Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 150 of 373
Found at i:49755906 original size:25 final size:25
Alignment explanation
Indices: 49755854--49755924 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
49755844 CTCTTTTAAT
*
49755854 AACTGGGGCAAAGCCCTTTTTTGATA
1 AACTGGGGCAAAGCCC-TTTTCGATA
* *
49755880 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
** *
49755905 AACTACGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49755925 AGCACTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 23 0.61
26 15 0.39
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:49756797 original size:27 final size:27
Alignment explanation
Indices: 49756735--49756812 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
49756725 GGGCATATTC
49756735 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
49756762 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
49756789 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
49756813 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:49756890 original size:26 final size:26
Alignment explanation
Indices: 49756853--49756949 Score: 79
Period size: 26 Copynumber: 3.6 Consensus size: 26
49756843 GTAAATCTAC
49756853 AAACCAAGGGTATTTC-AGTAATTTGT
1 AAACCAAGGGTATTTCTA-TAATTTGT
* *
49756879 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTGT
* * *
49756905 AGAAAGTCAAGGCTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAA-TTTGT
* *
49756935 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
49756950 TGGTAATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 22 0.39
27 11 0.19
28 6 0.11
29 14 0.25
30 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTGT
Found at i:49756955 original size:27 final size:27
Alignment explanation
Indices: 49756940--49757038 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
49756930 TTTGTAAATC
49756940 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
49756966 TGAGGGTATTTCGGTAATTTCACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
49756994 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
49757021 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
49757039 CTACCCTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.02
27 60 0.95
28 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:49756960 original size:55 final size:53
Alignment explanation
Indices: 49756838--49757018 Score: 159
Period size: 54 Copynumber: 3.3 Consensus size: 53
49756828 TACAAGGGTG
* * * *
49756838 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAA-TTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTA
* * * * *
49756891 TTTCT-ATAATTTTTAGAAAGTCAAGGCTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTA
** * ***
49756947 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC-AGTGGTA
49757001 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
49757019 CTAGGGGTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
53 7 0.07
54 51 0.50
55 24 0.24
56 20 0.20
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAACAGTGGTA
Found at i:49757100 original size:27 final size:27
Alignment explanation
Indices: 49757070--49757161 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
49757060 ATAATTTCAC
* **
49757070 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAATAGTAATTTTGTA
49757097 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCAAGGGTAAAATAGTAATTTTGTA
* *
49757124 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCAAGGGTAAAATAGTAATTTTGTA
*
49757151 AATCGAGGGTA
1 AATCAAGGGTA
49757162 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCAAGGGTAAAATAGTAATTTTGTA
Found at i:49765239 original size:15 final size:15
Alignment explanation
Indices: 49765219--49765250 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49765209 AATACAAAAG
49765219 GCACGTGACTTAATA
1 GCACGTGACTTAATA
49765234 GCACGTGACTTAATA
1 GCACGTGACTTAATA
49765249 GC
1 GC
49765251 TTACTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (15 bp):
GCACGTGACTTAATA
Found at i:49765388 original size:24 final size:24
Alignment explanation
Indices: 49765361--49765441 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
49765351 AACTCATCAC
49765361 TTACTTAATACTTGATAATCTCAA
1 TTACTTAATACTTGATAATCTCAA
** * *
49765385 TTACTTACA-ATCTCAAT-ATCAATTAC
1 TTACTTA-ATA-CTTGATAATC--TCAA
49765411 TTACTTAATACTTGATAATCTCAA
1 TTACTTAATACTTGATAATCTCAA
49765435 TTACTTA
1 TTACTTA
49765442 CAATCTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
24 20 0.47
25 10 0.23
26 13 0.30
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (24 bp):
TTACTTAATACTTGATAATCTCAA
Found at i:49765398 original size:16 final size:16
Alignment explanation
Indices: 49765377--49765458 Score: 78
Period size: 16 Copynumber: 5.0 Consensus size: 16
49765367 AATACTTGAT
49765377 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
*
49765393 AATCTCAATATCAATTAC
1 AATCTCAAT-T-ACTTAC
* * *
49765411 -TTACTTAA-TACTTGAT
1 AAT-CTCAATTACTT-AC
49765427 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
49765443 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
49765459 TTACTTAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.06
16 32 0.62
17 8 0.15
18 9 0.17
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (16 bp):
AATCTCAATTACTTAC
Found at i:49765409 original size:22 final size:22
Alignment explanation
Indices: 49765381--49765451 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
49765371 CTTGATAATC
49765381 TCAATTACTTACAATCTCAATA
1 TCAATTACTTACAATCTCAATA
* *
49765403 TCAATTACTTACTTAATACTTGATAATC
1 TCAATTACTTAC--AAT-C-T--CAATA
49765431 TCAATTACTTACAATCTCAAT
1 TCAATTACTTACAATCTCAAT
49765452 TACTTACTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
22 15 0.38
24 4 0.10
25 2 0.05
26 4 0.10
28 15 0.38
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.39
Consensus pattern (22 bp):
TCAATTACTTACAATCTCAATA
Found at i:49765432 original size:50 final size:48
Alignment explanation
Indices: 49765359--49765470 Score: 188
Period size: 50 Copynumber: 2.3 Consensus size: 48
49765349 AAAACTCATC
49765359 ACTTACTTAATACTTGATAATCTCAATTACTTACAATCTCAATATCAATT
1 ACTTACTTAATACTTGATAATCTCAATTACTTACAATCTCAAT-T-AATT
*
49765409 ACTTACTTAATACTTGATAATCTCAATTACTTACAATCTCAATTACTT
1 ACTTACTTAATACTTGATAATCTCAATTACTTACAATCTCAATTAATT
*
49765457 ACTTACTTAGTACT
1 ACTTACTTAATACT
49765471 CTTTCTTCAT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 16 0.27
49 1 0.02
50 43 0.72
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (48 bp):
ACTTACTTAATACTTGATAATCTCAATTACTTACAATCTCAATTAATT
Found at i:49765665 original size:55 final size:53
Alignment explanation
Indices: 49765553--49765726 Score: 176
Period size: 55 Copynumber: 3.2 Consensus size: 53
49765543 AACTTACCAT
* *
49765553 TGGTCTTACGTGGTATCC-TTGCCTTAT-GAACTCACCAATG-TCATGCTTTGGCA
1 TGGTCTTACATGGTA-CCTTTGCCTTATAGAACTCATCAATGCT-ATGC-TTGGCA
* *
49765606 TGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCTATGTCTTGACA
1 TGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATGCTATG-CTTGGCA
* * * *
49765661 TGGTCTTACATGATTTCCTTT-CCTTATAGAACTTATCAATGCCATGCCTTGGCA
1 TGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAATGCTATG-CTTGGCA
*
49765715 TGGTCTCACATG
1 TGGTCTTACATG
49765727 ATATCCTTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
52 2 0.02
53 22 0.21
54 33 0.32
55 39 0.38
56 7 0.07
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
TGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGCTATGCTTGGCA
Found at i:49765726 original size:54 final size:54
Alignment explanation
Indices: 49765553--49765734 Score: 206
Period size: 54 Copynumber: 3.4 Consensus size: 54
49765543 AACTTACCAT
* * * * * *
49765553 TGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGTCATGCTTTGGCA
1 TGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGCCATGCCTTGGCA
** * * *
49765606 TGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGCTATGTCTTGACA
1 TGGTCTTACATGATATCCTTT-CCTTATAG-AACTCATCAATGCCATGCCTTGGCA
* *
49765661 TGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAATGCCATGCCTTGGCA
1 TGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGCCATGCCTTGGCA
*
49765715 TGGTCTCACATGATATCCTT
1 TGGTCTTACATGATATCCTT
49765735 ATCTTACCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.04
53 19 0.18
54 40 0.37
55 39 0.36
56 5 0.05
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
TGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGCCATGCCTTGGCA
Found at i:49765993 original size:44 final size:44
Alignment explanation
Indices: 49765927--49766010 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
49765917 TCCTTAACCG
* *
49765927 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* * *
49765971 TCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
49766011 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:49766589 original size:30 final size:31
Alignment explanation
Indices: 49766550--49766607 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
49766540 CTAACTCAAA
*
49766550 CTTTGGCAAAATTACAATTTTTCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTACCCCTAAAC
**
49766581 CTTT-GCAAAATTATGATTTTACCCCTA
1 CTTTGGCAAAATTACAATTTTACCCCTA
49766608 GGCTCGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTACCCCTAAAC
Found at i:49768465 original size:10 final size:10
Alignment explanation
Indices: 49768450--49768492 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
49768440 CAATTCACTA
49768450 ACCAAATCAT
1 ACCAAATCAT
*
49768460 ACCAAATCTAA
1 ACCAAATC-AT
49768471 ACCAAAATCAT
1 ACC-AAATCAT
*
49768482 ACCAAAGCAT
1 ACCAAATCAT
49768492 A
1 A
49768493 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:49769318 original size:42 final size:42
Alignment explanation
Indices: 49769217--49769376 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 42
49769207 CGCTCGTACA
* ** * * *
49769217 ATGCCAACATCCCAGAAATGGTCTTACATATAATCAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
*
49769260 ATGCC-ACTGTCTCAGACAG-GGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAATACG
* *
49769302 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCA-AA-TACG
*
49769346 ATACCAACGTCCCAGACGTGGTCTTACACAA
1 ATGCCAACGTCCCAGACGTGGTCTTACACAA
49769377 TAACACATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 38 0.39
44 31 0.32
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:49771341 original size:57 final size:57
Alignment explanation
Indices: 49771232--49771347 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
49771222 TGTGAAGCCC
* * * **
49771232 ATTGATTTATAGGAATAGCATTAATTACCAAAGCTATTGATAATGATGATTAAATGT
1 ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATAACGACAATTAAATGT
* *
49771289 ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATGACGGCAATTAAATGT
1 ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATAACGACAATTAAATGT
49771346 AT
1 AT
49771348 ACCTCAGAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (57 bp):
ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATAACGACAATTAAATGT
Found at i:49780699 original size:46 final size:45
Alignment explanation
Indices: 49780649--49780824 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
49780639 TGGTTGAACA
*
49780649 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
49780695 TCCGAACTCGTTGAGTTGAGTCCGATTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
49780742 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
49780788 -CTCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49780825 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:49787876 original size:12 final size:12
Alignment explanation
Indices: 49787859--49787888 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49787849 AACACACGCT
*
49787859 GTGTGGTAGGCC
1 GTGTGGCAGGCC
49787871 GTGTGGCAGGCC
1 GTGTGGCAGGCC
49787883 GTGTGG
1 GTGTGG
49787889 AAGCACACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.17, G:0.53, T:0.23
Consensus pattern (12 bp):
GTGTGGCAGGCC
Found at i:49788074 original size:22 final size:22
Alignment explanation
Indices: 49788049--49788093 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
49788039 TTAACCACAC
*
49788049 GAGCGTGTGGAATTTTGGACCA
1 GAGCGTGTGGAATTCTGGACCA
*
49788071 GAGCGTGTGGAATTCTGGGCCA
1 GAGCGTGTGGAATTCTGGACCA
49788093 G
1 G
49788094 GCCGTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GAGCGTGTGGAATTCTGGACCA
Found at i:49796570 original size:13 final size:13
Alignment explanation
Indices: 49796552--49796576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49796542 GGTTTGTTTA
49796552 TTAAACTAATTAT
1 TTAAACTAATTAT
49796565 TTAAACTAATTA
1 TTAAACTAATTA
49796577 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:49799859 original size:64 final size:66
Alignment explanation
Indices: 49799778--49799939 Score: 186
Period size: 67 Copynumber: 2.5 Consensus size: 66
49799768 AGACATTATG
* * * * *
49799778 ATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
49799841 T
66 A
* * *
49799842 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
49799907 AA
65 AA
* *
49799909 AT-TGGCTAGGTCACATGGGTGGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG
49799940 TTCTCCATGT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
64 23 0.29
66 24 0.30
67 33 0.41
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:49815424 original size:68 final size:66
Alignment explanation
Indices: 49815346--49815517 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
49815336 CATCAAGTGT
* * * *
49815346 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
49815409 TGTAG
62 TGTAG
** * *
49815414 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
49815479 AG
65 AG
* * * *
49815481 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
49815518 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:49815451 original size:64 final size:64
Alignment explanation
Indices: 49815370--49815553 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
49815360 AGACATTATG
* * *
49815370 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
49815434 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
49815499 AA
63 AA
* * *
49815501 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
49815554 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:49817598 original size:34 final size:34
Alignment explanation
Indices: 49817554--49817623 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
49817544 TTTTTAAGAG
*
49817554 CAAATCAAGTCGATACAATATATAAATCATACTT
1 CAAATCAAGTCGATACAATATAGAAATCATACTT
*
49817588 CAAATTAAGTCGATACAATATAGAAATCATACTT
1 CAAATCAAGTCGATACAATATAGAAATCATACTT
49817622 CA
1 CA
49817624 TGATTCAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (34 bp):
CAAATCAAGTCGATACAATATAGAAATCATACTT
Found at i:49817732 original size:8 final size:8
Alignment explanation
Indices: 49817719--49817747 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
49817709 ATTTCAACAA
49817719 TAATGGGT
1 TAATGGGT
49817727 TAATGGGT
1 TAATGGGT
49817735 TAATGGGT
1 TAATGGGT
49817743 TAATG
1 TAATG
49817748 ATGACGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TAATGGGT
Found at i:49818702 original size:6 final size:6
Alignment explanation
Indices: 49818693--49818755 Score: 94
Period size: 6 Copynumber: 10.7 Consensus size: 6
49818683 TATGCCTTTC
49818693 AAAATA AAAAT- AAAAT- AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
49818739 AAACTAA AAAATA AAAA
1 AAAAT-A AAAATA AAAA
49818756 ATAGGAGGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
5 10 0.19
6 38 0.72
7 5 0.09
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:49826083 original size:42 final size:41
Alignment explanation
Indices: 49825977--49826096 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
49825967 ATCTGTGTCA
* *
49825977 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* *
49826019 TATGTATAAGACCATGTCTGGGACATC-GGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* * *
49826062 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
49826097 ATTGAATTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 31 0.48
44 3 0.05
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:49827236 original size:27 final size:27
Alignment explanation
Indices: 49827195--49827349 Score: 211
Period size: 27 Copynumber: 5.7 Consensus size: 27
49827185 TGGATAAGTT
*
49827195 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
**
49827222 GTAGAAATATTGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
* *
49827249 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
* * *
49827276 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
*
49827303 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
* *
49827330 GTAGAATTACCGAGATACCC
1 GTAGAAATACCGAAATACCC
49827350 TTATGGGTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
GTAGAAATACCGAAATACCCCTGTAGG
Found at i:49827331 original size:81 final size:81
Alignment explanation
Indices: 49827196--49827349 Score: 254
Period size: 81 Copynumber: 1.9 Consensus size: 81
49827186 GGATAAGTTG
***
49827196 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAGAATTACCA
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCA
49827261 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
* *
49827277 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCA
*
49827342 AGATACCC
66 AAATACCC
49827350 TTATGGGTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCA
AAATACCCCTGTAGGA
Found at i:49827350 original size:54 final size:54
Alignment explanation
Indices: 49827195--49827368 Score: 242
Period size: 54 Copynumber: 3.2 Consensus size: 54
49827185 TGGATAAGTT
* * ** *
49827195 GTAGAATTACCGAAATACCCCTGTAGGGTAGAAATATTGAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
*
49827249 GTAGAATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * *
49827303 GTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTAT-GG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
*
49827356 GTTAAAATTACCA
1 G-TAGAATTACCA
49827369 TTTTGCCCCT
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.03
54 104 0.97
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:49827365 original size:81 final size:81
Alignment explanation
Indices: 49827199--49827367 Score: 239
Period size: 81 Copynumber: 2.1 Consensus size: 81
49827189 TAAGTTGTAG
***
49827199 AATTACCGAAATACCCCTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAGAATTACCAAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCAAAA
* *
49827264 TACCCCTGTAGGATAG
66 TACCCCTATAGGATAA
* * *
49827280 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCAAAA
* * *
49827345 TACCCTTATGGGTTAA
66 TACCCCTATAGGATAA
49827361 AATTACC
1 AATTACC
49827368 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCAAAA
TACCCCTATAGGATAA
Found at i:49828154 original size:27 final size:26
Alignment explanation
Indices: 49828102--49828160 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
49828092 CCACATACAT
*
49828102 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
49828128 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
49828155 ATATCT
1 ATATCT
49828161 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:49834801 original size:27 final size:27
Alignment explanation
Indices: 49834767--49834966 Score: 215
Period size: 27 Copynumber: 7.4 Consensus size: 27
49834757 TGGATAAGTT
*
49834767 GTAGAATTATCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAAG
*
49834794 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCTTGTAAG
** * *
49834820 AGTAGAATTATTGAAATACCTTTGTAGG
1 -GTAGAATTACCGAAATACCCTTGTAAG
*
49834848 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCTTGTAAG
* *
49834874 GATAGAATTACCGAAATACCCTTATAGG
1 G-TAGAATTACCGAAATACCCTTGTAAG
* * * *
49834902 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAAG
* **
49834929 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAAG
*
49834956 GTAAAATTACC
1 GTAGAATTACC
49834967 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.03
27 137 0.95
28 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAAG
Found at i:49834845 original size:54 final size:53
Alignment explanation
Indices: 49834767--49834966 Score: 274
Period size: 54 Copynumber: 3.7 Consensus size: 53
49834757 TGGATAAGTT
*
49834767 GTAGAATTATCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAG
* *
49834820 AGTAGAATTATTGAAATACCTTTGTAGGGTAGAATTACCGAAATACCCCTGTAG
1 -GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAG
* * * *
49834874 GATAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAATACCCCTGTAGG
1 G-TAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTA-G
* * * *
49834929 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACC
49834967 ATTTTGCCCC
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 127 0.98
55 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (53 bp):
GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAG
Found at i:49834906 original size:81 final size:80
Alignment explanation
Indices: 49834767--49834966 Score: 247
Period size: 81 Copynumber: 2.5 Consensus size: 80
49834757 TGGATAAGTT
* * * **
49834767 GTAGAATTATCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGAGTAGAATTATT
1 GTAGAATTACCGAAATACCCTTGT-AGGTAGAATTACCGAAATACCCCTATAGAGTAGAAATACC
* **
49834832 GAAATACCTTTGTAGG
65 AAAATACCCCTGTAGG
* * *
49834848 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTATAGGGTAGAAATACC
1 GTAGAATTACCGAAATACCCTTGTAGG-TAGAATTACCGAAATACCCCTATAGAGTAGAAATACC
49834913 AAAATACCCCTGTAGG
65 AAAATACCCCTGTAGG
* * *
49834929 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTACCGAAATACCCTTGT-AGGTAGAATTACC
49834967 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 3 0.03
81 97 0.95
82 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (80 bp):
GTAGAATTACCGAAATACCCTTGTAGGTAGAATTACCGAAATACCCCTATAGAGTAGAAATACCA
AAATACCCCTGTAGG
Found at i:49835749 original size:27 final size:27
Alignment explanation
Indices: 49835708--49835768 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
49835698 CCACATACAT
* *
49835708 ATATCTG-CTCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
49835734 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
49835761 ATATCTGT
1 ATATCTGT
49835769 TGGGTGGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:49843405 original size:42 final size:43
Alignment explanation
Indices: 49843346--49843461 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
49843336 GTCTGTGACA
*
49843346 TCGTGTAAGACCGTGTCTGGGACATCGGCATCGCAT-CTG-ATT
1 TCGTGTAAGACCCTGTCTGGGACATCGGCATCG-ATACTGAATT
** *
49843388 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCCTGTCTGGGACATCGGCATCGATACTGAATT
* * *
49843431 ACATGTAAGACCAC-GTCTGGGACGTCGGCAT
1 TCGTGTAAGACC-CTGTCTGGGACATCGGCAT
49843462 TGTACTTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 27 0.44
44 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGTGTAAGACCCTGTCTGGGACATCGGCATCGATACTGAATT
Found at i:49845787 original size:79 final size:80
Alignment explanation
Indices: 49845689--49845871 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
49845679 TACTCGTTCA
* *
49845689 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCAG
* *
49845752 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
** *
49845769 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
*
49845833 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
49845848 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49845872 CATCATTTGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCAC
Found at i:49845871 original size:40 final size:40
Alignment explanation
Indices: 49845668--49845871 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
49845658 CGGAATTTAA
** *
49845668 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49845708 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49845748 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49845787 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
49845827 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49845867 CCGGA
1 CCGGA
49845872 CATCATTTGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49848001 original size:25 final size:25
Alignment explanation
Indices: 49847954--49848002 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49847944 CTATTTTACA
* **
49847954 TTAATAAAACTAACACAGTTTTTTT
1 TTAAAAAAACTAACACAAATTTTTT
*
49847979 TTAAAAAAATTAACACAAATTTTT
1 TTAAAAAAACTAACACAAATTTTT
49848003 AATTAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (25 bp):
TTAAAAAAACTAACACAAATTTTTT
Found at i:49851293 original size:28 final size:28
Alignment explanation
Indices: 49851261--49851386 Score: 153
Period size: 28 Copynumber: 4.5 Consensus size: 28
49851251 CAAAAAAGCG
* * *
49851261 AAGTCCACCAAGGACTATCTTAAGAGGA
1 AAGTCTACCAAGGACCATCGTAAGAGGA
*
49851289 AAGTCTACCAAGGACCATCGTAAGTGGA
1 AAGTCTACCAAGGACCATCGTAAGAGGA
* *
49851317 AAGTCTACCAAGGACCATCGTGAGTGGA
1 AAGTCTACCAAGGACCATCGTAAGAGGA
* * * *
49851345 AAGTCCACCAAGGACTATCATAAGAGGG
1 AAGTCTACCAAGGACCATCGTAAGAGGA
*
49851373 AAGTCTGCCAAGGA
1 AAGTCTACCAAGGA
49851387 TAAGTGGAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (28 bp):
AAGTCTACCAAGGACCATCGTAAGAGGA
Found at i:49856332 original size:36 final size:39
Alignment explanation
Indices: 49856264--49856336 Score: 125
Period size: 36 Copynumber: 1.9 Consensus size: 39
49856254 TTGTTATGTT
49856264 ATATATGTAATATGTTTCTCTTTTTTTTTACATATATTG
1 ATATATGTAATATGTTTCTCTTTTTTTTTACATATATTG
49856303 ATATATGTAATATG-TT-TC-TTTTTTTTACATATAT
1 ATATATGTAATATGTTTCTCTTTTTTTTTACATATAT
49856337 CTTTTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 16 0.47
37 2 0.06
38 2 0.06
39 14 0.41
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (39 bp):
ATATATGTAATATGTTTCTCTTTTTTTTTACATATATTG
Found at i:49868897 original size:26 final size:25
Alignment explanation
Indices: 49868825--49868908 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
49868815 TTGGAGGCCT
*
49868825 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
49868849 AGCCCTTTTGATAAACTGCGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
49868874 AGCCCTTTTCGGA-AAACTGGGGCAAA
1 AGCCCTTTT--GATAAACTGGGGCAAA
*
49868900 AACCCTTTT
1 AGCCCTTTT
49868909 TGCACTTCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.13
24 12 0.23
25 11 0.21
26 20 0.38
27 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:49868979 original size:20 final size:20
Alignment explanation
Indices: 49868956--49869002 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
49868946 TTATGAATAC
49868956 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49868976 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49868996 ATCATGT
1 ATCATGT
49869003 ATATCAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49875866 original size:31 final size:31
Alignment explanation
Indices: 49875823--49875886 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
49875813 CCTTTTCATA
*
49875823 TTTCATATTTCATAACACTTGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
* ** *
49875854 TTTCCTATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
49875885 TT
1 TT
49875887 ACTGTAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:49876118 original size:25 final size:25
Alignment explanation
Indices: 49876067--49876151 Score: 84
Period size: 24 Copynumber: 3.4 Consensus size: 25
49876057 CTAGCAGCTT
* * *
49876067 AGCCTCTTTTAATATACTGGGGC-AA
1 AGCC-CTTTTGATAAACCGGGGCAAA
*
49876092 AGCCGTTTTGATAAACCGGGGCAAA
1 AGCCCTTTTGATAAACCGGGGCAAA
* *
49876117 AGCCCTTTTTGGTAAACTGGGG-AAA
1 AGCCC-TTTTGATAAACCGGGGCAAA
49876142 AGCCCTTTTG
1 AGCCCTTTTG
49876152 CACTTCCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
24 19 0.37
25 18 0.35
26 14 0.27
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACCGGGGCAAA
Found at i:49876133 original size:26 final size:26
Alignment explanation
Indices: 49876085--49876150 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
49876075 TTAATATACT
*
49876085 GGGGC-AAAG-CCGTTTTGATAAACC
1 GGGGCAAAAGCCCTTTTTGATAAACC
* *
49876109 GGGGCAAAAGCCCTTTTTGGTAAACT
1 GGGGCAAAAGCCCTTTTTGATAAACC
49876135 GGGG-AAAAGCCCTTTT
1 GGGGCAAAAGCCCTTTT
49876151 GCACTTCCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.14
25 16 0.43
26 16 0.43
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (26 bp):
GGGGCAAAAGCCCTTTTTGATAAACC
Found at i:49876220 original size:20 final size:20
Alignment explanation
Indices: 49876197--49876243 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
49876187 TTATGAATAC
49876197 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49876217 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49876237 ATCATGT
1 ATCATGT
49876244 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49881212 original size:20 final size:20
Alignment explanation
Indices: 49881176--49881217 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
49881166 TGAGCAGGGA
*
49881176 CATCGAAGTGTATACAGAGG
1 CATCGAAGTGGATACAGAGG
49881196 CATCGAAGTGCGA-ACAGAGG
1 CATCGAAGTG-GATACAGAGG
49881216 CA
1 CA
49881218 CCAAAGTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (20 bp):
CATCGAAGTGGATACAGAGG
Found at i:49881224 original size:20 final size:20
Alignment explanation
Indices: 49881189--49881226 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49881179 CGAAGTGTAT
* *
49881189 ACAGAGGCATCGAAGTGCGA
1 ACAGAGGCACCAAAGTGCGA
49881209 ACAGAGGCACCAAAGTGC
1 ACAGAGGCACCAAAGTGC
49881227 AAATCCTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.24, G:0.32, T:0.08
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTGCGA
Found at i:49883979 original size:28 final size:29
Alignment explanation
Indices: 49883948--49884003 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
49883938 CCGAAATACT
49883948 GATAT-CATGGCCCAAAGCCAAATCAGTC
1 GATATGCATGGCCCAAAGCCAAATCAGTC
49883976 GATATGCATGGCCCAAAGCCAAATCAGT
1 GATATGCATGGCCCAAAGCCAAATCAGT
49884004 TTATCTCGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (29 bp):
GATATGCATGGCCCAAAGCCAAATCAGTC
Found at i:49888006 original size:27 final size:27
Alignment explanation
Indices: 49887976--49888153 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49887966 ATATTGAGTC
* * * *
49887976 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49888003 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49888030 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49888058 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49888085 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49888112 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49888139 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49888154 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49888115 original size:82 final size:81
Alignment explanation
Indices: 49887997--49888152 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49887987 TGCTATATAA
* *
49887997 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49888062 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49888079 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49888143 CACTTAGTGC
65 CACTTAGTGC
49888153 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49893417 original size:19 final size:19
Alignment explanation
Indices: 49893393--49893434 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
49893383 CAGAGGCCCC
49893393 CCTCTGACTACCACCCCTG
1 CCTCTGACTACCACCCCTG
49893412 CCTCTGACTACCACCCCTG
1 CCTCTGACTACCACCCCTG
49893431 CCTC
1 CCTC
49893435 CTAACATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.55, G:0.10, T:0.21
Consensus pattern (19 bp):
CCTCTGACTACCACCCCTG
Found at i:49894902 original size:27 final size:27
Alignment explanation
Indices: 49894872--49895049 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
49894862 ATATTGAGTC
* *
49894872 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49894899 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49894926 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49894954 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49894981 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
49895008 CGTACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
49895035 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49895050 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49895015 original size:82 final size:81
Alignment explanation
Indices: 49894893--49895048 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
49894883 TGCTATATAA
* *
49894893 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49894958 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
49894975 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGTACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49895039 CACTTAGTGC
65 CACTTAGTGC
49895049 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49897202 original size:29 final size:29
Alignment explanation
Indices: 49897145--49897280 Score: 181
Period size: 29 Copynumber: 4.8 Consensus size: 29
49897135 TACAGGTATC
*
49897145 TGGCCCATTAAGCCC-AATCA--TATTCATA
1 TGGCCCATTAGGCCCAAATCACCTA-T-ATA
49897173 TGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACCTATATA
*
49897202 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACCTATATA
* *
49897231 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACCTATATA
*
49897260 TGGCCCGTTAGGCCC-AATCAC
1 TGGCCCATTAGGCCCAAATCAC
49897281 GTTCATATTC
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
28 20 0.20
29 77 0.77
30 1 0.01
31 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACCTATATA
Found at i:49897238 original size:58 final size:57
Alignment explanation
Indices: 49897145--49897288 Score: 200
Period size: 58 Copynumber: 2.5 Consensus size: 57
49897135 TACAGGTATC
* * *
49897145 TGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATATATA
* *
49897202 TGGCCCATTAGGCCCAAATCACCTGT-ATATGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATATGGCCCATTAGGCCCAAATCACATATATA
* *
49897260 TGGCCCGTTAGGCCCAATCACGTTCATAT
1 TGGCCCATTAGGCCCAATCACATTCATAT
49897289 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
56 1 0.01
57 25 0.32
58 50 0.65
59 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (57 bp):
TGGCCCATTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATATATA
Found at i:49901784 original size:29 final size:29
Alignment explanation
Indices: 49901709--49901826 Score: 127
Period size: 29 Copynumber: 4.1 Consensus size: 29
49901699 TACTGGTATT
*
49901709 TGGCCCATTAAGCCC-AATCA--TATTCATA
1 TGGCCCATTAGGCCCAAATCACCTA-T-ATA
*
49901737 TGGCCTATT-GGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACCTATATA
* *
49901765 TGGCCCATTAGGCCCAAATCGCCTGTATA
1 TGGCCCATTAGGCCCAAATCACCTATATA
* * *
49901794 TGGCCCATTAGGCCCAAAACACATTTATA
1 TGGCCCATTAGGCCCAAATCACCTATATA
49901823 TGGC
1 TGGC
49901827 TCGTTAAGAC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
27 4 0.05
28 24 0.31
29 47 0.61
30 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACCTATATA
Found at i:49910079 original size:46 final size:46
Alignment explanation
Indices: 49909911--49910086 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
49909901 TGTAACCCGC
* * *
49909911 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * * *
49909957 CCATAAGTGAACTCGGACTCAACTCAACGAACTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
49910003 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
49910050 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49910087 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 34 0.33
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:49912512 original size:30 final size:30
Alignment explanation
Indices: 49912468--49912556 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
49912458 CAAAGATAAC
49912468 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
49912497 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
49912527 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
49912557 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:49912516 original size:15 final size:15
Alignment explanation
Indices: 49912468--49912547 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
49912458 CAAAGATAAC
*
49912468 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
49912482 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
49912497 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
49912512 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
49912527 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
49912542 AAGAAA
1 AAGAAA
49912548 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49912556 original size:15 final size:15
Alignment explanation
Indices: 49912479--49912556 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
49912469 AGAAAACCGA
49912479 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
49912494 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
49912508 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
49912523 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
49912539 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49912554 ATA
1 ATA
49912557 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49913413 original size:43 final size:44
Alignment explanation
Indices: 49913351--49913439 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
49913341 ACCACTTTGG
49913351 TAAGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
1 TAAGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
49913395 TAAGGGGA-GGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
1 TAAGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
49913438 TA
1 TA
49913440 CACATATGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 37 0.82
44 8 0.18
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (44 bp):
TAAGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
Found at i:49915750 original size:93 final size:93
Alignment explanation
Indices: 49915618--49915789 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
49915608 GCCCATAAGT
* * * *
49915618 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
49915683 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
49915711 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
49915776 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
49915790 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:49915785 original size:46 final size:46
Alignment explanation
Indices: 49915610--49915785 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
49915600 TGTAACCCGC
* * * *
49915610 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * * * *
49915656 CCATAAGTGAACTCAGACTCAACTTAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
49915702 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
49915749 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49915786 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 72 0.69
47 32 0.31
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:49920559 original size:33 final size:33
Alignment explanation
Indices: 49920522--49920588 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
49920512 GCAAGAAGGA
49920522 AAAAAGTATTCGGCTTAGAGCAGTAAAAAAAGT
1 AAAAAGTATTCGGCTTAGAGCAGTAAAAAAAGT
**
49920555 AAAAAGTATTCGGCTTAGAGCAGTGCAAAAAGT
1 AAAAAGTATTCGGCTTAGAGCAGTAAAAAAAGT
49920588 A
1 A
49920589 CTTACCGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.21
Consensus pattern (33 bp):
AAAAAGTATTCGGCTTAGAGCAGTAAAAAAAGT
Found at i:49921924 original size:30 final size:30
Alignment explanation
Indices: 49921888--49921951 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
49921878 AATTCTTGGA
*
49921888 ACACTTAGAAAATTTTACAAAATACAAGGG
1 ACACTTACAAAATTTTACAAAATACAAGGG
*
49921918 ACACTTACAAAATTTTACAAAATACAGGGG
1 ACACTTACAAAATTTTACAAAATACAAGGG
49921948 ACAC
1 ACAC
49921952 ACGCCCGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.22
Consensus pattern (30 bp):
ACACTTACAAAATTTTACAAAATACAAGGG
Found at i:49925840 original size:16 final size:17
Alignment explanation
Indices: 49925809--49925845 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
49925799 CGATCACCCA
49925809 CTTTCTGGCATTTCAGC
1 CTTTCTGGCATTTCAGC
*
49925826 CTTTC-GGCTTTTCAGC
1 CTTTCTGGCATTTCAGC
49925842 CTTT
1 CTTT
49925846 GCAGTTTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.08, C:0.30, G:0.16, T:0.46
Consensus pattern (17 bp):
CTTTCTGGCATTTCAGC
Found at i:49927948 original size:21 final size:20
Alignment explanation
Indices: 49927911--49927952 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
49927901 TACTCAAGGA
*
49927911 AAGCCGATTGATCCATCTCAG
1 AAGCCGATTCATCCATC-CAG
49927932 AAGCCGGATTCAT-CATCCAG
1 AAGCC-GATTCATCCATCCAG
49927952 A
1 A
49927953 TTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCCAG
Found at i:49933629 original size:11 final size:11
Alignment explanation
Indices: 49933615--49933639 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49933605 TTCATTTTCC
49933615 TTTAATATTAT
1 TTTAATATTAT
49933626 TTTAATATTAT
1 TTTAATATTAT
49933637 TTT
1 TTT
49933640 TTATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:49939943 original size:24 final size:24
Alignment explanation
Indices: 49939894--49939950 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
49939884 AAATTAATTT
*
49939894 AATTATCTAAAAACCATAGTAAAA
1 AATTATCGAAAAACCATAGTAAAA
* *
49939918 AATTATCGATAAACCAT-GTCATAA
1 AATTATCGAAAAACCATAGT-AAAA
49939942 AATT-TCGAA
1 AATTATCGAA
49939951 GAGATTAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (24 bp):
AATTATCGAAAAACCATAGTAAAA
Found at i:49942739 original size:28 final size:28
Alignment explanation
Indices: 49942699--49942910 Score: 221
Period size: 28 Copynumber: 7.6 Consensus size: 28
49942689 CTTTGAAAAT
* *
49942699 GAAAGCTTTTGTGGCAAACCTCTGGAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* *
49942727 GAAACCCTTTGTGGCAAACCTCTAAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* **
49942755 AAAAGCCTTTGTGGTGAACCTCTGAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
*
49942783 GAAAGCCTTTGTGGCAAACCTCTAAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* ** *
49942811 AAAAGCCTTTGTGGTGAACCTCTGAAAG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* * *
49942839 GAAAGCC-TTATGGCGAACCTCTAAAAGG
1 GAAAGCCTTTGTGGCAAACCTCT-GAAGG
* * * *
49942867 G-AAGCTTTTGTGGCGAACCTTTGAAAG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
*
49942894 GAAAGCTTTTGTGGCAA
1 GAAAGCCTTTGTGGCAA
49942911 TTTCTAAACA
Statistics
Matches: 152, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
27 21 0.14
28 131 0.86
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (28 bp):
GAAAGCCTTTGTGGCAAACCTCTGAAGG
Found at i:49942767 original size:56 final size:56
Alignment explanation
Indices: 49942700--49942910 Score: 273
Period size: 56 Copynumber: 3.8 Consensus size: 56
49942690 TTTGAAAATG
* * * * *
49942700 AAAGCTTTTGTGGCAAACCTCTGGAGGGAAACCCTTTGTGGCAAACCTCTAAAGGA
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
* *
49942756 AAAGCCTTTGTGGTGAACCTCTGAAGGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
* * *
49942812 AAAGCCTTTGTGGTGAACCTCTGAAAGGAAAGCC-TTATGGCGAACCTCTAAAAGG-
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCT-AAAGGA
* * * *
49942867 GAAGCTTTTGTGGCGAACCTTTGAAAGGAAAGCTTTTGTGGCAA
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAA
49942911 TTTCTAAACA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
55 42 0.30
56 96 0.70
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (56 bp):
AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
Found at i:49942820 original size:84 final size:83
Alignment explanation
Indices: 49942699--49942910 Score: 250
Period size: 84 Copynumber: 2.5 Consensus size: 83
49942689 CTTTGAAAAT
* * *
49942699 GAAAGCTTTTGTGGCAAACCTCTGGAGGGAAACCCTTTGTGGCAAACCTCT-AAAGGAAAAGCCT
1 GAAAGCTTTTGTGGCAAACCTCT-AAAGGAAAGCCTTTGTGGCAAACCTCTGAAAGG-AAAGCC-
* * *
49942763 TTGTGGTGAACCTCT-GAAGG
63 TTATGGCGAACCTCTAAAAGG
* **
49942783 GAAAGCCTTTGTGGCAAACCTCTAAAGGAAAAGCCTTTGTGGTGAACCTCTGAAAGGAAAGCCTT
1 GAAAGCTTTTGTGGCAAACCTCTAAAGG-AAAGCCTTTGTGGCAAACCTCTGAAAGGAAAGCCTT
49942848 ATGGCGAACCTCTAAAAGG
65 ATGGCGAACCTCTAAAAGG
* * *
49942867 G-AAGCTTTTGTGGCGAACCTTTGAAAGGAAAGCTTTTGTGGCAA
1 GAAAGCTTTTGTGGCAAACCTCT-AAAGGAAAGCCTTTGTGGCAA
49942911 TTTCTAAACA
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
83 47 0.43
84 57 0.52
85 5 0.05
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (83 bp):
GAAAGCTTTTGTGGCAAACCTCTAAAGGAAAGCCTTTGTGGCAAACCTCTGAAAGGAAAGCCTTA
TGGCGAACCTCTAAAAGG
Found at i:49942934 original size:111 final size:112
Alignment explanation
Indices: 49942715--49942935 Score: 243
Period size: 111 Copynumber: 2.0 Consensus size: 112
49942705 TTTTGTGGCA
* * * *
49942715 AACCTCTGGAGGGAAACCCTTTGTGGCAAACCTCTAAAGGAAAAGCCTTTGTGGTGAACCTCTGA
1 AACCTCTGAAAGGAAACCCTTTATGGCAAACCTCTAAAGGAAAAGCCTTTGTGGCGAACCTCTGA
* * * *
49942780 AGGGAAAGCCTTTGTGGCAAACCTCTAAAGGAAAAGCCTTTGTGGTG
66 AAGGAAAGCCTTTGTGGCAAACCTCTAAAGCAAAAACCCTTGTGGTG
* * * * *
49942827 AACCTCTGAAAGGAAAGCC-TTATGGCGAACCTCTAAAAGG-GAAGCTTTTGTGGCGAACCTTTG
1 AACCTCTGAAAGGAAACCCTTTATGGCAAACCTCT-AAAGGAAAAGCCTTTGTGGCGAACCTCTG
* **
49942890 AAAGGAAAGCTTTTGTGGC-AATTTCTAAA-CATTAAAACCCTTGTGG
65 AAAGGAAAGCCTTTGTGGCAAACCTCTAAAGCA--AAAACCCTTGTGG
49942936 CGCAATCTAA
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
109 1 0.01
110 8 0.09
111 60 0.67
112 21 0.23
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (112 bp):
AACCTCTGAAAGGAAACCCTTTATGGCAAACCTCTAAAGGAAAAGCCTTTGTGGCGAACCTCTGA
AAGGAAAGCCTTTGTGGCAAACCTCTAAAGCAAAAACCCTTGTGGTG
Found at i:49943956 original size:22 final size:21
Alignment explanation
Indices: 49943913--49943952 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
49943903 CCTAATTACG
49943913 TATTAATGAAATGCATAATGA
1 TATTAATGAAATGCATAATGA
49943934 TATTAATTGAAAT-CATAAT
1 TATTAA-TGAAATGCATAAT
49943953 TGATTGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
TATTAATGAAATGCATAATGA
Found at i:49945690 original size:23 final size:23
Alignment explanation
Indices: 49945660--49945717 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
49945650 GTGTAAGCCT
49945660 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
49945683 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
49945706 CACATGCCCGTG
1 CACACGCCCGTG
49945718 CGCTTTGGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:49947110 original size:51 final size:51
Alignment explanation
Indices: 49947047--49947146 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
49947037 CTACCACATA
* * *
49947047 ACATGTAACACATCCATAATGAACT-TGAACCTCTCAACGAGCTCAGATGTT
1 ACATGTAACACATCCATAATGAAATCAG-ACCACTCAACGAGCTCAGATGTT
* *
49947098 ACATG-AATCACATCCATCATGAAATCAGACCACTCAACGAGCTCGGATG
1 ACATGTAA-CACATCCATAATGAAATCAGACCACTCAACGAGCTCAGATG
49947147 CTTGTATCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.05
51 39 0.93
52 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAAATCAGACCACTCAACGAGCTCAGATGTT
Found at i:49947221 original size:42 final size:43
Alignment explanation
Indices: 49947109--49947223 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
49947099 CATGAATCAC
* * ***
49947109 ATCCATCATGAAATCAGACCACTCAACGAGCTCGGATGCTTGT
1 ATCCATCATGAACTCGGACCACTCAACGAGCTCGGATGCACAT
* * *
49947152 ATCCATAATGAACTCGGACCTCCCAACGAGCTCGGATGCCACAT
1 ATCCATCATGAACTCGGACCACTCAACGAGCTCGGATG-CACAT
49947196 AT-C-TCATGAACTCGGACCACTCAACGAG
1 ATCCATCATGAACTCGGACCACTCAACGAG
49947224 TTCAGACTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 22 0.37
43 34 0.57
44 4 0.07
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
ATCCATCATGAACTCGGACCACTCAACGAGCTCGGATGCACAT
Found at i:49953972 original size:48 final size:46
Alignment explanation
Indices: 49953915--49954179 Score: 151
Period size: 48 Copynumber: 5.5 Consensus size: 46
49953905 TATGTGTGCT
49953915 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA--TAAGCC
** * * ** * * * *
49953963 AGTGTAAGACACATTTGGGACAGGCATCAGTGTTGAGACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TATAAGCC
* * *
49954009 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT--ATAAGCC
* * * *
49954057 AGTGTAAGACCTGTCTAGGACATGGCATC-GACACT-GATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG-C-CTCGAGATAT-A-AGCC
* * * * * * *
49954106 AGTGTCAGACCTATCTAGGACATGGCATCAGCCTC-ACTATGTGAAACCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGA-GATAT--AAGCC
49954155 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
49954180 GCGTCGGCAT
Statistics
Matches: 167, Mismatches: 36, Indels: 27
0.73 0.16 0.12
Matches are distributed among these distances:
46 33 0.20
47 2 0.01
48 61 0.37
49 56 0.34
50 15 0.09
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAAGCC
Found at i:49954028 original size:46 final size:46
Alignment explanation
Indices: 49953912--49954085 Score: 152
Period size: 48 Copynumber: 3.7 Consensus size: 46
49953902 AGATATGTGT
*
49953912 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAGA--TAA
* ** * * ** * *
49953960 GCCAGTGTAAGACACATTTGGGACAGGCATCAGTGTTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-GATAA
* * *
49954006 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG--AGATAA
* *
49954054 GCTAGTGTAAGACCTGTCTAGGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
49954086 GACACTGATA
Statistics
Matches: 98, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
46 32 0.33
47 1 0.01
48 59 0.60
49 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAGATAA
Found at i:49954078 original size:94 final size:95
Alignment explanation
Indices: 49953912--49954085 Score: 255
Period size: 94 Copynumber: 1.8 Consensus size: 95
49953902 AGATATGTGT
***
49953912 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAAGCCAGTGTAAGACACAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAAACAAGCCAGTGTAAGACACAT
*
49953977 TTGGGACA-GGCATCAGTGTTGAGACGAGA
66 TTAGGACATGGCATCAGTGTTGAGACGAGA
* *
49954006 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAAGCTAGTGTAAGAC-C-T
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAAACAAGCCAGTGTAAGACACAT
49954069 GTCTAGGACATGGCATC
66 -T-TAGGACATGGCATC
49954086 GACACTGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.03
94 62 0.87
95 6 0.08
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAAACAAGCCAGTGTAAGACACAT
TTAGGACATGGCATCAGTGTTGAGACGAGA
Found at i:49954157 original size:49 final size:49
Alignment explanation
Indices: 49954057--49954181 Score: 139
Period size: 49 Copynumber: 2.5 Consensus size: 49
49954047 TAAACAAGCT
* *
49954057 AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAAACCC
* * *
49954106 AGTGTCAGACCTATCTAGGACATGGCATC-AGC-CTCACTATG-TGAAACCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGA-CACTGA-TA-GATGAAACCC
*
49954155 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTAGGACATGGC
49954182 GTCGGCATCT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.06
49 46 0.72
50 14 0.22
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAAACCC
Found at i:49957444 original size:49 final size:49
Alignment explanation
Indices: 49957332--49957549 Score: 356
Period size: 49 Copynumber: 4.5 Consensus size: 49
49957322 TATCACAGTT
* * *
49957332 ATACACTTCCAC-TTCCATCACATTGGCCATTTGGCCTTAT--CATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATAC
*
49957379 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49957428 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49957477 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49957524 ATACACTTTCACATTCATCACATTGG
1 ATACACTTTCACATTCATCACATTGG
49957550 ATCCTAAATC
Statistics
Matches: 163, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
47 64 0.39
48 2 0.01
49 97 0.60
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:49957447 original size:27 final size:27
Alignment explanation
Indices: 49957417--49957499 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
49957407 ATTCGGCCTT
49957417 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
49957444 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
49957466 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
49957493 ATCACAT
1 ATCACAT
49957500 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:49957524 original size:96 final size:94
Alignment explanation
Indices: 49957313--49957549 Score: 352
Period size: 96 Copynumber: 2.5 Consensus size: 94
49957303 ACAAATGTTC
* * *
49957313 TTCGGCACTTATCACAGT-TATACACTTCCAC-TTCCATCACATTGGCCATTTGGCCTTATCATA
1 TTCGGC-CTTATCACA-TACATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATA
* *
49957376 TATATATACTTTCACATTCATCACATTGGCCA
63 TACATACACTTTCACATTCATCACATTGGCCA
49957408 TTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT
1 TTCGGCCTTATCAC--ATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CAT
49957473 ATACATACACTTTCACATTCATCACATTGGCCA
62 ATACATACACTTTCACATTCATCACATTGGCCA
49957506 TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGG
1 TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGG
49957550 ATCCTAAATC
Statistics
Matches: 131, Mismatches: 5, Indels: 11
0.89 0.03 0.07
Matches are distributed among these distances:
94 8 0.06
95 7 0.05
96 66 0.50
97 2 0.02
98 48 0.37
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (94 bp):
TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
ATACACTTTCACATTCATCACATTGGCCA
Found at i:49961065 original size:20 final size:19
Alignment explanation
Indices: 49961032--49961070 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
49961022 TGGTTCCAAG
49961032 AGCTCAACTCAGCTCCAACT
1 AGCTCAACTCAGCT-CAACT
* *
49961052 AGCTCAATTGAGCTCAACT
1 AGCTCAACTCAGCTCAACT
49961071 TTAATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (19 bp):
AGCTCAACTCAGCTCAACT
Found at i:49965043 original size:18 final size:18
Alignment explanation
Indices: 49965020--49965059 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
49965010 TTCACACTTG
*
49965020 ACATATAGCTCGTTTTAT
1 ACATATAGCTCATTTTAT
49965038 ACATATAGCTCATTTTAT
1 ACATATAGCTCATTTTAT
49965056 ACAT
1 ACAT
49965060 TCAAACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (18 bp):
ACATATAGCTCATTTTAT
Found at i:49966590 original size:18 final size:19
Alignment explanation
Indices: 49966567--49966603 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
49966557 TCGGATAACG
49966567 TGCTCT-CATTGCTTCCTC
1 TGCTCTACATTGCTTCCTC
49966585 TGCTCTCACATTGCTTCCT
1 TGCTCT-ACATTGCTTCCT
49966604 TAACTCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.08, C:0.38, G:0.11, T:0.43
Consensus pattern (19 bp):
TGCTCTACATTGCTTCCTC
Found at i:49976720 original size:16 final size:16
Alignment explanation
Indices: 49976699--49976729 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49976689 TAAAATAGCT
49976699 AGAGAACCTAAATTAG
1 AGAGAACCTAAATTAG
49976715 AGAGAACCTAAATTA
1 AGAGAACCTAAATTA
49976730 AAGGTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (16 bp):
AGAGAACCTAAATTAG
Found at i:49977820 original size:48 final size:46
Alignment explanation
Indices: 49977705--49977902 Score: 170
Period size: 46 Copynumber: 4.2 Consensus size: 46
49977695 TGTGTGCTAA
* *
49977705 TGTAAGACATGTTTGGGACATGCATCGACCAT--A-ATATGAGAGCTAG
1 TGTAAGACATGTTTGGGACATGCATCGGCC-TCGAGATAT-A-AGCCAG
49977751 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATTCAAGCCAG
1 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATA-T-AAGCCAG
* ** * * *
49977799 TGTAAGACATGTTTGGGACATGTATCGGAATTGAGATGA-GAGCTAG
1 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGAT-ATAAGCCAG
*** * * *
49977845 TGTAAGACATGTCCAGGACATGCATCAGCCTCAAGATATTTAAGTCAG
1 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATA--TAAGCCAG
49977893 TGTAAGACAT
1 TGTAAGACAT
49977903 AGGACATGGA
Statistics
Matches: 123, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.02
46 62 0.50
47 1 0.01
48 55 0.45
49 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (46 bp):
TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATAAGCCAG
Found at i:49977850 original size:94 final size:94
Alignment explanation
Indices: 49977705--49977958 Score: 304
Period size: 94 Copynumber: 2.7 Consensus size: 94
49977695 TGTGTGCTAA
* * ***
49977705 TGTAAGACATGTTTGGGACATGCATCGACCA-TAATATGAGAGCTAGTGTAAGACATGTTTGGGA
1 TGTAAGACATGTTTGGGACATGCATCGA-CATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGA
* *
49977769 CATGCATCGGCCTCGAGATATTCAAGCCAG
65 CATGCATCAGCCTCAAGATATTCAAGCCAG
*
49977799 TGTAAGACATGTTTGGGACATGTATCGGA-ATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGA
1 TGTAAGACATGTTTGGGACATGCATC-GACATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGA
* *
49977863 CATGCATCAGCCTCAAGATATTTAAGTCAG
65 CATGCATCAGCCTCAAGATATTCAAGCCAG
* * ** * *
49977893 TGTAAGACA----TAGGACATGGATCGATGTTGAGATGAGAGCTAGTGTAAGAAATGTCCAGGGC
1 TGTAAGACATGTTTGGGACATGCATCGACATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGAC
49977954 ATGCA
66 ATGCA
49977959 ACGGCCTTGA
Statistics
Matches: 142, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
89 2 0.01
90 49 0.35
93 1 0.01
94 88 0.62
95 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (94 bp):
TGTAAGACATGTTTGGGACATGCATCGACATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGAC
ATGCATCAGCCTCAAGATATTCAAGCCAG
Found at i:49978007 original size:30 final size:30
Alignment explanation
Indices: 49977971--49978030 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
49977961 GGCCTTGAGT
49977971 TAGACAAGCTAGTATAAGACCTGTCTGGGA
1 TAGACAAGCTAGTATAAGACCTGTCTGGGA
49978001 TAGACAAGCTAGTATAAGACCTGTCTGGGA
1 TAGACAAGCTAGTATAAGACCTGTCTGGGA
49978031 CCTGACATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (30 bp):
TAGACAAGCTAGTATAAGACCTGTCTGGGA
Found at i:49982800 original size:20 final size:21
Alignment explanation
Indices: 49982775--49982814 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49982765 CACACGGGCC
49982775 ATGAA-CACGGCCGTGTTATA
1 ATGAACCACGGCCGTGTTATA
*
49982795 ATGAACGCACGGGCGTGTTA
1 ATGAAC-CACGGCCGTGTTA
49982815 CCCTTCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
ATGAACCACGGCCGTGTTATA
Found at i:49989383 original size:25 final size:25
Alignment explanation
Indices: 49989355--49989414 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
49989345 AAATTAATGT
49989355 AAAATGCCTTGTTAATAATTCATAC
1 AAAATGCCTTGTTAATAATTCATAC
*
49989380 AAAATGCCTTGTTAATAATTCATGC
1 AAAATGCCTTGTTAATAATTCATAC
49989405 AAAATGCCTT
1 AAAATGCCTT
49989415 AGCCCTCTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (25 bp):
AAAATGCCTTGTTAATAATTCATAC
Found at i:49991648 original size:19 final size:19
Alignment explanation
Indices: 49991611--49991656 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
49991601 TTATTAAAAT
*
49991611 AAATAAA-ACTAACATTAA
1 AAATAAAGACTAAAATTAA
*
49991629 AAATAAAGATTAAAATTAA
1 AAATAAAGACTAAAATTAA
*
49991648 AAGTAAAGA
1 AAATAAAGA
49991657 GAAAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAGACTAAAATTAA
Found at i:49991662 original size:19 final size:19
Alignment explanation
Indices: 49991624--49991662 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49991614 TAAAACTAAC
**
49991624 ATTAAAAATAAAGATTAAA
1 ATTAAAAATAAAGAGAAAA
*
49991643 ATTAAAAGTAAAGAGAAAA
1 ATTAAAAATAAAGAGAAAA
49991662 A
1 A
49991663 ATGAGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (19 bp):
ATTAAAAATAAAGAGAAAA
Found at i:49993039 original size:11 final size:12
Alignment explanation
Indices: 49993022--49993050 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49993012 TTTATTCTTC
49993022 ATTTTAATTTTG
1 ATTTTAATTTTG
49993034 -TTTTAATTTTG
1 ATTTTAATTTTG
49993045 ATTTTA
1 ATTTTA
49993051 TTACAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:49993574 original size:18 final size:19
Alignment explanation
Indices: 49993551--49993591 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49993541 TTCTATCTTG
*
49993551 TTTTAA-TTTGATTTCAAT
1 TTTTAATTTTAATTTCAAT
*
49993569 TTTTAATTTTAATTTTAAT
1 TTTTAATTTTAATTTCAAT
49993588 TTTT
1 TTTT
49993592 CAACTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAATTTTAATTTCAAT
Found at i:49997052 original size:21 final size:20
Alignment explanation
Indices: 49997028--49997068 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
49997018 ACTTATATAA
49997028 CTATCATCAAA-CATTCAAAAT
1 CTATCAT-AAATCA-TCAAAAT
49997049 CTATCATAAATCATCAAAAT
1 CTATCATAAATCATCAAAAT
49997069 ACATGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATAAATCATCAAAAT
Found at i:50000800 original size:21 final size:22
Alignment explanation
Indices: 50000730--50000809 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
50000720 TAAATAAGTT
*
50000730 TGGCACAGAGCCATAGTCAAGA
1 TGGCACAGAGCCATAGTTAAGA
50000752 TGGCACAGAGCCATAGTTAAGA
1 TGGCACAGAGCCATAGTTAAGA
* * *
50000774 TGGCACAGAGCCAT-TTTAGGT
1 TGGCACAGAGCCATAGTTAAGA
50000795 TGGCACAGAGCCATA
1 TGGCACAGAGCCATA
50000810 ATCAGATTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 18 0.34
22 35 0.66
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.19
Consensus pattern (22 bp):
TGGCACAGAGCCATAGTTAAGA
Found at i:50001193 original size:27 final size:26
Alignment explanation
Indices: 50001163--50001249 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
50001153 AAAAATACTC
50001163 ATTTTATCCTACAAGGGTATTTCTATA
1 ATTTTATCCTACAAGGGTATTTC-ATA
50001190 ATTTTA-CACTACAAGGGTATTTCAGTA
1 ATTTTATC-CTACAAGGGTATTTCA-TA
** *
50001217 ATTTTAT-GAACCAAGGTTATTTCAATA
1 ATTTTATCCTA-CAAGGGTATTTC-ATA
50001244 ATTTTA
1 ATTTTA
50001250 CAAGTCAGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.06
27 48 0.92
28 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (26 bp):
ATTTTATCCTACAAGGGTATTTCATA
Found at i:50001264 original size:27 final size:25
Alignment explanation
Indices: 50001176--50001358 Score: 100
Period size: 27 Copynumber: 6.9 Consensus size: 25
50001166 TTATCCTACA
* *
50001176 AGGGTATTTCTATAATTTTACACTAC
1 AGGGTATTTCAATAATTTTACAAT-C
* * *
50001202 AAGGGTATTTCAGTAATTTTATGAACC
1 -AGGGTATTTCAATAATTTTA-CAATC
*
50001229 AAGGTTATTTCAATAATTTTACAAGTC
1 -AGGGTATTTCAATAATTTTACAA-TC
** * *
50001256 AGGTGTATTTTGATAATTTCACAAATTT
1 AGG-GTATTTCAATAATTTTAC-AA-TC
* * *
50001284 AGGGCATTTCAGTAATTTTACAAATT
1 AGGGTATTTCAATAATTTTAC-AATC
*
50001310 AGGGTATTTCAGTAATTTCATA-AATC
1 AGGGTATTTCAATAATTT--TACAATC
*
50001336 ATGGGTAATTT-AGTAATTTTACA
1 A-GGGT-ATTTCAATAATTTTACA
50001359 GCTCGGGGGT
Statistics
Matches: 125, Mismatches: 22, Indels: 19
0.75 0.13 0.11
Matches are distributed among these distances:
25 2 0.02
26 29 0.23
27 81 0.65
28 13 0.10
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (25 bp):
AGGGTATTTCAATAATTTTACAATC
Found at i:50001351 original size:53 final size:54
Alignment explanation
Indices: 50001203--50001358 Score: 142
Period size: 54 Copynumber: 2.9 Consensus size: 54
50001193 TTACACTACA
* * * * * * *
50001203 AGGGTATTTCAGTAATTTTATGAACCA-AGGTTATTTCAATAATTTTACAAGTC
1 AGGGTATTTCAGTAATTTCATAAATCATGGGTAATTTCAGTAATTTTACAAATC
* * * * *
50001256 AGGTGTATTT-TGATAATTTCACAAAT-TTAGGG-CATTTCAGTAATTTTACAAATT
1 AGG-GTATTTCAG-TAATTTCATAAATCAT-GGGTAATTTCAGTAATTTTACAAATC
50001310 AGGGTATTTCAGTAATTTCATAAATCATGGGTAATTT-AGTAATTTTACA
1 AGGGTATTTCAGTAATTTCATAAATCATGGGTAATTTCAGTAATTTTACA
50001359 GCTCGGGGGT
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
53 37 0.46
54 42 0.52
55 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTCATAAATCATGGGTAATTTCAGTAATTTTACAAATC
Found at i:50006007 original size:27 final size:27
Alignment explanation
Indices: 50005951--50006039 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
50005941 TACACTACAA
* ** *
50005951 GGGTATTTCAATAATTTTATGAA-CTAG
1 GGGTATTTCAGTAATTTTACAAATC-GG
50005978 GGGTATTTCAGTAATTTTACAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGG
* * *
50006005 GGGTATTTCAGTAATTTCACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGG
50006032 GGGTATTT
1 GGGTATTT
50006040 TATTAGGGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGG
Found at i:50010677 original size:27 final size:25
Alignment explanation
Indices: 50010647--50010732 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 25
50010637 CAAAATAGTT
50010647 ATTTTGCCTTACAGGGGTATTTCTGTA
1 ATTTT-CC-TACAGGGGTATTTCTGTA
*
50010674 ATTTTACACTATAGGGGTATTT-TGGTA
1 ATTTT-C-CTACAGGGGTATTTCT-GTA
** *
50010701 ATTTTACGAACCAGGGGTATTTCAGTA
1 ATTTT-CCTA-CAGGGGTATTTCTGTA
50010728 ATTTT
1 ATTTT
50010733 ACAAGTCGGG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
26 2 0.04
27 46 0.94
28 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (25 bp):
ATTTTCCTACAGGGGTATTTCTGTA
Found at i:50010744 original size:27 final size:27
Alignment explanation
Indices: 50010658--50010843 Score: 155
Period size: 27 Copynumber: 6.9 Consensus size: 27
50010648 TTTTGCCTTA
* *
50010658 CAGGGGTATTTCTGTAATTTTACACTAT
1 CAGGGGTATTTCAGTAATTTTACA-AAT
** * *
50010686 -AGGGGTATTTTGGTAATTTTACGAAC
1 CAGGGGTATTTCAGTAATTTTACAAAT
*
50010712 CAGGGGTATTTCAGTAATTTTACAAGT
1 CAGGGGTATTTCAGTAATTTTACAAAT
* * * * *
50010739 CGGGGGTATTCCTGTAATTTCATAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
*
50010766 C-GAGGGTATTTCAGTAATTTCACAAAT
1 CAG-GGGTATTTCAGTAATTTTACAAAT
* * *
50010793 CA-GGGTGTTTC-GATAATTTCATAAAT
1 CAGGGGTATTTCAG-TAATTTTACAAAT
* *
50010819 CAGGGGTAATTCGGTAATTTTACAA
1 CAGGGGTATTTCAGTAATTTTACAA
50010844 CTCGAGGGTC
Statistics
Matches: 127, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 24 0.19
27 101 0.80
28 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (27 bp):
CAGGGGTATTTCAGTAATTTTACAAAT
Found at i:50010826 original size:53 final size:55
Alignment explanation
Indices: 50010658--50010852 Score: 172
Period size: 54 Copynumber: 3.6 Consensus size: 55
50010648 TTTTGCCTTA
* * * * ** *
50010658 CAGGGGTATTTCTGTAATTTTACACTAT-AGGG-GTATT-TTGGTAATTTTACGAAC
1 CAGGGGTATTTCAGTAATTTTACA-AATCAGGGTGTATTCCT-GTAATTTCATAAAT
* *
50010712 CAGGGGTATTTCAGTAATTTTACAAGTC-GGGGGTATTCCTGTAATTTCATAAAT
1 CAGGGGTATTTCAGTAATTTTACAAATCAGGGTGTATTCCTGTAATTTCATAAAT
*
50010766 C-GAGGGTATTTCAGTAATTTCACAAATCAGGGTGT-TT-C-GATAATTTCATAAAT
1 CAG-GGGTATTTCAGTAATTTTACAAATCAGGGTGTATTCCTG-TAATTTCATAAAT
* * *
50010819 CAGGGGTAATTCGGTAATTTTACAACTCGAGGGT
1 CAGGGGTATTTCAGTAATTTTACAAATC-AGGGT
50010853 CTTAACGACC
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
52 1 0.01
53 41 0.35
54 70 0.59
55 6 0.05
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (55 bp):
CAGGGGTATTTCAGTAATTTTACAAATCAGGGTGTATTCCTGTAATTTCATAAAT
Found at i:50028668 original size:13 final size:13
Alignment explanation
Indices: 50028642--50028675 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50028632 AATTAAGCAC
50028642 TTTTCACATAAAA
1 TTTTCACATAAAA
* *
50028655 TTTTCGCATGAAA
1 TTTTCACATAAAA
50028668 TTTTCACA
1 TTTTCACA
50028676 CAAACATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (13 bp):
TTTTCACATAAAA
Found at i:50030363 original size:51 final size:50
Alignment explanation
Indices: 50030234--50030374 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
50030224 AAGCTATCTA
* *
50030234 GTACGCATAGTAGCATGCACTTAGTACTACACACGTGACCTAACCATCTG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCAG
* *** * * **
50030284 ATACATGTAGTAGCCTGCACATAGTACTACACACGTGA-TTGAAGTTATCAG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCAG
*
50030335 GTACGCATAGTAGCCTGCACTTAATACTACA-ACGTGACCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
50030375 CACAATAGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.56
51 30 0.42
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCAG
Found at i:50033501 original size:27 final size:27
Alignment explanation
Indices: 50033450--50033503 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50033440 ATCCCATACT
**
50033450 GATAAAATGACTGTTATACCCCTATGA
1 GATAAAATGACTAATATACCCCTATGA
* *
50033477 GATAAAATGACTAATATGCCTCTATGA
1 GATAAAATGACTAATATACCCCTATGA
50033504 TTTGTATGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (27 bp):
GATAAAATGACTAATATACCCCTATGA
Found at i:50041375 original size:27 final size:27
Alignment explanation
Indices: 50041328--50041379 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
50041318 CCCATACTGA
*
50041328 TAAAATGACTGTTATAACCCTATGAGG
1 TAAAATGACTGATATAACCCTATGAGG
**
50041355 TAAAATGACTGATATGCCCCTATGA
1 TAAAATGACTGATATAACCCTATGA
50041380 TTTGTATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
TAAAATGACTGATATAACCCTATGAGG
Found at i:50043360 original size:40 final size:41
Alignment explanation
Indices: 50043225--50043410 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
50043215 TACTCGAATG
* *
50043225 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
50043266 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
50043307 AGATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
50043347 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
50043387 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
50043411 CTTGTGCGAG
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 68 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:50043370 original size:81 final size:82
Alignment explanation
Indices: 50043227--50043380 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
50043217 CTCGAATGAT
* * * *
50043227 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
50043292 TTGTGCTAAGCGACTAG
66 TTATGCTAAGCGACTAG
50043309 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
50043372 TTTATGCTA
65 TTTATGCTA
50043381 GTGACCATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 38 0.58
82 27 0.41
83 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAG
Found at i:50062332 original size:44 final size:43
Alignment explanation
Indices: 50062247--50062359 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 43
50062237 CTCGTACAAC
* * * *
50062247 GCCAACGTCTCAAACGTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCGAT
50062290 GCC-ACTGTCCCAGACAG-GGTCTTACACGTAAATCACAAATCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AATCACAAATCGAT
50062334 GCCAACGTCCCAGACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
50062360 TGAATCTCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
42 2 0.03
43 22 0.36
44 35 0.57
45 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCGAT
Found at i:50082231 original size:51 final size:51
Alignment explanation
Indices: 50082158--50082327 Score: 261
Period size: 51 Copynumber: 3.3 Consensus size: 51
50082148 ACCCTTGTAG
* * *
50082158 CCAAACCTATTGTATTCACAAAGTGGCCTTCACATAGTAGCACACTTGTGT
1 CCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGTACCACACTTGTGT
* *
50082209 CCAAAGCTATTTTATTCGCAAAGTGGCCTACACATAGTACCACACTTGTGT
1 CCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGTACCACACTTGTGT
* *
50082260 CCAAAGCTATTATATTCACAGAA-TGGCCTTCACATGGTACCACACTTGTGT
1 CCAAAGCTATTTTATTCACA-AAGTGGCCTTCACATAGTACCACACTTGTGT
50082311 CCAAAGCTATTTTATTC
1 CCAAAGCTATTTTATTC
50082328 CTAAGGTTCA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 106 0.98
52 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
CCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGTACCACACTTGTGT
Found at i:50082407 original size:52 final size:52
Alignment explanation
Indices: 50082351--50082474 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
50082341 TGGAAATTTC
50082351 TCACTTAGCACAATGCCATTGACTTATTTCACTTAGATGCCAT-GTACTTATT
1 TCACTTAGCACAATGCCATTGACTTATTTCACTTAGATGCCATGGT-CTTATT
* *
50082403 TCACTTAGCACATTGCCATAGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATTGACTTATTTCACTTAGATGCCATGGTCTTATT
* *
50082455 TCACTTAGCATAATGTCATT
1 TCACTTAGCACAATGCCATT
50082475 TCCTAGATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 63 0.97
53 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATTGACTTATTTCACTTAGATGCCATGGTCTTATT
Done.