Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 287 of 425
Found at i:89002020 original size:11 final size:11
Alignment explanation
Indices: 89001989--89002044 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
89001979 TTATGAATAC
89001989 ATCATGTGCAT
1 ATCATGTGCAT
*
89002000 ATCA--TACAT
1 ATCATGTGCAT
89002009 ATCATGTGCAT
1 ATCATGTGCAT
*
89002020 ATCA--TACAT
1 ATCATGTGCAT
89002029 ATCATGTGCAT
1 ATCATGTGCAT
89002040 ATCAT
1 ATCAT
89002045 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:89002061 original size:9 final size:10
Alignment explanation
Indices: 89001989--89002061 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
89001979 TTATGAATAC
89001989 ATCATGTGCAT
1 ATCATGT-CAT
*
89002000 ATCAT-ACAT
1 ATCATGTCAT
89002009 ATCATGTGCAT
1 ATCATGT-CAT
*
89002020 ATCAT-ACAT
1 ATCATGTCAT
89002029 ATCATGTGCAT
1 ATCATGT-CAT
*
89002040 ATCATATCA-
1 ATCATGTCAT
89002049 ATCATGT-AT
1 ATCATGTCAT
89002058 ATCA
1 ATCA
89002062 AAATCCCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:89010015 original size:26 final size:26
Alignment explanation
Indices: 89009974--89010046 Score: 123
Period size: 25 Copynumber: 2.9 Consensus size: 26
89009964 CCTCTTTTAA
*
89009974 TAAA-TGGGGCAAAAGCCCTTTTCGG
1 TAAACTGGGGCATAAGCCCTTTTCGG
89009999 TAAACTGGGGCATAAG-CCTTTTCGG
1 TAAACTGGGGCATAAGCCCTTTTCGG
89010024 TAAACTGGGGCATAAGCCCTTTT
1 TAAACTGGGGCATAAGCCCTTTT
89010047 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
25 29 0.64
26 16 0.36
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (26 bp):
TAAACTGGGGCATAAGCCCTTTTCGG
Found at i:89010121 original size:20 final size:20
Alignment explanation
Indices: 89010096--89010142 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
89010086 TTATGAATAC
89010096 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
89010115 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
89010136 ATCATGT
1 ATCATGT
89010143 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:89017624 original size:28 final size:29
Alignment explanation
Indices: 89017584--89017655 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
89017574 AAAATTGTAC
*
89017584 AGCACTAAGTGTGCGAGCTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
89017612 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
89017641 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89017656 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 19 0.46
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:89025555 original size:28 final size:28
Alignment explanation
Indices: 89025486--89025586 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
89025476 GACAAGATTG
* * * *
89025486 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
89025516 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
89025544 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
89025573 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89025587 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:89030273 original size:26 final size:27
Alignment explanation
Indices: 89030217--89030274 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
89030207 CAAAATAGTC
* * *
89030217 ATTTTACCCTACAGGGGTATGTCAATC
1 ATTTTACACTACAGAGGTATGTCAATA
* *
89030244 ATTTTACACTACA-AGGTATTTCGATA
1 ATTTTACACTACAGAGGTATGTCAATA
89030270 ATTTT
1 ATTTT
89030275 GCAAATCAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAGAGGTATGTCAATA
Found at i:89030293 original size:27 final size:26
Alignment explanation
Indices: 89030258--89030807 Score: 386
Period size: 27 Copynumber: 20.6 Consensus size: 26
89030248 TACACTACAA
*
89030258 GGTATTTCGATAATTTTGCAAATCAG
1 GGTATTTCGATAATTTTACAAATCAG
* * *
89030284 TGGTGTTTCGATAATTTTAAAAATCGAA
1 -GGTATTTCGATAATTTTACAAATC-AG
89030312 GGTATTTC-AGTAATTTTACAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
* *
89030339 GGTATTT-TAGTAATTTCAC-AATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
* * **
89030365 GGTATTTTGGTAATTTTACAAATTGG
1 GGTATTTCGATAATTTTACAAATCAG
*
89030391 AGGTATTTCGATAATTTTACAAACTGAG
1 -GGTATTTCGATAATTTTACAAA-TCAG
* *
89030419 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATC-AG
* * *
89030446 GGTGTTTTGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATC-AG
* * * *
89030473 GGTGTTGCGGTAATTTCACAAATCA-
1 GGTATTTCGATAATTTTACAAATCAG
* *
89030498 GGTATTTCGGTAATTTTACAAATCGAA
1 GGTATTTCGATAATTTTACAAATC-AG
*
89030525 GGTATTTC-AGTAATTTCA-AAATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
*
89030551 GGTATTTCAATAATTTTACAAATCAAG
1 GGTATTTCGATAATTTTACAAATC-AG
* * *
89030578 GGTGTTTC-ATTAATTTCACAAATTGAG
1 GGTATTTCGA-TAATTTTACAAA-TCAG
* * * *
89030605 GGTGTTTCGGTAATTTTACAAATTGAA
1 GGTATTTCGATAATTTTACAAA-TCAG
* *
89030632 GGTGTTTC-AGTAATTTCACAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
*
89030659 GGTATTTC-AGTAATTTTACAAATTGAG
1 GGTATTTCGA-TAATTTTACAAA-TCAG
* *
89030686 GGTATTT-TAGTAATTTCAC-AATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
* * *
89030712 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCGATAATTTTACAAA-TCAG
* * *
89030739 GGTATTTC-AGTAATTTCACAATTGAG
1 GGTATTTCGA-TAATTTTACAAATCAG
*
89030765 GGTATTTCAATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATC-AG
*
89030792 GGTGTTTCGATAATTT
1 GGTATTTCGATAATTT
89030808 CTCTTTATTA
Statistics
Matches: 436, Mismatches: 60, Indels: 54
0.79 0.11 0.10
Matches are distributed among these distances:
25 22 0.05
26 93 0.21
27 315 0.72
28 6 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCGATAATTTTACAAATCAG
Found at i:89030326 original size:54 final size:54
Alignment explanation
Indices: 89030258--89030807 Score: 559
Period size: 54 Copynumber: 10.3 Consensus size: 54
89030248 TACACTACAA
* * * *
89030258 GGTATTTC-GATAATTTTGCAAATC-AGTGGTGTTTCGATAATTTTAAAAATCGAA
1 GGTATTTCAG-TAATTTTACAAATCGAG-GGTATTTCGATAATTTTACAAATCGAG
* *
89030312 GGTATTTCAGTAATTTTACAAATCGAGGGTATTT-TAGTAATTTCAC-AATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAG
** *
89030365 GGTATTTTGGTAATTTTACAAATTG-GAGGTATTTCGATAATTTTACAAA-CTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG-GGTATTTCGATAATTTTACAAATC-GAG
* * * * *
89030419 GGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
* * * * * *
89030473 GGTGTTGCGGTAATTTCACAAATC-A-GGTATTTCGGTAATTTTACAAATCGAA
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
* * *
89030525 GGTATTTCAGTAATTTCA-AAATCGAGGGTATTTCAATAATTTTACAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
* * * * * * * *
89030578 GGTGTTTCATTAATTTCACAAATTGAGGGTGTTTCGGTAATTTTACAAATTGAA
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
* * *
89030632 GGTGTTTCAGTAATTTCACAAATCGAGGGTATTTC-AGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAG
* * * * *
89030686 GGTATTTTAGTAATTTCAC-AATCGAGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
* * *
89030739 GGTATTTCAGTAATTTCAC-AATTGAGGGTATTTCAATAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
*
89030792 GGTGTTTC-GATAATTT
1 GGTATTTCAG-TAATTT
89030808 CTCTTTATTA
Statistics
Matches: 427, Mismatches: 54, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
51 5 0.01
52 42 0.10
53 176 0.41
54 199 0.47
55 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAG
Found at i:89030379 original size:53 final size:54
Alignment explanation
Indices: 89030295--89030808 Score: 580
Period size: 53 Copynumber: 9.6 Consensus size: 54
89030285 GGTGTTTCGA
* * * *
89030295 TAATTTTAAAAATCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* ** * *
89030349 TAATTTCAC-AATCGAGGGTATTTTGGTAATTTTACAAATTG-GAGGTATTTC-G
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAG-GGTATTTCAG
* * * * **
89030401 ATAATTTTACAAA-CTGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTTGG
1 -TAATTTTACAAATC-GAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* * * *
89030456 TAATTTTACAAATCGAGGGTGTTGCGGTAATTTCACAAATC-A-GGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* *
89030508 TAATTTTACAAATCGAAGGTATTTCAGTAATTTCA-AAATCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* * * * * *
89030561 TAATTTTACAAATCAAGGGTGTTTCATTAATTTCACAAATTGAGGGTGTTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* * *
89030615 TAATTTTACAAATTGAAGGTGTTTCAGTAATTTCACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* * **
89030669 TAATTTTACAAATTGAGGGTATTTTAGTAATTTCAC-AATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
* * *
89030722 TAATTTTACAAATTGAGGGTATTTCAGTAATTTCAC-AATTGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
*
89030775 TAATTTTACAAATCGAGGGTGTTTC-GATAATTTC
1 TAATTTTACAAATCGAGGGTATTTCAG-TAATTTC
89030809 TCTTTATTAT
Statistics
Matches: 399, Mismatches: 50, Indels: 23
0.85 0.11 0.05
Matches are distributed among these distances:
51 5 0.01
52 43 0.11
53 177 0.44
54 171 0.43
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAG
Found at i:89031161 original size:28 final size:28
Alignment explanation
Indices: 89031124--89031187 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
89031114 TGGCCCCTTT
* * *
89031124 AGGCCCAATCTCGTTCACATGGCCTATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
89031152 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
89031180 AGGCCCAA
1 AGGCCCAA
89031188 CTATTTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:89032246 original size:46 final size:45
Alignment explanation
Indices: 89032198--89032364 Score: 192
Period size: 46 Copynumber: 3.6 Consensus size: 45
89032188 TTTGTAGTCG
* *
89032198 ATGCATGTCCCGGACATGTCTTACACTGGCTTACATCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCA
* * * *
89032244 ATGCATGTCCCAGACATGTCTTACACTAGCATTCGTCTCAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCA
* *
89032290 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCA
*
89032338 ATGCATGTCCCAAACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
89032365 AGTTCACAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 50 0.49
47 30 0.29
48 22 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCA
Found at i:89034220 original size:56 final size:55
Alignment explanation
Indices: 89034108--89034258 Score: 216
Period size: 56 Copynumber: 2.7 Consensus size: 55
89034098 TTTGGAGTTC
* * * *
89034108 GCATCGATATGTGATTCCGATATG-GTGTACGAGCAAGACCACGTTTAATACGTTG
1 GCATCAATATGTGATTC-GATATGTGTGTTCGAGTAAGACCACGTTTAATACATTG
89034163 GCATCAATATGTGATTCTGATATGTGTGTTCGAGTAAGACCACGTTTAATACATTG
1 GCATCAATATGTGATTC-GATATGTGTGTTCGAGTAAGACCACGTTTAATACATTG
*
89034219 GCATCAATATGTGATTCCATATGTGT-TTACGAGTAAGACC
1 GCATCAATATGTGATTCGATATGTGTGTT-CGAGTAAGACC
89034259 CTGTTTGGGA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 2 0.02
55 41 0.47
56 45 0.51
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (55 bp):
GCATCAATATGTGATTCGATATGTGTGTTCGAGTAAGACCACGTTTAATACATTG
Found at i:89035509 original size:2 final size:2
Alignment explanation
Indices: 89035502--89035535 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
89035492 TGTTGGTTTG
*
89035502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89035536 GTGCTTATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:89042373 original size:40 final size:39
Alignment explanation
Indices: 89042282--89042392 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
89042272 ATAACCACGT
* *
89042282 GCACAAATGCCTTTGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
89042322 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
89042362 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
89042393 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 57 0.92
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:89051878 original size:20 final size:20
Alignment explanation
Indices: 89051850--89051890 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
89051840 CGGGTCTATA
*
89051850 ATCGGTACGAAGCCTACAAT
1 ATCGATACGAAGCCTACAAT
*
89051870 ATCGATACGAATCCTACAAT
1 ATCGATACGAAGCCTACAAT
89051890 A
1 A
89051891 ACGGCATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (20 bp):
ATCGATACGAAGCCTACAAT
Found at i:89051912 original size:98 final size:98
Alignment explanation
Indices: 89051738--89051968 Score: 363
Period size: 98 Copynumber: 2.4 Consensus size: 98
89051728 AAAGCCATCA
** *
89051738 ATAACGGGTCTATAATCAAAACGAAGCCTACAATATCGATATGAAGCCCACAATAACGGCACACA
1 ATAACGGGTCTATAATCGGAACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACACA
* *
89051803 GCCTTCGGTAACATGATCGGCACTCAACCATTT
66 GCCTTCAGTAACATGATCGGCACTCAACCATTG
* * * *
89051836 ATAACGGGTCTATAATCGGTACGAAGCCTACAATATCGATACGAATCCTACAATAACGGCATACA
1 ATAACGGGTCTATAATCGGAACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACACA
*
89051901 GCCTTCAGTAACATGATCGGCACTCAGCCATTG
66 GCCTTCAGTAACATGATCGGCACTCAACCATTG
*
89051934 ATAACGGGTCTATAATCGGCACGAAGCCTACAATA
1 ATAACGGGTCTATAATCGGAACGAAGCCTACAATA
89051969 ACGGCACCCA
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 122 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (98 bp):
ATAACGGGTCTATAATCGGAACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACACA
GCCTTCAGTAACATGATCGGCACTCAACCATTG
Found at i:89052058 original size:27 final size:26
Alignment explanation
Indices: 89052019--89052101 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
89052009 TCGATCGATC
* *
89052019 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
89052045 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
89052072 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
89052099 AAC
1 AAC
89052102 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:89052355 original size:27 final size:27
Alignment explanation
Indices: 89052325--89052593 Score: 308
Period size: 27 Copynumber: 10.0 Consensus size: 27
89052315 GGTACCATTT
* * *
89052325 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* *
89052352 TACCTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* *
89052379 TACCCTATAAGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* * *
89052406 TACCTTACAGGGGTATTTCAGTAATTT
1 TACCCTACAAGGGTATTTCAGTAATTC
*
89052433 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* * *
89052460 TACTCTACAGGGGTATTTC-GATATTTC
1 TACCCTACAAGGGTATTTCAG-TAATTC
*
89052487 TACCCTACAAGGGTATTTCAATAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* * *
89052514 TACCTTACAAAGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* *
89052541 TACCCTA-TAGTGGTATTTTAGTAATTC
1 TACCCTACAAG-GGTATTTCAGTAATTC
* *
89052568 TACCTTACAAGGGTATTTCAATAATT
1 TACCCTACAAGGGTATTTCAGTAATT
89052594 TTACAAATCG
Statistics
Matches: 203, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 199 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCAGTAATTC
Found at i:89052474 original size:81 final size:81
Alignment explanation
Indices: 89052331--89052593 Score: 355
Period size: 81 Copynumber: 3.2 Consensus size: 81
89052321 ATTTTACCCC
* ** *
89052331 ACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATT
1 ACAAGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
89052396 TCGGTAATTCTACCTT
66 TCGGTAATTCTACCTT
* * * * * *
89052412 ACAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCAGTAATTCTACTCTACAGGGGTATT
1 ACAAGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
* * *
89052477 TCGATATTTCTACCCT
66 TCGGTAATTCTACCTT
** * *
89052493 ACAAGGGTATTTCAATAATTCTACCTTACAAAGGTATTTCGGTAATTCTACCCTATAGTGGTATT
1 ACAAGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
**
89052558 TTAGTAATTCTACCTT
66 TCGGTAATTCTACCTT
89052574 ACAAGGGTATTTCAATAATT
1 ACAAGGGTATTTCAATAATT
89052594 TTACAAATCG
Statistics
Matches: 156, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 156 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (81 bp):
ACAAGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
TCGGTAATTCTACCTT
Found at i:89052607 original size:27 final size:27
Alignment explanation
Indices: 89052577--89053372 Score: 788
Period size: 27 Copynumber: 29.7 Consensus size: 27
89052567 CTACCTTACA
*
89052577 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
89052604 AGGGTATTCCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
89052631 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
89052658 AGGGTATTTTAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
89052684 ATAGTATTTCGGTAATTTTATAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* * * *
89052711 GGGGTACTTT-GGTAATATTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
89052738 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
89052765 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* **
89052792 AGGATATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
89052819 AGGGTATTTCAATAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
89052845 ATGGTATTTCGGTAATTTTATAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
89052872 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
89052899 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
89052926 AGGGTATTTTAGTAATTTTATAAA-CG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
89052952 ACGATATTTC-GATAATTTTATAAA-CC
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
89052978 AGGGGTACTTT-GGTAATTTTACAAGTCG
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
*
89053006 AGGGTATTTCAGTAATTTTACAAATCT
1 AGGGTATTTCAGTAATTTTACAAATCG
*
89053033 AGGGTATTTCAGTAATTTTATAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* *
89053060 AGGGTATTT-TGATAATTTTACAAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
89053087 AGGGTATTTCAGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
89053114 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* *
89053141 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
89053168 AGGGTATTTTAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
89053194 ACGATATTTCAGTAATTTTATAAA-CT
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
89053220 AGGGGTACTTT-GGTAATTTTACAAGTCG
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
*
89053248 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
89053275 AGGGTATTTTAGTAATTTTA-TAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
89053301 ACGGTATTTCGGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
89053328 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
*
89053354 -GGGTATTTCAATAATTTTA
1 AGGGTATTTCAGTAATTTTA
89053373 GTAAACTAAA
Statistics
Matches: 636, Mismatches: 101, Indels: 66
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.00
25 14 0.02
26 130 0.20
27 465 0.73
28 24 0.04
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:89052610 original size:54 final size:54
Alignment explanation
Indices: 89052334--89053372 Score: 535
Period size: 54 Copynumber: 19.4 Consensus size: 54
89052324 TTACCCCACA
* * * * * ** *
89052334 AGGGTATCTCGGTAATTCTACCTTAC-AGGGGTATTTCAGTAATTCTACCCTAT-A
1 AGGGTATTTCAGTAATTTTACCTTACGA-GGGTATTTCGGTAATTTTA-CAAATCG
* * * **
89052388 AGGGTATTTCGGTAATTCTACCTTAC-AGGGGTATTTCAGTAATTTTAC-CCTAC-
1 AGGGTATTTCAGTAATTTTACCTTACGA-GGGTATTTCGGTAATTTTACAAAT-CG
* * ** *
89052441 AGGGGTATTTCAGTAATTCTA-CTCTAC-AGGGGTATTTCGAT-ATTTCTAC-CCTACA
1 A-GGGTATTTCAGTAATTTTACCT-TACGA-GGGTATTTCGGTAATTT-TACAAAT-CG
* * * * * **
89052496 AGGGTATTTCAATAATTCTACCTTACAAAGGTATTTCGGTAATTCTACCCTAT--
1 AGGGTATTTCAGTAATTTTACCTTACGAGGGTATTTCGGTAATTTTA-CAAATCG
* * * **
89052549 AGTGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCAATAATTTTACAAATCG
1 AG-GGTATTTCAGTAATTTTACCTTACGAGGGTATTTCGGTAATTTTACAAATCG
* * **
89052604 AGGGTATTCCAGTAATTTT-GCAAACTGAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACCTTAC-GAGGGTATTTCGGTAATTTTACAAATCG
* ** ** *
89052658 AGGGTATTTTAGTAATTTTACAAT-CGATAGTATTTCGGTAATTTTATAAA-CTG
1 AGGGTATTTCAGTAATTTTACCTTACGAGGGTATTTCGGTAATTTTACAAATC-G
* * * ** *
89052711 GGGGTACTTT-GGTAATATTACAAGT-CGAGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTA-TTTCAGTAATTTTAC-CTTACGAGGGTATTTCGGTAATTTTACAAATCG
* ** * *
89052765 AGGGTATTTCAGTAATTTT-GCAAACTGAGGATATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACCTTAC-GAGGGTATTTCGGTAATTTTACAAATCG
* ** * * *
89052819 AGGGTATTTCAATAATTTTACAAT-CGATGGTATTTCGGTAATTTTATAAATTG
1 AGGGTATTTCAGTAATTTTACCTTACGAGGGTATTTCGGTAATTTTACAAATCG
* * ** *
89052872 GGGGTACTTT-GGTAATTTTACAAGT-CGAGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTA-TTTCAGTAATTTTAC-CTTACGAGGGTATTTCGGTAATTTTACAAATCG
* * * * * * *
89052926 AGGGTATTTTAGTAATTTTA--TAAACGACGATATTTCGATAATTTTATAAA-CC
1 AGGGTATTTCAGTAATTTTACCT-TACGAGGGTATTTCGGTAATTTTACAAATCG
* ** * *
89052978 AGGGGTACTTT-GGTAATTTTACAAGT-CGAGGGTATTTCAGTAATTTTACAAATCT
1 A-GGGTA-TTTCAGTAATTTTAC-CTTACGAGGGTATTTCGGTAATTTTACAAATCG
* * * *
89053033 AGGGTATTTCAGTAATTTTA--TAAACTGAGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACCT-TAC-GAGGGTATTTCGGTAATTTTACAAATCG
* * *
89053087 AGGGTATTTCAGTAATTTTA--TAAATCGAGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACCT-TA-CGAGGGTATTTCGGTAATTTTACAAATC-G
* * **
89053141 AGGGTATTTCGGTAATTTTACAAATT--GAGGGTATTTTAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTAC--CTTACGAGGGTATTTCGGTAATTTTACAAATCG
* * * * *
89053194 ACGATATTTCAGTAATTTTA--TAAACTAGGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTATTTCAGTAATTTTACCT-TACGA-GGGTA-TTTCGGTAATTTTACAAATCG
* ** ** *
89053248 AGGGTATTTTAGTAATTTTA-CAAATCGAGGGTATTTTAGTAATTTTA-TAATCG
1 AGGGTATTTCAGTAATTTTACCTTA-CGAGGGTATTTCGGTAATTTTACAAATCG
* * * * *
89053301 ACGGTATTTCGGTAATTTTA--TAAACCGGGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTATTTCAGTAATTTTACCT-TA-CGAGGGTA-TTTCGGTAATTTTACAAATCG
*
89053354 -GGGTATTTCAATAATTTTA
1 AGGGTATTTCAGTAATTTTA
89053373 GTAAACTAAA
Statistics
Matches: 791, Mismatches: 136, Indels: 118
0.76 0.13 0.11
Matches are distributed among these distances:
49 1 0.00
52 21 0.03
53 214 0.27
54 535 0.68
55 18 0.02
56 1 0.00
58 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACCTTACGAGGGTATTTCGGTAATTTTACAAATCG
Found at i:89052741 original size:107 final size:107
Alignment explanation
Indices: 89052577--89053372 Score: 746
Period size: 107 Copynumber: 7.4 Consensus size: 107
89052567 CTACCTTACA
* * * *
89052577 AGGGTATTTCAATAATTTTACAAA-TCGAGGGTATTCCAGTAATTTTGCAAACTGAGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTACAATC-GAGGGTATTTC
*
89052641 GGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCG
65 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCG
** * * * * *
89052684 ATAGTATTTCGGTAATTTTATAAACT-GGGGGTACTTT-GGTAATATTACAAGTCGAGGGTATTT
1 AGGGTATTTCAGTAATTTTACAAACTCGAGGGTA-TTTCAGTAATTTTACAA-TCGAGGGTATTT
* * *
89052747 CAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTG
64 CGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-G
* ** * *
89052792 AGGATATTTTGGTAATTTTACAAA-TCGAGGGTATTTCAATAATTTTACAATCGATGGTATTTCG
1 AGGGTATTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCG
* * * *
89052856 GTAATTTTATAAATTGGGGGTACTTT-GGTAATTTTACAAGTCG
66 GTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAA-TCG
* * * * *
89052899 AGGGTATTTCAGTAATTTTACAAA-TCGAGGGTATTTTAGTAATTTTATAAACGACGATATTTCG
1 AGGGTATTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCG
* * * *
89052963 ATAATTTTATAAA-CCAGGGGTACTTT-GGTAATTTTACAAGTCG
66 GTAATTTTACAAATCGA-GGGTA-TTTCAGTAATTTTACAA-TCG
* * * *
89053006 AGGGTATTTCAGTAATTTTACAAA-TCTAGGGTATTTCAGTAATTTTATAAACTGAGGGTATTTT
1 AGGGTATTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTACAATC-GAGGGTATTTC
* * *
89053070 GATAATTTTACAAATTGAGGGTATTTCAGTAATTTTATAAATCG
65 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-CAATCG
* * * *
89053114 AGGGTATTTCAGTAATTTTGCAAACT-GAGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTT
1 AGGGTATTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTC
* * * * * *
89053178 AGTAATTTTAC-AATCGACGATATTTCAGTAATTTTATAAACT
65 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCG
* * *
89053220 AGGGGTACTTT-GGTAATTTTAC-AAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATT
1 A-GGGTA-TTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATT
** * * * * *
89053283 TTAGTAATTTTA-TAATCGACGGTATTTCGGTAATTTTATAAACCG
63 TCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-CAATCG
* * *
89053328 GGGGTACTTT-GGTAATTTTAC-AACT-G-GGGTATTTCAATAATTTTA
1 AGGGTA-TTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTA
89053373 GTAAACTAAA
Statistics
Matches: 585, Mismatches: 84, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
105 17 0.03
106 8 0.01
107 404 0.69
108 150 0.26
109 6 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (107 bp):
AGGGTATTTCAGTAATTTTACAAACTCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCG
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCG
Found at i:89052759 original size:161 final size:160
Alignment explanation
Indices: 89052577--89053320 Score: 765
Period size: 161 Copynumber: 4.6 Consensus size: 160
89052567 CTACCTTACA
* * * *
89052577 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTCCAGTAATTTTGCAAACTGAGGGTATTTCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGATATTTCG
* *
89052642 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGATAGTATTTCGGTAATTTTATAA
66 GTAATTTTACAAA-CGAGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGGTAATTTTATAA
*
89052707 ACTGGGGGTACTTTGGTAATATTACAAGTCG
130 ACTGGGGGTACTTTGGTAATTTTACAAGTCG
* *
89052738 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGATATTTTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGATATTTCG
*
89052803 GTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATCGATGGTATTTCGGTAATTTTATAA
66 GTAATTTTACAAA-CGAGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGGTAATTTTATAA
*
89052868 ATTGGGGGTACTTTGGTAATTTTACAAGTCG
130 ACTGGGGGTACTTTGGTAATTTTACAAGTCG
* * *
89052899 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAAAC-GACGATATTTCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGATATTTCG
* * * * * * *
89052963 ATAATTTTATAAACCAGGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
66 GTAATTTTACAAACGA-GGGTA-TTTCAGTAATTTTACAA-TCGATGGTATTTCGGTAATTTTAT
* * * *
89053027 AAATCT-AGGGTA-TTTCAGTAATTTTATAA-ACTG
128 AAA-CTGGGGGTACTTT-GGTAATTTTACAAGTC-G
* * * *
89053060 AGGGTATTT-TGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTATAAA-TCGAGGGTATTT
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT-GAGGATATTT
* * * * * **
89053123 CAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTA
64 CGGTAATTTTACAAAC-GAGGGTATTTCAGTAATTTTAC-AATCGATGGTATTTCGGTAATTTTA
* * ** * * * * *
89053188 CAATC-GACGATA-TTTCAGTAATTTTATAA-ACT
127 TAAACTGGGGGTACTTT-GGTAATTTTACAAGTCG
* * * *
89053220 AGGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAA-TCGAGGGTATT
1 A-GGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT-GAGGATATT
** * * * *
89053283 TTAGTAATTTTATAATCGACGGTATTTCGGTAATTTTA
63 TCGGTAATTTTACAAACGAGGGTATTTCAGTAATTTTA
89053321 TAAACCGGGG
Statistics
Matches: 515, Mismatches: 53, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
159 2 0.00
160 63 0.12
161 382 0.74
162 65 0.13
163 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (160 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGATATTTCG
GTAATTTTACAAACGAGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGGTAATTTTATAAA
CTGGGGGTACTTTGGTAATTTTACAAGTCG
Found at i:89065283 original size:66 final size:66
Alignment explanation
Indices: 89065159--89065296 Score: 152
Period size: 66 Copynumber: 2.1 Consensus size: 66
89065149 TCATATTATG
* * * * ** *
89065159 AAGTTGTAGCTGGAGTTCGTCATATTTTTTCCTTGCCTTTACTTCCCTCGCTGCTGCCTCCATTT
1 AAGTTGTAGCTGGAGTTCGTCATATTTTCTCATAGCCTCTACTTCCCTCAATGCTGCCTCCACTT
89065224 T
66 T
* * * * *
89065225 AAGTTGTAGCTGGAGTTCTTCATATTTTCT-ATGAGCCTCTGCTTCTCTCAATGTTGCCTCCGCT
1 AAGTTGTAGCTGGAGTTCGTCATATTTTCTCAT-AGCCTCTACTTCCCTCAATGCTGCCTCCACT
89065289 TT
65 TT
89065291 AAGTTG
1 AAGTTG
89065297 AGCAATTTGC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 1 0.02
66 58 0.98
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (66 bp):
AAGTTGTAGCTGGAGTTCGTCATATTTTCTCATAGCCTCTACTTCCCTCAATGCTGCCTCCACTT
T
Found at i:89070929 original size:9 final size:9
Alignment explanation
Indices: 89070915--89070973 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
89070905 TATTTATGTA
89070915 TTATGTAAG
1 TTATGTAAG
89070924 TTATGTAAG
1 TTATGTAAG
89070933 TTATG-ATA-
1 TTATGTA-AG
* * *
89070941 TAATATATAT
1 TTATGTA-AG
89070951 TTATGTAAG
1 TTATGTAAG
89070960 TTATGTAAG
1 TTATGTAAG
89070969 TTATG
1 TTATG
89070974 ATCCAAAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 4 0.10
9 33 0.79
10 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:89071014 original size:47 final size:47
Alignment explanation
Indices: 89070890--89071030 Score: 218
Period size: 49 Copynumber: 3.0 Consensus size: 47
89070880 GTTTTATGTA
* *
89070890 TTATGATATGATATGTATTTATGTATTATGTAAGTTATG-T---AAG
1 TTATGATATAATATATATTTATGTATTATGTAAGTTATGATCCAAAG
89070933 TTATGATATAATATATATTTATGTAAGTTATGTAAGTTATGATCCAAAG
1 TTATGATATAATATATATTTATGT-A-TTATGTAAGTTATGATCCAAAG
89070982 TTATGATATAATATATATTTATGTATTATGTAAGTTATGATCCAAAG
1 TTATGATATAATATATATTTATGTATTATGTAAGTTATGATCCAAAG
89071029 TT
1 TT
89071031 TTTTTTGTAT
Statistics
Matches: 90, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
43 22 0.24
44 1 0.01
45 14 0.16
46 1 0.01
47 24 0.27
48 1 0.01
49 27 0.30
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (47 bp):
TTATGATATAATATATATTTATGTATTATGTAAGTTATGATCCAAAG
Found at i:89071644 original size:19 final size:20
Alignment explanation
Indices: 89071620--89071662 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
89071610 AAGTTATCTT
89071620 AAATTTTAAAAT-AAAAATA
1 AAATTTTAAAATCAAAAATA
* *
89071639 AAATTTTAGAATCAAAACTA
1 AAATTTTAAAATCAAAAATA
89071659 AAAT
1 AAAT
89071663 AAATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATTTTAAAATCAAAAATA
Found at i:89074284 original size:14 final size:14
Alignment explanation
Indices: 89074265--89074296 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
89074255 CTTAACTGTA
*
89074265 TGAAATTGATTGTG
1 TGAAATTAATTGTG
89074279 TGAAATTAATTGTG
1 TGAAATTAATTGTG
89074293 TGAA
1 TGAA
89074297 TTATGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (14 bp):
TGAAATTAATTGTG
Found at i:89075901 original size:40 final size:40
Alignment explanation
Indices: 89075851--89075990 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
89075841 TACAATTCGG
*
89075851 GTATAGCACTTAGTGTGCGAATCGAAATAGCTTCGGCTAT
1 GTATATCACTTAGTGTGCGAATCGAAATAGCTTCGGCTAT
* * *
89075891 GTATATCACTTAGTGTGTGATTCGAGATAGCTTCGGCTAT
1 GTATATCACTTAGTGTGCGAATCGAAATAGCTTCGGCTAT
* * * *
89075931 GTATGA-AATTTAGTGTGCAAGATTGAAATAGCTTCGGCTAT
1 GTAT-ATCACTTAGTGTGCGA-ATCGAAATAGCTTCGGCTAT
89075972 GTAT-TGGCACTTAGTGTGC
1 GTATAT--CACTTAGTGTGC
89075991 AAGAATTCCA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
40 50 0.61
41 22 0.27
42 10 0.12
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (40 bp):
GTATATCACTTAGTGTGCGAATCGAAATAGCTTCGGCTAT
Found at i:89081111 original size:55 final size:55
Alignment explanation
Indices: 89081045--89081156 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 55
89081035 GTAGTCCCAA
** *
89081045 GCCCGTGTTAATCTAACAGGTTCGACCACAATTGCTTGGCACGGGTGTGTCGCAC
1 GCCCGTGTTAATCTAACAGGTTCGACCACAATTGCAAGGCACCGGTGTGTCGCAC
* * * * * *
89081100 GCCCGTGTTAATTTGACAGGTTTGGCCACAGTTTCAAGGCACCGGTGTGTCGCAC
1 GCCCGTGTTAATCTAACAGGTTCGACCACAATTGCAAGGCACCGGTGTGTCGCAC
89081155 GC
1 GC
89081157 TCATGTTGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.26
Consensus pattern (55 bp):
GCCCGTGTTAATCTAACAGGTTCGACCACAATTGCAAGGCACCGGTGTGTCGCAC
Found at i:89081448 original size:40 final size:40
Alignment explanation
Indices: 89081404--89081486 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
89081394 AAGCTTGACT
89081404 TACCTCTCCATTCAATGGTCATAGTGGTTCGAGGAGTTTA
1 TACCTCTCCATTCAATGGTCATAGTGGTTCGAGGAGTTTA
* * * *
89081444 TACCTCTCTATTGAATGGTCATGGTGGTTCTAGGAGTTTA
1 TACCTCTCCATTCAATGGTCATAGTGGTTCGAGGAGTTTA
89081484 TAC
1 TAC
89081487 TCCTCATTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (40 bp):
TACCTCTCCATTCAATGGTCATAGTGGTTCGAGGAGTTTA
Found at i:89084932 original size:27 final size:27
Alignment explanation
Indices: 89084884--89084985 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
89084874 GCGAGGCTGC
* *
89084884 CAGATATTGT-GCCGAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
89084911 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
89084937 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
89084964 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
89084986 TAGGACGCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 6 0.09
27 53 0.83
28 5 0.08
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:89085408 original size:16 final size:17
Alignment explanation
Indices: 89085382--89085413 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
89085372 AAATACCGGC
89085382 TTTTCGGCTTTTCAGCA
1 TTTTCGGCTTTTCAGCA
89085399 TTTT-GGCTTTTCAGC
1 TTTTCGGCTTTTCAGC
89085414 TTGTGCCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.22, G:0.19, T:0.50
Consensus pattern (17 bp):
TTTTCGGCTTTTCAGCA
Found at i:89086625 original size:26 final size:26
Alignment explanation
Indices: 89086594--89086701 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89086584 TGAAATGCCC
*
89086594 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
89086620 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
89086646 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
89086672 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89086698 ATCA
1 ATCA
89086702 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89090245 original size:13 final size:13
Alignment explanation
Indices: 89090227--89090252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89090217 GCTCGGTAGG
89090227 GACACGCCCGTGT
1 GACACGCCCGTGT
89090240 GACACGCCCGTGT
1 GACACGCCCGTGT
89090253 ACGATTACTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:89103065 original size:41 final size:40
Alignment explanation
Indices: 89102933--89103072 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
89102923 TTGACGATAA
** * * * *
89102933 TTCGGCTACATATAGCACTTAGTGTGTGATTCAAAATAGC
1 TTCGGCTATGTATGGCACATAGTGTGCGATTCGAAATAGC
* * * * *
89102973 TTCAGCTATGTATAGCACTTTGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACATAGTGTGCGATTCGAAATAGC
89103013 TTCGGCTATGTATGGCACATAGTGTGCGAGATT-GAAATAGC
1 TTCGGCTATGTATGGCACATAGTGTGC--GATTCGAAATAGC
89103054 TTCGGCTATGTATTGGCAC
1 TTCGGCTATGTA-TGGCAC
89103073 TTAATGTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 56 0.66
41 19 0.22
42 10 0.12
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACATAGTGTGCGATTCGAAATAGC
Found at i:89103085 original size:42 final size:41
Alignment explanation
Indices: 89102960--89103085 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 41
89102950 CTTAGTGTGT
* * * *
89102960 GATTCAAAATAGCTTCAGCTATGTATAGCACTT-TGTGT-GC
1 GATTCGAAATAGCTTCGGCTATGTATGGCACTTATGT-TCGA
* * *
89103000 GATTCGAGATAGCTTCGGCTATGTATGGCACATAGTGTGCGA
1 GATTCGAAATAGCTTCGGCTATGTATGGCACTTA-TGTTCGA
89103042 GATT-GAAATAGCTTCGGCTATGTATTGGCACTTAATGTTCGA
1 GATTCGAAATAGCTTCGGCTATGTA-TGGCACTT-ATGTTCGA
89103084 GA
1 GA
89103086 ATTCCAGTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
40 28 0.39
41 19 0.27
42 23 0.32
43 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
GATTCGAAATAGCTTCGGCTATGTATGGCACTTATGTTCGA
Found at i:89112386 original size:2 final size:2
Alignment explanation
Indices: 89112379--89112404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89112369 ATCGGGTATG
89112379 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
89112405 AGTATGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89112887 original size:24 final size:24
Alignment explanation
Indices: 89112855--89113037 Score: 294
Period size: 24 Copynumber: 7.6 Consensus size: 24
89112845 TATCTCAAAT
89112855 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
89112879 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
89112903 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
89112927 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
89112951 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
89112975 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
89112999 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
89113023 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
89113038 ACATAATAAG
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 151 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:89113050 original size:48 final size:48
Alignment explanation
Indices: 89112855--89113059 Score: 234
Period size: 48 Copynumber: 4.3 Consensus size: 48
89112845 TATCTCAAAT
** * *
89112855 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
* * * *
89112903 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACAT-AATATA
* ** *
89112951 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
* * * *
89112999 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ACATAATATA
89113047 GCACTATGTGTGC
1 GCACTATGTGTGC
89113060 CACATTCGGT
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.01
48 132 0.94
49 7 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
Found at i:89118727 original size:20 final size:21
Alignment explanation
Indices: 89118684--89118729 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
89118674 ACTGTTTTGT
89118684 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
89118704 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
89118723 TATGGGC
1 TATGGGC
89118730 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:89120136 original size:40 final size:40
Alignment explanation
Indices: 89120091--89120257 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
89120081 CGGAATATAA
89120091 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
89120131 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
89120170 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89120210 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
89120250 CCGGATAT
1 CCGGATAT
89120258 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89120155 original size:39 final size:40
Alignment explanation
Indices: 89120107--89120216 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
89120097 ATAATCACGT
* *
89120107 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
89120146 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
89120186 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
89120217 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:89128099 original size:40 final size:40
Alignment explanation
Indices: 89128054--89128219 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
89128044 CGGAATATAA
89128054 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
89128094 CCGGATAGAAT-A-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
89128132 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89128172 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
89128212 CCGGATAT
1 CCGGATAT
89128220 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 30 0.29
39 2 0.02
40 69 0.67
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89130056 original size:40 final size:40
Alignment explanation
Indices: 89129948--89130156 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
89129938 CGGGATTTAA
* * * * *
89129948 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89129988 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89130028 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89130067 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89130107 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89130147 CCGGATATAT
1 CCGGATATAT
89130157 TTCCAATGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.26
40 111 0.74
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89130115 original size:79 final size:78
Alignment explanation
Indices: 89129948--89130156 Score: 283
Period size: 79 Copynumber: 2.6 Consensus size: 78
89129938 CGGGATTTAA
* * * * * * * * *
89129948 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTC-TTAGCCGGATAT-ATAACTCGCACAAAGG
89130013 CCTTCGGGTCTTAGC
64 CCTTCGGGTCTTAGC
* *
89130028 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCGGATATATCAACTCGCACGAATGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCGGATATAT-AACTCGCACAAAGGC
89130093 CTTCGGGTCTTAGC
65 CTTCGGGTCTTAGC
89130107 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAG-CCGGATATAT
89130157 TTCCAATGTT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 73 0.63
80 42 0.36
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (78 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCGGATATATAACTCGCACAAAGGCC
TTCGGGTCTTAGC
Found at i:89132796 original size:115 final size:113
Alignment explanation
Indices: 89132559--89132933 Score: 369
Period size: 112 Copynumber: 3.3 Consensus size: 113
89132549 ATAGGTTTGA
* * * *
89132559 TTTAGTGGCGCTAAGGTATAAACGCCACT-AATGGTTAATT-TGTTTATATCAAAACGATGTAGT
1 TTTAGCGGCGCTACGG-AAAAACGCCACTAAAT-GTT-ATTCTGTTTATATCAAAACGATGTCGT
* * * * *
89132622 TTTATTCGATTATTAGT-G-GTTTTAGGGTAAAACGCCGGAATAGTTTCGCC
63 TTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATTGTTT-GCC
* * *
89132672 TTTAGCGGCGCT-TGTGATAAAACGCCACTAAATGTTATTCTGTTCATATGAAAAC-ATCGTCGT
1 TTTAGCGGCGCTACG-GA-AAAACGCCACTAAATGTTATTCTGTTTATATCAAAACGAT-GTCGT
*
89132735 TTTTTTGGATTTTTAGTGGCGTTTTAGGGTGAAACGCCGCAATTGATTTGCC
63 TTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATTG-TTTGCC
* *
89132787 TTTAGCGGCGCTACGGAAAAACGCC-C-AAA-GTTTATTCTGTTTATATCAAAACGGTGTCATTT
1 TTTAGCGGCGCTACGGAAAAACGCCACTAAATG-TTATTCTGTTTATATCAAAACGATGTCGTTT
** * *
89132849 TGTTTGTTTTTTTAGTGGCG-TTTATGTTAAAACGCCGCAATTGGTTTGCC
65 T-TTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATT-GTTTGCC
* *
89132899 TTTAGCGGCGCTA-GGTGAAAACGCCGC-AAATGTTA
1 TTTAGCGGCGCTACGG-AAAAACGCCACTAAATGTTA
89132934 ATTTATTTTG
Statistics
Matches: 223, Mismatches: 23, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
111 3 0.01
112 82 0.37
113 82 0.37
114 13 0.06
115 39 0.17
116 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (113 bp):
TTTAGCGGCGCTACGGAAAAACGCCACTAAATGTTATTCTGTTTATATCAAAACGATGTCGTTTT
TTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATTGTTTGCC
Found at i:89133080 original size:57 final size:58
Alignment explanation
Indices: 89132992--89133118 Score: 193
Period size: 57 Copynumber: 2.2 Consensus size: 58
89132982 ACACCGAGTT
* ** *
89132992 CCCCCTTCTCCCTGGTTTATTTCCCCATTTTCCCTTCTTCGAATCCCTAAAATAATCA
1 CCCCCTTCTCCCTAGTTTATTTCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
*
89133050 CCCCCTTCTCCCTAGTTTA-TTCCCCATTTTCCCTAATTCGAAACCCTAAAATAATTA
1 CCCCCTTCTCCCTAGTTTATTTCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
*
89133107 CCCCTTTCTCCC
1 CCCCCTTCTCCC
89133119 CAATTTGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 45 0.71
58 18 0.29
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.36
Consensus pattern (58 bp):
CCCCCTTCTCCCTAGTTTATTTCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
Found at i:89135353 original size:25 final size:24
Alignment explanation
Indices: 89135325--89135398 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 24
89135315 TTTATTTTGG
89135325 ATTAATCAGGACACAATTTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
**
89135350 ATT-A-C-GACAC-ATATTTTGCAA
1 ATTAATCAGACACAAT-TTTTTTAA
*
89135371 TTTAATCACGACACAA-TTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
89135395 ATTA
1 ATTA
89135399 CATATTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 1 0.03
23 2 0.05
24 10 0.27
25 8 0.22
26 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTAATCAGACACAATTTTTTTAA
Found at i:89135486 original size:9 final size:9
Alignment explanation
Indices: 89135474--89135504 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
89135464 ATATCATATA
89135474 ATAACTTAC
1 ATAACTTAC
89135483 ATAACTTAC
1 ATAACTTAC
*
89135492 AAAACTTAC
1 ATAACTTAC
89135501 ATAA
1 ATAA
89135505 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:89135525 original size:13 final size:13
Alignment explanation
Indices: 89135507--89135536 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
89135497 TTACATAATA
89135507 CATAAATATATAT
1 CATAAATATATAT
89135520 CATAAATATATAT
1 CATAAATATATAT
89135533 CATA
1 CATA
89135537 TCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:89135543 original size:56 final size:56
Alignment explanation
Indices: 89135482--89135692 Score: 352
Period size: 56 Copynumber: 3.8 Consensus size: 56
89135472 TAATAACTTA
*
89135482 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
* * *
89135538 CATAACTTACACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
89135594 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTAT
1 CATAACTTACACAACTTACATAATACAT--AAATATATATCATAAATATATATCATAT
89135651 CATAACTTACACAACTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
89135693 TCATAACTTA
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
55 1 0.01
56 91 0.63
57 51 0.35
58 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:89135652 original size:113 final size:112
Alignment explanation
Indices: 89135482--89135692 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 112
89135472 TAATAACTTA
89135482 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
*
89135547 CACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
66 CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
* *
89135594 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTATCATAACT
1 CATAACTTACAAAACTTACATAATACAT--AAATATATATCATAAATATATATCATATCATAACT
*
89135658 TACACAACTTACATAATACATAAATATATATCATA
64 TACACAACTAACATAATACATAAATATATATCATA
89135693 TCATAACTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 67 0.72
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (112 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
Found at i:89135729 original size:113 final size:107
Alignment explanation
Indices: 89135461--89135705 Score: 348
Period size: 113 Copynumber: 2.2 Consensus size: 107
89135451 TAATATTTAT
89135461 TATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
1 TATATATCATAT-ATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
89135526 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
65 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
89135569 TATATTTCATAAATATGTATCATATCATAACTTACACAACTTACATAATAC-TCCAAATATATAT
1 TATATATCAT--ATA--TAACTTA-CATAACTTACAAAACTTACATAATACAT--AAATATATAT
* *
89135633 CATAAATATATATCTTATCATAACTTACACAACTTACATAATACATAAA
59 CATAAATATATATCATATCATAACTTACACAACTAACATAATACATAAA
89135682 TATATATCATATCATAACTTACAT
1 TATATATCATAT-ATAACTTACAT
89135706 GCCTTACATA
Statistics
Matches: 120, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
108 9 0.08
109 4 0.03
110 7 0.06
111 8 0.07
112 26 0.22
113 66 0.55
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (107 bp):
TATATATCATATATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAAT
ATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:89135743 original size:9 final size:9
Alignment explanation
Indices: 89135646--89135766 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
89135636 AAATATATAT
89135646 CTTATCATAA
1 CTTA-CATAA
*
89135656 CTTACACAA
1 CTTACATAA
89135665 CTTACATAA
1 CTTACATAA
89135674 --TACATAA
1 CTTACATAA
* * *
89135681 -ATATATAT
1 CTTACATAA
*
89135689 CATATCATAA
1 CTTA-CATAA
**
89135699 CTTACATGC
1 CTTACATAA
89135708 CTTACATAA
1 CTTACATAA
* * *
89135717 ATGTATATCA
1 CT-TACATAA
*
89135727 -TAACATAA
1 CTTACATAA
89135735 CTTACATAA
1 CTTACATAA
89135744 CTTACA-AA
1 CTTACATAA
*
89135752 GCTTACTTAA
1 -CTTACATAA
89135762 CTTAC
1 CTTAC
89135767 TTAATATATA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 7 0.08
8 11 0.13
9 50 0.59
10 17 0.20
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (9 bp):
CTTACATAA
Found at i:89135748 original size:36 final size:36
Alignment explanation
Indices: 89135663--89135749 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
89135653 TAACTTACAC
*
89135663 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
** *
89135697 AACTTACATGCCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
89135733 AACTTACATAACTTACA
1 AACTTACATAACTTACA
89135750 AAGCTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.20
36 36 0.80
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.33
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:89141336 original size:15 final size:16
Alignment explanation
Indices: 89141311--89141341 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
89141301 GCAACAACTT
89141311 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
89141327 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
89141342 CAGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:89141385 original size:21 final size:21
Alignment explanation
Indices: 89141317--89141413 Score: 126
Period size: 21 Copynumber: 4.6 Consensus size: 21
89141307 ACTTAGAGCG
*
89141317 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
89141338 GCA-GCAGCAGCGAGGGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
* *
89141359 GCGGCAGCAGTGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
89141380 GAGGCA-CGAGCAAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
89141401 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
89141414 TGGTAGCAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 62 0.95
22 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.49, T:0.01
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:89141423 original size:42 final size:40
Alignment explanation
Indices: 89141317--89141432 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 40
89141307 ACTTAGAGCG
* *
89141317 GAGGCAGCAGAGAGGGAGGCAGCAGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCAG-AGCAG-AGCAAGGGAGGCA
* *
89141359 GCGGCAGCAGTGAGGGAGGCAGAGGCACGAGCAAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCAGA-GCA-GAGCAAGGGAGGCA
*
89141401 GAGGCAGCAGCGATGGTA-GCAGAGCAGAGCAA
1 GAGGCAGCAGCGA-GGGAGGCAGAGCAGAGCAA
89141433 AAAGTACGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.09
41 4 0.06
42 51 0.78
43 4 0.06
ACGTcount: A:0.31, C:0.19, G:0.47, T:0.03
Consensus pattern (40 bp):
GAGGCAGCAGCGAGGGAGGCAGAGCAGAGCAAGGGAGGCA
Found at i:89141739 original size:22 final size:22
Alignment explanation
Indices: 89141714--89141765 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
89141704 TGTTGTATTT
89141714 GGTTGGATTTTAATGCAGAAAG
1 GGTTGGATTTTAATGCAGAAAG
89141736 GGTTGGATTTTAATGCAGAAAG
1 GGTTGGATTTTAATGCAGAAAG
*
89141758 GGCTGGAT
1 GGTTGGAT
89141766 ATTGGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.31
Consensus pattern (22 bp):
GGTTGGATTTTAATGCAGAAAG
Found at i:89141849 original size:43 final size:42
Alignment explanation
Indices: 89141801--89142067 Score: 351
Period size: 43 Copynumber: 6.2 Consensus size: 42
89141791 TCTGTCAAAA
* * *
89141801 TTAGCGGCG-TTTGCCATA-AAATCGCAGCTAAAAGCCGTGACTT
1 TTAGCGGCGCTTT-CCA-ACAAA-CGCCGCTAAAGGCCATGACTT
* *
89141844 TTAGCGGCGCCTTTCCAACAAACACCGCTAAAGGCCGTGACTT
1 TTAGCGGCG-CTTTCCAACAAACGCCGCTAAAGGCCATGACTT
*
89141887 TTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGCTT
1 TTAGCGGCG-CTTTCCAACAAACGCCGCTAAAGGCCATGACTT
89141930 TTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGA-TT
1 TTAGCGGCG-CTTTCCAACAAACGCCGCTAAAGGCCAT-GACTT
*
89141973 TTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGCTT
1 TTAGCGGCG-CTTTCCAACAAACGCCGCTAAAGGCCATGACTT
* *
89142016 TTAGCGGCGCTTTTCCAACAAACGCTGCTAAAGGCCATGGCTT
1 TTAGCGGCGC-TTTCCAACAAACGCCGCTAAAGGCCATGACTT
89142059 TTAGCGGCG
1 TTAGCGGCG
89142068 TTTTTTTTAA
Statistics
Matches: 209, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
42 2 0.01
43 197 0.94
44 7 0.03
45 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (42 bp):
TTAGCGGCGCTTTCCAACAAACGCCGCTAAAGGCCATGACTT
Found at i:89141946 original size:86 final size:86
Alignment explanation
Indices: 89141827--89142067 Score: 394
Period size: 86 Copynumber: 2.8 Consensus size: 86
89141817 TAAAATCGCA
* * * * *
89141827 GCTAAAAGCCGTGACTTTTAGCGGCGCCTTTCCAACAAACACCGCTAAAGGCCGTGACTTTTAGC
1 GCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGACTTTTAGC
89141892 GGCGCCTTTCCAACAAACGCC
66 GGCGCCTTTCCAACAAACGCC
89141913 GCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGA-TTTTAG
1 GCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCAT-GACTTTTAG
89141977 CGGCGCCTTTCCAACAAACGCC
65 CGGCGCCTTTCCAACAAACGCC
* * *
89141999 GCTAAAGGCCATGGCTTTTAGCGGCGCTTTTCCAACAAACGCTGCTAAAGGCCATGGCTTTTAGC
1 GCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGACTTTTAGC
89142064 GGCG
66 GGCG
89142068 TTTTTTTTAA
Statistics
Matches: 145, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
85 1 0.01
86 142 0.98
87 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (86 bp):
GCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGACTTTTAGC
GGCGCCTTTCCAACAAACGCC
Found at i:89143784 original size:40 final size:41
Alignment explanation
Indices: 89143731--89143885 Score: 168
Period size: 41 Copynumber: 3.8 Consensus size: 41
89143721 AAAATGATAC
* ** *
89143731 TTTGCGGTGTTTTTCTCAT-AGTGCCACTAATGCTTAACCT
1 TTTGCGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
* *
89143771 TTGGCGGTATTTTTCTCATAAACACCACTAATGCTTGACCT
1 TTTGCGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
** *
89143812 TTTGATGTATTTTTCTCATAAACGCCGCTAATGCTTGACCT
1 TTTGCGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
* * * * **
89143853 TTTGTGGTGTTTTTTTCATTAGTGCCACTAATG
1 TTTGCGGTATTTTTCTCATAAACGCCACTAATG
89143886 TATAATATTT
Statistics
Matches: 95, Mismatches: 19, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
40 17 0.18
41 78 0.82
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.43
Consensus pattern (41 bp):
TTTGCGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
Found at i:89144229 original size:2 final size:2
Alignment explanation
Indices: 89144170--89144210 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
89144160 TCAGTTTTGA
89144170 AT AT AT AT 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
89144211 GAAATATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89146929 original size:38 final size:38
Alignment explanation
Indices: 89146881--89146969 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
89146871 TAATTTATAT
* * *
89146881 ATTTATATTAAGAGATATA-TTAATGAAATTATATTACAA
1 ATTT-TATTAAAAGATATATTTAAT-AAACTACATTACAA
*
89146920 ATTTTATTAAAAGATATATTTACTAAACTACATTACAA
1 ATTTTATTAAAAGATATATTTAATAAACTACATTACAA
*
89146958 TTTTTATTAAAA
1 ATTTTATTAAAA
89146970 TTTTATTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 36 0.82
39 8 0.18
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (38 bp):
ATTTTATTAAAAGATATATTTAATAAACTACATTACAA
Found at i:89148826 original size:24 final size:24
Alignment explanation
Indices: 89148798--89148849 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
89148788 CTAGAAAGTC
** *
89148798 AAATAAACTATGCTAATAAATTCT
1 AAATAAACTACACTAATAAATACT
* *
89148822 AAATATATTACACTAATAAATACT
1 AAATAAACTACACTAATAAATACT
89148846 AAAT
1 AAAT
89148850 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTACACTAATAAATACT
Found at i:89151256 original size:49 final size:49
Alignment explanation
Indices: 89151179--89151416 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
89151169 TAGACAAGGC
* * *
89151179 TATCTGGTACACATAGTAGCCTCCACTTAGTACTACATATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
89151228 TATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * *
89151278 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * * *
89151329 TATCAGGTACGCATATTAGCCTCCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
89151378 TATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
89151417 CGTGACCTCA
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.47
50 47 0.30
51 36 0.23
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:89151417 original size:100 final size:99
Alignment explanation
Indices: 89151180--89151423 Score: 310
Period size: 100 Copynumber: 2.5 Consensus size: 99
89151170 AGACAAGGCT
* * * * * * *
89151180 ATCTGGTACACATAGTAGCCTCCACTTAGTACTACATATGCGACCAATTATCTGGTACACGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
** *
89151245 AGCCTGTACTTAGTACTACACATGTGACCTAACC
66 AGCCTCCACTTAGTACTACACATGCGACCTAACC
* * *
89151279 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATA
* **
89151344 TTAGCCTCCACTTAGTACTACACATGCGACC-AATT
64 GTAGCCTCCACTTAGTACTACACATGCGACCTAACC
*
89151379 ATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
89151424 TCACAATAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 38 0.31
100 46 0.37
101 40 0.32
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCTCCACTTAGTACTACACATGCGACCTAACC
Found at i:89153990 original size:24 final size:24
Alignment explanation
Indices: 89153958--89154010 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
89153948 AATATGGAGA
89153958 TAAAAAACTAAACCCCAAAAACCC
1 TAAAAAACTAAACCCCAAAAACCC
*
89153982 TAAAAAACTAAACCCCGAAAACCC
1 TAAAAAACTAAACCCCAAAAACCC
*
89154006 GAAAA
1 TAAAA
89154011 CAAAGAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.58, C:0.30, G:0.04, T:0.08
Consensus pattern (24 bp):
TAAAAAACTAAACCCCAAAAACCC
Found at i:89154157 original size:24 final size:24
Alignment explanation
Indices: 89154129--89154180 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
89154119 TTAGCAAGTC
*
89154129 AAATAAACTATGCTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
89154153 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
89154177 AAAT
1 AAAT
89154181 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:89156123 original size:24 final size:24
Alignment explanation
Indices: 89156096--89156147 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
89156086 TTAGCAAGTC
*
89156096 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
89156120 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
89156144 AAAT
1 AAAT
89156148 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:89167976 original size:20 final size:20
Alignment explanation
Indices: 89167951--89168009 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
89167941 TAAATATGGT
89167951 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
89167971 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
89167991 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
89168010 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:89167991 original size:11 final size:11
Alignment explanation
Indices: 89167955--89168009 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
89167945 TATGGTATGT
89167955 ATGATATGCAC
1 ATGATATGCAC
* *
89167966 ATGAAATG--T
1 ATGATATGCAC
89167975 ATGATATGCAC
1 ATGATATGCAC
*
89167986 ATGATATG--T
1 ATGATATGCAC
89167995 ATGATATGCAC
1 ATGATATGCAC
89168006 ATGA
1 ATGA
89168010 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:89168087 original size:24 final size:24
Alignment explanation
Indices: 89168060--89168226 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
89168050 GAGGAAGTGA
89168060 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
89168084 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
89168108 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
89168132 AAAAGGGATTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
89168155 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
89168179 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
89168203 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
89168227 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
23 23 0.17
24 99 0.74
25 11 0.08
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:89168177 original size:71 final size:72
Alignment explanation
Indices: 89168060--89168207 Score: 237
Period size: 71 Copynumber: 2.1 Consensus size: 72
89168050 GAGGAAGTGA
*
89168060 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCC
1 AAAAGGGATTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGGCCC
89168124 CAGTTATC
65 CAGTTATC
**
89168132 AAAAGGGATTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCC
1 AAAAGGGATTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGGCCCC
*
89168196 AGTTATT
66 AGTTATC
89168203 AAAAG
1 AAAAG
89168208 AGGCTAGGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 1 0.01
71 48 0.68
72 22 0.31
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGATTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGGCCCC
AGTTATC
Found at i:89168437 original size:31 final size:31
Alignment explanation
Indices: 89168401--89168461 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
89168391 TGGGCCTAAG
89168401 GGCTTCGGCCCAGTAATATGAAATATGAAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAAA
*
89168432 GGCTTCGGCCCAGTATTATGAAATATGAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAA
89168462 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
GGCTTCGGCCCAGTAATATGAAATATGAAAA
Found at i:89169652 original size:28 final size:27
Alignment explanation
Indices: 89169612--89169768 Score: 122
Period size: 28 Copynumber: 5.7 Consensus size: 27
89169602 GACCAAACGA
*
89169612 ATGGCACTTAGTGTGCGAAGTATTGAGG
1 ATGGCACTTAGTGTGCGAAGTATCGA-G
* *
89169640 ATGGCACTTAGTGTGC-AAGACATCCGAA
1 ATGGCACTTAGTGTGCGAAG-TAT-CGAG
* ** *
89169668 ATGACAC--AGTGTATGAAGTATTGATG
1 ATGGCACTTAGTGTGCGAAGTATCGA-G
* ** *
89169694 ATGACACTTAGTGTGCGAAACATCCGAA
1 ATGGCACTTAGTGTGCGAAGTAT-CGAG
*
89169722 ATGGCACTTAGTGTGCGAAGTATCAAGG
1 ATGGCACTTAGTGTGCGAAGTATCGA-G
*
89169750 ATAGCACTTAGTGTGCGAA
1 ATGGCACTTAGTGTGCGAA
89169769 ACATCCGGTA
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 8 0.08
28 72 0.72
29 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (27 bp):
ATGGCACTTAGTGTGCGAAGTATCGAG
Found at i:89169686 original size:54 final size:55
Alignment explanation
Indices: 89169611--89169775 Score: 199
Period size: 54 Copynumber: 3.0 Consensus size: 55
89169601 CGACCAAACG
* *
89169611 AATGGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGA
1 AATGACAC-TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGA
* * *
89169667 AATGACAC-AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGA
1 AATGACACTAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGA
* * ** *
89169721 AATGGCACTTAGTGTGCGAAGTATCAAGGATAGCACTTAGTGTGCGAAACATCCG
1 AATGACAC-TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
89169776 GTATGGCACT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 46 0.49
55 2 0.02
56 45 0.48
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (55 bp):
AATGACACTAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGA
Found at i:89169761 original size:56 final size:55
Alignment explanation
Indices: 89169611--89169793 Score: 228
Period size: 56 Copynumber: 3.3 Consensus size: 55
89169601 CGACCAAACG
89169611 AATGGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGA
1 AATGGCACTTAGTGTGCGAAGTATTGAGGAT-GCACTTAGTGTGCGAA-ACATCCGA
* ** *
89169667 AATGACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGA
1 AATGGCACTTAGTGTGCGAAGTATTGAGGATG-CACTTAGTGTGCGAAACATCCGA
** *
89169721 AATGGCACTTAGTGTGCGAAGTATCAAGGATAGCACTTAGTGTGCGAAACATCCGG
1 AATGGCACTTAGTGTGCGAAGTATTGAGGAT-GCACTTAGTGTGCGAAACATCCGA
* *
89169777 TATGGCACTTAGCGTGC
1 AATGGCACTTAGTGTGC
89169794 AAGACATCGA
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 45 0.41
55 2 0.02
56 60 0.55
57 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (55 bp):
AATGGCACTTAGTGTGCGAAGTATTGAGGATGCACTTAGTGTGCGAAACATCCGA
Found at i:89169784 original size:28 final size:27
Alignment explanation
Indices: 89169693--89169801 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 27
89169683 AAGTATTGAT
*
89169693 GATGACACTTAGTGTGCGAAACATCCG
1 GATGGCACTTAGTGTGCGAAACATCCG
* ** *
89169720 AAATGGCACTTAGTGTGCGAAGTATCAAG
1 -GATGGCACTTAGTGTGCGAAACATC-CG
*
89169749 GATAGCACTTAGTGTGCGAAACATCCG
1 GATGGCACTTAGTGTGCGAAACATCCG
*
89169776 GTATGGCACTTAGCGTGC-AAGACATC
1 G-ATGGCACTTAGTGTGCGAA-ACATC
89169802 GATTGTGCAG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
27 4 0.06
28 61 0.92
29 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (27 bp):
GATGGCACTTAGTGTGCGAAACATCCG
Found at i:89174489 original size:54 final size:55
Alignment explanation
Indices: 89174431--89174577 Score: 199
Period size: 54 Copynumber: 2.7 Consensus size: 55
89174421 TTAGTGTGCG
89174431 AAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAATGACAC-AGTGTATA
1 AAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAATGACACTAGTGTATA
* * * * *
89174485 AAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAATGGCACTTAGTGTGTG
1 AAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACAC-TAGTGTATA
* *
89174541 AAGTATCGAGGATGGCACTTAGTGTGAGAAACATCCG
1 AAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
89174578 GTATAGCACT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 40 0.49
55 2 0.02
56 39 0.48
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (55 bp):
AAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACACTAGTGTATA
Found at i:89174531 original size:28 final size:28
Alignment explanation
Indices: 89174500--89174603 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
89174490 TTGATGATGA
89174500 CACTTAGTGTGCGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAACATCCGAAATGG
* ** *
89174528 CACTTAGTGTGTGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCGA-AATGG
* ** *
89174556 CACTTAGTGTGAGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGAAATGG
*
89174584 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
89174604 GATTGTGCAG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 5 0.08
28 54 0.89
29 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGAAATGG
Found at i:89174605 original size:56 final size:56
Alignment explanation
Indices: 89174495--89174605 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 56
89174485 AAGTATTGAT
* * * * *
89174495 GATGACACTTAGTGTGCGAAACATCCGAAATGGCACTTAGTGTGTGAAGTATCGAG
1 GATGACACTTAGTGTGAGAAACATCCGAAATAGCACTTAGCGTGTCAAGCATCGAG
* **
89174551 GATGGCACTTAGTGTGAGAAACATCCGGTATAGCACTTAGCGTG-CAAGACATCGA
1 GATGACACTTAGTGTGAGAAACATCCGAAATAGCACTTAGCGTGTCAAG-CATCGA
89174606 TTGTGCAGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 3 0.07
56 43 0.93
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (56 bp):
GATGACACTTAGTGTGAGAAACATCCGAAATAGCACTTAGCGTGTCAAGCATCGAG
Found at i:89190168 original size:93 final size:93
Alignment explanation
Indices: 89190056--89190227 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
89190046 CGCCCATAAG
* *
89190056 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89190121 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
89190149 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89190214 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
89190228 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:89190224 original size:46 final size:46
Alignment explanation
Indices: 89190049--89190224 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
89190039 TGTAACCCGC
* * *
89190049 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
89190095 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
89190145 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
89190188 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
89190225 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:89197277 original size:93 final size:93
Alignment explanation
Indices: 89197165--89197336 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
89197155 CGCCCATAAG
* *
89197165 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89197230 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
89197258 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89197323 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
89197337 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:89197333 original size:46 final size:46
Alignment explanation
Indices: 89197158--89197333 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
89197148 TGTAACCCGC
* * *
89197158 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
89197204 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
89197254 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
89197297 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
89197334 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:89209387 original size:18 final size:18
Alignment explanation
Indices: 89209366--89209402 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
89209356 AAATAAAACA
89209366 GAAAATTTTGGAAAAATG
1 GAAAATTTTGGAAAAATG
*
89209384 GAAAATTTTGGAAATATG
1 GAAAATTTTGGAAAAATG
89209402 G
1 G
89209403 GTTACATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
GAAAATTTTGGAAAAATG
Found at i:89211735 original size:40 final size:40
Alignment explanation
Indices: 89211676--89211867 Score: 251
Period size: 40 Copynumber: 4.8 Consensus size: 40
89211666 TGGATGATAA
* ** * *
89211676 CCGGGCTAAGTCCCAAAGGCATTTGCACTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
89211716 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
89211756 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
89211796 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
89211836 CCGGGCTATGTCCCGAAGACATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
89211868 AGTTATATCC
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:89219504 original size:51 final size:51
Alignment explanation
Indices: 89219419--89219596 Score: 218
Period size: 51 Copynumber: 3.5 Consensus size: 51
89219409 CGGATACCTG
* * * * * *
89219419 GTGGCCTGCACATAGTACCACCCTTTTAGTCAAAGCTGCCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGGCCAAAGCTACCTTCTTCACAAA
*
89219470 GTGGCCTTCACATAGTACCACACTTGTGGCCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGGCCAAAGCTA-CCTTCTTCACAAA
* * * *
89219522 GTGGCCTTTC-CATAGTACCACACATGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCC-TTCACATAGTACCACACTTGTGGCCAAAGCTACCTTCTTCACAAA
89219571 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
89219597 AGTCACTAGT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
48 3 0.03
49 30 0.27
51 38 0.34
52 37 0.33
53 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGGCCAAAGCTACCTTCTTCACAAA
Found at i:89219585 original size:49 final size:51
Alignment explanation
Indices: 89219449--89219593 Score: 206
Period size: 52 Copynumber: 2.9 Consensus size: 51
89219439 CCCTTTTAGT
** * *
89219449 CAAAGCTGCCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGGC
1 CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTACCACACATGTGAC
89219500 CAAAGCTATCTTTCTTCACAAAGTGGCCTTTC-CATAGTACCACACATGTGAC
1 CAAAGCTATC-TTCTTCACAAAGTGGCC-TTCACATAGTACCACACATGTGAC
*
89219552 C-AAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGTACCACAC
1 CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTACCACAC
89219594 TTGAGTCACT
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
48 3 0.03
49 28 0.33
51 16 0.19
52 36 0.42
53 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (51 bp):
CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTACCACACATGTGAC
Found at i:89221535 original size:18 final size:18
Alignment explanation
Indices: 89221512--89221547 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
89221502 AATAACATGA
89221512 ATTAGGTCCAACTTGAAG
1 ATTAGGTCCAACTTGAAG
89221530 ATTAGGTCCAACTTGAAG
1 ATTAGGTCCAACTTGAAG
89221548 TTCAGAATCA
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:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
ATTAGGTCCAACTTGAAG
Found at i:89222094 original size:43 final size:43
Alignment explanation
Indices: 89222046--89222129 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
89222036 CCGTTCACTA
89222046 GTGCATCACTGAAAAATCATAAATTCATTACTCAATTCAAAGT
1 GTGCATCACTGAAAAATCATAAATTCATTACTCAATTCAAAGT
89222089 GTGCATCACTGAAAAATCATAAATTCATTACTCAATTCAAA
1 GTGCATCACTGAAAAATCATAAATTCATTACTCAATTCAAA
89222130 CTAAACTCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (43 bp):
GTGCATCACTGAAAAATCATAAATTCATTACTCAATTCAAAGT
Found at i:89225889 original size:51 final size:51
Alignment explanation
Indices: 89225804--89225981 Score: 236
Period size: 52 Copynumber: 3.5 Consensus size: 51
89225794 CGGATACCCC
* * * *
89225804 GTGGCCTGCACATAATACCACTCTTGTAGTCAAAGCTACTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACTTTCTTCACAAA
* *
89225855 GTGGCCTTCACATAGTACCACACTTTTGGCCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTA-CTTTCTTCACAAA
* * *
89225907 GTGGGCTTCACATAGTACCACACTTGTCA-CC-AAGCTA-TATCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGT-AGCCAAAGCTACTTTCTTCACAAA
89225956 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
89225982 AGTCACTAGT
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 35 0.31
51 38 0.34
52 40 0.35
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACTTTCTTCACAAA
Found at i:89230971 original size:27 final size:25
Alignment explanation
Indices: 89230937--89230987 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
89230927 CAACACCTAA
*
89230937 GGGCATTTTGGTCATTTTTGCCCTTAG
1 GGGCATTTTGGT-ATTATT-CCCTTAG
89230964 GGGCATTTTGGTATTATTCCCTTA
1 GGGCATTTTGGTATTATTCCCTTA
89230988 ATTACGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 5 0.22
27 12 0.52
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.45
Consensus pattern (25 bp):
GGGCATTTTGGTATTATTCCCTTAG
Found at i:89231321 original size:29 final size:29
Alignment explanation
Indices: 89231254--89231365 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 29
89231244 TGCATATGAT
* * *
89231254 CCACTAGGCCCAA-GCTTATTCAAATGGC
1 CCACTAGGCCCAATTCATATTCATATGGC
* * * *
89231282 CTATCT-TGCCCAGTTCATATTCTTATGGC
1 CCA-CTAGGCCCAATTCATATTCATATGGC
* *
89231311 CCACTAGGCCCAATTCACATTGATATGGC
1 CCACTAGGCCCAATTCATATTCATATGGC
* *
89231340 CCATTAGGCCCAAATCATATT-ATATG
1 CCACTAGGCCCAATTCATATTCATATG
89231366 CATGCTCACA
Statistics
Matches: 65, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
28 14 0.22
29 51 0.78
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CCACTAGGCCCAATTCATATTCATATGGC
Found at i:89231592 original size:16 final size:16
Alignment explanation
Indices: 89231571--89231609 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
89231561 CCCAACTTTT
89231571 AGCTTTTCAGCATTTC
1 AGCTTTTCAGCATTTC
*
89231587 AGCTTTTTAGCATTTC
1 AGCTTTTCAGCATTTC
*
89231603 GGCTTTT
1 AGCTTTT
89231610 GACGATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (16 bp):
AGCTTTTCAGCATTTC
Found at i:89232856 original size:16 final size:16
Alignment explanation
Indices: 89232831--89232863 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89232821 AAAAATTTAA
*
89232831 GATTTTGGGATTTTTG
1 GATTTCGGGATTTTTG
89232847 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
89232863 G
1 G
89232864 GGTGTTACAT
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:0.12, C:0.03, G:0.33, T:0.52
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:89241029 original size:27 final size:26
Alignment explanation
Indices: 89240989--89241100 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
89240979 AGGAAGCGTC
* *
89240989 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
89241016 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
89241043 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
89241071 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
89241097 CTGG
1 CTGG
89241101 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:89241093 original size:54 final size:54
Alignment explanation
Indices: 89240989--89241100 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
89240979 AGGAAGCGTC
* *
89240989 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
89241043 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
89241097 CTGG
1 CTGG
89241101 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:89244993 original size:28 final size:28
Alignment explanation
Indices: 89244961--89245059 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
89244951 GCAATAAGCC
*
89244961 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
89244989 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
89245017 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
89245046 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89245060 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:89253444 original size:71 final size:71
Alignment explanation
Indices: 89253360--89253523 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
89253350 CGATTTGTCT
89253360 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
89253425 CTTTCA
66 CTTTCA
* *
89253431 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
89253496 CTTTCA
66 CTTTCA
89253502 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
89253524 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:89253561 original size:71 final size:70
Alignment explanation
Indices: 89253360--89253557 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
89253350 CGATTTGTCT
* * * * *
89253360 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89253425 CTTTCA
65 CTTTCA
* * * *
89253431 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89253496 CTTTCA
65 CTTTCA
* *
89253502 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
89253558 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:89259229 original size:40 final size:40
Alignment explanation
Indices: 89259174--89259315 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
89259164 TATTCGAATG
89259174 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
89259214 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
89259254 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
89259294 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89259316 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.15
40 79 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:89262629 original size:34 final size:33
Alignment explanation
Indices: 89262585--89262663 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 33
89262575 CTGATTGCAT
* * *
89262585 TACTGTTACTGTTACTGTATTGGGCTAAGGCCC
1 TACTGATACTGATACTGTAATGGGCTAAGGCCC
*
89262618 ATACTGATACTGATACTGTAATGGGCTATGGCCC
1 -TACTGATACTGATACTGTAATGGGCTAAGGCCC
89262652 TAACTGATACTG
1 T-ACTGATACTG
89262664 GACTGTCACT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.03
34 39 0.98
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (33 bp):
TACTGATACTGATACTGTAATGGGCTAAGGCCC
Found at i:89264255 original size:42 final size:42
Alignment explanation
Indices: 89264154--89264315 Score: 182
Period size: 43 Copynumber: 3.8 Consensus size: 42
89264144 CAATGGCAAC
* * * *
89264154 GTCCCATACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATAT-GATGCCAAT
* *
89264197 GTCCCAGACAGGGTCTTACATGAAATCAAATATGATGTCAAT
1 GTCCCAGACATGGTCTTACATGAAATCAAATATGATGCCAAT
* *
89264239 GTCCCAGACATGGTCTTACATGTAGATCTCAAAT-TGATGCCAAC
1 GTCCCAGACATGGTCTTACATG-A-A-ATCAAATATGATGCCAAT
* * *
89264283 GTCCCAGACATGGTCATACACGAAATCACATAT
1 GTCCCAGACATGGTCTTACATGAAATCAAATAT
89264316 CGGAATCCTA
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
41 5 0.05
42 30 0.30
43 31 0.31
44 29 0.29
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATGATGCCAAT
Found at i:89264308 original size:86 final size:85
Alignment explanation
Indices: 89264154--89264315 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
89264144 CAATGGCAAC
* * * *
89264154 GTCCCATACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATG
1 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCATACACG
89264219 AAATCAAATATGATGTCAAT
66 AAATCAAATATGATGTCAAT
*
89264239 GTCCCAGACATGGTCTTACATGTAGATCTCAAAT-T-GATGCCAAC-GTCCCAGACATGGTCATA
1 GTCCCAGACATGGTCTTACATGTA-A--TCAAATATCGATGCC-ACTGTCCCAGACAGGGTCATA
*
89264301 CACGAAATCACATAT
62 CACGAAATCAAATAT
89264316 CGGAATCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 22 0.33
86 36 0.54
87 3 0.04
88 6 0.09
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCATACACG
AAATCAAATATGATGTCAAT
Found at i:89274954 original size:55 final size:55
Alignment explanation
Indices: 89274821--89274955 Score: 137
Period size: 55 Copynumber: 2.5 Consensus size: 55
89274811 CGACATGGCT
* * * * * * **
89274821 GTGGGCGAACCTACCAAAACAACACGGGCGTGCGACACGCCTGTGCCTTGAAACC
1 GTGGGCGAACCTGCTAAAATAACACGAGCATGCGACACGCCCGTGCCAAGAAACC
* * * * *
89274876 GTGGCCGAACCTG-TCAAATTAACACGAGCATGTGACACGCCCGTGGCAAGCAACC
1 GTGGGCGAACCTGCT-AAAATAACACGAGCATGCGACACGCCCGTGCCAAGAAACC
89274931 GTGGGCGAACCTGCTAAAATAACAC
1 GTGGGCGAACCTGCTAAAATAACAC
89274956 AGGCGTGGTC
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
55 62 0.98
56 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (55 bp):
GTGGGCGAACCTGCTAAAATAACACGAGCATGCGACACGCCCGTGCCAAGAAACC
Found at i:89282996 original size:27 final size:27
Alignment explanation
Indices: 89282965--89283137 Score: 231
Period size: 27 Copynumber: 6.4 Consensus size: 27
89282955 GGGGCAAAAT
* * *
89282965 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
89282992 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89283019 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
89283046 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89283073 GGTAATTCTATCCTACGAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
89283100 GGTAATTCTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
89283127 GGTAATTCTAC
1 GGTAATTCTAC
89283138 AACTTATTCA
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 2 0.02
27 127 0.98
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:89289813 original size:27 final size:26
Alignment explanation
Indices: 89289765--89289824 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
89289755 GCGAGGCTGC
*
89289765 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
89289792 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
89289818 CAGATAT
1 CAGATAT
89289825 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:89290537 original size:26 final size:26
Alignment explanation
Indices: 89290508--89290569 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
89290498 TCACACAAGT
*
89290508 TAGTCATTTATGCA-CAAGGGGCAAAA
1 TAGTCATTTA-ACACCAAGGGGCAAAA
*
89290534 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACA-CCAAGGGGCAAAA
*
89290561 TAGTAATTT
1 TAGTCATTT
89290570 TACCCCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 10 0.32
27 19 0.61
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (26 bp):
TAGTCATTTAACACCAAGGGGCAAAA
Found at i:89290592 original size:27 final size:27
Alignment explanation
Indices: 89290562--89290757 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
89290552 GGGGCAAAAT
* * *
89290562 AGTAATTTTACCCCACAAGGGTATCTC
1 AGTAATTCTACCCTACAAGGGTATTTC
89290589 AGTAATTCTACCCTAC-AGCGGTATTTC
1 AGTAATTCTACCCTACAAG-GGTATTTC
* * *
89290616 GGTATTTCTACCCTACAAGGGTATTTT
1 AGTAATTCTACCCTACAAGGGTATTTC
*
89290643 AGTAATTCTATCCTAC-AGGAGTATTTC
1 AGTAATTCTACCCTACAAGG-GTATTTC
* *
89290670 GGTAATTCTACCTTAC-AGGAGTATTTC
1 AGTAATTCTACCCTACAAGG-GTATTTC
* *
89290697 AATAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
* *
89290724 GGTAATTCTACCTTACAAGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
*
89290751 GGTAATT
1 AGTAATT
89290758 TTACAACTTT
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.03
27 135 0.94
28 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
AGTAATTCTACCCTACAAGGGTATTTC
Found at i:89290634 original size:54 final size:53
Alignment explanation
Indices: 89290563--89290757 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 53
89290553 GGGCAAAATA
* * *
89290563 GTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGCGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG-GGTATTTCG
* * *
89290617 GTATTTCTACCCTACAAGGGTATTTTAGTAATTCTATCCTACAGGAGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGG-GTATTTCG
* *
89290671 GTAATTCTACCTTAC-AGGAGTATTTCAATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCCTACA-GGGTATTTCG
* *
89290725 GTAATTCTACCTTACAAGGGTATTTCGGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATT
89290758 TTACAACTTT
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
53 4 0.03
54 115 0.93
55 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCG
Found at i:89292488 original size:9 final size:8
Alignment explanation
Indices: 89292470--89292503 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
89292460 ACTTGTTCTT
89292470 AAAAATAA
1 AAAAATAA
89292478 AAAAATAAA
1 AAAAAT-AA
89292487 AAAAATAA
1 AAAAATAA
89292495 AAAAATAA
1 AAAAATAA
89292503 A
1 A
89292504 TTTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:89292492 original size:17 final size:17
Alignment explanation
Indices: 89292470--89292503 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89292460 ACTTGTTCTT
89292470 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
89292487 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
89292504 TTTATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:89294527 original size:23 final size:22
Alignment explanation
Indices: 89294501--89294566 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 22
89294491 TGAGCTGATG
*
89294501 AACAGTAAGCTCTATCTAGCTAA
1 AACAGTAAGCTCTATCGAGCT-A
*
89294524 AACAGTAAGCTCTATCGAGCTG
1 AACAGTAAGCTCTATCGAGCTA
89294546 AACAGTAAGCTC-ATACGAGCT
1 AACAGTAAGCTCTAT-CGAGCT
89294567 GAAATGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.05
22 18 0.45
23 20 0.50
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (22 bp):
AACAGTAAGCTCTATCGAGCTA
Found at i:89294552 original size:22 final size:22
Alignment explanation
Indices: 89294499--89294569 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
89294489 CCTGAGCTGA
*
89294499 TGAACAGTAAGCTCTATCTAGC
1 TGAACAGTAAGCTCTATCGAGC
*
89294521 TAAAACAGTAAGCTCTATCGAGC
1 T-GAACAGTAAGCTCTATCGAGC
89294544 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
89294566 TGAA
1 TGAA
89294570 ATGATAAGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.05
22 22 0.50
23 20 0.45
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:89294578 original size:45 final size:45
Alignment explanation
Indices: 89294497--89294615 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 45
89294487 CTCCTGAGCT
* *
89294497 GATGAACAGTAAGCTCTATCTAGCT-AAAACAGTAAGCT-CTATCGA
1 GATGAACAGTAAGCTCTA-CGAGCTGAAAACAGTAAGCTCCAAT-GA
* **
89294542 GCTGAACAGTAAGCTCATACGAGCTGAAATGA-TAAGCTCCAATGA
1 GATGAACAGTAAGCTC-TACGAGCTGAAAACAGTAAGCTCCAATGA
89294587 GATGAAAACAGTAAGCTCTTACGAGCTGA
1 GATG--AACAGTAAGCTC-TACGAGCTGA
89294616 TATATCGGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
45 31 0.50
46 9 0.15
47 22 0.35
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (45 bp):
GATGAACAGTAAGCTCTACGAGCTGAAAACAGTAAGCTCCAATGA
Found at i:89300186 original size:28 final size:27
Alignment explanation
Indices: 89300123--89300225 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 27
89300113 ATAGTGAGTC
*
89300123 CGCACACTTAGTGCTATATAATTAACT
1 CGCACACTTAGTGCTATATAATAAACT
*
89300150 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAAT-AAACT
* * * *
89300178 CGCACACTTAGTACTGTACAAGTTTTAAACC
1 CGCACACTTAGTGCTATATAA----TAAACT
89300209 CGCACACTTAGTGCTAT
1 CGCACACTTAGTGCTAT
89300226 TCTCATGATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
27 21 0.34
28 21 0.34
31 19 0.31
32 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATAAACT
Done.