Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 102 of 343
Found at i:34150931 original size:37 final size:35
Alignment explanation
Indices: 34150876--34151003 Score: 125
Period size: 36 Copynumber: 3.6 Consensus size: 35
34150866 CTATCCTAAT
*
34150876 CTTTTTAAGGTTAG-TTTAGACAAGTTTATCCCAAC
1 CTTTTTAAGGTT-GCTTTAGACAAGTTTATTCCAAC
* * **
34150911 CTGTTTTAAAGGTTGCTTTAGACATGTCTATTTTAAC
1 CT-TTTT-AAGGTTGCTTTAGACAAGTTTATTCCAAC
*
34150948 CTTTTTAAGGTTACTTTAGACAAGGTTTATTCCAA-
1 CTTTTTAAGGTTGCTTTAGACAA-GTTTATTCCAAC
* *
34150983 CTTTTCCAAGGTTGTTTTAGA
1 CTTTT-TAAGGTTGCTTTAGA
34151004 TGGCCTATCT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
35 22 0.29
36 29 0.39
37 24 0.32
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (35 bp):
CTTTTTAAGGTTGCTTTAGACAAGTTTATTCCAAC
Found at i:34150987 original size:35 final size:35
Alignment explanation
Indices: 34150876--34150987 Score: 127
Period size: 37 Copynumber: 3.1 Consensus size: 35
34150866 CTATCCTAAT
* *
34150876 CTTTTTAAGGTTAGTTTAGACAAGTTTATCCCAAC
1 CTTTTTAAGGTTACTTTAGACAAGTTTATTCCAAC
* * * **
34150911 CTGTTTTAAAGGTTGCTTTAGACATGTCTATTTTAAC
1 CT-TTTT-AAGGTTACTTTAGACAAGTTTATTCCAAC
34150948 CTTTTTAAGGTTACTTTAGACAAGGTTTATTCCAA-
1 CTTTTTAAGGTTACTTTAGACAA-GTTTATTCCAAC
34150983 CTTTT
1 CTTTT
34150988 CCAAGGTTGT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
35 22 0.35
36 16 0.26
37 24 0.39
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (35 bp):
CTTTTTAAGGTTACTTTAGACAAGTTTATTCCAAC
Found at i:34151096 original size:35 final size:35
Alignment explanation
Indices: 34151043--34151131 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
34151033 CTTTAAATAA
* *
34151043 GGTCTATTTCAACTTTTTTAAGGTTGTCTT-AGACG
1 GGTCTATCTCAACCTTTTTAAGGTTGT-TTCAGACG
* *
34151078 GGTCTATCTTAATCTTTTTAAGGTTGTTTCAGACG
1 GGTCTATCTCAACCTTTTTAAGGTTGTTTCAGACG
*
34151113 GGTTTATCTCAACCTTTTT
1 GGTCTATCTCAACCTTTTT
34151132 TAAATGTCGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
34 2 0.04
35 44 0.96
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (35 bp):
GGTCTATCTCAACCTTTTTAAGGTTGTTTCAGACG
Found at i:34151132 original size:72 final size:70
Alignment explanation
Indices: 34150864--34151131 Score: 213
Period size: 72 Copynumber: 3.7 Consensus size: 70
34150854 CGTTAGATGT
* * *
34150864 GTCTATCCTAATCTTTTTAAGGTTAGTTTAGACAAGTTTATCCCAACCTGTTTTAAAGGTTG-CT
1 GTCTATCTTAATCTTTTTAAGGTTAGTTTAGACAGGTTTATCTCAA-CT-TTTTAAAGGTTGTC-
*
34150928 TTAGACAT
63 TTAGACAG
* * * ** *
34150936 GTCTATTTTAACCTTTTTAAGGTTACTTTAGACAAGGTTTAT-TCCAACTTTTCCAAGGTTGTTT
1 GTCTATCTTAATCTTTTTAAGGTTAGTTTAGAC-AGGTTTATCT-CAACTTTTTAAAGGTTGTCT
*
34151000 TAGA-TG
64 TAGACAG
* * * * * * * *
34151006 GCCTATCTTAATTTTTTTTAAAAGTT-GCTTTAAATAAGGTCTATTTCAACTTTTTTAAGGTTGT
1 GTCTATCTTAA-TCTTTTT-AAGGTTAG-TTTAGA-CAGGTTTATCTCAACTTTTTAAAGGTTGT
*
34151070 CTTAGACGG
62 CTTAGACAG
*
34151079 GTCTATCTTAATCTTTTTAAGGTT-GTTTCAGACGGGTTTATCTCAACCTTTTT
1 GTCTATCTTAATCTTTTTAAGGTTAGTTT-AGACAGGTTTATCTCAA-CTTTTT
34151132 TAAATGTCGG
Statistics
Matches: 153, Mismatches: 32, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
70 22 0.14
71 34 0.22
72 75 0.49
73 22 0.14
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (70 bp):
GTCTATCTTAATCTTTTTAAGGTTAGTTTAGACAGGTTTATCTCAACTTTTTAAAGGTTGTCTTA
GACAG
Found at i:34153036 original size:27 final size:27
Alignment explanation
Indices: 34152988--34153145 Score: 150
Period size: 27 Copynumber: 5.9 Consensus size: 27
34152978 GCGAGGCTGC
* *
34152988 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
34153015 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
34153041 C-GATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
34153067 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
34153094 CAGATATATGTGGCAGAGACA-CA-ATA
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
34153120 TTAGATAATTGTGGCATAGCCACCAG
1 -CAGAT-ATTGTGGCAGAGCCACCAG
34153146 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
25 6 0.06
26 26 0.24
27 70 0.64
28 7 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:34153058 original size:26 final size:27
Alignment explanation
Indices: 34153006--34153111 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
34152996 GTGACGAAGT
34153006 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
34153033 CACCAGAAC-GATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
34153059 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
34153086 CACCAGAACAGATATATGTGGCAGAG
1 CACCAGAACAGATATATGTGGCAGAG
34153112 ACACAATATT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
25 5 0.07
26 23 0.32
27 41 0.58
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:34153064 original size:53 final size:55
Alignment explanation
Indices: 34153006--34153145 Score: 200
Period size: 54 Copynumber: 2.6 Consensus size: 55
34152996 GTGACGAAGT
* *
34153006 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAAC-GATATATGTGGCAGAGC
1 CACCAGATACAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGA
*
34153059 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGA
1 CACCAGATACAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGA
*
34153113 CA-CA-ATATTAGATAATTGTGGCATAGCCACCAG
1 CACCAGATA-CAGATAATTGTGGCATAGCCACCAG
34153146 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
52 7 0.09
53 30 0.38
54 41 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CACCAGATACAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGA
Found at i:34153320 original size:28 final size:26
Alignment explanation
Indices: 34153251--34153324 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 26
34153241 AAATTAACCC
* * * *
34153251 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATTATAGTAATTTTCCACA
*
34153277 TAGGGGTA-TAGCAGTAATTTTCCATACA
1 TAGGGGTATTA-TAGTAATTTTCC--ACA
34153305 TAGGGGTATTATAGTAATTT
1 TAGGGGTATTATAGTAATTT
34153325 AGCTACTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 17 0.45
28 18 0.47
29 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (26 bp):
TAGGGGTATTATAGTAATTTTCCACA
Found at i:34154799 original size:26 final size:26
Alignment explanation
Indices: 34154768--34154875 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34154758 TGAAATGCCC
*
34154768 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34154794 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34154820 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34154846 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34154872 ATCA
1 ATCA
34154876 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34156368 original size:21 final size:21
Alignment explanation
Indices: 34156344--34156411 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
34156334 TGTAACTCGG
34156344 TCACATGGGCATGTG-CTCCCT
1 TCACATGGGCATGTGCCT-CCT
* * *
34156365 TCACATGGTCGTGTGCCTCTT
1 TCACATGGGCATGTGCCTCCT
*
34156386 TCACATGGGCATGTGCCTTCT
1 TCACATGGGCATGTGCCTCCT
34156407 TCACA
1 TCACA
34156412 CAACCTAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 37 0.95
22 2 0.05
ACGTcount: A:0.15, C:0.31, G:0.22, T:0.32
Consensus pattern (21 bp):
TCACATGGGCATGTGCCTCCT
Found at i:34157819 original size:21 final size:19
Alignment explanation
Indices: 34157795--34157833 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
34157785 TACAAGGAGA
34157795 AATTCATTTATATTATAAAAT
1 AATT-ATTT-TATTATAAAAT
*
34157816 AATTATTTTCTTATAAAA
1 AATTATTTTATTATAAAA
34157834 AGATTGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTATTTTATTATAAAAT
Found at i:34159843 original size:22 final size:21
Alignment explanation
Indices: 34159820--34159884 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
34159810 TTACAATATT
*
34159820 TTAATTAATTTTAATTTTAATT
1 TTAATTTA-TTTAATTTTAATT
* **
34159842 TTAATTTAGATTAAGATTAATT
1 TTAATTTA-TTTAATTTTAATT
34159864 TTAATTTATTT-ATTTTAATT
1 TTAATTTATTTAATTTTAATT
34159884 T
1 T
34159885 GATATTTCGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 8 0.23
21 2 0.06
22 25 0.71
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTAATTTATTTAATTTTAATT
Found at i:34159884 original size:6 final size:6
Alignment explanation
Indices: 34159824--34159848 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34159814 AATATTTTAA
34159824 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
34159849 AGATTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:34160437 original size:12 final size:12
Alignment explanation
Indices: 34160420--34160452 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34160410 TATTTTTTAG
34160420 TTATTTACTCAC
1 TTATTTACTCAC
*
34160432 TTATTTATTCAC
1 TTATTTACTCAC
34160444 TTATTTACT
1 TTATTTACT
34160453 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:34168860 original size:5 final size:5
Alignment explanation
Indices: 34168850--34168876 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34168840 AATCTCAAGC
34168850 AAACA AAACA AAACA AAACA AAACA AA
1 AAACA AAACA AAACA AAACA AAACA AA
34168877 CTAAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:34168898 original size:10 final size:9
Alignment explanation
Indices: 34168854--34168914 Score: 61
Period size: 10 Copynumber: 6.4 Consensus size: 9
34168844 TCAAGCAAAC
*
34168854 AAAACAAAA
1 AAAACTAAA
34168863 CAAAAC-AAA
1 -AAAACTAAA
34168872 ACAAACTAAA
1 A-AAACTAAA
*
34168882 TAAACTAGAA
1 AAAACTA-AA
34168892 AAAACTAAA
1 AAAACTAAA
34168901 ACAAACTAAA
1 A-AAACTAAA
34168911 AAAA
1 AAAA
34168915 AGAAATAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 1 0.02
9 19 0.42
10 25 0.56
ACGTcount: A:0.75, C:0.15, G:0.02, T:0.08
Consensus pattern (9 bp):
AAAACTAAA
Found at i:34169797 original size:40 final size:40
Alignment explanation
Indices: 34169691--34169851 Score: 128
Period size: 40 Copynumber: 4.0 Consensus size: 40
34169681 GATGCAAAAT
* * * * *
34169691 AAGGGCACAGATGTGC-AGTTAAGGGCACCAAAGTGCAAA-
1 AAGGGTACAGATGTGCAAG-CAGGGGCACCGATGTGCAAAC
* *
34169730 AAGGGACACAGATGTGCAAGCATGGGCACCGATGTGCAAAC
1 AAGGG-TACAGATGTGCAAGCAGGGGCACCGATGTGCAAAC
* * * * ** *
34169771 AAGGGTGCATATGTTCAATCAGGGGCACATATGTGCAAAT
1 AAGGGTACAGATGTGCAAGCAGGGGCACCGATGTGCAAAC
* * * *
34169811 AGGGGTACCGATGTGCAAGCAGGGGCATCGATGTGAAAAC
1 AAGGGTACAGATGTGCAAGCAGGGGCACCGATGTGCAAAC
34169851 A
1 A
34169852 TAAATAATTG
Statistics
Matches: 95, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
39 5 0.05
40 83 0.87
41 7 0.07
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (40 bp):
AAGGGTACAGATGTGCAAGCAGGGGCACCGATGTGCAAAC
Found at i:34169814 original size:20 final size:20
Alignment explanation
Indices: 34169687--34169828 Score: 72
Period size: 20 Copynumber: 7.1 Consensus size: 20
34169677 CATTGATGCA
*
34169687 AAATAAGGGCACAGATGTGC
1 AAATAGGGGCACAGATGTGC
** * *
34169707 AGTTAAGGGCACCA-AAGTGC
1 AAATAGGGGCA-CAGATGTGC
* *
34169727 AAAAAGGGACACAGATGTGC
1 AAATAGGGGCACAGATGTGC
** * *
34169747 AAGCATGGGCACCGATGTGC
1 AAATAGGGGCACAGATGTGC
* * ** * *
34169767 AAACAAGGGTGCATATGTTC
1 AAATAGGGGCACAGATGTGC
*
34169787 -AATCAGGGGCACATATGTGC
1 AAAT-AGGGGCACAGATGTGC
* *
34169807 AAATAGGGGTACCGATGTGC
1 AAATAGGGGCACAGATGTGC
34169827 AA
1 AA
34169829 GCAGGGGCAT
Statistics
Matches: 89, Mismatches: 29, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
19 4 0.04
20 80 0.90
21 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (20 bp):
AAATAGGGGCACAGATGTGC
Found at i:34169834 original size:20 final size:20
Alignment explanation
Indices: 34169713--34169851 Score: 93
Period size: 20 Copynumber: 7.0 Consensus size: 20
34169703 GTGCAGTTAA
* * *
34169713 GGGCACCAAAGTGCAAAAAG
1 GGGCACCGATGTGCAAACAG
* * * *
34169733 GGACACAGATGTGCAAGCAT
1 GGGCACCGATGTGCAAACAG
34169753 GGGCACCGATGTGCAAACAAG
1 GGGCACCGATGTGCAAAC-AG
* * *
34169774 GGTGCA--TATGTTCAATCAG
1 GG-GCACCGATGTGCAAACAG
** *
34169793 GGGCACATATGTGCAAATAG
1 GGGCACCGATGTGCAAACAG
* *
34169813 GGGTACCGATGTGCAAGCAG
1 GGGCACCGATGTGCAAACAG
* *
34169833 GGGCATCGATGTGAAAACA
1 GGGCACCGATGTGCAAACA
34169852 TAAATAATTG
Statistics
Matches: 89, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
18 3 0.03
19 4 0.04
20 76 0.85
21 3 0.03
22 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.16
Consensus pattern (20 bp):
GGGCACCGATGTGCAAACAG
Found at i:34172545 original size:27 final size:27
Alignment explanation
Indices: 34172514--34172567 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34172504 TATTATTTTG
34172514 TTATTTTAATGTCTATGGGATTATAGT
1 TTATTTTAATGTCTATGGGATTATAGT
34172541 TTATTTTAATGTCTATGGGATTATAGT
1 TTATTTTAATGTCTATGGGATTATAGT
34172568 CAGGTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.52
Consensus pattern (27 bp):
TTATTTTAATGTCTATGGGATTATAGT
Found at i:34182313 original size:53 final size:53
Alignment explanation
Indices: 34182243--34182451 Score: 220
Period size: 53 Copynumber: 3.9 Consensus size: 53
34182233 CTTTCCTTTT
* * *
34182243 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * *
34182296 TGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * * *
34182349 TCATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTG
1 T-A-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* *
34182404 TAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
34182452 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 47 0.38
54 36 0.29
55 40 0.33
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:34188536 original size:20 final size:18
Alignment explanation
Indices: 34188513--34188556 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
34188503 ACAGAGAGTT
34188513 ACACGGGCGTGTCAAGAGCC
1 ACACGGGCGTGT-AAGA-CC
* *
34188533 ACACAGGCGTGTGAGACC
1 ACACGGGCGTGTAAGACC
34188551 ACACGG
1 ACACGG
34188557 CCTACCCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.27, C:0.30, G:0.34, T:0.09
Consensus pattern (18 bp):
ACACGGGCGTGTAAGACC
Found at i:34191506 original size:47 final size:47
Alignment explanation
Indices: 34191455--34191748 Score: 408
Period size: 47 Copynumber: 6.1 Consensus size: 47
34191445 TTAGGATTTT
* * *
34191455 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
34191502 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
34191549 ATGTGATGAATGTGAACCTGTATATATATATTCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATAT-GT-GTGATAAGGCCGAATGGCCA
*
34191602 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
34191649 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
34191696 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
34191743 ATGTGA
1 ATGTGA
34191749 AACGTGTATG
Statistics
Matches: 224, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
47 174 0.78
48 2 0.01
49 5 0.02
51 5 0.02
52 2 0.01
53 36 0.16
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:34191619 original size:147 final size:141
Alignment explanation
Indices: 34191455--34191748 Score: 462
Period size: 147 Copynumber: 2.0 Consensus size: 141
34191445 TTAGGATTTT
*
34191455 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
* * * *
34191520 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATTCGTG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG---A-ATATA-T-GTG
34191585 ATAAGGCCGAATGGCCA
125 ATAAGGCCGAATGGCCA
*
34191602 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
*
34191667 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGG
*
34191732 CCGAATGGCTA
131 CCGAATGGCCA
34191743 ATGTGA
1 ATGTGA
34191749 AACGTGTATG
Statistics
Matches: 139, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
141 24 0.17
142 1 0.01
143 5 0.04
144 1 0.01
147 108 0.78
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGG
CCGAATGGCCA
Found at i:34191808 original size:46 final size:46
Alignment explanation
Indices: 34191719--34191809 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
34191709 GAACATGAAT
* * * *
34191719 ATATGTGGTAAGGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAACATGTACGAGATGG
* *
34191765 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAACATGTACGAGATG
34191810 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGTGAAACATGTACGAGATGG
Found at i:34192135 original size:37 final size:37
Alignment explanation
Indices: 34191953--34192134 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
34191943 GGAAATATAT
34191953 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
34191990 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
34192027 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
34192064 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
34192101 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
34192135 TCGTCTGAGC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:34197503 original size:21 final size:21
Alignment explanation
Indices: 34197470--34197519 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
34197460 TACTCGTCGG
* *
34197470 ATTTGTGGTCCTAAAACCACT
1 ATTTCTGGCCCTAAAACCACT
34197491 ATTTCTGGCCCTAAAACCACT
1 ATTTCTGGCCCTAAAACCACT
34197512 ATTTCTGG
1 ATTTCTGG
34197520 TACCAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (21 bp):
ATTTCTGGCCCTAAAACCACT
Found at i:34200842 original size:20 final size:20
Alignment explanation
Indices: 34200810--34200947 Score: 116
Period size: 20 Copynumber: 6.9 Consensus size: 20
34200800 GTGCAGTTAT
34200810 GGCACCAAA-GTGCAAACAGG
1 GGCA-CAAATGTGCAAACAGG
*
34200830 CGCACAAATGTGCAAACAGG
1 GGCACAAATGTGCAAACAGG
* **
34200850 GGCACGAATGTGCAAGTAGG
1 GGCACAAATGTGCAAACAGG
** * *
34200870 GGCACTGATGTGAAAATAGG
1 GGCACAAATGTGCAAACAGG
* *
34200890 GGCACGAATGTGCAAACAAG
1 GGCACAAATGTGCAAACAGG
** * *
34200910 GGCACCGATATGCAAGCAGG
1 GGCACAAATGTGCAAACAGG
* *
34200930 GGCACAGATTTGCAAACA
1 GGCACAAATGTGCAAACA
34200948 TAAATAATTG
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
19 4 0.04
20 91 0.96
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.12
Consensus pattern (20 bp):
GGCACAAATGTGCAAACAGG
Found at i:34203582 original size:42 final size:42
Alignment explanation
Indices: 34203523--34203624 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 42
34203513 GGGTACAAGG
* *
34203523 CAGACACGACTGTGTGAGGGTCTCACACG-CTTGTGTGCCCAC
1 CAGACATGACTGTGTGAGGGTCTCACACGTC-CGTGTGCCCAC
*
34203565 CAGACATGACCGTGTGAGGGTCTCACACGTCCGTGTGCCCAC
1 CAGACATGACTGTGTGAGGGTCTCACACGTCCGTGTGCCCAC
*
34203607 CAGACATGGCTGTGTGAG
1 CAGACATGACTGTGTGAG
34203625 ATCTCTAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.30, T:0.21
Consensus pattern (42 bp):
CAGACATGACTGTGTGAGGGTCTCACACGTCCGTGTGCCCAC
Found at i:34206374 original size:45 final size:45
Alignment explanation
Indices: 34206310--34206546 Score: 297
Period size: 45 Copynumber: 5.3 Consensus size: 45
34206300 TTGGCGTTAA
34206310 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTAT-ATCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAC-ATGATCAG
34206355 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTAT-ATCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAC-ATGATCAG
* * * *
34206400 AAATGAATAAGATCATAGTTGAAAAACACTATGGCAACATGA-AAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACATGATCAG
* * * *
34206445 AAATAAATAAGACCATAGTTTAAATACACTATGGCAACATGAT-GG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACATGATCAG
*
34206490 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATG-TCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA-CATGATCAG
34206535 AAA-GAAATAAGA
1 AAATG-AATAAGA
34206547 TCGTGGCTGA
Statistics
Matches: 173, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
44 3 0.02
45 167 0.97
46 3 0.02
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.22
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACATGATCAG
Found at i:34206378 original size:21 final size:21
Alignment explanation
Indices: 34206310--34206378 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
34206300 TTGGCGTTAA
34206310 AAATGAATAAGACCATAGTTG
1 AAATGAATAAGACCATAGTTG
* * *
34206331 AAA-GACACTATGGCACTATA-TCAG
1 AAATGA-A-TA-AG-ACCATAGT-TG
34206355 AAATGAATAAGACCATAGTTG
1 AAATGAATAAGACCATAGTTG
34206376 AAA
1 AAA
34206379 GACACTATGG
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 4 0.11
23 4 0.11
24 10 0.29
25 2 0.06
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (21 bp):
AAATGAATAAGACCATAGTTG
Found at i:34215087 original size:63 final size:63
Alignment explanation
Indices: 34214942--34215105 Score: 156
Period size: 63 Copynumber: 2.6 Consensus size: 63
34214932 GCCACAACGG
* *
34214942 CGTGCAGCTTGTCTACGATA-TGAGTGGCTTGGCCACAAAGTTATTGAGTGGCTTCTCCACAA
1 CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAAAGTTATTGAGTGGCTTCTCAACAA
* ** * * * * * *
34215004 CGTACAGCTCATTTATGATATTGAGTTACTTGGTCATAATGTTATTGAGT-GCTT-TGACAACAA
1 CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAAAGTTATTGAGTGGCTTCT--CAACAA
* *
34215067 TGTGCAGCTTGTCTACGATATTGAGT-AGCTTGACCACAA
1 CGTGCAGCTTGTCTACGATATTGAGTGA-CTTGGCCACAA
34215106 CGTGGTGTGT
Statistics
Matches: 78, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
61 1 0.01
62 20 0.26
63 57 0.73
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (63 bp):
CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAAAGTTATTGAGTGGCTTCTCAACAA
Found at i:34218081 original size:7 final size:7
Alignment explanation
Indices: 34218071--34218125 Score: 62
Period size: 7 Copynumber: 7.9 Consensus size: 7
34218061 CAAATTAAAA
34218071 AAAAATT
1 AAAAATT
34218078 AAAAA--
1 AAAAATT
34218083 AAAAA-T
1 AAAAATT
34218089 AATAAATT
1 AA-AAATT
34218097 AGAAAATT
1 A-AAAATT
34218105 AAAAATT
1 AAAAATT
34218112 AAAGAATT
1 AAA-AATT
34218120 AAAAAT
1 AAAAAT
34218126 AATGTATCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.12
6 2 0.05
7 20 0.47
8 15 0.35
9 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:34218083 original size:10 final size:11
Alignment explanation
Indices: 34218062--34218086 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34218052 AACAACCTAC
34218062 AAATTAAAAAA
1 AAATTAAAAAA
34218073 AAATTAAAAAA
1 AAATTAAAAAA
34218084 AAA
1 AAA
34218087 ATAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTAAAAAA
Found at i:34218102 original size:15 final size:15
Alignment explanation
Indices: 34218072--34218125 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
34218062 AAATTAAAAA
34218072 AAAATTAAAAA--A-
1 AAAATTAAAAATTAG
34218084 AAAA-TAATAAATTAG
1 AAAATTAA-AAATTAG
34218099 AAAATTAAAAATTA-
1 AAAATTAAAAATTAG
34218113 AAGAATTAAAAAT
1 AA-AATTAAAAAT
34218126 AATGTATCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.08
12 7 0.19
14 3 0.08
15 20 0.56
16 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAATTAAAAATTAG
Found at i:34218539 original size:9 final size:9
Alignment explanation
Indices: 34218525--34218554 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
34218515 AATAAACAAA
34218525 CAACTAAAC
1 CAACTAAAC
34218534 CAACTAAAC
1 CAACTAAAC
*
34218543 CAGCTAAAC
1 CAACTAAAC
34218552 CAA
1 CAA
34218555 TTAGGAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (9 bp):
CAACTAAAC
Found at i:34222225 original size:3 final size:3
Alignment explanation
Indices: 34222217--34222292 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
34222207 TTGCTTAGAT
34222217 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
34222265 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
34222293 TAGTTGAATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34227294 original size:23 final size:23
Alignment explanation
Indices: 34227266--34227309 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
34227256 TTTCGAATTT
34227266 AAAACATTT-TGATAATTTAAATA
1 AAAACATTTATGA-AATTTAAATA
34227289 AAAACATTTATGAAATTTAAA
1 AAAACATTTATGAAATTTAAA
34227310 ATCATCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAACATTTATGAAATTTAAATA
Found at i:34238285 original size:20 final size:19
Alignment explanation
Indices: 34238246--34238285 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
34238236 AAATAGTGAG
*
34238246 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGGATA
*
34238265 AATTCTATTTTCTAGGGATA
1 AATT-TATTTTCTAAGGATA
34238285 A
1 A
34238286 CAATTCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGGATA
Found at i:34243520 original size:75 final size:75
Alignment explanation
Indices: 34243382--34243653 Score: 386
Period size: 75 Copynumber: 3.6 Consensus size: 75
34243372 TATCATATTT
* * * * * *
34243382 TTTTGCCATCAATTTCCTTGTCTTTGTGTTT-TTT-TTTTGTTAATTTGATTGTTTAATTGTCAT
1 TTTTGCCATCAATTCCCTTTTCTTTGT-TTTGTTTATTCTATTTATTTGATTGTTTAATCGTCAT
*
34243445 CATTGCCTCTG
65 CATTACCTCTG
*
34243456 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTGTTTATTTGATTGTTTAATCGTCATC
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
*
34243521 ATTACCTTTG
66 ATTACCTCTG
* *
34243531 TTTTGCCATCAATTTCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCATCATC
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
34243596 ATTACCTCTG
66 ATTACCTCTG
* * *
34243606 TTTTTCCATCAAATCCCTTTTCTTTCTTTTGTTTATTTCTATTTATTT
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTA-TTCTATTTATTT
34243654 TATTTTATTG
Statistics
Matches: 180, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
73 3 0.02
74 28 0.16
75 137 0.76
76 12 0.07
ACGTcount: A:0.15, C:0.17, G:0.09, T:0.59
Consensus pattern (75 bp):
TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
ATTACCTCTG
Found at i:34243657 original size:15 final size:15
Alignment explanation
Indices: 34243637--34243678 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34243627 CTTTCTTTTG
34243637 TTTATTTCTATT-TAT
1 TTTATTT-TATTGTAT
34243652 TTTATTTTATTGTAT
1 TTTATTTTATTGTAT
*
34243667 TGTATTTT-TTGT
1 TTTATTTTATTGT
34243679 TCAATCATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (15 bp):
TTTATTTTATTGTAT
Found at i:34249040 original size:46 final size:46
Alignment explanation
Indices: 34248988--34249082 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
34248978 AAAACATATG
* *
34248988 TGTATGAGAATTTGAATATTGTTGAGCTCATATATGTGTTTCTTGA
1 TGTATGAGAATTTGAATATTATTAAGCTCATATATGTGTTTCTTGA
* * *
34249034 TGTATGAGAGTTTGAATATTATTAAGCTCATGTATGTTTTTCTTGA
1 TGTATGAGAATTTGAATATTATTAAGCTCATATATGTGTTTCTTGA
34249080 TGT
1 TGT
34249083 TTATATGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.47
Consensus pattern (46 bp):
TGTATGAGAATTTGAATATTATTAAGCTCATATATGTGTTTCTTGA
Found at i:34254864 original size:46 final size:46
Alignment explanation
Indices: 34254797--34254972 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
34254787 TGTAACCCGC
* * *
34254797 CCATAAGCGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTTGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGC-TTAGTAT
* * *
34254843 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GCTTAGTAT
* * * * * * *
34254889 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCTGA-CATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGC-TTAGTAT
34254936 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
34254973 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.03
46 62 0.60
47 36 0.35
48 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCTTAGTAT
Found at i:34254963 original size:93 final size:93
Alignment explanation
Indices: 34254804--34254975 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
34254794 CGCCCATAAG
* * * * *
34254804 CGAACTCGGACTCAACTCAATGAGCTCGAGCGTTTGTATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
34254869 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
34254897 CGAACTCGGACTCAACTCAACGAGTTCTGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCATAAGTGAACTCGGACTCAACTC
34254961 AACGAGCTCGGATGC
65 AACGAGCTCGGATGC
34254976 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:34257390 original size:15 final size:15
Alignment explanation
Indices: 34257368--34257443 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
34257358 AAGAAACCGA
34257368 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
34257383 ATAGAGAAA-CCGA-
1 ATAAAGAAATCCAAG
34257396 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
34257410 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
34257426 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34257441 ATA
1 ATA
34257444 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
13 9 0.18
14 5 0.10
15 34 0.69
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:34257392 original size:28 final size:28
Alignment explanation
Indices: 34257358--34257443 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
34257348 CAAAGATAAC
34257358 AAGAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCGAATAAAGAAATCCAAGATA
*
34257386 GAGAAACCGAATAAAGAAATCC-AGAATA
1 AAGAAACCGAATAAAGAAATCCAAG-ATA
* * *
34257414 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACC-GAATAAAGAAATCCAAGATA
34257444 CGATACTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.04
28 27 0.55
29 3 0.06
30 15 0.31
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.10
Consensus pattern (28 bp):
AAGAAACCGAATAAAGAAATCCAAGATA
Found at i:34262813 original size:26 final size:26
Alignment explanation
Indices: 34262770--34262821 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
34262760 AAGGAATTCG
34262770 CACACACACAGTGCCTCTAATTCATT
1 CACACACACAGTGCCTCTAATTCATT
* *
34262796 CACACCACATAGTG-CTCTTATTCATT
1 CACA-CACACAGTGCCTCTAATTCATT
34262822 TCGTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (26 bp):
CACACACACAGTGCCTCTAATTCATT
Found at i:34263050 original size:40 final size:40
Alignment explanation
Indices: 34263003--34263433 Score: 457
Period size: 40 Copynumber: 10.8 Consensus size: 40
34262993 CCAGATGATT
* * * *
34263003 TGCTCTTCGGGACCTAGCCCAGGATATAACACCAG-ATGAA
1 TGCTCTTCGGGACTTAGCCC-GGATATATCACTAGCACGAA
** *
34263043 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34263083 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
34263123 TGCTCTTCGGGATTTA-CCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34263162 TGCTCTTCGGAATCTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGA-CTTAGCCCGGATATATCACTAGCACGAA
*
34263203 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGC-CG-A
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34263241 TGCTCTTCGGAACTTAG-TCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
34263280 TGCTCTTCGGGATTTAAGCCCGGATATATCACTAGCAGCGAA
1 TGCTCTTCGGGACTT-AGCCCGGATATATCACTAGCA-CGAA
* * * *
34263322 TG-TCTTCGGAACCTTAGTCCGGATACATCACT-GCACGAT
1 TGCTCTTCGGGA-CTTAGCCCGGATATATCACTAGCACGAA
* * *
34263361 TGCTCTTTCGGAACTTAGTCC-GATACATCACTAGCACG-A
1 TGCTC-TTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34263400 TGCTTCTTCGGGATTTTAGCCCGGACATTTCACT
1 TGC-TCTTCGGGA-CTTAGCCCGGATATATCACT
34263434 CTCAATTCTC
Statistics
Matches: 329, Mismatches: 47, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
37 15 0.05
38 18 0.05
39 84 0.26
40 119 0.36
41 85 0.26
42 8 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:34263189 original size:80 final size:79
Alignment explanation
Indices: 34263040--34263410 Score: 542
Period size: 80 Copynumber: 4.7 Consensus size: 79
34263030 AACACCAGAT
*
34263040 GAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
1 GAATGCTCTTCGGGATTTAGC-CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
34263105 ATACATCACTAGCAC
65 ATACATCACTAGCAC
34263120 GAATGCTCTTCGGGATTTA-CCTGGATATATCACTAGCACGAATGCTCTTCGGAATCTTAGTCCG
1 GAATGCTCTTCGGGATTTAGCC-GGATATATCACTAGCACGAATGCTCTTCGGAA-CTTAGTCCG
34263184 GATACATCACTAGCAC
64 GATACATCACTAGCAC
34263200 GAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGC-CG-ATGCTCTTCGGAACTTAGT-CGG
1 GAATGCTCTTCGGGATTTAG-CCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
34263262 ATACATCACTAGCAC
65 ATACATCACTAGCAC
34263277 GAATGCTCTTCGGGATTTAAGCCCGGATATATCACTAGCAGCGAATG-TCTTCGGAACCTTAGTC
1 GAATGCTCTTCGGGATTT-AG-CCGGATATATCACTAGCA-CGAATGCTCTTCGGAA-CTTAGTC
34263341 CGGATACATCACT-GCAC
62 CGGATACATCACTAGCAC
* * * *
34263358 GATTGCTCTTTCGGAACTTAGTCC-GATACATCACTAGCACG-ATGCTTCTTCGG
1 GAATGCTC-TTCGGGATTTAG-CCGGATATATCACTAGCACGAATGC-TCTTCGG
34263411 GATTTTAGCC
Statistics
Matches: 272, Mismatches: 6, Indels: 26
0.89 0.02 0.09
Matches are distributed among these distances:
77 36 0.13
78 30 0.11
79 48 0.18
80 96 0.35
81 39 0.14
82 23 0.08
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
GAATGCTCTTCGGGATTTAGCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGA
TACATCACTAGCAC
Found at i:34265100 original size:46 final size:46
Alignment explanation
Indices: 34264999--34265149 Score: 223
Period size: 47 Copynumber: 3.2 Consensus size: 46
34264989 CATTTTTCAT
* *
34264999 ATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCACA-TTATGCATGCTCAC
34265046 ATTCATCACATTGGCCATTCGGCCTTATCACATTATGCATGCTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCACATTATGCATGCTCAC
* * *
34265092 ATTTATCACATTGG-CATTCGGCCTCACTCACATATATGCATGTTCAC
1 ATTCATCACATTGGCCATTCGGCCTTA-TCACAT-TATGCATGCTCAC
34265139 ATTCATCACAT
1 ATTCATCACAT
34265150 AAAATCCTAA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
45 11 0.11
46 32 0.33
47 53 0.55
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (46 bp):
ATTCATCACATTGGCCATTCGGCCTTATCACATTATGCATGCTCAC
Found at i:34269249 original size:40 final size:40
Alignment explanation
Indices: 34269205--34269485 Score: 373
Period size: 40 Copynumber: 7.0 Consensus size: 40
34269195 CCAGTATGAT
* * * * *
34269205 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCCCGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
34269245 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34269285 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34269325 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34269365 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
34269405 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34269445 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
34269485 T
1 T
34269486 CCCCTGTTTC
Statistics
Matches: 207, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 207 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:34269349 original size:80 final size:79
Alignment explanation
Indices: 34269205--34269485 Score: 445
Period size: 80 Copynumber: 3.5 Consensus size: 79
34269195 CCAGTATGAT
* * * * * * * * *
34269205 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCCCGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGC-CGGATA
34269270 TATCACTAGCACGAA
65 TATCACTAGCACGAA
*
34269285 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAACCTGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC-GGATA
34269350 TATCACTAGCACGAA
65 TATCACTAGCACGAA
34269365 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATA
34269430 TATCACTAGCACGAA
65 TATCACTAGCACGAA
34269445 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAAT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAAT
34269486 CCCCTGTTTC
Statistics
Matches: 188, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
79 1 0.01
80 185 0.98
81 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCGGATAT
ATCACTAGCACGAA
Found at i:34270679 original size:93 final size:93
Alignment explanation
Indices: 34270520--34270691 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
34270510 CGCCCATAAG
* * * *
34270520 CGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTTAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
34270585 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* * *
34270613 CGAACTCATACTTAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTTAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34270678 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
34270692 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTTAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:34270688 original size:46 final size:46
Alignment explanation
Indices: 34270513--34270688 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 46
34270503 TGTAACCCGC
* * *
34270513 CCATAAGCGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * *
34270559 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * ** * * *
34270609 --TTCA-CGAACTCATACTTAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
34270652 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
34270689 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 56 0.58
47 25 0.26
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:34272881 original size:30 final size:30
Alignment explanation
Indices: 34272847--34272908 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
34272837 TCTTTAATAC
** *
34272847 AAACTTTTGTAAAATTACATTTTTGCCCCT
1 AAACTTTTACAAAATTACACTTTTGCCCCT
*
34272877 AAACTTTTACATAATTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACACTTTTGCCCCT
34272907 AA
1 AA
34272909 GCTCGGGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTTACAAAATTACACTTTTGCCCCT
Found at i:34276605 original size:6 final size:6
Alignment explanation
Indices: 34276594--34276620 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34276584 GGTTTTCTTC
34276594 AAAATG AAAATG AAAATG AAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAA
34276621 TTAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:34281360 original size:39 final size:39
Alignment explanation
Indices: 34281315--34281591 Score: 493
Period size: 39 Copynumber: 7.1 Consensus size: 39
34281305 ATGCAAGACA
34281315 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34281354 CTGGAAATGTATCCGGGCTAAAGTCCGGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34281393 CTGGAAATGTATTCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34281432 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34281471 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34281510 CTGGAAATGTATCAGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34281549 CTGGAAATGTGTCCGGGCTAAAGAT-CCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAG-TCCCGCAGGCTTCGTG
34281588 CTGG
1 CTGG
34281592 TGCTGGTAAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 227 1.00
40 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34286547 original size:75 final size:75
Alignment explanation
Indices: 34286386--34286569 Score: 190
Period size: 75 Copynumber: 2.4 Consensus size: 75
34286376 CTTTCAGTGG
* ** * * *
34286386 TATCGTAATATCCTCTTTGGGTATTACGATATCTACCCTCCAAGGAAAATCTCCAAATTTAAATA
1 TATCATAATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAAACCTCCAAATTTAAATA
* *
34286451 TTTCCTAAGA
66 ATGCCTAAGA
* * ** * * *
34286461 CATTACGATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAGACC-CTCAAGTTTGAAT
1 TATCATAATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAAACCTC-CAAATTTAAAT
*
34286525 AATGCCTGAGA
65 AATGCCTAAGA
*
34286536 TATCATAATATCCTCTTCTGGGTATCGCAATATC
1 TATCATAATATCCTCTT-TGGGTATCGCGATATC
34286570 ACTTTCATCA
Statistics
Matches: 86, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
74 1 0.01
75 70 0.81
76 15 0.17
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (75 bp):
TATCATAATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAAACCTCCAAATTTAAATA
ATGCCTAAGA
Found at i:34288407 original size:17 final size:17
Alignment explanation
Indices: 34288372--34288404 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34288362 TTAAGATAAG
*
34288372 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
34288389 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
34288405 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:34291977 original size:66 final size:66
Alignment explanation
Indices: 34291867--34292004 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 66
34291857 GTCTCACAAC
*
34291867 TAAT-GGAATTTGGATTCAAATTGAAGTCTAAGAAATCATCTAAATAAAGATTAGGTTTGTTGGG
1 TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATCATCTAAATAAAGATTAGGTTAGTTGGG
34291931 A
66 A
* *
34291932 TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATC-TGTTAAATAAGGATTAGGTTAGTTGG
1 TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATCAT-CTAAATAAAGATTAGGTTAGTTGG
34291996 GA
65 GA
34291998 TAATGGG
1 TAATGGG
34292005 TATGTCTTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 5 0.07
66 63 0.93
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (66 bp):
TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATCATCTAAATAAAGATTAGGTTAGTTGGG
A
Found at i:34292044 original size:22 final size:21
Alignment explanation
Indices: 34292019--34292064 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34292009 TCTTTTTTTA
* *
34292019 TTTTATTTTATCTTATTTTTGT
1 TTTTATTCTAT-TTACTTTTGT
*
34292041 TTTTATTCTATTTCCTTTTGT
1 TTTTATTCTATTTACTTTTGT
34292062 TTT
1 TTT
34292065 GAAATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTATTCTATTTACTTTTGT
Found at i:34293000 original size:21 final size:21
Alignment explanation
Indices: 34292976--34293019 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
34292966 ACCTTTTTTA
*
34292976 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGACAAAACCATT
*
34292997 AAGTTAAAAGACAAAATCATT
1 AAGTTAAAAGACAAAACCATT
34293018 AA
1 AA
34293020 ATTATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGACAAAACCATT
Found at i:34296055 original size:44 final size:44
Alignment explanation
Indices: 34295827--34296044 Score: 280
Period size: 44 Copynumber: 4.8 Consensus size: 44
34295817 GCGATGTGTG
* *
34295827 TGTGCTAGTGTAAGACATTTCTGGGACATGGCATCAGCATTA-AGACGA
1 TGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC--TACA-A-GA
* * *
34295875 -GAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCT-CAAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCTACAAGA
*
34295918 TGTAAGCTAGTGTAAGACATGTCTGGGAAATGCATCGGCTACAAGA
1 TGT--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
*
34295964 TGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
34296008 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
34296045 ATGGATATGT
Statistics
Matches: 152, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.01
44 77 0.51
45 5 0.03
46 42 0.28
47 26 0.17
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
Found at i:34296055 original size:88 final size:89
Alignment explanation
Indices: 34295827--34296046 Score: 286
Period size: 90 Copynumber: 2.4 Consensus size: 89
34295817 GCGATGTGTG
* * *
34295827 TGTGCTAGTGTAAGACATTTCTGGGACATGGCATCAGCATTAAGACGA-GAGCTAGTGTAAGACA
1 TGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCA-TAAGA-GATGTGCTAGTGTAAGACA
*
34295891 TGTTTGGGACATGCATCAGCCTCAAGA
63 TGTCTGGGACATGCATCAGCCTCAAGA
*
34295918 TGTAAGCTAGTGTAAGACATGTCTGGGAAATGCATCGGC-TACA-AGATGTGCTAGTGTAAGACA
1 TGT--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATA-AGAGATGTGCTAGTGTAAGACA
* *
34295981 TGTCTGGGACATGCAT-TGGCTACAAGA
63 TGTCTGGGACATGCATCAGCCT-CAAGA
34296008 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT
34296047 GGATATGTGA
Statistics
Matches: 115, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
88 33 0.29
89 6 0.05
90 41 0.36
91 4 0.03
92 7 0.06
93 24 0.21
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (89 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGAGATGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCTCAAGA
Found at i:34298691 original size:31 final size:30
Alignment explanation
Indices: 34298656--34298717 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
34298646 TCCTTAACTC
*
34298656 AAACTTTGGCAAAATTACAATTTTTGCCCCT
1 AAACTTTGGCAAAATTAC-ACTTTTGCCCCT
* * *
34298687 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
34298717 A
1 A
34298718 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:34300698 original size:40 final size:40
Alignment explanation
Indices: 34300625--34300800 Score: 284
Period size: 40 Copynumber: 4.4 Consensus size: 40
34300615 GATGATAACG
* *
34300625 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTAATTAC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
34300664 GGGCTAAGTCCTGAAGGCATTTGTGTGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
34300704 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
34300744 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
34300784 GGGCTAAGTCCCGAAGG
1 GGGCTAAGTCCCGAAGG
34300801 GCTAACTATA
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 27 0.21
40 100 0.79
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:34308747 original size:17 final size:18
Alignment explanation
Indices: 34308715--34308748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34308705 GATGGGTTGA
*
34308715 AATGGGCTGTGTGGGCCT
1 AATGGGCTGCGTGGGCCT
34308733 AATGGGCT-CGTGGGCC
1 AATGGGCTGCGTGGGCC
34308749 CATACAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.24
Consensus pattern (18 bp):
AATGGGCTGCGTGGGCCT
Found at i:34308999 original size:27 final size:27
Alignment explanation
Indices: 34308967--34309145 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
34308957 CTCGATTTAT
34308967 AAAATTACCGAAATACCCCTAATTTGG
1 AAAATTACCGAAATACCCCTAATTTGG
* * * *
34308994 AAAATTACCCAAATACCTCAAATTTGT
1 AAAATTACCGAAATACCCCTAATTTGG
**
34309021 AAAATTATTGAAATACCCCTAATTTGG
1 AAAATTACCGAAATACCCCTAATTTGG
*
34309048 AAAATTACCGAAATACCCCTGATTTGTG
1 AAAATTACCGAAATACCCCTAATTTG-G
* * * *** *
34309076 -AAATTATCGAAACACCCATGGGTTGT
1 AAAATTACCGAAATACCCCTAATTTGG
*
34309102 AAAATTACCAAAATACCCCTAATTTGTG
1 AAAATTACCGAAATACCCCTAATTTG-G
*
34309130 -AAATTATCGAAATACC
1 AAAATTACCGAAATACC
34309146 TCCGATTGGT
Statistics
Matches: 120, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
27 119 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTAATTTGG
Found at i:34309102 original size:81 final size:82
Alignment explanation
Indices: 34308967--34309145 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 82
34308957 CTCGATTTAT
* * ***
34308967 AAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAATACCTCAAATTTGTAAAATTATTGA
1 AAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAACACCTCAAAGTTGTAAAATTACCAA
34309032 AATACCCCTAATTTG-G
66 AATACCCCTAATTTGTG
* * * **
34309048 AAAATTACCGAAATACCCCTGATTTGTG-AAATTATCGAAACACC-CATGGGTTGTAAAATTACC
1 AAAATTACCGAAATACCCCTAATTTG-GAAAATTACCCAAACACCTCA-AAGTTGTAAAATTACC
34309111 AAAATACCCCTAATTTGTG
64 AAAATACCCCTAATTTGTG
*
34309130 -AAATTATCGAAATACC
1 AAAATTACCGAAATACC
34309146 TCCGATTGGT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.02
81 80 0.95
82 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (82 bp):
AAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAACACCTCAAAGTTGTAAAATTACCAA
AATACCCCTAATTTGTG
Found at i:34309160 original size:54 final size:54
Alignment explanation
Indices: 34308968--34309145 Score: 230
Period size: 54 Copynumber: 3.3 Consensus size: 54
34308958 TCGATTTATA
* * * * *
34308968 AAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAATACCTCAAATTTGTA
1 AAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTAATTTGTG
* * *
34309022 AAATTATTGAAATACCCCTAATTTGGAAAATTACCGAAATACCCCTGATTTGTG
1 AAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTAATTTGTG
* * *** *
34309076 AAATTATCGAAACACCCATGGGTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTAATTTGTG
34309130 AAATTATCGAAATACC
1 AAATTATCGAAATACC
34309146 TCCGATTGGT
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
AAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTAATTTGTG
Found at i:34309170 original size:27 final size:27
Alignment explanation
Indices: 34309140--34309298 Score: 130
Period size: 27 Copynumber: 5.9 Consensus size: 27
34309130 AAATTATCGA
* *
34309140 AATACCTCCG-ATTGGTAAAATGACGGT
1 AATACCTCCGTA-GGGTAAAATGACCGT
*
34309167 AATACCTCTGTAGGGTAAAATGACCGT
1 AATACCTCCGTAGGGTAAAATGACCGT
*
34309194 AATACC-CCTGTAGGGTAAAATGGCCGT
1 AATACCTCC-GTAGGGTAAAATGACCGT
* * *
34309221 AATGCC-CCTGTATGGTAAAATGATCGT
1 AATACCTCC-GTAGGGTAAAATGACCGT
* * *
34309248 AATTGCC-CTGTAGGGTAAACTGACCGT
1 AA-TACCTCCGTAGGGTAAAATGACCGT
* *
34309275 AACACC-CCTGTATGGTAAAATGAC
1 AATACCTCC-GTAGGGTAAAATGAC
34309299 AATTATGCCC
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.04
27 100 0.91
28 6 0.05
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (27 bp):
AATACCTCCGTAGGGTAAAATGACCGT
Found at i:34309198 original size:54 final size:54
Alignment explanation
Indices: 34309153--34309298 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
34309143 ACCTCCGATT
* *
34309153 GGTAAAATGACGGTAATACCTCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
* * * * **
34309207 GGTAAAATGGCCGTAATGCCCCTGTATGGTAAAATGATCGTAATTGCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
* * *
34309261 GGTAAACTGACCGTAACACCCCTGTATGGTAAAATGAC
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
34309299 AATTATGCCC
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 79 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
Found at i:34309307 original size:81 final size:81
Alignment explanation
Indices: 34309152--34309308 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
34309142 TACCTCCGAT
* *
34309152 TGGTAAAATGACGGTAATACCTCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGG
1 TGGTAAAATGACGGTAATACCTCTGTAGGGTAAAATGACCGTAACACCCCTGTAGGGTAAAATGA
**
34309217 CCGTAATGCCCCTGTA
66 CAATAATGCCCCTGTA
* * *
34309233 TGGTAAAATGATC-GTAATTGCC-CTGTAGGGTAAACTGACCGTAACACCCCTGTATGGTAAAAT
1 TGGTAAAATGA-CGGTAA-TACCTCTGTAGGGTAAAATGACCGTAACACCCCTGTAGGGTAAAAT
*
34309296 GACAATTATGCCC
64 GACAATAATGCCC
34309309 TTATGTTTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 62 0.94
82 4 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (81 bp):
TGGTAAAATGACGGTAATACCTCTGTAGGGTAAAATGACCGTAACACCCCTGTAGGGTAAAATGA
CAATAATGCCCCTGTA
Found at i:34309550 original size:26 final size:26
Alignment explanation
Indices: 34309521--34309599 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
34309511 CCACATTTAC
* * *
34309521 TATTTCTGGAAGCTATGCTGCATTAT
1 TATTACTGGCAGCTTTGCTGCATTAT
*
34309547 TATTACTGGCAGCTTTGTTGCATTAT
1 TATTACTGGCAGCTTTGCTGCATTAT
*
34309573 TATTACTGGCAGCTTTGCTGCAATAT
1 TATTACTGGCAGCTTTGCTGCATTAT
34309599 T
1 T
34309600 GGTGTGCTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
TATTACTGGCAGCTTTGCTGCATTAT
Found at i:34309772 original size:33 final size:33
Alignment explanation
Indices: 34309734--34309838 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
34309724 TTAGGCGCAC
* *
34309734 ACTGTTACTGTATAAGGTTAAAGCCTAGACTGT
1 ACTGTTACTGTATAAGGCTAAAGCCCAGACTGT
* *
34309767 TCTGTTACTGTATAAGGCTAAGGCCCAGACTGT
1 ACTGTTACTGTATAAGGCTAAAGCCCAGACTGT
* * * * *
34309800 ACTGATACTGGATAGGGCTCAGGCCCAGACTGTT
1 ACTGTTACTGTATAAGGCTAAAGCCCAGACTG-T
34309834 ACTGT
1 ACTGT
34309839 ATACATTGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 56 0.92
34 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (33 bp):
ACTGTTACTGTATAAGGCTAAAGCCCAGACTGT
Found at i:34318129 original size:93 final size:93
Alignment explanation
Indices: 34318017--34318188 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
34318007 AGGATATTTG
* * * * *
34318017 GGCATCCGAGCTTGTTGAGTAGAG-TCTGAGTTCACTTACGGATGCGAATGTCTGAGCTTGTTGA
1 GGCATCCGAGCTCGTTGAGTAGAGTTC-GAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGA
*
34318081 GTTGAGTCCGAGTTCGTGAGATGTAATTA
65 GTTGAGTCAGAGTTCGTGAGATGTAATTA
* * *
34318110 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTTAG
1 GGCATCCGAGCTCGTTGAGTAGAGTTCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
34318175 TTGAGTCAGAGTTC
66 TTGAGTCAGAGTTC
34318189 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 67 0.97
94 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTAGAGTTCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCAGAGTTCGTGAGATGTAATTA
Found at i:34325120 original size:14 final size:15
Alignment explanation
Indices: 34325091--34325128 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
34325081 CTCAACATTT
*
34325091 TAATATCTCACAATA
1 TAATATTTCACAATA
34325106 TAATATTTC-CAATA
1 TAATATTTCACAATA
34325120 TAA-ATTTCA
1 TAATATTTCA
34325129 TGTGGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATTTCACAATA
Found at i:34326972 original size:47 final size:47
Alignment explanation
Indices: 34326913--34327007 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
34326903 TGTCTGAAGA
* * * *
34326913 AAGACACTTTAAAATGCTATACTAAGTAAGACATAATTAATAGACTT
1 AAGACACATTAAAATGCTATACTAAATAAGACACAATTAATAAACTT
*
34326960 AAGACACATTAAAATGCTATACTAAATAAGACACAATTAGTAAACTT
1 AAGACACATTAAAATGCTATACTAAATAAGACACAATTAATAAACTT
34327007 A
1 A
34327008 TGAAAAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.27
Consensus pattern (47 bp):
AAGACACATTAAAATGCTATACTAAATAAGACACAATTAATAAACTT
Found at i:34327018 original size:47 final size:47
Alignment explanation
Indices: 34326921--34327019 Score: 135
Period size: 47 Copynumber: 2.1 Consensus size: 47
34326911 GAAAGACACT
* * * * *
34326921 TTAAAATGCTATACTAAGTAAGACATAATTAATAGACTTAAGACACA
1 TTAAAATGCTATACTAAATAAGACACAATTAATAAACTTAAGAAAAA
* *
34326968 TTAAAATGCTATACTAAATAAGACACAATTAGTAAACTTATGAAAAA
1 TTAAAATGCTATACTAAATAAGACACAATTAATAAACTTAAGAAAAA
34327015 TTAAA
1 TTAAA
34327020 GATGTTCAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (47 bp):
TTAAAATGCTATACTAAATAAGACACAATTAATAAACTTAAGAAAAA
Found at i:34331980 original size:19 final size:19
Alignment explanation
Indices: 34331956--34331993 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34331946 AATCTGAATG
34331956 TATTTAATGTGTTTGATTT
1 TATTTAATGTGTTTGATTT
*
34331975 TATTTAATGTGTTTTATTT
1 TATTTAATGTGTTTGATTT
34331994 AGTTCAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (19 bp):
TATTTAATGTGTTTGATTT
Found at i:34333964 original size:22 final size:21
Alignment explanation
Indices: 34333906--34333987 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
34333896 AATATTCAAA
*
34333906 CAAATACAA-AAAAAATAGTAG
1 CAAA-ACAATAAAAAATAATAG
* * *
34333927 CAATATAATAACAAAATGATAG
1 CAAAACAATAA-AAAATAATAG
* *
34333949 CAAAACAATGAAAAAACAATGG
1 CAAAACAAT-AAAAAATAATAG
*
34333971 CAAAACAGTAAAAAATA
1 CAAAACAATAAAAAATA
34333988 GCAACAATTG
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
20 3 0.06
21 12 0.26
22 30 0.64
23 2 0.04
ACGTcount: A:0.65, C:0.11, G:0.10, T:0.15
Consensus pattern (21 bp):
CAAAACAATAAAAAATAATAG
Found at i:34335710 original size:19 final size:19
Alignment explanation
Indices: 34335667--34335710 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34335657 TCTCTCTTTC
34335667 ATATAATATATTATTAAAT
1 ATATAATATATTATTAAAT
* *
34335686 AAATAATATA-TATTATCAT
1 ATATAATATATTATTA-AAT
34335705 ATATAA
1 ATATAA
34335711 AAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATATATTATTAAAT
Found at i:34335724 original size:32 final size:33
Alignment explanation
Indices: 34335683--34335757 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
34335673 TATATTATTA
34335683 AATAAATAATATATATTATCATATATAAA-AAT
1 AATAAATAATATATATTATCATATATAAATAAT
* * *
34335715 AATAAATAATTTATATTATTATGTATAAATAAT
1 AATAAATAATATATATTATCATATATAAATAAT
34335748 ATATAAATAA
1 A-ATAAATAA
34335758 ATTTAAACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 26 0.68
33 4 0.11
34 8 0.21
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
AATAAATAATATATATTATCATATATAAATAAT
Found at i:34343506 original size:21 final size:23
Alignment explanation
Indices: 34343482--34343524 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
34343472 TTTTAAAACA
*
34343482 TTTAAA-ATTATTTTT-ATATTT
1 TTTAAAGAATATTTTTAATATTT
34343503 TTTAAAGAATATTTTTAATATT
1 TTTAAAGAATATTTTTAATATT
34343525 ATGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAAAGAATATTTTTAATATTT
Found at i:34343612 original size:26 final size:26
Alignment explanation
Indices: 34343551--34343634 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
34343541 TAGAAAAAGT
* * *
34343551 TAATAACATTAATAATTAAAATTC-T-
1 TAATAAAATTAATAAAT-AAATACATA
*
34343576 TAATAAAATTAATAAGTAAATACATA
1 TAATAAAATTAATAAATAAATACATA
*
34343602 TAATAAAATTAATAAATAAATACACA
1 TAATAAAATTAATAAATAAATACATA
34343628 TAATAAA
1 TAATAAA
34343635 TCAATTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.10
25 16 0.31
26 31 0.60
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (26 bp):
TAATAAAATTAATAAATAAATACATA
Found at i:34343643 original size:26 final size:26
Alignment explanation
Indices: 34343576--34343648 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
34343566 TTAAAATTCT
* * *
34343576 TAATAAAATTAATAAGTAAATACATA
1 TAATAAAATCAATAAATAAATACACA
*
34343602 TAATAAAATTAATAAATAAATACACA
1 TAATAAAATCAATAAATAAATACACA
34343628 TAAT-AAATCAATTAAA-AAATA
1 TAATAAAATCAA-TAAATAAATA
34343649 ACTTATAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (26 bp):
TAATAAAATCAATAAATAAATACACA
Found at i:34345567 original size:27 final size:27
Alignment explanation
Indices: 34345520--34345633 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
34345510 AAAATGGTAT
* * * *
34345520 ACTGTTTGCGCCTATCTGACAAGCGTG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
* * *
34345547 AATAGTTGAGCCTATCTGACAGGTGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
*
34345574 ACTGGTTGAGCCTATTTGACAGGCGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
* *
34345601 ACTGGTTGAGCCTATCTCAGAGGCGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
*
34345628 ATTGGT
1 ACTGGT
34345634 GGGACCCACA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (27 bp):
ACTGGTTGAGCCTATCTGACAGGCGCG
Found at i:34345723 original size:24 final size:24
Alignment explanation
Indices: 34345695--34345740 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34345685 AAAATCAAAT
34345695 GAGCAACAAACACAAAATTTAGTA
1 GAGCAACAAACACAAAATTTAGTA
**
34345719 GAGCAACAGTCACAAAATTTAG
1 GAGCAACAAACACAAAATTTAG
34345741 CAGAACGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (24 bp):
GAGCAACAAACACAAAATTTAGTA
Found at i:34346336 original size:27 final size:27
Alignment explanation
Indices: 34346289--34346402 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
34346279 AAAATGGTAT
* * * *
34346289 ACTGTTTGTGCCTATCTGACAAGCGTG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
* * *
34346316 AATAGTTGAGCCTATCTGACAGGTGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
*
34346343 ACTGGTTGAGCCTATTTGACAGGCGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
* *
34346370 ACTGGTTGAGCCTATCTCAGAGGCGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
*
34346397 ATTGGT
1 ACTGGT
34346403 GGGACCCACA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (27 bp):
ACTGGTTGAGCCTATCTGACAGGCGCG
Found at i:34346492 original size:24 final size:24
Alignment explanation
Indices: 34346464--34346509 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34346454 AAAATCAAAT
34346464 GAGCAACAAACACAAAATTTAGTA
1 GAGCAACAAACACAAAATTTAGTA
**
34346488 GAGCAACAGTCACAAAATTTAG
1 GAGCAACAAACACAAAATTTAG
34346510 CAGAACGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (24 bp):
GAGCAACAAACACAAAATTTAGTA
Found at i:34346589 original size:769 final size:770
Alignment explanation
Indices: 34345377--34346907 Score: 2983
Period size: 769 Copynumber: 2.0 Consensus size: 770
34345367 TTATTTATAA
*
34345377 AAATGATATGTTTTTTTTAATCGCGCCTATCTGACAGGCGCAACTCCTTTTTTTATATTAAAATA
1 AAATAATATGTTTTTTTTAATCGCGCCTATCTGACAGGCGCAACTCCTTTTTTTATATTAAAATA
*
34345442 TATATTTTTTTGTTTGAAATATTATTAATTTTTTTCCCGGACCGGTATATGACCCTTATATAGAA
66 TATATTTTTTTGTTTGAAATATTATTAATTTTTTTCCCGGACCAGTATATGACCCTTATATAGAA
34345507 GCAAAAATGGTATACTGTTTGCGCCTATCTGACAAGCGTGAATAGTTGAGCCTATCTGACAGGTG
131 GCAAAAATGGTATACTGTTTGCGCCTATCTGACAAGCGTGAATAGTTGAGCCTATCTGACAGGTG
34345572 CGACTGGTTGAGCCTATTTGACAGGCGCGACTGGTTGAGCCTATCTCAGAGGCGCGATTGGTGGG
196 CGACTGGTTGAGCCTATTTGACAGGCGCGACTGGTTGAGCCTATCTCAGAGGCGCGATTGGTGGG
34345637 ACCCACAGGCGCATCTGGTGCTTAATTTTTCCCTTATATATACCACCGAAAATCAAATGAGCAAC
261 ACCCACAGGCGCATCTGGTGCTTAATTTTTCCCTTATATATACCACCGAAAATCAAATGAGCAAC
34345702 AAACACAAAATTTAGTAGAGCAACAGTCACAAAATTTAGCAGAACGGAAGTAAGAAGATAGGGAG
326 AAACACAAAATTTAGTAGAGCAACAGTCACAAAATTTAGCAGAACGGAAGTAAGAAGATAGGGAG
34345767 AAAAAAGAAAGAAAAGAAAACAAGAAGAAGGATAAGGTATTTTAGTTTATTTCCTTTTAAATAGA
391 AAAAAAGAAAGAAAAGAAAACAAGAAGAAGGATAAGGTATTTTAGTTTATTTCCTTTTAAATAGA
*
34345832 ATGTAGAGTTTTATTACTAATTTTATTATTTGAAAGTTATTTTGTTAGGTTATTAATTTTGTTGG
456 ATGTAGAGTTTTATTACTAATTTTATTATTTGAAAGTTATTTTGTTAGGTTATTAATTTTGTTGA
*
34345897 CTTCTAAATGAAAAATTTTACATTAAAAATTTTATGTAACTTTTTTGCTATTCAAAATTGTTTTG
521 CTTCTAAATGAAAAATTTTACATTAAAAATTTTATGTAACTTTTTTGCTATTCAAAACTGTTTTG
34345962 AGAATTTTGGAATTTTTTTAACAGATCTAGTATTGAAGACGGAGAATTAGTTTTTCGTATGCGTT
586 AGAATTTTGGAATTTTTTTAACAGATCTAGTATTGAAGACGGAGAATTAGTTTTTCGTATGCGTT
*
34346027 TATTTCGATGGAGAAATTTTGAAAACAACCGTAGGCTGTATATTTGAATGCCGCAAACAAGTAGC
651 TATTTCGATGGAGAAATTTTGAAAACAACCGTAGGATGTATATTTGAATGCCGCAAACAAGTAGC
34346092 AATGAGATTTAATAGAAATATCTCGTTTGATGATATGAAGGAAAAAATAACTTTC
716 AATGAGATTTAATAGAAATATCTCGTTTGATGATATGAAGGAAAAAATAACTTTC
34346147 AAATAATATGTTTTTTTTAATCGCGCCTATCTGACAGGCGCAACTCC-TTTTTTATATTAAAATA
1 AAATAATATGTTTTTTTTAATCGCGCCTATCTGACAGGCGCAACTCCTTTTTTTATATTAAAATA
34346211 TATATTTTTTTGTTTGAAATATTATTAATTTTTTTCCCGGACCAGTATATGACCCTTATATAGAA
66 TATATTTTTTTGTTTGAAATATTATTAATTTTTTTCCCGGACCAGTATATGACCCTTATATAGAA
*
34346276 GCAAAAATGGTATACTGTTTGTGCCTATCTGACAAGCGTGAATAGTTGAGCCTATCTGACAGGTG
131 GCAAAAATGGTATACTGTTTGCGCCTATCTGACAAGCGTGAATAGTTGAGCCTATCTGACAGGTG
34346341 CGACTGGTTGAGCCTATTTGACAGGCGCGACTGGTTGAGCCTATCTCAGAGGCGCGATTGGTGGG
196 CGACTGGTTGAGCCTATTTGACAGGCGCGACTGGTTGAGCCTATCTCAGAGGCGCGATTGGTGGG
*
34346406 ACCCACAGGCGCATCTGGTGCTTAATTTTTCCCTTATATTTACCACCGAAAATCAAATGAGCAAC
261 ACCCACAGGCGCATCTGGTGCTTAATTTTTCCCTTATATATACCACCGAAAATCAAATGAGCAAC
34346471 AAACACAAAATTTAGTAGAGCAACAGTCACAAAATTTAGCAGAACGGAAGTAAGAAGATAGGGAG
326 AAACACAAAATTTAGTAGAGCAACAGTCACAAAATTTAGCAGAACGGAAGTAAGAAGATAGGGAG
*
34346536 AAAAAAGAAAGAAAGGAAAACAAGAAGAAGGATAAGGTATTTTAGTTTATTTCCTTTTAAATAGA
391 AAAAAAGAAAGAAAAGAAAACAAGAAGAAGGATAAGGTATTTTAGTTTATTTCCTTTTAAATAGA
34346601 ATGTAGAGTTTTATTACTAATTTTATTATTTGAAAGTTATTTTGTTAGGTTATTAATTTTGTTGA
456 ATGTAGAGTTTTATTACTAATTTTATTATTTGAAAGTTATTTTGTTAGGTTATTAATTTTGTTGA
34346666 CTTCTAAATGAAAAATTTTACATTAAAAATTTTATGTAACTTTTTTGCTATTCAAAACTGTTTTG
521 CTTCTAAATGAAAAATTTTACATTAAAAATTTTATGTAACTTTTTTGCTATTCAAAACTGTTTTG
34346731 AGAATTTTGGAATTTTTTTAACAGATCTAGTATTGAAGACGGAGAATTAGTTTTTCGTATGCGTT
586 AGAATTTTGGAATTTTTTTAACAGATCTAGTATTGAAGACGGAGAATTAGTTTTTCGTATGCGTT
34346796 TATTTCGATGGAGAAATTTTGAAAACAACCGTAGGATGTATATTTGAATGCCGCAAACAAGTAGC
651 TATTTCGATGGAGAAATTTTGAAAACAACCGTAGGATGTATATTTGAATGCCGCAAACAAGTAGC
34346861 AATGAGATTTAATAGAAATATCTCGTTTGATGATATGAAGGAAAAAA
716 AATGAGATTTAATAGAAATATCTCGTTTGATGATATGAAGGAAAAAA
34346908 ATTACTGAAA
Statistics
Matches: 753, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
769 707 0.94
770 46 0.06
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (770 bp):
AAATAATATGTTTTTTTTAATCGCGCCTATCTGACAGGCGCAACTCCTTTTTTTATATTAAAATA
TATATTTTTTTGTTTGAAATATTATTAATTTTTTTCCCGGACCAGTATATGACCCTTATATAGAA
GCAAAAATGGTATACTGTTTGCGCCTATCTGACAAGCGTGAATAGTTGAGCCTATCTGACAGGTG
CGACTGGTTGAGCCTATTTGACAGGCGCGACTGGTTGAGCCTATCTCAGAGGCGCGATTGGTGGG
ACCCACAGGCGCATCTGGTGCTTAATTTTTCCCTTATATATACCACCGAAAATCAAATGAGCAAC
AAACACAAAATTTAGTAGAGCAACAGTCACAAAATTTAGCAGAACGGAAGTAAGAAGATAGGGAG
AAAAAAGAAAGAAAAGAAAACAAGAAGAAGGATAAGGTATTTTAGTTTATTTCCTTTTAAATAGA
ATGTAGAGTTTTATTACTAATTTTATTATTTGAAAGTTATTTTGTTAGGTTATTAATTTTGTTGA
CTTCTAAATGAAAAATTTTACATTAAAAATTTTATGTAACTTTTTTGCTATTCAAAACTGTTTTG
AGAATTTTGGAATTTTTTTAACAGATCTAGTATTGAAGACGGAGAATTAGTTTTTCGTATGCGTT
TATTTCGATGGAGAAATTTTGAAAACAACCGTAGGATGTATATTTGAATGCCGCAAACAAGTAGC
AATGAGATTTAATAGAAATATCTCGTTTGATGATATGAAGGAAAAAATAACTTTC
Found at i:34352098 original size:60 final size:60
Alignment explanation
Indices: 34352025--34352143 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
34352015 ATATTAAACT
* *
34352025 AAACACAACAATTTAT-ACAATAATCCTAAATTAATAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAAC-ATAATCCTAAATTAATAACAAATTAATTTTAAAATAATTAC
* *
34352085 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAATTAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTAATAACAAATTAATTTTAAAATAATTA
34352144 TAAAAAAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 52 0.96
61 2 0.04
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTAATAACAAATTAATTTTAAAATAATTAC
Found at i:34352333 original size:18 final size:17
Alignment explanation
Indices: 34352310--34352359 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
34352300 TACATTACCT
34352310 TTTTTTTCTTTCTTATTC
1 TTTTTTTCTTTCTT-TTC
*
34352328 TTTTTTTCTTCTCCTTTC
1 TTTTTTTCTT-TCTTTTC
*
34352346 TCTCTTTTCTTTCT
1 T-TTTTTTCTTTCT
34352360 CTCTTCCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTCTTTCTTTTC
Found at i:34352359 original size:13 final size:14
Alignment explanation
Indices: 34352314--34352364 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
34352304 TTACCTTTTT
*
34352314 TTTCTTTCTTATTC
1 TTTCTCTCTTATTC
* * * *
34352328 TTTTTTTCTTCTCC
1 TTTCTCTCTTATTC
34352342 TTTCTCTCTT-TTC
1 TTTCTCTCTTATTC
34352355 TTTCTCTCTT
1 TTTCTCTCTT
34352365 CCAGTGGGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTCTCTCTTATTC
Found at i:34354449 original size:54 final size:53
Alignment explanation
Indices: 34354389--34354862 Score: 391
Period size: 54 Copynumber: 8.8 Consensus size: 53
34354379 TCAACAACTA
* * * *
34354389 CAAGATTCTAGAAATCTTGTAAGTATAAGGTTGGGATCTTAAATCAATGAGCTG
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
34354443 CAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCAATCTTAAAT-GGTGAGCCG
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
34354496 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGTTGAGCCA
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
34354550 CAAGATTAAAAAAATCTTGTAAGTATTAGGTTGCGATCTTAAATTGGAT-A-CTCG
1 CAAGATT-CAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAA-TCGATGAGC-CG
* * * * * *
34354604 CAATATTTAGAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGTGAGCCG
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * *** *
34354658 CGAGATTCACAAAATCTTATAAGTATAAGGTTGTGATCTTAAATTGGCAAACCG
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * * *
34354712 TAAGATACAGAAAATCCTATAAGTATAAGGTCGCGATATTAAATC-A-GCAAGCCG
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATG--AGCCG
* * * ** **
34354766 TAAGATTCAAAAAATGTTGTAAGTATAAGGTTGCAATCTTAAATCGACAATTCG
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * *
34354820 TAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTAAA
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAA
34354863 CCGGTGAACT
Statistics
Matches: 344, Mismatches: 63, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
52 1 0.00
53 51 0.15
54 285 0.83
55 7 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (53 bp):
CAAGATTCAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
Found at i:34354649 original size:108 final size:106
Alignment explanation
Indices: 34354389--34354862 Score: 461
Period size: 108 Copynumber: 4.4 Consensus size: 106
34354379 TCAACAACTA
* ** * *
34354389 CAAGATTCTAG-AAATCTTGTAAGTATAAGGTTGGGATCTTAAATCAATGAGCTGCAAGATTCGA
1 CAAGATTC-AGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-TGTGAGCCGCAAGATTCAA
*
34354453 AAAATCTTGTAAGTATAAGGCTGCAATCTTAAA-TGG-TGAGCCG
64 AAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGAT-A-CCG
* *
34354496 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGTTGAGCCACAAGATTAAAA
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTG-TGAGCCGCAAGATTCAAA
* *
34354561 AAATCTTGTAAGTATTAGGTTGCGATCTTAAATTGGATACTCG
65 AAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGATAC-CG
* * * * * *
34354604 CAATATTTAGAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGTGAGCCGCGAGATTCACA
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATT-GTGAGCCGCAAGATTCAAA
* ** *
34354669 AAATCTTATAAGTATAAGGTTGTGATCTTAAATTGGCAAACCG
65 AAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGG-ATACCG
* * * * * * * ** *
34354712 TAAGATACAGAAAATCCTATAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGTAAGATTCAAA
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-TGTGAGCCGCAAGATTCAAA
* * * *
34354777 AAATGTTGTAAGTATAAGGTTGCAATCTTAAA-TCGACAATTCG
65 AAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGA-TA-CCG
* * * * * *
34354820 TAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTAAA
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAA
34354863 CCGGTGAACT
Statistics
Matches: 305, Mismatches: 52, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
106 3 0.01
107 88 0.29
108 209 0.69
109 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (106 bp):
CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGTGAGCCGCAAGATTCAAAA
AATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGATACCG
Found at i:34354737 original size:162 final size:162
Alignment explanation
Indices: 34354408--34354862 Score: 477
Period size: 162 Copynumber: 2.8 Consensus size: 162
34354398 AGAAATCTTG
* * * *** * *
34354408 TAAGTATAAGGTTGGGATCTTAAATCAATGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGG
1 TAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGCAAGATTCAAAAAATCTTGTAAGTATAAGG
* * *
34354473 CTGCAATCTTAAA-TGGTGAGCCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTA
66 CTGCAATCTTAAATTGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCTTA
*** * * *
34354537 AATTGTTGAGCCACAAGATTAAAAAAATCTTG
131 AATTGGCAAACCACAAGATTAAAAAAATCCTA
* * * * * * * *
34354569 TAAGTATTAGGTTGCGATCTTAAAT-TGGATA-CTCGCAATATTTAGAAAATCTTGTAAGTATAA
1 TAAGTATAAGGTCGCGATATTAAATCAGCA-AGC-CGCAAGATTCAAAAAATCTTGTAAGTATAA
* *
34354632 GGCTGCAATCTTAAATTGGTGAGCCGCGAGATTCACAAAATCTTATAAGTATAAGGTTGTGATCT
64 GGCTGCAATCTTAAATTGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCT
** *
34354697 TAAATTGGCAAACCGTAAGA-TACAGAAAATCCTA
129 TAAATTGGCAAACCACAAGATTA-AAAAAATCCTA
* *
34354731 TAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGTAAGATTCAAAAAATGTTGTAAGTATAAGG
1 TAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGCAAGATTCAAAAAATCTTGTAAGTATAAGG
* * *** ** * * *
34354796 TTGCAATCTTAAATCGACAATTCGTAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTA
66 CTGCAATCTTAAATTGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCTTA
34354861 AA
131 AA
34354863 CCGGTGAACT
Statistics
Matches: 242, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
160 1 0.00
161 66 0.27
162 172 0.71
163 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (162 bp):
TAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGCAAGATTCAAAAAATCTTGTAAGTATAAGG
CTGCAATCTTAAATTGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCTTA
AATTGGCAAACCACAAGATTAAAAAAATCCTA
Found at i:34356227 original size:20 final size:22
Alignment explanation
Indices: 34356198--34356241 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
34356188 TCTTATTTCA
*
34356198 TTTTTCTGTTTA-T-ATGGATT
1 TTTTTATGTTTATTCATGGATT
34356218 TTTTTATGTTTATTCATGGATT
1 TTTTTATGTTTATTCATGGATT
34356240 TT
1 TT
34356242 CTTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTTTATGTTTATTCATGGATT
Found at i:34357523 original size:22 final size:24
Alignment explanation
Indices: 34357492--34357549 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
34357482 ATTTTTTATG
* *
34357492 TATTACTTATTTAAAATTG-TTTC
1 TATTATTTATTTAAAATGGTTTTC
*
34357515 -ATTATTTATTTTAAATGGTTTTC
1 TATTATTTATTTAAAATGGTTTTC
*
34357538 TGTTATTTATTT
1 TATTATTTATTT
34357550 CATTCTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 15 0.52
23 4 0.14
24 10 0.34
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (24 bp):
TATTATTTATTTAAAATGGTTTTC
Found at i:34369492 original size:44 final size:44
Alignment explanation
Indices: 34369397--34369506 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
34369387 AGTAAATTCA
* * * *
34369397 CAAATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
1 CAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGGCTAAAGATGG
* * * *
34369441 TAGATCTTGTCTCCCTAAGCAGTAGTGGAGCA-GATCAAATATGG
1 CAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGGCT-AAAGATGG
*
34369485 CAAATCTTGTCTCTCTAAGCAG
1 CAAATCTTGTCTCCCTAAGCAG
34369507 CATGGGAGCG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 2 0.04
44 52 0.96
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
CAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGGCTAAAGATGG
Found at i:34369614 original size:88 final size:87
Alignment explanation
Indices: 34369519--34369840 Score: 407
Period size: 88 Copynumber: 3.7 Consensus size: 87
34369509 TGGGAGCGAC
* * *
34369519 TCGAAGCCACAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGTTACAAATCTCTTCT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
*
34369584 CTCTGAAATGGCATTGGAGCGGT
66 C-CTGAAATGGCATTGGAGCAGT
* *
34369607 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATTGAAGCTACAGATCTCTTCT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
*
34369672 CCCTGAAATGACATTGGAGCAGT
66 -CCTGAAATGGCATTGGAGCAGT
* * *
34369695 TCGAAGCCACAATTCTTATCTCATTGAAGTTCCAACAGAGTATATCGAAGCTACAAATCTCTTCT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
* *
34369760 CCTTGAAATGGCATTAGAGCAAT
66 CC-TGAAATGGCATTGGAGCAGT
* * * * * * *
34369783 T-GAAGACACCAA-TCTTATCTCCCTGAAATTGCAG-TGAGGCAGATTGAAGCTACAAATC
1 TCGAAGCCA-CAATTCTTATCTCCTTGAAGTTCCAGCAGA-GTAGATCGAAGCTACAAATC
34369841 ACAAACCTTA
Statistics
Matches: 205, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
86 2 0.01
87 42 0.20
88 160 0.78
89 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (87 bp):
TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
CCTGAAATGGCATTGGAGCAGT
Found at i:34369766 original size:44 final size:44
Alignment explanation
Indices: 34369607--34369766 Score: 119
Period size: 44 Copynumber: 3.6 Consensus size: 44
34369597 TTGGAGCGGT
* * *
34369607 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGA
1 TCGAAGCCACAAATCTTATCTCCTTGAAGTTCCAACAGAGTATA
* * * * * ** *** *
34369651 TTGAAGCTACAGATCTCT-TCTCCCTGAAATGACATTGGAGCAGT-
1 TCGAAGCCACAAATCT-TATCTCCTTGAAGTTCCAACAGAGTA-TA
* *
34369695 TCGAAGCCACAATTCTTATCTCATTGAAGTTCCAACAGAGTATA
1 TCGAAGCCACAAATCTTATCTCCTTGAAGTTCCAACAGAGTATA
*
34369739 TCGAAGCTACAAATCTCT-TCTCCTTGAA
1 TCGAAGCCACAAATCT-TATCTCCTTGAA
34369767 ATGGCATTAG
Statistics
Matches: 82, Mismatches: 29, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
43 2 0.02
44 78 0.95
45 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
TCGAAGCCACAAATCTTATCTCCTTGAAGTTCCAACAGAGTATA
Found at i:34370016 original size:45 final size:45
Alignment explanation
Indices: 34369842--34370004 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 45
34369832 CTACAAATCA
* * * ** *
34369842 CAAACCTTATCTTCCTGAAGTTGCAGTGGAACAGGTTGAAGTTA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* *
34369886 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * * *
34369931 CGAATCTTATCTCCCTAAAGTTGCAATAGAGCA-AGCTGAAGGTAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAG
*
34369976 CAAATCTTATCTCCATGAAGTTGCAGTGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGG
34370005 GACAGATTGA
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
44 37 0.38
45 60 0.62
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
Found at i:34370777 original size:20 final size:22
Alignment explanation
Indices: 34370748--34370791 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
34370738 TCTTCTTTCA
*
34370748 TTTTTCTGTTTA-T-ATGGATT
1 TTTTTATGTTTATTCATGGATT
34370768 TTTTTATGTTTATTCATGGATT
1 TTTTTATGTTTATTCATGGATT
34370790 TT
1 TT
34370792 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTTTATGTTTATTCATGGATT
Found at i:34371617 original size:27 final size:27
Alignment explanation
Indices: 34371569--34371707 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 27
34371559 ACGTCTTATG
* **
34371569 TATTTTAAAT-TATTATAGATTTTAAA
1 TATTTTACATATATTATTTATTTTAAA
34371595 TATTTTACATATATTATTTATTTTAAA
1 TATTTTACATATATTATTTATTTTAAA
*
34371622 TATTATAC--ATATTATTTATTTTGAAA
1 TATTTTACATATATTATTTATTTT-AAA
**
34371648 T-TTTTTTATATATCT-TTTATTTTAAA
1 TATTTTACATATAT-TATTTATTTTAAA
* * *
34371674 CTATTATACGTGTATATTATTTAATTTAAA
1 -TATTTTAC--ATATATTATTTATTTTAAA
34371704 -ATTT
1 TATTT
34371708 CTTATATGTT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
25 17 0.19
26 16 0.18
27 34 0.38
28 7 0.08
29 1 0.01
30 15 0.17
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (27 bp):
TATTTTACATATATTATTTATTTTAAA
Found at i:34371626 original size:16 final size:18
Alignment explanation
Indices: 34371595--34371627 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
34371585 AGATTTTAAA
34371595 TATTTTACATATATTATT
1 TATTTTACATATATTATT
34371613 TATTTTA-A-ATATTAT
1 TATTTTACATATATTAT
34371628 ACATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTACATATATTATT
Found at i:34371635 original size:97 final size:96
Alignment explanation
Indices: 34371507--34371681 Score: 212
Period size: 97 Copynumber: 1.8 Consensus size: 96
34371497 TTGTTTCTCT
* * * *
34371507 TATATTATTTATATTAAACCATTTTATTATTAGTTATTTT-AACCTTTTTTT-TACGTCTTATGT
1 TATATTATTTATATTAAACCATTATAATATTAGTTATTTTGAA-ATTTTTTTATACATCTT-T-T
*
34371570 ATTTTAAATTATTATAGATTTTAAATATTTTACA
63 ATTTTAAACTATTATAGATTTTAAATATTTTACA
* * * *
34371604 TATATTATTTATTTTAAA-TATTATACATATTATTTATTTTGAAATTTTTTTATATATCTTTTAT
1 TATATTATTTATATTAAACCATTATA-ATATTAGTTATTTTGAAATTTTTTTATACATCTTTTAT
34371668 TTTAAACTATTATA
65 TTTAAACTATTATA
34371682 CGTGTATATT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
96 21 0.32
97 37 0.56
98 8 0.12
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (96 bp):
TATATTATTTATATTAAACCATTATAATATTAGTTATTTTGAAATTTTTTTATACATCTTTTATT
TTAAACTATTATAGATTTTAAATATTTTACA
Found at i:34374429 original size:2 final size:2
Alignment explanation
Indices: 34374424--34374456 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34374414 TATATATATA
34374424 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
34374457 CTGACGATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34376471 original size:28 final size:29
Alignment explanation
Indices: 34376430--34376485 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
34376420 GGCATTCCCT
* *
34376430 TCATAGATCGCCACAAACGC-TTCTTTTA
1 TCATAAATCACCACAAACGCTTTCTTTTA
*
34376458 TCATAAATCACCACAAAGGCTTTCTTTT
1 TCATAAATCACCACAAACGCTTTCTTTT
34376486 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (29 bp):
TCATAAATCACCACAAACGCTTTCTTTTA
Found at i:34378152 original size:50 final size:50
Alignment explanation
Indices: 34377928--34378362 Score: 481
Period size: 50 Copynumber: 8.8 Consensus size: 50
34377918 ACTAGGGTTC
* * * * * * **
34377928 TATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGTCATTG-T-
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
* ** ** *
34377976 TATGAGGGTTAGTGTAAGACCACATCTGGGACATGACATCGGC-CTC-A-A
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATA
* * * * **
34378024 TATGTGAGCCAGTTTAAGACCATGTTTGGAACATGGCATCGGCATTG-T-
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
* *
34378072 TATGTA-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACCAATA
1 TATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
* * *
34378122 TATGAGAGCCAGTGTAATACCATGTCTGGGATATGGCATCGGCCCCGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
* * *
34378172 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCACCGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
* * *
34378222 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCAGCACCAATA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
* * *
34378272 TATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCACCGACA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
*
34378322 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCG
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
34378363 ACATTTTACC
Statistics
Matches: 323, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
48 106 0.33
49 2 0.01
50 215 0.67
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (50 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATA
Found at i:34385060 original size:25 final size:25
Alignment explanation
Indices: 34385032--34385083 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
34385022 TTTGGCTTGA
**
34385032 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
34385057 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
34385082 CA
1 CA
34385084 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:34392626 original size:13 final size:13
Alignment explanation
Indices: 34392608--34392634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34392598 TCGGTTTTGA
34392608 TTGAGTAATAGTC
1 TTGAGTAATAGTC
34392621 TTGAGTAATAGTC
1 TTGAGTAATAGTC
34392634 T
1 T
34392635 AAGTCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGAGTAATAGTC
Found at i:34398146 original size:40 final size:40
Alignment explanation
Indices: 34398102--34398302 Score: 275
Period size: 40 Copynumber: 5.0 Consensus size: 40
34398092 GATTTAACCA
* *
34398102 GATATAGCT-ACTCGCTCGAATGCCTTCGGGACTTAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
** *
34398142 GATATAGTAGTTCACACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
34398182 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
34398222 GA-ATTAGTAACTCGCA-ACAATGCCTTCGGGACTTAGCCCG
1 GATA-TAGTAACTCGCACA-AATGCCTTCGGGACTTAGCCCG
* *
34398262 GA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
34398302 G
1 G
34398303 TTATCGTCCG
Statistics
Matches: 147, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 143 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:34401792 original size:16 final size:15
Alignment explanation
Indices: 34401767--34401796 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34401757 AACTGTTTTA
34401767 TTACTAATTTCACTC
1 TTACTAATTTCACTC
34401782 TTACATAATTTCACT
1 TTAC-TAATTTCACT
34401797 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
TTACTAATTTCACTC
Found at i:34402078 original size:49 final size:50
Alignment explanation
Indices: 34402006--34402284 Score: 294
Period size: 49 Copynumber: 5.6 Consensus size: 50
34401996 ATTTGGTACG
* * * * *
34402006 CATAGTAACCTGTACTTAGTACTACACATGCGACC-AACAATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
*
34402055 CATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
* * *** * * *
34402105 CGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATACA
* *
34402156 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
* * * *
34402205 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACA
* * *
34402257 CATAGTATCCTACACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
34402285 TGTGTTCTCA
Statistics
Matches: 193, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
49 73 0.38
50 46 0.24
51 41 0.21
52 33 0.17
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
Found at i:34402233 original size:150 final size:151
Alignment explanation
Indices: 34402000--34402284 Score: 421
Period size: 150 Copynumber: 1.9 Consensus size: 151
34401990 GAAGCAATTT
*
34402000 GGTACGCATAGTAACCTGTACTTAGTACTACACATGCGACCAACAATCTGATACACATAGTAACC
1 GGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAACAATCTGATACACATAGTAACC
* * * * *
34402065 TGCACTTAGTACTACACACGTGACCT-AACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 TGCACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
34402129 CACACGTGATTGAAGTTGTCA
131 CACACGTGATTGAAGTTGTCA
* * * * *
34402150 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC-ATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACC-AACAATCTGATACACATAGTAAC
* *
34402214 CTGCACTTAGTACTACACACATGACCTAAAACCATCTTAAACACATAGTATCCTACACATAGTAC
65 CTGCACTTAGTACTACACACATGACCT-AAACCATCTGAAACACATAGTAGCCTACACATAGTAC
34402279 TACACA
129 TACACA
34402285 TGTGTTCTCA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
150 80 0.67
151 3 0.03
152 36 0.30
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAACAATCTGATACACATAGTAACC
TGCACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
CACACGTGATTGAAGTTGTCA
Found at i:34402261 original size:101 final size:101
Alignment explanation
Indices: 34402052--34402288 Score: 296
Period size: 101 Copynumber: 2.3 Consensus size: 101
34402042 ACAATCTGAT
*
34402052 ACACATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTG
* * * **** **
34402117 CACTTAGTACTACACACGTGATTGAAGTTGTCAGGT
66 CACTTAGTACTACACACATGACTAAAACCATCAGAA
* * *
34402153 ACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CATCTGGTACACGTAGTAGCCTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTG
**
34402217 CACTTAGTACTACACACATGACCTAAAACCATCTTAA
66 CACTTAGTACTACACACATGA-CTAAAACCATCAGAA
* * *
34402254 ACACATAGTATCCTACACATAGTACTACACATGTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTG
34402289 TTCTCACAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
100 42 0.36
101 74 0.64
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTG
CACTTAGTACTACACACATGACTAAAACCATCAGAA
Found at i:34404861 original size:15 final size:15
Alignment explanation
Indices: 34404827--34404882 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
34404817 TAAAGGTAAC
* * *
34404827 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
34404842 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
34404857 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
34404872 AAGAAATCCAA
1 AAGAAATCCAA
34404883 TATACAATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:34416896 original size:20 final size:20
Alignment explanation
Indices: 34416871--34416914 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
34416861 CGGGTAGGGG
34416871 ACACGAGCGTGTCCCAAAGC
1 ACACGAGCGTGTCCCAAAGC
34416891 ACACGAGCGTGTCCCAAAGC
1 ACACGAGCGTGTCCCAAAGC
34416911 ACAC
1 ACAC
34416915 AGGAGTGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.36, G:0.23, T:0.09
Consensus pattern (20 bp):
ACACGAGCGTGTCCCAAAGC
Found at i:34418259 original size:37 final size:37
Alignment explanation
Indices: 34418197--34418268 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
34418187 TACAAGCCAC
*
34418197 AATCATTATAAGCCACATCTCATGGAT-ATATACAATG
1 AATCAATATAAGCCACATCTCATGGATCATA-ACAATG
34418234 AATCAATATAAGCCA-ATACAT-ATGGATCATAACAA
1 AATCAATATAAGCCACAT-C-TCATGGATCATAACAA
34418269 CATCTATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 2 0.06
37 25 0.81
38 4 0.13
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (37 bp):
AATCAATATAAGCCACATCTCATGGATCATAACAATG
Done.