Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 81 of 150
Found at i:24707068 original size:51 final size:51
Alignment explanation
Indices: 24706995--24707377 Score: 180
Period size: 51 Copynumber: 7.7 Consensus size: 51
24706985 GATGAACATG
* *
24706995 TGTGTAGTACTGTGTGGAGGCTACGACGTGTATCGATAAA-TAATG-GTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAACT-ATGAG-CACA
** * * * *
24707046 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGAGCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-CTATGAGCACA
* * *
24707097 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGATAAACTACG-GTTACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAACTATGAG-CACA
* * * * * * *
24707148 TGTGT--TA---AGTGAAGGCTACAATGGGTACCGA-AAAGCTTTG-GTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-CTATGAG-CACA
* * * * * *
24707194 TATGTAGTACTATGTGAAGGCTGCTACGTG-AGCCG-TAAAACT-TGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGAT-AAACTATGAGCACA
* * * * *
24707244 TGTATAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA--ACTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GATAAACTA-TGAGCACA
* * * * *
24707293 CGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAAACTA--ATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GAT-AAACTATGAGCACA
* *
24707342 TATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
24707378 ATGATAAAAA
Statistics
Matches: 266, Mismatches: 43, Indels: 47
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.01
46 29 0.11
48 2 0.01
49 83 0.31
50 46 0.17
51 94 0.35
52 9 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAACTATGAGCACA
Found at i:24707210 original size:97 final size:100
Alignment explanation
Indices: 24706997--24707223 Score: 293
Period size: 97 Copynumber: 2.3 Consensus size: 100
24706987 TGAACATGTG
* * *
24706997 TGTAGTACTGTGTGGAGGCTACGACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTG
1 TGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACA-GTGTAGTA-TAAGTG
* * *
24707062 AAGGCTACTATGTGTACCGAAAAGCTTTGAGCACGTG
64 AAGGCTACAATGGGTACCGAAAAGCTTTGAGCACGTA
* *
24707099 TGTAGTACTGTGTGAATGCTACTACGTGTATCGATAAACT-ACGGTTACA-TGT-GT-TAAGTGA
1 TGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAACGGTCACAGTGTAGTATAAGTGA
24707160 AGGCTACAATGGGTACCGAAAAGCTTTG-GTCACGTA
65 AGGCTACAATGGGTACCGAAAAGCTTTGAG-CACGTA
* *
24707196 TGTAGTACTATGTGAAGGCTGCTACGTG
1 TGTAGTACTGTGTGAAGGCTACTACGTG
24707224 AGCCGTAAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
96 1 0.01
97 63 0.56
99 2 0.02
100 3 0.03
102 42 0.38
103 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (100 bp):
TGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACAGTGTAGTATAAGTGAA
GGCTACAATGGGTACCGAAAAGCTTTGAGCACGTA
Found at i:24707308 original size:49 final size:49
Alignment explanation
Indices: 24707189--24707371 Score: 285
Period size: 49 Copynumber: 3.7 Consensus size: 49
24707179 AAAGCTTTGG
* * * *
24707189 TCACGTATGTAGTACTATGTGAAGGCTGCTACGTGAGCCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGA
*
24707239 TCACGTGTATAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
* *
24707288 TCACGCGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTAA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
*
24707337 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
24707372 TATCGAATGA
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 82 0.67
50 41 0.33
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
Found at i:24722948 original size:14 final size:14
Alignment explanation
Indices: 24722925--24722970 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
24722915 CAAAAGTTAG
24722925 AAATTAATTAAGAT
1 AAATTAATTAAGAT
* *
24722939 AAATTCATTAATAT
1 AAATTAATTAAGAT
24722953 AAA--AA-TAAGAT
1 AAATTAATTAAGAT
24722964 AAATTAA
1 AAATTAA
24722971 AACATAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 8 0.31
12 1 0.04
13 2 0.08
14 15 0.58
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (14 bp):
AAATTAATTAAGAT
Found at i:24725840 original size:20 final size:19
Alignment explanation
Indices: 24725804--24725842 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24725794 CAGAAAAACA
24725804 TGATATTGGAAATAAAAAG
1 TGATATTGGAAATAAAAAG
* *
24725823 TGATATTGGGAGTAAAAAG
1 TGATATTGGAAATAAAAAG
24725842 T
1 T
24725843 ATCTTAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (19 bp):
TGATATTGGAAATAAAAAG
Found at i:24729805 original size:47 final size:47
Alignment explanation
Indices: 24729736--24729829 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
24729726 ACAAAATGAA
24729736 TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
1 TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
**
24729783 TACATAAATTTATACCTACCACAGAATTAATACATGGGGATTCAGTT
1 TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
24729830 CACTATAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (47 bp):
TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
Found at i:24731266 original size:132 final size:133
Alignment explanation
Indices: 24731025--24731277 Score: 375
Period size: 132 Copynumber: 1.9 Consensus size: 133
24731015 AGGAGTAAAG
* * *
24731025 TACAATTTGATCAAAATGTGAAAATGTAAGTTATTATTGATTAATTGATATAAGAATAAGATGAA
1 TACAATTTGACCAAAATGTGAAAATATAAGTTATTATTGATTAATTGACATAAGAATAAGATGAA
* * ** *
24731090 ATATGCATTGGTATGATGGAAATCAAATTTGGGACTAAAATGGAAAATTTA-AAAAGTACATGGA
66 ATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAAATGGAAAAATTAGAAAAGTACATGGA
24731154 CAA
131 CAA
* * *
24731157 TACAATTTGACCAAAATGTGAAAATATGAGTTATTATTGATTTAA-TGACATAAGAATTAGTTGA
1 TACAATTTGACCAAAATGTGAAAATATAAGTTATTATTGA-TTAATTGACATAAGAATAAGATGA
*
24731221 AATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAATTGGAAAAATTAGAAAA
65 AATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAAATGGAAAAATTAGAAAA
24731278 TATAAGGACT
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
132 99 0.93
133 8 0.07
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (133 bp):
TACAATTTGACCAAAATGTGAAAATATAAGTTATTATTGATTAATTGACATAAGAATAAGATGAA
ATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAAATGGAAAAATTAGAAAAGTACATGGA
CAA
Found at i:24734583 original size:68 final size:68
Alignment explanation
Indices: 24734468--24734689 Score: 282
Period size: 68 Copynumber: 3.3 Consensus size: 68
24734458 CTCGGAATTG
* * * * * * *
24734468 GAAGTCCACCAGGAAAGTAAACATGAGAACATATTGTGTAGGGCCATAGTTGGGTTATGGCAACA
1 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
24734533 TAT
66 TAT
* *
24734536 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGCTGGGCTACGACAACA
1 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
24734601 TAT
66 TAT
** * * * * * *
24734604 GAAGTTTGCCAAGACAATAAACATGGGAACATATTGTGTAATACAATAGTTGCGCTATGATAACA
1 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
24734669 TAT
66 TAT
*
24734672 GAAGTTCGCCAGGACAGT
1 GAAGTTCACCAGGACAGT
24734690 GAACCAGAAG
Statistics
Matches: 132, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 132 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (68 bp):
GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
TAT
Found at i:24741751 original size:23 final size:23
Alignment explanation
Indices: 24741720--24741770 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
24741710 ACTTACTTTC
* * *
24741720 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
24741743 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
24741766 TTACA
1 TTACA
24741771 ATTATAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:24758803 original size:25 final size:26
Alignment explanation
Indices: 24758775--24758832 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
24758765 AACTCGTGAG
24758775 AGCATACT-GA-TCTACAGCTCAAATA
1 AGCATACTCGATTC-ACAGCTCAAATA
**
24758800 AGCATA-TCGATTCACAGCTCGTATA
1 AGCATACTCGATTCACAGCTCAAATA
24758825 AGCATACT
1 AGCATACT
24758833 TGTACATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.04
25 24 0.86
26 3 0.11
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (26 bp):
AGCATACTCGATTCACAGCTCAAATA
Found at i:24766506 original size:20 final size:20
Alignment explanation
Indices: 24766481--24766520 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24766471 TAGTACAAGA
* *
24766481 TTTGCACTTTGGTGCCTCTG
1 TTTGCACCTCGGTGCCTCTG
24766501 TTTGCACCTCGGTGCCTCTG
1 TTTGCACCTCGGTGCCTCTG
24766521 ATCGCACATT
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:0.05, C:0.30, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTGCACCTCGGTGCCTCTG
Found at i:24769833 original size:26 final size:26
Alignment explanation
Indices: 24769804--24769855 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24769794 CACAAGTATT
24769804 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
24769830 TACATGATATATAGATATATGATTTG
1 TACATGAGATATAGATAAATGATTTG
24769856 AAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:24770657 original size:28 final size:28
Alignment explanation
Indices: 24770625--24770680 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24770615 TTGGTCACTT
24770625 AGCTAAATTTGGATACATGGTTGACATG
1 AGCTAAATTTGGATACATGGTTGACATG
24770653 AGCTAAATTTGGATACATGGTTGACATG
1 AGCTAAATTTGGATACATGGTTGACATG
24770681 TTTGCATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
AGCTAAATTTGGATACATGGTTGACATG
Found at i:24773863 original size:200 final size:200
Alignment explanation
Indices: 24773515--24773908 Score: 662
Period size: 200 Copynumber: 2.0 Consensus size: 200
24773505 ACGAGTGAAA
*
24773515 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTTGCGATCCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
*
24773580 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGCTGAACAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
*
24773645 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTGAACAA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACAA
24773710 TGCTC
196 TGCTC
** * * *
24773715 GATTTGGATGTGCTTAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
* *
24773780 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
* * * *
24773845 TAGATAGATTTTTTGTGGTATTTATTGATGATATTTTTATATATTCTTGAGATTAGACTAAACA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACA
24773909 TGCCGAGCAT
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 180 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (200 bp):
GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACAA
TGCTC
Found at i:24775141 original size:198 final size:199
Alignment explanation
Indices: 24774803--24775180 Score: 636
Period size: 198 Copynumber: 1.9 Consensus size: 199
24774793 ACGATTGAAA
24774803 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCTT
1 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCTT
* ** * *
24774868 GTTTGGTTTAACTAATGCACTTCCAGTATTTAAGGATTTGATGAACAGAGTCTTCAGACCGTATT
66 GTTTGGTTTAACTAATACACCACCAGTATTTAAGGATTTAATGAACAGAATCTTCAGACCGTATT
24774933 TAGACAGATTTGTTGT-GTATTTATTGATGATATTT-TGATATATTCTTGAGATGAGACTGAACA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTAT-ATATATTCTTGAGATGAGACTGAACA
24774996 TGCTC
195 TGCTC
**
24775001 GATTTGGATGTGCTTAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGC-
1 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGAT-CT
*
24775065 TGTTTGGTTTAACTAATACACCACCAGTATTTATGGATTTAATGAACAGAATCTTCAGACCGTAT
65 TGTTTGGTTTAACTAATACACCACCAGTATTTAAGGATTTAATGAACAGAATCTTCAGACCGTAT
*
24775130 TTAGACAGATTTTTTGTGGTATTTATTGATGATATTTATATATATTCTTGA
130 TTAGACAGATTTGTTGTGGTATTTATTGATGATATTTATATATATTCTTGA
24775181 TTTGAGAATT
Statistics
Matches: 168, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
198 135 0.80
199 32 0.19
200 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (199 bp):
GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCTT
GTTTGGTTTAACTAATACACCACCAGTATTTAAGGATTTAATGAACAGAATCTTCAGACCGTATT
TAGACAGATTTGTTGTGGTATTTATTGATGATATTTATATATATTCTTGAGATGAGACTGAACAT
GCTC
Found at i:24776416 original size:200 final size:200
Alignment explanation
Indices: 24776080--24776458 Score: 686
Period size: 200 Copynumber: 1.9 Consensus size: 200
24776070 GGATCTTGTG
*
24776080 AAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCCTGTTTGGTTTAACTAA
1 AAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATCCTGTTTGGTTTAACTAA
24776145 TGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATTTAGACAGATTTGTTA
66 TGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATTTAGACAGATTTGTTA
24776210 TGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAATGCTCGATTTGGATG
131 TGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAATGCTCGATTTGGATG
24776275 TGCTT
196 TGCTT
* * *
24776280 AAAACTACATTTAGAATCAGGTATGGACACTATGAATTTCTAGTGATGCTGTTTGGTTTAACTAA
1 AAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATCCTGTTTGGTTTAACTAA
* *
24776345 TGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATTTAGACAGATTTTTTG
66 TGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATTTAGACAGATTTGTTA
* *
24776410 TGGTATTTATTGATGATATTTTTATATATTCTTGAGATGAGACTGAACA
131 TGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACA
24776459 TGCCGAGCAT
Statistics
Matches: 171, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 171 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (200 bp):
AAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATCCTGTTTGGTTTAACTAA
TGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATTTAGACAGATTTGTTA
TGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAATGCTCGATTTGGATG
TGCTT
Found at i:24777699 original size:199 final size:199
Alignment explanation
Indices: 24777352--24777730 Score: 645
Period size: 199 Copynumber: 1.9 Consensus size: 199
24777342 ACGAGTGAAA
24777352 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGCT
* * ** * *
24777417 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGCTGATCAAAGTCTTCAGATCGTATT
66 GTTTGGTTTAACTAATACACCACCAGTATTTATGGATTTAATGAACAAAGTCTTCAGACCGTATT
24777482 TAGACAGATTTGTTGTGGTATTTATTGATGATATTT-TGATATATTCTTGAGATGAGACTGAAAA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTAT-ATATATTCTTGAGATGAGACTGAAAA
24777546 TGCTC
195 TGCTC
**
24777551 GATTTGGATGTGCTTAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGCT
24777616 GTTTGGTTTAACTAATACACCACCAGTATTTATGGATTTAATGAACAGAA-TCTTCAGACCGTAT
66 GTTTGGTTTAACTAATACACCACCAGTATTTATGGATTTAATGAACA-AAGTCTTCAGACCGTAT
*
24777680 TTAGACAGATTTTTTGTGGTATTTATTGATGATATTTATATATATTCTTGA
130 TTAGACAGATTTGTTGTGGTATTTATTGATGATATTTATATATATTCTTGA
24777731 TTTGAGAATT
Statistics
Matches: 169, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
199 166 0.98
200 3 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (199 bp):
GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGCT
GTTTGGTTTAACTAATACACCACCAGTATTTATGGATTTAATGAACAAAGTCTTCAGACCGTATT
TAGACAGATTTGTTGTGGTATTTATTGATGATATTTATATATATTCTTGAGATGAGACTGAAAAT
GCTC
Found at i:24778963 original size:200 final size:200
Alignment explanation
Indices: 24778615--24779008 Score: 646
Period size: 200 Copynumber: 2.0 Consensus size: 200
24778605 ACGAGTGAAA
* *
24778615 GATTTGGATCTGCCGAAAACTACATTTAGAAACCGGTACGGACACTATGAGTTTCTTGTGATCCA
1 GATTTGGATCTGCCGAAAACTACATTTAGAAACCAGTACGGACACTATGAATTTCTTGTGATCCA
* * *
24778680 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAGCAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACAGAATCTTCAGACCGTACT
*
24778745 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTCATATATTCTTGAGATGAGACTGAACAA
131 TAGACAGATTTGTTGTGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAA
24778810 TGCTC
196 TGCTC
* * *
24778815 GATTTGGATGTGCTGAAAACTACATTTAG-AACCAAGTACGGACACTATGAATTTCTTGTGATGC
1 GATTTGGATCTGCCGAAAACTACATTTAGAAACC-AGTACGGACACTATGAATTTCTTGTGATCC
* * *
24778879 TGTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACTGAATCTTCAGTCCGTAC
65 AGTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACAGAATCTTCAGACCGTAC
* *
24778944 TTAGACAGATTTTTTGTGGTATTTATTGATAATATTTTTATATATTCTTGAGATGAGACTGAACA
130 TTAGACAGATTTGTTGTGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACA
24779009 TGCCGAGCAT
Statistics
Matches: 179, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 4 0.02
200 175 0.98
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (200 bp):
GATTTGGATCTGCCGAAAACTACATTTAGAAACCAGTACGGACACTATGAATTTCTTGTGATCCA
GTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACAGAATCTTCAGACCGTACT
TAGACAGATTTGTTGTGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAA
TGCTC
Found at i:24788009 original size:40 final size:40
Alignment explanation
Indices: 24787960--24788045 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
24787950 TTTTCAAATT
*
24787960 TGTGCATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
1 TGTGGATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
* * *
24788000 TGTGGATTACTCAGGACGAGTAATGAAATAATTTTGGGGG
1 TGTGGATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
24788040 TGTGGA
1 TGTGGA
24788046 AACACGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (40 bp):
TGTGGATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
Found at i:24788188 original size:10 final size:10
Alignment explanation
Indices: 24788173--24788217 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
24788163 ATGAAAATTT
24788173 TTAATTTTAA
1 TTAATTTTAA
24788183 TTAATTTTATA
1 TTAATTTTA-A
* *
24788194 TCAAATTTTTA
1 T-TAATTTTAA
24788205 TTAATTTTAA
1 TTAATTTTAA
24788215 TTA
1 TTA
24788218 TTCTTGACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 19 0.66
11 4 0.14
12 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:24791190 original size:25 final size:25
Alignment explanation
Indices: 24791138--24791277 Score: 76
Period size: 25 Copynumber: 5.6 Consensus size: 25
24791128 GGTTACTGAT
* *
24791138 TTCAGCTCTTATGAGCTTACCTTTA
1 TTCAGCTCGTATGAGCTTACCTTAA
24791163 TTCAGCTCGTATGAGCTTA-CTATAA
1 TTCAGCTCGTATGAGCTTACCT-TAA
* * * * *
24791188 TTCATCTTGGAGGAGCTTACCGCT-A
1 TTCAGCTCGTATGAGCTTACC-TTAA
* * *
24791213 TTCAGCTTGTACGAGCTTATCGTT-A
1 TTCAGCTCGTATGAGCTTA-CCTTAA
* *
24791238 TTCAGCTTAG-AGGAGCTTACCGTT--
1 TTCAGC-TCGTATGAGCTTACC-TTAA
*
24791262 TACAGCTCGTATGAGC
1 TTCAGCTCGTATGAGC
24791278 ACACATATAC
Statistics
Matches: 90, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 2 0.02
24 13 0.14
25 70 0.78
26 5 0.06
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCTTAA
Found at i:24791215 original size:50 final size:49
Alignment explanation
Indices: 24791150--24791277 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 49
24791140 CAGCTCTTAT
* * *
24791150 GAGCTTACCTTTATTCAGCTCGTATGAGCTTA-C-TATAATTCATCTTGGAG
1 GAGCTTACC-GTATTCAGCTCGTATGAGCTTATCGT-T-ATTCAGCTTAGAG
* *
24791200 GAGCTTACCGCTATTCAGCTTGTACGAGCTTATCGTTATTCAGCTTAGAG
1 GAGCTTACCG-TATTCAGCTCGTATGAGCTTATCGTTATTCAGCTTAGAG
24791250 GAGCTTACCGT-TTACAGCTCGTATGAGC
1 GAGCTTACCGTATT-CAGCTCGTATGAGC
24791278 ACACATATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
48 2 0.03
49 13 0.19
50 49 0.73
51 2 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (49 bp):
GAGCTTACCGTATTCAGCTCGTATGAGCTTATCGTTATTCAGCTTAGAG
Found at i:24791448 original size:26 final size:26
Alignment explanation
Indices: 24791419--24791470 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24791409 CATAGGTATT
24791419 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
24791445 TACATGATATATAGATACATGATTTG
1 TACATGAGATATAGATAAATGATTTG
24791471 GAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:24803557 original size:28 final size:23
Alignment explanation
Indices: 24803498--24803544 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24803488 TTGTCAGGAC
24803498 TTAGCAAAAATTTAATATTTTAT
1 TTAGCAAAAATTTAATATTTTAT
24803521 TTAGCAAAAATTTAATATTTTAT
1 TTAGCAAAAATTTAATATTTTAT
24803544 T
1 T
24803545 CTATTTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAGCAAAAATTTAATATTTTAT
Found at i:24812342 original size:52 final size:52
Alignment explanation
Indices: 24812263--24812366 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
24812253 GCTAATTCCC
* *
24812263 TTTATATCAGCCAGGGTCCATCTCAATGCCCTTTTAAA-TCCCTGAAGAACTT
1 TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATTCCC-GAAGAACTT
* * *
24812315 TTTATATTAGCTAGGGTCCATCCCAATGCCCTCTTAAATTGCCGAAGAACTT
1 TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATTCCCGAAGAACTT
24812367 CTAACAACCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 43 0.93
53 3 0.07
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (52 bp):
TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATTCCCGAAGAACTT
Found at i:24813604 original size:18 final size:18
Alignment explanation
Indices: 24813570--24813605 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24813560 TGTATTATAT
* *
24813570 TATAATAATAAATTAAAG
1 TATAATAAAAAAATAAAG
24813588 TATAATAAAAAAATAAAG
1 TATAATAAAAAAATAAAG
24813606 AAAGAGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TATAATAAAAAAATAAAG
Found at i:24814560 original size:6 final size:6
Alignment explanation
Indices: 24814549--24814583 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
24814539 TTTTAGTGAA
24814549 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
24814584 AACTAGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:24815370 original size:20 final size:21
Alignment explanation
Indices: 24815338--24815391 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
24815328 AGTAATTATG
24815338 TTTTAAAATACTATT-AATTA
1 TTTTAAAATACTATTCAATTA
24815358 TTTTACAAA-ACTATTCAA-T-
1 TTTTA-AAATACTATTCAATTA
*
24815377 TTTTAAATTACTATT
1 TTTTAAAATACTATT
24815392 ATTTTTTACC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 11 0.37
20 12 0.40
21 5 0.17
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTAAAATACTATTCAATTA
Found at i:24815406 original size:18 final size:19
Alignment explanation
Indices: 24815338--24815409 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 19
24815328 AGTAATTATG
*
24815338 TTTTAAAATACTATTAATT
1 TTTTACAATACTATTAATT
*
24815357 ATTTTACAAAACTATTCAA-T
1 -TTTTACAATACTATT-AATT
24815377 TTTTA-AATTACTATT-ATT
1 TTTTACAA-TACTATTAATT
*
24815395 TTTTACCATACTATT
1 TTTTACAATACTATT
24815410 TTTAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.02
18 15 0.34
19 12 0.27
20 14 0.32
21 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTACAATACTATTAATT
Found at i:24815929 original size:22 final size:21
Alignment explanation
Indices: 24815903--24815944 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24815893 TAATTGATTC
* *
24815903 TAATAATTGAAAATTAAATAAT
1 TAATAAAT-AAAAATAAATAAT
24815925 TAATAAATAAAAATAAATAA
1 TAATAAATAAAAATAAATAA
24815945 AATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TAATAAATAAAAATAAATAAT
Found at i:24816271 original size:28 final size:29
Alignment explanation
Indices: 24816203--24816269 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
24816193 ATTAGGATCG
* * *
24816203 AAATAA-TATATCAGTTTAAATATTATTT
1 AAATAATTAAATCAGTTTAAATATAATTA
*
24816231 AAATAATTAAATCATTTTAAATATAATTA
1 AAATAATTAAATCAGTTTAAATATAATTA
*
24816260 AAATCATTAA
1 AAATAATTAA
24816270 TCTGAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATAATTAAATCAGTTTAAATATAATTA
Found at i:24833955 original size:16 final size:18
Alignment explanation
Indices: 24833920--24833956 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24833910 AGTGATCCTT
*
24833920 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
24833938 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
24833954 ATG
1 ATG
24833957 TATGAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:24839823 original size:20 final size:20
Alignment explanation
Indices: 24839800--24839839 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24839790 AGTAATGCAA
*
24839800 ATAAACCGCCAGTATTGTGG
1 ATAAACCGCCAGTAATGTGG
**
24839820 ATAAACTTCCAGTAATGTGG
1 ATAAACCGCCAGTAATGTGG
24839840 TCAAGCCACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (20 bp):
ATAAACCGCCAGTAATGTGG
Found at i:24844984 original size:28 final size:28
Alignment explanation
Indices: 24844941--24844996 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
24844931 ATTTATCCAA
24844941 ACAACCCAGAACCTCAAAATTAAAACTT
1 ACAACCCAGAACCTCAAAATTAAAACTT
* * * *
24844969 ACAACCTAGAATCTCAGAGTTAAAACTT
1 ACAACCCAGAACCTCAAAATTAAAACTT
24844997 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (28 bp):
ACAACCCAGAACCTCAAAATTAAAACTT
Found at i:24845392 original size:28 final size:28
Alignment explanation
Indices: 24845339--24845393 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
24845329 AGAGAGAAAG
* *
24845339 ATGGGAAAGAGAAGAAGGGAAGAAAAAA
1 ATGGGAAAAAGAAGAAGGGAAAAAAAAA
*
24845367 ATGGGAAAAAG-AGAACGTGAAAAAAAA
1 ATGGGAAAAAGAAGAA-GGGAAAAAAAA
24845394 TGAAAGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (28 bp):
ATGGGAAAAAGAAGAAGGGAAAAAAAAA
Found at i:24851838 original size:16 final size:16
Alignment explanation
Indices: 24851817--24851857 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
24851807 ATTTGGTTGA
*
24851817 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
24851833 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
24851848 -AAAATTAATT
1 GAAAATTAATT
24851858 TGAGATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:24858233 original size:15 final size:16
Alignment explanation
Indices: 24858199--24858236 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24858189 CCACATACAT
* *
24858199 ATATATATACTTTACC
1 ATATAAATACTATACC
24858215 ATATAAATACTAT-CC
1 ATATAAATACTATACC
24858230 ATATAAA
1 ATATAAA
24858237 ATTAAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAATACTATACC
Found at i:24859879 original size:50 final size:50
Alignment explanation
Indices: 24859767--24860014 Score: 289
Period size: 50 Copynumber: 4.8 Consensus size: 50
24859757 ATTTGGATAA
* * *
24859767 AGAGATCCCATGTAAGACCATGACTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
24859823 AGAGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
24859873 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
24859923 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
24859973 AGAACTCCTATGTAAGACAATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24860015 GTACAAGAAA
Statistics
Matches: 171, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 129 0.75
53 3 0.02
55 1 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:24861883 original size:43 final size:44
Alignment explanation
Indices: 24861774--24861897 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 44
24861764 AGCTCGTACA
* * * *
24861774 ATGCCAACGTCTCAGACGTGGTCTTACATGTGATCAC-AGATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACACAAGATCG
* *
24861817 ATGCC-ACTGTCCCAAACAG-GGTCTTACACGTAAACACAAG-TCG
1 ATGCCAAC-GTCCCAGA-AGTGGTCTTACATGTAAACACAAGATCG
* *
24861860 ATGCCAACGTCCCAGATGTGGTCTTACATGAAAACACA
1 ATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACACA
24861898 TATCAGAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
42 3 0.05
43 58 0.88
44 5 0.08
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (44 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACACAAGATCG
Found at i:24864952 original size:27 final size:27
Alignment explanation
Indices: 24864914--24864968 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24864904 TAATCCAAGA
24864914 AACATACTCATAATGGGTCAGTCTAAT
1 AACATACTCATAATGGGTCAGTCTAAT
24864941 AACATACTCATAATGGGTCAGTCTAAT
1 AACATACTCATAATGGGTCAGTCTAAT
24864968 A
1 A
24864969 TGTTGTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (27 bp):
AACATACTCATAATGGGTCAGTCTAAT
Found at i:24867613 original size:24 final size:25
Alignment explanation
Indices: 24867581--24867635 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
24867571 ATAGTAGAAA
* *
24867581 TATAATTTTATCA-TTTTAATAGGT
1 TATAATTTTATAATTTTTAAAAGGT
*
24867605 TATATTTTTATAATTTTTAAAAGGT
1 TATAATTTTATAATTTTTAAAAGGT
24867630 TA-AATT
1 TATAATT
24867636 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (25 bp):
TATAATTTTATAATTTTTAAAAGGT
Found at i:24871958 original size:22 final size:20
Alignment explanation
Indices: 24871928--24871967 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
24871918 AACAATAGAA
24871928 AATGATAAAATAATGTAATTTT
1 AATGATAAAAT--TGTAATTTT
*
24871950 AATGGTAAAATTGTAATT
1 AATGATAAAATTGTAATT
24871968 ATGTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AATGATAAAATTGTAATTTT
Found at i:24878986 original size:2 final size:2
Alignment explanation
Indices: 24878979--24879005 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24878969 ATTTAAATAC
24878979 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 A
24879006 AGCCAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24879349 original size:25 final size:25
Alignment explanation
Indices: 24879278--24879351 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
24879268 ACGAGCTGCG
* * *
24879278 AATCGGTATGCTCACTTGAGCTGTA
1 AATCGGTATGTTCACATGAGCTATA
*
24879303 GATCGGTATGCTCTCACA--AGCTATA
1 AATCGGTATG-T-TCACATGAGCTATA
*
24879328 AATCAGTATGTTCACATGAGCTAT
1 AATCGGTATGTTCACATGAGCTAT
24879352 GGGTCAGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 5 0.13
24 1 0.03
25 29 0.74
27 4 0.10
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
AATCGGTATGTTCACATGAGCTATA
Found at i:24885447 original size:36 final size:36
Alignment explanation
Indices: 24885370--24885500 Score: 151
Period size: 36 Copynumber: 3.6 Consensus size: 36
24885360 TACTCTCTAT
*
24885370 TTTGGTGTGTTTCGGTTGGATTAGCT-TT-TCGAAGCGA
1 TTTGGTGTGTTTCGGATGGATTAGCTCTTAT-G-AGC-A
*
24885407 -TTGGTGTGTTTCGGATGGATTTGCTCTTATGAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* * *
24885442 TTTGGTGTGTTTTGGATGGACTAACTCTTATGAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* *
24885478 TTTGGTGTGTTTCAGTTGGATTA
1 TTTGGTGTGTTTCGGATGGATTA
24885501 TTGATTTACT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
35 1 0.01
36 76 0.94
37 3 0.04
38 1 0.01
ACGTcount: A:0.15, C:0.10, G:0.31, T:0.44
Consensus pattern (36 bp):
TTTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
Found at i:24886443 original size:8 final size:8
Alignment explanation
Indices: 24886419--24886465 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
24886409 GACTTATGAT
24886419 ATGTTTCAA
1 ATGTTT-AA
24886428 AT-TATTAA
1 ATGT-TTAA
24886436 ATGTTTAA
1 ATGTTTAA
24886444 ATGTTTAA
1 ATGTTTAA
24886452 ATGTTTAA
1 ATGTTTAA
24886460 ATGTTT
1 ATGTTT
24886466 TTATTGATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
8 31 0.86
9 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (8 bp):
ATGTTTAA
Found at i:24891746 original size:19 final size:18
Alignment explanation
Indices: 24891700--24891748 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
24891690 GATGGAATTT
*
24891700 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
24891719 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
24891737 TTGTATTAAAAT
1 TTGTA-TAAAAT
24891749 CTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:24891806 original size:20 final size:21
Alignment explanation
Indices: 24891762--24891809 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
24891752 GAACATGTTA
24891762 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
24891784 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
24891804 ATTTTT
1 ATTTTT
24891810 GACAGATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:24893093 original size:22 final size:21
Alignment explanation
Indices: 24893068--24893111 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
24893058 TGATAAACTT
24893068 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
24893090 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
24893111 T
1 T
24893112 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:24894646 original size:19 final size:18
Alignment explanation
Indices: 24894600--24894647 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
24894590 GATAGAATTT
*
24894600 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
24894619 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
24894637 TTGTATTAAAA
1 TTGTA-TAAAA
24894648 ATTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:24895281 original size:14 final size:14
Alignment explanation
Indices: 24895258--24895287 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24895248 CATCCCTCAT
*
24895258 TCACATCTCTTCTC
1 TCACAACTCTTCTC
24895272 TCACAACTCTTCTC
1 TCACAACTCTTCTC
24895286 TC
1 TC
24895288 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:24896786 original size:13 final size:14
Alignment explanation
Indices: 24896765--24896815 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
24896755 TATATATTTT
*
24896765 TTATATTATTAATA
1 TTATATTATAAATA
24896779 TTAT-TTATAAATA
1 TTATATTATAAATA
* **
24896792 TTATAATAATGTATA
1 TTAT-ATTATAAATA
24896807 TTATATTAT
1 TTATATTAT
24896816 TATGATATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 12 0.40
14 8 0.27
15 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTATATTATAAATA
Found at i:24897850 original size:41 final size:41
Alignment explanation
Indices: 24897735--24897850 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
24897725 GTCATATTCG
* * *
24897735 GGCTCTGTGCCTAGCAGGCTTTATGCCAGTGAATTATAGCA
1 GGCTTTGTGCCTAGCAGGCTTTATGCCAGTGTATCATAGCA
* ** * * *
24897776 GGCTTTATGCCTAGCAGGCTTCGTGTCGGTGTATCATATCTA
1 GGCTTTGTGCCTAGCAGGCTTTATGCCAGTGTATCATAGC-A
* *
24897818 -GCTTTGTGCCTAGAAGGCTTTATGCCATTGTAT
1 GGCTTTGTGCCTAGCAGGCTTTATGCCAGTGTAT
24897851 TTTAATAAGC
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (41 bp):
GGCTTTGTGCCTAGCAGGCTTTATGCCAGTGTATCATAGCA
Found at i:24922387 original size:30 final size:30
Alignment explanation
Indices: 24922351--24922411 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
24922341 ATGAGGAGTT
24922351 AGTACGCAAATTCTATGCGAATTTAACCTC
1 AGTACGCAAATTCTATGCGAATTTAACCTC
*
24922381 AGTACGCGAATTCTATGCGAATTTAACCTC
1 AGTACGCAAATTCTATGCGAATTTAACCTC
24922411 A
1 A
24922412 ATCGAGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (30 bp):
AGTACGCAAATTCTATGCGAATTTAACCTC
Found at i:24937949 original size:24 final size:24
Alignment explanation
Indices: 24937901--24937947 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24937891 ACTGGTCATA
*
24937901 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
24937925 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
24937948 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:24938664 original size:27 final size:27
Alignment explanation
Indices: 24938618--24938757 Score: 190
Period size: 27 Copynumber: 5.1 Consensus size: 27
24938608 AGGTCGATTT
*
24938618 ATGATTGAAATGCCCCCATAGGGTAAA
1 ATGATTGAAATACCCCCATAGGGTAAA
* *
24938645 ATGATTGAAATACCCTCATAAGGTAAA
1 ATGATTGAAATACCCCCATAGGGTAAA
**
24938672 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGATTGAAATACCCCCATAGGGTAAA
* * *
24938699 ATGATAAGAAATACCTCCATAGGATAAA
1 ATGAT-TGAAATACCCCCATAGGGTAAA
*
24938727 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGATTGAAATACCCCCATAGGGTAAA
24938754 ATGA
1 ATGA
24938758 CTGTTATACC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 74 0.76
28 23 0.24
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (27 bp):
ATGATTGAAATACCCCCATAGGGTAAA
Found at i:24938737 original size:55 final size:54
Alignment explanation
Indices: 24938618--24938757 Score: 203
Period size: 55 Copynumber: 2.6 Consensus size: 54
24938608 AGGTCGATTT
* * *
24938618 ATGATTGAAATGCCCCCATAGGGTAAAATGATTGAAATACCCTCATAAGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAAGGTAAA
*
24938672 ATGACCGAAATACCCCCATAGGGTAAAATGATAAGAAATA-CCTCCAT-AGGATAAA
1 ATGACTGAAATACCCCCATAGGGTAAAATGAT-AGAAATACCCT-CATAAGG-TAAA
24938727 ATGACTGAAATACCCCCATAGGGTAAAATGA
1 ATGACTGAAATACCCCCATAGGGTAAAATGA
24938758 CTGTTATACC
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
54 35 0.45
55 43 0.55
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (54 bp):
ATGACTGAAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAAGGTAAA
Found at i:24940493 original size:51 final size:50
Alignment explanation
Indices: 24940426--24940768 Score: 246
Period size: 51 Copynumber: 6.8 Consensus size: 50
24940416 AAATGATACC
* * * * * *
24940426 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCT-ATT
* * * ** *
24940477 CGATACACGTAGTAGCCTCCACATAGTACTATACACGTGATTGAAGCTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAATCTATT
* * * * ** *
24940528 CGGTACGCATAGTAGCCTGCACATAGTACTGCACATGCAACCGATC-ATTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTA-TT
* * * * *
24940578 TGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTA-TT
* * * *
24940629 C---ACTCGTAGTAGCCAGCACATAGTACTACACACGTGATCGAAGCTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAATCTATT
* * * * * *
24940677 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGGCCGATC-ATTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTA-TT
* * * * *
24940727 TGGTGCATGTAGTAGCCTACACATAGTACTAGACACGTGACC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
24940769 TAGCAACTTC
Statistics
Matches: 222, Mismatches: 62, Indels: 17
0.74 0.21 0.06
Matches are distributed among these distances:
48 36 0.16
49 7 0.03
50 77 0.35
51 100 0.45
52 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTATT
Found at i:24940601 original size:50 final size:50
Alignment explanation
Indices: 24940480--24940773 Score: 211
Period size: 50 Copynumber: 5.9 Consensus size: 50
24940470 TTTCATCCGA
* * * ** *
24940480 TACACGTAGTAGCCTCCACATAGTACTATACACGTGATTGAAGC-TATTCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGCGACCG-AGCAT-TTTGG
* * * * * * *
24940531 TACGCATAGTAGCCTGCACATAGTACTGCACATGCAACCGATCATTTTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGCGACCGAGCATTTTGG
* * **
24940581 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTT--
1 TACACGTAGTAGCCTACACATAGTACTACACACGCGACCGAGCATTTTGG
* * * * *
24940629 CACTCGTAGTAGCC-AGCACATAGTACTACACACGTGATCGAAGC-TATTCGG
1 TACACGTAGTAGCCTA-CACATAGTACTACACACGCGACCG-AGCAT-TTTGG
* * * * * *
24940680 TACGCATAGTAGCCTGCACATAGTACTACACATGCGGCCGATCATTTTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGCGACCGAGCATTTTGG
* * * * *
24940730 TGCATGTAGTAGCCTACACATAGTACTAGACACGTGACCTAGCA
1 TACACGTAGTAGCCTACACATAGTACTACACACGCGACCGAGCA
24940774 ACTTCACTCG
Statistics
Matches: 184, Mismatches: 51, Indels: 17
0.73 0.20 0.07
Matches are distributed among these distances:
47 1 0.01
48 34 0.18
49 4 0.02
50 82 0.45
51 63 0.34
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (50 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGCGACCGAGCATTTTGG
Found at i:24940614 original size:101 final size:100
Alignment explanation
Indices: 24940433--24940617 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 100
24940423 ACCCGGTTCA
** *
24940433 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTCCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATTTT-AT-CGATACACGTAGTAGCCTACA
*
24940498 CATAGTACTATACACGTGATTGAAGCTATTCGGTACG
64 CATAGTACTACACACGTGATTGAAGCTATTCGGTACG
* *
24940535 CATAGTAGCCTGCACATAGTACTGCACATGCAACCGATCATTT-T-GGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACC-AT--TTTATCGATACACGTAGTAGCCTAC
24940598 ACATAGTACTACACACGTGA
63 ACATAGTACTACACACGTGA
24940618 CCTAGCAACT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
101 36 0.49
102 32 0.43
103 3 0.04
105 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATTTTATCGATACACGTAGTAGCCTACACA
TAGTACTACACACGTGATTGAAGCTATTCGGTACG
Found at i:24940649 original size:48 final size:48
Alignment explanation
Indices: 24940585--24940785 Score: 167
Period size: 48 Copynumber: 4.1 Consensus size: 48
24940575 TTTTGGTACA
24940585 CGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTTCACT
1 CGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTTCACT
** * *
24940633 CGTAGTAGCC-AGCACATAGTACTACACACGTGATCGAAGCTA-TTCGGTACG
1 CGTAGTAGCCTA-CACATAGTACTACACACGTGA-CCTAGCAACTTC---ACT
* * * * * * * **
24940684 CATAGTAGCCTGCACATAGTACTACACATGCGGCCGATCATTTTGGTGCA-T
1 CGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCA-ACT--T-CACT
*
24940735 -GTAGTAGCCTACACATAGTACTAGACACGTGACCTAGCAACTTCACT
1 CGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTTCACT
24940782 CGTA
1 CGTA
24940786 TCTCTTTCAT
Statistics
Matches: 115, Mismatches: 25, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 37 0.32
49 6 0.05
50 34 0.30
51 29 0.25
52 2 0.02
54 1 0.01
55 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (48 bp):
CGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTTCACT
Found at i:24940712 original size:149 final size:149
Alignment explanation
Indices: 24940484--24940785 Score: 514
Period size: 149 Copynumber: 2.0 Consensus size: 149
24940474 ATCCGATACA
* * *
24940484 CGTAGTAGCCTCCACATAGTACTATACACGTGATTGAAGCTATTCGGTACGCATAGTAGCCTGCA
1 CGTAGTAGCCACCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
*
24940549 CATAGTACTGCACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
66 CATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
24940614 GTGACCTAGCAACTTCACT
131 GTGACCTAGCAACTTCACT
*
24940633 CGTAGTAGCCAGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
1 CGTAGTAGCCACCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
** * * *
24940698 CATAGTACTACACATGCGGCCGATCATTTTGGTGCATGTAGTAGCCTACACATAGTACTAGACAC
66 CATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
24940763 GTGACCTAGCAACTTCACT
131 GTGACCTAGCAACTTCACT
24940782 CGTA
1 CGTA
24940786 TCTCTTTCAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (149 bp):
CGTAGTAGCCACCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
CATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
GTGACCTAGCAACTTCACT
Found at i:24941448 original size:22 final size:22
Alignment explanation
Indices: 24941420--24941520 Score: 130
Period size: 22 Copynumber: 4.6 Consensus size: 22
24941410 TTTATTGTTC
*
24941420 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
24941442 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
24941464 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
24941486 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
24941508 AAACATGAGAGCT
1 AAACATGAGAGCT
24941521 GTCCAAAAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 69 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:24942011 original size:26 final size:26
Alignment explanation
Indices: 24941975--24942029 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
24941965 TTTGCCACAT
*
24941975 ATACTGTTACTGAAAGCTTTGCTGCG
1 ATACTATTACTGAAAGCTTTGCTGCG
**
24942001 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGAAAGCTTTGCTGCG
24942027 ATA
1 ATA
24942030 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGAAAGCTTTGCTGCG
Found at i:24942126 original size:28 final size:28
Alignment explanation
Indices: 24942081--24942243 Score: 233
Period size: 28 Copynumber: 5.8 Consensus size: 28
24942071 TGCATTGTTA
24942081 CTGTATTGGGCTAAGGCCCACACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
24942109 CTG-AGTTGGGTTAAGGCCCAAACTGATT
1 CTGTA-TTGGGCTAAGGCCCACACTGATT
24942137 CTGTATTGGGCTAAGGCCCACACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
24942165 CTGTATTGGGCTAAGGCCCACACT-ATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
* * *
24942192 AGTGTATTGGGCAAAGGCCCACACT-CTT
1 -CTGTATTGGGCTAAGGCCCACACTGATT
24942220 ACTGTATTGGGCTAAGGCCCACAC
1 -CTGTATTGGGCTAAGGCCCACAC
24942244 AGTACTATTG
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.03
28 118 0.96
29 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (28 bp):
CTGTATTGGGCTAAGGCCCACACTGATT
Found at i:24942281 original size:61 final size:56
Alignment explanation
Indices: 24942088--24942284 Score: 150
Period size: 56 Copynumber: 3.4 Consensus size: 56
24942078 TTACTGTATT
* * * * * * *
24942088 GGGCTAAGGCCCACACTGATT-CTG-AGTTGGGTTAAGGCCCAAACTGATT-CTGTATT
1 GGGCAAAGGCCCACACT-CTTACTGTA-TTGGGCTAAGGCCCACACT-ATTAGTGAATA
* * * *
24942144 GGGCTAAGGCCCACACTGATT-CTGTATTGGGCTAAGGCCCACACTATTAGTGTATT
1 GGGCAAAGGCCCACACT-CTTACTGTATTGGGCTAAGGCCCACACTATTAGTGAATA
*
24942200 GGGCAAAGGCCCACACTCTTACTGTATTGGGCTAAGGCCCACACAGTACTATTGCTGAATA
1 GGGCAAAGGCCCACACTCTTACTGTATTGGGCTAAGGCCCACAC--TA-T-TAG-TGAATA
** *
24942261 GGGCTCAGGCCCAGACTCTTACTG
1 GGGCAAAGGCCCACACTCTTACTG
24942285 CGTTCAGTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
55 5 0.04
56 86 0.70
57 1 0.01
58 2 0.02
59 1 0.01
60 2 0.02
61 25 0.20
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (56 bp):
GGGCAAAGGCCCACACTCTTACTGTATTGGGCTAAGGCCCACACTATTAGTGAATA
Found at i:24955665 original size:13 final size:13
Alignment explanation
Indices: 24955644--24955683 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
24955634 GTAATATAGT
*
24955644 TTTACATTAGTAC
1 TTTAAATTAGTAC
24955657 TTTAAATTAGTAC
1 TTTAAATTAGTAC
*
24955670 TTTAAATTATTAC
1 TTTAAATTAGTAC
24955683 T
1 T
24955684 CTAATCCGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (13 bp):
TTTAAATTAGTAC
Found at i:24963689 original size:28 final size:28
Alignment explanation
Indices: 24963649--24963704 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24963639 CCATTTCGAG
24963649 ATAAGATCACTCATAATTCTCAACCATT
1 ATAAGATCACTCATAATTCTCAACCATT
24963677 ATAAGATCACTCATAATTCTCAACCATT
1 ATAAGATCACTCATAATTCTCAACCATT
24963705 TCTCAACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAAGATCACTCATAATTCTCAACCATT
Found at i:24965932 original size:69 final size:67
Alignment explanation
Indices: 24965822--24965967 Score: 195
Period size: 69 Copynumber: 2.1 Consensus size: 67
24965812 TTCTCTATAC
* * *
24965822 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCTACATCTCTTGTGAGCAAGCCCACTTCAC
1 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACTTCAC
24965887 AG
66 AG
* * * *
24965889 CTCGTGTGAGCAGCATCGTGTAGCTTAACAT-CTCGGCCCACATCTCGTGTAAGTAGGCCCACTT
1 CTCGTGTGAGCAGCAT--AGTAGCTTAACATCCT-GACCCACATCTCGTGTAAGCAAGCCCACTT
24965953 CACAG
63 CACAG
24965958 CTCGTGTGAG
1 CTCGTGTGAG
24965968 TATTTTAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
67 16 0.23
68 2 0.03
69 51 0.74
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (67 bp):
CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACTTCAC
AG
Found at i:24968040 original size:18 final size:18
Alignment explanation
Indices: 24968000--24968042 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24967990 AAGAAAAGTT
* * *
24968000 AGGGTTTTAAGTGTTTTT
1 AGGGTTTTAAGAGGTTTA
24968018 A-GGTTTTAAGAGGTTTA
1 AGGGTTTTAAGAGGTTTA
24968035 AGGGTTTT
1 AGGGTTTT
24968043 GGAGAGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (18 bp):
AGGGTTTTAAGAGGTTTA
Found at i:24970258 original size:17 final size:17
Alignment explanation
Indices: 24970236--24970270 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24970226 AAGAACTTCT
24970236 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
24970253 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
24970270 T
1 T
24970271 GACCTTGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAGCTCCAACCAATCC
Found at i:24987851 original size:42 final size:42
Alignment explanation
Indices: 24987791--24987873 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
24987781 TAAAATAGAT
* * **
24987791 AAAAAAGAGTTTTGAAAAGGAGAAGATAATTTTGGGTTGTTC
1 AAAAAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTTC
*
24987833 AAAAAAGAATTTTAAAAAGTAGAAGATAAACTTGGGTTGTT
1 AAAAAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTT
24987874 GGATTTACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (42 bp):
AAAAAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTTC
Found at i:25000210 original size:25 final size:26
Alignment explanation
Indices: 25000165--25000218 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
25000155 TTCCCCTAAA
*
25000165 TTTCAATTTTATTTAACTATTTAAT-T
1 TTTCAATTTTATTGAACTA-TTAATAT
*
25000191 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAACTATTAATAT
25000216 TTT
1 TTT
25000219 ATACTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATTGAACTATTAATAT
Found at i:25008259 original size:18 final size:18
Alignment explanation
Indices: 25008236--25008274 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
25008226 GAGAGTAAAC
*
25008236 TCTAATTATTATTTGGAG
1 TCTAATTATTATTCGGAG
25008254 TCTAATTATTATTCGGAG
1 TCTAATTATTATTCGGAG
25008272 TCT
1 TCT
25008275 GCGTATGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (18 bp):
TCTAATTATTATTCGGAG
Found at i:25017027 original size:20 final size:20
Alignment explanation
Indices: 25017002--25017048 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
25016992 TTTACCTGAT
*
25017002 TTTTAACCCTAAAAACACCC
1 TTTTAACCATAAAAACACCC
* *
25017022 TTTTAAACATAAAAATACCC
1 TTTTAACCATAAAAACACCC
25017042 TTTTAAC
1 TTTTAAC
25017049 TTAGTCTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.32
Consensus pattern (20 bp):
TTTTAACCATAAAAACACCC
Found at i:25027508 original size:12 final size:12
Alignment explanation
Indices: 25027491--25027516 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25027481 CAATTTGTGA
25027491 CTAATTCTGATT
1 CTAATTCTGATT
25027503 CTAATTCTGATT
1 CTAATTCTGATT
25027515 CT
1 CT
25027517 GATTAGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:25036219 original size:18 final size:19
Alignment explanation
Indices: 25036186--25036226 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
25036176 AAATGAATTC
*
25036186 ATTTCTCATTTTCATTTCT
1 ATTTCTCATTTCCATTTCT
25036205 ATTTC-CATTTCCATTTCT
1 ATTTCTCATTTCCATTTCT
25036223 ATTT
1 ATTT
25036227 TGAGAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTCTCATTTCCATTTCT
Found at i:25051388 original size:39 final size:38
Alignment explanation
Indices: 25051340--25051426 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
25051330 TCTAATTGCC
* * *
25051340 ATAACTATAATAATGTTTGACCGAAAAATTACAATTACA
1 ATAATTATAATAATATTTGAACG-AAAATTACAATTACA
* * *
25051379 ATAATTATAATAATATTTGAATGTAAATTATAATTACA
1 ATAATTATAATAATATTTGAACGAAAATTACAATTACA
25051417 ATAATTATAA
1 ATAATTATAA
25051427 CAAAGATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 23 0.55
39 19 0.45
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (38 bp):
ATAATTATAATAATATTTGAACGAAAATTACAATTACA
Found at i:25056401 original size:3 final size:3
Alignment explanation
Indices: 25056393--25056417 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25056383 TAAAGAGAAA
25056393 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
25056418 ATTTTTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:25057668 original size:50 final size:53
Alignment explanation
Indices: 25057542--25057678 Score: 156
Period size: 56 Copynumber: 2.6 Consensus size: 53
25057532 CATTCGGGTA
* *
25057542 AAGAGATCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCCTTGAGATCAT
1 AAGAGGTCCCACGTAAGACCATGTCTTGGACATGGCATTGGCATCC-TGAGA--AT
*
25057598 AAGAGGTCCCATGTAAGACCATGTCTTGGACATGG-AGTTGGCA-CC-GAG-AT
1 AAGAGGTCCCACGTAAGACCATGTCTTGGACATGGCA-TTGGCATCCTGAGAAT
* * *
25057648 GAGAGGTCCCCCGTAAGACCATGTCTGGGAC
1 AAGAGGTCCCACGTAAGACCATGTCTTGGAC
25057679 CTAACATGGG
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
50 29 0.39
53 3 0.04
55 3 0.04
56 40 0.53
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (53 bp):
AAGAGGTCCCACGTAAGACCATGTCTTGGACATGGCATTGGCATCCTGAGAAT
Found at i:25062724 original size:15 final size:15
Alignment explanation
Indices: 25062704--25062733 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25062694 TTATCCAACA
25062704 TTTTATTCTTATTAT
1 TTTTATTCTTATTAT
*
25062719 TTTTATTTTTATTAT
1 TTTTATTCTTATTAT
25062734 CTCAAAGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTCTTATTAT
Found at i:25065662 original size:27 final size:27
Alignment explanation
Indices: 25065632--25065723 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
25065622 TGACCCATAA
*
25065632 CTCGTGTGAGCAGGACCAATTTCACAG
1 CTCGTGTGAGCAGGACCATTTTCACAG
*
25065659 CTCGTGTGAGCAGGCCCATTTTC-CTAG
1 CTCGTGTGAGCAGGACCATTTTCAC-AG
*
25065686 CTCGTGTGAGCA-TA-CACTTTTCACAG
1 CTCGTGTGAGCAGGACCA-TTTTCACAG
*
25065712 CTTGTGTGAGCA
1 CTCGTGTGAGCA
25065724 TATATGTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.04
26 19 0.33
27 36 0.63
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (27 bp):
CTCGTGTGAGCAGGACCATTTTCACAG
Found at i:25072473 original size:21 final size:21
Alignment explanation
Indices: 25072449--25072488 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25072439 TGAAAGAACC
* *
25072449 AGGAAGAGGGAAAAAAGGAAA
1 AGGAAAAGAGAAAAAAGGAAA
*
25072470 AGGAAAAGAGAATAAAGGA
1 AGGAAAAGAGAAAAAAGGA
25072489 GGTGAAACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (21 bp):
AGGAAAAGAGAAAAAAGGAAA
Found at i:25089339 original size:81 final size:80
Alignment explanation
Indices: 25089164--25089344 Score: 299
Period size: 81 Copynumber: 2.2 Consensus size: 80
25089154 CTCTAAGGGT
* * *
25089164 ATTACGGTCATTTTACCCTATAGGGGTATTATGGTCATTTTACCCTAAGGGGTATTACGGTCATT
1 ATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCCTAAGGGGCATTACGGTCATT
*
25089229 TTACCCTATAGGGGC
66 TTACCCTACAGGGGC
*
25089244 ATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCGTACAGGGGCATTACGGTCAT
1 ATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCCTA-AGGGGCATTACGGTCAT
25089309 TTTACCCTACAGGGGC
65 TTTACCCTACAGGGGC
*
25089325 ATTACGGTCTTTTTACCCTA
1 ATTACGGTCATTTTACCCTA
25089345 CAGGGGCGTT
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 44 0.47
81 50 0.53
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (80 bp):
ATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCCTAAGGGGCATTACGGTCATT
TTACCCTACAGGGGC
Found at i:25089344 original size:27 final size:27
Alignment explanation
Indices: 25089164--25089368 Score: 268
Period size: 27 Copynumber: 7.6 Consensus size: 27
25089154 CTCTAAGGGT
* *
25089164 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
25089191 ATTATGGTCATTTTACCCTA-AGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
25089217 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
25089244 ATTACGGTCATTTTACCCTATAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
** *
25089271 ATTATAGTCATTTTACCGTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
25089298 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
*
25089325 ATTACGGTCTTTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
25089352 GTTACGGTTATTATACC
1 ATTACGGTCATTTTACC
25089369 TATTTTAAGG
Statistics
Matches: 158, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 25 0.16
27 133 0.84
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGC
Found at i:25091664 original size:44 final size:44
Alignment explanation
Indices: 25091601--25091688 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
25091591 GATTCTTGAA
* *
25091601 GCTAACTTTAGTGTAATGGCAATACTCAATAATGAATAAAGTGG
1 GCTAACTTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
*
25091645 GCTAACTTCAGTGCAATGGCAATACTCAATAATGAGTAAAGTGG
1 GCTAACTTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
25091689 CAATGTGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (44 bp):
GCTAACTTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
Found at i:25097571 original size:18 final size:18
Alignment explanation
Indices: 25097548--25097583 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25097538 AAGAACATAA
25097548 CATACAGTCAACTATGTC
1 CATACAGTCAACTATGTC
25097566 CATACAGTCAACTATGTC
1 CATACAGTCAACTATGTC
25097584 TAGAGCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
CATACAGTCAACTATGTC
Found at i:25102551 original size:21 final size:23
Alignment explanation
Indices: 25102507--25102551 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
25102497 ACAATTTATC
*
25102507 TTAATTCTATAACAAGTATTCAA
1 TTAATTCTATAACAAGTATACAA
*
25102530 TTAATT-TATAA-ACGTATACAA
1 TTAATTCTATAACAAGTATACAA
25102551 T
1 T
25102552 ATCATAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAATTCTATAACAAGTATACAA
Found at i:25113422 original size:14 final size:12
Alignment explanation
Indices: 25113405--25113455 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 12
25113395 AAAAAATCAA
25113405 AAAAACAAAATTC
1 AAAAA-AAAATTC
25113418 GAAAAAAAAATTTC
1 -AAAAAAAAA-TTC
25113432 AAAAAAAACATTC
1 AAAAAAAA-ATTC
25113445 AAAAAAAAATT
1 AAAAAAAAATT
25113456 ATTTTCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.09
13 23 0.66
14 9 0.26
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:25113512 original size:15 final size:15
Alignment explanation
Indices: 25113492--25113530 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
25113482 GATATCAAGT
25113492 TGAAAAAAAAAATCG
1 TGAAAAAAAAAATCG
*
25113507 TG--AAAAAAAATTG
1 TGAAAAAAAAAATCG
25113520 TGAAAAAAAAA
1 TGAAAAAAAAA
25113531 GAAAAGCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.69, C:0.03, G:0.13, T:0.15
Consensus pattern (15 bp):
TGAAAAAAAAAATCG
Found at i:25113514 original size:13 final size:13
Alignment explanation
Indices: 25113496--25113529 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
25113486 TCAAGTTGAA
25113496 AAAAAAAATCGTG
1 AAAAAAAATCGTG
*
25113509 AAAAAAAATTGTG
1 AAAAAAAATCGTG
25113522 AAAAAAAA
1 AAAAAAAA
25113530 AGAAAAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.15
Consensus pattern (13 bp):
AAAAAAAATCGTG
Found at i:25125284 original size:20 final size:19
Alignment explanation
Indices: 25125261--25125303 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
25125251 ACACCCATTC
*
25125261 CATATGCATAACACACAAGT
1 CATAAGCATAACACACAA-T
* *
25125281 CATAAGCATATCATACAAT
1 CATAAGCATAACACACAAT
25125300 CATA
1 CATA
25125304 GCCACAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (19 bp):
CATAAGCATAACACACAAT
Found at i:25125894 original size:25 final size:24
Alignment explanation
Indices: 25125851--25125913 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
25125841 TCCTGTACAT
* *
25125851 GTATGCTCATATGAGCTCTGAATCG
1 GTATGCTCATACGACCTCT-AATCG
*
25125876 GTATGCTCTTACGACCTCTAATCG
1 GTATGCTCATACGACCTCTAATCG
*
25125900 GTAAGCTCATACGA
1 GTATGCTCATACGA
25125914 GCTGAGTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (24 bp):
GTATGCTCATACGACCTCTAATCG
Found at i:25125973 original size:25 final size:24
Alignment explanation
Indices: 25125896--25125982 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 24
25125886 ACGACCTCTA
*
25125896 ATCGGTAAGCTCATACGAGCTGAGT
1 ATCGGTAAGCTCATACGAGCT-AAT
* * *
25125921 AACGGTAAGCTCATGCGAGTTGAAT
1 ATCGGTAAGCTCATACGAGCT-AAT
*
25125946 ATCGGTAAGCTGATACGAGCTAACT
1 ATCGGTAAGCTCATACGAGCTAA-T
*
25125971 ATCGGCAAGCTC
1 ATCGGTAAGCTC
25125983 TCTCTCGAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 2 0.04
25 49 0.96
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (24 bp):
ATCGGTAAGCTCATACGAGCTAAT
Found at i:25140996 original size:48 final size:48
Alignment explanation
Indices: 25140917--25141013 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
25140907 AACACACTAT
* * * *
25140917 TTGTGGACAAGCTACCACATAAAGGCTGATAAACAACCACATAA-CACA
1 TTGTGGACAAGCCACAACATAAAGACCGAT-AACAACCACATAATCACA
** *
25140965 TTGTGGACAAGCCACAACATAATTACCGATAACGACCACATAATCACA
1 TTGTGGACAAGCCACAACATAAAGACCGATAACAACCACATAATCACA
25141013 T
1 T
25141014 ATAAACTGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 12 0.29
48 29 0.71
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (48 bp):
TTGTGGACAAGCCACAACATAAAGACCGATAACAACCACATAATCACA
Found at i:25143978 original size:28 final size:28
Alignment explanation
Indices: 25143939--25144110 Score: 143
Period size: 28 Copynumber: 6.1 Consensus size: 28
25143929 AATGCAACAT
* **
25143939 TTTAAAAGAGATAGCCACAGGGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
*
25143967 TTTAACAGAGATCA-CCATAAA-GCTTCC
1 TTTAACAGAGAT-AGCCACAAAGGCTTCC
* *
25143994 TTCAACAGAGATCA-CCACAAAGGGTTCC
1 TTTAACAGAGAT-AGCCACAAAGGCTTCC
* * * *
25144022 TTTTAATAGAAATAGCCACAATGGCTTCAA
1 -TTTAACAGAGATAGCCACAAAGGCTTC-C
* * * *
25144052 TTTATCAAAGATAGCAACAAAGGCTTCA
1 TTTAACAGAGATAGCCACAAAGGCTTCC
* *
25144080 TTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
25144108 TTT
1 TTT
25144111 TAGCCTTCAA
Statistics
Matches: 114, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
27 25 0.22
28 47 0.41
29 42 0.37
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (28 bp):
TTTAACAGAGATAGCCACAAAGGCTTCC
Found at i:25144000 original size:27 final size:27
Alignment explanation
Indices: 25143961--25144015 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
25143951 AGCCACAGGG
* *
25143961 GCTTCCTTTAACAGAGATCACCATAAA
1 GCTTCCTTCAACAGAGATCACCACAAA
25143988 GCTTCCTTCAACAGAGATCACCACAAA
1 GCTTCCTTCAACAGAGATCACCACAAA
25144015 G
1 G
25144016 GGTTCCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.22
Consensus pattern (27 bp):
GCTTCCTTCAACAGAGATCACCACAAA
Found at i:25144042 original size:29 final size:29
Alignment explanation
Indices: 25144008--25144112 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 29
25143998 ACAGAGATCA
* *
25144008 CCACAAAGGGTTCCTTTTAATAGAAATAG
1 CCACAAAGGCTTCCATTTAATAGAAATAG
* *
25144037 CCACAATGGCTTCAATTT-ATCA-AAGATAG
1 CCACAAAGGCTTCCATTTAAT-AGAA-ATAG
* * *
25144066 CAACAAAGGCTT-CATTTAAAAGAGATAG
1 CCACAAAGGCTTCCATTTAATAGAAATAG
* *
25144094 TCACAAAGGCTTCCTTTTA
1 CCACAAAGGCTTCCATTTA
25144113 GCCTTCAATA
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
28 23 0.39
29 36 0.61
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (29 bp):
CCACAAAGGCTTCCATTTAATAGAAATAG
Found at i:25145225 original size:16 final size:16
Alignment explanation
Indices: 25145204--25145236 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25145194 TTCGCTGTAT
25145204 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
25145220 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
25145236 T
1 T
25145237 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:25161431 original size:124 final size:123
Alignment explanation
Indices: 25161198--25161438 Score: 410
Period size: 124 Copynumber: 2.0 Consensus size: 123
25161188 CTGTGTACTG
* *
25161198 GGCCTGTGAAAAATATTAAGCATTCTTTTTTTGATTTTAATGATGTAGGGGAACACGGCCAGATC
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGTAGGGGAACACAGCCAGATC
*
25161263 ACACGCCTATGTGCTAGGTCGTGTGTCACACACGGTTGAAACACAAGCCCGTATGTCA
66 ACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGAAACACAAGCCCGTATGTCA
* *
25161321 GGCCTGTGAAAAATATTAGGCATTCTTTTTTGGATTTTAATGATGTAGGGGACACACAGCTAGAT
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGTAGGGGA-ACACAGCCAGAT
* *
25161386 CACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGAGACACACGCCCGT
65 CACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGAAACACAAGCCCGT
25161439 TTCTCTACCC
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
123 50 0.45
124 60 0.55
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (123 bp):
GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGTAGGGGAACACAGCCAGATC
ACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGAAACACAAGCCCGTATGTCA
Found at i:25162507 original size:25 final size:23
Alignment explanation
Indices: 25162479--25162558 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 23
25162469 GAAGCTTCAG
25162479 AGAGCCACTAATCAGGAAGCTCATA
1 AGAGCCA-TAATC-GGAAGCTCATA
*
25162504 AGAGCCAGTTATCGAGAAGCTCCA-A
1 AGAGCCA-TAATCG-GAAGCT-CATA
* *
25162529 AGAGCCATATATCGGGATGCTTATA
1 AGAGCCATA-ATC-GGAAGCTCATA
25162554 AGAGC
1 AGAGC
25162559 TGCAGTGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
24 3 0.07
25 39 0.87
26 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (23 bp):
AGAGCCATAATCGGAAGCTCATA
Found at i:25162637 original size:24 final size:24
Alignment explanation
Indices: 25162610--25162674 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 24
25162600 AATGCTCCGA
*
25162610 AGAGCTATTAATGGGAAGCTCGTG
1 AGAGCTATTAATGGGAAGCTCATG
* * * *
25162634 AGAGCCAAATATTGGGATGCTCATG
1 AGAG-CTATTAATGGGAAGCTCATG
*
25162659 AGAGCTATTAACGGGA
1 AGAGCTATTAATGGGA
25162675 CACTCTTTCG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.23
Consensus pattern (24 bp):
AGAGCTATTAATGGGAAGCTCATG
Found at i:25167587 original size:15 final size:16
Alignment explanation
Indices: 25167567--25167596 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25167557 AATAACCTAA
25167567 TTTTTTTA-AAATAAT
1 TTTTTTTACAAATAAT
25167582 TTTTTTTACAAATAA
1 TTTTTTTACAAATAA
25167597 CACAATTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTTTACAAATAAT
Found at i:25168343 original size:21 final size:19
Alignment explanation
Indices: 25168309--25168364 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
25168299 GCTAAATATT
**
25168309 ATAAAAATAATATATTGATTA
1 ATAAAAATGTTATATT-A-TA
25168330 ATAAAAATGTTATAATTATA
1 ATAAAAATGTTAT-ATTATA
*
25168350 A-AAATATGTTATATT
1 ATAAAAATGTTATATT
25168365 TTTTTATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAAAAATGTTATATTATA
Found at i:25170617 original size:17 final size:17
Alignment explanation
Indices: 25170595--25170629 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25170585 CACTGTTGAA
25170595 TTTGTGAGAATGATAGT
1 TTTGTGAGAATGATAGT
*
25170612 TTTGTGAGCATGATAGT
1 TTTGTGAGAATGATAGT
25170629 T
1 T
25170630 AAATAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.43
Consensus pattern (17 bp):
TTTGTGAGAATGATAGT
Found at i:25173043 original size:22 final size:22
Alignment explanation
Indices: 25173015--25173060 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
25173005 ATGGAAATGT
25173015 ATATGTTACGTGGAAATATGAC
1 ATATGTTACGTGGAAATATGAC
*
25173037 ATATGTTATGTGGAAATATGAC
1 ATATGTTACGTGGAAATATGAC
25173059 AT
1 AT
25173061 GGAAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (22 bp):
ATATGTTACGTGGAAATATGAC
Found at i:25177775 original size:31 final size:32
Alignment explanation
Indices: 25177712--25177776 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
25177702 GGCAAATTAC
*
25177712 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTATTTA
25177744 AAGAGTAATTGAATCCTAAT-AAAACTATTTA
1 AAGAGTAATTGAATCCTAATAAAAACTATTTA
25177775 AA
1 AA
25177777 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTATTTA
Found at i:25184054 original size:31 final size:32
Alignment explanation
Indices: 25183995--25184059 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
25183985 GACAAATTAC
25183995 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
25184027 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
25184058 AA
1 AA
25184060 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:25191709 original size:18 final size:19
Alignment explanation
Indices: 25191663--25191709 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
25191653 TATTCTAATT
* **
25191663 TTAATCATTTAAAAAATTTG
1 TTAA-CATTAAAAAAATTAA
25191683 TTAACATTAAAAAAATTAA
1 TTAACATTAAAAAAATTAA
25191702 TTAA-ATTA
1 TTAACATTA
25191710 TTCACTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAACATTAAAAAAATTAA
Found at i:25194598 original size:2 final size:2
Alignment explanation
Indices: 25194586--25194623 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
25194576 TTCACTATAA
25194586 TC TC T- TC TC TC TC 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 TC TC TC TC TC TC TC T
25194624 TTAACTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:25201481 original size:11 final size:11
Alignment explanation
Indices: 25201465--25201494 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25201455 GTATAAATGA
*
25201465 ATAATTTCTCG
1 ATAATTTCCCG
25201476 ATAATTTCCCG
1 ATAATTTCCCG
25201487 ATAATTTC
1 ATAATTTC
25201495 AATATGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (11 bp):
ATAATTTCCCG
Found at i:25206283 original size:34 final size:34
Alignment explanation
Indices: 25206245--25206313 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
25206235 ATTGAATCGC
25206245 ATGTTTTGATTAAAAGTCAAAAATAGAGTCATAG
1 ATGTTTTGATTAAAAGTCAAAAATAGAGTCATAG
25206279 ATGTTTTGATTAAAAGTCAAAAATAGAGTCATAG
1 ATGTTTTGATTAAAAGTCAAAAATAGAGTCATAG
25206313 A
1 A
25206314 GTCATTAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (34 bp):
ATGTTTTGATTAAAAGTCAAAAATAGAGTCATAG
Found at i:25216333 original size:29 final size:28
Alignment explanation
Indices: 25216304--25216504 Score: 177
Period size: 29 Copynumber: 6.9 Consensus size: 28
25216294 GAGTATGAAC
* *
25216304 TATGAAAAGGGATGGTCACAACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
*
25216332 CTATGAAAAAGGATGGTGACGACCATCAA
1 -TATGAAAAGGGATGGTGACGACCATCAA
* ** *
25216361 CTATGAAAAGCGATGGTTTCGACCATCGA
1 -TATGAAAAGGGATGGTGACGACCATCAA
** * *
25216390 TATGAAAAGGGATGGTTTCGACCCTTGAA
1 TATGAAAAGGGATGGTGACGA-CCATCAA
*
25216419 TATGAAAAGGGATGGTGATGACCATCGAA
1 TATGAAAAGGGATGGTGACGACCATC-AA
** * *
25216448 TATGGAAAAGGGATGGTTTCGACCATTGAT
1 TAT-GAAAAGGGATGGTGACGACCA-TCAA
* *
25216478 TAAAGAAAAGGGATGGTTACGACCATC
1 T-ATGAAAAGGGATGGTGACGACCATC
25216505 GTTTGACAAG
Statistics
Matches: 142, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.16
29 77 0.54
30 40 0.28
31 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.22
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:25220118 original size:29 final size:30
Alignment explanation
Indices: 25220050--25220118 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
25220040 ATCGACCAAT
* *
25220050 GAAAAGGGATAGCTTCGTCTATTGAATTAT
1 GAAAAGGGATAGCTTCGTCTATCGAATTAA
* *
25220080 GAAAAAGGATAGCTTTGGT-TATCG-ATTAA
1 GAAAAGGGATAGC-TTCGTCTATCGAATTAA
25220109 GAAAAGGGAT
1 GAAAAGGGAT
25220119 GGTGACGACC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 13 0.39
30 16 0.48
31 4 0.12
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (30 bp):
GAAAAGGGATAGCTTCGTCTATCGAATTAA
Found at i:25220141 original size:29 final size:29
Alignment explanation
Indices: 25220109--25220206 Score: 144
Period size: 29 Copynumber: 3.3 Consensus size: 29
25220099 TATCGATTAA
25220109 GAAAAGGGATGGTGACGACCATCAATAAT
1 GAAAAGGGATGGTGACGACCATCAATAAT
*
25220138 GAAAAGGGATGGTGACGACCATGAATAAT
1 GAAAAGGGATGGTGACGACCATCAATAAT
*
25220167 GAAAAGGTATGGTGACGACCATCGAA-ATAT
1 GAAAAGGGATGGTGACGACCATC-AATA-AT
*
25220197 GAAAAAGGAT
1 GAAAAGGGAT
25220207 AGCTTCAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
29 50 0.81
30 12 0.19
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATCAATAAT
Found at i:25220201 original size:30 final size:30
Alignment explanation
Indices: 25220100--25220415 Score: 165
Period size: 30 Copynumber: 10.7 Consensus size: 30
25220090 AGCTTTGGTT
*
25220100 ATCGATTAA-GAAAAGGGATGGTGACGACC
1 ATCGAATAATGAAAAGGGATGGTGACGACC
25220129 ATC-AATAATGAAAAGGGATGGTGACGACC
1 ATCGAATAATGAAAAGGGATGGTGACGACC
*
25220158 AT-GAATAATGAAAAGGTATGGTGACGACC
1 ATCGAATAATGAAAAGGGATGGTGACGACC
* * * * **
25220187 ATCGAA-ATATGAAAAAGGATAGCT-TCAATT
1 ATCGAATA-ATGAAAAGGGAT-GGTGACGACC
* * ** * * *
25220217 ATTGAA-ATATGGAAACAGATAGCT-TC-AGCT
1 ATCGAATA-ATGAAAAGGGAT-GGTGACGA-CC
* * * *
25220247 ATCGAA-ATATGAAAAGGGATTGCT-TCGGCT
1 ATCGAATA-ATGAAAAGGGA-TGGTGACGACC
*
25220277 ATCGAATTATGAACAA-GGATGGTGACGACC
1 ATCGAATAATGAA-AAGGGATGGTGACGACC
*
25220307 ATC-AACAATGAAAAGGGATGGTGACGACC
1 ATCGAATAATGAAAAGGGATGGTGACGACC
* * * * ** *
25220336 ATAGAATTATGAAACGGGATAGCT-TTGACT
1 ATCGAATAATGAAAAGGGAT-GGTGACGACC
*
25220366 ATC-AGATAATGAAAAGGGATGGTGACGACT
1 ATCGA-ATAATGAAAAGGGATGGTGACGACC
* *
25220396 ATCGAATTATGAGAAGGGAT
1 ATCGAATAATGAAAAGGGAT
25220416 AGCTTCGGCT
Statistics
Matches: 228, Mismatches: 42, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
28 6 0.03
29 83 0.36
30 131 0.57
31 8 0.04
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (30 bp):
ATCGAATAATGAAAAGGGATGGTGACGACC
Found at i:25220407 original size:149 final size:149
Alignment explanation
Indices: 25220136--25220457 Score: 364
Period size: 149 Copynumber: 2.2 Consensus size: 149
25220126 ACCATCAATA
* * * *
25220136 ATGAAAAGGGATGGTGACGACCATGAATAATGAAAAGGTATGGTGACGACCATCGAAATATGAAA
1 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATAGAAATATGAAA
* * * *
25220201 AAGGATAGCTTCAATTATTGAAATATGGAAACAGATAGCTTCAGCTATCGAAATATGAAAAGGGA
66 AAGGATAGCTTCAACTATAGAAATATGAAAACAGATAGCTACAGCTATCGAAATATGAAAAGGGA
* *
25220266 TTGCTTCGGCTATCGAATT
131 TAGCTTCGGCTATCGAACT
*
25220285 ATGAACAA-GGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATAGAATTATGAA
1 ATGAA-AAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATAGAAATATGAA
** ** * ** * * *
25220349 ACGGGATAGCTTTGACTATCAGATA-ATGAAAAGGGAT-GGTGAC-GACTATCGAATTATGAGAA
65 AAAGGATAGCTTCAACTAT-AGAAATATGAAAACAGATAGCT-ACAG-CTATCGAAATATGAAAA
25220411 GGGATAGCTTCGGCTATCGAACT
127 GGGATAGCTTCGGCTATCGAACT
* * *
25220434 AGGAAAAGGGATGGTTACAACCAT
1 ATGAAAAGGGATGGTGACGACCAT
25220458 TGGGATTCCA
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
148 5 0.03
149 134 0.93
150 5 0.03
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (149 bp):
ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATAGAAATATGAAA
AAGGATAGCTTCAACTATAGAAATATGAAAACAGATAGCTACAGCTATCGAAATATGAAAAGGGA
TAGCTTCGGCTATCGAACT
Found at i:25220428 original size:60 final size:60
Alignment explanation
Indices: 25220313--25220428 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
25220303 GACCATCAAC
*
25220313 AATGAAAAGGGATGGTGACGACCATAGAATTATGAAACGGGATAGCTTTGACTATCAGAT
1 AATGAAAAGGGATGGTGACGACCATAGAATTATGAAACGGGATAGCTTCGACTATCAGAT
* * *
25220373 AATGAAAAGGGATGGTGACGACTATCGAATTATGAGAA-GGGATAGCTTCGGCTATC
1 AATGAAAAGGGATGGTGACGACCATAGAATTATGA-AACGGGATAGCTTCGACTATC
25220429 GAACTAGGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.23
Consensus pattern (60 bp):
AATGAAAAGGGATGGTGACGACCATAGAATTATGAAACGGGATAGCTTCGACTATCAGAT
Found at i:25220440 original size:60 final size:60
Alignment explanation
Indices: 25220316--25220457 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 60
25220306 CATCAACAAT
* *
25220316 GAAAAGGGATGGTGACGACCATAGAATTATGAAACGGGATAGCTTTGACTATCAGATAAT
1 GAAAAGGGATGGTGACGACCATAGAATTATGAAACGGGATAGCTTCGACTATCAGATAAG
* * *
25220376 GAAAAGGGATGGTGACGACTATCGAATTATGAGAA-GGGATAGCTTCGGCTATC-GA-ACTAG
1 GAAAAGGGATGGTGACGACCATAGAATTATGA-AACGGGATAGCTTCGACTATCAGATA--AG
* *
25220436 GAAAAGGGATGGTTACAACCAT
1 GAAAAGGGATGGTGACGACCAT
25220458 TGGGATTCCA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 1 0.01
59 2 0.03
60 66 0.93
61 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (60 bp):
GAAAAGGGATGGTGACGACCATAGAATTATGAAACGGGATAGCTTCGACTATCAGATAAG
Found at i:25221819 original size:50 final size:49
Alignment explanation
Indices: 25221765--25221869 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 49
25221755 TATTGAGGTT
* *
25221765 ATGAGTGGTC-CCACGTAAGACCATGCCTGGGACATGGAATTGGCACCGAG
1 ATGAGAGGTCTCC-CGTAAGACCATGCATGGGACATGGAA-TGGCACCGAG
* * * *
25221815 ATGAGAGGTCTCCCGTAAGACCATGTATGGGACATGGCATGGGACCGAT
1 ATGAGAGGTCTCCCGTAAGACCATGCATGGGACATGGAATGGCACCGAG
25221864 ATGAGA
1 ATGAGA
25221870 ACTCCTATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 14 0.29
50 32 0.67
51 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (49 bp):
ATGAGAGGTCTCCCGTAAGACCATGCATGGGACATGGAATGGCACCGAG
Done.