Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 112 of 205
Found at i:33527515 original size:79 final size:81
Alignment explanation
Indices: 33527379--33527563 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
33527369 TTGAATGATG
*
33527379 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
33527443 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33527458 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33527520 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
33527538 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33527564 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:33527577 original size:40 final size:40
Alignment explanation
Indices: 33527380--33527563 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
33527370 TGAATGATGT
* * * *
33527380 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
33527420 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
33527460 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33527498 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33527539 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33527564 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:33527585 original size:79 final size:79
Alignment explanation
Indices: 33527432--33527596 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
33527422 GGACTAAGAT
* **
33527432 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33527497 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33527511 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33527574 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33527590 CCGAAGG
1 CCGAAGG
33527597 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33537503 original size:173 final size:173
Alignment explanation
Indices: 33537209--33537552 Score: 643
Period size: 173 Copynumber: 2.0 Consensus size: 173
33537199 ACATGTCATC
33537209 ATATACAACATAAAAAATCAGAATATCATGTCCATATTTGAATCAAACAATCACAGTCAAGTCAT
1 ATATACAACATAAAAAATCAGAATATCATGTCCATATTTGAATCAAACAATCACAGTCAAGTCAT
* *
33537274 TCATATCACCACATATATTCACAATCAAATCCGTCAACCACACAGTCTAGGTCAGTCACTTGCCC
66 TCATATCACCACATATATTCACAATCAAATCCGTCAACCACACAGTCCAAGTCAGTCACTTGCCC
* *
33537339 ACAAGGGCAAAACAGTCATTTAACACCTTAAGGGTAAAATGGT
131 ACAAGGGCAAAACAGTCATTTAACACCCTAAGGGCAAAATGGT
33537382 ATATACAACATAAAAAATCAGAATATCATGTCCATATTTGAATCAAACAATCACAGTCAAGTCAT
1 ATATACAACATAAAAAATCAGAATATCATGTCCATATTTGAATCAAACAATCACAGTCAAGTCAT
33537447 TCATATCACCACATATATTCACAATCAAATCCGTCAACCACACAGTCCAAGTCAGTCACTTGCCC
66 TCATATCACCACATATATTCACAATCAAATCCGTCAACCACACAGTCCAAGTCAGTCACTTGCCC
*
33537512 ACAAGGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATG
131 ACAAGGGCAAAACAGTCATTTAACACCCTAAGGGCAAAATG
33537553 NAAAATGGTA
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 166 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (173 bp):
ATATACAACATAAAAAATCAGAATATCATGTCCATATTTGAATCAAACAATCACAGTCAAGTCAT
TCATATCACCACATATATTCACAATCAAATCCGTCAACCACACAGTCCAAGTCAGTCACTTGCCC
ACAAGGGCAAAACAGTCATTTAACACCCTAAGGGCAAAATGGT
Found at i:33537597 original size:27 final size:27
Alignment explanation
Indices: 33537559--33537673 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
33537549 AATGNAAAAT
*
33537559 GGTAATTGTACCGC-ACAAGGGTATCTC
1 GGTAATTCTACC-CTACAAGGGTATCTC
* *
33537586 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
33537613 AGTAATTCTACCCTAC-AGGTGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATCTC
* * * * *
33537640 AGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATCTC
33537667 GGTAATT
1 GGTAATT
33537674 TTGTAAATCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.04
27 70 0.93
28 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:33537688 original size:27 final size:27
Alignment explanation
Indices: 33537658--33538060 Score: 243
Period size: 27 Copynumber: 15.1 Consensus size: 27
33537648 TACCCTACAG
* * *
33537658 GGGTATTTTGGTAATTTTGTAAATCAA
1 GGGTAATTTGGTAATTTTATAAATCGA
* * *
33537685 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTAATTTGGTAATTTTATAAATCGA
* *
33537711 GGGGTATTTTGGTAATTTTACT-GATCGA
1 -GGGTAATTTGGTAATTTTA-TAAATCGA
** ** *
33537739 GGGT-ATTCAGTAATTTTGCAAATTGA
1 GGGTAATTTGGTAATTTTATAAATCGA
*
33537765 GGGT-ATTTCGGTAATTTTACAAATCGA
1 GGGTAATTT-GGTAATTTTATAAATCGA
* *
33537792 GGAT-ATTTGAGTAATTTTATAAACCG-
1 GGGTAATTTG-GTAATTTTATAAATCGA
* * * *
33537818 GGGTACTTTGGTAATTTTACAACT-GG
1 GGGTAATTTGGTAATTTTATAAATCGA
* *
33537844 GGGT-ATTTCAGTAATTTTA-CAATCGA
1 GGGTAATTT-GGTAATTTTATAAATCGA
** * *
33537870 GGGTAAAATGGTAATTTTGTAAA-CTAA
1 GGGTAATTTGGTAATTTTATAAATC-GA
** *
33537897 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
**** *
33537924 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** *
33537951 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
**
33537978 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** * * *
33538005 GGGTGAA-ACGATAATTCTGTAAATCGA
1 GGGT-AATTTGGTAATTTTATAAATCGA
* * *
33538032 GGGTACTTTGGTAATTTTACAAATTGA
1 GGGTAATTTGGTAATTTTATAAATCGA
33538059 GG
1 GG
33538061 ACATTTTAGT
Statistics
Matches: 304, Mismatches: 56, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
25 6 0.02
26 66 0.22
27 227 0.75
28 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (27 bp):
GGGTAATTTGGTAATTTTATAAATCGA
Found at i:33537822 original size:53 final size:53
Alignment explanation
Indices: 33537657--33537865 Score: 233
Period size: 53 Copynumber: 3.9 Consensus size: 53
33537647 CTACCCTACA
** * **
33537657 GGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACC
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACC
** * **
33537710 AGGGGTATTTTGGTAATTTTACTGATCGAGGGTA-TTCAGTAATTTTGCAAATT
1 -GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACC
* * * *
33537763 GAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGAGTAATTTTATAAACC
1 G-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACC
* * *
33537817 GGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTTTACAA
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAA
33537866 TCGAGGGTAA
Statistics
Matches: 127, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
52 21 0.17
53 63 0.50
54 43 0.34
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (53 bp):
GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACC
Found at i:33539297 original size:6 final size:6
Alignment explanation
Indices: 33539278--33539364 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
33539268 AAGAAACATT
* *
33539278 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATCGGTGA A--AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATC--AGA ATCAGA ATCAGA
* *
33539326 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
33539365 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
4 3 0.05
5 3 0.05
6 51 0.80
7 3 0.05
8 4 0.06
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:33539321 original size:30 final size:31
Alignment explanation
Indices: 33539287--33539364 Score: 106
Period size: 30 Copynumber: 2.5 Consensus size: 31
33539277 TATCAGAACT
*
33539287 AGAATTAGAATCAGAATCAGAATC-GGTGAA-
1 AGAATCAGAATCAGAATCAGAATCAGGT-AAC
*
33539317 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
33539348 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
33539365 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.56
31 19 0.44
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:33539809 original size:27 final size:27
Alignment explanation
Indices: 33539780--33539895 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
33539770 GGGTAAAATG
* * *
33539780 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
33539807 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCA
*
33539834 GTAATTCTACCCTAC-AGGGATATTTCA
1 GTAATTTTACCCTACAAGGG-TATTTCA
*
33539861 GT-ATTTCTACCCTACAGGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCA
33539888 GTAATTTT
1 GTAATTTT
33539896 GTAAATCAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
26 6 0.08
27 62 0.83
28 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:33539826 original size:54 final size:54
Alignment explanation
Indices: 33539768--33539882 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
33539758 TTAACACCCT
* * *
33539768 AGGGGTAAAATGGTAATTTTACCCCACAAGGG-TATCTCGGTAATTCTACCCTAC
1 AGGGGTAAAATAGTAATTCTACCCCAC-AGGGATATCTCAGTAATTCTACCCTAC
*** * * *
33539822 AGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCAGTATTTCTACCCTAC
1 AGGGGTAAAATAGTAATTCTACCCCACAGGGATATCTCAGTAATTCTACCCTAC
33539876 AGGGGTA
1 AGGGGTA
33539883 TTTCAGTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.08
54 47 0.92
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (54 bp):
AGGGGTAAAATAGTAATTCTACCCCACAGGGATATCTCAGTAATTCTACCCTAC
Found at i:33539883 original size:54 final size:54
Alignment explanation
Indices: 33539780--33539893 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
33539770 GGGTAAAATG
* * *
33539780 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCA
* * *
33539834 GTAATTCTACCCTAC-AGGGATATTTCAGTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCCACAAGGG-TATCTCAGTAATTCTACCCTACAGGGGTATTTCA
33539888 GTAATT
1 GTAATT
33539894 TTGTAAATCA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.08
54 49 0.92
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:33539933 original size:54 final size:54
Alignment explanation
Indices: 33539875--33540014 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
33539865 TTCTACCCTA
** **
33539875 CAGGGGTATTTCAGTAATTTTGTAAATC-AAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTGTAAA-CAAAGGGTATTTTAATAATTTTACAAAC
* ** *
33539929 CAGGGATATTTTGGTGGTTTTATAAACAAAGGGTATTTTAATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTAATAATTTTACAAAC
*
33539983 CAGGGGTATTTTGGTAATTTGGTAAACTAAAG
1 CAGGGGTATTTTGGTAATTTTGTAAAC-AAAG
33540015 TATTCTAAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 66 0.93
55 4 0.06
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTAATAATTTTACAAAC
Found at i:33540009 original size:27 final size:27
Alignment explanation
Indices: 33539875--33540002 Score: 130
Period size: 27 Copynumber: 4.7 Consensus size: 27
33539865 TTCTACCCTA
** * *
33539875 CAGGGGTATTTCAGTAATTTTGTAAAT
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
33539902 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* **
33539929 CAGGGATATTTTGGTGGTTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * ** *
33539956 AAAGGGTATTTTAATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
33539983 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
33540003 GGTAAACTAA
Statistics
Matches: 78, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:33541986 original size:47 final size:46
Alignment explanation
Indices: 33541839--33542007 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 46
33541829 CTCGTAGCCA
* * * * *
33541839 ATGCATGTCCCAAACATGTCTTACACTGGCT-T-ACATTACGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTA--ATGTCG
* * *
33541885 ATGCATGTCCCAGACATATCTTACACTAGCTCTCGTCTTAATGTCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTAATGTCG
* *
33541931 ATGCCATGTCCCAGACATTGTCTTACGCTAGCTCTCATATT-GTGGTCG
1 ATG-CATGTCCCAGACA-TGTCTTACACTAGCTCTCATATTAAT-GTCG
33541979 ATGCATGTCCC-GAACATGTCTTACACTAG
1 ATGCATGTCCCAG-ACATGTCTTACACTAG
33542008 AGCACAAATT
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 48 0.47
47 26 0.25
48 29 0.28
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTAATGTCG
Found at i:33562666 original size:53 final size:53
Alignment explanation
Indices: 33562566--33562668 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
33562556 TTCCTTTTTA
* * * *
33562566 AACTTACCATTTCCATGTCTTGACGTGGTCTGACATGGTAGCCTTGCCTTATG
1 AACTTACCATTGCCATGCCTTGACATGGTCTGACATGGGAGCCTTGCCTTATG
* * * *
33562619 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTT
1 AACTTACCATTGCCATGCCTTGACATGGTCTGACATGGGAGCCTTGCCTT
33562669 GTCGTAGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTGACATGGGAGCCTTGCCTTATG
Found at i:33578169 original size:29 final size:29
Alignment explanation
Indices: 33578127--33578227 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
33578117 CATGAAATTG
33578127 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
33578156 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
33578185 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
33578213 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
33578228 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:33589743 original size:27 final size:27
Alignment explanation
Indices: 33589653--33589739 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
33589643 CTAAAATACC
*
33589653 ATACCCCTGTAAGGTAGAATTACTGAA
1 ATACCCCTGTAGGGTAGAATTACTGAA
* *
33589680 ATACCCCTATAGGGTAGAATTATTGAA
1 ATACCCCTGTAGGGTAGAATTACTGAA
* * *
33589707 ATACCCTTGTAGGGTAGAATTACCGAG
1 ATACCCCTGTAGGGTAGAATTACTGAA
33589734 ATACCC
1 ATACCC
33589740 TTGTGCGGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
ATACCCCTGTAGGGTAGAATTACTGAA
Found at i:33589755 original size:54 final size:54
Alignment explanation
Indices: 33589653--33589756 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
33589643 CTAAAATACC
* *
33589653 ATACCCCTGTAAGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTATTGAA
1 ATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGGGTAAAATTATTGAA
* * * * *
33589707 ATACCCTTGTAGGGTAGAATTACCGAGATACCCTTGT-GCGGTAAAATTAT
1 ATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAG-GGTAAAATTAT
33589757 CATTTTGCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (54 bp):
ATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGGGTAAAATTATTGAA
Found at i:33590354 original size:211 final size:211
Alignment explanation
Indices: 33589990--33590409 Score: 732
Period size: 211 Copynumber: 2.0 Consensus size: 211
33589980 TTGTGAACTT
*
33589990 GCGAGCGTGCAAGTGCTCGTGAAACAGTTGTTAATGAATATGGTGCATTTGGATGATTAGAGTGC
1 GCGAGCGTGCAAGCGCTCGTGAAACAGTTGTTAATGAATATGGTGCATTTGGATGATTAGAGTGC
* *
33590055 AGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGTTGAAAATGGGCCAATAGGC
66 AAAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATAGGTTGAAAATGGGCCAATAGGC
33590120 CAACGGGCCCACTTTGGTAAAAAGACGAGGTAAGTACTTCTGATTACTTGGTAAACATTAGAATA
131 CAACGGGCCCACTTTGGTAAAAAGACGAGGTAAGTACTTCTGATTACTTGGTAAACATTAGAATA
33590185 AGCATGAAACCTTATC
196 AGCATGAAACCTTATC
* * * *
33590201 GCGAGCGTGCGAGCGCTTGTGAGACAGTTTTTAATGAATATGGTGCATTTGGATGATTAGAGTGC
1 GCGAGCGTGCAAGCGCTCGTGAAACAGTTGTTAATGAATATGGTGCATTTGGATGATTAGAGTGC
* * *
33590266 AAAGTGTGCATTTTCGTGTACAACGGTATTTTTGGGCTTAATAGGTTGAAAATGGGCTAATGGGC
66 AAAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATAGGTTGAAAATGGGCCAATAGGC
* *
33590331 CAACGGGCCCACTTTGGTAAAAAGACGAGGTAAGTACTTGTGATTACTTGGTAAACGTTAGAATA
131 CAACGGGCCCACTTTGGTAAAAAGACGAGGTAAGTACTTCTGATTACTTGGTAAACATTAGAATA
33590396 AGCATGAAACCTTA
196 AGCATGAAACCTTA
33590410 GTAATAGGTA
Statistics
Matches: 197, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 197 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (211 bp):
GCGAGCGTGCAAGCGCTCGTGAAACAGTTGTTAATGAATATGGTGCATTTGGATGATTAGAGTGC
AAAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATAGGTTGAAAATGGGCCAATAGGC
CAACGGGCCCACTTTGGTAAAAAGACGAGGTAAGTACTTCTGATTACTTGGTAAACATTAGAATA
AGCATGAAACCTTATC
Found at i:33590653 original size:32 final size:31
Alignment explanation
Indices: 33590593--33590654 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
33590583 CTCGCTGCAA
* *
33590593 TCTGGTGGCTTCGCCACATATATATATCTGT
1 TCTGGTGGCCTAGCCACATATATATATCTGT
* *
33590624 TCTGGTGGCCTAGCTACAATATATGTATCTG
1 TCTGGTGGCCTAGCCAC-ATATATATATCTG
33590655 GTGACTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCACATATATATATCTGT
Found at i:33596300 original size:27 final size:27
Alignment explanation
Indices: 33596223--33596301 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
33596213 ATAAGTTATT
* * *
33596223 GAATTACTAAAATACCCCTGTAAGGTA
1 GAATTATTGAAATACCCCTGTAGGGTA
* *
33596250 GAATTATCGAAATACCCCTATAGGGTA
1 GAATTATTGAAATACCCCTGTAGGGTA
33596277 GAATTATTGAAATACCCCTGTAGGG
1 GAATTATTGAAATACCCCTGTAGGG
33596302 AATAATTACC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
GAATTATTGAAATACCCCTGTAGGGTA
Found at i:33597080 original size:67 final size:66
Alignment explanation
Indices: 33596971--33597200 Score: 262
Period size: 67 Copynumber: 3.3 Consensus size: 66
33596961 GAGGAAGCGT
* * **
33596971 TCTGGCAGCCTCGCTGCAATTTGGTGGTCTGGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACA-ATATCTGTTCTGGTGACTTCGTCACAA
33597036 TA
65 TA
* * *
33597038 TCTGGTAGCCTCGCTGCAATCTGGTGGCCTCACCACACATATCTATTCTGGTGACTTCGTCATAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACA-ATATCTGTTCTGGTGACTTCGTCACAA
33597103 TA
65 TA
* *
33597105 TCTGGCAGCATTGCTGCAATCTGGTGGCTTCGGTGGCCTAGCCACAATATCTGTATCTGGTGACT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGC--C--T---C-A-CCACAATATCTGT-TCTGGTGACT
33597170 TCGTCACAATA
56 TCGTCACAATA
*
33597181 TCTGGCAGCCTGGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
33597201 TTATGTGGTG
Statistics
Matches: 138, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
67 84 0.61
69 1 0.01
71 1 0.01
74 1 0.01
75 8 0.06
76 43 0.31
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (66 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACAATATCTGTTCTGGTGACTTCGTCACAAT
A
Found at i:33597186 original size:76 final size:76
Alignment explanation
Indices: 33597060--33597200 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
33597050 GCTGCAATCT
* *
33597060 GGTGGCCTCACCACACATATCTATTCTGGTGACTTCGTCATAATATCTGGCAGCATTGCTGCAAT
1 GGTGGCCTCACCACACATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCATGGCTGCAAT
33597125 CTGGTGGCTTC
66 CTGGTGGCTTC
* *
33597136 GGTGGCCT-AGCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTGGCTGCA
1 GGTGGCCTCA-CCACACATATCTAT-TCTGGTGACTTCGTCACAATATCTGGCAGCATGGCTGCA
33597199 AT
64 AT
33597201 TTATGTGGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 8 0.14
76 51 0.86
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (76 bp):
GGTGGCCTCACCACACATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCATGGCTGCAAT
CTGGTGGCTTC
Found at i:33602092 original size:15 final size:15
Alignment explanation
Indices: 33602072--33602101 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33602062 TTCATACCTG
33602072 GCCATTTAGCTTGTA
1 GCCATTTAGCTTGTA
33602087 GCCATTTAGCTTGTA
1 GCCATTTAGCTTGTA
33602102 CTACACATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
GCCATTTAGCTTGTA
Found at i:33605755 original size:46 final size:45
Alignment explanation
Indices: 33605658--33605822 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
33605648 TGTGCCAATG
* * * *
33605658 GCATGTCCTAGACATGGTCTTACACTGGC-ACATCTTGTAGCCGAT
1 GCATGTCCCAGACATGGTCTTACACTGACTACGTCTCG-AGCCGAT
33605703 GCATGTCCCAGACAT-GTCTTACACTGACTTACGTCTCGAGGCCGAT
1 GCATGTCCCAGACATGGTCTTACACTGAC-TACGTCTCGA-GCCGAT
* * * *
33605749 GCATGTCCCAAACAT-ATCTTACACTAGCACT-GGTCTCAATGCCGAT
1 GCATGTCCCAGACATGGTCTTACACT-G-ACTACGTCTCGA-GCCGAT
* *
33605795 GCCATGTCCTAGACATGGTCTTCCACTG
1 G-CATGTCCCAGACATGGTCTTACACTG
33605823 GCTCTCATAA
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.12
45 15 0.15
46 48 0.48
47 15 0.15
48 10 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GCATGTCCCAGACATGGTCTTACACTGACTACGTCTCGAGCCGAT
Found at i:33606230 original size:30 final size:30
Alignment explanation
Indices: 33606189--33606245 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
33606179 AAATCCATAT
* *
33606189 CTTTGATAAAATGACCATTTTGCCCCTAGA
1 CTTTGACAAAATGACCATTTTACCCCTAGA
33606219 CTTTGACAAAATGACCATTTTACCCCT
1 CTTTGACAAAATGACCATTTTACCCCT
33606246 TGTCTCGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (30 bp):
CTTTGACAAAATGACCATTTTACCCCTAGA
Found at i:33609816 original size:16 final size:16
Alignment explanation
Indices: 33609795--33609831 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
33609785 AGCAATTTCA
33609795 TGGGCTTAGGCCGTTT
1 TGGGCTTAGGCCGTTT
33609811 TGGGCTTAGGCCGTTT
1 TGGGCTTAGGCCGTTT
33609827 TGGGC
1 TGGGC
33609832 CATGTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.19, G:0.41, T:0.35
Consensus pattern (16 bp):
TGGGCTTAGGCCGTTT
Found at i:33612131 original size:43 final size:43
Alignment explanation
Indices: 33611967--33612124 Score: 244
Period size: 43 Copynumber: 3.7 Consensus size: 43
33611957 TTCAATGAAC
* * * *
33611967 TCGCACACTTAGTGCCGATTAATTAGCTGAAGCCATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
* *
33612010 TCGTACACTTAGTGCCAATTAATCAGCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
*
33612053 TCGCACACTTAGTGCTAATTAATTAGCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
*
33612096 TCGCACACTTAGTGCTAATTAATTAGCCG
1 TCGCACACTTAGTGCCAATTAATTAGCCG
33612125 TAGCTATTTC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
Found at i:33615144 original size:23 final size:22
Alignment explanation
Indices: 33615101--33615156 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 22
33615091 CTATATTTGA
33615101 GCATGCCATGTTATATGTATGTT
1 GCAT-CCATGTTATATGTATGTT
33615124 GCATCCATGTATAATAT-TATGTT
1 GCATCCATGT-T-ATATGTATGTT
33615147 GCATCGCATG
1 GCATC-CATG
33615157 GGGTGGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (22 bp):
GCATCCATGTTATATGTATGTT
Found at i:33615464 original size:34 final size:34
Alignment explanation
Indices: 33615426--33615543 Score: 118
Period size: 34 Copynumber: 3.5 Consensus size: 34
33615416 TGATTCTGTA
*
33615426 ATGGGCTAAGGCCCAGATTGCCACTGTTACTAAT
1 ATGGGCTAAGGCCCAGATTGCAACTGTTACTAAT
* * *
33615460 ATGGGCTTAGGCCTC--ACTACAACTGTTACTGAA-
1 ATGGGCTAAGGCC-CAGATTGCAACTGTTACT-AAT
* *
33615493 ATGGGCTAAGGCCCAG-TCTGCTACTGTTACTGAT
1 ATGGGCTAAGGCCCAGAT-TGCAACTGTTACTAAT
*
33615527 ATGGGCTTAGGCCCAGA
1 ATGGGCTAAGGCCCAGA
33615544 ATGTATTCGC
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
32 1 0.01
33 25 0.37
34 40 0.60
35 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (34 bp):
ATGGGCTAAGGCCCAGATTGCAACTGTTACTAAT
Found at i:33619797 original size:28 final size:28
Alignment explanation
Indices: 33619765--33619834 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
33619755 AATGAGATTG
33619765 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
33619793 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
33619821 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33619835 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:33626866 original size:27 final size:27
Alignment explanation
Indices: 33626828--33626901 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
33626818 CGTACCTAAA
33626828 CCCTCATGTGATAAAATGACAATTTTT
1 CCCTCATGTGATAAAATGACAATTTTT
**
33626855 CCCTCATGTGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGACAATTTTT
*
33626882 CCCTTATGTGATAAAATGAC
1 CCCTCATGTGATAAAATGAC
33626902 CGAAATGCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACAATTTTT
Found at i:33628042 original size:46 final size:46
Alignment explanation
Indices: 33627972--33628192 Score: 320
Period size: 46 Copynumber: 4.8 Consensus size: 46
33627962 TGTAACCCGC
* *
33627972 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
33628018 CCATAAGTGAACTCGGACTGAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
33628064 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT--CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCGT-TCGCAT
* * * *
33628111 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
33628157 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
33628193 ATGCTCAACC
Statistics
Matches: 159, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 115 0.72
47 37 0.23
48 3 0.02
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:33628155 original size:93 final size:93
Alignment explanation
Indices: 33627972--33628196 Score: 330
Period size: 93 Copynumber: 2.4 Consensus size: 93
33627962 TGTAACCCGC
* * * *
33627972 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCATAAGTGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTTC-CATCCATAAGTGAACTCAGA
* * *
33628035 CTGAACTCAACGAGCTCGGGCGTTCGCAT
65 CTCAACTCAACGAGCTCGGACATTCGCAT
33628064 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-CATCCATAAGTGAACTCAGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCT-TCCATCCATAAGTGAACTCAGA
* *
33628128 CTCAACTCAATGAGTTCGGACATTCGCAT
65 CTCAACTCAACGAGCTCGGACATTCGCAT
33628157 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
33628197 TCAACCATCC
Statistics
Matches: 121, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
92 34 0.28
93 83 0.69
94 3 0.02
95 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTTCCATCCATAAGTGAACTCAGAC
TCAACTCAACGAGCTCGGACATTCGCAT
Found at i:33634186 original size:11 final size:11
Alignment explanation
Indices: 33634150--33634205 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
33634140 CATGGTATGT
33634150 ATGATATGCAC
1 ATGATATGCAC
* *
33634161 ATGACATG--T
1 ATGATATGCAC
33634170 ATGATATGCAC
1 ATGATATGCAC
*
33634181 ATGATATG--T
1 ATGATATGCAC
33634190 ATGATATGCAC
1 ATGATATGCAC
33634201 ATGAT
1 ATGAT
33634206 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33634205 original size:20 final size:20
Alignment explanation
Indices: 33634139--33634205 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
33634129 ATTTTGATAA
*
33634139 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33634159 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
33634179 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33634199 ACATGAT
1 ACATGAT
33634206 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33634314 original size:23 final size:24
Alignment explanation
Indices: 33634255--33634373 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
33634245 GAGGAAGTGA
*
33634255 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
33634279 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33634303 AAAA-GGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
33634326 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
33634350 AAGAGAGGC-TAGGCCCCCAGTTAT
1 AAAAG-GGCTTATG-CCCCAGTTAT
33634374 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 22 0.26
24 50 0.59
25 13 0.15
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33634330 original size:47 final size:47
Alignment explanation
Indices: 33634255--33634374 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 47
33634245 GAGGAAGTGA
*
33634255 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAA-GGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
33634303 AAAAGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
33634350 AAGAGAGGC-TAGGCCCCCAGTTATA
1 AA-A-AGGCTTATG-CCCCAGTTATA
33634375 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
47 43 0.65
48 8 0.12
49 15 0.23
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
Found at i:33634602 original size:31 final size:31
Alignment explanation
Indices: 33634567--33634630 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33634557 CGTTTACAGT
*
33634567 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
33634598 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33634629 AA
1 AA
33634631 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33641798 original size:25 final size:25
Alignment explanation
Indices: 33641769--33641816 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33641759 TTATAACATG
* * *
33641769 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
33641794 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
33641817 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:33641900 original size:11 final size:11
Alignment explanation
Indices: 33641864--33641919 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
33641854 CATGGTATGT
33641864 ATGATATGCAC
1 ATGATATGCAC
* *
33641875 ATGACATG--T
1 ATGATATGCAC
33641884 ATGATATGCAC
1 ATGATATGCAC
*
33641895 ATGATATG--T
1 ATGATATGCAC
33641904 ATGATATGCAC
1 ATGATATGCAC
33641915 ATGAT
1 ATGAT
33641920 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33641919 original size:20 final size:20
Alignment explanation
Indices: 33641853--33641919 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
33641843 ATTTTGATAA
*
33641853 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33641873 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
33641893 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33641913 ACATGAT
1 ACATGAT
33641920 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33642025 original size:24 final size:24
Alignment explanation
Indices: 33641969--33642158 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
33641959 GAGGAAGTGA
33641969 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33641993 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33642016 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
33642040 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33642064 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33642088 AAAA-GGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
33642111 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33642135 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33642159 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.29
24 98 0.64
25 11 0.07
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33642038 original size:47 final size:47
Alignment explanation
Indices: 33641969--33642137 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
33641959 GAGGAAGTGA
33641969 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
33642016 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
* * *
33642064 AAAAGGGCTTACGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
33642111 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
33642138 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 69 0.61
48 45 0.39
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:33642096 original size:71 final size:72
Alignment explanation
Indices: 33641968--33642158 Score: 307
Period size: 71 Copynumber: 2.7 Consensus size: 72
33641958 GGAGGAAGTG
*
33641968 AAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCC
33642032 CAGTTAT
66 CAGTTAT
*
33642039 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATTAAAA-GGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCC
33642103 CAGTTAT
66 CAGTTAT
* *
33642110 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTACGCC-CCAGTTAT
33642159 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
71 75 0.67
72 37 0.33
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (72 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCC
CAGTTAT
Found at i:33642387 original size:31 final size:31
Alignment explanation
Indices: 33642352--33642415 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33642342 CGTTTACAGT
*
33642352 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
33642383 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33642414 AA
1 AA
33642416 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33646360 original size:41 final size:41
Alignment explanation
Indices: 33646266--33646398 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
33646256 ATAAATGATT
* * * *
33646266 AGCCAAAGCTATA-AAGATATCGCACATTTAGTGCCATCATATCA
1 AGCCGAAGCTATATCAG-TATCACACACTTAGTGCCAT-ATA--A
33646310 AGCCGAAGCTATATCAGTATCACACACTTAGTGCCATATAA
1 AGCCGAAGCTATATCAGTATCACACACTTAGTGCCATATAA
* *
33646351 AGCTGAAGCTATATCAGTATCTCACACTTAGTGCCATATAA
1 AGCCGAAGCTATATCAGTATCACACACTTAGTGCCATATAA
33646392 AGCCGAA
1 AGCCGAA
33646399 TTGTGACAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
41 46 0.57
43 3 0.04
44 30 0.37
45 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (41 bp):
AGCCGAAGCTATATCAGTATCACACACTTAGTGCCATATAA
Found at i:33648454 original size:49 final size:49
Alignment explanation
Indices: 33648276--33648782 Score: 860
Period size: 49 Copynumber: 10.6 Consensus size: 49
33648266 TATTTGAATA
33648276 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648323 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648370 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648417 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648466 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648515 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648562 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648611 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
33648660 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
33648709 AATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATG
*
33648756 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
33648783 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 7, Indels: 15
0.95 0.01 0.03
Matches are distributed among these distances:
46 2 0.00
47 197 0.44
48 3 0.01
49 243 0.55
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:33648533 original size:145 final size:143
Alignment explanation
Indices: 33648276--33648782 Score: 862
Period size: 145 Copynumber: 3.5 Consensus size: 143
33648266 TATTTGAATA
33648276 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
33648339 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
33648404 GGCCGATGTGATG
131 GGCCGATGTGATG
33648417 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
33648482 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
33648547 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
33648562 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
33648627 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
33648692 TAATGGCCGATGTGATG
127 TAATGGCCGATGTGATG
* * * * * *
33648709 AATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 AATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
33648772 A-ATGTGATAAG
65 ATATGTGATAAG
33648783 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
141 12 0.03
143 57 0.16
144 3 0.01
145 234 0.66
147 47 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:33661918 original size:19 final size:19
Alignment explanation
Indices: 33661883--33661920 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33661873 TTGCAATTTA
*
33661883 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
33661902 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
33661921 TTTGATAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:33667241 original size:79 final size:82
Alignment explanation
Indices: 33667130--33667314 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
33667120 GCTACTCGTT
* *
33667130 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33667193 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
33667210 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33667273 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33667290 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33667315 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33667314 original size:40 final size:40
Alignment explanation
Indices: 33667111--33667314 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
33667101 CGGAATTTAA
** *
33667111 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33667151 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33667191 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33667230 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33667270 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33667310 CCGGA
1 CCGGA
33667315 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33672056 original size:39 final size:40
Alignment explanation
Indices: 33671985--33672129 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
33671975 GCTCCTCGTT
* *
33671985 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
33672025 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
33672064 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
33672105 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33672130 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:33679319 original size:21 final size:21
Alignment explanation
Indices: 33679258--33679320 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
33679248 AATTGAAAAT
33679258 TGAATCAGTGTCGATAGTTTG
1 TGAATCAGTGTCGATAGTTTG
***
33679279 TGAAT-A-T-TCGA-AAAAT-
1 TGAATCAGTGTCGATAGTTTG
33679295 TGAATCAGTGTCGATAGTTTG
1 TGAATCAGTGTCGATAGTTTG
33679316 TGAAT
1 TGAAT
33679321 ATCCGATGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 5 0.16
17 3 0.10
18 5 0.16
19 5 0.16
20 3 0.10
21 10 0.32
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (21 bp):
TGAATCAGTGTCGATAGTTTG
Found at i:33683547 original size:21 final size:21
Alignment explanation
Indices: 33683486--33683548 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
33683476 AATTGAAAAT
33683486 TGAATCAGTGTCGATAGTTTG
1 TGAATCAGTGTCGATAGTTTG
***
33683507 TGAAT-A-T-TCGA-AAAAT-
1 TGAATCAGTGTCGATAGTTTG
33683523 TGAATCAGTGTCGATAGTTTG
1 TGAATCAGTGTCGATAGTTTG
33683544 TGAAT
1 TGAAT
33683549 ATCCGATGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 5 0.16
17 3 0.10
18 5 0.16
19 5 0.16
20 3 0.10
21 10 0.32
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (21 bp):
TGAATCAGTGTCGATAGTTTG
Found at i:33689474 original size:33 final size:33
Alignment explanation
Indices: 33689437--33689503 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
33689427 TCTAGTTTCT
*
33689437 TGAAATTG-GTGATATAACTCTGATTGAATGGCA
1 TGAAATTGTGTGAAATAA-TCTGATTGAATGGCA
* * *
33689470 TGAAATTGTTTGAAATGATCTGATTGAATTGCA
1 TGAAATTGTGTGAAATAATCTGATTGAATGGCA
33689503 T
1 T
33689504 TTGGGGTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (33 bp):
TGAAATTGTGTGAAATAATCTGATTGAATGGCA
Found at i:33697327 original size:47 final size:47
Alignment explanation
Indices: 33697274--33697528 Score: 363
Period size: 47 Copynumber: 5.4 Consensus size: 47
33697264 TCCTTTGGGA
*
33697274 CTTATCACAGT-TATACA-TTTC-CACTTCCATCACATTGACCATTCGGC
1 CTTATCACA-TATATACACTTTCACA-TT-CATCACATTGGCCATTCGGC
* * *
33697321 CTTATCATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
33697368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
33697415 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
33697462 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
33697509 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
33697529 GTACATCAAT
Statistics
Matches: 191, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 182 0.95
48 6 0.03
49 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:33701521 original size:40 final size:40
Alignment explanation
Indices: 33701489--33703197 Score: 2959
Period size: 40 Copynumber: 43.6 Consensus size: 40
33701479 CCAGCATGAT
* * * *
33701489 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
33701529 TGCTCTTCGGGGTTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33701569 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33701609 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33701649 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33701689 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33701729 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33701769 TGCTCTTCGGGACTTAGCCCGGAT--AT-A-T----C--A
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33701799 --CTATTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33701837 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33701877 TGCTCTTCGGGACTTAGCCCGGAT--AT-A-T----C--A
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33701907 --CTATTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33701945 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33701985 TGCTCTTCGGGACTTAGCCCGGAT--AT-A-T----C--A
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33702015 --CTATTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702053 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702093 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702133 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702173 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702213 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702253 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702293 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702333 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702373 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702413 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702453 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702493 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702533 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702573 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702613 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702653 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702693 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702733 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702773 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702813 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33702853 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33702893 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33702933 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33702973 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33703013 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33703053 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33703093 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33703133 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33703173 TGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATA
33703198 TAACATACTG
Statistics
Matches: 1606, Mismatches: 27, Indels: 72
0.94 0.02 0.04
Matches are distributed among these distances:
28 63 0.04
30 9 0.01
31 3 0.00
32 6 0.00
36 6 0.00
37 3 0.00
38 9 0.01
40 1507 0.94
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:33701814 original size:28 final size:28
Alignment explanation
Indices: 33701774--33701829 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33701764 ACGAATGCTC
*
33701774 TTCGGGACTTAGCCCGGATATATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
33701802 TTCGGGACTTAGCCCGGATACATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
33701830 GCACGAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
TTCGGGACTTAGCCCGGATACATCACTA
Found at i:33701922 original size:28 final size:28
Alignment explanation
Indices: 33701882--33701937 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33701872 ACGAATGCTC
*
33701882 TTCGGGACTTAGCCCGGATATATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
33701910 TTCGGGACTTAGCCCGGATACATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
33701938 GCACGAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
TTCGGGACTTAGCCCGGATACATCACTA
Found at i:33702030 original size:28 final size:28
Alignment explanation
Indices: 33701990--33702045 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33701980 ACGAATGCTC
*
33701990 TTCGGGACTTAGCCCGGATATATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
33702018 TTCGGGACTTAGCCCGGATACATCACTA
1 TTCGGGACTTAGCCCGGATACATCACTA
33702046 GCACGAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
TTCGGGACTTAGCCCGGATACATCACTA
Found at i:33712422 original size:30 final size:30
Alignment explanation
Indices: 33712388--33712446 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
33712378 CTTAACTCAG
33712388 ACTTTGGAAAAATTACAATTTTGCCCCTAA
1 ACTTTGGAAAAATTACAATTTTGCCCCTAA
* * * * *
33712418 ACTTTTGCATATTTACACTTTTGCCCCTA
1 ACTTTGGAAAAATTACAATTTTGCCCCTA
33712447 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:33716500 original size:42 final size:42
Alignment explanation
Indices: 33716400--33716553 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
33716390 CAATGGCAAC
* * * * *
33716400 GTCCCAGACGTGGTCTTATATGTAATCAAATATCGATGCCACT
1 GTCCCAAACGTGGTCTTACACGAAATCAAATAT-GATGCCAAT
33716443 GTCCCAAACAG-GGTCTTACACGAAATCAAATATGATGCCAAT
1 GTCCCAAAC-GTGGTCTTACACGAAATCAAATATGATGCCAAT
* * *
33716485 GTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCAAC
1 GTCCCAAACGTGGTCTTACACG-AAATCA-AA-TATGATGCCAAT
* *
33716529 ATCCCAAACATGGTCTTACACGAAA
1 GTCCCAAACGTGGTCTTACACGAAA
33716554 ACATATATCG
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 36 0.38
44 30 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAAACGTGGTCTTACACGAAATCAAATATGATGCCAAT
Found at i:33719176 original size:13 final size:13
Alignment explanation
Indices: 33719158--33719182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33719148 TATTATCAAC
33719158 TCAAAATTCAAAA
1 TCAAAATTCAAAA
33719171 TCAAAATTCAAA
1 TCAAAATTCAAA
33719183 TCACACAGAG
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TCAAAATTCAAAA
Found at i:33723370 original size:40 final size:40
Alignment explanation
Indices: 33723286--33723517 Score: 292
Period size: 40 Copynumber: 5.8 Consensus size: 40
33723276 TTGAATGATG
* * * *
33723286 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33723326 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
33723366 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33723405 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAGTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33723445 TCCGGGGTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
33723486 -CCGGGCTATGTCCCGAAGGCATTGGTGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
33723518 AGCTATATCC
Statistics
Matches: 168, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.21
40 123 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33724887 original size:42 final size:42
Alignment explanation
Indices: 33724840--33724943 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
33724830 TATCGGGATG
* * *
33724840 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
33724882 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
33724924 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
33724944 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:33724957 original size:42 final size:42
Alignment explanation
Indices: 33724840--33724965 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
33724830 TATCGGGATG
* * ** *
33724840 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
33724882 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
33724924 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
33724965 T
1 T
33724966 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:33725878 original size:21 final size:21
Alignment explanation
Indices: 33725852--33725908 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
33725842 ATGGTATAAG
33725852 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
33725873 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
33725897 GTGGCATGAATT
1 GTTG-ATGAATT
33725909 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:33732198 original size:29 final size:28
Alignment explanation
Indices: 33732162--33732239 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
33732152 TCATGAGATT
33732162 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
33732192 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
33732219 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
33732240 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:33732457 original size:174 final size:174
Alignment explanation
Indices: 33732192--33732519 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
33732182 AAATTGTACA
*
33732192 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
33732257 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
33732322 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
33732366 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
33732431 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
33732496 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
33732520 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:33735829 original size:55 final size:54
Alignment explanation
Indices: 33735724--33735975 Score: 230
Period size: 55 Copynumber: 4.7 Consensus size: 54
33735714 AGGGTTTAAC
* * * * *
33735724 GATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTT-TCTAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTCTATAAGGCAAA
* * * *
33735779 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAA
* * * * *
33735834 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
* * * *
33735887 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
* * * *
33735936 GATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
33735976 GTACCCGTGT
Statistics
Matches: 166, Mismatches: 28, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
49 40 0.24
52 2 0.01
53 48 0.29
54 8 0.05
55 68 0.41
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
Found at i:33735927 original size:108 final size:110
Alignment explanation
Indices: 33735731--33735928 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
33735721 AACGATACCG
* *
33735731 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAATGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
33735796 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * *
33735841 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
33735903 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
33735929 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 23 0.29
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:33736188 original size:16 final size:16
Alignment explanation
Indices: 33736167--33736197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33736157 ATAAATTTGA
33736167 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
33736183 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
33736198 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:33739166 original size:43 final size:42
Alignment explanation
Indices: 33739118--33739226 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
33739108 AATGCCAACG
* *
33739118 TCCTAGACATGGTCTTATATGTAATCAAATATCGATCCCACTA
1 TCCTAGACATGGTCTTACATGTAATCAAATA-CGATCCCAATA
* * * *
33739161 TCCTAGACAGGGTCTTACATGAAATCAAATACGATGCCAATG
1 TCCTAGACATGGTCTTACATGTAATCAAATACGATCCCAATA
* *
33739203 TCCCAGACGTGGTCTTACATGTAA
1 TCCTAGACATGGTCTTACATGTAA
33739227 AGCATAAGTC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCTAGACATGGTCTTACATGTAATCAAATACGATCCCAATA
Found at i:33739221 original size:42 final size:42
Alignment explanation
Indices: 33739109--33739270 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
33739099 AGCTCGTACA
* * * *
33739109 ATGCCAACGTCCTAGACATGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATA-CG
* * *
33739152 AT-CCCACTATCCTAGACAG-GGTCTTACATGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATACG
* *
33739194 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAAGCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCA-AA-TACG
* * *
33739238 ATGCCAGCGTCCCAGATGTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAA
33739271 ACACATATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATACG
Found at i:33740158 original size:19 final size:20
Alignment explanation
Indices: 33740114--33740158 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
33740104 TGATATTAAA
33740114 TTAATTTCATGCTTTTGTTC
1 TTAATTTCATGCTTTTGTTC
33740134 TTAATTTCATGCTTTTGTT-
1 TTAATTTCATGCTTTTGTTC
33740153 TTAATT
1 TTAATT
33740159 AAATTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (20 bp):
TTAATTTCATGCTTTTGTTC
Found at i:33744496 original size:43 final size:43
Alignment explanation
Indices: 33744331--33744506 Score: 110
Period size: 43 Copynumber: 4.0 Consensus size: 43
33744321 CAATGCCATC
* * * * * * *
33744331 TCCCAGATATGGTCTTACATGTTATCACATGTCGAT-GCCACTG
1 TCCCAGACATGGTCTTACACGTAATCACAT-TCAATAACTAATG
* * * *
33744374 TCCCAGACAAGGTGTTACACGTAATC-GATT-AATGATGAC-AATA
1 TCCCAGACATGGTCTTACACGTAATCACATTCAAT-A--ACTAATG
* * * *
33744417 TCCCAGACATCGTCTTACGCGTAATCTCAATACAAT-ACTAATG
1 TCCCAGACATGGTCTTACACGTAATCAC-ATTCAATAACTAATG
*
33744460 TCCCAGACATGGTCTTACATGTAATCACATCTCAATAACCTAATG
1 TCCCAGACATGGTCTTACACGTAATCACAT-TCAATAA-CTAATG
33744505 TC
1 TC
33744507 ATGACATTCG
Statistics
Matches: 100, Mismatches: 22, Indels: 20
0.70 0.15 0.14
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 6 0.06
43 76 0.76
44 2 0.02
45 10 0.10
46 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATTCAATAACTAATG
Found at i:33748782 original size:18 final size:21
Alignment explanation
Indices: 33748744--33748785 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
33748734 TCATTAAACT
33748744 ATACCAACAACAAATGCCAAC
1 ATACCAACAACAAATGCCAAC
33748765 ATACCAA-AA-AAA-GCCAAC
1 ATACCAACAACAAATGCCAAC
33748783 ATA
1 ATA
33748786 GAAGGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 2 0.10
21 7 0.33
ACGTcount: A:0.57, C:0.29, G:0.05, T:0.10
Consensus pattern (21 bp):
ATACCAACAACAAATGCCAAC
Found at i:33754635 original size:34 final size:34
Alignment explanation
Indices: 33754597--33754664 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
33754587 ATATGAATAA
33754597 GTACATTTAAATACACATTCAAGTTCACAAACCT
1 GTACATTTAAATACACATTCAAGTTCACAAACCT
33754631 GTACATTTAAATACACATTCAAGTTCACAAACCT
1 GTACATTTAAATACACATTCAAGTTCACAAACCT
33754665 TTCTCATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (34 bp):
GTACATTTAAATACACATTCAAGTTCACAAACCT
Found at i:33759883 original size:20 final size:20
Alignment explanation
Indices: 33759858--33759899 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
33759848 AAACTCTACT
33759858 GACATCTTTCTGTAGCAAAC
1 GACATCTTTCTGTAGCAAAC
*
33759878 GACATCTTTCTGTAGTAAAC
1 GACATCTTTCTGTAGCAAAC
33759898 GA
1 GA
33759900 GTCATCGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (20 bp):
GACATCTTTCTGTAGCAAAC
Found at i:33767854 original size:42 final size:42
Alignment explanation
Indices: 33767808--33767924 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 42
33767798 CCAAATTTGA
33767808 AATTTAAACTTAAAATCTAATTGAACTTAAAATA-AAAAAACT
1 AATTTAAACTTAAAATCTAATTGAACTTAAAA-ACAAAAAACT
* * * ***
33767850 AATTT-AATTTATAAATTTGATTGAACTTAAAAACAAAATTTT
1 AATTTAAACTTA-AAATCTAATTGAACTTAAAAACAAAAAACT
* *
33767892 AATTTAAACTAAAACACCCTAATTGAA-TTAAAA
1 AATTTAAACTTAAA-A-TCTAATTGAACTTAAAA
33767925 GGTCTAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
41 6 0.10
42 35 0.59
43 11 0.19
44 7 0.12
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (42 bp):
AATTTAAACTTAAAATCTAATTGAACTTAAAAACAAAAAACT
Found at i:33770985 original size:24 final size:24
Alignment explanation
Indices: 33770907--33770985 Score: 56
Period size: 24 Copynumber: 3.3 Consensus size: 24
33770897 AGCCCTTTGT
*
33770907 GAGCTT-TCCGTTAATGGCTCTCCG
1 GAGCTTCT-CGTTAATGGCTCTCCA
* * *
33770931 GAGCTTC-CTGATATTGGCTC-ACA
1 GAGCTTCTC-GTTAATGGCTCTCCA
* *
33770954 TAAACTTCTCGTTAATGGCTCTCCA
1 -GAGCTTCTCGTTAATGGCTCTCCA
33770979 GAGCTTC
1 GAGCTTC
33770986 CCGATACATC
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
23 2 0.05
24 34 0.87
25 3 0.08
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (24 bp):
GAGCTTCTCGTTAATGGCTCTCCA
Found at i:33772417 original size:55 final size:53
Alignment explanation
Indices: 33772330--33772584 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 53
33772320 ATTAGGGTTT
*
33772330 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
33772385 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
33772440 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
*
33772493 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * *
33772542 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
33772585 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:33772536 original size:108 final size:110
Alignment explanation
Indices: 33772337--33772537 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
33772327 TTTAAGGATA
*
33772337 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
33772402 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
33772447 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
33772509 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
33772538 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:33780149 original size:55 final size:55
Alignment explanation
Indices: 33780062--33780317 Score: 300
Period size: 55 Copynumber: 4.8 Consensus size: 55
33780052 ATTAGGGTTT
*
33780062 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCATAAGGC
* * *
33780117 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-ATAAGGC
* * *
33780172 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGC
* *
33780225 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTT--TAA--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGC
* * *
33780275 AAGGATACCATGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
33780318 GTACCCGTGT
Statistics
Matches: 177, Mismatches: 17, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
49 2 0.01
50 38 0.21
52 7 0.04
53 44 0.25
54 13 0.07
55 69 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGC
Found at i:33780268 original size:108 final size:110
Alignment explanation
Indices: 33780069--33780319 Score: 342
Period size: 108 Copynumber: 2.4 Consensus size: 110
33780059 TTTAAGGATA
*
33780069 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
33780134 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
*
33780179 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
33780241 ACCATGTCAAGACATGGCAATGGTAAG-TT-T-TAA---AAAGGATA
65 ACCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGG-TC
* * *
33780282 CCATGTAAGACCATGACAAGTCATGG-AAATGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
33780320 ACCCGTGTAT
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
102 5 0.04
103 31 0.24
104 1 0.01
105 3 0.02
106 1 0.01
107 5 0.04
108 47 0.37
109 7 0.06
110 27 0.21
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:33780529 original size:16 final size:16
Alignment explanation
Indices: 33780508--33780538 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33780498 ATAAATTTGA
33780508 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
33780524 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
33780539 GGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:33785292 original size:42 final size:42
Alignment explanation
Indices: 33785240--33785363 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
33785230 AGGCTACACA
* *
33785240 GAAGCACATAGGTGCTAAACAGAAACCCATAAGGGTTAAAAG
1 GAAGCTCATAGGTGCTGAACAGAAACCCATAAGGGTTAAAAG
* **
33785282 GAAGCTCATA-GTAGCTGAACAGAAAACCATAAGGGTTAAATT
1 GAAGCTCATAGGT-GCTGAACAGAAACCCATAAGGGTTAAAAG
* * ** * *
33785324 GAAGCTCAAAGGAGCTGAATTGAAACTCAGAAGGGTTAAA
1 GAAGCTCATAGGTGCTGAACAGAAACCCATAAGGGTTAAA
33785364 CTGAAACTCA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 65 0.96
43 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAGGTGCTGAACAGAAACCCATAAGGGTTAAAAG
Found at i:33785368 original size:21 final size:20
Alignment explanation
Indices: 33785312--33785373 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
33785302 AGAAAACCAT
*
33785312 AAGGGTTAAATTGAAGCTCA
1 AAGGGTTAAATTGAAACTCA
* *
33785332 AAGGAGCTGAATTGAAACTCA
1 AAGG-GTTAAATTGAAACTCA
*
33785353 GAAGGGTTAAACTGAAACTCA
1 -AAGGGTTAAATTGAAACTCA
33785374 TATGAGTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
AAGGGTTAAATTGAAACTCA
Found at i:33785425 original size:46 final size:46
Alignment explanation
Indices: 33785367--33785464 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
33785357 GGTTAAACTG
* *
33785367 AAACTCATATGAGTTGACTGAAGCTCATGAGAGCTAAACAGAAAGC
1 AAACACATATGAGTTGACTGAAGCTCATGAAAGCTAAACAGAAAGC
33785413 AAACACATATGAGTTGACTGAAGCTCATGAAAGCTAAACAGAAAGC
1 AAACACATATGAGTTGACTGAAGCTCATGAAAGCTAAACAGAAAGC
33785459 AAACAC
1 AAACAC
33785465 GAGAGTTCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.17
Consensus pattern (46 bp):
AAACACATATGAGTTGACTGAAGCTCATGAAAGCTAAACAGAAAGC
Found at i:33789990 original size:29 final size:29
Alignment explanation
Indices: 33789948--33790005 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
33789938 TTTTTAGGTC
*
33789948 TCATATTCTTGCCATGAATGACCTCTCTT
1 TCATATTCTTGCCATGAACGACCTCTCTT
33789977 TCATATTCTTGCCATGAACGACCTCTCTT
1 TCATATTCTTGCCATGAACGACCTCTCTT
33790006 CAAGTTTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (29 bp):
TCATATTCTTGCCATGAACGACCTCTCTT
Found at i:33793541 original size:34 final size:32
Alignment explanation
Indices: 33793474--33793566 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 32
33793464 GGTGGAGAAG
* *
33793474 AAGAAGAAAAGAAAAGAAAAACGGAAATGGGA
1 AAGAATAAAAGAAAAGAAAAACGGAAATAGGA
33793506 AAGAATAAAAGAAAAGGGAAAAACGAGAAA-AGGA
1 AAGAATAAAAGAAAA--GAAAAACG-GAAATAGGA
*
33793540 AATAATAAAAGAAAAAGAAAAA-GGAAA
1 AAGAATAAAAG-AAAAGAAAAACGGAAA
33793567 AAAGCAATGA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
31 4 0.07
32 15 0.28
33 6 0.11
34 21 0.39
35 8 0.15
ACGTcount: A:0.70, C:0.02, G:0.24, T:0.04
Consensus pattern (32 bp):
AAGAATAAAAGAAAAGAAAAACGGAAATAGGA
Found at i:33798543 original size:12 final size:12
Alignment explanation
Indices: 33798528--33798557 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33798518 ACAAATGCCT
33798528 TAAAAATAATAA
1 TAAAAATAATAA
*
33798540 TAAAATTAATAA
1 TAAAAATAATAA
33798552 TAAAAA
1 TAAAAA
33798558 AAGTTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:33807233 original size:16 final size:16
Alignment explanation
Indices: 33807212--33807243 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33807202 AAAAAGTATA
33807212 TAAAATTCTAAAAAAT
1 TAAAATTCTAAAAAAT
*
33807228 TAAAATTTTAAAAAAT
1 TAAAATTCTAAAAAAT
33807244 CCAAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATTCTAAAAAAT
Found at i:33808522 original size:15 final size:16
Alignment explanation
Indices: 33808502--33808534 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33808492 TATATATTTT
33808502 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
33808517 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
33808534 T
1 T
33808535 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:33808619 original size:22 final size:22
Alignment explanation
Indices: 33808580--33808638 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
33808570 GTTTTAAGAA
*
33808580 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
33808601 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
33808623 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
33808639 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:33808655 original size:26 final size:24
Alignment explanation
Indices: 33808609--33808668 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
33808599 ATTTGTTTTA
*
33808609 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
33808633 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
33808659 TTTTTTATTT
1 ATATTTATTT
33808669 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:33830456 original size:24 final size:24
Alignment explanation
Indices: 33830424--33830471 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33830414 ACACTCCTCA
33830424 ACTTAATTTATTCACAACAATGTT
1 ACTTAATTTATTCACAACAATGTT
*
33830448 ACTTAATTTATTTACAACAATGTT
1 ACTTAATTTATTCACAACAATGTT
33830472 TAAATGTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (24 bp):
ACTTAATTTATTCACAACAATGTT
Found at i:33831038 original size:10 final size:10
Alignment explanation
Indices: 33831023--33831050 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
33831013 ATTAAGGGAA
33831023 AAAGTAAAAC
1 AAAGTAAAAC
33831033 AAAGTAAAAC
1 AAAGTAAAAC
33831043 AAAGTAAA
1 AAAGTAAA
33831051 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:33831727 original size:25 final size:25
Alignment explanation
Indices: 33831699--33831750 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
33831689 TTTGGCTTGA
**
33831699 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
33831724 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
33831749 CA
1 CA
33831751 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:33847778 original size:38 final size:38
Alignment explanation
Indices: 33847736--33847812 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
33847726 TCAAATTTTT
* *
33847736 CGAACGATAGTTCCATCAAATTAGCCAAAAACACAACC
1 CGAACAATAGCTCCATCAAATTAGCCAAAAACACAACC
* *
33847774 CGAACAATAGCTCCGTCAAATTAGCCAGAAACACAACC
1 CGAACAATAGCTCCATCAAATTAGCCAAAAACACAACC
33847812 C
1 C
33847813 ATTGTACATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.14
Consensus pattern (38 bp):
CGAACAATAGCTCCATCAAATTAGCCAAAAACACAACC
Found at i:33851388 original size:16 final size:15
Alignment explanation
Indices: 33851362--33851391 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33851352 TTATTTTTCA
33851362 AATAAAACAAATAAC
1 AATAAAACAAATAAC
33851377 AATAATAACAAATAA
1 AATAA-AACAAATAA
33851392 AATCTAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAACAAATAAC
Found at i:33858219 original size:6 final size:6
Alignment explanation
Indices: 33858201--33858240 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
33858191 TAAAGAAGAT
* *
33858201 AAATAA AGATAA AACTAA AAATAA AAATAAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAA
33858241 GTCTTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:33860830 original size:28 final size:28
Alignment explanation
Indices: 33860792--33861013 Score: 381
Period size: 28 Copynumber: 7.9 Consensus size: 28
33860782 TAAATTGTAC
*
33860792 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33860820 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33860848 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33860876 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33860904 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33860932 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33860960 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
33860988 AGCACTAAGTGTGCGAGTTTGATTAT
1 AGCACTAAGTGTGCGAGTTTGATTAT
33861014 TGAACTTCGA
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 181 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:33861010 original size:56 final size:56
Alignment explanation
Indices: 33860767--33861013 Score: 395
Period size: 56 Copynumber: 4.4 Consensus size: 56
33860757 GAGATTGGCG
* * * *
33860767 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
* *
33860824 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
* *
33860880 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
* *
33860936 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
33860992 CTAAGTGTGCGAGTTTGATTAT
1 CTAAGTGTGCGAGTTTGATTAT
33861014 TGAACTTCGA
Statistics
Matches: 180, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
56 165 0.92
57 15 0.08
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
Found at i:33861010 original size:84 final size:84
Alignment explanation
Indices: 33860767--33861013 Score: 386
Period size: 84 Copynumber: 2.9 Consensus size: 84
33860757 GAGATTGGCG
* * * * *
33860767 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
*
33860832 GCGAGTTTGACTATGTAGCA
65 GCGAGTTTGATTATGTAGCA
* * *
33860852 CTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
*
33860917 CGAGCTTGATTATGTAGCA
66 CGAGTTTGATTATGTAGCA
*
33860936 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTTGATTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
33861001 CGAGTTTGATTAT
66 CGAGTTTGATTAT
33861014 TGAACTTCGA
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 133 0.90
85 14 0.10
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (84 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
CGAGTTTGATTATGTAGCA
Found at i:33863699 original size:18 final size:18
Alignment explanation
Indices: 33863676--33863721 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
33863666 TGGCGTGGTT
33863676 TTGGTTTATCGTGTGTCA
1 TTGGTTTATCGTGTGTCA
*
33863694 TTGGTTTATCGTGTGTCC
1 TTGGTTTATCGTGTGTCA
33863712 TTGGTTTATC
1 TTGGTTTATC
33863722 ATGCATCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.13, G:0.26, T:0.52
Consensus pattern (18 bp):
TTGGTTTATCGTGTGTCA
Found at i:33863730 original size:18 final size:18
Alignment explanation
Indices: 33863694--33863738 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
33863684 TCGTGTGTCA
* **
33863694 TTGGTTTATCGTGTGTCC
1 TTGGTTTATCATGCATCC
33863712 TTGGTTTATCATGCATCC
1 TTGGTTTATCATGCATCC
33863730 TTGGTTTAT
1 TTGGTTTAT
33863739 ATGTTCGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.16, G:0.22, T:0.51
Consensus pattern (18 bp):
TTGGTTTATCATGCATCC
Found at i:33874900 original size:34 final size:34
Alignment explanation
Indices: 33874862--33874932 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
33874852 TTTTTCCAAA
33874862 AGTAATTCCCCAATTCTATTTTCTGTGAATTCTT
1 AGTAATTCCCCAATTCTATTTTCTGTGAATTCTT
33874896 AGTAATTCCCCAATTCTATTTTCTGTGAATTCTT
1 AGTAATTCCCCAATTCTATTTTCTGTGAATTCTT
33874930 AGT
1 AGT
33874933 TTAGATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (34 bp):
AGTAATTCCCCAATTCTATTTTCTGTGAATTCTT
Found at i:33878835 original size:23 final size:23
Alignment explanation
Indices: 33878809--33878855 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
33878799 TCATTCTCTT
*
33878809 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
33878832 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
33878855 T
1 T
33878856 AATGGCATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:33880815 original size:17 final size:17
Alignment explanation
Indices: 33880793--33880825 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33880783 TTTAGGAAAA
33880793 ATTTTGATTGATATATG
1 ATTTTGATTGATATATG
33880810 ATTTTGATTGATATAT
1 ATTTTGATTGATATAT
33880826 CTTGAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
ATTTTGATTGATATATG
Found at i:33883027 original size:18 final size:18
Alignment explanation
Indices: 33883004--33883038 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33882994 TCGCGATCAA
33883004 TTGTGTGTCCTTGGTTTG
1 TTGTGTGTCCTTGGTTTG
33883022 TTGTGTGTCCTTGGTTT
1 TTGTGTGTCCTTGGTTT
33883039 ATGTGTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.31, T:0.57
Consensus pattern (18 bp):
TTGTGTGTCCTTGGTTTG
Found at i:33887810 original size:29 final size:29
Alignment explanation
Indices: 33887780--33887981 Score: 164
Period size: 29 Copynumber: 7.0 Consensus size: 29
33887770 CCACAAGACA
*
33887780 TACCTT-TAACAAAGATATCCACAAAGGC
1 TACCTTATAACAAAGATAGCCACAAAGGC
* **
33887808 ATA-CTTTTAACAGTGATAGCCACAAAGGC
1 -TACCTTATAACAAAGATAGCCACAAAGGC
* * *
33887837 TTCCTTATAACAGAGATCGCCACAAAGGC
1 TACCTTATAACAAAGATAGCCACAAAGGC
* *
33887866 TTCCTTATAACAAAGATCGCCACAAAGGC
1 TACCTTATAACAAAGATAGCCACAAAGGC
* * * * *
33887895 TTCTTTATAACAGAGATCA-ACACAAAGAC
1 TACCTTATAACAAAGAT-AGCCACAAAGGC
*
33887924 TTCCTTATAA-AAGAGATCA-CCACAAAGGC
1 TACCTTATAACAA-AGAT-AGCCACAAAGGC
* * *
33887953 T-TCTTTTAACAGAGATAGCCACAAAGGC
1 TACCTTATAACAAAGATAGCCACAAAGGC
33887981 T
1 T
33887982 CACTTTTATG
Statistics
Matches: 147, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.01
28 26 0.18
29 120 0.82
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (29 bp):
TACCTTATAACAAAGATAGCCACAAAGGC
Found at i:33887877 original size:58 final size:58
Alignment explanation
Indices: 33887798--33887981 Score: 228
Period size: 58 Copynumber: 3.2 Consensus size: 58
33887788 ACAAAGATAT
* * * *
33887798 CCACAAAGGCATACTTTTAACAGTGATAGCCACAAAGGCTTCCTTATAACAGAGATCG
1 CCACAAAGGCTTCCTTATAACAGAGATAGCCACAAAGGCTTCCTTATAACAGAGATCG
* * * *
33887856 CCACAAAGGCTTCCTTATAACAAAGATCGCCACAAAGGCTTCTTTATAACAGAGATCA
1 CCACAAAGGCTTCCTTATAACAGAGATAGCCACAAAGGCTTCCTTATAACAGAGATCG
* * * * *
33887914 ACACAAAGACTTCCTTATAAAAGAGATCA-CCACAAAGGCTT-CTTTTAACAGAGATAG
1 CCACAAAGGCTTCCTTATAACAGAGAT-AGCCACAAAGGCTTCCTTATAACAGAGATCG
33887971 CCACAAAGGCT
1 CCACAAAGGCT
33887982 CACTTTTATG
Statistics
Matches: 106, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.20
58 85 0.80
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (58 bp):
CCACAAAGGCTTCCTTATAACAGAGATAGCCACAAAGGCTTCCTTATAACAGAGATCG
Found at i:33887906 original size:87 final size:85
Alignment explanation
Indices: 33887782--33887989 Score: 274
Period size: 87 Copynumber: 2.4 Consensus size: 85
33887772 ACAAGACATA
* * * *
33887782 CCTTTAACAAAGATATCCACAAAGGCATACTTTTAACAGTGAT-AGCCACAAAGGCTTCCTTATA
1 CCTTTAACAAAGATAGCCACAAAGGC-TACTTTTAACAGAGATCA-ACACAAAGACTTCCTTATA
* *
33887846 ACAGAGATCGCCACAAAGGCTT
64 AAAGAGATCACCACAAAGGCTT
* *
33887868 CCTTATAACAAAGATCGCCACAAAGGCTTCTTTATAACAGAGATCAACACAAAGACTTCCTTATA
1 CCTT-TAACAAAGATAGCCACAAAGGCTACTTT-TAACAGAGATCAACACAAAGACTTCCTTATA
33887933 AAAGAGATCACCACAAAGGCTT
64 AAAGAGATCACCACAAAGGCTT
* *
33887955 CTTTTAACAGAGATAGCCACAAAGGCTCACTTTTA
1 CCTTTAACAAAGATAGCCACAAAGGCT-ACTTTTA
33887990 TGAAAATAGG
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
86 32 0.30
87 73 0.69
88 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (85 bp):
CCTTTAACAAAGATAGCCACAAAGGCTACTTTTAACAGAGATCAACACAAAGACTTCCTTATAAA
AGAGATCACCACAAAGGCTT
Found at i:33888848 original size:13 final size:13
Alignment explanation
Indices: 33888826--33888858 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33888816 AAGGGTTTGT
33888826 TTAT-TAAACTAA
1 TTATCTAAACTAA
33888838 TTATCTAAACTAA
1 TTATCTAAACTAA
*
33888851 TTAACTAA
1 TTATCTAA
33888859 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:33891797 original size:17 final size:17
Alignment explanation
Indices: 33891763--33891821 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
33891753 AAAATAAAAT
*
33891763 AATAAAATAG-AAATGAA
1 AATAAAA-AGAAAAAGAA
33891780 AATAAAAAGAAAAAGAA
1 AATAAAAAGAAAAAGAA
* * *
33891797 AAAAATAAATAAAAA-TA
1 AATAA-AAAGAAAAAGAA
33891814 AATAAAAA
1 AATAAAAA
33891822 ATAATAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.14
17 22 0.63
18 8 0.23
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AATAAAAAGAAAAAGAA
Found at i:33891812 original size:6 final size:6
Alignment explanation
Indices: 33891753--33891837 Score: 57
Period size: 6 Copynumber: 13.7 Consensus size: 6
33891743 TATGTCTTTC
* * * *
33891753 AAAAT- AAAATAA TAAAATA GAAATG AAAATA AAAAGA AAAAGA AAAA-A
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
33891801 ATAAATA AAAATA AATAAAA AATAATA AGAATA AAAA
1 A-AAATA AAAATA AA-AATA AA-AATA AAAATA AAAA
33891838 GATAGGTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
5 7 0.11
6 40 0.62
7 13 0.20
8 5 0.08
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:33891833 original size:20 final size:21
Alignment explanation
Indices: 33891758--33891835 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 21
33891748 CTTTCAAAAT
33891758 AAAATAATAA-AAT--AGAAA
1 AAAATAATAAGAATAAAGAAA
*
33891776 TGAAAATAAAAAGAA-AAAGAAA
1 --AAAATAATAAGAATAAAGAAA
* *
33891798 AAAATAAATAAAAATAAA-TAA
1 AAAAT-AATAAGAATAAAGAAA
33891819 AAAATAATAAGAATAAA
1 AAAATAATAAGAATAAA
33891836 AAGATAGGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 25 0.52
21 15 0.31
22 8 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAATAATAAGAATAAAGAAA
Done.