Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 88 of 187
Found at i:25686823 original size:22 final size:25
Alignment explanation
Indices: 25686797--25686849 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
25686787 TTATAAATTC
25686797 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
25686819 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
25686844 AATTTA
1 AATTTA
25686850 GTCATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:25690291 original size:59 final size:57
Alignment explanation
Indices: 25690192--25690331 Score: 138
Period size: 59 Copynumber: 2.4 Consensus size: 57
25690182 ATCTAGAGTT
** * ** * *
25690192 TTCAAGAAATAACTTGGATAAAAAAAACTCAAACTTCAATGTGAGAATAATTGTGAAG
1 TTCAAGATCTAACTTAGA-AAAAAAAACTCAAACCCCAATGTGAGAATAACTGTCAAG
* * * *
25690250 TTTAAGGTCTAACTTAGACAAAAAAAAGTTCAAACCCCAATGTGGGAATAACTGTCAAG
1 TTCAAGATCTAACTTAGA-AAAAAAAA-CTCAAACCCCAATGTGAGAATAACTGTCAAG
*
25690309 TTCAATATCTAACTTA-AAAAAAA
1 TTCAAGATCTAACTTAGAAAAAAA
25690332 CAAATCCCAA
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
57 6 0.09
58 22 0.33
59 38 0.58
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (57 bp):
TTCAAGATCTAACTTAGAAAAAAAAACTCAAACCCCAATGTGAGAATAACTGTCAAG
Found at i:25696598 original size:39 final size:40
Alignment explanation
Indices: 25696504--25696626 Score: 151
Period size: 39 Copynumber: 3.1 Consensus size: 40
25696494 GCTAACCAAA
* *
25696504 AAATGCCGCAAAAGGTAAAGTATTAGCGGCGTTTT-TGCAT
1 AAATGCCGCAAAAGGTAAAGCAATAGCGGCGTTTTCT-CAT
* * *
25696544 AAACGCCACAAAAGGTAAAGCAATA-CGGTGTTTTCTCAT
1 AAATGCCGCAAAAGGTAAAGCAATAGCGGCGTTTTCTCAT
* *
25696583 AAATGCCGCAGAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
1 AAATGCCGCAAAAGGTAAAGCAATAGCGGCG-TTTTCTCAT
25696624 AAA
1 AAA
25696627 AGCCACCAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 33 0.47
40 26 0.37
41 11 0.16
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (40 bp):
AAATGCCGCAAAAGGTAAAGCAATAGCGGCGTTTTCTCAT
Found at i:25698521 original size:46 final size:46
Alignment explanation
Indices: 25698434--25698522 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
25698424 GCTTAATATT
* * *
25698434 CATGTATTCTCGAGTTCGCAACATATGCAGGAGCTCAGAACCTAAA
1 CATGCATTCTCAAGTTCGCAACATATGCAGGAACTCAGAACCTAAA
*
25698480 CATGCATTCTCAAGTAT-GCAACATAT-CTAGGAACTCGGAACCT
1 CATGCATTCTCAAGT-TCGCAACATATGC-AGGAACTCAGAACCT
25698523 TGGCAAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.03
46 35 0.95
47 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (46 bp):
CATGCATTCTCAAGTTCGCAACATATGCAGGAACTCAGAACCTAAA
Found at i:25704740 original size:49 final size:49
Alignment explanation
Indices: 25704685--25704839 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
25704675 TGAGGGAGTG
25704685 AGATCCGTCATTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGAAGTA
1 AGATCCGTCATTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGAAGTA
* * * * * * ** * *
25704734 AGATCCGCCGTCGTGGCCTCAATCTTTTAAAT-T-GCAAT-G-TTGAGGGAGTG
1 AGATCCGTCATTGTAGCTTCAATCTGTT-CCTCTAG--ATCGCTT--GGAAGTA
25704784 AGATCCGTCATTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGAAGTA
1 AGATCCGTCATTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGAAGTA
25704833 AGATCCG
1 AGATCCG
25704840 CCGTCGTGGC
Statistics
Matches: 77, Mismatches: 20, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
48 3 0.04
49 39 0.51
50 32 0.42
51 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (49 bp):
AGATCCGTCATTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGAAGTA
Found at i:25704855 original size:49 final size:49
Alignment explanation
Indices: 25704703--25704857 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
25704693 CATTGTAGCT
25704703 TCAATCTGTTCCTCTAGATCGCTTGGAAGTAAGATCCGCCGTCGTGGCC
1 TCAATCTGTTCCTCTAGATCGCTTGGAAGTAAGATCCGCCGTCGTGGCC
* ** * * * * * * *
25704752 TCAATCTTTTAAAT-T-GCAAT-G-TTGAGGGAGTGAGATCCGTCATTGTAGCT
1 TCAATCTGTT-CCTCTAG--ATCGCTT--GGAAGTAAGATCCGCCGTCGTGGCC
25704802 TCAATCTGTTCCTCTAGATCGCTTGGAAGTAAGATCCGCCGTCGTGGCC
1 TCAATCTGTTCCTCTAGATCGCTTGGAAGTAAGATCCGCCGTCGTGGCC
25704851 TCAATCT
1 TCAATCT
25704858 TTTAAATTGC
Statistics
Matches: 77, Mismatches: 20, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
48 3 0.04
49 39 0.51
50 32 0.42
51 3 0.04
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (49 bp):
TCAATCTGTTCCTCTAGATCGCTTGGAAGTAAGATCCGCCGTCGTGGCC
Found at i:25704892 original size:50 final size:50
Alignment explanation
Indices: 25704549--25705093 Score: 233
Period size: 50 Copynumber: 11.0 Consensus size: 50
25704539 ATTTGCTGTT
* * * * *
25704549 GTGGCCTCAATCTTTT-AATTGCAATGTCAGGAAAGTGAGATTCGCCATT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCGTC
* * * **** * ** * *
25704598 GTAGCTTCAATCTGTTCCGCTGCATTG-CTTGGAAGTAAGATCTGCCGTC
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCGTC
* * * *
25704647 GTGGCCTCAATCTTTTAAATTGCAATGTTGAGGG-AGTGAGATCCGTCATT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCG-GGGAAGTGAGATCCGCCGTC
* * * ** ** *
25704697 GTAGCTTCAATCTGTT--CCT-CTAGATCG-CTTGGAAGTAAGATCCGCCGTC
1 GTGGCCTCAATCTTTTAAATTGC-A-AT-GTCGGGGAAGTGAGATCCGCCGTC
* * * *
25704746 GTGGCCTCAATCTTTTAAATTGCAATGTTGAGGG-AGTGAGATCCGTCATT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCG-GGGAAGTGAGATCCGCCGTC
* * * ** ** *
25704796 GTAGCTTCAATCTGTT--CCT-CTAGATCG-CTTGGAAGTAAGATCCGCCGTC
1 GTGGCCTCAATCTTTTAAATTGC-A-AT-GTCGGGGAAGTGAGATCCGCCGTC
* *
25704845 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCGTC
* * *** ** * *
25704895 GTAGCTTCAATCTGTTT-CGCTGC-ATCG-CTAAGTAAGTAAGATCCGCCGTC
1 GTGGCCTCAATCT-TTTAAATTGCAAT-GTC-GGGGAAGTGAGATCCGCCGTC
* * * *
25704945 GTGGCCTCAATCTTTTAAATTGCAATGTCGGAGAAGTGAGATTCACCGTT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCGTC
* * * **** ** * * *
25704995 GTAGCTTCAATCTGTTCCGCTGC-ATCG-CTAAGTAAGTAAGATCCGCTGTC
1 GTGGCCTCAATCTTTTAAATTGCAAT-GTC-GGGGAAGTGAGATCCGCCGTC
*
25705045 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCGT
25705094 TGTAGTTTCA
Statistics
Matches: 336, Mismatches: 130, Indels: 59
0.64 0.25 0.11
Matches are distributed among these distances:
47 2 0.01
48 8 0.02
49 111 0.33
50 196 0.58
51 17 0.05
52 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCGTC
Found at i:25704971 original size:100 final size:100
Alignment explanation
Indices: 25704549--25705368 Score: 939
Period size: 100 Copynumber: 8.2 Consensus size: 100
25704539 ATTTGCTGTT
* * *
25704549 GTGGCCTCAATCTTTT-AATTGCAATGTCAGGAAAGTGAGATTCGCCATTGTAGCTTCAATCTGT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTGT
* * *
25704613 TCCGCTGCATTGCT-TGGAAGTAAGATCTGCCGTC
66 TCCGCTGCATCGCTAAGGAAGTAAGATCCGCCGTC
* *
25704647 GTGGCCTCAATCTTTTAAATTGCAATGTTGAGGG-AGTGAGATCCGTCATTGTAGCTTCAATCTG
1 GTGGCCTCAATCTTTTAAATTGCAATGTCG-GGGAAGTGAGATCCGCCATTGTAGCTTCAATCTG
* *
25704711 TTCCTCTAG-ATCGCT-TGGAAGTAAGATCCGCCGTC
65 TTCCGCT-GCATCGCTAAGGAAGTAAGATCCGCCGTC
* *
25704746 GTGGCCTCAATCTTTTAAATTGCAATGTTGAGGG-AGTGAGATCCGTCATTGTAGCTTCAATCTG
1 GTGGCCTCAATCTTTTAAATTGCAATGTCG-GGGAAGTGAGATCCGCCATTGTAGCTTCAATCTG
* *
25704810 TTCCTCTAG-ATCGCT-TGGAAGTAAGATCCGCCGTC
65 TTCCGCT-GCATCGCTAAGGAAGTAAGATCCGCCGTC
* *
25704845 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTGT
* *
25704910 TTCGCTGCATCGCTAAGTAAGTAAGATCCGCCGTC
66 TCCGCTGCATCGCTAAGGAAGTAAGATCCGCCGTC
* * * *
25704945 GTGGCCTCAATCTTTTAAATTGCAATGTCGGAGAAGTGAGATTCACCGTTGTAGCTTCAATCTGT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTGT
* *
25705010 TCCGCTGCATCGCTAAGTAAGTAAGATCCGCTGTC
66 TCCGCTGCATCGCTAAGGAAGTAAGATCCGCCGTC
* * * **
25705045 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGTTTCAATCTAC
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTGT
* * * *
25705110 TCCACTGCAACGCT-AGGAAAGTAAGATCCGCTGTT
66 TCCGCTGCATCGCTAAGG-AAGTAAGATCCGCCGTC
* * * * * ** *
25705145 GTAGCTTCAATCTTCTT-AATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGTTTCAATCTG
1 GTGGCCTCAATCTT-TTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTG
* ** *
25705209 TTCCGCTGCACCGCCTGAA--AA-TAAGATTTGCCGTT
65 TTCCGCTGCATCG-CT-AAGGAAGTAAGATCCGCCGTC
* * * *
25705244 GTGGCCTCAATCTTTT-GATTACAATGTCAGGGAAGTGAAATCCGCCATTGTAGCTTCAATCTGT
1 GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTGT
* * * * * * * * *
25705308 TCCACTGCACCACTTGAGAAAGTAAGATTCGTCTTT
66 TCCGCTGCATCGC-TAAGGAAGTAAGATCCGCCGTC
25705344 GTGGCCTCAATCTTTTAAATTGCAA
1 GTGGCCTCAATCTTTTAAATTGCAA
25705369 ACTATGGTTT
Statistics
Matches: 645, Mismatches: 61, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
97 2 0.00
98 73 0.11
99 262 0.41
100 297 0.46
101 10 0.02
103 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
GTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATCCGCCATTGTAGCTTCAATCTGT
TCCGCTGCATCGCTAAGGAAGTAAGATCCGCCGTC
Found at i:25705146 original size:50 final size:50
Alignment explanation
Indices: 25705028--25705207 Score: 146
Period size: 50 Copynumber: 3.6 Consensus size: 50
25705018 ATCGCTAAGT
* * ** ** * * * * *
25705028 AAGTAAGATCCGCTGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
1 AAGTAAGATCCGCTGTTGTAGTTTCAATCTACTCAACTGCAACGTCAGGA
* * * *
25705078 AAGTGAGATTCGCCGTTGTAGTTTCAATCTACTCCACTGCAACG-CTAGGA
1 AAGTAAGATCCGCTGTTGTAGTTTCAATCTACTCAACTGCAACGTC-AGGA
* * * * * *
25705128 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGG
1 AAGTAAGATCCGCTGTTGTAGTTTCAATCTACTCAACTGCAACGTCAGGA
*
25705178 AAGTAAGATCCACTGTTGTAGTTTCAATCT
1 AAGTAAGATCCGCTGTTGTAGTTTCAATCT
25705208 GTTCCGCTGC
Statistics
Matches: 101, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 1 0.01
50 99 0.98
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
AAGTAAGATCCGCTGTTGTAGTTTCAATCTACTCAACTGCAACGTCAGGA
Found at i:25707191 original size:28 final size:27
Alignment explanation
Indices: 25707159--25707212 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
25707149 GTGCCAGTCC
* *
25707159 TTGTAGGTTTCATTTATTTTCCCTACNT
1 TTGTAGGTTTCAGTCATTTTCCCTAC-T
*
25707187 TTGTAGGTTTCAGTCATTTTTCCTAC
1 TTGTAGGTTTCAGTCATTTTCCCTAC
25707213 AATCTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.15, C:0.19, G:0.13, T:0.52
Consensus pattern (27 bp):
TTGTAGGTTTCAGTCATTTTCCCTACT
Found at i:25708118 original size:23 final size:23
Alignment explanation
Indices: 25708088--25708133 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25708078 CATCAGATTT
*
25708088 TCTTCTCGTGGAAGGTAGGGAAA
1 TCTTCTCGTGGAAGGTAGCGAAA
25708111 TCTTCTCGTGGAAGGTAGCGAAA
1 TCTTCTCGTGGAAGGTAGCGAAA
25708134 GGTGATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (23 bp):
TCTTCTCGTGGAAGGTAGCGAAA
Found at i:25714237 original size:27 final size:27
Alignment explanation
Indices: 25714199--25714254 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
25714189 CTCATATTTC
25714199 AAACTCAGTATATCAGCCTGAACCGCT
1 AAACTCAGTATATCAGCCTGAACCGCT
*
25714226 AAACTCAGTATATCAGCCTGACCCGCT
1 AAACTCAGTATATCAGCCTGAACCGCT
25714253 AA
1 AA
25714255 GTTTTGCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.21
Consensus pattern (27 bp):
AAACTCAGTATATCAGCCTGAACCGCT
Found at i:25717181 original size:72 final size:72
Alignment explanation
Indices: 25717059--25717202 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
25717049 CGGGTTCGGG
25717059 AGTCAGTTACGCACGGGGAAGGATTAGCACCCCCGATACGCCCAAAATTGGTACCCAGTTGATTA
1 AGTCAGTTACGCACGGGGAAGGATTAGCACCCCCGATACGCCCAAAATTGGTACCCAGTTGATTA
25717124 CTTAATA
66 CTTAATA
*
25717131 AGTCGGTTACGCACGGGGAAGGATTAGCACCCCCGATACGCCCAAAATTGGTACCCAGTTGATTA
1 AGTCAGTTACGCACGGGGAAGGATTAGCACCCCCGATACGCCCAAAATTGGTACCCAGTTGATTA
25717196 CTTAATA
66 CTTAATA
25717203 TCTTAATGTC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (72 bp):
AGTCAGTTACGCACGGGGAAGGATTAGCACCCCCGATACGCCCAAAATTGGTACCCAGTTGATTA
CTTAATA
Found at i:25718887 original size:14 final size:15
Alignment explanation
Indices: 25718856--25718891 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
25718846 TTTTATGAAA
*
25718856 TTGGGCTTGGGTGTT
1 TTGGGCTTCGGTGTT
25718871 TTGGGCTTCGG-GTT
1 TTGGGCTTCGGTGTT
25718885 TTGGGCT
1 TTGGGCT
25718892 GTATTTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.11, G:0.44, T:0.44
Consensus pattern (15 bp):
TTGGGCTTCGGTGTT
Found at i:25725419 original size:140 final size:140
Alignment explanation
Indices: 25725162--25725441 Score: 506
Period size: 140 Copynumber: 2.0 Consensus size: 140
25725152 CTGTATTCTT
*
25725162 ATACTGTTAAATATTGATCCCTTAAAATTCAATTTCAAGAGTTTAGTCCCTTACTCGTTTGATTT
1 ATACAGTTAAATATTGATCCCTTAAAATTCAATTTCAAGAGTTTAGTCCCTTACTCGTTTGATTT
25725227 TAAAATTAAAATTTAATTGATAATATTATTAATTGAATTCGGTTAAATTTGAATAAATGAAATTT
66 TAAAATTAAAATTTAATTGATAATATTATTAATTGAATTCGGTTAAATTTGAATAAATGAAATTT
25725292 AATTTTCACA
131 AATTTTCACA
*
25725302 ATACAGTTAAATATTGGTCCCTTAAAATTCAATTTCAAGAGTTTAGTCCCTTACTCGTTTGATTT
1 ATACAGTTAAATATTGATCCCTTAAAATTCAATTTCAAGAGTTTAGTCCCTTACTCGTTTGATTT
* * * *
25725367 TAATATTAAAATTTAATTGATAATATTATTAATTGAATTCTGTTAAATTTGAATAAATTAACTTT
66 TAAAATTAAAATTTAATTGATAATATTATTAATTGAATTCGGTTAAATTTGAATAAATGAAATTT
25725432 AATTTTCACA
131 AATTTTCACA
25725442 TTAGGCAATT
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 134 1.00
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (140 bp):
ATACAGTTAAATATTGATCCCTTAAAATTCAATTTCAAGAGTTTAGTCCCTTACTCGTTTGATTT
TAAAATTAAAATTTAATTGATAATATTATTAATTGAATTCGGTTAAATTTGAATAAATGAAATTT
AATTTTCACA
Found at i:25728644 original size:50 final size:50
Alignment explanation
Indices: 25728496--25728664 Score: 160
Period size: 50 Copynumber: 3.4 Consensus size: 50
25728486 NNNNNNNNNN
* * *
25728496 AAGCCACAACGGCGGATCTTACTTCCTTAACAGTGTAGTGGAACAGATTG
1 AAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAACAGATTG
* * * * * * * * ** *
25728546 AAGCTACGACGACGGATC-TAGTTTCACTGATATTGCAATTAAAAAGATTG
1 AAGCCACAACGGCGGATCTTA-CTTCCCTGACAGTGCAGTGGAACAGATTG
* *
25728596 AAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTG
1 AAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAACAGATTG
* *
25728646 AAGCTACGACGGCGGATCT
1 AAGCCACAACGGCGGATCT
25728665 GGTTTCCCCA
Statistics
Matches: 88, Mismatches: 29, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
49 2 0.02
50 84 0.95
51 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (50 bp):
AAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAACAGATTG
Found at i:25728672 original size:50 final size:50
Alignment explanation
Indices: 25728525--25728698 Score: 152
Period size: 50 Copynumber: 3.5 Consensus size: 50
25728515 TACTTCCTTA
* * *
25728525 ACAGTGTAGTGGAACAGATTGAAGCTACGACGACGGATCTAGTTTCACTG
1 ACAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTG
* * * ** * * * *
25728575 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTG
1 ACAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTG
* * * **
25728625 ACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCA
1 ACAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTG
* * *
25728675 ACATTGCAGTTGAACAAATTGAAG
1 ACAGTGCAGTGGAACAGATTGAAG
25728699 ATTACAGATC
Statistics
Matches: 91, Mismatches: 31, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
49 1 0.01
50 88 0.97
51 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (50 bp):
ACAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTG
Found at i:25728698 original size:100 final size:100
Alignment explanation
Indices: 25728496--25728682 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 100
25728486 NNNNNNNNNN
* *
25728496 AAGCCACAACGGCGGATCTTACTTCCTTAACAGTGTAGTGGAACAGATTGAAGCTACGACGACGG
1 AAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGGAACAGATTGAAGCTACGACGACGG
** *
25728561 ATCTAGTTTCACTGATATTGCAATTAAAAAGATTG
66 ATCTAGTTTCACCAACATTGCAATTAAAAAGATTG
* * * *
25728596 AAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGG
1 AAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGGAACAGATTGAAGCTACGACGACGG
* *
25728661 ATCTGGTTTCCCCAACATTGCA
66 ATCTAGTTTCACCAACATTGCA
25728683 GTTGAACAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (100 bp):
AAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGGAACAGATTGAAGCTACGACGACGG
ATCTAGTTTCACCAACATTGCAATTAAAAAGATTG
Found at i:25728870 original size:132 final size:132
Alignment explanation
Indices: 25728692--25728935 Score: 357
Period size: 132 Copynumber: 1.8 Consensus size: 132
25728682 AGTTGAACAA
** *
25728692 ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGG-TGAATTTT
1 ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAAAGCAGATCGAA-GATGGCAG-ATTTT
*
25728755 ACCTCCCTGAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGCAGTGGA
64 ACCTCCCTGAAGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGCAGTGGA
25728820 ATAG
129 ATAG
* * * * *
25728824 ATTGATGATTACAGGTCTTATCTCCCTAGGCAGTAGTAAAGTAGATCGAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGATGGCAGATTTTAC
* *
25728889 CTCCCTGAAGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTC
66 CTCCCTGAAGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTC
25728936 TCTAGTCGGC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
132 96 0.97
133 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGATGGCAGATTTTAC
CTCCCTGAAGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGCAGTGGAAT
AG
Found at i:25728948 original size:132 final size:132
Alignment explanation
Indices: 25728692--25728963 Score: 352
Period size: 132 Copynumber: 2.1 Consensus size: 132
25728682 AGTTGAACAA
** *
25728692 ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGTGAATTTTAC
1 ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAAAGCAGATCAAGGATGGAGAATTTTAC
* *
25728757 CTCCCTGAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGCAGTGGAAT
66 CTCCCTGAAGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCTTAGGCAGCAGTGGAAT
25728822 AG
131 AG
* * * * *
25728824 ATTGATGATTACAGGTCTTATCTCCCTAGGCAGTAGTAAAGTAGATCGAA-GATGGCAG-ATTTT
1 ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAAAGCAGATC-AAGGATGG-AGAATTTT
* * * *
25728887 ACCTCCCTGAAGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCT-CTCTAGTCGGCAGTGG
64 ACCTCCCTGAAGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCT-TAGGCAGCAGTGG
*
25728951 AATCG
128 AATAG
*
25728956 ATCGAAGA
1 ATTGAAGA
25728964 AAACAGATAT
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
131 2 0.02
132 115 0.96
133 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
ATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAAAGCAGATCAAGGATGGAGAATTTTAC
CTCCCTGAAGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCTTAGGCAGCAGTGGAAT
AG
Found at i:25729025 original size:44 final size:44
Alignment explanation
Indices: 25728977--25729401 Score: 517
Period size: 44 Copynumber: 9.7 Consensus size: 44
25728967 CAGATATTAC
* *
25728977 CTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* *
25729021 CTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* *
25729065 CTTCATGTATTGACGTG-A--AG-TCGAAGAAAGCAGATCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
*
25729105 CTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* ** *
25729149 CTTCCCATACTGGTGGC-T-AAGTAGATCAAAGAAAACAGATCTTGT
1 CTT--CAT-GTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* *
25729194 CTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* * * *
25729238 CTTCTAATGCAGGTGGC--GAAGTAGATCGAAGAAA-AAGGATCTTGT
1 CTTC--ATGTA-TTGGCGTGAAGTAGATCAAAGAAAGCA-GATCTTGT
*
25729283 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAAATCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* * *
25729327 CTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGGTCTTGT
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
* *
25729371 CTTCACGTATTAGCGTGAAGTAGATCAAAGA
1 CTTCATGTATTGGCGTGAAGTAGATCAAAGA
25729402 TACAAGTCTT
Statistics
Matches: 327, Mismatches: 38, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
40 33 0.10
41 3 0.01
42 9 0.03
43 11 0.03
44 198 0.61
45 56 0.17
46 8 0.02
47 9 0.03
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
CTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGT
Found at i:25729222 original size:89 final size:87
Alignment explanation
Indices: 25728994--25729403 Score: 501
Period size: 89 Copynumber: 4.7 Consensus size: 87
25728984 TATTGGCGTG
*
25728994 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGA
* * * *
25729059 TCTTGTCTTCATGTATTGACGT
66 TCTTGTCTTCATCTAGTGGCAT
* *
25729081 --GAAG-TCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGA
*
25729143 TCTTGTCTTCCCATACTGGTGGC-T
66 TCTTGTCTT--CAT-CTAGTGGCAT
* *
25729167 AAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGA
1 AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGA
*
25729232 TCTTGTCTTCTAATGC-AGGTGGC-G
66 TCTTGTCTTC--AT-CTA-GTGGCAT
* *
25729256 AAGTAGATCGAAGAAAA-AGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAA
1 AAGTAGATCGAAGAAAACA-GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
* *
25729320 ATCTTGTCTTCATGTATTGGCAT
65 ATCTTGTCTTCATCTAGTGGCAT
* * * * * *
25729343 GAAGTAGATCAAAGATAGCAGGTCTTGTCTTCACGTATTAGCGTGAAGTAGATCAAAGATA
1 -AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
25729404 CAAGTCTTAT
Statistics
Matches: 281, Mismatches: 28, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
84 65 0.23
85 3 0.01
86 8 0.03
87 8 0.03
88 55 0.20
89 142 0.51
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (87 bp):
AAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGA
TCTTGTCTTCATCTAGTGGCAT
Found at i:25729310 original size:133 final size:130
Alignment explanation
Indices: 25728977--25729375 Score: 479
Period size: 133 Copynumber: 3.0 Consensus size: 130
25728967 CAGATATTAC
* *
25728977 CTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGT
1 CTTCATGCAGTGGCG-GAAGTAGATCGAAGAAAA-AGATCTTGTCTTCATGTATTGGCGTGAAGT
* * * * * *
25729042 AGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACGTG-A--AG-TCGAAGAAAGCAGATCTT
64 AGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTT
25729103 GT
129 GT
* * * ** * **
25729105 CTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC-T-A
1 CTTCATGCAGTGGCG-GAAGTAGATCGAAGA-AAAAGATCTTGTCTT--CAT-GTATTGGCGTGA
*
25729168 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGAT
61 AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGAT
25729233 CTTGT
126 CTTGT
25729238 CTTCTAATGCAGGTGGC-GAAGTAGATCGAAGAAAAAGGATCTTGTCTTCATGTATTGGCGTGAA
1 CTTC--ATGCA-GTGGCGGAAGTAGATCGAAGAAAAA-GATCTTGTCTTCATGTATTGGCGTGAA
* *
25729302 GTAGATCAAAGAAAGCAAATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGGTC
62 GTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATC
25729367 TTGT
127 TTGT
25729371 CTTCA
1 CTTCA
25729376 CGTATTAGCG
Statistics
Matches: 233, Mismatches: 24, Indels: 25
0.83 0.09 0.09
Matches are distributed among these distances:
128 42 0.18
129 40 0.17
130 5 0.02
131 11 0.05
132 6 0.03
133 96 0.41
134 25 0.11
135 4 0.02
136 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (130 bp):
CTTCATGCAGTGGCGGAAGTAGATCGAAGAAAAAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
ATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGT
Found at i:25729896 original size:18 final size:17
Alignment explanation
Indices: 25729869--25729912 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25729859 CAATAATGCC
*
25729869 CGGGCACAAACCAATAAA
1 CGGGCCCAAACC-ATAAA
*
25729887 CGGGCCCAAACCATTAA
1 CGGGCCCAAACCATAAA
*
25729904 CAGGCCCAA
1 CGGGCCCAA
25729913 CAACTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.34, G:0.18, T:0.07
Consensus pattern (17 bp):
CGGGCCCAAACCATAAA
Found at i:25730951 original size:21 final size:21
Alignment explanation
Indices: 25730922--25730984 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
25730912 TTTAAAATAT
25730922 TTATCGTTATATCATTATTTA
1 TTATCGTTATATCATTATTTA
* *
25730943 TTATTGTTATATTATT-TATTA
1 TTATCGTTATATCATTAT-TTA
*
25730964 TTATGGTTATTATCATTATTT
1 TTATCGTTA-TATCATTATTT
25730985 CTATATTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.71
22 8 0.23
23 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (21 bp):
TTATCGTTATATCATTATTTA
Found at i:25731105 original size:24 final size:24
Alignment explanation
Indices: 25731049--25731108 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
25731039 ATTAAACACA
*
25731049 CATATTTTTATATATAATATATAC
1 CATATTTTTAAATATAATATATAC
*
25731073 GCATTTTTTTAAATATATATATATA-
1 -CATATTTTTAAATATA-ATATATAC
*
25731098 TATATTTTTAA
1 CATATTTTTAA
25731109 GCTTTTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.30
25 14 0.47
26 7 0.23
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (24 bp):
CATATTTTTAAATATAATATATAC
Found at i:25731161 original size:11 final size:11
Alignment explanation
Indices: 25731145--25731169 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25731135 TATTCATACG
25731145 TTTTTATATTT
1 TTTTTATATTT
25731156 TTTTTATATTT
1 TTTTTATATTT
25731167 TTT
1 TTT
25731170 AAAACTTTTA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATATTT
Found at i:25732033 original size:28 final size:28
Alignment explanation
Indices: 25732001--25732057 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
25731991 ATAAAGGATC
25732001 GGTGGCAACTTCAGTTTTTGTTTTTTAA
1 GGTGGCAACTTCAGTTTTTGTTTTTTAA
*
25732029 GGTGGCGACTTCAGTTTTTGTTTTTTAA
1 GGTGGCAACTTCAGTTTTTGTTTTTTAA
25732057 G
1 G
25732058 TCGATAACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.11, G:0.25, T:0.49
Consensus pattern (28 bp):
GGTGGCAACTTCAGTTTTTGTTTTTTAA
Found at i:25734382 original size:15 final size:15
Alignment explanation
Indices: 25734339--25734387 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
25734329 TAAGCAAGCC
* *
25734339 TATTAATCATAAT-T
1 TATTAATAAAAATGT
25734353 TATTGAATAAAAATGT
1 TATT-AATAAAAATGT
*
25734369 TATTAATTAAAATGT
1 TATTAATAAAAATGT
25734384 TATT
1 TATT
25734388 TCAATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.13
15 21 0.70
16 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (15 bp):
TATTAATAAAAATGT
Found at i:25737112 original size:114 final size:113
Alignment explanation
Indices: 25736890--25737182 Score: 277
Period size: 114 Copynumber: 2.6 Consensus size: 113
25736880 GCATTTTTTA
* * * ** * *
25736890 TGAAGCGCCGCTAAAGCTCAGGGA-TTTAGCAACGTTTCTGAGAAATCGCCGCAAAGAAACCTAA
1 TGAAGCGCCGCCAATGCTCA-GGACTTTAACGGCGTTTCTG-GGAAGCGCCGCAAAGAAACCTAA
* * * * * * *
25736954 GACTAACGACGCCGTTTTCTGAGCATTCGGTGACTTAGCGGCGTTTTTGAG
64 GCCGAACGACGCCGTTCTCTGAGCATTCGGGGACTTAACAGCGTTTATG-G
* * * * * *
25737005 -GTAGCGCCGCCAATGTTCAGTACTTTAGCGGCGTTTCTGTGGAAGTGCCGCAAAGAAACATAAG
1 TGAAGCGCCGCCAATGCTCAGGACTTTAACGGCGTTTCTG-GGAAGCGCCGCAAAGAAACCTAAG
* * *
25737069 CCGAATGACGCCGTTCTCTGAGTATTCGGGGATTTAACAGCGTTTATGG
65 CCGAACGACGCCGTTCTCTGAGCATTCGGGGACTTAACAGCGTTTATGG
* * * * *
25737118 TGAAGCGCTGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGAAGCGCCGCCAA-AAACCTAAGC
1 TGAAGCGCCGCCAATGCTCAGGACTTTAACGGCGTTTCTGGGAAGCGCCGCAAAGAAACCTAAGC
25737182 C
66 C
25737183 CAACAAGGTC
Statistics
Matches: 143, Mismatches: 33, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
112 10 0.07
113 15 0.10
114 118 0.83
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (113 bp):
TGAAGCGCCGCCAATGCTCAGGACTTTAACGGCGTTTCTGGGAAGCGCCGCAAAGAAACCTAAGC
CGAACGACGCCGTTCTCTGAGCATTCGGGGACTTAACAGCGTTTATGG
Found at i:25740853 original size:19 final size:19
Alignment explanation
Indices: 25740829--25740865 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25740819 GCAAAATTTG
*
25740829 TATCCTGTAAGTGGGAAGT
1 TATCCTGTAACTGGGAAGT
25740848 TATCCTGTAACTGGGAAG
1 TATCCTGTAACTGGGAAG
25740866 GGGAACGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (19 bp):
TATCCTGTAACTGGGAAGT
Found at i:25741265 original size:148 final size:146
Alignment explanation
Indices: 25741024--25741418 Score: 370
Period size: 148 Copynumber: 2.7 Consensus size: 146
25741014 GAAATGTTGT
** * ** * * *
25741024 CGTTTTGTCTATGGTATTAGTGTCGTTTATTTGAAAACGCCACAAGAT-TGAGTTAACTGTT-AG
1 CGTTTTG-CTATATTATTAGTGGCGTTTATTCAAAAACGCCAC-AGGTGTGAGCTAAGTGTTGA-
* * * *
25741087 GGAAACGACTTCG-TTTGATCTTATATTTAGTGGCGCTTTACTTAAAATGCTG-CAAAATTGTTC
63 TGAAACGACTGCGTTTTGAT-TTATAGTTAGTGGCGCTTTACTTAAAACGCTGCCAAAA-TGTTC
* **
25741150 AAACATTTATAGAAACGCTGC
126 AAACATTGATAGAAACGAGGC
** * * * *
25741171 CGTTTTTTTAAATGTTATTAGTGGCGATTT-TTCGAAAAA-GCCACGGGTTTGAGGTAAGTGTTG
1 CGTTTTGCT--ATATTATTAGTGGCG-TTTATTC-AAAAACGCCACAGGTGTGAGCTAAGTGTTG
* * **
25741234 ATGAAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAGTTAAAACGCTGCCAAAATGTTTT
62 ATGAAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTACTTAAAACGCTGCCAAAATGTTCA
* *
25741299 AACATTGATCGATACGAGGC
127 AACATTGATAGAAACGAGGC
* * **
25741319 CGTTTTGCTGTATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGCGCTATTTGTTGATGA
1 CGTTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGAGCTAAGTGTTGATGA
* *
25741384 AACGACTGCGTTTCGACTTATAGTTAGTGGCGCTT
66 AACGACTGCGTTTTGATTTATAGTTAGTGGCGCTT
25741419 ATTTATAAAC
Statistics
Matches: 202, Mismatches: 36, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
145 8 0.04
146 71 0.35
147 8 0.04
148 96 0.48
149 19 0.09
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (146 bp):
CGTTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGAGCTAAGTGTTGATGA
AACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTACTTAAAACGCTGCCAAAATGTTCAAACA
TTGATAGAAACGAGGC
Found at i:25741406 original size:146 final size:146
Alignment explanation
Indices: 25741088--25741418 Score: 364
Period size: 146 Copynumber: 2.2 Consensus size: 146
25741078 AACTGTTAGG
* * *
25741088 GAAACGACTTCGTTTGATCTTATATTTAGTGGCGCTTTACTTAAAATGCTGCAAAATTGTTCAAA
1 GAAACGACTGCGTTTGA-CTTATAGTTAGTGGCGCTTTACTTAAAACGCTGCAAAATTGTTCAAA
* ** ** * *
25741153 CATTTATAGAAACGCTGCCGTTTTTTTAAATGTTATTAGTGGCGATTTTTCGAAAAAGCCACGGG
65 CATTGATAGAAACGAGGCCGTTTTGCT-AATATTATTAGTGGCGATTTTTCGAAAAAGCCACAGG
* *
25741218 TTTGAGGTAAGTGTTGAT
129 TGTGAGCTAAGTGTTGAT
* * * **
25741236 GAAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAGTTAAAACGCTGCCAAAA-TGTTTTA
1 GAAACGACTGCG-TTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCTG-CAAAATTGTTCAA
* * *
25741300 ACATTGATCGATACGAGGCCGTTTTGCT-GTATTATTAGTGGCG-TTTATTC-AAAAACGCCACA
64 ACATTGATAGAAACGAGGCCGTTTTGCTAATATTATTAGTGGCGATTT-TTCGAAAAA-GCCACA
* **
25741362 GGTGTGCGCTATTTGTTGAT
127 GGTGTGAGCTAAGTGTTGAT
25741382 GAAACGACTGCGTTTCGACTTATAGTTAGTGGCGCTT
1 GAAACGACTGCGTTT-GACTTATAGTTAGTGGCGCTT
25741419 ATTTATAAAC
Statistics
Matches: 153, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
145 11 0.07
146 67 0.44
148 65 0.42
149 10 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (146 bp):
GAAACGACTGCGTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCTGCAAAATTGTTCAAAC
ATTGATAGAAACGAGGCCGTTTTGCTAATATTATTAGTGGCGATTTTTCGAAAAAGCCACAGGTG
TGAGCTAAGTGTTGAT
Found at i:25743773 original size:40 final size:40
Alignment explanation
Indices: 25743718--25743796 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
25743708 GCGTTTGTAT
*
25743718 AAAAAATGCCACTAAAAATCAAGCATTACCGGCGCTTTTA
1 AAAAAACGCCACTAAAAATCAAGCATTACCGGCGCTTTTA
* * * * * *
25743758 AAAAAACGCCGCTAAAGATTAAGTATTAGCGGCGTTTTT
1 AAAAAACGCCACTAAAAATCAAGCATTACCGGCGCTTTT
25743797 TGAATTCGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCACTAAAAATCAAGCATTACCGGCGCTTTTA
Found at i:25743961 original size:41 final size:41
Alignment explanation
Indices: 25743916--25744095 Score: 267
Period size: 41 Copynumber: 4.4 Consensus size: 41
25743906 CTCAAAAAGA
*
25743916 GCCGCTAATGCT-TGAGCCTTTAGCAGCGTTTTTAGG-AAAGC
1 GCCGCTAATGCTCTG-GCCTTTAGCAGCGTTTTT-GGTGAAGC
*
25743957 GCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTT-GTGGAAGC
1 GCCGCTAATGCTCTGGCCTTTAGCAGCGTTTTTGGT-GAAGC
* * *
25743998 GCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGGTGAAGC
1 GCCGCTAATGCTCTGGCCTTTAGCAGCGTTTTTGGTGAAGC
25744039 GCCGCTAATGCTCTGGCCTTTAGCAGCGTTTTTGGTGAAGC
1 GCCGCTAATGCTCTGGCCTTTAGCAGCGTTTTTGGTGAAGC
25744080 GCCGCTAATGCTCTGG
1 GCCGCTAATGCTCTGG
25744096 TCTAGTCTAT
Statistics
Matches: 128, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
39 1 0.01
41 123 0.96
42 4 0.03
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.31
Consensus pattern (41 bp):
GCCGCTAATGCTCTGGCCTTTAGCAGCGTTTTTGGTGAAGC
Found at i:25744136 original size:46 final size:43
Alignment explanation
Indices: 25743916--25744137 Score: 223
Period size: 41 Copynumber: 5.3 Consensus size: 43
25743906 CTCAAAAAGA
* * *
25743916 GCCGCTAATGCT-TGAGC--CTTTAGCAGCGTTTTTAGG-AAAGC
1 GCCGCTAATGCTCTG-GCGTCTATAGCGGCGTTTTT-GGTGAAGC
*
25743957 GCCGCTAATGCTCTGGC--CTTTAGCGGCGTTTTT-GTGGAAGC
1 GCCGCTAATGCTCTGGCGTCTATAGCGGCGTTTTTGGT-GAAGC
25743998 GCCGCTAATGCTCT-G-GTCTATAGCGGCGTTTTTGGTGAAGC
1 GCCGCTAATGCTCTGGCGTCTATAGCGGCGTTTTTGGTGAAGC
* *
25744039 GCCGCTAATGCTCTGGC--CTTTAGCAGCGTTTTTGGTGAAGC
1 GCCGCTAATGCTCTGGCGTCTATAGCGGCGTTTTTGGTGAAGC
** *
25744080 GCCGCTAATGCTCTGGTCTAGTCTATAGCGGCGTTTTTTATAAAGC
1 GCCGCTAATGCTCTGG-C--GTCTATAGCGGCGTTTTTGGTGAAGC
*
25744126 GCCGCAAATGCT
1 GCCGCTAATGCT
25744138 TTGATCTTTT
Statistics
Matches: 157, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 119 0.76
42 6 0.04
46 30 0.19
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.31
Consensus pattern (43 bp):
GCCGCTAATGCTCTGGCGTCTATAGCGGCGTTTTTGGTGAAGC
Found at i:25744158 original size:87 final size:82
Alignment explanation
Indices: 25743916--25744137 Score: 270
Period size: 82 Copynumber: 2.6 Consensus size: 82
25743906 CTCAAAAAGA
* * * *
25743916 GCCGCTAATGCT-TGAGCCTTTAGCAGCGTTTTT-AGGAAAGCGCCGCTAATGCTCTGGCCTTTA
1 GCCGCTAATGCTCTG-GTCTATAGCGGCGTTTTTGA-TAAAGCGCCGCTAATGCTCTGGCCTTTA
25743979 GCGGCGTTTTTGTGGAAGC
64 GCGGCGTTTTTGTGGAAGC
* *
25743998 GCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGGTGAAGCGCCGCTAATGCTCTGGCCTTTAGC
1 GCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCTGGCCTTTAGC
*
25744063 AGCGTTTTTG-GTGAAGC
66 GGCGTTTTTGTG-GAAGC
* *
25744080 GCCGCTAATGCTCTGGTCTAGTCTATAGCGGCGTTTTTTATAAAGCGCCGCAAATGCT
1 GCCGCTAATGCTCT-G----GTCTATAGCGGCGTTTTTGATAAAGCGCCGCTAATGCT
25744138 TTGATCTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
81 1 0.01
82 83 0.69
83 3 0.02
87 34 0.28
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.31
Consensus pattern (82 bp):
GCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCTGGCCTTTAGC
GGCGTTTTTGTGGAAGC
Found at i:25744167 original size:87 final size:82
Alignment explanation
Indices: 25743910--25744171 Score: 215
Period size: 82 Copynumber: 3.1 Consensus size: 82
25743900 GCGTTTCTCA
* * * * * * *
25743910 AAAAGAGCCGCTAATGCT-TGAGCCTTTAGCAGCGTTTTT-AGGAAAGCGCCGCTAATGCTCTGG
1 AAAAGCGCCGCTAATGCTCTG-GTCTATAGCGGCGTTTTTGA-TAAAGCGCCGCAAATGCTCTGA
* *
25743973 CCTTTAGCGGCGTTTTT-G
64 CCTTTAGCAGCATTTTTCG
** * * * *
25743991 TGGAAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGGTGAAGCGCCGCTAATGCTCTGGC
1 -AAAAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATAAAGCGCCGCAAATGCTCTGAC
* *
25744056 CTTTAGCAGCGTTTTTGG
65 CTTTAGCAGCATTTTTCG
** * *
25744074 TGAAGCGCCGCTAATGCTCTGGTCTAGTCTATAGCGGCGTTTTTTATAAAGCGCCGCAAATGCTT
1 AAAAGCGCCGCTAATGCTCT-G----GTCTATAGCGGCGTTTTTGATAAAGCGCCGCAAATGCTC
* * *
25744139 TGATCTTTTGCGGCATTTTTCG
61 TGACCTTTAGCAGCATTTTTCG
25744161 AAAAGCGCCGC
1 AAAAGCGCCGC
25744172 AAAATGTATT
Statistics
Matches: 148, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
82 85 0.57
83 4 0.03
87 59 0.40
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (82 bp):
AAAAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATAAAGCGCCGCAAATGCTCTGACC
TTTAGCAGCATTTTTCG
Found at i:25744208 original size:18 final size:17
Alignment explanation
Indices: 25744177--25744210 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25744167 GCCGCAAAAT
*
25744177 GTATTTTATCTTAATTG
1 GTATTTTATATTAATTG
25744194 GTATATTTATATTAATT
1 GTAT-TTTATATTAATT
25744211 AAATAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (17 bp):
GTATTTTATATTAATTG
Found at i:25744678 original size:22 final size:21
Alignment explanation
Indices: 25744625--25744686 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
25744615 AGTTAGAGAT
*
25744625 TTAGGTTTTAAGGGTTTAAGGG
1 TTAGGATTTAA-GGTTTAAGGG
* *
25744647 TTGGGGTTTAAGGTTTAAGGGG
1 TTAGGATTTAAGGTTTAA-GGG
* *
25744669 TTATGATTTAGGGTTTAA
1 TTAGGATTTAAGGTTTAA
25744687 AGGATATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 7 0.21
22 26 0.79
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (21 bp):
TTAGGATTTAAGGTTTAAGGG
Found at i:25749507 original size:16 final size:16
Alignment explanation
Indices: 25749483--25749516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25749473 TAATACTAAT
*
25749483 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
25749499 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
25749515 TA
1 TA
25749517 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:25749631 original size:42 final size:43
Alignment explanation
Indices: 25749585--25749913 Score: 315
Period size: 42 Copynumber: 7.7 Consensus size: 43
25749575 ATGGTATTTT
* ** * * *
25749585 TAGCGGTGTTTGTAATTAAAGTGTCGCTAAAGGTCTT-ATTTA
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
25749627 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGGTCTA
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
** * *
25749670 TAGCTACGTTTGTGAG-AAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * * * * * *
25749712 TAGTGGTGCTTGTTAGAAAAGTGCCGCTAAAGATCATGGTCTT
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * ** *
25749755 TAGCGACGTTTTTTGGAAAAGCGCCGCTATAGGTCTTGATCTA
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
** * * *
25749798 TAATGGTGTTTAT-GGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
25749840 TAGCGTCGTTTGTAGGAAAAGCGCCGCTATAGGTCTTGATCTA
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
25749883 TAGTGGCGTTTGT-GGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAG
25749914 TTATCGACGC
Statistics
Matches: 233, Mismatches: 51, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
42 119 0.51
43 114 0.49
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:25749738 original size:85 final size:86
Alignment explanation
Indices: 25749609--25749913 Score: 354
Period size: 85 Copynumber: 3.6 Consensus size: 86
25749599 ATTAAAGTGT
* * *
25749609 CGCTAAAGGTCTT-ATTTATAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAG
1 CGCTAAAGGTCTTGATCTATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAG
*
25749673 CTACGTTTGTGAG-AAAGCGT
66 CTACGTTTGTGAGAAAAGCGC
* * * * * *
25749693 CGCTAAAGGTCTTGATCTATAGTGGTGCTTGTTAGAAAAGTGCCGCTAAAGATCATGGTCTTTAG
1 CGCTAAAGGTCTTGATCTATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAG
* *
25749758 CGACGTTTTTTG-GAAAAGCGC
66 CTACG-TTTGTGAGAAAAGCGC
* * * * * *
25749779 CGCTATAGGTCTTGATCTATAATGGTGTTT-ATGGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
1 CGCTAAAGGTCTTGATCTATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAG
25749843 CGT-CGTTTGT-AGGAAAAGCGC
66 C-TACGTTTGTGA-GAAAAGCGC
* *
25749864 CGCTATAGGTCTTGATCTATAGTGGCGTTTG-TGGAAAAGCGCCGCTAAAG
1 CGCTAAAGGTCTTGATCTATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAG
25749914 TTATCGACGC
Statistics
Matches: 188, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
84 17 0.09
85 133 0.71
86 38 0.20
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
CGCTAAAGGTCTTGATCTATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAG
CTACGTTTGTGAGAAAAGCGC
Found at i:25749859 original size:128 final size:126
Alignment explanation
Indices: 25749625--25749913 Score: 316
Period size: 128 Copynumber: 2.3 Consensus size: 126
25749615 AGGTCTTATT
* * * *
25749625 TATAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAGCTACGTTTGTGAGAAAG
1 TATAGCGACGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCTA-GTTTATGAGAAAG
* * * *
25749690 CGTCGCTAAAGGTCTTGATCTATAGTGGTGCTTGTTAGAAAAGTGCCGCTAAAGATCATGGTC
64 CGCCGCTAAAGGTCTTGATCTATAGTCGTGCTTGTTAGAAAAGCGCCGCTAAAGATCATGATC
* * * *
25749753 TTTAGCGACGTTTTTTGGAAAAGCGCCGCTATAGGTCTTGATCTATAATGGT-GTTTATG-GAAA
1 TATAGCGACG-TTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTAT-A-GCTAGTTTATGAG-AA
* * * *
25749816 AGCGCCGCTAAAGGTCTTGATCTATAG-CGTCGTTTG-TAGGAAAAGCGCCGCTATAGGTCTTGA
62 AGCGCCGCTAAAGGTCTTGATCTATAGTCGT-GCTTGTTA-GAAAAGCGCCGCTAAAGATCATGA
25749879 TC
125 TC
* *
25749881 TATAGTGGCGTTTGTGGAAAAGCGCCGCTAAAG
1 TATAGCGACGTTTGTGGAAAAGCGCCGCTAAAG
25749914 TTATCGACGC
Statistics
Matches: 134, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
127 26 0.19
128 101 0.75
129 5 0.04
130 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (126 bp):
TATAGCGACGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCTAGTTTATGAGAAAGCG
CCGCTAAAGGTCTTGATCTATAGTCGTGCTTGTTAGAAAAGCGCCGCTAAAGATCATGATC
Found at i:25750326 original size:20 final size:20
Alignment explanation
Indices: 25750301--25750362 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
25750291 TAAAATTTCT
25750301 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
25750321 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
* *
25750340 TAACTCATATAATGTTAAGA
1 TAACTTATATAATATTAAGA
25750360 TAA
1 TAA
25750363 AATATCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:25750396 original size:37 final size:37
Alignment explanation
Indices: 25750334--25750434 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
25750324 CTTATATAAT
* * **
25750334 ATTACATAACTCATATAATGTTAAGATAAAATATCGA
1 ATTACATAACTTATACAATACTAAGATAAAATATCGA
*
25750371 ATTAC-TGAACTTATACAATACTAAGATAAAATTTCGA
1 ATTACAT-AACTTATACAATACTAAGATAAAATATCGA
* *
25750408 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATACAATACTAAGAT
25750435 TACTTTTAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.02
37 53 0.96
38 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.35
Consensus pattern (37 bp):
ATTACATAACTTATACAATACTAAGATAAAATATCGA
Found at i:25750480 original size:34 final size:34
Alignment explanation
Indices: 25750444--25750841 Score: 268
Period size: 34 Copynumber: 12.1 Consensus size: 34
25750434 TTACTTTTAG
* * *
25750444 ATAATACATAACCTTCCTAACTTACATTATTTAG
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* * *
25750478 ATAATACATAGCCTACATAACTTACATAACTTAC
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* *
25750512 ATAAATTAAATAA-CTTCCATAACTTACATAACTCAC
1 AT-AA-TACATAACCTTCC-TAACTTACATAACTTAC
**
25750548 ATAATAC---A-----C-AACGGACATAACTTAC
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* * *
25750573 ATAATACATAACCTTCCTAACTTACATTATTTAG
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* * *
25750607 ATAATACATAGCCTACATAACTTACATAACTTAC
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* *
25750641 ATAAATTAAATAA-CTTCCATAACTTACATAACTCAC
1 AT-AA-TACATAACCTTCC-TAACTTACATAACTTAC
**
25750677 ATAATAC---A-----C-AACGGACATAACTTAC
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* * *
25750702 ATAATACATAACCTTCCTAACTTACATTATTTAG
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* * *
25750736 ATAATACATAGCCTACATAACTTACATAACTTAC
1 ATAATACATAACCTTCCTAACTTACATAACTTAC
* *
25750770 ATAAATTAAATAA-CTTCCATAACTTACATAACTCAC
1 AT-AA-TACATAACCTTCC-TAACTTACATAACTTAC
* *
25750806 ATAATACACAA-CTTACATAACTTACATAA--TAC
1 ATAATACATAACCTT-CCTAACTTACATAACTTAC
25750838 ATAA
1 ATAA
25750842 AAATATATCA
Statistics
Matches: 281, Mismatches: 55, Indels: 58
0.71 0.14 0.15
Matches are distributed among these distances:
25 40 0.14
27 2 0.01
28 2 0.01
31 2 0.01
32 6 0.02
33 2 0.01
34 136 0.48
35 22 0.08
36 69 0.25
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.31
Consensus pattern (34 bp):
ATAATACATAACCTTCCTAACTTACATAACTTAC
Found at i:25750503 original size:9 final size:9
Alignment explanation
Indices: 25750448--25750834 Score: 281
Period size: 9 Copynumber: 44.8 Consensus size: 9
25750438 TTTTAGATAA
25750448 TACATAACCT
1 TACATAA-CT
*
25750458 T-CCTAACT
1 TACATAACT
* *
25750466 TACATTATT
1 TACATAACT
*
25750475 TAGATAA--
1 TACATAACT
* *
25750482 TACATAGCC
1 TACATAACT
25750491 TACATAACT
1 TACATAACT
25750500 TACATAACT
1 TACATAACT
*
25750509 TACATAAAT
1 TACATAACT
*
25750518 TAAATAACT
1 TACATAACT
*
25750527 TCCATAACT
1 TACATAACT
25750536 TACATAACT
1 TACATAACT
*
25750545 CACATAA--
1 TACATAACT
* *
25750552 TACACAACG
1 TACATAACT
*
25750561 GACATAACT
1 TACATAACT
25750570 TACATAA--
1 TACATAACT
25750577 TACATAACCT
1 TACATAA-CT
*
25750587 T-CCTAACT
1 TACATAACT
* *
25750595 TACATTATT
1 TACATAACT
*
25750604 TAGATAA--
1 TACATAACT
* *
25750611 TACATAGCC
1 TACATAACT
25750620 TACATAACT
1 TACATAACT
25750629 TACATAACT
1 TACATAACT
*
25750638 TACATAAAT
1 TACATAACT
*
25750647 TAAATAACT
1 TACATAACT
*
25750656 TCCATAACT
1 TACATAACT
25750665 TACATAACT
1 TACATAACT
*
25750674 CACATAA--
1 TACATAACT
* *
25750681 TACACAACG
1 TACATAACT
*
25750690 GACATAACT
1 TACATAACT
25750699 TACATAA--
1 TACATAACT
25750706 TACATAACCT
1 TACATAA-CT
*
25750716 T-CCTAACT
1 TACATAACT
* *
25750724 TACATTATT
1 TACATAACT
*
25750733 TAGATAA--
1 TACATAACT
* *
25750740 TACATAGCC
1 TACATAACT
25750749 TACATAACT
1 TACATAACT
25750758 TACATAACT
1 TACATAACT
*
25750767 TACATAAAT
1 TACATAACT
*
25750776 TAAATAACT
1 TACATAACT
*
25750785 TCCATAACT
1 TACATAACT
25750794 TACATAACT
1 TACATAACT
*
25750803 CACATAA--
1 TACATAACT
*
25750810 TACACAACT
1 TACATAACT
25750819 TACATAACT
1 TACATAACT
25750828 TACATAA
1 TACATAA
25750835 TACATAAAAA
Statistics
Matches: 290, Mismatches: 66, Indels: 43
0.73 0.17 0.11
Matches are distributed among these distances:
7 44 0.15
8 9 0.03
9 234 0.81
10 3 0.01
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:25750588 original size:129 final size:129
Alignment explanation
Indices: 25750444--25750841 Score: 778
Period size: 129 Copynumber: 3.1 Consensus size: 129
25750434 TTACTTTTAG
25750444 ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
1 ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
25750509 TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACGGACATAACTTAC
66 TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACGGACATAACTTAC
25750573 ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
1 ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
25750638 TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACGGACATAACTTAC
66 TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACGGACATAACTTAC
25750702 ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
1 ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
**
25750767 TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACTTACATAACTTAC
66 TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACGGACATAACTTAC
25750831 ATAATACATAA
1 ATAATACATAA
25750842 AAATATATCA
Statistics
Matches: 267, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 267 1.00
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.31
Consensus pattern (129 bp):
ATAATACATAACCTTCCTAACTTACATTATTTAGATAATACATAGCCTACATAACTTACATAACT
TACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACACAACGGACATAACTTAC
Found at i:25756370 original size:21 final size:21
Alignment explanation
Indices: 25756344--25756414 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
25756334 CTACAACTTA
*
25756344 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
25756365 AAGCAGCGGCTGCAGCGAAGG
1 AAGCAGAGGCTGCAGCGAGGG
** *
25756386 AAGTGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
25756407 AAGCAGAG
1 AAGCAGAG
25756415 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:25756796 original size:42 final size:43
Alignment explanation
Indices: 25756737--25756850 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
25756727 ATATAAAAGT
*
25756737 GCCGCTAACGAACATGTTCTTTAGCGGCGCTTAG-AAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAAC
*
25756779 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAAC
* * *
25756822 GCTGCTAAAGACCATATTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
25756851 TTTTTGTTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 32 0.49
43 33 0.51
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAAC
Found at i:25758691 original size:11 final size:11
Alignment explanation
Indices: 25758675--25758729 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
25758665 TTTTTTTTTC
25758675 TTTGCTATTGT
1 TTTGCTATTGT
*
25758686 TTTGCTGTTGT
1 TTTGCTATTGT
*
25758697 TTTGTTATT-T
1 TTTGCTATTGT
*
25758707 TATTGTTATTG-
1 T-TTGCTATTGT
25758718 TTTGCATATTGT
1 TTTGC-TATTGT
25758730 ATAACTCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 5 0.14
11 31 0.86
ACGTcount: A:0.11, C:0.05, G:0.18, T:0.65
Consensus pattern (11 bp):
TTTGCTATTGT
Found at i:25758906 original size:26 final size:27
Alignment explanation
Indices: 25758860--25758918 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
25758850 TATTTTAATG
* *
25758860 TTTTT-AAATGTATTTAATATATTATA
1 TTTTTAAAATGTATTTAATATATAAAA
* *
25758886 TTTTTAAAATTTATTT-TTATATAAAA
1 TTTTTAAAATGTATTTAATATATAAAA
25758912 TTTTTAA
1 TTTTTAA
25758919 TTTGGGCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTTAAAATGTATTTAATATATAAAA
Found at i:25761360 original size:19 final size:19
Alignment explanation
Indices: 25761321--25761360 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25761311 AATTAAATTA
*
25761321 AAATTTTAAATAAATTATT
1 AAATTTTAAATAAAATATT
*
25761340 AAATTTTAAATAAAATGTT
1 AAATTTTAAATAAAATATT
25761359 AA
1 AA
25761361 TATATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATTTTAAATAAAATATT
Found at i:25762949 original size:21 final size:22
Alignment explanation
Indices: 25762903--25762950 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25762893 TTAAACTGTT
* * *
25762903 TAAATAAATTAAAATAGAGATT
1 TAAAAAAATTAAAATACAGATC
25762925 TAAAAAAATTAAAA-ACAGATC
1 TAAAAAAATTAAAATACAGATC
25762946 TAAAA
1 TAAAA
25762951 GACACTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAAAAAATTAAAATACAGATC
Found at i:25765377 original size:20 final size:20
Alignment explanation
Indices: 25765352--25765392 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25765342 CAAGTTCAAT
*
25765352 TCTCAACTTAAGTAAATAAA
1 TCTCAACTTAACTAAATAAA
*
25765372 TCTCAACTTAACTAACTAAA
1 TCTCAACTTAACTAAATAAA
25765392 T
1 T
25765393 TTTCTTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (20 bp):
TCTCAACTTAACTAAATAAA
Found at i:25770667 original size:31 final size:32
Alignment explanation
Indices: 25770615--25770674 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
25770605 CATAATATCT
25770615 CATATAACAATATATTTTACTT-TTAATAACA
1 CATATAACAATATATTTTACTTATTAATAACA
25770646 CATATAAC-ATA-ATTTAATACTTATTAATA
1 CATATAACAATATATTT--TACTTATTAATA
25770675 TTCTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 4 0.15
30 3 0.12
31 13 0.50
32 6 0.23
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (32 bp):
CATATAACAATATATTTTACTTATTAATAACA
Found at i:25773053 original size:43 final size:42
Alignment explanation
Indices: 25772998--25773104 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
25772988 TGCCAACGTT
* *
25772998 CCAGAC-GTGGTCTTACATGTAATCAAATAACGATGCCACTGTC
1 CCAGACAG-GGTCTTACATGTAATCAAAT-ACGATGCCAATATC
* * *
25773041 CCAGACAGGGTCTTACACGAAATCATATACGATGCCAATATC
1 CCAGACAGGGTCTTACATGTAATCAAATACGATGCCAATATC
*
25773083 CCAGACATGGTCTTACATGTAA
1 CCAGACAGGGTCTTACATGTAA
25773105 ATCTTAAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.56
43 23 0.42
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
CCAGACAGGGTCTTACATGTAATCAAATACGATGCCAATATC
Found at i:25776390 original size:67 final size:67
Alignment explanation
Indices: 25776166--25776369 Score: 291
Period size: 67 Copynumber: 3.0 Consensus size: 67
25776156 CTATCTGGCA
* * * * * * *
25776166 CCATAACCCAGCTATGGTCCTACACAATATACCCAATGTTTAATGTTTTGGTGGACTTCACATGT
1 CCATAGCCAAGCTATGGTCTTACATATTATACCCCATATTTAATGTTTTGGTGGACTTCACATGT
25776231 TG
66 TG
* * *
25776233 CCATAGCCAAGCTATGGTCTTACATACTATACACCATATTTAATGTTTTGGTAGACTTCACATGT
1 CCATAGCCAAGCTATGGTCTTACATATTATACCCCATATTTAATGTTTTGGTGGACTTCACATGT
25776298 TG
66 TG
* * *
25776300 TCATAGCCAAGCTATGTTCTTACATATTATACCCCATATTTAATGTTTTCGTGGACTTCACATGT
1 CCATAGCCAAGCTATGGTCTTACATATTATACCCCATATTTAATGTTTTGGTGGACTTCACATGT
25776365 TG
66 TG
25776367 CCA
1 CCA
25776370 AAGTTGAGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 121 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (67 bp):
CCATAGCCAAGCTATGGTCTTACATATTATACCCCATATTTAATGTTTTGGTGGACTTCACATGT
TG
Found at i:25778131 original size:9 final size:9
Alignment explanation
Indices: 25778119--25778148 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25778109 CATCATCACC
25778119 ATCATCATT
1 ATCATCATT
*
25778128 ATCATCATA
1 ATCATCATT
25778137 ATCATCATT
1 ATCATCATT
25778146 ATC
1 ATC
25778149 TTTTTATGTC
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:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (9 bp):
ATCATCATT
Found at i:25778133 original size:18 final size:18
Alignment explanation
Indices: 25778110--25778148 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
25778100 TTTATAAATC
*
25778110 ATCATCACCATCATCATT
1 ATCATCACAATCATCATT
*
25778128 ATCATCATAATCATCATT
1 ATCATCACAATCATCATT
25778146 ATC
1 ATC
25778149 TTTTTATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (18 bp):
ATCATCACAATCATCATT
Found at i:25779393 original size:29 final size:29
Alignment explanation
Indices: 25779339--25779394 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
25779329 AATTTTAAAA
** **
25779339 TATTTTTAAAATACTTTTTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTACTATTTTT
25779368 TATTTTTAAAATAAATTTTTACTATTT
1 TATTTTTAAAATAAATTTTTACTATTT
25779395 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTTTTAAAATAAATTTTTACTATTTTT
Found at i:25785545 original size:13 final size:13
Alignment explanation
Indices: 25785527--25785554 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25785517 AAAATACCAA
25785527 CAGCTGAAATCTC
1 CAGCTGAAATCTC
25785540 CAGCTGAAATCTC
1 CAGCTGAAATCTC
25785553 CA
1 CA
25785555 TTGCTGCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.21
Consensus pattern (13 bp):
CAGCTGAAATCTC
Found at i:25789852 original size:24 final size:23
Alignment explanation
Indices: 25789825--25789871 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
25789815 TTTGTAATTG
25789825 AAATTGATTG-ATTTAGTATGTGAT
1 AAATTGATTGAATTTA-TAT-TGAT
*
25789849 AAATTTATTGAATTTATATTGAT
1 AAATTGATTGAATTTATATTGAT
25789872 TGAATTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
AAATTGATTGAATTTATATTGAT
Found at i:25790128 original size:40 final size:40
Alignment explanation
Indices: 25790007--25790146 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
25789997 GACTTCGAGT
* * * *
25790007 CGATAAGACACTAGGTGTCAAATTATTACTTCGGATATATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAAT-TATC
* * * * *
25790048 CGATGAGGCAATGGGTG-CCAA-T-TTACTTCGATTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
*
25790085 CGATGAGATACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
*
25790125 CGATGAGACACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
25790147 CTGGTTTGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
37 16 0.20
38 12 0.15
39 2 0.03
40 36 0.46
41 13 0.16
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:25793547 original size:17 final size:17
Alignment explanation
Indices: 25793521--25793556 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25793511 AGATAATCAG
*
25793521 TTGGGTTAAGGGCACAA
1 TTGGGCTAAGGGCACAA
25793538 TTGGGCTAAGGGCACAA
1 TTGGGCTAAGGGCACAA
25793555 TT
1 TT
25793557 TCTAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (17 bp):
TTGGGCTAAGGGCACAA
Found at i:25794229 original size:16 final size:16
Alignment explanation
Indices: 25794208--25794244 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
25794198 TTGGTTCGCT
*
25794208 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
25794224 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
25794240 GTAAT
1 GTAAT
25794245 AGTATTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:25794549 original size:120 final size:120
Alignment explanation
Indices: 25794413--25794702 Score: 537
Period size: 120 Copynumber: 2.4 Consensus size: 120
25794403 TTAATCATAT
25794413 TTTAACATAATTATTATTAAATATAATTTAATAAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAACATAATTATTATTAAATATAATTTAAT-AAAAATATATAATTTAATAAAATTCTTAATAT
*
25794478 -AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 CAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
25794533 TTTAACATAATTATTATGAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATC
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATC
25794598 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
25794653 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
25794703 CTAAAGTTTG
Statistics
Matches: 165, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
119 32 0.19
120 133 0.81
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATC
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:25823129 original size:65 final size:65
Alignment explanation
Indices: 25823025--25823221 Score: 385
Period size: 65 Copynumber: 3.0 Consensus size: 65
25823015 ATAAGTACAG
25823025 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
25823090 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
*
25823155 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
25823220 TA
1 TA
25823222 GATTTATGTT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 131 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (65 bp):
TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
Found at i:25832985 original size:49 final size:49
Alignment explanation
Indices: 25832927--25833021 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
25832917 AGCCTCTGCC
25832927 TGAGATTTGCGCACAAAAACAGATATAACCGTACCCTAAACAACATGTT
1 TGAGATTTGCGCACAAAAACAGATATAACCGTACCCTAAACAACATGTT
*
25832976 TGAGATTTGCGCACAAAAACATATATAACCGTACCCTAAACAACAT
1 TGAGATTTGCGCACAAAAACAGATATAACCGTACCCTAAACAACAT
25833022 ATACTCAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (49 bp):
TGAGATTTGCGCACAAAAACAGATATAACCGTACCCTAAACAACATGTT
Found at i:25836083 original size:57 final size:57
Alignment explanation
Indices: 25836011--25836119 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
25836001 GATCCTATCC
25836011 TGATATAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCAGACGGGTGATCT
1 TGATATAGCCCTCCCGAAGAATATGTG-GAAAATAGATCTAGCCCAGACGGGTGATCT
* * *
25836068 TGATATAGCCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGT
25836120 AATCCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGTGATCT
Found at i:25841779 original size:3 final size:3
Alignment explanation
Indices: 25841759--25841850 Score: 60
Period size: 3 Copynumber: 30.3 Consensus size: 3
25841749 TTAGCATCTT
* ** * * *
25841759 TTA TTA TTT TTA ACA TTA TTA TTT TTA ATA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
25841807 TCG TCT- TTA CTA TTA TTA TTA GTA TTGA TTA TTA TTA TCA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T
25841851 ATTTCTGTTT
Statistics
Matches: 65, Mismatches: 21, Indels: 6
0.71 0.23 0.07
Matches are distributed among these distances:
2 1 0.02
3 61 0.94
4 3 0.05
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:25842576 original size:110 final size:109
Alignment explanation
Indices: 25842378--25842793 Score: 609
Period size: 109 Copynumber: 3.8 Consensus size: 109
25842368 AAGGAAAATT
*
25842378 TTTCTAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTG-CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
25842443 TCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
*
25842488 TTTCAAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTTGGGTG
1 TTTCAAAATAAGGCAATGTTTTG-CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* *
25842553 TCGATTTTTCTCGTTCAACCAAATTGCTTAATATCCTTTTAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
* * *
25842598 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
25842663 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
* * ** * ** * * * * *
25842707 TTTCGAAGTAAGATAATATTTTGCGTTTGGAAATTTAAGGAAACGTGCCCTAATGCGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
25842772 CGATTTTTC-CATTTAACCAAAT
66 CGATTTTTCTCATTCAACCAAAT
25842794 AGCCAAATAT
Statistics
Matches: 284, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 12 0.04
109 143 0.50
110 129 0.45
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
Found at i:25845520 original size:65 final size:65
Alignment explanation
Indices: 25845412--25845543 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
25845402 ATAAGTACAG
*
25845412 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
25845477 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
25845542 TA
1 TA
25845544 GATTTATGTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (65 bp):
TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
Found at i:25860609 original size:20 final size:19
Alignment explanation
Indices: 25860580--25860623 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
25860570 TTCAAAATAT
*
25860580 AAAAATTTAACAACTATAA
1 AAAAATTTAAAAACTATAA
* *
25860599 AAAAATATTAAAAATTGTAA
1 AAAAAT-TTAAAAACTATAA
25860619 AAAAA
1 AAAAA
25860624 ACTGGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATTTAAAAACTATAA
Found at i:25872283 original size:53 final size:49
Alignment explanation
Indices: 25872220--25872319 Score: 164
Period size: 53 Copynumber: 2.0 Consensus size: 49
25872210 TTTAAGCTTT
25872220 TCTTTTAGCTCTAAAAAGGAGGAAGAAAGAGAAAAAGAGGGGGGGGGGGGGGG
1 TCTTTTAGCTCTAAAAAGGAGGAAGAAAGAG---AAG-GGGGGGGGGGGGGGG
25872273 TCTTTTAGCTCTAAAAAGGAGGAAGAAAGAGAAGGGGGGGGGGGGGG
1 TCTTTTAGCTCTAAAAAGGAGGAAGAAAGAGAAGGGGGGGGGGGGGG
25872320 CAGGCTATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
49 13 0.28
50 3 0.06
53 31 0.66
ACGTcount: A:0.34, C:0.06, G:0.46, T:0.14
Consensus pattern (49 bp):
TCTTTTAGCTCTAAAAAGGAGGAAGAAAGAGAAGGGGGGGGGGGGGGGG
Found at i:25887295 original size:41 final size:41
Alignment explanation
Indices: 25887238--25887413 Score: 298
Period size: 41 Copynumber: 4.3 Consensus size: 41
25887228 GTTTGAAATT
25887238 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
25887279 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
25887320 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCT
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
25887361 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
25887402 GGTGATCTGAAT
1 GGTGATCTGAAT
25887414 ATGTTAAATT
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 125 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:25889003 original size:17 final size:18
Alignment explanation
Indices: 25888977--25889010 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25888967 TAGCCGCCCA
25888977 GGGCCCAAAA-ATAAAAG
1 GGGCCCAAAAGATAAAAG
*
25888994 GGGCCTAAAAGATAAAA
1 GGGCCCAAAAGATAAAA
25889011 ATATCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.15, G:0.24, T:0.09
Consensus pattern (18 bp):
GGGCCCAAAAGATAAAAG
Found at i:25889062 original size:32 final size:33
Alignment explanation
Indices: 25889003--25889065 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
25888993 GGGGCCTAAA
*
25889003 AGATAAAAATATCTTTAAAATAATATTTATTTT
1 AGATAAAAAGATCTTTAAAATAATATTTATTTT
*
25889036 AGATAAAAAGAT-TCTT-AAATATTATTTATT
1 AGATAAAAAGATCT-TTAAAATAATATTTATT
25889066 GTTTGGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (33 bp):
AGATAAAAAGATCTTTAAAATAATATTTATTTT
Found at i:25890975 original size:19 final size:20
Alignment explanation
Indices: 25890951--25891003 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
25890941 TCTCTCACAA
25890951 CAAAAA-TTAAAATAATTT-T
1 CAAAAATTTAAAAT-ATTTAT
25890970 CAAAAATTTAAAATATTTAT
1 CAAAAATTTAAAATATTTAT
*
25890990 AAAAAATTTAAAAT
1 CAAAAATTTAAAAT
25891004 TTATATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAAATTTAAAATATTTAT
Found at i:25890975 original size:20 final size:19
Alignment explanation
Indices: 25890952--25891018 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
25890942 CTCTCACAAC
25890952 AAAAATTAAAATAATTTTCA
1 AAAAATTAAAATAATTTT-A
*
25890972 AAAATTTAAAAT-ATTTATA
1 AAAAATTAAAATAATTT-TA
25890991 AAAAATTTAAAATTTATATTTTA
1 AAAAA-TTAAAA--TA-ATTTTA
25891014 AAAAA
1 AAAAA
25891019 ATTACCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.23
20 18 0.46
22 1 0.03
23 7 0.18
24 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTAAAATAATTTTA
Found at i:25892566 original size:22 final size:23
Alignment explanation
Indices: 25892540--25892582 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
25892530 AAAAAGTTAT
25892540 AAAATAATTATTTAA-TTATTCG
1 AAAATAATTATTTAAGTTATTCG
**
25892562 AAAATTTTTATTTAAGTTATT
1 AAAATAATTATTTAAGTTATT
25892583 GATTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
AAAATAATTATTTAAGTTATTCG
Found at i:25893691 original size:17 final size:16
Alignment explanation
Indices: 25893669--25893703 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
25893659 ATAATTCCTG
25893669 AAATCATAATTTATTTT
1 AAATCA-AATTTATTTT
*
25893686 AAATCAATTTTATTTT
1 AAATCAAATTTATTTT
25893702 AA
1 AA
25893704 GTGAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATCAAATTTATTTT
Found at i:25923393 original size:55 final size:55
Alignment explanation
Indices: 25923309--25923418 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
25923299 TGGTTTTATT
25923309 GGCAGCACCAAAAAGAAATTATTACATCCATAATCCTAAAACATATTCAACCAAA
1 GGCAGCACCAAAAAGAAATTATTACATCCATAATCCTAAAACATATTCAACCAAA
*
25923364 GGCAGCACTAAAAAGAAATTATTACATCCATAATCCTAAAACATATTCAACCAAA
1 GGCAGCACCAAAAAGAAATTATTACATCCATAATCCTAAAACATATTCAACCAAA
25923419 TTAAATCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (55 bp):
GGCAGCACCAAAAAGAAATTATTACATCCATAATCCTAAAACATATTCAACCAAA
Found at i:25926515 original size:18 final size:18
Alignment explanation
Indices: 25926492--25926528 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25926482 GCTTTGATCG
25926492 TGACCAGAGGAATTTCCA
1 TGACCAGAGGAATTTCCA
25926510 TGACCAGAGGAATTTCCA
1 TGACCAGAGGAATTTCCA
25926528 T
1 T
25926529 ACTGTGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (18 bp):
TGACCAGAGGAATTTCCA
Found at i:25934221 original size:45 final size:45
Alignment explanation
Indices: 25934165--25934305 Score: 273
Period size: 45 Copynumber: 3.1 Consensus size: 45
25934155 TAGATAGTAC
*
25934165 AATACTTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
1 AATAATTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
25934210 AATAATTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
1 AATAATTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
25934255 AATAATTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
1 AATAATTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
25934300 AATAAT
1 AATAAT
25934306 ATATTTGAAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 95 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (45 bp):
AATAATTAACTAAATTTAACACTGATTGATGTTAAGATAACCTAA
Found at i:25940596 original size:11 final size:11
Alignment explanation
Indices: 25940580--25940604 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25940570 AATTTAAAAA
25940580 AATTGAAATTT
1 AATTGAAATTT
25940591 AATTGAAATTT
1 AATTGAAATTT
25940602 AAT
1 AAT
25940605 CATTTTTATA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
AATTGAAATTT
Found at i:25940677 original size:17 final size:18
Alignment explanation
Indices: 25940655--25940693 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
25940645 TTTACCCATA
25940655 ATATTTTAATATTTA-TT
1 ATATTTTAATATTTATTT
25940672 ATATTTTAATATTTATTT
1 ATATTTTAATATTTATTT
25940690 ATAT
1 ATAT
25940694 AAATAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTTAATATTTATTT
Found at i:25942556 original size:40 final size:40
Alignment explanation
Indices: 25942435--25942559 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 40
25942425 GGCTTCGAGT
* * * *
25942435 CGATGAGACACTGAGTGTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATT-ATC
* * * * *
25942476 CGATGAGGCACTGGATGCCAA--T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTATC
* *
25942513 CGATGAGACATTGGGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTATC
25942553 CGATGAG
1 CGATGAG
25942560 GCATTAGGTG
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
37 18 0.28
38 9 0.14
39 2 0.03
40 19 0.29
41 17 0.26
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTATC
Found at i:25944120 original size:11 final size:11
Alignment explanation
Indices: 25944104--25944129 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25944094 TAGAAGAGAC
25944104 GAAACAGGGGA
1 GAAACAGGGGA
25944115 GAAACAGGGGA
1 GAAACAGGGGA
25944126 GAAA
1 GAAA
25944130 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:25944816 original size:9 final size:9
Alignment explanation
Indices: 25944788--25944830 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
25944778 GTAAGTATAA
25944788 TATTAGTAT
1 TATTAGTAT
25944797 TAATT--TAT
1 T-ATTAGTAT
25944805 TATTAGTAT
1 TATTAGTAT
*
25944814 TATTATTAT
1 TATTAGTAT
25944823 TATTAGTA
1 TATTAGTA
25944831 GTGGGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 3 0.10
8 4 0.14
9 19 0.66
10 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (9 bp):
TATTAGTAT
Found at i:25945242 original size:37 final size:39
Alignment explanation
Indices: 25945183--25945278 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
25945173 CGGATAGATT
* * * *
25945183 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
25945220 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
25945259 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
25945279 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:25946694 original size:20 final size:20
Alignment explanation
Indices: 25946648--25946702 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
25946638 CACCAGAGTG
* * *
25946648 CACCGAAGTGCTAACAAAGG
1 CACCAAAGTGCAAACAAAGA
* *
25946668 CATCAAAGTGCAAACAGAGA
1 CACCAAAGTGCAAACAAAGA
*
25946688 CACCAAACTGCAAAC
1 CACCAAAGTGCAAAC
25946703 TCGTACAAGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (20 bp):
CACCAAAGTGCAAACAAAGA
Found at i:25951380 original size:49 final size:49
Alignment explanation
Indices: 25951308--25951442 Score: 227
Period size: 49 Copynumber: 2.8 Consensus size: 49
25951298 CTATTTATAT
*
25951308 GTTGAAAAACCTTATTCTAATCAAAGTCAAATAGAAACAATGTAGTAAG
1 GTTGAAACACCTTATTCTAATCAAAGTCAAATAGAAACAATGTAGTAAG
* *
25951357 GTTGAAACACCTTATTCTAATCAAAGTCAAATGGAAGCAATGTAGTAAG
1 GTTGAAACACCTTATTCTAATCAAAGTCAAATAGAAACAATGTAGTAAG
25951406 GTTGAAACACCTTATTCTAATCAATA-TCAAATAGAAA
1 GTTGAAACACCTTATTCTAATCAA-AGTCAAATAGAAA
25951443 AAGTGTACTT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 79 0.99
50 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (49 bp):
GTTGAAACACCTTATTCTAATCAAAGTCAAATAGAAACAATGTAGTAAG
Found at i:25951625 original size:43 final size:43
Alignment explanation
Indices: 25951573--25951670 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
25951563 TCAGCTTGTA
*
25951573 TGATGATGCACTTCGTGTGCCAGTATATTTACTTCAGTTTATT
1 TGATGATGCACTTCGTGTGCCAGTATATTTACTTCAGTTTATC
* * * * *
25951616 TGATTATGCACTTTGTGTGCCAGTTTATTTGCTTTAGTTTATC
1 TGATGATGCACTTCGTGTGCCAGTATATTTACTTCAGTTTATC
25951659 TGATGATGCACT
1 TGATGATGCACT
25951671 GTGGTGCCAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (43 bp):
TGATGATGCACTTCGTGTGCCAGTATATTTACTTCAGTTTATC
Found at i:25954865 original size:22 final size:23
Alignment explanation
Indices: 25954821--25954879 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
25954811 TGGCCCGGTC
* *
25954821 AATTT-TTTTAATAAATACCAAA
1 AATTTATTTTAAAAAATACAAAA
25954843 AATTTATTTTAAAAAATA-AAAA
1 AATTTATTTTAAAAAATACAAAA
**
25954865 AAAGTATTTTAAAAA
1 AATTTATTTTAAAAA
25954880 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
AATTTATTTTAAAAAATACAAAA
Found at i:25954878 original size:11 final size:11
Alignment explanation
Indices: 25954863--25954928 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
25954853 AAAAAATAAA
25954863 AAAAAGTATTTT
1 AAAAA-TATTTT
25954875 AAAAATATTTT
1 AAAAATATTTT
25954886 --AAA-A--TT
1 AAAAATATTTT
* *
25954892 AAAAATA-ATA
1 AAAAATATTTT
25954902 AAAAAGTATTTT
1 AAAAA-TATTTT
25954914 AAAAATATTTT
1 AAAAATATTTT
25954925 AAAA
1 AAAA
25954929 TTAAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 2 0.04
8 4 0.09
9 4 0.09
10 6 0.13
11 18 0.40
12 11 0.24
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25954895 original size:39 final size:40
Alignment explanation
Indices: 25954851--25954936 Score: 158
Period size: 39 Copynumber: 2.2 Consensus size: 40
25954841 AAAATTTATT
25954851 TTAAAAAATAA-AAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATAATAAAAAAGTATTTTAAAAATATTTTAAAA
25954890 TT-AAAAATAATAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATAATAAAAAAGTATTTTAAAAATATTTTAAAA
25954929 TTAAAAAA
1 TTAAAAAA
25954937 ATTTTCTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
38 8 0.18
39 32 0.71
40 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (40 bp):
TTAAAAAATAATAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:25960039 original size:21 final size:21
Alignment explanation
Indices: 25960014--25960057 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25960004 AATAGTTAGG
25960014 TTATTAGGATTGTTCCAATAA
1 TTATTAGGATTGTTCCAATAA
25960035 TTATTAGGATTGTTCCAATAA
1 TTATTAGGATTGTTCCAATAA
25960056 TT
1 TT
25960058 CATTTGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TTATTAGGATTGTTCCAATAA
Found at i:25966296 original size:21 final size:20
Alignment explanation
Indices: 25966272--25966328 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
25966262 TCGTTTGAAT
*
25966272 TAAATTTAATCTATTTTATTA
1 TAAATTT-ATATATTTTATTA
*
25966293 TAAATTTTTATATTTGTATTA
1 TAAATTTATATATTT-TATTA
*
25966314 T-AATTTATTTATTTT
1 TAAATTTATATATTTT
25966329 TAAATTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 17 0.55
21 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TAAATTTATATATTTTATTA
Found at i:25966326 original size:20 final size:20
Alignment explanation
Indices: 25966265--25966327 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
25966255 TAAAATATCG
* *
25966265 TTTGAATTA-AATTTAATCTA
1 TTTGTATTATAATTT-ATTTA
25966285 TTT-TATTATAAATTT-TTATA
1 TTTGTATTAT-AATTTATT-TA
25966305 TTTGTATTATAATTTATTTA
1 TTTGTATTATAATTTATTTA
25966325 TTT
1 TTT
25966328 TTAAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
19 5 0.14
20 18 0.50
21 13 0.36
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTGTATTATAATTTATTTA
Found at i:25977223 original size:23 final size:24
Alignment explanation
Indices: 25977176--25977221 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25977166 GAAAAATATT
25977176 AAATATATATATATTTTATTTTTA
1 AAATATATATATATTTTATTTTTA
*
25977200 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TATTTTATTTT
25977222 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATATATATATATTTTATTTTTA
Found at i:25987896 original size:40 final size:39
Alignment explanation
Indices: 25987820--25987896 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
25987810 GAATCAGTTT
**
25987820 GGGCCTTAGCCCATTCAGATACAGTCTCAGAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATCAG-AATACATTA
25987860 GGGCCTTAGCCCATATCAGATACAGAATGCAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATACA
25987897 GTAAATCAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 19 0.58
41 11 0.33
42 3 0.09
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTA
Found at i:26002141 original size:40 final size:42
Alignment explanation
Indices: 26002097--26002186 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
26002087 TCCCCTAGGG
*
26002097 CGCGATTTCC-GTCCATGT-TAGT-AAATCGCGCTAACGTGGA
1 CGCGATTTCCTG-CCATGTATACTGAAATCGCGCTAACGTGGA
* * * *
26002137 CGCGATGTCCTGCCATGTATCCTGACATCGCGCTGACGTGGA
1 CGCGATTTCCTGCCATGTATACTGAAATCGCGCTAACGTGGA
26002179 CGCGATTT
1 CGCGATTT
26002187 TGCGGAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 15 0.37
41 3 0.07
42 23 0.56
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (42 bp):
CGCGATTTCCTGCCATGTATACTGAAATCGCGCTAACGTGGA
Found at i:26008165 original size:67 final size:67
Alignment explanation
Indices: 26008057--26008186 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
26008047 AAAATTTTGT
*
26008057 TTAAAATTTCATTTGTCAACATCATTTTGTTTCCTTTTTATCAAGGATTTCAAGAAACTGTAATT
1 TTAAAATTTCATCTGTCAACATCATTTTGTTTCCTTTTTATCAAGGATTTCAAGAAACTGTAATT
26008122 GA
66 GA
26008124 TTAAAATTTCATCTGTCAACATCATTTTGTTTCCTTTTTATCAAGGATTTCAAGAAACTGTAA
1 TTAAAATTTCATCTGTCAACATCATTTTGTTTCCTTTTTATCAAGGATTTCAAGAAACTGTAA
26008187 ATCTGGGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (67 bp):
TTAAAATTTCATCTGTCAACATCATTTTGTTTCCTTTTTATCAAGGATTTCAAGAAACTGTAATT
GA
Found at i:26015635 original size:9 final size:9
Alignment explanation
Indices: 26015617--26015680 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
26015607 GCGTATGTAC
26015617 AAAT-ATAA
1 AAATAATAA
26015625 AAATAATAA
1 AAATAATAA
26015634 AAATAATAA
1 AAATAATAA
** *
26015643 TGATGATAA
1 AAATAATAA
26015652 TAAATAATATA
1 -AAATAATA-A
26015663 ACAATAATAA
1 A-AATAATAA
26015673 TAAATAAT
1 -AAATAAT
26015681 GAGAGAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.09
9 19 0.42
10 13 0.29
11 9 0.20
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (9 bp):
AAATAATAA
Found at i:26015641 original size:3 final size:3
Alignment explanation
Indices: 26015621--26015680 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
26015611 ATGTACAAAT
* * * * *
26015621 ATA AAA ATA ATA AAA ATA ATA ATG ATG ATA ATAA ATA AT- ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
26015666 ATA ATA ATAA ATA AT
1 ATA ATA AT-A ATA AT
26015681 GAGAGAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:26015663 original size:24 final size:21
Alignment explanation
Indices: 26015618--26015680 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
26015608 CGTATGTACA
*
26015618 AATATAAAAATAATAA-AAAT
1 AATATAACAATAATAATAAAT
** *
26015638 -A-ATAATGATGATAATAAAT
1 AATATAACAATAATAATAAAT
26015657 AATATAACAATAATAATAAAT
1 AATATAACAATAATAATAAAT
26015678 AAT
1 AAT
26015681 GAGAGAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 1 0.03
21 18 0.53
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
AATATAACAATAATAATAAAT
Found at i:26015709 original size:15 final size:16
Alignment explanation
Indices: 26015686--26015718 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26015676 ATAATGAGAG
*
26015686 AAAATAAATT-TAAAA
1 AAAACAAATTGTAAAA
26015701 AAAACAAATTGTAAAA
1 AAAACAAATTGTAAAA
26015717 AA
1 AA
26015719 GGGACTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAACAAATTGTAAAA
Found at i:26017290 original size:43 final size:44
Alignment explanation
Indices: 26017233--26017328 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 44
26017223 AGATTTGCTC
* * *
26017233 TCTTTGATCTACTTCATGCCAATACATGAAGA-TAGAACTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAACTACTT
*
26017276 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAACTACTT
26017320 TCTTCGATC
1 TCTTCGATC
26017329 GATTCCACTG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 30 0.62
44 18 0.38
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAACTACTT
Found at i:26017440 original size:88 final size:88
Alignment explanation
Indices: 26017320--26017705 Score: 241
Period size: 88 Copynumber: 4.4 Consensus size: 88
26017310 AGATCTACTT
* * * * * * *
26017320 TCTTCGATCGATTCCACTGCCGACTAGAGAGATAGAAT-TACTGGCTTCAATATACTCCACTGTA
1 TCTTCGATCTACTCCACTACTGCCTAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-
*
26017384 ACCTCAGGGAGGTAAAATCTGCCA
65 ACCTCAGGGAGATAAAATCTGCCA
* * * * *
26017408 TCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAAT--CTTCAATCTATTTCACTG
1 TCTTCGATCTACTCCACTACTGCCTAGGGAGAT-AGA-ATCTACTGGCTTCAATCTACTCCACTG
* * * **
26017471 CTGCC-CAGGGAGATAGAAT-TACTG
64 -TACCTCAGGGAGATAAAATCTGCCA
* * * * * * * *** * *
26017495 GCTTCAATGTACTCCACTA-TAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCAC--
1 TCTTCGATCTACTCCACTACT-GCCT-AGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTG
* * **
26017557 TACTGCTTAGGGAGATAAGATCTGTAA
64 TAC--CTCAGGGAGATAAAATCTGCCA
* * * * * * * *
26017584 TCTTCAATGTATTCCACTGCTACCCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTATA
1 TCTTCGATCTACTCCACTACTGCCTAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-
*
26017648 ACCTCAGGGAGGTAAAATCTGCCA
65 ACCTCAGGGAGATAAAATCTGCCA
26017672 TCTTCGATCTACTCCACTACTGCCTAGGGAGATA
1 TCTTCGATCTACTCCACTACTGCCTAGGGAGATA
26017706 AGACCTGTAA
Statistics
Matches: 218, Mismatches: 64, Indels: 32
0.69 0.20 0.10
Matches are distributed among these distances:
85 2 0.01
86 3 0.01
87 39 0.18
88 125 0.57
89 41 0.19
90 5 0.02
91 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTACTCCACTACTGCCTAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGTA
CCTCAGGGAGATAAAATCTGCCA
Found at i:26017455 original size:44 final size:44
Alignment explanation
Indices: 26017389--26017733 Score: 229
Period size: 44 Copynumber: 7.8 Consensus size: 44
26017379 CTGTAACCTC
* * ** *
26017389 AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * *
26017433 AGGGAGATAAGACCTGTAATCTTCAATCTATTTCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * *
26017477 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTA-TAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTACT-GCCT
* * ** * * *
26017520 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * *
26017565 AGGGAGATAAGATCTGTAATCTTCAATGTATTCCACTGCTACCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * *
26017609 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTA-TAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTACT-GCCT
* * ** *
26017652 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* *
26017697 AGGGAGATAAGACCTGTAATCTTCAATCTATTCCACT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACT
26017734 GTTGCCCATG
Statistics
Matches: 223, Mismatches: 62, Indels: 32
0.70 0.20 0.10
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 41 0.18
44 126 0.57
45 40 0.18
46 4 0.02
47 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
Found at i:26017518 original size:132 final size:132
Alignment explanation
Indices: 26017348--26018356 Score: 1399
Period size: 132 Copynumber: 7.6 Consensus size: 132
26017338 GCCGACTAGA
*
26017348 GAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* * * *
26017413 GATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCTTCAATCTATTTCACTGCTGCCCA
66 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
26017478 GG
131 GG
*
26017480 GAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* * * *
26017545 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGTATTCCACTGCTACCCA
66 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
26017610 GG
131 GG
*
26017612 GAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* *
26017677 GATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCACTGTTGCCCA
66 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
*
26017742 TG
131 GG
** *
26017744 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* * * ** *
26017809 GATCTGA-TCCACT-GT-CAATACAGGAAGGCAAGATCTG-ATATCATCAATCTATTCCACTGTT
66 GATCT-ACTCCACTACTGC--T-TAGGGAGATAAGATCTGTA-ATCTTCAATCTATTCCACTGTT
* *
26017870 ACCCATG
126 GCCCAGG
* * * *
26017877 AAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGTCATCCTT
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT-CTT
* * *
26017942 -GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACTGCTGCCC
65 CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
26018006 AGG
130 AGG
26018009 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* * * *
26018074 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGTATTCCACTGTTACCCA
66 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
26018139 GG
131 GG
** *
26018141 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* * * **
26018206 GATCTGA-TCCACT-GT-CAATACAGGAAGGCAAGATCTG-ATATCTTCAATCTATTCCACTGTT
66 GATCT-ACTCCACTACTGC--T-TAGGGAGATAAGATCTGTA-ATCTTCAATCTATTCCACTGTT
*
26018267 GCCCATG
126 GCCCAGG
* * *
26018274 AAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCCTT
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT-CTT
*
26018339 -GATCTGCTCCACTACTGC
65 CGATCTACTCCACTACTGC
26018357 NNNNNNNNNN
Statistics
Matches: 785, Mismatches: 72, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
130 2 0.00
131 5 0.01
132 552 0.70
133 216 0.28
134 8 0.01
135 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCA
GG
Found at i:26018009 original size:397 final size:397
Alignment explanation
Indices: 26017348--26018356 Score: 1643
Period size: 397 Copynumber: 2.5 Consensus size: 397
26017338 GCCGACTAGA
* ** *
26017348 GAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
* * * ** * * *
26017413 GATCT-ACTCCAC--T-ACTGCCTAGGGAGATAAGACCTG-TAATCTTCAATCTATTTCACTGCT
66 GATCTGA-TCCACTGTCAAT-AC-AGGAAGGCAAGATCTGAT-ATCTTCAATCTATTCCACTGTT
* * * *
26017473 GCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGC
127 GCCCATGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGC
*
26017538 CAT-CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGTATTCCACT
192 CATCCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACT
26017602 GCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATC
256 GCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATC
26017667 TGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCA
321 TGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCA
* *
26017732 CTGTTGCCCATG
386 CTGTTACCCAGG
26017744 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
* *
26017809 GATCTGATCCACTGTCAATACAGGAAGGCAAGATCTGATATCATCAATCTATTCCACTGTTACCC
66 GATCTGATCCACTGTCAATACAGGAAGGCAAGATCTGATATCTTCAATCTATTCCACTGTTGCCC
* *
26017874 ATGAAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGTCATC
131 ATGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATC
* *
26017939 CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACTGCTGC
196 CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAC
*
26018004 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCA
261 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCA
* * * * *
26018069 TCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGTATTCCACTGTT
326 TCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCACTGTT
26018134 ACCCAGG
391 ACCCAGG
26018141 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
26018206 GATCTGATCCACTGTCAATACAGGAAGGCAAGATCTGATATCTTCAATCTATTCCACTGTTGCCC
66 GATCTGATCCACTGTCAATACAGGAAGGCAAGATCTGATATCTTCAATCTATTCCACTGTTGCCC
*
26018271 ATGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATC
131 ATGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATC
26018336 CTTGATCTGCTCCACTACTGC
196 CTTGATCTGCTCCACTACTGC
26018357 NNNNNNNNNN
Statistics
Matches: 571, Mismatches: 36, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
396 71 0.12
397 492 0.86
398 6 0.01
399 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (397 bp):
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
GATCTGATCCACTGTCAATACAGGAAGGCAAGATCTGATATCTTCAATCTATTCCACTGTTGCCC
ATGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATC
CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTAC
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCA
TCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCACTGTT
ACCCAGG
Found at i:26018185 original size:44 final size:45
Alignment explanation
Indices: 26017348--26018187 Score: 169
Period size: 44 Copynumber: 19.1 Consensus size: 45
26017338 GCCGACTAGA
*
26017348 GAGATAGAAT-TACTGGCTTCAATATACTCCACTGTAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * * *** * * * *
26017392 GAGGTAAAATCTGCCATCTTCGATCTACTCCACTACT-GCCT-AGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACT-GTAACCTCAGG
* * * * * * *
26017436 GAGATAAGACCTGTAAT--CTTCAATCTATTTCACTGCT-GCC-CAGG
1 GAGAT-AGA-ATCTACTGGCTTCAATGTACTCCACTG-TAACCTCAGG
*
26017480 GAGATAGAAT-TACTGGCTTCAATGTACTCCACTATAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * * *** * * * *
26017524 GAGGTAAAATCTGCCATCTTCGATCTGCTCCAC--T-ACTGCTTAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAAC--CTCAGG
* *
26017568 GAGATA-AGATCTGTAAT--CTTCAATGTATTCCACTGCT-ACC-CAGG
1 GAGATAGA-ATC--TACTGGCTTCAATGTACTCCACTG-TAACCTCAGG
*
26017612 GAGATAGAAT-TACTGGCTTCAATGTACTCCACTATAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * * *** * * * *
26017656 GAGGTAAAATCTGCCATCTTCGATCTACTCCACTACT-GCCT-AGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACT-GTAACCTCAGG
* * * * * ** *
26017700 GAGATAAGACCTGTAAT--CTTCAATCTATTCCACTGTTGCC-CATG
1 GAGAT-AGA-ATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
26017744 GAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * * *** ** *
26017788 GAGGTAAAATCCACCATCTTTGATCTGA-TCCACTGTCAA--TACAGG
1 GAGATAGAATCTACTGGCTTCAATGT-ACTCCACTGT-AACCT-CAGG
* ** * * * * *
26017833 AAGGCA-AG-ATCTGA-TATCATCAATCTATTCCACTGTTACC-CATG
1 GA-G-ATAGAATCT-ACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * *
26017877 AAGATAGAAT-TACTGGCTTTAATGTACTCCACTGTAACCTTAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * * * * * * *
26017921 GAGGTAAAATCTGTCAT-CCTT-GATCTGCTCCAC--T-ACTGCTTAGG
1 GAGATAGAATCT-AC-TGGCTTCAATGTACTCCACTGTAAC--CTCAGG
* * * * *
26017965 GAGATA-AGATCTGTAAT--CTTCAATCTATTTCACTGCT-GCC-CAGG
1 GAGATAGA-ATC--TACTGGCTTCAATGTACTCCACTG-TAACCTCAGG
26018009 GAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * * *** * * * * *
26018053 GAGGTAAAATCTGCCATCTTCGATCTGCTCTAC--T-ACTGCTTAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAAC--CTCAGG
* * *
26018097 GAGATA-AGATCTGTAAT--CTTCAATGTATTCCACTGTTACC-CAGG
1 GAGATAGA-ATC--TACTGGCTTCAATGTACTCCACTGTAACCTCAGG
26018141 GAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
26018185 GAG
1 GAG
26018188 GTAAAATCCA
Statistics
Matches: 567, Mismatches: 152, Indels: 154
0.65 0.17 0.18
Matches are distributed among these distances:
41 15 0.03
42 13 0.02
43 131 0.23
44 251 0.44
45 129 0.23
46 20 0.04
47 8 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
GAGATAGAATCTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
Found at i:26018839 original size:44 final size:44
Alignment explanation
Indices: 26018757--26019363 Score: 241
Period size: 44 Copynumber: 13.8 Consensus size: 44
26018747 CCACTGTAAC
* *** ** * *
26018757 CTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTA
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * *
26018801 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * * *
26018845 C-CGAGGGAGATAGAATTACTG---GCTTCAATGTACTCTACTA-TAAC
1 CTC-AGGGAGATA-AAAT-CTGTAATCTTCAATCTACTCCACTACT--G
* * ** *
26018889 CTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTG
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * *
26018933 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * * *
26018977 CCCAGGGAGATAAAATTACTG---GCTTTAATGTACTCTACTGTAAC--
1 CTCAGGGAGATAAAA-T-CTGTAATCTTCAATCTACTCCAC--T-ACTG
* *** ** *
26019021 CTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTG
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * *
26019065 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * * *
26019109 CCCAGGGAGATAGAATTACTG---GCTTTAATGTACTCCACTGTAAC--
1 CTCAGGGAGATA-AAAT-CTGTAATCTTCAATCTACTCCAC--T-ACTG
* * * *
26019153 CTCAGGGAGGTAAAATCCG-ACATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAAATCTGTA-ATCTTCAATCTACTCCACTACTG
* * * *
26019197 CTTAGGGAGATAAAATCTGTAATCTGCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* * * * *
26019241 CCCAAGGAGATAGAATTACTG---GCTTCAATGTACTCCACTGTAAC--
1 CTCAGGGAGATA-AAAT-CTGTAATCTTCAATCTACTCCAC--T-ACTG
* * * ** * *
26019285 CTCAGGGAGGTAAAACCCGCCATCTTCGATCTACTCCACTACTA
1 CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
* *
26019329 C-CTAGGGAGATAAGATCTGTAATATTCAATCTACT
1 CTC-AGGGAGATAAAATCTGTAATCTTCAATCTACT
26019364 TCACGCTAAT
Statistics
Matches: 403, Mismatches: 118, Indels: 84
0.67 0.20 0.14
Matches are distributed among these distances:
42 15 0.04
43 65 0.16
44 241 0.60
45 66 0.16
46 16 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CTCAGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTG
Found at i:26018937 original size:132 final size:132
Alignment explanation
Indices: 26018695--26019361 Score: 1118
Period size: 132 Copynumber: 5.1 Consensus size: 132
26018685 NNNNNNNNNN
26018695 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
1 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
** * *
26018760 AGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
26018825 TT
131 TT
* * *
26018827 CAATCTATTCCACTGCTGCCGAGGGAGATAGAATTACTGGCTTCAATGTACTCTACTATAACCTC
1 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
*
26018892 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
26018957 TT
131 TT
* * *
26018959 CAATCTATTCCACTGCTGCCCAGGGAGATAAAATTACTGGCTTTAATGTACTCTACTGTAACCTC
1 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
** *
26019024 AGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
26019089 TT
131 TT
*
26019091 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTC
1 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
* *
26019156 AGGGAGGTAAAATCCGACATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGTAATC
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
*
26019221 TG
131 TT
*
26019223 CAATCTATTCCACTGCTGCCCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
1 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
* * * * *
26019288 AGGGAGGTAAAACCCGCCATCTTCGATCTACTCCACTACTACCTAGGGAGATAAGATCTGTAATA
66 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
26019353 TT
131 TT
26019355 CAATCTA
1 CAATCTA
26019362 CTTCACGCTA
Statistics
Matches: 501, Mismatches: 34, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 501 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
TT
Found at i:26021192 original size:56 final size:59
Alignment explanation
Indices: 26021106--26021221 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 59
26021096 AGCTCAGCCA
* *
26021106 AAACTTGAAGAGAAAGAATTTCAACTTCAAT-G-AAAAAAA-CGTGATAAACTGGAAAG
1 AAACTCGAAGAGAAAGAATTTCAACTTCAATGGAAAAAAAATCGTGATAAACTGAAAAG
*
26021162 AAACTCGAAGAGAATGAATTTCAACTTCAATGGAAAAAAAATCGTGATAAACTGAAAAG
1 AAACTCGAAGAGAAAGAATTTCAACTTCAATGGAAAAAAAATCGTGATAAACTGAAAAG
26021221 A
1 A
26021222 GTGGCATTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
56 29 0.54
57 1 0.02
58 7 0.13
59 17 0.31
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (59 bp):
AAACTCGAAGAGAAAGAATTTCAACTTCAATGGAAAAAAAATCGTGATAAACTGAAAAG
Found at i:26021702 original size:21 final size:21
Alignment explanation
Indices: 26021676--26021715 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26021666 GGTTTGGCAG
26021676 AAAAAATCCAAAAGAATGAGA
1 AAAAAATCCAAAAGAATGAGA
**
26021697 AAAAAATCGTAAAGAATGA
1 AAAAAATCCAAAAGAATGA
26021716 AACAACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.07, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAAAATCCAAAAGAATGAGA
Found at i:26023628 original size:19 final size:20
Alignment explanation
Indices: 26023604--26023643 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
26023594 AACTGTGTTT
* *
26023604 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
26023623 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
26023643 A
1 A
26023644 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Done.