981--7463013 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7462971 ATTTTCAATG
7462981 AGTTTTAAAAGAGTCAA
1 AGTTTTAAAAGAGTCAA
*
7462998 AGTTTTGAAA-AGTCAA
1 AGTTTTAAAAGAGTCAA
7463014 TGTGACACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AGTTTTAAAAGAGTCAA
Found at i:7471238 original size:16 final size:15
Alignment explanation
Indices: 7471213--7471242 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7471203 CTAAAAAATG
7471213 AAAAAAAAATTAAAA
1 AAAAAAAAATTAAAA
7471228 AAAATAAAAATTAAA
1 AAAA-AAAAATTAAA
7471243 CAAGGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAAAATTAAAA
Found at i:7477112 original size:15 final size:16
Alignment explanation
Indices: 7477084--7477113 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7477074 AAAAAAGAAT
7477084 AAGTTTGTAATAATAG
1 AAGTTTGTAATAATAG
7477100 AAGTTTG-AATAATA
1 AAGTTTGTAATAATA
7477114 AGTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
AAGTTTGTAATAATAG
Found at i:7479738 original size:15 final size:15
Alignment explanation
Indices: 7479702--7479743 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
7479692 TGAGAGTAAA
*
7479702 AAAGATATAAAAAAT
1 AAAGATACAAAAAAT
*
7479717 TAA-ATACAAAAAAT
1 AAAGATACAAAAAAT
7479731 AAAGATACCAAAA
1 AAAGATA-CAAAA
7479744 TTACCAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 5 0.23
16 5 0.23
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (15 bp):
AAAGATACAAAAAAT
Found at i:7479784 original size:38 final size:38
Alignment explanation
Indices: 7479741--7479819 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
7479731 AAAGATACCA
* *
7479741 AAATTACCAAGAATAATAAAA-TAAAATAGTAA-ACATAT
1 AAATTAACAA-AATAATAAAAGAAAAATA-TAATACATAT
*
7479779 AAATTAAGAAAATAATAAAAGAAAAATATAATACATAT
1 AAATTAACAAAATAATAAAAGAAAAATATAATACATAT
7479817 AAA
1 AAA
7479820 ATATGAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 13 0.36
38 23 0.64
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (38 bp):
AAATTAACAAAATAATAAAAGAAAAATATAATACATAT
Found at i:7481347 original size:20 final size:20
Alignment explanation
Indices: 7481322--7481368 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
7481312 TGGCCGAATG
*
7481322 GTTACATAATGTTTCGGCTA
1 GTTACATAATGTTTCAGCTA
7481342 GTTACATAATGTTTCAGCTA
1 GTTACATAATGTTTCAGCTA
*
7481362 GGTACAT
1 GTTACAT
7481369 GTCTCTAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
GTTACATAATGTTTCAGCTA
Found at i:7481773 original size:15 final size:15
Alignment explanation
Indices: 7481755--7481789 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7481745 GCATGAGCTG
7481755 TAGGTAAACTGGCCA
1 TAGGTAAACTGGCCA
* *
7481770 TAGGTGAGCTGGCCA
1 TAGGTAAACTGGCCA
7481785 TAGGT
1 TAGGT
7481790 GAGTTGTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (15 bp):
TAGGTAAACTGGCCA
Found at i:7481790 original size:15 final size:15
Alignment explanation
Indices: 7481763--7481792 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7481753 TGTAGGTAAA
7481763 CTGGCCATAGGTGAG
1 CTGGCCATAGGTGAG
7481778 CTGGCCATAGGTGAG
1 CTGGCCATAGGTGAG
7481793 TTGTAGCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (15 bp):
CTGGCCATAGGTGAG
Found at i:7488305 original size:35 final size:36
Alignment explanation
Indices: 7488230--7488326 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
7488220 AAGACGATAT
* * * * *
7488230 TTTCAAGAGAAAATATCTCAAGTGAGATGTAGTTTT
1 TTTCAAGAGAAAATATCTCAAGTGAAAAGAAATTTA
* *
7488266 TTTCAAGA-AAATTTTCTCAAGTGAAAAGAAATTTA
1 TTTCAAGAGAAAATATCTCAAGTGAAAAGAAATTTA
7488301 TTTCAAAGAGAAAATATCTCAAGTGA
1 TTTC-AAGAGAAAATATCTCAAGTGA
7488327 GATAAAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
35 24 0.48
36 12 0.24
37 14 0.28
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAAATATCTCAAGTGAAAAGAAATTTA
Found at i:7488335 original size:37 final size:36
Alignment explanation
Indices: 7488230--7488350 Score: 120
Period size: 37 Copynumber: 3.3 Consensus size: 36
7488220 AAGACGATAT
** * *
7488230 TTTCAAGAGAAAATATCTCAAGTGAGATGTAGTTTT
1 TTTCAAGAGAAAATATCTCAAGTGAGATAAAATTTA
* * *
7488266 TTTCAAGA-AAATTTTCTCAAGTGA-AAAGAAATTTA
1 TTTCAAGAGAAAATATCTCAAGTGAGATA-AAATTTA
7488301 TTTCAAAGAGAAAATATCTCAAGTGAGATAAAATTTTA
1 TTTC-AAGAGAAAATATCTCAAGTGAGATAAAA-TTTA
**
7488339 TTTTGAGAGAAA
1 TTTCAAGAGAAA
7488351 TTGTCTCGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
34 1 0.01
35 22 0.32
36 12 0.18
37 24 0.35
38 9 0.13
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (36 bp):
TTTCAAGAGAAAATATCTCAAGTGAGATAAAATTTA
Found at i:7491553 original size:21 final size:20
Alignment explanation
Indices: 7491506--7491553 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
7491496 TATTTACAAT
* *
7491506 AATAAAATATCTAAAAGGTA
1 AATAAAAGATCTAAAAAGTA
*
7491526 AATTAAAAGGATCTAAAAATTA
1 AA-TAAAA-GATCTAAAAAGTA
7491548 AATAAA
1 AATAAA
7491554 CTTTCAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 9 0.39
22 12 0.52
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (20 bp):
AATAAAAGATCTAAAAAGTA
Found at i:7494013 original size:17 final size:19
Alignment explanation
Indices: 7493991--7494033 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
7493981 TCTTCTTCAT
7493991 ACAATT-TAAAA-TTCAAA
1 ACAATTATAAAATTTCAAA
7494008 ACAATTAATAAAATTTTCAAA
1 ACAATT-ATAAAA-TTTCAAA
7494029 ACAAT
1 ACAAT
7494034 AACATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
19 5 0.23
21 11 0.50
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (19 bp):
ACAATTATAAAATTTCAAA
Found at i:7502191 original size:20 final size:20
Alignment explanation
Indices: 7502166--7502217 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
7502156 AAATATCGCG
*
7502166 GTATCGATACTC-ATACTGGA
1 GTATCGATACTCAATACT-CA
* *
7502186 GTATCGATAATCAATCCTCA
1 GTATCGATACTCAATACTCA
7502206 GTATCGATACTC
1 GTATCGATACTC
7502218 CCAGAAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACTCAATACTCA
Found at i:7503544 original size:2 final size:2
Alignment explanation
Indices: 7503537--7503566 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7503527 CCTATAGCTT
7503537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7503567 GTTTAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7506445 original size:26 final size:26
Alignment explanation
Indices: 7506416--7506489 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
7506406 GAATGGTCTT
7506416 GTGCATCGATGCAGCAAATGCACTAA
1 GTGCATCGATGCAGCAAATGCACTAA
* *
7506442 GTGCATTGATACAGCAAATGCACTAA
1 GTGCATCGATGCAGCAAATGCACTAA
**
7506468 GTGCATCGATGCATAAAATGCA
1 GTGCATCGATGCAGCAAATGCA
7506490 TTCAATGTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
GTGCATCGATGCAGCAAATGCACTAA
Found at i:7515678 original size:12 final size:13
Alignment explanation
Indices: 7515651--7515679 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7515641 TTAATTAGGA
7515651 TTTAATATATTAT
1 TTTAATATATTAT
7515664 TTTAA-ATATTAT
1 TTTAATATATTAT
7515676 TTTA
1 TTTA
7515680 TTTTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATATATTAT
Found at i:7515728 original size:85 final size:83
Alignment explanation
Indices: 7515595--7515752 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 83
7515585 TATATATTAA
**
7515595 TATTTTATTTTATTTTTGTATTTTAATTTCAAAAGATGTTAGTATTTTAATTAGGATTTAATATA
1 TATTTTATTTTATTTTTGTATTTTAATTTCAAAAGATGTTAGTATTTTAATTAGGATAAAATATA
7515660 TTATTTTAAATATTATTT
66 TTATTTTAAATATTATTT
* * *
7515678 TATTTTATCTTTGTTTTATGTATTTTAATTT-AAATA-ATTTTAAGTGTTTTAATTAGGATAAAA
1 TATTTTAT-TTTATTTT-TGTATTTTAATTTCAAA-AGATGTT-AGTATTTTAATTAGGATAAAA
7515741 TATATTATTTTA
62 TATATTATTTTA
7515753 GGAATTATCT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 8 0.12
84 14 0.21
85 44 0.67
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (83 bp):
TATTTTATTTTATTTTTGTATTTTAATTTCAAAAGATGTTAGTATTTTAATTAGGATAAAATATA
TTATTTTAAATATTATTT
Found at i:7515760 original size:85 final size:84
Alignment explanation
Indices: 7515595--7515774 Score: 215
Period size: 85 Copynumber: 2.1 Consensus size: 84
7515585 TATATATTAA
**
7515595 TATTTTATTTTATTTTTGTATTTTAATTTCAAAAGATGTTAGTATTTTAATTAGGATTTAATATA
1 TATTTTATTTTATTTTTGTATTTTAATTTCAAAAGATGTTAGTATTTTAATTAGGATAAAATATA
7515660 TTATTTTAAATATTAT-TT
66 TTATTTTAAATATTATCTT
* * *
7515678 TATTTTATCTTTGTTTTATGTATTTTAATTT-AAATA-ATTTTAAGTGTTTTAATTAGGATAAAA
1 TATTTTAT-TTTATTTT-TGTATTTTAATTTCAAA-AGATGTT-AGTATTTTAATTAGGATAAAA
*
7515741 TATATTATTTTAGGA-ATTATCTT
62 TATATTATTTTA-AATATTATCTT
**
7515764 TAGCTTATTTT
1 TATTTTATTTT
7515775 TAGGAATTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
83 8 0.10
84 14 0.17
85 52 0.63
86 9 0.11
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (84 bp):
TATTTTATTTTATTTTTGTATTTTAATTTCAAAAGATGTTAGTATTTTAATTAGGATAAAATATA
TTATTTTAAATATTATCTT
Found at i:7516267 original size:18 final size:18
Alignment explanation
Indices: 7516244--7516286 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7516234 CTTTAGATTA
*
7516244 TTTATTTAATT-ATTTTAT
1 TTTATTTAATTCA-TATAT
7516262 TTTATTTAATTCATATAT
1 TTTATTTAATTCATATAT
7516280 TTTATTT
1 TTTATTT
7516287 TAAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTCATATAT
Found at i:7516378 original size:15 final size:15
Alignment explanation
Indices: 7516335--7516386 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
7516325 CTATTATTTA
* *
7516335 TTATTTTATTATATTT
1 TTATTTT-TTTTATCT
*
7516351 TTCTTTTTTTTATC-
1 TTATTTTTTTTATCT
7516365 TTATTTTGTTTTATCT
1 TTATTTT-TTTTATCT
7516381 TTATTT
1 TTATTT
7516387 CTCATTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.20
15 12 0.40
16 12 0.40
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (15 bp):
TTATTTTTTTTATCT
Done.