Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 292 of 318
Found at i:93007761 original size:19 final size:20
Alignment explanation
Indices: 93007722--93007773 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
93007712 TTTCGATTTT
* *
93007722 GATTCGGGGAAATATTTAGG
1 GATTAGGGGAAATAGTTAGG
93007742 GATTAGGGGAAA-AGTTAGG
1 GATTAGGGGAAATAGTTAGG
*
93007761 GATTTGGGGAAAT
1 GATTAGGGGAAAT
93007774 TTGGGTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (20 bp):
GATTAGGGGAAATAGTTAGG
Found at i:93008139 original size:75 final size:73
Alignment explanation
Indices: 93008052--93008240 Score: 191
Period size: 73 Copynumber: 2.6 Consensus size: 73
93008042 AAACCTTAAT
93008052 ACAAATTTGCGGCGTTTTATATAAAGCGCCACTAAAAACAAAGAATAAAACGGCGTCGTTTAGAA
1 ACAAATTTGCGGCGTTTT-TATAAAGCGCCACTAAAAACAAAGAAT-AAACGGCGTCGTTTAGAA
93008117 AACACATAAC
64 AACACATAAC
* * * * * * ***
93008127 ACAAATTTGCGGCATTTTTGTCAAAGCGCCACCAATAAC-AAGTATAAACGGTGTCGTTTCTTAA
1 ACAAATTTGCGGCGTTTTTAT-AAAGCGCCACTAAAAACAAAGAATAAACGGCGTCGTTTAGAAA
* * *
93008191 ACTCGTAAT
65 ACACATAAC
** * * *
93008200 ACATTTTTGTGGCGTTTGTACAAAGCGCCACTAAAAACAAA
1 ACAAATTTGCGGCGTTTTTATAAAGCGCCACTAAAAACAAA
93008241 ACATAGAACG
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
72 15 0.16
73 37 0.41
74 7 0.08
75 32 0.35
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (73 bp):
ACAAATTTGCGGCGTTTTTATAAAGCGCCACTAAAAACAAAGAATAAACGGCGTCGTTTAGAAAA
CACATAAC
Found at i:93008890 original size:14 final size:15
Alignment explanation
Indices: 93008858--93008894 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
93008848 GAAATTTATT
93008858 TTTAGGGTTTACAAA
1 TTTAGGGTTTACAAA
*
93008873 TTTAGGGTTTA-TAA
1 TTTAGGGTTTACAAA
93008887 TTTAGGGT
1 TTTAGGGT
93008895 ATAAGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTACAAA
Found at i:93009100 original size:29 final size:29
Alignment explanation
Indices: 93009067--93009122 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
93009057 AGAGTTTAGA
*
93009067 TCATGGGTTATGATTTAGGGGTTAGGCGG
1 TCATGGGTTATGATTTAAGGGTTAGGCGG
93009096 TCATGGGTTATGATTTAAGGGTTAGGC
1 TCATGGGTTATGATTTAAGGGTTAGGC
93009123 TTCATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.07, G:0.38, T:0.36
Consensus pattern (29 bp):
TCATGGGTTATGATTTAAGGGTTAGGCGG
Found at i:93009722 original size:41 final size:41
Alignment explanation
Indices: 93009700--93009854 Score: 222
Period size: 41 Copynumber: 3.8 Consensus size: 41
93009690 GGACCTAAAG
* * *
93009700 CGCCACTA-TATCTCAGTTTTTTGCGGCGTTTTGCATGAAAA
1 CGCCACTATTA-CTCAGTTTTTAGTGGCGTTTTGCACGAAAA
*
93009741 CGCCACTATTACTCAGTTTTTAGCGGCGTTTTGCACGAAAA
1 CGCCACTATTACTCAGTTTTTAGTGGCGTTTTGCACGAAAA
* * *
93009782 CGCCACAATTGCTCAATTTTTAGTGGCGTTTTGCACGAAAA
1 CGCCACTATTACTCAGTTTTTAGTGGCGTTTTGCACGAAAA
*
93009823 AGCCACTATTACTCAGTTTTTAGTGGCGTTTT
1 CGCCACTATTACTCAGTTTTTAGTGGCGTTTT
93009855 TCATTCAAAC
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
41 101 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (41 bp):
CGCCACTATTACTCAGTTTTTAGTGGCGTTTTGCACGAAAA
Found at i:93018794 original size:35 final size:35
Alignment explanation
Indices: 93018744--93018875 Score: 124
Period size: 35 Copynumber: 3.6 Consensus size: 35
93018734 TCAAAATTAT
* *
93018744 TATCGTCGGTATATCCGACTAGCACTAGGTGCAAA
1 TATCGTTGGTATATCCAACTAGCACTAGGTGCAAA
* *
93018779 TATCGTTGGTTTATCCAACTAG-AGCTGGGCT-CACTATTA
1 TATCGTTGGTATATCCAACTAGCA-CTAGG-TGCA--A--A
* *
93018818 TTATCGTTGGTATATCCGACTAGCACTTGGTGCAAA
1 -TATCGTTGGTATATCCAACTAGCACTAGGTGCAAA
*
93018854 TATCGTTGGTTTATCCAACTAG
1 TATCGTTGGTATATCCAACTAG
93018876 AGCTGGGCTC
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
34 1 0.01
35 45 0.57
36 2 0.03
37 1 0.01
38 1 0.01
39 2 0.03
40 26 0.33
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (35 bp):
TATCGTTGGTATATCCAACTAGCACTAGGTGCAAA
Found at i:93018825 original size:40 final size:38
Alignment explanation
Indices: 93018711--93018922 Score: 138
Period size: 40 Copynumber: 5.6 Consensus size: 38
93018701 AAATATCATA
* * * *
93018711 GGTTTATCCAACTAAATCTGGGCTCAAAATTATTATCGTC
1 GGTTTATCCAACTAGAGCTGGGCTC-ACATTA-TATCGTT
* * *
93018751 GGTATATCCGACTAGCA-CTAGG-TGCA-A--ATATCGTT
1 GGTTTATCCAACTAG-AGCTGGGCT-CACATTATATCGTT
93018786 GGTTTATCCAACTAGAGCTGGGCTCACTATTATTATCGTT
1 GGTTTATCCAACTAGAGCTGGGCTCAC-ATTA-TATCGTT
* * *
93018826 GGTATATCCGACTAGCA-CTTGG-TGCA-A--ATATCGTT
1 GGTTTATCCAACTAG-AGCTGGGCT-CACATTATATCGTT
93018861 GGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTT
1 GGTTTATCCAACTAGAGCTGGGCTCACATT--ATATCGTT
* ** *
93018901 GGTTAATCTGACTAGCGCTGGG
1 GGTTTATCCAACTAGAGCTGGG
93018923 TGCAAACTTC
Statistics
Matches: 136, Mismatches: 18, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
34 2 0.01
35 51 0.38
36 5 0.04
37 1 0.01
38 2 0.01
39 4 0.03
40 69 0.51
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (38 bp):
GGTTTATCCAACTAGAGCTGGGCTCACATTATATCGTT
Found at i:93018887 original size:75 final size:74
Alignment explanation
Indices: 93018699--93018928 Score: 318
Period size: 75 Copynumber: 3.1 Consensus size: 74
93018689 AGTGCTGCGC
* * * * * *
93018699 GCAAATATCATAGGTTTATCCAACTAAATCTGGGCTCAAAATTATTATCGTCGGTATATCCGACT
1 GCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTC-ACATTATTATCGTTGGTATATCCGACT
93018764 AGCACTAGGT
65 AGCACTAGGT
93018774 GCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTATTATCGTTGGTATATCCGACT
1 GCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCAC-ATTATTATCGTTGGTATATCCGACT
*
93018839 AGCACTTGGT
65 AGCACTAGGT
* *
93018849 GCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCGTTGGT-TAATCTGAC
1 GCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATT-ATTATCGTTGGTAT-ATCCGAC
* *
93018913 TAGCGCTGGGT
64 TAGCACTAGGT
93018924 GCAAA
1 GCAAA
93018929 CTTCTCTATG
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
74 5 0.04
75 136 0.96
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (74 bp):
GCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATTATTATCGTTGGTATATCCGACTA
GCACTAGGT
Found at i:93022961 original size:51 final size:51
Alignment explanation
Indices: 93022826--93023054 Score: 167
Period size: 51 Copynumber: 4.5 Consensus size: 51
93022816 TGCCCGGTGA
* * * *
93022826 CCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAAGTGG
1 CCTGCACATAGTACCACACATGTGA-TCAAAGCTATCTT-TTACACATAGTGG
* * * *
93022877 CCTTCACATAGTACCACACTTGTGACCAGAGCTATCTTTTACACATAGTGG
1 CCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATAGTGG
* * *** * *
93022928 CCTGCACTTAGTACCACACATGTGATCGAAGCTATCAGGTACGCATAGTAG
1 CCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATAGTGG
* * * * * * * * *
93022979 CTTGCACTTAGTACTACACACGTGACCTAAAACCAT-TTTAAACACATAGTAG
1 CCTGCACATAGTACCACACATGTGATC-AAAGCTATCTTT-TACACATAGTGG
* *
93023031 CCTGCACATAGTACTATACATGTG
1 CCTGCACATAGTACCACACATGTG
93023055 TTCTCACGAC
Statistics
Matches: 141, Mismatches: 33, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
50 2 0.01
51 103 0.73
52 36 0.26
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
CCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATAGTGG
Found at i:93025881 original size:104 final size:103
Alignment explanation
Indices: 93025736--93025928 Score: 287
Period size: 104 Copynumber: 1.9 Consensus size: 103
93025726 TTGAAAATAA
* * * *
93025736 TATGCGAAGTGTGAGTCTGTCAAATGTGAGAGCTCAACAACATGTGGAAGCTTAGTGTGAGCTAT
1 TATGCAAAGTGTGAGCCTGTCAAAGGTGAGAGCTCAACAACATGTGGAAGCTCAGTGTGAGCTAT
93025801 AAAGGTGCGAGCCTATTGAAGACACATGTTGAAGACAG
66 AAAGGTGCGAGCCTATTGAAGACACATGTTGAAGACAG
* * * *
93025839 TATGCAAATGTGTGAGCCTGTCAAAGGTGCGAGCTTAGCAACATGTGGAAGCTCAGTGTGAGCTG
1 TATGCAAA-GTGTGAGCCTGTCAAAGGTGAGAGCTCAACAACATGTGGAAGCTCAGTGTGAGCTA
* *
93025904 TAAAGTTGCGAGCCTGTTGAAGACA
65 TAAAGGTGCGAGCCTATTGAAGACA
93025929 ATGAGCCAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
103 7 0.09
104 72 0.91
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (103 bp):
TATGCAAAGTGTGAGCCTGTCAAAGGTGAGAGCTCAACAACATGTGGAAGCTCAGTGTGAGCTAT
AAAGGTGCGAGCCTATTGAAGACACATGTTGAAGACAG
Found at i:93025979 original size:65 final size:64
Alignment explanation
Indices: 93025902--93026022 Score: 172
Period size: 65 Copynumber: 1.9 Consensus size: 64
93025892 CAGTGTGAGC
* * * *
93025902 TGTAAAGTTGCGAGCCTGTTGAAGACAATGAGCCAAATGTGCGAG-CTATCAAAGTGTACGAGCC
1 TGTAAAGTTGCGAGCATGTTAAAGACAATAAG--AAAAGTGCGAGCCTATCAAAGTGTACGAGCC
93025966 T
64 T
*
93025967 TGTAAAGTTGCGAGCATGTTAAAGATAATAAGAAAAGTGCGAGCCTATCAAAGTGT
1 TGTAAAGTTGCGAGCATGTTAAAGACAATAAGAAAAGTGCGAGCCTATCAAAGTGT
93026023 GAGCCTATCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 10 0.20
64 12 0.24
65 28 0.56
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (64 bp):
TGTAAAGTTGCGAGCATGTTAAAGACAATAAGAAAAGTGCGAGCCTATCAAAGTGTACGAGCCT
Found at i:93026021 original size:16 final size:16
Alignment explanation
Indices: 93026000--93026031 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93025990 GATAATAAGA
93026000 AAAGTGCGAGCCTATC
1 AAAGTGCGAGCCTATC
*
93026016 AAAGTGTGAGCCTATC
1 AAAGTGCGAGCCTATC
93026032 GAATTGCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (16 bp):
AAAGTGCGAGCCTATC
Found at i:93027401 original size:25 final size:26
Alignment explanation
Indices: 93027367--93027419 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
93027357 AGTTATTTTG
93027367 TTTTGTTTACTTTGTTATTACAAACT
1 TTTTGTTTACTTTGTTATTACAAACT
* *
93027393 TTTTG-TTACTTTTTTATTACAAGCT
1 TTTTGTTTACTTTGTTATTACAAACT
93027418 TT
1 TT
93027420 GTAACTAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (26 bp):
TTTTGTTTACTTTGTTATTACAAACT
Found at i:93031666 original size:29 final size:29
Alignment explanation
Indices: 93031624--93031685 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
93031614 TTTAAGGTTT
*
93031624 AATTTGATATCTAAAGTTAATTTTGATCC
1 AATTAGATATCTAAAGTTAATTTTGATCC
* *
93031653 AATTAGATATCTAAAGTTTATTTTGGTCC
1 AATTAGATATCTAAAGTTAATTTTGATCC
93031682 AATT
1 AATT
93031686 TTTACTATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (29 bp):
AATTAGATATCTAAAGTTAATTTTGATCC
Found at i:93033292 original size:11 final size:11
Alignment explanation
Indices: 93033278--93033315 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
93033268 TATAAATTTC
93033278 TAAAATATTAT
1 TAAAATATTAT
93033289 T-AAATATTAT
1 TAAAATATTAT
* *
93033299 AAAAATATTAA
1 TAAAATATTAT
93033310 TAAAAT
1 TAAAAT
93033316 TAATAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:93033295 original size:10 final size:10
Alignment explanation
Indices: 93033280--93033322 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
93033270 TAAATTTCTA
*
93033280 AAATATTATT
1 AAATATTAAT
*
93033290 AAATATTATAA
1 AAATATTA-AT
93033301 AAATATTAAT
1 AAATATTAAT
93033311 AAA-ATTAAT
1 AAATATTAAT
93033320 AAA
1 AAA
93033323 AACCATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 9 0.31
10 12 0.41
11 8 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATATTAAT
Found at i:93033304 original size:21 final size:21
Alignment explanation
Indices: 93033279--93033324 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
93033269 ATAAATTTCT
*
93033279 AAAATATTATTAAATATT-ATA
1 AAAATATTAATAAA-ATTAATA
93033300 AAAATATTAATAAAATTAATA
1 AAAATATTAATAAAATTAATA
93033321 AAAA
1 AAAA
93033325 CCATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATATTAATAAAATTAATA
Found at i:93033488 original size:24 final size:23
Alignment explanation
Indices: 93033460--93033506 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
93033450 AATTAATTAG
93033460 AAATTTAATATTTTTAAAAAAATT
1 AAATTT-ATATTTTTAAAAAAATT
* * *
93033484 AAATTTTTATTTTTTAAATAATT
1 AAATTTATATTTTTAAAAAAATT
93033507 TTGAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATTTATATTTTTAAAAAAATT
Found at i:93035098 original size:39 final size:39
Alignment explanation
Indices: 93035055--93035134 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
93035045 TGTTTTCGTT
* *
93035055 GTGGTTGTCACAATTATTGTAGAATTGCCTACTTTCACA
1 GTGGTTGTCACAATTATTGTAGAAGTGCCCACTTTCACA
93035094 GTGGTTGTCACAATTATTGTAGAAGTGCCCACTTTCACA
1 GTGGTTGTCACAATTATTGTAGAAGTGCCCACTTTCACA
93035133 GT
1 GT
93035135 CACGTCTGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (39 bp):
GTGGTTGTCACAATTATTGTAGAAGTGCCCACTTTCACA
Found at i:93042582 original size:2 final size:2
Alignment explanation
Indices: 93042571--93042604 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
93042561 GCGATCCCTT
93042571 TC TC TC -C 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 TC T
93042605 TTTTTAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:93043935 original size:3 final size:3
Alignment explanation
Indices: 93043927--93043961 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
93043917 TTAAAACAGA
93043927 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
93043962 ATATTATCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93056083 original size:15 final size:14
Alignment explanation
Indices: 93056063--93056093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
93056053 TACTGCCTCC
93056063 ATTATTTAATTTCTT
1 ATTATTTAATTT-TT
93056078 ATTATTTAATTTTT
1 ATTATTTAATTTTT
93056092 AT
1 AT
93056094 ATCATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATTTAATTTTT
Found at i:93058136 original size:92 final size:92
Alignment explanation
Indices: 93058003--93058190 Score: 376
Period size: 92 Copynumber: 2.0 Consensus size: 92
93057993 ATTATTGCAG
93058003 TTCAAATATGCACAAATTGAAAATTTTGCAGCAAATAAGCAAGTAAACGAAAAAATTTCAATAAA
1 TTCAAATATGCACAAATTGAAAATTTTGCAGCAAATAAGCAAGTAAACGAAAAAATTTCAATAAA
93058068 AGTTATAGATGAAAACAAAAGCTATTA
66 AGTTATAGATGAAAACAAAAGCTATTA
93058095 TTCAAATATGCACAAATTGAAAATTTTGCAGCAAATAAGCAAGTAAACGAAAAAATTTCAATAAA
1 TTCAAATATGCACAAATTGAAAATTTTGCAGCAAATAAGCAAGTAAACGAAAAAATTTCAATAAA
93058160 AGTTATAGATGAAAACAAAAGCTATTA
66 AGTTATAGATGAAAACAAAAGCTATTA
93058187 TTCA
1 TTCA
93058191 CACAAGAAGC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 96 1.00
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.26
Consensus pattern (92 bp):
TTCAAATATGCACAAATTGAAAATTTTGCAGCAAATAAGCAAGTAAACGAAAAAATTTCAATAAA
AGTTATAGATGAAAACAAAAGCTATTA
Found at i:93067348 original size:18 final size:18
Alignment explanation
Indices: 93067325--93067362 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
93067315 GCAATCCATA
93067325 TTTGGAAAACTTCAGCAG
1 TTTGGAAAACTTCAGCAG
93067343 TTTGGAAAACTTCAGCAG
1 TTTGGAAAACTTCAGCAG
93067361 TT
1 TT
93067363 ATCATATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (18 bp):
TTTGGAAAACTTCAGCAG
Found at i:93073492 original size:34 final size:33
Alignment explanation
Indices: 93073453--93073630 Score: 138
Period size: 34 Copynumber: 5.5 Consensus size: 33
93073443 TAAACATATA
*
93073453 AACAATCGATTTAAAAGAAGCAGTATTCTAACAT
1 AACAATCGATTTAAAAGAAGCAATATTC-AACAT
* ** * *
93073487 AACAATCAATTTAAACA-AATAAATAATCGAC-T
1 AACAATCGATTTAAA-AGAAGCAATATTCAACAT
*
93073519 CAA-AA--GA---AAAAGAAGCAATATTCCACCAT
1 -AACAATCGATTTAAAAGAAGCAATATT-CAACAT
*
93073548 AACAATCGATTTAAAAGAAGCAATATTCCACCAT
1 AACAATCGATTTAAAAGAAGCAATATT-CAACAT
* * *
93073582 AACAATCGATTTAAAAGAAACAGTATTACAGCAT
1 AACAATCGATTTAAAAGAAGCAATATT-CAACAT
*
93073616 GACAATCGATTTAAA
1 AACAATCGATTTAAA
93073631 CATACAAACA
Statistics
Matches: 116, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.01
27 10 0.09
28 4 0.03
29 3 0.03
30 1 0.01
31 2 0.02
32 3 0.03
33 4 0.03
34 87 0.75
35 1 0.01
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.23
Consensus pattern (33 bp):
AACAATCGATTTAAAAGAAGCAATATTCAACAT
Found at i:93074086 original size:5 final size:5
Alignment explanation
Indices: 93074076--93074105 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
93074066 AATATGTTCA
93074076 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
93074106 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:93074468 original size:23 final size:23
Alignment explanation
Indices: 93074432--93074477 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
93074422 ATAATGTTAT
** * *
93074432 TATTTTTTTTCCTTTAATTTTTC
1 TATTTTTTACCCTTCAACTTTTC
93074455 TATTTTTTACCCTTCAACTTTTC
1 TATTTTTTACCCTTCAACTTTTC
93074478 CTTACACATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTTTTTACCCTTCAACTTTTC
Found at i:93075472 original size:460 final size:458
Alignment explanation
Indices: 93074614--93075502 Score: 1119
Period size: 460 Copynumber: 1.9 Consensus size: 458
93074604 GTTCTCAAAC
* * * ** * *
93074614 TTTCATCCATATCAGGAGGATAAGATCGTATAATGAAACTTTTTGGCATTATTTTGGGGGAACTG
1 TTTCATCCATATCAAGAGGATAAGATCGTACAAGGAAACTTCCTAGCATTATTTTGGGAGAACTG
* * * * *
93074679 TTTCCTTTTTCATTTTTTGGATTGTTAATGGAGTAACTCATGGGACTGAACTTCAGTTGGAATGG
66 ATTCCTTTTTCATTGTTTGGACTGTTAATGGAGGAACTCATGGGACTGAACATCAGTTGGAATGG
* * *
93074744 ATAGGTTTTGAGCAATTTTTTTTTTTTACAGATTTGGGTTAGTTCCTAACAAAGGAAATTTCTGA
131 ATAGGTTTTGAACAATTTTTTTTTTTTACAGATTTAGGTTAGTTCCTAACAAAGGAAATTTCTAA
* * ** * *
93074809 ACTAAAGCTCTAAATTTCTCAGATTAGACTAAATTTTTACAAAGATTTTTTTCTTTTGTTTCGAA
196 ACTAAAGCTCTAAATTTCTCAAATTAGACTAAATTTTTACAAAAAACTTTTTCTTTTGTTGCAAA
* *
93074874 TTTGCTTCAGCATGTAATAAAGAAAATTTCAAATTTTGGGGTTGGGTCCAACACATGCATTCCAT
261 TTTGCTTCAGCATGCAATAAAGAAAATTTCAAATTTTGGGGTTGGGTCCAACACATGCATGCCAT
* ** * * * *
93074939 AACTGTGAATTTAAGTTTTTCTCTGATTCCTTCATCAATTTTTCAATTTAGACTTTGAAAACAAA
326 AACTGTGAATCTAAACTCTTCTCTGATTCATTCACCAATTTTTCAATTCAGACTTTGAAAACAAA
* *
93075004 AAAGAAAAAAGAAAACCCAAAACTTAGCTATGAATTTAAACTTGAAAAAAATTTAAACCAATTCA
391 AAAGAAAAAAGAAAACCCAAAAATTAGCTATAAATTTAAACTTGAAAAAAATTTAAACCAATTCA
93075069 TTA
456 TTA
* * *
93075072 TTTCATCCATGTCAAGAGGATAAGATCGTACAAGGAGACTTCCTAGCATTATTTT-GGAGAGCT-
1 TTTCATCCATATCAAGAGGATAAGATCGTACAAGGAAACTTCCTAGCATTATTTTGGGAGAACTG
* * *
93075135 ATTCC-TTTTC-TTGTTTGGACTGTTGATGGAGGAACTCATAGGG-TTGAGCATC-GATTGGAAT
66 ATTCCTTTTTCATTGTTTGGACTGTTAATGGAGGAACTCAT-GGGACTGAACATCAG-TTGGAAT
* * **
93075196 GGATGGGTTTTTAACAAATATATTTTTTATTTTATTGATTTAGGTTAGTTCCTAACAAAGGAAAT
129 GGATAGGTTTTGAAC-AAT-T-TTTTTT-TTTTACAGATTTAGGTTAGTTCCTAACAAAGGAAAT
* * *
93075261 TTCTAAACTAAAGCTTTAAATTT-TGCAAATTGGACTAAGTGTTTTACAAGAAAACTTTTTCTTT
190 TTCTAAACTAAAGCTCTAAATTTCT-CAAATTAGACTAAAT-TTTTACAA-AAAACTTTTTCTTT
* *** * * *
93075325 TGTTGCAAATTTGTTTCATTGTGCAGTAAAGAAAATTTCAAATTTTGGGGTTGGGTTCAGCACAT
252 TGTTGCAAATTTGCTTCAGCATGCAATAAAGAAAATTTCAAATTTTGGGGTTGGGTCCAACACAT
* * * *
93075390 GCATGCCATAGCTGTGGATCTAAACTCTTCTCTGATTCATTCACCGATTTTTCGATTCAG-CATT
317 GCATGCCATAACTGTGAATCTAAACTCTTCTCTGATTCATTCACCAATTTTTCAATTCAGAC-TT
*
93075454 TGAAAACAAAGAAGAAAAAAGAAAACCCAAAAATTAGCTATAAATTTAA
381 TGAAAACAAAAAAGAAAAAAGAAAACCCAAAAATTAGCTATAAATTTAA
93075503 GCTTAAGAAA
Statistics
Matches: 364, Mismatches: 57, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
453 1 0.00
454 50 0.14
455 11 0.03
456 5 0.01
457 13 0.04
458 113 0.31
459 9 0.02
460 162 0.45
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (458 bp):
TTTCATCCATATCAAGAGGATAAGATCGTACAAGGAAACTTCCTAGCATTATTTTGGGAGAACTG
ATTCCTTTTTCATTGTTTGGACTGTTAATGGAGGAACTCATGGGACTGAACATCAGTTGGAATGG
ATAGGTTTTGAACAATTTTTTTTTTTTACAGATTTAGGTTAGTTCCTAACAAAGGAAATTTCTAA
ACTAAAGCTCTAAATTTCTCAAATTAGACTAAATTTTTACAAAAAACTTTTTCTTTTGTTGCAAA
TTTGCTTCAGCATGCAATAAAGAAAATTTCAAATTTTGGGGTTGGGTCCAACACATGCATGCCAT
AACTGTGAATCTAAACTCTTCTCTGATTCATTCACCAATTTTTCAATTCAGACTTTGAAAACAAA
AAAGAAAAAAGAAAACCCAAAAATTAGCTATAAATTTAAACTTGAAAAAAATTTAAACCAATTCA
TTA
Found at i:93075751 original size:6 final size:6
Alignment explanation
Indices: 93075740--93075785 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
93075730 CTAGGGTGGA
*
93075740 AAAATG AAAATG AAAAATG AAAAAG AGAGAATG AAAATG AAAATG A
1 AAAATG AAAATG -AAAATG AAAATG A-A-AATG AAAATG AAAATG A
93075786 TCTATAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 23 0.66
7 8 0.23
8 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (6 bp):
AAAATG
Found at i:93083025 original size:16 final size:16
Alignment explanation
Indices: 93083004--93083070 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
93082994 ATTTTTACAC
93083004 AAATAATATA-AAAAAT
1 AAATAAT-TACAAAAAT
93083020 AAATAATTACAAAAAT
1 AAATAATTACAAAAAT
* * *
93083036 GAGACAAGTA-AAAAAT
1 -AAATAATTACAAAAAT
93083052 ---TAATTACAAAAAT
1 AAATAATTACAAAAAT
93083065 AAATAA
1 AAATAA
93083071 AATAAACAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
12 4 0.10
13 6 0.15
15 2 0.05
16 22 0.55
17 6 0.15
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (16 bp):
AAATAATTACAAAAAT
Found at i:93083076 original size:29 final size:28
Alignment explanation
Indices: 93082998--93083076 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
93082988 CACATGATTT
* *
93082998 TTACACAAATAATATAAAA-AATAAATAA
1 TTACAAAAATAA-ATAAAATAAAAAATAA
* * *
93083026 TTACAAAAATGAGA-CAAGTAAAAAATTAA
1 TTACAAAAAT-AAATAAAATAAAAAA-TAA
93083055 TTACAAAAATAAATAAAATAAA
1 TTACAAAAATAAATAAAATAAA
93083077 CAGTTTTTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (28 bp):
TTACAAAAATAAATAAAATAAAAAATAA
Found at i:93084909 original size:13 final size:14
Alignment explanation
Indices: 93084891--93084923 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
93084881 TTCAGTTTAC
*
93084891 TTATTTTTTGTA-A
1 TTATTTTTTATATA
93084904 TTATTTTTTATATA
1 TTATTTTTTATATA
93084918 TTATTT
1 TTATTT
93084924 GCGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTTTTATATA
Found at i:93085668 original size:17 final size:17
Alignment explanation
Indices: 93085646--93085683 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
93085636 AAAATGACAC
93085646 ACATAGACATTTTAGGT
1 ACATAGACATTTTAGGT
93085663 ACATAGACATTTTAGGT
1 ACATAGACATTTTAGGT
93085680 ACAT
1 ACAT
93085684 GCCATTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (17 bp):
ACATAGACATTTTAGGT
Found at i:93086200 original size:18 final size:18
Alignment explanation
Indices: 93086169--93086233 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
93086159 TATCAATATC
*
93086169 ATTCAGTAATAATCA-TT
1 ATTCAGTAACAATCAGTT
* *
93086186 TTCTCAGTAGCAATCAGTT
1 AT-TCAGTAACAATCAGTT
*
93086205 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAGTT
*
93086223 ATTCAATAACA
1 ATTCAGTAACA
93086234 GTTAGTCGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.03
18 35 0.90
19 3 0.08
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAGTT
Found at i:93086607 original size:24 final size:24
Alignment explanation
Indices: 93086561--93086617 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
93086551 AATAGGGTAT
*
93086561 TCAATTCACTTTTAATTTTATCAA
1 TCAATTCACTTTTAATTTAATCAA
*
93086585 TCAATTTACATTTTAA-TTAATCACA
1 TCAATTCAC-TTTTAATTTAATCA-A
*
93086610 TAAATTCA
1 TCAATTCA
93086618 TAATTCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.46
Consensus pattern (24 bp):
TCAATTCACTTTTAATTTAATCAA
Found at i:93087614 original size:17 final size:15
Alignment explanation
Indices: 93087586--93087619 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
93087576 TCACTATTTC
93087586 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
93087601 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
93087618 TC
1 TC
93087620 TTTCTCCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:93087943 original size:3 final size:3
Alignment explanation
Indices: 93087935--93087969 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
93087925 AATTTATTTG
93087935 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
93087970 TTAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:93088478 original size:26 final size:24
Alignment explanation
Indices: 93088441--93088496 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
93088431 GTGTTCTTGG
*
93088441 TTCTTTTTTATTTT-TATTTAGTTTTT
1 TTCTTTTGTATTTTCT-TTTA--TTTT
93088467 TTCTTTTGTATTTTCTTTTATTTT
1 TTCTTTTGTATTTTCTTTTATTTT
93088491 TTCTTT
1 TTCTTT
93088497 CTCTTCGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 10 0.36
26 17 0.61
27 1 0.04
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (24 bp):
TTCTTTTGTATTTTCTTTTATTTT
Found at i:93095652 original size:13 final size:14
Alignment explanation
Indices: 93095631--93095669 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
93095621 AAAATATTTC
93095631 TCAAAAACACTTTT
1 TCAAAAACACTTTT
*
93095645 TC-ATAACA-TTTT
1 TCAAAAACACTTTT
93095657 TCAAAAACACTTT
1 TCAAAAACACTTT
93095670 ATAAAAGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 5 0.24
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TCAAAAACACTTTT
Found at i:93097179 original size:21 final size:22
Alignment explanation
Indices: 93097136--93097191 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
93097126 AAATTATGTT
* *
93097136 TTAAATATTT-AAATATAATTA
1 TTAAATATTTGTAATATAAATA
93097157 TTAAATATTTGTAAT-TAAATA
1 TTAAATATTTGTAATATAAATA
*
93097178 TTAATATAGTTGTA
1 TTAA-ATATTTGTA
93097192 TTATTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TTAAATATTTGTAATATAAATA
Found at i:93102009 original size:20 final size:19
Alignment explanation
Indices: 93101950--93102015 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
93101940 AAAATATAAT
93101950 TTTTAGAATTTTTATAAA-TA
1 TTTT-GAATTTTTA-AAATTA
93101970 TTTTGAA-TTTTAAAACTTA
1 TTTTGAATTTTTAAAA-TTA
93101989 TTTTGAATTTTTGAAAATTA
1 TTTTGAATTTTT-AAAATTA
93102009 TTTTGAA
1 TTTTGAA
93102016 CTATTTTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 12 0.29
20 18 0.43
21 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:93102482 original size:36 final size:36
Alignment explanation
Indices: 93102465--93102555 Score: 173
Period size: 36 Copynumber: 2.5 Consensus size: 36
93102455 TATATATGTA
93102465 TATAAATTGAAAATAAAAAACATAAAAAATAATATG
1 TATAAATTGAAAATAAAAAACATAAAAAATAATATG
93102501 TATAAATTGAAAATAAAAAACATAAAAAATAATATG
1 TATAAATTGAAAATAAAAAACATAAAAAATAATATG
*
93102537 TATAATTTGAAAATAAAAA
1 TATAAATTGAAAATAAAAA
93102556 TATCAAATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.26
Consensus pattern (36 bp):
TATAAATTGAAAATAAAAAACATAAAAAATAATATG
Found at i:93102515 original size:20 final size:20
Alignment explanation
Indices: 93102490--93102552 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
93102480 AAAAACATAA
93102490 AAAATAATATGTATAAATTG
1 AAAATAATATGTATAAATTG
**
93102510 AAAATAA-A---A-AACATAA
1 AAAATAATATGTATAA-ATTG
*
93102526 AAAATAATATGTATAATTTG
1 AAAATAATATGTATAAATTG
93102546 AAAATAA
1 AAAATAA
93102553 AAATATCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.31
17 1 0.03
19 1 0.03
20 16 0.50
21 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAATAATATGTATAAATTG
Found at i:93102854 original size:23 final size:24
Alignment explanation
Indices: 93102806--93102861 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
93102796 TCTAAAAAAA
* * *
93102806 TTTACTTTTATTTATTTGTATATT
1 TTTAATTTTATTTAGTTATATATT
93102830 TTTAATTTTATTT-GTTATATATT
1 TTTAATTTTATTTAGTTATATATT
93102853 TTTAGATTT
1 TTTA-ATTT
93102862 AAAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTAATTTTATTTAGTTATATATT
Found at i:93103004 original size:19 final size:21
Alignment explanation
Indices: 93102977--93103016 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93102967 AATCTCCCTT
93102977 AAAAGTTTTAA-TTTTTTTTC
1 AAAAGTTTTAAGTTTTTTTTC
93102997 AAAA-TTTTAAGGTTTTTTTT
1 AAAAGTTTTAA-GTTTTTTTT
93103017 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (21 bp):
AAAAGTTTTAAGTTTTTTTTC
Found at i:93106026 original size:19 final size:19
Alignment explanation
Indices: 93106004--93106072 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 19
93105994 ACAAAAATTT
93106004 TAATTTTAATTATATTAAA
1 TAATTTTAATTATATTAAA
*
93106023 TAATTATTATTTACATATTTAAA
1 TAATT-TTAATT--ATA-TTAAA
* *
93106046 TATTTTTATATTATATATACA
1 TAATTTTA-ATTATAT-TAAA
93106067 TAATTT
1 TAATTT
93106073 AAAATTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 5 0.13
20 6 0.15
21 11 0.28
22 6 0.15
23 11 0.28
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATTTTAATTATATTAAA
Found at i:93106059 original size:30 final size:30
Alignment explanation
Indices: 93106025--93106085 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
93106015 ATATTAAATA
*
93106025 ATTATTATTTACAT-ATTTAAATATTTT-TAT
1 ATTA-TATATACATAATTTAAA-ATTTTATAT
93106055 ATTATATATACATAATTTAAAATTTTATAT
1 ATTATATATACATAATTTAAAATTTTATAT
93106085 A
1 A
93106086 ATAATTCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTATATATACATAATTTAAAATTTTATAT
Found at i:93106063 original size:23 final size:23
Alignment explanation
Indices: 93106014--93106063 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
93106004 TAATTTTAAT
93106014 TATA-TTAAATAATTATTATTTA
1 TATATTTAAATAATTATTATTTA
* *
93106036 CATATTTAAAT-ATTTTTATATTA
1 TATATTTAAATAATTATTAT-TTA
93106059 TATAT
1 TATAT
93106064 ACATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATTTAAATAATTATTATTTA
Found at i:93107184 original size:24 final size:24
Alignment explanation
Indices: 93107135--93107180 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
93107125 AATATGTATA
**
93107135 ATAATATCATAAAATATTATTAAC
1 ATAATATCATAAAATACAATTAAC
93107159 ATAATAT-ATAAAATACAATTAA
1 ATAATATCATAAAATACAATTAA
93107181 ACATGCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATATCATAAAATACAATTAAC
Found at i:93107373 original size:21 final size:20
Alignment explanation
Indices: 93107344--93107383 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
93107334 TTAAAAAATA
93107344 TATTTATATATAA-TATATAG
1 TATTTATATA-AATTATATAG
93107364 TATTTAATATAAATTATATA
1 TATTT-ATATAAATTATATA
93107384 AAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TATTTATATAAATTATATAG
Found at i:93113611 original size:10 final size:10
Alignment explanation
Indices: 93113596--93113626 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
93113586 GTGACGATTT
93113596 TAAAAAAAAA
1 TAAAAAAAAA
93113606 TAAAAAAAAA
1 TAAAAAAAAA
*
93113616 TGAAAAAAAA
1 TAAAAAAAAA
93113626 T
1 T
93113627 CAAATTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:93115195 original size:29 final size:30
Alignment explanation
Indices: 93115160--93115216 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
93115150 ATGGTACATC
93115160 AAATATA-ATTATTATTTTTAAAGATATAT
1 AAATATATATTATTATTTTTAAAGATATAT
* * *
93115189 AAATATATTTTTTTATTTTTTAAGATAT
1 AAATATATATTATTATTTTTAAAGATAT
93115217 CTACTATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
AAATATATATTATTATTTTTAAAGATATAT
Found at i:93118888 original size:102 final size:105
Alignment explanation
Indices: 93118710--93118947 Score: 266
Period size: 107 Copynumber: 2.3 Consensus size: 105
93118700 TATGATTTGG
** ** * * *
93118710 ATTAAAGTGCATGATTATTGTTTGGTTATTGTACATGACAGAAATGGATTTTTTTGTATTAAATT
1 ATTAAAGTGTTTGATTATTGTTT-GCCA-TGTACATGACAAAAATAGATTTGTTTGTATTAAATT
* * *
93118775 ATTT-TTGT-T-TTGGTTATTGTCTACCATTGCCTCGGTTGT
64 ATTTGTTGTGTATTGGTTATTATATACCATTGCCTAGGTTGT
* *
93118814 ATTAAAGTGTTTGGTTATTGTTTGCCATGTATATGACAAAAATAGATTTGTTTGTATTAAATTAT
1 ATTAAAGTGTTTGATTATTGTTTGCCATGTACATGACAAAAATAGATTTGTTTGTATTAAATTAT
* ***
93118879 TTGGTTTTTGTATTGGTTATTATATGTTATTGCCTAGGTTGT
66 TT-G-TTGTGTATTGGTTATTATATACCATTGCCTAGGTTGT
*
93118921 ATTAAAGTGTTTGATTATTTTTTGCCA
1 ATTAAAGTGTTTGATTATTGTTTGCCA
93118948 CTACCTTTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
102 36 0.32
103 2 0.02
104 20 0.18
105 3 0.03
106 1 0.01
107 49 0.44
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (105 bp):
ATTAAAGTGTTTGATTATTGTTTGCCATGTACATGACAAAAATAGATTTGTTTGTATTAAATTAT
TTGTTGTGTATTGGTTATTATATACCATTGCCTAGGTTGT
Found at i:93123557 original size:21 final size:20
Alignment explanation
Indices: 93123541--93123617 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
93123531 GTTCAGCACG
*
93123541 AAGCTACCCCAACTCAGTAA
1 AAGCTACCCCAACTCAGCAA
* * *
93123561 TAACCTACTCTAACTCAGCAAA
1 -AAGCTACCCCAACTCAGC-AA
* *
93123583 AAGCTGCCCCAACTCATCAA
1 AAGCTACCCCAACTCAGCAA
*
93123603 CAAACTACCCCAACT
1 -AAGCTACCCCAACT
93123618 TACCAACAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.39, C:0.38, G:0.06, T:0.17
Consensus pattern (20 bp):
AAGCTACCCCAACTCAGCAA
Found at i:93124190 original size:7 final size:7
Alignment explanation
Indices: 93124178--93124207 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
93124168 TGGCATTAGT
93124178 CTTTCAA
1 CTTTCAA
93124185 CTTTCAA
1 CTTTCAA
93124192 CTTTCAA
1 CTTTCAA
93124199 CTTTCAA
1 CTTTCAA
93124206 CT
1 CT
93124208 AAAACATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (7 bp):
CTTTCAA
Found at i:93130538 original size:21 final size:21
Alignment explanation
Indices: 93130512--93130557 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
93130502 ATTAGAGAAA
93130512 AAGTGGTAAATGGCACCATAC
1 AAGTGGTAAATGGCACCATAC
**
93130533 AAGTGGTCGATGGCACCATAC
1 AAGTGGTAAATGGCACCATAC
93130554 AAGT
1 AAGT
93130558 TAACTTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (21 bp):
AAGTGGTAAATGGCACCATAC
Found at i:93131814 original size:14 final size:14
Alignment explanation
Indices: 93131795--93131824 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
93131785 ATAAGTACAG
93131795 TAGAGGCTTATTTA
1 TAGAGGCTTATTTA
93131809 TAGAGGCTTATTTA
1 TAGAGGCTTATTTA
93131823 TA
1 TA
93131825 CTGAGCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TAGAGGCTTATTTA
Found at i:93138297 original size:3 final size:3
Alignment explanation
Indices: 93138289--93138318 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
93138279 GATACCTTAA
93138289 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
93138319 TACACATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:93139785 original size:45 final size:45
Alignment explanation
Indices: 93139680--93139813 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 45
93139670 TCCAATCACT
* * * * *
93139680 CCAA-ATTTACAGATAAGCTGCTAAGTAGGTTGTGGAT-AAACCA
1 CCAATATTCACAGACAAGCTGCCATGTAGGTTGTGGATGAAGCCA
* ** *
93139723 CTAATATTTGCAGACAAGTTGCCATGTAGGTTGTGGATGAAGCCA
1 CCAATATTCACAGACAAGCTGCCATGTAGGTTGTGGATGAAGCCA
* * *
93139768 CCAATATTCATAGACAAGCTGTCATATAGGTTGTGGATGAAGCCA
1 CCAATATTCACAGACAAGCTGCCATGTAGGTTGTGGATGAAGCCA
93139813 C
1 C
93139814 TAATTCTTCC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
43 3 0.04
44 28 0.37
45 44 0.59
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (45 bp):
CCAATATTCACAGACAAGCTGCCATGTAGGTTGTGGATGAAGCCA
Found at i:93140144 original size:20 final size:21
Alignment explanation
Indices: 93140088--93140145 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
93140078 AGATAGGGGC
93140088 ACATGCCCGTGTGGCCT-AAT
1 ACATGCCCGTGTGGCCTGAAT
* * *
93140108 ACACGCCCGTGTAGCCTGGA-
1 ACATGCCCGTGTGGCCTGAAT
*
93140128 ACATGCCCGTGCGGCCTG
1 ACATGCCCGTGTGGCCTG
93140146 CCCATGGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.19
Consensus pattern (21 bp):
ACATGCCCGTGTGGCCTGAAT
Found at i:93140691 original size:13 final size:13
Alignment explanation
Indices: 93140673--93140709 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
93140663 AGATAATTAG
93140673 CAAATCATACATA
1 CAAATCATACATA
93140686 CAAATCATACATA
1 CAAATCATACATA
*
93140699 TAAATTCATAC
1 CAAA-TCATAC
93140710 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:93154576 original size:19 final size:20
Alignment explanation
Indices: 93154549--93154591 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
93154539 TCTTTTTGCA
* *
93154549 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
93154569 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
93154588 TTCA
1 TTCA
93154592 CGAAAAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:93163111 original size:45 final size:44
Alignment explanation
Indices: 93163030--93163143 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
93163020 AATTACCAAG
* * * *
93163030 TCTTATTTCCCTGAAGTTGCAGTGGAATAGACTAAAGATAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAACAGACTAAAGAT-ACAAA
* * * *
93163075 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAACAGACTAAAGATACAAA
**
93163119 TCCCATAC-CTCTGAAGTTGCAGTAG
1 TCTTAT-CTCTCTGAAGTTGCAGTAG
93163144 GTCGGATCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 25 0.43
45 33 0.57
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAACAGACTAAAGATACAAA
Found at i:93163247 original size:44 final size:44
Alignment explanation
Indices: 93163163--93163247 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
93163153 AGTTACCATG
* * * * **
93163163 GCAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTC
1 GCAAACCTCATCTCCCTGAAGATGCAGTGGAACAGATTGAAGTC
*
93163207 GCAAACCTCATCTCCCTGAAGATGCAGTGGAACAGGTTGAA
1 GCAAACCTCATCTCCCTGAAGATGCAGTGGAACAGATTGAA
93163248 ATTATCAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
GCAAACCTCATCTCCCTGAAGATGCAGTGGAACAGATTGAAGTC
Found at i:93163249 original size:227 final size:225
Alignment explanation
Indices: 93162838--93163261 Score: 595
Period size: 227 Copynumber: 1.9 Consensus size: 225
93162828 GAGCATATCG
* * *
93162838 AAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTAAATCCTATACATCT
1 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAAATCCCATACATCT
*
93162903 GAAGATGCAGTGGGTCGGATCAAATCTACCATGGCAAATCTTATCTCTCTGAAATTGCAGTAGAG
66 GAAGATGCAGTAGGTCGGATCAAATCTACCATGGCAAATCTTATCTCTCTGAAATTGCAGTAGAG
* * ** *
93162968 TAGATTAAAGCCATTAGCATTATCTCCCTGAAGATACAGTGGAGTGGTTTGAAATTACCAAGTCT
131 TAGATTAAAGCCA-TAACATCATCTCCCTGAAGATACAGTGGACAGGTTTGAAATTACCAAATCT
93163033 TATTTCCCTGAAGTTGCAGTGGAATAGACTA
195 TATTTCCCTGAAGTTGCAGTGGAATAGACTA
*
93163064 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCCCATACCT
1 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC--TAAATCCCATACAT
* * * *
93163129 CTGAAGTTGCAGTAGGTCGGATCAAGT-TACCATGGCAAATCTTATCTC-CTTGAAGTTGCAGTG
64 CTGAAGATGCAGTAGGTCGGATCAAATCTACCATGGCAAATCTTATCTCTC-TGAAATTGCAGTA
* * * *
93163192 GAGTAGATTGAAGTCGCA-AACCTCATCTCCCTGAAGATGCAGTGGAACAGG-TTGAAATTATCA
128 GAGTAGATTAAAG-C-CATAACATCATCTCCCTGAAGATACAGTGG-ACAGGTTTGAAATTACCA
93163255 AATCTTA
190 AATCTTA
93163262 GCCCTTTGAA
Statistics
Matches: 174, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
226 48 0.28
227 84 0.48
228 40 0.23
229 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (225 bp):
AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAAATCCCATACATCT
GAAGATGCAGTAGGTCGGATCAAATCTACCATGGCAAATCTTATCTCTCTGAAATTGCAGTAGAG
TAGATTAAAGCCATAACATCATCTCCCTGAAGATACAGTGGACAGGTTTGAAATTACCAAATCTT
ATTTCCCTGAAGTTGCAGTGGAATAGACTA
Found at i:93164824 original size:22 final size:22
Alignment explanation
Indices: 93164799--93164843 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
93164789 CTATTATATG
93164799 TATTATCCATTTTAAATTGTTT
1 TATTATCCATTTTAAATTGTTT
** *
93164821 TATTATGTATTTTAAATTTTTT
1 TATTATCCATTTTAAATTGTTT
93164843 T
1 T
93164844 TTGTATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (22 bp):
TATTATCCATTTTAAATTGTTT
Found at i:93164851 original size:23 final size:22
Alignment explanation
Indices: 93164807--93164849 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
93164797 TGTATTATCC
93164807 ATTTTAAATTGTTTTATTATGT
1 ATTTTAAATTGTTTTATTATGT
93164829 ATTTTAAATT-TTTT-TT-TGT
1 ATTTTAAATTGTTTTATTATGT
93164848 AT
1 AT
93164850 GTTATTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 4 0.19
22 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
ATTTTAAATTGTTTTATTATGT
Found at i:93177250 original size:17 final size:20
Alignment explanation
Indices: 93177230--93177271 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 20
93177220 TTCAATTTGA
93177230 TTTAAATCTA-A-AT-TTAT
1 TTTAAATCTATATATGTTAT
*
93177247 TTTAAGTCTATATATGTTAT
1 TTTAAATCTATATATGTTAT
93177267 TTTAA
1 TTTAA
93177272 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 2 0.10
20 9 0.43
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAAATCTATATATGTTAT
Found at i:93177293 original size:27 final size:28
Alignment explanation
Indices: 93177256--93177308 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
93177246 TTTTAAGTCT
93177256 ATATATGTTATTTTAATTTT-TTTTAAAA
1 ATATATGTTATTTT-ATTTTATTTTAAAA
93177284 ATATAT-TTATTTTATTTTATTTTAA
1 ATATATGTTATTTTATTTTATTTTAA
93177309 TATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 5 0.21
27 13 0.54
28 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
ATATATGTTATTTTATTTTATTTTAAAA
Found at i:93177819 original size:21 final size:20
Alignment explanation
Indices: 93177752--93177819 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
93177742 AACAGTAACC
*
93177752 CTAAACCCTTAAACGTGAACT
1 CTAAA-CCTTAAACTTGAACT
* *
93177773 CTGAACCTTAAATCTCGAACAT
1 CTAAACCTTAAA-CTTGAAC-T
*
93177795 -TAAACCTTAAACCTTAAACT
1 CTAAACCTTAAA-CTTGAACT
93177815 CTAAA
1 CTAAA
93177820 TCCAAACCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 8 0.22
21 28 0.76
22 1 0.03
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (20 bp):
CTAAACCTTAAACTTGAACT
Found at i:93182773 original size:29 final size:29
Alignment explanation
Indices: 93182740--93182804 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
93182730 TGCTCTATTT
93182740 TTAAATTT-TTTTTGTGT-ACATTATTGATA
1 TTAAATTTCTTTTT-T-TCACATTATTGATA
* *
93182769 TTAAATTTCTTTTTTTCACATTATTTATT
1 TTAAATTTCTTTTTTTCACATTATTGATA
93182798 TTAAATT
1 TTAAATT
93182805 CATTTCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 26 0.81
30 5 0.16
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.62
Consensus pattern (29 bp):
TTAAATTTCTTTTTTTCACATTATTGATA
Found at i:93184440 original size:22 final size:22
Alignment explanation
Indices: 93184388--93184431 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93184378 TTTTTTGAAT
* *
93184388 TTTGACTTTTGTTTCAATTGGTG
1 TTTG-CTTTTGTTCCAATTGATG
93184411 TTTGCTTTTGTTCCAATTGAT
1 TTTGCTTTTGTTCCAATTGAT
93184432 TTGTTCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.14, C:0.11, G:0.18, T:0.57
Consensus pattern (22 bp):
TTTGCTTTTGTTCCAATTGATG
Found at i:93185657 original size:22 final size:22
Alignment explanation
Indices: 93185632--93185689 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
93185622 CATGAAGCAA
93185632 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
93185654 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
93185676 TCCCATACCTCCAC
1 CCCCATACCCCCAC
93185690 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:93186255 original size:20 final size:20
Alignment explanation
Indices: 93186218--93186279 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
93186208 GCCGGAGCTC
* * *
93186218 CCCCCTCCCCTCTCTTCTTT
1 CCCCCTTCCCTGTTTTCTTT
*
93186238 CCCCCTTCCCTGTTTTCTCT
1 CCCCCTTCCCTGTTTTCTTT
** *
93186258 CCCTCCTTTTCTGTTTTTTTT
1 CCC-CCTTCCCTGTTTTCTTT
93186279 C
1 C
93186280 TTTCTTCTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (20 bp):
CCCCCTTCCCTGTTTTCTTT
Found at i:93189111 original size:19 final size:19
Alignment explanation
Indices: 93189087--93189123 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
93189077 AATTTACTCT
93189087 CTGATCAAACATACAAAAA
1 CTGATCAAACATACAAAAA
93189106 CTGATCAAACATACAAAA
1 CTGATCAAACATACAAAA
93189124 TGAACTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.22, G:0.05, T:0.16
Consensus pattern (19 bp):
CTGATCAAACATACAAAAA
Found at i:93191583 original size:22 final size:22
Alignment explanation
Indices: 93191558--93191601 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93191548 TAGTCATATA
93191558 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
93191580 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
93191602 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:93191655 original size:15 final size:16
Alignment explanation
Indices: 93191625--93191666 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
93191615 AATTTTATTT
93191625 TAATAATAAGTTTTAAA
1 TAATAATAA-TTTTAAA
93191642 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
93191657 TAA-AATAATT
1 TAATAATAATT
93191667 CACATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:93191838 original size:24 final size:24
Alignment explanation
Indices: 93191812--93191856 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
93191802 GTAATTTAGT
*
93191812 TTTTGTACTTTTA-TTTTCAAAAA
1 TTTTGTACCTTTACTTTTCAAAAA
*
93191835 TTTTGTCCCTTTACTTTTCAAA
1 TTTTGTACCTTTACTTTTCAAA
93191857 TTTGAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTTGTACCTTTACTTTTCAAAAA
Found at i:93192231 original size:14 final size:13
Alignment explanation
Indices: 93192208--93192246 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
93192198 CCAGGAAAGT
*
93192208 AAATCCTTTTCCAG
1 AAATCATTTTCC-G
93192222 AAATCATTTTCCG
1 AAATCATTTTCCG
93192235 AAAGTCATTTTC
1 AAA-TCATTTTC
93192247 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:93193227 original size:15 final size:15
Alignment explanation
Indices: 93193207--93193237 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93193197 TAAAAATATG
*
93193207 TATAAACCTAACAAA
1 TATAAACCCAACAAA
93193222 TATAAACCCAACAAA
1 TATAAACCCAACAAA
93193237 T
1 T
93193238 TTAATTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (15 bp):
TATAAACCCAACAAA
Found at i:93194389 original size:21 final size:21
Alignment explanation
Indices: 93194365--93194408 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
93194355 GCATCGATAC
* *
93194365 TTTTTGTCAAGTATCAATAAA
1 TTTTAGTCAAGCATCAATAAA
* *
93194386 TTTTAGTTAAGCATCGATAAA
1 TTTTAGTCAAGCATCAATAAA
93194407 TT
1 TT
93194409 CATAGTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (21 bp):
TTTTAGTCAAGCATCAATAAA
Found at i:93204030 original size:2 final size:2
Alignment explanation
Indices: 93204025--93204100 Score: 57
Period size: 2 Copynumber: 38.5 Consensus size: 2
93204015 CATTCCCCCC
* * *
93204025 CT CT CT CT CT CT CT CT CT GC- CT CT CC CT CC CT CC CT CT CT CT
1 CT CT CT CT CT CT CT CT CT -CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
93204067 CC CT CG CC CT CT CC CT CT CC CT CT CT CT C- CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
93204101 AATTTAACAC
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
1 2 0.04
2 53 0.95
3 1 0.02
ACGTcount: A:0.00, C:0.61, G:0.03, T:0.37
Consensus pattern (2 bp):
CT
Found at i:93204048 original size:14 final size:14
Alignment explanation
Indices: 93204031--93204096 Score: 73
Period size: 14 Copynumber: 4.7 Consensus size: 14
93204021 CCCCCTCTCT
* *
93204031 CTCTCTCTCTCTGC
1 CTCTCTCTCCCTCC
*
93204045 CTCTCCCTCCCTCC
1 CTCTCTCTCCCTCC
93204059 CTCTCTCTCCCTCGC
1 CTCTCTCTCCCTC-C
93204074 C-CTCTC-CCTCTCC
1 CTCTCTCTCC-CTCC
93204087 CTCTCTCTCC
1 CTCTCTCTCC
93204097 TCTCAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.09
14 36 0.82
15 4 0.09
ACGTcount: A:0.00, C:0.62, G:0.03, T:0.35
Consensus pattern (14 bp):
CTCTCTCTCCCTCC
Found at i:93204057 original size:30 final size:30
Alignment explanation
Indices: 93204018--93204100 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
93204008 CTGCTTGCAT
*
93204018 TCCCCCCCTCTCTCTCTCTCTCTCTG-CCTC
1 TCCCTCCCTCTCTCTCTCTCTCTC-GCCCTC
* *
93204048 TCCCTCCCTCCCTCTCTCTCCCTCGCCCTC
1 TCCCTCCCTCTCTCTCTCTCTCTCGCCCTC
93204078 TCCCTCTCC-CTCTCTCTC-CTCTC
1 TCCCTC-CCTCTCTCTCTCTCTCTC
93204101 AATTTAACAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 39 0.85
31 2 0.04
ACGTcount: A:0.00, C:0.63, G:0.02, T:0.35
Consensus pattern (30 bp):
TCCCTCCCTCTCTCTCTCTCTCTCGCCCTC
Found at i:93204071 original size:24 final size:22
Alignment explanation
Indices: 93204029--93204100 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 22
93204019 CCCCCCCTCT
* *
93204029 CTCTCTCTCTCTCTGCCTCTCC
1 CTCTCCCTCTCTCTCCCTCTCC
*
93204051 CTCCCTCCCTCTCTCTCCCTCGCC
1 CT--CTCCCTCTCTCTCCCTCTCC
* *
93204075 CTCTCCCTCTCCCTCTCTCT-C
1 CTCTCCCTCTCTCTCCCTCTCC
93204096 CTCTC
1 CTCTC
93204101 AATTTAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
21 6 0.14
22 17 0.40
24 19 0.45
ACGTcount: A:0.00, C:0.61, G:0.03, T:0.36
Consensus pattern (22 bp):
CTCTCCCTCTCTCTCCCTCTCC
Found at i:93226571 original size:33 final size:33
Alignment explanation
Indices: 93226529--93226625 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
93226519 TCTTCTTGAC
*
93226529 ATTCCAGCTCCTGTCCAGCAACCAAACACTTCA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
*
93226562 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCT
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
*
93226595 ATTCCAGCTCCTGTCCAGCAATCAAACACTC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTC
93226626 TCACTCAGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.29, C:0.40, G:0.09, T:0.22
Consensus pattern (33 bp):
ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
Found at i:93231437 original size:20 final size:20
Alignment explanation
Indices: 93231412--93231451 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
93231402 ACAGCATTGA
*
93231412 ATAGCTAATCTTTAGGGATT
1 ATAGCTAATCTTTAGAGATT
* *
93231432 ATAGCTGATTTTTAGAGATT
1 ATAGCTAATCTTTAGAGATT
93231452 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (20 bp):
ATAGCTAATCTTTAGAGATT
Found at i:93243804 original size:16 final size:16
Alignment explanation
Indices: 93243783--93243835 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
93243773 AGAGTGGAAA
93243783 GAAAATTAGAAGGATG
1 GAAAATTAGAAGGATG
* *
93243799 GAAAATT-GAAGGGGTA
1 GAAAATTAGAA-GGATG
*
93243815 GAAAACTAGAAGGATG
1 GAAAATTAGAAGGATG
93243831 GAAAA
1 GAAAA
93243836 CATAATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.32, T:0.15
Consensus pattern (16 bp):
GAAAATTAGAAGGATG
Found at i:93246613 original size:12 final size:12
Alignment explanation
Indices: 93246598--93246622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93246588 AGATTTTAAA
93246598 ATTTATTTTTTT
1 ATTTATTTTTTT
93246610 ATTTATTTTTTT
1 ATTTATTTTTTT
93246622 A
1 A
93246623 AAATTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTTATTTTTTT
Found at i:93248406 original size:4 final size:4
Alignment explanation
Indices: 93248397--93248427 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
93248387 AATTTCATAT
93248397 ATAG ATAG ATAG ATAG ATAG ATAG ATCAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG AT-AG AT
93248428 TCAAATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:93249084 original size:27 final size:27
Alignment explanation
Indices: 93249054--93249117 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
93249044 AATGTGCAAT
* *
93249054 ATGTGAAATTATAGGGCTGTTGTCGTG
1 ATGTGAAATTACAGGGCTGATGTCGTG
* *
93249081 ATGTGAAATTGCAGGGTTGATGTCGTG
1 ATGTGAAATTACAGGGCTGATGTCGTG
*
93249108 ACGTGAAATT
1 ATGTGAAATT
93249118 TCGCGTAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.08, G:0.33, T:0.34
Consensus pattern (27 bp):
ATGTGAAATTACAGGGCTGATGTCGTG
Found at i:93250599 original size:25 final size:25
Alignment explanation
Indices: 93250571--93250621 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
93250561 AGCTTGCAAT
93250571 AGCATCCCATTATTTAGCTCTTATG
1 AGCATCCCATTATTTAGCTCTTATG
93250596 AGCATCCCATTATTTAGCTCTTATG
1 AGCATCCCATTATTTAGCTCTTATG
93250621 A
1 A
93250622 ACAATCCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (25 bp):
AGCATCCCATTATTTAGCTCTTATG
Found at i:93250696 original size:24 final size:24
Alignment explanation
Indices: 93250627--93250774 Score: 80
Period size: 24 Copynumber: 6.0 Consensus size: 24
93250617 TATGAACAAT
*
93250627 CCGTTATATGGCTCTCACGAGCTTC
1 CCGTT-TATGGCTCTCATGAGCTTC
** * *
93250652 CCAATAATTGGCTCTCTTGAGCTTC
1 CCGTTTA-TGGCTCTCATGAGCTTC
* *
93250677 CCGTTTATGGCTCGCATGAGCTTT
1 CCGTTTATGGCTCTCATGAGCTTC
* * **
93250701 CTGATTAATGGCTCTCCGGAGCTTC
1 CCG-TTTATGGCTCTCATGAGCTTC
* * ** * *
93250726 CCGATAATAACTCACATGAGCTTT
1 CCGTTTATGGCTCTCATGAGCTTC
** * *
93250750 CCAATTACGGCTCTTATGAGCTTC
1 CCGTTTATGGCTCTCATGAGCTTC
93250774 C
1 C
93250775 TATTACATGG
Statistics
Matches: 88, Mismatches: 33, Indels: 5
0.70 0.26 0.04
Matches are distributed among these distances:
24 48 0.55
25 40 0.45
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (24 bp):
CCGTTTATGGCTCTCATGAGCTTC
Found at i:93250779 original size:23 final size:24
Alignment explanation
Indices: 93250739--93250803 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
93250729 ATAATAACTC
* *
93250739 ACATGAGCTTTCCAATTAC-GGCTC
1 ACATGAGC-TTCCTATTACAGGCTA
**
93250763 TTATGAGCTTCCTATTACATGGCTA
1 ACATGAGCTTCCTATTACA-GGCTA
93250788 ACATGAGCTTCCTATT
1 ACATGAGCTTCCTATT
93250804 CCATAGCTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 9 0.27
24 6 0.18
25 18 0.55
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (24 bp):
ACATGAGCTTCCTATTACAGGCTA
Found at i:93250820 original size:25 final size:25
Alignment explanation
Indices: 93250767--93250823 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
93250757 CGGCTCTTAT
* *
93250767 GAGCTTCCTATTACATGGCTAACAT
1 GAGCTTCCTATTACATAGCTAACAA
*
93250792 GAGCTTCCTATTCCATAGCTCAA-AA
1 GAGCTTCCTATTACATAGCT-AACAA
93250817 GAGCTTC
1 GAGCTTC
93250824 TCGTTTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (25 bp):
GAGCTTCCTATTACATAGCTAACAA
Found at i:93251894 original size:21 final size:20
Alignment explanation
Indices: 93251868--93251906 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
93251858 AACCCATTAA
93251868 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
93251889 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
93251907 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:93251931 original size:42 final size:42
Alignment explanation
Indices: 93251885--93252019 Score: 116
Period size: 42 Copynumber: 3.1 Consensus size: 42
93251875 AACCCAACTA
93251885 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
* * ** *
93251927 ACCCATCTCATCCTAAA-CTAACCCATTAAACC--C-CAAAACCCAACT
1 ACCCA-C-C--CCAAAACCCAA-TAACTAAACCTACTCAAAACCC-A-T
*
93251972 AACCCACCACAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 -ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
93252015 ACCCA
1 ACCCA
93252020 TCTCATCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
42 21 0.30
43 13 0.19
44 6 0.09
45 13 0.19
46 17 0.24
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.13
Consensus pattern (42 bp):
ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
Found at i:93251956 original size:88 final size:88
Alignment explanation
Indices: 93251855--93252035 Score: 353
Period size: 88 Copynumber: 2.1 Consensus size: 88
93251845 CCATTAAATC
*
93251855 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCCCAAAACCCAATAACTAAACCTACTCAA
1 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
93251920 AACCCATACCCATCTCATCCTAA
66 AACCCATACCCATCTCATCCTAA
93251943 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
1 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
93252008 AACCCATACCCATCTCATCCTAA
66 AACCCATACCCATCTCATCCTAA
93252031 ACTAA
1 ACTAA
93252036 GCCTAAACAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (88 bp):
ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
AACCCATACCCATCTCATCCTAA
Found at i:93253206 original size:26 final size:25
Alignment explanation
Indices: 93253185--93253256 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
93253175 TTTATTCTTC
*
93253185 TTATATTTATTACTAATATATTATTA
1 TTATAGTTATTA-TAATATATTATTA
*
93253211 TTATAGTTATTATCATATATGTATTA
1 TTATAGTTATTATAATATAT-TATTA
* *
93253237 TTA-AGTTTTTATAACATATT
1 TTATAGTTATTATAATATATT
93253257 TATGTAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 19 0.47
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATAGTTATTATAATATATTATTA
Found at i:93253605 original size:21 final size:21
Alignment explanation
Indices: 93253563--93253605 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
93253553 TCAATATAAA
* *
93253563 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
* *
93253584 TATATACATGTCATACATGTT
1 TATATACATATCATACAGGTT
93253605 T
1 T
93253606 CATTATTCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:93253828 original size:13 final size:14
Alignment explanation
Indices: 93253804--93253834 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
93253794 AAATATTCGA
93253804 GTATTATTATATGT
1 GTATTATTATATGT
93253818 GTATT-TTATATGT
1 GTATTATTATATGT
93253831 GTAT
1 GTAT
93253835 ATGCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTATTATTATATGT
Found at i:93259017 original size:53 final size:54
Alignment explanation
Indices: 93258929--93259094 Score: 191
Period size: 53 Copynumber: 3.1 Consensus size: 54
93258919 CTTACACGGT
* * *
93258929 TCACATATCATACCGAAGCCATATCCTAGAC-ATGGTCTTATACGGAA-TCACATTA
1 TCACAT-T-ATACCGATGCCATAACCCAG-CTATGGTCTTATACGGAAGTCACATTA
93258984 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATAC-GAAGTCACATTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGTCACATTA
** * *
93259037 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG--G-CACACTTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGTCACA-TTA
93259089 TCACAT
1 TCACAT
93259095 ATTTTTCGTC
Statistics
Matches: 100, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.04
52 14 0.14
53 74 0.74
54 2 0.02
55 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGTCACATTA
Found at i:93260926 original size:3 final size:3
Alignment explanation
Indices: 93260918--93260944 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
93260908 TCTCCAACTC
93260918 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
93260945 GCTCAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:93267629 original size:25 final size:28
Alignment explanation
Indices: 93267601--93267664 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 28
93267591 TCCAAATATC
93267601 AATTCATAATAA-TT-AT-TATATGTTA
1 AATTCATAATAATTTGATCTATATGTTA
* * *
93267626 AATTGA-AGATAATTTGATCTTTTTGTTA
1 AATTCATA-ATAATTTGATCTATATGTTA
93267654 AATTCATAATA
1 AATTCATAATA
93267665 TCAGTCGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
24 1 0.03
25 9 0.30
26 2 0.07
27 2 0.07
28 15 0.50
29 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (28 bp):
AATTCATAATAATTTGATCTATATGTTA
Found at i:93300387 original size:69 final size:70
Alignment explanation
Indices: 93300109--93300408 Score: 298
Period size: 73 Copynumber: 4.2 Consensus size: 70
93300099 TTTGGGTACT
* * * * ** **
93300109 CTGAGGTATCTTTAATTCATGTTTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTC
1 CTGAGGTATTTTTAGTTTATG-TTTC-AAAAATC-ACTCATATTGCGAGAGGTGAGTCAAGCCTC
**
93300174 AGGTCACACG
63 -GG-GGCACG
* *
93300184 CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAGTTTATGTTTCAAAAA-TCACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
*
93300249 GTCACG
65 GGCACG
* * * * * * **
93300255 CTGAGGTATTTTAATTCCTTTTTTTTCAAAAATCAGCTCATATGGCGAGGGGTGAGTTGAGCCTC
1 CTGAGGTATTTTTAGT--TTATGTTTCAAAAATCA-CTCATATTGCGAGAGGTGAGTCAAGCCTC
93300320 GGGGCACG
63 GGGGCACG
93300328 CTGAGGTATTTTTAGTTTATGTTT-AGAAAAT-ACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
1 CTGAGGTATTTTTAGTTTATGTTTCA-AAAATCACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
93300391 GGCACG
65 GGCACG
*
93300397 CTGAGGTCTTTT
1 CTGAGGTATTTT
93300409 CAATTTCTAC
Statistics
Matches: 188, Mismatches: 32, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
69 44 0.23
70 2 0.01
71 29 0.15
72 3 0.02
73 87 0.46
74 5 0.03
75 18 0.10
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (70 bp):
CTGAGGTATTTTTAGTTTATGTTTCAAAAATCACTCATATTGCGAGAGGTGAGTCAAGCCTCGGG
GCACG
Found at i:93300399 original size:142 final size:145
Alignment explanation
Indices: 93300109--93300413 Score: 406
Period size: 142 Copynumber: 2.1 Consensus size: 145
93300099 TTTGGGTACT
* *
93300109 CTGAGGTATCTTTAATTCATGTTTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTC
1 CTGAGGTAT-TTTAATTCATGTTTTCAAAAAATCAACTCATATGGCGAGAAATGAGTTGAGCCTC
93300174 AGGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGT
65 AGGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGT
*
93300239 CAAGCCTCAGGTCACG
130 CAAGCCTCAGGGCACG
* * * ***
93300255 CTGAGGTATTTTAATTCCTTTTTTTTC-AAAAATCAGCTCATATGGCGAGGGGTGAGTTGAGCCT
1 CTGAGGTATTTTAATT-C-ATGTTTTCAAAAAATCAACTCATATGGCGAGAAATGAGTTGAGCCT
**
93300319 C-GG-GGCACGCTGAGGTATTTTTAGTTTATGTTT-AGAAAA-T-ACTCATATTGCGAGAGGTGA
64 CAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTCA-AAAATTGACTCATATTGCGAGAGGTGA
*
93300379 GTCAAGCCTCGGGGCACG
128 GTCAAGCCTCAGGGCACG
*
93300397 CTGAGGTCTTTTCAATT
1 CTGAGGTATTTT-AATT
93300414 TCTACTTTTC
Statistics
Matches: 142, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
142 47 0.33
143 6 0.04
144 32 0.23
145 9 0.06
146 42 0.30
147 6 0.04
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (145 bp):
CTGAGGTATTTTAATTCATGTTTTCAAAAAATCAACTCATATGGCGAGAAATGAGTTGAGCCTCA
GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTC
AAGCCTCAGGGCACG
Found at i:93300423 original size:14 final size:14
Alignment explanation
Indices: 93300404--93300439 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
93300394 ACGCTGAGGT
*
93300404 CTTTTCAATTTCTA
1 CTTTTCAATTCCTA
93300418 CTTTTCAATTCCTA
1 CTTTTCAATTCCTA
93300432 CTTTTCAA
1 CTTTTCAA
93300440 AAAAATCAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (14 bp):
CTTTTCAATTCCTA
Found at i:93300760 original size:128 final size:128
Alignment explanation
Indices: 93300532--93300952 Score: 619
Period size: 128 Copynumber: 3.2 Consensus size: 128
93300522 GTTCAAGAAC
*
93300532 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATT
1 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
*
93300597 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAAA
66 GCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAAA
* *
93300660 CAACTCATATGGCAAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
1 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
*
93300725 GCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAA
66 GCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGT--AAAAAAAAA
*
93300790 CAAAAAAAATAACTCATATAGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCA
1 C---------AACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCA
* * **
93300855 ACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTT-TTT
57 ACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTAA
* *
93300919 CAAAAAT
122 AAAAAAA
*
93300926 CAACTCATATTGCGAGAGGTGAGTTGA
1 CAACTCATATTGCGAGAGGTGGGTTGA
93300953 GCCTCAGGTC
Statistics
Matches: 266, Mismatches: 16, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
127 24 0.09
128 114 0.43
130 10 0.04
136 6 0.02
138 1 0.00
139 111 0.42
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (128 bp):
CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTCATATT
GCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAAA
Found at i:93300817 original size:139 final size:140
Alignment explanation
Indices: 93300652--93300924 Score: 476
Period size: 139 Copynumber: 2.0 Consensus size: 140
93300642 TTCTGTTGTA
*
93300652 AAAAAAAACAACTCATATGGCAAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAA
1 AAAAAAAACAACTCATATAGCAAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAA
93300717 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTG-TTGTCA
66 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTTGTCA
93300781 AAAAAAAAAC
131 AAAAAAAAAC
* *
93300791 AAAAAAAATAACTCATATAGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAA
1 AAAAAAAACAACTCATATAGCAAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAA
* * * *
93300856 CTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTTTCA
66 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTTGTCA
93300921 AAAA
131 AAAA
93300925 TCAACTCATA
Statistics
Matches: 126, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
139 117 0.93
140 9 0.07
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (140 bp):
AAAAAAAACAACTCATATAGCAAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAA
CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTTGTCA
AAAAAAAAAC
Found at i:93301780 original size:21 final size:20
Alignment explanation
Indices: 93301754--93301792 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
93301744 AACCCATTAA
93301754 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
93301775 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
93301793 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:93301817 original size:42 final size:42
Alignment explanation
Indices: 93301771--93301905 Score: 116
Period size: 42 Copynumber: 3.1 Consensus size: 42
93301761 AACCCAACTA
93301771 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
* * ** *
93301813 ACCCATCTCATCCTAAA-CTAACCCATTAAACC--C-CAAAACCCAACT
1 ACCCA-C-C--CCAAAACCCAA-TAACTAAACCTACTCAAAACCC-A-T
*
93301858 AACCCACCACAAAACCCAATAACTAAACCTACTCAAAACCCAT
1 -ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
93301901 ACCCA
1 ACCCA
93301906 TCTCATCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
42 21 0.30
43 13 0.19
44 6 0.09
45 13 0.19
46 17 0.24
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.13
Consensus pattern (42 bp):
ACCCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCAT
Found at i:93301842 original size:88 final size:88
Alignment explanation
Indices: 93301741--93301921 Score: 353
Period size: 88 Copynumber: 2.1 Consensus size: 88
93301731 CCATTAAATC
*
93301741 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCCCAAAACCCAATAACTAAACCTACTCAA
1 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
93301806 AACCCATACCCATCTCATCCTAA
66 AACCCATACCCATCTCATCCTAA
93301829 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
1 ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
93301894 AACCCATACCCATCTCATCCTAA
66 AACCCATACCCATCTCATCCTAA
93301917 ACTAA
1 ACTAA
93301922 GCCTAAACAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (88 bp):
ACTAACCCATTAAACCCCAAAACCCAACTAACCCACCACAAAACCCAATAACTAAACCTACTCAA
AACCCATACCCATCTCATCCTAA
Found at i:93303090 original size:26 final size:25
Alignment explanation
Indices: 93303069--93303140 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
93303059 TTTATTCTTC
*
93303069 TTATATTTATTACTAATATATTATTA
1 TTATAGTTATTA-TAATATATTATTA
*
93303095 TTATAGTTATTATCATATATGTATTA
1 TTATAGTTATTATAATATAT-TATTA
* *
93303121 TTA-AGTTTTTATAACATATT
1 TTATAGTTATTATAATATATT
93303141 TATGTAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 19 0.47
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATAGTTATTATAATATATTATTA
Found at i:93303489 original size:21 final size:21
Alignment explanation
Indices: 93303447--93303489 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
93303437 AATATAAATA
* *
93303447 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
* *
93303468 TATATACATGTCATACATGTT
1 TATATACATATCATACAGGTT
93303489 T
1 T
93303490 CATTATTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:93303712 original size:13 final size:14
Alignment explanation
Indices: 93303688--93303718 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
93303678 AAATATTCGA
93303688 GTATTATTATATGT
1 GTATTATTATATGT
93303702 GTATT-TTATATGT
1 GTATTATTATATGT
93303715 GTAT
1 GTAT
93303719 ATGCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTATTATTATATGT
Found at i:93311328 original size:24 final size:24
Alignment explanation
Indices: 93311284--93311335 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
93311274 TTTTTAAAAG
* **
93311284 ATTTAGTATTTATTAGTATAATCT
1 ATTTAGCATTTATTAACATAATCT
*
93311308 ATTTAGCATTTATTAACATAATTT
1 ATTTAGCATTTATTAACATAATCT
93311332 ATTT
1 ATTT
93311336 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATCT
Found at i:93313990 original size:21 final size:21
Alignment explanation
Indices: 93313960--93314005 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
93313950 TAATATTATT
*
93313960 AAAAACTGTAAAAACTATAAA
1 AAAAACTGTAAAAAATATAAA
* *
93313981 AAAAATTGTAAAAAATATACA
1 AAAAACTGTAAAAAATATAAA
93314002 AAAA
1 AAAA
93314006 GGTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAACTGTAAAAAATATAAA
Found at i:93314134 original size:19 final size:19
Alignment explanation
Indices: 93314103--93314150 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
93314093 TTACTTGAAA
*
93314103 TTTA-AATATTTTTTTAATT
1 TTTATAATA-TTTTTCAATT
93314122 TTTATAATATTTTTCAATT
1 TTTATAATATTTTTCAATT
93314141 TTTAT-ATATT
1 TTTATAATATT
93314151 ATTGACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 18 0.67
20 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATAATATTTTTCAATT
Found at i:93314769 original size:23 final size:21
Alignment explanation
Indices: 93314717--93314789 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 21
93314707 ATATATAAAA
*
93314717 AATTTAAAATTTAAAA-ATTT
1 AATTTAAAATTTAAAATATAT
*
93314737 TATTATAAAATTATAAAATATAT
1 AATT-TAAAATT-TAAAATATAT
93314760 AATTCTAAAATTCTAAAATATTATT
1 AATT-TAAAATT-TAAAATA-TA-T
93314785 AATTT
1 AATTT
93314790 CAACTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.07
21 7 0.16
22 5 0.12
23 20 0.47
24 3 0.07
25 5 0.12
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTAAAATTTAAAATATAT
Found at i:93326251 original size:22 final size:20
Alignment explanation
Indices: 93326204--93326243 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
93326194 ACTTGCTCAT
93326204 ATTATTTTTAATTTTTTTAA
1 ATTATTTTTAATTTTTTTAA
*
93326224 AATATTTATATAATTTTTTT
1 ATTATTT-T-TAATTTTTTT
93326244 TATTTATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTATTTTTAATTTTTTTAA
Done.