Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 122 of 770
Found at i:35550649 original size:5 final size:6
Alignment explanation
Indices: 35550636--35550682 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
35550626 ATAATTTAAT
35550636 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
35550683 ACATATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 33 0.85
8 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:35550683 original size:20 final size:20
Alignment explanation
Indices: 35550636--35550676 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
35550626 ATAATTTAAT
**
35550636 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
35550656 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
35550676 A
1 A
35550677 TAAAAAACAT
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:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:35550718 original size:9 final size:9
Alignment explanation
Indices: 35550704--35550761 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
35550694 TATACAAATG
35550704 ATTCGGATA
1 ATTCGGATA
*
35550713 ATTCGGTTA
1 ATTCGGATA
* *
35550722 ATTTGGGTA
1 ATTCGGATA
*
35550731 ATTCGGGTA
1 ATTCGGATA
35550740 ATTC-GATTA
1 ATTCGGA-TA
*
35550749 ATTCGGTTA
1 ATTCGGATA
35550758 ATTC
1 ATTC
35550762 AATTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 1 0.02
9 39 0.95
10 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
ATTCGGATA
Found at i:35550734 original size:18 final size:18
Alignment explanation
Indices: 35550711--35550761 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
35550701 ATGATTCGGA
* *
35550711 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTCGAG
* *
35550729 TAATTCGGGTAATTCGAT
1 TAATTCGGTTAATTCGAG
35550747 TAATTCGGTTAATTC
1 TAATTCGGTTAATTC
35550762 AATTAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAG
Found at i:35550742 original size:27 final size:27
Alignment explanation
Indices: 35550704--35550761 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
35550694 TATACAAATG
* *
35550704 ATTCGGATAATTCGGTTAATTTGGGTA
1 ATTCGGATAATTCGATTAATTCGGGTA
* *
35550731 ATTCGGGTAATTCGATTAATTCGGTTA
1 ATTCGGATAATTCGATTAATTCGGGTA
35550758 ATTC
1 ATTC
35550762 AATTAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (27 bp):
ATTCGGATAATTCGATTAATTCGGGTA
Found at i:35550766 original size:18 final size:18
Alignment explanation
Indices: 35550729--35550769 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
35550719 TTAATTTGGG
*
35550729 TAATTCGGGTAATTCGAT
1 TAATTCGGGTAATTCAAT
*
35550747 TAATTCGGTTAATTCAAT
1 TAATTCGGGTAATTCAAT
35550765 TAATT
1 TAATT
35550770 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
TAATTCGGGTAATTCAAT
Found at i:35550768 original size:27 final size:27
Alignment explanation
Indices: 35550711--35550769 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
35550701 ATGATTCGGA
* * **
35550711 TAATTCGGTTAATTTGGGTAATTCGGG
1 TAATTCGATTAATTCGGGTAATTCAAG
* *
35550738 TAATTCGATTAATTCGGTTAATTCAAT
1 TAATTCGATTAATTCGGGTAATTCAAG
35550765 TAATT
1 TAATT
35550770 TTATACTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (27 bp):
TAATTCGATTAATTCGGGTAATTCAAG
Found at i:35551874 original size:20 final size:20
Alignment explanation
Indices: 35551849--35551894 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
35551839 AATAGTTGAG
35551849 ATCAAGCATTGCCCAGAATT
1 ATCAAGCATTGCCCAGAATT
35551869 ATCAAGCATTGCCCAGAATT
1 ATCAAGCATTGCCCAGAATT
35551889 ATCAAG
1 ATCAAG
35551895 TCTGCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (20 bp):
ATCAAGCATTGCCCAGAATT
Found at i:35553319 original size:13 final size:13
Alignment explanation
Indices: 35553301--35553344 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
35553291 TTTGGCAATA
35553301 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
35553314 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
**
35553327 -TTGTGGAAAAGTG
1 CTT-TTAAAAAGTG
35553340 CTTTT
1 CTTTT
35553345 GAGGAATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:35555481 original size:72 final size:72
Alignment explanation
Indices: 35555420--35555629 Score: 314
Period size: 72 Copynumber: 2.9 Consensus size: 72
35555410 CTAATTTAGT
* * *
35555420 ATAAATAAGTAGGACATAAATTCAATATCCCAAAGACCAAACATAAACAACTATTAATAAAAGTA
1 ATAAATAAGTAGAACATAAATTCAATAT-CCAAAAACCAAACATAAACAACTATTAATAAAACTA
35555485 GATTACAC
65 GATTACAC
* * *
35555493 ATAAATAAGTAGAACATAAATTCAATATTCAAAAACCAAACATAAACAACCATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
35555558 ATTACAC
66 ATTACAC
* * *
35555565 ATAAATAAGTAGAACATAAGTTCAATATCCAAAAACCAAACATAAATAATTA-TAGATAAAACTA
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTA-ATAAAACTA
35555629 G
65 G
35555630 TTTAGCATTT
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
71 1 0.01
72 96 0.77
73 27 0.22
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.22
Consensus pattern (72 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
ATTACAC
Found at i:35556078 original size:18 final size:18
Alignment explanation
Indices: 35556057--35556122 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
35556047 TCCATCAATT
35556057 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
35556075 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
35556093 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
35556111 TGAACATCATTT
1 TGAACATCATTT
35556123 CTCACATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:35559937 original size:20 final size:21
Alignment explanation
Indices: 35559914--35559966 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
35559904 TATTAAGATG
*
35559914 AAAATATTGAGATTTAGAATAA
1 AAAATATTGAAATTTAGAAT-A
35559936 AAAATTATTGAAATTTAGAAT-
1 AAAA-TATTGAAATTTAGAATA
35559957 AAAATATTGA
1 AAAATATTGA
35559967 TTTGATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 4 0.14
23 15 0.52
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (21 bp):
AAAATATTGAAATTTAGAATA
Found at i:35559939 original size:22 final size:23
Alignment explanation
Indices: 35559914--35559960 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
35559904 TATTAAGATG
*
35559914 AAAA-TATTGAGATTTAGAATAA
1 AAAATTATTGAAATTTAGAATAA
35559936 AAAATTATTGAAATTTAGAATAA
1 AAAATTATTGAAATTTAGAATAA
35559959 AA
1 AA
35559961 TATTGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (23 bp):
AAAATTATTGAAATTTAGAATAA
Found at i:35565530 original size:24 final size:24
Alignment explanation
Indices: 35565503--35565555 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
35565493 ATATGGAAAG
*
35565503 AAATAACAAAAAAATTTTACTAAT
1 AAATAACAAAAAAATTATACTAAT
* * * *
35565527 AAATATCAAATATATTATGCTAAT
1 AAATAACAAAAAAATTATACTAAT
35565551 AAATA
1 AAATA
35565556 CTAAATCTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAACAAAAAAATTATACTAAT
Found at i:35566508 original size:16 final size:16
Alignment explanation
Indices: 35566487--35566518 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35566477 ATTGATTGAA
35566487 ACTAAAATTAACTAAT
1 ACTAAAATTAACTAAT
35566503 ACTAAAATTAACTAAT
1 ACTAAAATTAACTAAT
35566519 TTAATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
ACTAAAATTAACTAAT
Found at i:35567767 original size:17 final size:18
Alignment explanation
Indices: 35567733--35567767 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35567723 CGATTAAGTC
*
35567733 AGATTTTTTAGCTGAAAA
1 AGATTTTTGAGCTGAAAA
35567751 AGATTTTTGAGCT-AAAA
1 AGATTTTTGAGCTGAAAA
35567768 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
AGATTTTTGAGCTGAAAA
Found at i:35570319 original size:11 final size:12
Alignment explanation
Indices: 35570301--35570357 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
35570291 AGCAAAGAAA
35570301 AAAT-AAAAT-G
1 AAATAAAAATAG
*
35570311 AAATAAAAATAA
1 AAATAAAAATAG
35570323 AAATAAAAAGTAG
1 AAATAAAAA-TAG
*
35570336 AAA-AAAAACAG
1 AAATAAAAATAG
35570347 AAATAAAAATA
1 AAATAAAAATA
35570358 TATAGTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 4 0.10
11 10 0.26
12 20 0.51
13 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (12 bp):
AAATAAAAATAG
Found at i:35570320 original size:6 final size:6
Alignment explanation
Indices: 35570299--35570357 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
35570289 AAAGCAAAGA
* * *
35570299 AAAAAT -AAAAT -GAAAT AAAAAT AAAAAT AAAAAGT AGAAA- AAAAAC
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT
*
35570345 AGAAAT AAAAAT A
1 AAAAAT AAAAAT A
35570358 TATAGTTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
5 13 0.30
6 25 0.58
7 5 0.12
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:35572720 original size:2 final size:2
Alignment explanation
Indices: 35572713--35572752 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
35572703 ATAAGCATTC
* *
35572713 AT AT AT AT AT TT AT AT AT AT AT AT AT AC AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35572753 CATAAGTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35574146 original size:56 final size:56
Alignment explanation
Indices: 35574086--35574209 Score: 203
Period size: 56 Copynumber: 2.2 Consensus size: 56
35574076 TATTACTTGC
* * *
35574086 ACACATATATTGGAATCACATATCGATGCCAACATATTAAACGTGGTCATACTCGT
1 ACACATATATCGGAATCACACATCGATCCCAACATATTAAACGTGGTCATACTCGT
* *
35574142 ACACATATATCGGAATCACACATCGATCCCAACGTATTAAACGTGGTCTTACTCGT
1 ACACATATATCGGAATCACACATCGATCCCAACATATTAAACGTGGTCATACTCGT
35574198 ACACATATATCG
1 ACACATATATCG
35574210 ATGCCATGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
ACACATATATCGGAATCACACATCGATCCCAACATATTAAACGTGGTCATACTCGT
Found at i:35580965 original size:56 final size:57
Alignment explanation
Indices: 35580905--35581032 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 57
35580895 GATAGGGTAT
* *
35580905 TACTCGCACACATATAAT-GGAATCACATATCGATGCCAACATATTAAATGTGGTCA
1 TACTCGCACACATATAATCAGAATCACATATCGATCCCAACATATTAAATGTGGTCA
* ** *
35580961 TACTCACACACATAT-ATCAGAATCACATATCGATCCCAATGTATTAAATGTGGTCT
1 TACTCGCACACATATAATCAGAATCACATATCGATCCCAACATATTAAATGTGGTCA
*
35581017 TACTCGAACACATATA
1 TACTCGCACACATATA
35581033 TCGATGCCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
55 2 0.03
56 60 0.97
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (57 bp):
TACTCGCACACATATAATCAGAATCACATATCGATCCCAACATATTAAATGTGGTCA
Found at i:35583224 original size:13 final size:14
Alignment explanation
Indices: 35583206--35583234 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35583196 CCTTCATTCC
35583206 TCTTTCTTTT-TTT
1 TCTTTCTTTTCTTT
35583219 TCTTTCTTTTCTTT
1 TCTTTCTTTTCTTT
35583233 TC
1 TC
35583235 GTTTTCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTCTTTTCTTT
Found at i:35586951 original size:13 final size:12
Alignment explanation
Indices: 35586901--35586956 Score: 67
Period size: 13 Copynumber: 4.5 Consensus size: 12
35586891 TCCAATACAT
*
35586901 TATTTTATCATA
1 TATTTTATTATA
35586913 TATTTTATCTATA
1 TATTTTAT-TATA
* *
35586926 AATTATATTATA
1 TATTTTATTATA
35586938 TATTTTATTTATA
1 TATTTTA-TTATA
35586951 TATTTT
1 TATTTT
35586957 TATAAAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 17 0.46
13 20 0.54
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:35586965 original size:36 final size:37
Alignment explanation
Indices: 35586901--35586971 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
35586891 TCCAATACAT
*
35586901 TATTTTATCATATATTTTATCTATAAATTATATTATA
1 TATTTTATCATATATTTTATATATAAATTATATTATA
* *
35586938 TATTTTATTTATATATTTT-TATA-AAATTGTATTA
1 TATTTTA-TCATATATTTTATATATAAATTATATTA
35586972 CTATTTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 10 0.33
37 10 0.33
38 10 0.33
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (37 bp):
TATTTTATCATATATTTTATATATAAATTATATTATA
Found at i:35587299 original size:21 final size:21
Alignment explanation
Indices: 35587275--35587315 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35587265 TTTCTTATAT
35587275 TTTTATAAATTATTTATTTTG
1 TTTTATAAATTATTTATTTTG
* *
35587296 TTTTTTATATTATTTATTTT
1 TTTTATAAATTATTTATTTT
35587316 ACTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATAAATTATTTATTTTG
Found at i:35587366 original size:21 final size:22
Alignment explanation
Indices: 35587340--35587400 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
35587330 GCAAATTACT
35587340 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
35587361 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
35587383 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
35587401 AATAACTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:35589095 original size:91 final size:91
Alignment explanation
Indices: 35588940--35589122 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
35588930 TAGAGATATA
* *
35588940 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGCTATTGACTATTTC
1 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
35589005 TCTTCTTTTGTTTACATGTCATTTTG
66 TCTTCTTTTGTTTACATGTCATTTTG
35589031 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
1 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
*
35589096 TCTTCTTTTGTTTGCATGTCATTTTG
66 TCTTCTTTTGTTTACATGTCATTTTG
35589122 C
1 C
35589123 ATTTGCAAAG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.50
Consensus pattern (91 bp):
CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
TCTTCTTTTGTTTACATGTCATTTTG
Found at i:35600599 original size:21 final size:21
Alignment explanation
Indices: 35600575--35600614 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35600565 GTTTTTATGT
*
35600575 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
35600596 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
35600615 GAATTAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:35602292 original size:24 final size:24
Alignment explanation
Indices: 35602265--35602332 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
35602255 ATTATTATTG
*
35602265 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
35602289 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
35602313 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
35602333 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:35602552 original size:15 final size:15
Alignment explanation
Indices: 35602508--35602563 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
35602498 AACGACATGT
35602508 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
35602524 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
35602537 ATATTATTTAATTAA
1 ATATTATTTAATTAA
35602552 ATATTATTTAAT
1 ATATTATTTAAT
35602564 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:35602680 original size:9 final size:9
Alignment explanation
Indices: 35602668--35602884 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
35602658 TATTTGATAT
*
35602668 CATAATTTA
1 CATAACTTA
35602677 CATAACTTA
1 CATAACTTA
* *
35602686 TATAACATA
1 CATAACTTA
*
35602695 TATAACTTA
1 CATAACTTA
35602704 CATAACTTA
1 CATAACTTA
* *
35602713 TATAACATA
1 CATAACTTA
35602722 CATAACTTA
1 CATAACTTA
*
35602731 TATAACTTA
1 CATAACTTA
*
35602740 TATAACTTA
1 CATAACTTA
* *
35602749 GATAA-ATA
1 CATAACTTA
*
35602757 TATAACTTA
1 CATAACTTA
35602766 CATAACTTA
1 CATAACTTA
35602775 CATAATACTTA
1 CAT-A-ACTTA
* *
35602786 AATATATTTTATA
1 CATA-A--CT-TA
*
35602799 TCATAATTTA
1 -CATAACTTA
35602809 CATAACTTA
1 CATAACTTA
35602818 CATAACTTA
1 CATAACTTA
* *
35602827 GATAA-ATA
1 CATAACTTA
* *
35602835 TATAATTTA
1 CATAACTTA
*
35602844 CATAA-ATA
1 CATAACTTA
* * *
35602852 TATATCATA
1 CATAACTTA
*
35602861 TCATAAATTA
1 -CATAACTTA
35602871 CATAACTTA
1 CATAACTTA
35602880 CATAA
1 CATAA
35602885 TACTTAAATA
Statistics
Matches: 166, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 122 0.73
10 11 0.07
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:35602699 original size:27 final size:27
Alignment explanation
Indices: 35602664--35602884 Score: 153
Period size: 27 Copynumber: 8.0 Consensus size: 27
35602654 AATATATTTG
*
35602664 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACTTATATAAC
35602692 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACTTATATAAC
* *
35602719 ATACATAACTTATATAACTTATATAAC
1 ATATATAACTTACATAACTTATATAAC
* * * * *
35602746 TTAGATAA-ATATATAACTTACATAAC
1 ATATATAACTTACATAACTTATATAAC
* * * *
35602772 TTACATAATACTTAAATATATTTTATATCATA-
1 ATATAT-A-ACTTACATA-A-CTTATAT-A-AC
* *
35602804 ATTTACATAACTTACATAACTTAGATAA-
1 A--TATATAACTTACATAACTTATATAAC
* * *
35602832 ATATATAATTTACATAA-ATATATATC
1 ATATATAACTTACATAACTTATATAAC
* *
35602858 ATATCATAAATTACATAACTTACATAA
1 ATAT-ATAACTTACATAACTTATATAA
35602885 TACTTAAATA
Statistics
Matches: 156, Mismatches: 25, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.03
26 39 0.25
27 66 0.42
28 12 0.08
29 6 0.04
30 6 0.04
31 6 0.04
32 9 0.06
33 2 0.01
34 5 0.03
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATAACTTACATAACTTATATAAC
Found at i:35602823 original size:105 final size:105
Alignment explanation
Indices: 35602684--35602908 Score: 285
Period size: 105 Copynumber: 2.2 Consensus size: 105
35602674 TTACATAACT
* * * * *
35602684 TATATAACATAT-ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTT
1 TATATATCATATCATAACTTACATAACTTACATAACATACATAA-ATATATAACTTACATAA-AT
*
35602748 AGATA-AATAT-ATAACTTACATAACTTACATAATACTTAAA
64 AGATATAATATCATAAATTACATAACTTACATAATACTTAAA
* * * * * * *
35602788 TATATTTTATATCATAATTTACATAACTTACATAACTTAGATAAATATATAATTTACATAAATAT
1 TATATATCATATCATAACTTACATAACTTACATAACATACATAAATATATAACTTACATAAATAG
*
35602853 ATATCATATCATAAATTACATAACTTACATAATACTTAAA
66 ATATAATATCATAAATTACATAACTTACATAATACTTAAA
35602893 TATATATCATATCATA
1 TATATATCATATCATA
35602909 CATAACTAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
103 5 0.05
104 27 0.26
105 70 0.69
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (105 bp):
TATATATCATATCATAACTTACATAACTTACATAACATACATAAATATATAACTTACATAAATAG
ATATAATATCATAAATTACATAACTTACATAATACTTAAA
Found at i:35602848 original size:17 final size:17
Alignment explanation
Indices: 35602796--35602855 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
35602786 AATATATTTT
35602796 ATATCATAATTTACATAA
1 ATAT-ATAATTTACATAA
* * * *
35602814 CTTACATAACTTAGATAA
1 -ATATATAATTTACATAA
35602832 ATATATAATTTACATAA
1 ATATATAATTTACATAA
35602849 ATATATA
1 ATATATA
35602856 TCATATCATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
17 20 0.61
18 11 0.33
19 2 0.06
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATATAATTTACATAA
Found at i:35602945 original size:105 final size:102
Alignment explanation
Indices: 35602754--35602958 Score: 234
Period size: 105 Copynumber: 2.0 Consensus size: 102
35602744 ACTTAGATAA
* * * *
35602754 ATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTAC
1 ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
* * *
35602819 ATAACTTAGATAAATATATAATTTACATAAATATATATC
66 AAAACTTACATAAATACATAA--TACATAAATATATATC
**
35602858 ATATCATAAATTACATAACTTACATAATACTTAAATATATATCATATCATACA-TAAC-TAGTTT
1 ATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATATCATA-ATTAACATAACTT
* * * *
35602921 ACAAAATTTACTTAACTTACATAATACATAAATCTATA
64 ACAAAACTTACATAA-ATACATAATACATAAATATATA
35602959 GTCGAAAATC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
103 13 0.15
104 19 0.22
105 52 0.61
106 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (102 bp):
ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
AAAACTTACATAAATACATAATACATAAATATATATC
Found at i:35608556 original size:21 final size:21
Alignment explanation
Indices: 35608523--35608573 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
35608513 ACAACTTAGA
*
35608523 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
35608544 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
35608565 GCAGAGGCA
1 GCAGAGGCA
35608574 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:35608862 original size:31 final size:31
Alignment explanation
Indices: 35608827--35608893 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
35608817 CGGTTGTATT
* *
35608827 TTTTATGTTAAATTTGTTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGTTGTATTTGGCTGCA
* * *
35608858 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGTTGTATTTGGCTGCA
35608889 TTTTA
1 TTTTA
35608894 ATGCAGGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.61
Consensus pattern (31 bp):
TTTTATATTAAATTTGTTGTATTTGGCTGCA
Found at i:35609015 original size:43 final size:43
Alignment explanation
Indices: 35608968--35609188 Score: 379
Period size: 43 Copynumber: 5.1 Consensus size: 43
35608958 GTGGTAGAAG
* *
35608968 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
35609011 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
35609054 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCTACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
35609097 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
35609140 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG--CTTTTCCCACAAA
35609185 CGCC
1 CGCC
35609189 ACAAATTTTT
Statistics
Matches: 170, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
43 155 0.91
45 15 0.09
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:35610060 original size:2 final size:2
Alignment explanation
Indices: 35610053--35610093 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
35610043 ATAAGGGAAC
35610053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35610094 TGTTACAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35611474 original size:12 final size:12
Alignment explanation
Indices: 35611453--35611489 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
35611443 AAAGAAATAA
*
35611453 AAGAGGAGAAAG
1 AAGAGAAGAAAG
35611465 AAGAGAAGAAAG
1 AAGAGAAGAAAG
*
35611477 AAGAGAAAAAAG
1 AAGAGAAGAAAG
35611489 A
1 A
35611490 TGATGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAGAGAAGAAAG
Found at i:35615665 original size:13 final size:13
Alignment explanation
Indices: 35615647--35615671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35615637 AGAGCATGGG
35615647 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
35615660 TTTTTTTCTTTT
1 TTTTTTTCTTTT
35615672 TTTAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:35617630 original size:2 final size:2
Alignment explanation
Indices: 35617623--35617668 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
35617613 TTGAAACACA
35617623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35617664 AT AT A
1 AT AT A
35617669 GATAGGATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35619689 original size:2 final size:2
Alignment explanation
Indices: 35619682--35619706 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35619672 ATTCTTTGTT
35619682 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35619707 GTAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35620657 original size:2 final size:2
Alignment explanation
Indices: 35620644--35620676 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35620634 TTCCTCGTTA
*
35620644 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
35620677 GGCATAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:35624346 original size:27 final size:30
Alignment explanation
Indices: 35624302--35624376 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
35624292 TTTATCTCGA
* *
35624302 GTTACATTTTAATTACTT-GTT-T-AAATT
1 GTTACATTTTAGTCACTTAGTTATCAAATT
*
35624329 GTTACATTTTAGTCACTTACGTTATCACATT
1 GTTACATTTTAGTCACTTA-GTTATCAAATT
*
35624360 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
35624377 GAGTCTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 16 0.40
29 3 0.08
30 1 0.03
31 20 0.50
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (30 bp):
GTTACATTTTAGTCACTTAGTTATCAAATT
Found at i:35628533 original size:16 final size:16
Alignment explanation
Indices: 35628512--35628544 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35628502 CCCAAACTTT
*
35628512 ATAATTAAATTAAAAA
1 ATAATTAAAATAAAAA
35628528 ATAATTAAAATAAAAA
1 ATAATTAAAATAAAAA
35628544 A
1 A
35628545 ATTTGTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAATTAAAATAAAAA
Found at i:35628543 original size:17 final size:16
Alignment explanation
Indices: 35628512--35628546 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
35628502 CCCAAACTTT
*
35628512 ATAATTAAATTAAAAA
1 ATAATTAAATAAAAAA
35628528 ATAATTAAAATAAAAAA
1 ATAATT-AAATAAAAAA
35628545 AT
1 AT
35628547 TTGTGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAATTAAATAAAAAA
Found at i:35628648 original size:24 final size:26
Alignment explanation
Indices: 35628598--35628651 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
35628588 CTTCAAACAT
35628598 AAATCGTATTATACACATATAAAAAA
1 AAATCGTATTATACACATATAAAAAA
35628624 AAATCGTATTATACA-A-ATAAAAAA
1 AAATCGTATTATACACATATAAAAAA
35628648 AAAT
1 AAAT
35628652 TCAAGCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 12 0.43
25 1 0.04
26 15 0.54
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (26 bp):
AAATCGTATTATACACATATAAAAAA
Found at i:35629623 original size:3 final size:3
Alignment explanation
Indices: 35629617--35629647 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
35629607 TTTACAACAA
35629617 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC C
35629648 TTCTTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:35643513 original size:82 final size:81
Alignment explanation
Indices: 35643357--35643519 Score: 254
Period size: 82 Copynumber: 2.0 Consensus size: 81
35643347 AAAAATGTAT
* * * * *
35643357 AATATTTTTAGTGAATTATAAGAATAATTATCATGACTCAAATTTAAATCATTTGAAACGATGAA
1 AATATTTTTAGTGAATTATAAAAATAAATAGCATGACTCAAATTTAAAACATTTGAAACGACGAA
*
35643422 CACTTTTTATCATCAG
66 CACTCTTTATCATCAG
35643438 AATATTTTTAGTGAATTATAAAAATAAATAGCATGACCTCAAATTTAAAACATTTGAAACGACGA
1 AATATTTTTAGTGAATTATAAAAATAAATAGCATGA-CTCAAATTTAAAACATTTGAAACGACGA
*
35643503 ACACTCTTTATCGTCAG
65 ACACTCTTTATCATCAG
35643520 GTTAACACAA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 33 0.45
82 41 0.55
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (81 bp):
AATATTTTTAGTGAATTATAAAAATAAATAGCATGACTCAAATTTAAAACATTTGAAACGACGAA
CACTCTTTATCATCAG
Found at i:35650334 original size:32 final size:32
Alignment explanation
Indices: 35650293--35650357 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
35650283 CACTATATAT
*
35650293 ATTTTTAATTT-TATGAATGTTTT-TATTTTTTA
1 ATTTTTAATTTCTA--AATATTTTATATTTTTTA
35650325 ATTTTTAATTTCTAAATATTTTATATTTTTTA
1 ATTTTTAATTTCTAAATATTTTATATTTTTTA
35650357 A
1 A
35650358 ATTACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 21 0.70
33 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (32 bp):
ATTTTTAATTTCTAAATATTTTATATTTTTTA
Found at i:35650599 original size:21 final size:21
Alignment explanation
Indices: 35650573--35650615 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35650563 AAAAAATCAG
35650573 ATTTGTCATTTAAACCAATTA
1 ATTTGTCATTTAAACCAATTA
35650594 ATTTGTCATTTAAACCAATTA
1 ATTTGTCATTTAAACCAATTA
35650615 A
1 A
35650616 CTTGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTTGTCATTTAAACCAATTA
Found at i:35651238 original size:16 final size:16
Alignment explanation
Indices: 35651217--35651248 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35651207 CGGTAAAACA
35651217 GAAGGACCAATATTTT
1 GAAGGACCAATATTTT
35651233 GAAGGACCAATATTTT
1 GAAGGACCAATATTTT
35651249 CAAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
GAAGGACCAATATTTT
Found at i:35656492 original size:197 final size:197
Alignment explanation
Indices: 35656151--35656543 Score: 752
Period size: 197 Copynumber: 2.0 Consensus size: 197
35656141 GCAGGACACT
*
35656151 AAAGAACAACATGTGGATTTAGTTGTTCCCTTTAAAAAGTCGGTGAAGCAAATAATCCATGGGGT
1 AAAGAACAACATGTGGATTTAGTTGTTCCCTTTAAAAAGTCGGTGAAGCAAATAATCCATGAGGT
35656216 GAGTTGTTTTCTTTTGGTCTTTCCCTTGATATCCTGAAATCTGCAGATTGCTTGATACTGTTCAG
66 GAGTTGTTTTCTTTTGGTCTTTCCCTTGATATCCTGAAATCTGCAGATTGCTTGATACTGTTCAG
35656281 CTGCCTTACTCTTTATTGTTCCTAGCTTACATGAAGTCTTCTTATGTTCTTTCAACAAGTGATAA
131 CTGCCTTACTCTTTATTGTTCCTAGCTTACATGAAGTCTTCTTATGTTCTTTCAACAAGTGATAA
35656346 GC
196 GC
35656348 AAAGAACAACATGTGGATTTAGTTGTTCCCTTTAAAAAGTCGGTGAAGCAAATAATCCATGAGGT
1 AAAGAACAACATGTGGATTTAGTTGTTCCCTTTAAAAAGTCGGTGAAGCAAATAATCCATGAGGT
*
35656413 GAGTTGTTTTCTTTTGGTCTTTCCCTTGATATCCTGAAATCTGCAGATTGCTTGATACTGTTCAT
66 GAGTTGTTTTCTTTTGGTCTTTCCCTTGATATCCTGAAATCTGCAGATTGCTTGATACTGTTCAG
35656478 CTGCCTCT-CTCTTTATTGTTCCTAGCTTACATGAAGTCTTCTTATGTTCTTTCAACAAGTGATA
131 CTGCCT-TACTCTTTATTGTTCCTAGCTTACATGAAGTCTTCTTATGTTCTTTCAACAAGTGATA
35656542 AG
195 AG
35656544 AAAAAAGCCA
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
197 192 0.99
198 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (197 bp):
AAAGAACAACATGTGGATTTAGTTGTTCCCTTTAAAAAGTCGGTGAAGCAAATAATCCATGAGGT
GAGTTGTTTTCTTTTGGTCTTTCCCTTGATATCCTGAAATCTGCAGATTGCTTGATACTGTTCAG
CTGCCTTACTCTTTATTGTTCCTAGCTTACATGAAGTCTTCTTATGTTCTTTCAACAAGTGATAA
GC
Found at i:35661972 original size:17 final size:17
Alignment explanation
Indices: 35661927--35661972 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
35661917 ATCACTTCAC
35661927 TATATTTTTAAA-ATTT
1 TATATTTTTAAATATTT
**
35661943 T-TAATTTCCAAATATTT
1 TAT-ATTTTTAAATATTT
35661960 TATATTTTTAAAT
1 TATATTTTTAAAT
35661973 TACTTTTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 13 0.57
18 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTTAAATATTT
Found at i:35671389 original size:14 final size:14
Alignment explanation
Indices: 35671372--35671402 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35671362 TTAATTTAGA
35671372 AAATTTAATTAATT
1 AAATTTAATTAATT
*
35671386 AAATTTATTTAATT
1 AAATTTAATTAATT
35671400 AAA
1 AAA
35671403 AAATCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:35674380 original size:14 final size:15
Alignment explanation
Indices: 35674360--35674393 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35674350 CCGTACACTT
*
35674360 TTTTTTTTAATTTTA
1 TTTTTTTAAATTTTA
35674375 TTTTTTTAAAATTTTA
1 TTTTTTT-AAATTTTA
35674391 TTT
1 TTT
35674394 GTAAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTAAATTTTA
Found at i:35679376 original size:22 final size:21
Alignment explanation
Indices: 35679329--35679380 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
35679319 ATAAGCAAAT
* *
35679329 AAATAAAAGAATAAAAATATT
1 AAATAAAAAAATAAAAATATG
35679350 AAATAAAACAAATAAAAA-ATG
1 AAATAAAA-AAATAAAAATATG
35679371 ATAATAAAAA
1 A-AATAAAAA
35679381 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (21 bp):
AAATAAAAAAATAAAAATATG
Found at i:35679407 original size:37 final size:35
Alignment explanation
Indices: 35679338--35679418 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 35
35679328 TAAATAAAAG
* *
35679338 AATAAAAATATTAAATAAAACAAATAAAAAATGAT
1 AATAAAAATAGTAAATAAAACAAATAAAAAATGAA
35679373 AATAAAAATAGT-AATAATAATCTAAA-AAAGAAATGAA
1 AATAAAAATAGTAAATAA-AA-C-AAATAAA-AAATGAA
35679410 AATATAAAA
1 AATA-AAAA
35679419 AAATATATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
34 5 0.13
35 13 0.33
36 4 0.10
37 13 0.33
38 4 0.10
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.22
Consensus pattern (35 bp):
AATAAAAATAGTAAATAAAACAAATAAAAAATGAA
Found at i:35679537 original size:2 final size:2
Alignment explanation
Indices: 35679532--35679574 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
35679522 ATAAAAAATA
35679532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35679574 A
1 A
35679575 AAAAGGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35691169 original size:15 final size:16
Alignment explanation
Indices: 35691144--35691174 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
35691134 GCAACAACTT
35691144 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
35691160 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
35691175 CAGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:35691245 original size:21 final size:21
Alignment explanation
Indices: 35691150--35691245 Score: 133
Period size: 21 Copynumber: 4.6 Consensus size: 21
35691140 ACTTAGAGCG
*
35691150 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
35691171 GCA-GCAGCAGCGAGGGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
* *
35691192 GCGGCAGCAACGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
35691213 GAGGCA-CGAGCGAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
35691234 GAGGCAGCAGCG
1 GAGGCAGCAGCG
35691246 GTGGCAGTAG
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.02
21 63 0.95
22 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.50, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:35701908 original size:49 final size:48
Alignment explanation
Indices: 35701837--35702007 Score: 181
Period size: 47 Copynumber: 3.6 Consensus size: 48
35701827 ATCTTCATAT
*
35701837 ATCGATGTCATAGCCCA-ACTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGA-TATGGTCTTACACGTAATCACATATCACA
* *
35701885 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
35701933 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
35701979 ACCGATGTCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
35702008 TACGGAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 26 0.25
47 36 0.34
48 13 0.12
49 30 0.29
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:35702064 original size:31 final size:31
Alignment explanation
Indices: 35702029--35702177 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
35702019 CTTGTCACTT
*
35702029 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
35702060 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
35702091 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
35702122 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
35702153 GTAGCCGAAGTTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
35702178 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:35702253 original size:50 final size:51
Alignment explanation
Indices: 35702153--35702281 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
35702143 CACTGATCAG
* * * * * *
35702153 GTAGCCGAAGTTACCACTTTTCACTTGTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
35702204 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
35702254 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
35702282 TGCCATGGTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 46 0.67
51 23 0.33
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:35705640 original size:13 final size:13
Alignment explanation
Indices: 35705622--35705646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35705612 AAATTGTAAT
35705622 TATTTTTAATTAA
1 TATTTTTAATTAA
35705635 TATTTTTAATTA
1 TATTTTTAATTA
35705647 TTTTTAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATTAA
Found at i:35711996 original size:20 final size:21
Alignment explanation
Indices: 35711973--35712018 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35711963 TTTTTGTGGC
* *
35711973 TTTTAATAAAT-TTTTATCAT
1 TTTTAATAAATATTTAATAAT
*
35711993 TTTTAATTAATATTTAATAAT
1 TTTTAATAAATATTTAATAAT
35712014 TTTTA
1 TTTTA
35712019 TATTCAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAATAAATATTTAATAAT
Found at i:35720593 original size:2 final size:2
Alignment explanation
Indices: 35720588--35720613 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35720578 TAATATTTTG
35720588 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35720614 TATTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35725062 original size:28 final size:28
Alignment explanation
Indices: 35725005--35725062 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
35724995 ATATATATTC
* *
35725005 TTTTAACTGATGAACTTTTTTATGTTCT
1 TTTTAACTGATGAACTTTTTTATCTCCT
*
35725033 TTTTAACTGGTGAACCTTTTTT-TCTCCT
1 TTTTAACTGATGAA-CTTTTTTATCTCCT
35725061 TT
1 TT
35725063 CCCTTCGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.17, C:0.16, G:0.10, T:0.57
Consensus pattern (28 bp):
TTTTAACTGATGAACTTTTTTATCTCCT
Found at i:35728408 original size:4 final size:4
Alignment explanation
Indices: 35728361--35728401 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
35728351 AATATTTGTT
35728361 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
35728402 ATGTATGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:35736274 original size:13 final size:13
Alignment explanation
Indices: 35736256--35736280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35736246 ATTAATACAA
35736256 TTTTTTTTAAATT
1 TTTTTTTTAAATT
35736269 TTTTTTTTAAAT
1 TTTTTTTTAAAT
35736281 CTTCCCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTTAAATT
Found at i:35753324 original size:24 final size:24
Alignment explanation
Indices: 35753297--35753344 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
35753287 CTGATTGAAA
35753297 CTAAAACATACAATCAACTCGAAG
1 CTAAAACATACAATCAACTCGAAG
35753321 CTAAAACATACAATCAACTCGAAG
1 CTAAAACATACAATCAACTCGAAG
35753345 AGAACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (24 bp):
CTAAAACATACAATCAACTCGAAG
Found at i:35753550 original size:22 final size:22
Alignment explanation
Indices: 35753525--35753570 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
35753515 AGCAAGGAAA
35753525 AGCATATAGAAGCCTTTATTAT
1 AGCATATAGAAGCCTTTATTAT
35753547 AGCATATAGAAGCCTTTATTAT
1 AGCATATAGAAGCCTTTATTAT
35753569 AG
1 AG
35753571 AAAGCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
AGCATATAGAAGCCTTTATTAT
Found at i:35759955 original size:18 final size:17
Alignment explanation
Indices: 35759909--35759955 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 17
35759899 AAATAATTTA
35759909 AAATCATTGTATTAAAAT
1 AAAT-ATTGTATTAAAAT
35759927 AAATA-T-T-TTAAAAT
1 AAATATTGTATTAAAAT
35759941 AAATAATTGTATTAA
1 AAAT-ATTGTATTAA
35759956 CAGTTTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 2 0.08
17 2 0.08
18 8 0.32
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (17 bp):
AAATATTGTATTAAAAT
Found at i:35764578 original size:5 final size:5
Alignment explanation
Indices: 35764568--35764595 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35764558 CAATACCCAT
35764568 TCTCA TCTCA TCTCA TCTCA TCTCA TCT
1 TCTCA TCTCA TCTCA TCTCA TCTCA TCT
35764596 GCCAATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
TCTCA
Found at i:35771759 original size:20 final size:19
Alignment explanation
Indices: 35771730--35771767 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
35771720 AAGTAGTGAG
35771730 AATTTATTTTCTAAGAATA
1 AATTTATTTTCTAAGAATA
35771749 AATTCTATTTTCTAAGAAT
1 AATT-TATTTTCTAAGAAT
35771768 TGTGATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:35772623 original size:38 final size:38
Alignment explanation
Indices: 35772565--35772645 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
35772555 AAATTTATTG
* *
35772565 TGAAATTATGTTATAGATAGGAAGTATAGGGTCCTTAA
1 TGAAATTATGTTACAAATAGGAAGTATAGGGTCCTTAA
35772603 TGAAATTATGTTACAAATAGGAAGTATAGGGTCCTTAA
1 TGAAATTATGTTACAAATAGGAAGTATAGGGTCCTTAA
35772641 TGAAA
1 TGAAA
35772646 GAATGTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (38 bp):
TGAAATTATGTTACAAATAGGAAGTATAGGGTCCTTAA
Found at i:35774858 original size:46 final size:44
Alignment explanation
Indices: 35774754--35774861 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
35774744 TGTCTTTGAC
** * * *
35774754 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
35774798 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
35774844 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
35774862 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:35778361 original size:4 final size:4
Alignment explanation
Indices: 35778352--35778378 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35778342 ATACGGCAAA
35778352 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
35778379 GAAATTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:35800591 original size:15 final size:15
Alignment explanation
Indices: 35800571--35800621 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
35800561 TCAATGTAAG
35800571 TTCCATATATTGGGA
1 TTCCATATATTGGGA
* *
35800586 TTCCAT-TGTTTTGGA
1 TTCCATAT-ATTGGGA
* *
35800601 TCCCATATATAGGGA
1 TTCCATATATTGGGA
35800616 TTCCAT
1 TTCCAT
35800622 TGTTTTGGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (15 bp):
TTCCATATATTGGGA
Found at i:35800607 original size:30 final size:30
Alignment explanation
Indices: 35800573--35800633 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
35800563 AATGTAAGTT
*
35800573 CCATATATTGGGATTCCATTGTTTTGGATC
1 CCATATATAGGGATTCCATTGTTTTGGATC
35800603 CCATATATAGGGATTCCATTGTTTTGGATC
1 CCATATATAGGGATTCCATTGTTTTGGATC
35800633 C
1 C
35800634 GTAAACATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (30 bp):
CCATATATAGGGATTCCATTGTTTTGGATC
Found at i:35802030 original size:2 final size:2
Alignment explanation
Indices: 35802023--35802048 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35802013 AAAGGCACTT
35802023 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
35802049 AGATACCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35807166 original size:29 final size:29
Alignment explanation
Indices: 35807107--35807165 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
35807097 TTTGAACAAA
* *
35807107 TGTGCAATGTTATACATAAAATTTGATTT
1 TGTGCAATTTTATACATAAAATTTCATTT
* *
35807136 TGTGCAATTTTATACTTGAAATTTTCATTT
1 TGTGCAATTTTATACAT-AAAATTTCATTT
35807166 GATTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (29 bp):
TGTGCAATTTTATACATAAAATTTCATTT
Found at i:35810259 original size:33 final size:34
Alignment explanation
Indices: 35810197--35810266 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
35810187 CTATACTAGT
*
35810197 ATACCCAAATATATTAACTAAAAAATAGTGATAA
1 ATACCCAAATATATTAAATAAAAAATAGTGATAA
35810231 ATACCCAAATATATTAAAT-AAAAATAGTGATAA
1 ATACCCAAATATATTAAATAAAAAATAGTGATAA
35810264 ATA
1 ATA
35810267 TTCAAAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (34 bp):
ATACCCAAATATATTAAATAAAAAATAGTGATAA
Found at i:35825878 original size:20 final size:20
Alignment explanation
Indices: 35825841--35825879 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35825831 ATAATGAGAA
*
35825841 TTTATTTTCTAAGTATAACT
1 TTTATTTTCTAAGAATAACT
*
35825861 TTTATTTTCTGAGAATAAC
1 TTTATTTTCTAAGAATAAC
35825880 AATTCTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAACT
Found at i:35828018 original size:5 final size:6
Alignment explanation
Indices: 35828003--35828032 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
35827993 CTACTATCTC
35828003 AAAAAT AAAAAT AAAAAT AAAAAT ACAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAA
35828033 AACGGAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:35836891 original size:27 final size:26
Alignment explanation
Indices: 35836860--35836913 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
35836850 ATTAAAGTTA
35836860 AATTAAAT-TAAAAATAATATTGTATAT
1 AATTAAATAT-AAAATAATATT-TATAT
*
35836887 AATTAAATATAGAATAATATTTATAT
1 AATTAAATATAAAATAATATTTATAT
35836913 A
1 A
35836914 TCTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 6 0.24
27 18 0.72
28 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (26 bp):
AATTAAATATAAAATAATATTTATAT
Found at i:35837554 original size:7 final size:7
Alignment explanation
Indices: 35837542--35837573 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
35837532 GTTGATGGTT
35837542 AAATTTG
1 AAATTTG
35837549 AAATTTG
1 AAATTTG
35837556 AAATTTG
1 AAATTTG
35837563 AAATTTAG
1 AAATTT-G
35837571 AAA
1 AAA
35837574 GTAAAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (7 bp):
AAATTTG
Found at i:35838369 original size:70 final size:70
Alignment explanation
Indices: 35838292--35838427 Score: 245
Period size: 70 Copynumber: 1.9 Consensus size: 70
35838282 TATCTTTTTG
* *
35838292 GATCACATATTTTATATAACATACATAAAATAAGATACATTAGCCACATTAGTTTTTAACATTAT
1 GATCACATATTTTATATAACATACATAAAATAAGATACATTAACCACATTAATTTTTAACATTAT
35838357 ATTTA
66 ATTTA
*
35838362 GATCACATATTTTATATAACATACATAAAATAAGATACATTAACTACATTAATTTTTAACATTAT
1 GATCACATATTTTATATAACATACATAAAATAAGATACATTAACCACATTAATTTTTAACATTAT
35838427 A
66 A
35838428 AATAAATAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.38
Consensus pattern (70 bp):
GATCACATATTTTATATAACATACATAAAATAAGATACATTAACCACATTAATTTTTAACATTAT
ATTTA
Found at i:35840828 original size:12 final size:12
Alignment explanation
Indices: 35840811--35840837 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35840801 GGTGATTAAC
35840811 TTATTTCAATTT
1 TTATTTCAATTT
35840823 TTATTTCAATTT
1 TTATTTCAATTT
35840835 TTA
1 TTA
35840838 GATTAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTCAATTT
Found at i:35860253 original size:19 final size:19
Alignment explanation
Indices: 35860229--35860268 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
35860219 GCCAAATCTA
35860229 TTAGGAGAAAGCTGTCCGT
1 TTAGGAGAAAGCTGTCCGT
35860248 TTAGGAGAAAGCTGTCCGT
1 TTAGGAGAAAGCTGTCCGT
35860267 TT
1 TT
35860269 TCTTCAGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
TTAGGAGAAAGCTGTCCGT
Found at i:35867599 original size:23 final size:23
Alignment explanation
Indices: 35867573--35867656 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
35867563 AAATATTGTT
35867573 AATTG-AGATGTTTAAGTGCTGCA
1 AATTGAAG-TGTTTAAGTGCTGCA
* *
35867596 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
35867619 AACTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
35867642 AATTGAAGTATTTAA
1 AATTGAAGTGTTTAA
35867657 ACGCTGTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 49 0.96
24 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.35
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:35867636 original size:46 final size:46
Alignment explanation
Indices: 35867573--35867834 Score: 195
Period size: 46 Copynumber: 5.9 Consensus size: 46
35867563 AAATATTGTT
*
35867573 AATTG-AGATGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTA
1 AATTGAAG-TGTTTAAGTGCTGCAAATTGAGGTGTTTAAATGCTGTA
* * * * *
35867619 AACTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAACGCTG--
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGGTGTTTAAATGCTGTA
* * ** * * *
35867663 ---T-CA-TGTTTATG-GCTG-TGATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGGTGTTTAAATGCTGTA
* * * * *
35867702 AATTG-GGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCTGTA
1 AATTGAAG-TGTTTAAGTGCTGCAAATTGAGGTGTTTAAATGCTGTA
* * * * *
35867748 AATTGAAGTGCTTAATTGCTGTAAATTGAGGTGCTTAAATGATGTA
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGGTGTTTAAATGCTGTA
** *
35867794 AATTGAAGTGTTTAAGTGCTGCAAATTTCGGTGTATAAATG
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGGTGTTTAAATG
35867835 AGTCTAAAAT
Statistics
Matches: 165, Mismatches: 39, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
37 15 0.09
38 4 0.02
39 6 0.04
40 1 0.01
41 1 0.01
42 1 0.01
44 6 0.04
45 3 0.02
46 125 0.76
47 3 0.02
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (46 bp):
AATTGAAGTGTTTAAGTGCTGCAAATTGAGGTGTTTAAATGCTGTA
Found at i:35867736 original size:23 final size:23
Alignment explanation
Indices: 35867680--35867820 Score: 126
Period size: 23 Copynumber: 6.1 Consensus size: 23
35867670 TATGGCTGTG
* *
35867680 ATTGAGGTG-TATAAATGTTGTTA
1 ATTGAGGTGCT-TAAATGCTGTAA
*
35867703 ATTG-GGATG-TTAAAGTGTTGTAA
1 ATTGAGG-TGCTTAAA-TGCTGTAA
* *
35867726 GTTGAGGTGTTTAAATGCTGTAA
1 ATTGAGGTGCTTAAATGCTGTAA
* *
35867749 ATTGAAGTGCTTAATTGCTGTAA
1 ATTGAGGTGCTTAAATGCTGTAA
*
35867772 ATTGAGGTGCTTAAATGATGTAA
1 ATTGAGGTGCTTAAATGCTGTAA
* * * *
35867795 ATTGAAGTGTTTAAGTGCTGCAA
1 ATTGAGGTGCTTAAATGCTGTAA
35867818 ATT
1 ATT
35867821 TCGGTGTATA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
22 6 0.06
23 86 0.87
24 7 0.07
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.39
Consensus pattern (23 bp):
ATTGAGGTGCTTAAATGCTGTAA
Found at i:35867774 original size:129 final size:129
Alignment explanation
Indices: 35867539--35867776 Score: 352
Period size: 129 Copynumber: 1.8 Consensus size: 129
35867529 ATTGAGATGT
* *
35867539 TTTATTGCTGTGATTGAGGTGCATAAATATTGTTAATTGAGATGTTTAAGTGCTGCAAATTGAAG
1 TTTATGGCTGTGATTGAGGTGCATAAATATTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAG
35867604 TGTTTAAATGCTGTAAACTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAACGCTGTCATG
66 TGTTTAAATGCTGTAAACTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAACGCTGTCATG
* * * * * * *
35867668 TTTATGGCTGTGATTGAGGTGTATAAATGTTGTTAATTGGGATGTTAAAGTGTTGTAAGTTGAGG
1 TTTATGGCTGTGATTGAGGTGCATAAATATTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAG
* * *
35867733 TGTTTAAATGCTGTAAATTGAAGTGCTT-AATTGCTGTAAATTGA
66 TGTTTAAATGCTGTAAACTGAAGTG-TTAAAGTGCTGCAAATTGA
35867777 GGTGCTTAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
129 94 0.98
130 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.39
Consensus pattern (129 bp):
TTTATGGCTGTGATTGAGGTGCATAAATATTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAG
TGTTTAAATGCTGTAAACTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAACGCTGTCATG
Found at i:35869678 original size:35 final size:35
Alignment explanation
Indices: 35869632--35869763 Score: 160
Period size: 35 Copynumber: 3.8 Consensus size: 35
35869622 TCTTAGACAC
* *
35869632 AGCCTTCAAGGCATACTTCGTCTTCTTCGGCACTT
1 AGCCTTCAAGGCATACTTCATCTTCTTCGACACTT
* * * *
35869667 AGCCTTTAAGGCAAACTTCATCTTC-TCAAATACTT
1 AGCCTTCAAGGCATACTTCATCTTCTTC-GACACTT
* *
35869702 AGCCTTCAAGGCATGCTTCGTCTTCTAT-GACACTT
1 AGCCTTCAAGGCATACTTCATCTTCT-TCGACACTT
35869737 AGCCTTCAAGGCATACTTCATCTTCTT
1 AGCCTTCAAGGCATACTTCATCTTCTT
35869764 AGAAACAGGC
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
34 3 0.04
35 76 0.95
37 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (35 bp):
AGCCTTCAAGGCATACTTCATCTTCTTCGACACTT
Found at i:35869721 original size:70 final size:70
Alignment explanation
Indices: 35869632--35869762 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 70
35869622 TCTTAGACAC
* *
35869632 AGCCTTCAAGGCATACTTCGTCTTCT-TCGGCACTTAGCCTTTAAGGCAAACTTCATCTTCTCAA
1 AGCCTTCAAGGCATACTTCGTCTTCTAT-GACACTTAGCCTTCAAGGCAAACTTCATCTTCTCAA
35869696 ATACTT
65 ATACTT
* *
35869702 AGCCTTCAAGGCATGCTTCGTCTTCTATGACACTTAGCCTTCAAGGCATACTTCATCTTCT
1 AGCCTTCAAGGCATACTTCGTCTTCTATGACACTTAGCCTTCAAGGCAAACTTCATCTTCT
35869763 TAGAAACAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
70 55 0.98
71 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (70 bp):
AGCCTTCAAGGCATACTTCGTCTTCTATGACACTTAGCCTTCAAGGCAAACTTCATCTTCTCAAA
TACTT
Found at i:35882852 original size:10 final size:10
Alignment explanation
Indices: 35882827--35882855 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
35882817 ATAGAAAGTT
35882827 AATTTATTTA
1 AATTTATTTA
35882837 AA-TTATTTA
1 AATTTATTTA
35882846 AATTTATTTA
1 AATTTATTTA
35882856 TTATAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTATTTA
Found at i:35883124 original size:20 final size:20
Alignment explanation
Indices: 35883087--35883124 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35883077 TTTATATAAT
*
35883087 TTAAAAATATATATAATACA
1 TTAAAAATATATAAAATACA
35883107 TTAAAAATACTA-AAAATA
1 TTAAAAATA-TATAAAATA
35883125 TTAAAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAAATATATAAAATACA
Found at i:35883144 original size:21 final size:22
Alignment explanation
Indices: 35883118--35883168 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35883108 TAAAAATACT
* * *
35883118 AAAAATATTAAAAT-ACTTTTC
1 AAAAATATAAAAATAAATTTTA
35883139 AAAAAT-TAAAAATAAATTTTA
1 AAAAATATAAAAATAAATTTTA
35883160 AAAAATATA
1 AAAAATATA
35883169 TACTTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 17 0.68
22 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATATAAAAATAAATTTTA
Found at i:35883148 original size:28 final size:27
Alignment explanation
Indices: 35883087--35883152 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 27
35883077 TTTATATAAT
*
35883087 TTAAAAATATATATAATACATTAAAAA
1 TTAAAAATATATAAAATACATTAAAAA
*
35883114 TACTAAAAATAT-TAAAATACTTTTCAAAAA
1 T--TAAAAATATATAAAATAC-ATT-AAAAA
35883144 TTAAAAATA
1 TTAAAAATA
35883153 AATTTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 15 0.45
29 11 0.33
30 6 0.18
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (27 bp):
TTAAAAATATATAAAATACATTAAAAA
Found at i:35883258 original size:21 final size:19
Alignment explanation
Indices: 35883227--35883274 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
35883217 AAATAATAAC
* *
35883227 AAAATTAACAAATTTATTTA
1 AAAAATAACAAAATTA-TTA
35883247 AAATAATAACAAAATTATTA
1 AAA-AATAACAAAATTATTA
35883267 AAAAATAA
1 AAAAATAA
35883275 GTTTTATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 11 0.44
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATAACAAAATTATTA
Found at i:35883343 original size:22 final size:21
Alignment explanation
Indices: 35883296--35883358 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
35883286 TATCCAAACT
* *
35883296 ATAACAATAAAATAGTAGCAAC
1 ATAA-AATAAAATAGTAACAAA
*
35883318 ATAATAATAAAATAGTAATAAA
1 ATAA-AATAAAATAGTAACAAA
35883340 ATAAAA-AAAA-A-TAACAAA
1 ATAAAATAAAATAGTAACAAA
35883358 A
1 A
35883359 ATAATATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 7 0.19
19 1 0.03
20 4 0.11
21 2 0.06
22 22 0.61
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.19
Consensus pattern (21 bp):
ATAAAATAAAATAGTAACAAA
Found at i:35883370 original size:11 final size:11
Alignment explanation
Indices: 35883318--35883376 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
35883308 TAGTAGCAAC
35883318 ATAATAATAAA
1 ATAATAATAAA
*
35883329 ATAGTAATAAA
1 ATAATAATAAA
*
35883340 ATAA-AAAAAA
1 ATAATAATAAA
*
35883350 ATAA-CA-AAA
1 ATAATAATAAA
*
35883359 ATAATATTAAA
1 ATAATAATAAA
35883370 A-AATAAT
1 ATAATAAT
35883377 TTTTTTGTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.18
10 15 0.38
11 17 0.44
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:35887308 original size:482 final size:482
Alignment explanation
Indices: 35886403--35887368 Score: 1932
Period size: 482 Copynumber: 2.0 Consensus size: 482
35886393 AAAATGGGAG
35886403 TCAAAGTAAATGGAAATTGTATTGAGAAATTCTGGTGGTAGAGACTAAGAGAGTATTAGTGGTTA
1 TCAAAGTAAATGGAAATTGTATTGAGAAATTCTGGTGGTAGAGACTAAGAGAGTATTAGTGGTTA
35886468 TAAGAAGGTGGGGAACTGAAAGAGCATCAATACTGAGGAAAGGCTTAAAACTTGATATGCAAGTG
66 TAAGAAGGTGGGGAACTGAAAGAGCATCAATACTGAGGAAAGGCTTAAAACTTGATATGCAAGTG
35886533 ATTATAGGTATAGACCATAAATCCATGAGATAAATTGAGCTTCTAAATATATCCATACAACGAAA
131 ATTATAGGTATAGACCATAAATCCATGAGATAAATTGAGCTTCTAAATATATCCATACAACGAAA
35886598 AACCCTAATAGAACCTTAAAGCAATATCCATTATTCATCCTTGTTGGAAGAGATTGTCTTTAGAG
196 AACCCTAATAGAACCTTAAAGCAATATCCATTATTCATCCTTGTTGGAAGAGATTGTCTTTAGAG
35886663 TTAAATTGCATATACCCCTCCTTCCTTGAGTCAAAATAGATGACCTTCCCAATGAACAGAGATTA
261 TTAAATTGCATATACCCCTCCTTCCTTGAGTCAAAATAGATGACCTTCCCAATGAACAGAGATTA
35886728 TGTCATTGATCTAGAATTAAAAAGCTCATCACCAAGTTATTTCAATCCATCAACTTATTGCAATC
326 TGTCATTGATCTAGAATTAAAAAGCTCATCACCAAGTTATTTCAATCCATCAACTTATTGCAATC
35886793 ACTAAAACACTTGTAAGGTGTGTAATGGAAAAAACATAAGGCTCAAAGATGTCCGATGAAATAAT
391 ACTAAAACACTTGTAAGGTGTGTAATGGAAAAAACATAAGGCTCAAAGATGTCCGATGAAATAAT
35886858 TTAGTGTTAGAATTTGCAATTTGTGTA
456 TTAGTGTTAGAATTTGCAATTTGTGTA
35886885 TCAAAGTAAATGGAAATTGTATTGAGAAATTCTGGTGGTAGAGACTAAGAGAGTATTAGTGGTTA
1 TCAAAGTAAATGGAAATTGTATTGAGAAATTCTGGTGGTAGAGACTAAGAGAGTATTAGTGGTTA
35886950 TAAGAAGGTGGGGAACTGAAAGAGCATCAATACTGAGGAAAGGCTTAAAACTTGATATGCAAGTG
66 TAAGAAGGTGGGGAACTGAAAGAGCATCAATACTGAGGAAAGGCTTAAAACTTGATATGCAAGTG
35887015 ATTATAGGTATAGACCATAAATCCATGAGATAAATTGAGCTTCTAAATATATCCATACAACGAAA
131 ATTATAGGTATAGACCATAAATCCATGAGATAAATTGAGCTTCTAAATATATCCATACAACGAAA
35887080 AACCCTAATAGAACCTTAAAGCAATATCCATTATTCATCCTTGTTGGAAGAGATTGTCTTTAGAG
196 AACCCTAATAGAACCTTAAAGCAATATCCATTATTCATCCTTGTTGGAAGAGATTGTCTTTAGAG
35887145 TTAAATTGCATATACCCCTCCTTCCTTGAGTCAAAATAGATGACCTTCCCAATGAACAGAGATTA
261 TTAAATTGCATATACCCCTCCTTCCTTGAGTCAAAATAGATGACCTTCCCAATGAACAGAGATTA
35887210 TGTCATTGATCTAGAATTAAAAAGCTCATCACCAAGTTATTTCAATCCATCAACTTATTGCAATC
326 TGTCATTGATCTAGAATTAAAAAGCTCATCACCAAGTTATTTCAATCCATCAACTTATTGCAATC
35887275 ACTAAAACACTTGTAAGGTGTGTAATGGAAAAAACATAAGGCTCAAAGATGTCCGATGAAATAAT
391 ACTAAAACACTTGTAAGGTGTGTAATGGAAAAAACATAAGGCTCAAAGATGTCCGATGAAATAAT
35887340 TTAGTGTTAGAATTTGCAATTTGTGTA
456 TTAGTGTTAGAATTTGCAATTTGTGTA
35887367 TC
1 TC
35887369 CAAGGCTTGT
Statistics
Matches: 484, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
482 484 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (482 bp):
TCAAAGTAAATGGAAATTGTATTGAGAAATTCTGGTGGTAGAGACTAAGAGAGTATTAGTGGTTA
TAAGAAGGTGGGGAACTGAAAGAGCATCAATACTGAGGAAAGGCTTAAAACTTGATATGCAAGTG
ATTATAGGTATAGACCATAAATCCATGAGATAAATTGAGCTTCTAAATATATCCATACAACGAAA
AACCCTAATAGAACCTTAAAGCAATATCCATTATTCATCCTTGTTGGAAGAGATTGTCTTTAGAG
TTAAATTGCATATACCCCTCCTTCCTTGAGTCAAAATAGATGACCTTCCCAATGAACAGAGATTA
TGTCATTGATCTAGAATTAAAAAGCTCATCACCAAGTTATTTCAATCCATCAACTTATTGCAATC
ACTAAAACACTTGTAAGGTGTGTAATGGAAAAAACATAAGGCTCAAAGATGTCCGATGAAATAAT
TTAGTGTTAGAATTTGCAATTTGTGTA
Found at i:35889843 original size:21 final size:21
Alignment explanation
Indices: 35889807--35889864 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
35889797 CATATTCCGT
35889807 TCCGG-TCAGTATTTTTAGTG
1 TCCGGTTCAGTATTTTTAGTG
*
35889827 TCCGGTTCAGT-TGTTTTGGTG
1 TCCGGTTCAGTAT-TTTTAGTG
35889848 TCCGGTTCA-TATTTTTA
1 TCCGGTTCAGTATTTTTA
35889865 ACCTATTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.48
Consensus pattern (21 bp):
TCCGGTTCAGTATTTTTAGTG
Found at i:35893218 original size:16 final size:16
Alignment explanation
Indices: 35893197--35893228 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35893187 GCGTGGAAGA
35893197 AAGAGAATAGTTTCAG
1 AAGAGAATAGTTTCAG
35893213 AAGAGAATAGTTTCAG
1 AAGAGAATAGTTTCAG
35893229 TTGAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
AAGAGAATAGTTTCAG
Found at i:35895084 original size:34 final size:35
Alignment explanation
Indices: 35895041--35895111 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
35895031 CATTCTTTAC
35895041 CTAGAGTTTCT-CCTCTTTTTTGGTACATAATTAG
1 CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG
35895075 CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG
1 CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG
35895110 CT
1 CT
35895112 TTCTTCTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (35 bp):
CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG
Found at i:35896373 original size:39 final size:39
Alignment explanation
Indices: 35896319--35896401 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
35896309 CCACTGGCCA
*
35896319 CCACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGT
1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT
* **
35896358 CCACCATCATCGTTCACCAGTCAGGTAGTCACCATTGGT
1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT
35896397 CCACC
1 CCACC
35896402 CGTCACCACC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20
Consensus pattern (39 bp):
CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT
Found at i:35898728 original size:31 final size:31
Alignment explanation
Indices: 35898692--35898754 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
35898682 TTCCTTATTT
35898692 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
1 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
35898723 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
1 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
35898754 C
1 C
35898755 TTCTCGTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.06, C:0.33, G:0.03, T:0.57
Consensus pattern (31 bp):
CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
Found at i:35903648 original size:56 final size:53
Alignment explanation
Indices: 35903555--35903663 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
35903545 TGAAAAAAAA
35903555 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
35903608 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
35903664 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:35904922 original size:40 final size:40
Alignment explanation
Indices: 35904856--35905022 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
35904846 AAATTGAATG
* * *
35904856 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35904895 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
35904935 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
35904975 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
35905015 ATATCCGG
1 ATATCCGG
35905023 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35911641 original size:56 final size:53
Alignment explanation
Indices: 35911548--35911656 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
35911538 ATGAAAAAAA
35911548 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
35911601 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
35911657 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:35912916 original size:40 final size:40
Alignment explanation
Indices: 35912850--35913016 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
35912840 AAATTGAATG
* * *
35912850 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35912889 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
35912929 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
35912969 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
35913009 ATATCCGG
1 ATATCCGG
35913017 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35917957 original size:49 final size:48
Alignment explanation
Indices: 35917904--35918224 Score: 423
Period size: 49 Copynumber: 6.7 Consensus size: 48
35917894 GATTTTACGC
* *
35917904 GATGAATGTGAATGTCTATATATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAG-CTATATATATGTGATAAGGCCTAATGGCCGATGT
*
35917953 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAG-CTATATATATGTGATAAGGCCTAATGGCCGATGT
*
35918002 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGC-TATATATATGTGATAAGGCCTAATGGCCGATGT
*
35918051 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGC-TATATATATGTGATAAGGCCTAATGGCCGATGT
* * * *
35918100 GATGAATGTG-AAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGCTATATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
35918147 GATGAATGTGAAAG-TGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGCTATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
35918194 GATGGATGTGAAAG-TGTATAAATGTGATAAG
1 GATGAATGTGAAAGCTATATATATGTGATAAG
35918225 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 97 0.38
48 6 0.02
49 151 0.59
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (48 bp):
GATGAATGTGAAAGCTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:35922160 original size:52 final size:52
Alignment explanation
Indices: 35922098--35922203 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
35922088 GTTCATATGC
35922098 AAATTATGCAATATGTACCATATTTTAAATGCTTTTATATTGCATGTATGGT
1 AAATTATGCAATATGTACCATATTTTAAATGCTTTTATATTGCATGTATGGT
35922150 AAATTATGCAATATGTACCATATTTTAAATGCTTTTATATTGCATGTATGGT
1 AAATTATGCAATATGTACCATATTTTAAATGCTTTTATATTGCATGTATGGT
35922202 AA
1 AA
35922204 GTACATATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (52 bp):
AAATTATGCAATATGTACCATATTTTAAATGCTTTTATATTGCATGTATGGT
Found at i:35922447 original size:22 final size:22
Alignment explanation
Indices: 35922419--35922461 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
35922409 GACTACGCGA
35922419 TCTGAGCTCATGAGT-TATGTGG
1 TCTGAGCTCATGA-TATATGTGG
35922441 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATGATATATGTG
35922462 ACACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGATATATGTGG
Found at i:35926673 original size:94 final size:90
Alignment explanation
Indices: 35926569--35926783 Score: 254
Period size: 94 Copynumber: 2.3 Consensus size: 90
35926559 TATGTGCGCC
*
35926569 AGTGTTAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCCAATGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-AATGAGAGCCAATGTAAGA-CATGTCTG
*
35926633 GGACATGGCATC-GATATTGAGACAAGTGCT
64 GGACAT-GCATCGGATA-CGAG--AAGTGCT
* * * ** *
35926663 AGTGTAAGACATATCTGGGACATGCATCGGCCTCGAGATGTTAGCCAATGTCAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATGAGAGCCAATGTAAGACATGTCTGGG
* * *
35926728 ACATGCGTCGGCTACGAGATGTGCT
66 ACATGCATCGGATACGAGAAGTGCT
*
35926753 AGTGTGAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
35926784 ACGGTTACAT
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
90 35 0.33
92 7 0.07
93 17 0.16
94 46 0.43
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATGAGAGCCAATGTAAGACATGTCTGGG
ACATGCATCGGATACGAGAAGTGCT
Found at i:35926814 original size:46 final size:44
Alignment explanation
Indices: 35926569--35926820 Score: 163
Period size: 46 Copynumber: 5.5 Consensus size: 44
35926559 TATGTGCGCC
* * * * *
35926569 AGTGTTAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-CAT--GTGCT
* * * *
35926615 AATGTAAGACCATGTCTGGGACATGGCATC-GATATTGAGACAAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA---CGACATGTGCT
* * *
35926663 AGTGTAAGACATATCTGGGACATGCATCGGCCT-CGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGACATG-T-GCT
* * * *
35926709 AATGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACATGTGCT
*
35926753 AGTGTGAGACATGTCTGGGACATGCATCGGC-ACGGTTACATGTG-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-G--ACATGTGCT
* *
35926798 CAGTGTAAGACCTGTCTAGGACA
1 -AGTGTAAGACATGTCTGGGACA
35926821 CGACATCAAC
Statistics
Matches: 163, Mismatches: 28, Indels: 30
0.74 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 35 0.21
45 5 0.03
46 72 0.44
47 30 0.18
48 17 0.10
50 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACATGTGCT
Found at i:35934349 original size:19 final size:19
Alignment explanation
Indices: 35934308--35934351 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35934298 ATATTTTTAG
* *
35934308 AATTTTTTAAAAAAATTTT
1 AATTTTTTAAAAAAATATA
* *
35934327 AATTTTTTTAAAAGATATA
1 AATTTTTTAAAAAAATATA
35934346 AATTTT
1 AATTTT
35934352 GGAATTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AATTTTTTAAAAAAATATA
Done.