Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 338 of 345
Found at i:100915084 original size:17 final size:17
Alignment explanation
Indices: 100915059--100915101 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
100915049 CACGGGAGGC
*
100915059 CACACAGGCATGTGTTG
1 CACACAGGCATGTGTCG
*
100915076 CACATAGGCATGTGTCG
1 CACACAGGCATGTGTCG
100915093 CACACAGGC
1 CACACAGGC
100915102 GGCTCACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.19
Consensus pattern (17 bp):
CACACAGGCATGTGTCG
Found at i:100915345 original size:21 final size:21
Alignment explanation
Indices: 100915319--100915366 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
100915309 AGTTACACAT
*
100915319 GCGTGTGTCCCCTCCACATGG
1 GCGTGTGTACCCTCCACATGG
* *
100915340 GCGTGTGTAGCCTTCACATGG
1 GCGTGTGTACCCTCCACATGG
100915361 GCGTGT
1 GCGTGT
100915367 AGACTCCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.33, T:0.27
Consensus pattern (21 bp):
GCGTGTGTACCCTCCACATGG
Found at i:100915368 original size:19 final size:20
Alignment explanation
Indices: 100915330--100915379 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
100915320 CGTGTGTCCC
*
100915330 CTCCACATGGGCGTGTGTAGC
1 CTCCACATGGGCG-GTGTAGA
*
100915351 CTTCACATGGGC-GTGTAGA
1 CTCCACATGGGCGGTGTAGA
100915370 CTCCACATGG
1 CTCCACATGG
100915380 CCTAAGCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.24
Consensus pattern (20 bp):
CTCCACATGGGCGGTGTAGA
Found at i:100923907 original size:17 final size:17
Alignment explanation
Indices: 100923885--100923920 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
100923875 TATTTTTAGA
100923885 AATTAATTTTCAAGTCG
1 AATTAATTTTCAAGTCG
100923902 AATTAATTTTCAAGTCG
1 AATTAATTTTCAAGTCG
100923919 AA
1 AA
100923921 AAATTGACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (17 bp):
AATTAATTTTCAAGTCG
Found at i:100926176 original size:21 final size:21
Alignment explanation
Indices: 100926152--100926192 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100926142 ACAACACCAA
100926152 ATAAAAAATCA-TTTAAAAAAC
1 ATAAAAAA-CACTTTAAAAAAC
*
100926173 ATAAAGAACACTTTAAAAAA
1 ATAAAAAACACTTTAAAAAA
100926193 AAGGGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAAAACACTTTAAAAAAC
Found at i:100931088 original size:5 final size:5
Alignment explanation
Indices: 100931078--100931112 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
100931068 TTAGTGTCAG
*
100931078 AGAAA AGAAA AGAAA AGAAA AGAAGA TGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA AGAA
100931113 GCGTGACCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (5 bp):
AGAAA
Found at i:100940352 original size:18 final size:18
Alignment explanation
Indices: 100940329--100940371 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
100940319 GGCGTTGGAT
*
100940329 GTTAGCAGGAAGGTTTTC
1 GTTAGCAGGAAGGTTCTC
100940347 GTTAGCAGGAAGGTTCTC
1 GTTAGCAGGAAGGTTCTC
100940365 GTTAGCA
1 GTTAGCA
100940372 TAATCATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (18 bp):
GTTAGCAGGAAGGTTCTC
Found at i:100959732 original size:17 final size:18
Alignment explanation
Indices: 100959712--100959753 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
100959702 TTATATAATT
* *
100959712 TTAAAATATA-TACTACA
1 TTAAAATATACAAATACA
100959729 TTAAAA-ATACAAATACA
1 TTAAAATATACAAATACA
100959746 TTAAAATA
1 TTAAAATA
100959754 AGTATTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAATATACAAATACA
Found at i:100959927 original size:11 final size:11
Alignment explanation
Indices: 100959895--100959954 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
100959885 ATAATAACAA
100959895 TAAAATAATAG
1 TAAAATAATAG
*
100959906 TAACATAATAG
1 TAAAATAATAG
*
100959917 TAAAATGATAG
1 TAAAATAATAG
* *
100959928 CAAAATAAGGAG
1 TAAAATAA-TAG
*
100959940 -AAAATAATAT
1 TAAAATAATAG
100959950 TAAAA
1 TAAAA
100959955 AAAGTATCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 1 0.03
11 36 0.92
12 2 0.05
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (11 bp):
TAAAATAATAG
Found at i:100962941 original size:13 final size:13
Alignment explanation
Indices: 100962923--100962950 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100962913 AAAGACAGGG
100962923 AAAATGTACCATT
1 AAAATGTACCATT
100962936 AAAATGTACCATT
1 AAAATGTACCATT
100962949 AA
1 AA
100962951 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:100963782 original size:27 final size:28
Alignment explanation
Indices: 100963752--100963808 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
100963742 AAATGAATGG
*
100963752 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
100963779 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
100963807 AA
1 AA
100963809 AAAATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:100964570 original size:19 final size:19
Alignment explanation
Indices: 100964548--100964587 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
100964538 TTAAACTTTT
* *
100964548 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
100964567 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
100964586 AT
1 AT
100964588 AAAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:100965708 original size:21 final size:21
Alignment explanation
Indices: 100965668--100965706 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
100965658 AAATCATGGA
100965668 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
100965689 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
100965707 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:100966616 original size:17 final size:16
Alignment explanation
Indices: 100966594--100966625 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
100966584 ATAAATGTAT
100966594 AAAATAAAATATGCATA
1 AAAATAAAA-ATGCATA
100966611 AAAATAAAAATGCAT
1 AAAATAAAAATGCAT
100966626 GTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAATAAAAATGCATA
Found at i:100966830 original size:25 final size:25
Alignment explanation
Indices: 100966796--100966846 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
100966786 CTATAAGAAG
100966796 TAAAATCTTGGTAGACAAATGAGGT
1 TAAAATCTTGGTAGACAAATGAGGT
100966821 TAAAATCTTGGTAGACAAATGAGGT
1 TAAAATCTTGGTAGACAAATGAGGT
100966846 T
1 T
100966847 GCCATAGAAA
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:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (25 bp):
TAAAATCTTGGTAGACAAATGAGGT
Found at i:100967032 original size:23 final size:23
Alignment explanation
Indices: 100967006--100967078 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
100966996 TATTTATAAG
100967006 ATTAATTTTTAAAAAAACTCAAT
1 ATTAATTTTTAAAAAAACTCAAT
**** **
100967029 ATT-ATCGGGAAAAGTACTTGC-AT
1 ATTAATTTTTAAAAAAAC-T-CAAT
100967052 ATTAATTTTTAAAAAAACTCAAT
1 ATTAATTTTTAAAAAAACTCAAT
100967075 ATTA
1 ATTA
100967079 TCGGGAAAAG
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
22 9 0.26
23 16 0.47
24 9 0.26
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (23 bp):
ATTAATTTTTAAAAAAACTCAAT
Found at i:100967061 original size:46 final size:46
Alignment explanation
Indices: 100967006--100967097 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
100966996 TATTTATAAG
100967006 ATTAATTTTTAAAAAAACTCAATATTATCGGGAAAAGTACTTGCAT
1 ATTAATTTTTAAAAAAACTCAATATTATCGGGAAAAGTACTTGCAT
100967052 ATTAATTTTTAAAAAAACTCAATATTATCGGGAAAAGTACTTGCAT
1 ATTAATTTTTAAAAAAACTCAATATTATCGGGAAAAGTACTTGCAT
100967098 TTTGTTAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (46 bp):
ATTAATTTTTAAAAAAACTCAATATTATCGGGAAAAGTACTTGCAT
Found at i:100989447 original size:14 final size:14
Alignment explanation
Indices: 100989428--100989457 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100989418 TTATATCGAG
100989428 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
100989442 ACCAATCCAATTCA
1 ACCAATCCAAATCA
100989456 AC
1 AC
100989458 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:100992321 original size:40 final size:40
Alignment explanation
Indices: 100992254--100992419 Score: 145
Period size: 40 Copynumber: 4.2 Consensus size: 40
100992244 CCATTACAGA
* * * *
100992254 ATGTGCATTCAA-GGTATCGAAGTACAAATATGGACACAT
1 ATGTGCATTTAAGGGTACCGAAGTACAAACAAGGACACAT
* * *
100992293 ATGTGCATTTAAGGGTACCAAAGTACAAACAAGGGCACGT
1 ATGTGCATTTAAGGGTACCGAAGTACAAACAAGGACACAT
* * * * * *
100992333 ATGTGCAGTTAGGGGTACCGAAGTACAAGCAGGGGCACGT
1 ATGTGCATTTAAGGGTACCGAAGTACAAACAAGGACACAT
* * ** * **
100992373 ATGTGCATTCAGGGGTATTGAAGTACAAACAGGGGTACAT
1 ATGTGCATTTAAGGGTACCGAAGTACAAACAAGGACACAT
100992413 ATGTGCA
1 ATGTGCA
100992420 ATCAAACAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 11 0.10
40 96 0.90
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
ATGTGCATTTAAGGGTACCGAAGTACAAACAAGGACACAT
Found at i:101000182 original size:35 final size:32
Alignment explanation
Indices: 101000146--101000208 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
101000136 ATATGAGAAG
*
101000146 AAGAAAAACTTCTGAGGCTAATCAAATAATTT
1 AAGAAAAACTTCTGAGGCTAATCAAAGAATTT
101000178 AAGAAAAACTTCTGAGGCTAATCAAAGAATT
1 AAGAAAAACTTCTGAGGCTAATCAAAGAATT
101000209 CCCTTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (32 bp):
AAGAAAAACTTCTGAGGCTAATCAAAGAATTT
Found at i:101002247 original size:38 final size:38
Alignment explanation
Indices: 101002178--101002250 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
101002168 TTTTTTTGTA
* *
101002178 TTTTTATGTATAATAAAAATTAAAATCAAAATTAAAAG
1 TTTTTATATATAATAAAAATTAAAAACAAAATTAAAAG
101002216 TTTTTATATAT-AT-AAAATTAAAAAACTAAAATTAA
1 TTTTTATATATAATAAAAATT-AAAAAC-AAAATTAA
101002251 TATTATACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 6 0.19
37 7 0.23
38 18 0.58
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (38 bp):
TTTTTATATATAATAAAAATTAAAAACAAAATTAAAAG
Found at i:101007680 original size:37 final size:38
Alignment explanation
Indices: 101007638--101007719 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
101007628 TTTACTTTTT
*
101007638 TTTTAAGTTTTATCTATTT-CTTTTATTCTTTTTCTT-A
1 TTTTAAGTTTTATCTATTTACTTTTA-ACTTTTTCTTAA
* *
101007675 TTTTAAGTTTTATTTTTTTAACTTTTAACTTTTTCTTAA
1 TTTTAAGTTTTATCTATTT-ACTTTTAACTTTTTCTTAA
101007714 TTTTAA
1 TTTTAA
101007720 AAAACTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 17 0.44
38 9 0.23
39 13 0.33
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (38 bp):
TTTTAAGTTTTATCTATTTACTTTTAACTTTTTCTTAA
Found at i:101007717 original size:17 final size:17
Alignment explanation
Indices: 101007675--101007719 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
101007665 CTTTTTCTTA
*
101007675 TTTTAAGTTTT-A-TTT
1 TTTTAACTTTTAACTTT
101007690 TTTTAACTTTTAACTTT
1 TTTTAACTTTTAACTTT
101007707 TTCTTAA-TTTTAA
1 TT-TTAACTTTTAA
101007720 AAAACTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 10 0.38
16 1 0.04
17 11 0.42
18 4 0.15
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTAACTTTTAACTTT
Found at i:101007767 original size:53 final size:53
Alignment explanation
Indices: 101007721--101007838 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 53
101007711 TAATTTTAAA
101007721 AAACTTTAAATATATA-TTTAAATTTAT-TTATTTTATTTA-TTATTAATTTT
1 AAACTTTAAATATATATTTTAAATTTATCTTATTTTATTTATTTATTAATTTT
* **
101007771 AAATTTTAAATATATATTTTGTATTTATCCTTATTTTATTTATTTATTATTAATTTT
1 AAACTTTAAATATATATTTTAAATTTAT-CTTATTTTATTTA--T-TTATTAATTTT
*
101007828 AAATTTTAAAT
1 AAACTTTAAAT
101007839 TTTAAATGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
50 15 0.26
51 9 0.16
53 12 0.21
57 22 0.38
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (53 bp):
AAACTTTAAATATATATTTTAAATTTATCTTATTTTATTTATTTATTAATTTT
Found at i:101007780 original size:50 final size:54
Alignment explanation
Indices: 101007725--101007905 Score: 165
Period size: 58 Copynumber: 3.3 Consensus size: 54
101007715 TTTAAAAAAC
101007725 TTTAAATATATA-TTTAAATTTAT-TTA-T-TTTATTTATTATTAATTTTAAAT
1 TTTAAATATATATTTTAAATTTATCTTATTATTTATTTATTATTAATTTTAAAT
**
101007775 TTTAAATATATATTTTGTATTTATCCTTATTTTATTTATTTATTATTAATTTTAAAT
1 TTTAAATATATATTTTAAATTTAT-CTTA--TTATTTATTTATTATTAATTTTAAAT
* * * *** * *
101007832 TTTAAATTTTAAATGTTGTCTTTATCCTTATTTATTTTATTTATTTTTTATTCTT-AAT
1 TTTAAA-TATATATTTTAAATTTAT-CTTA-TTA-TTTATTTATTATTAATT-TTAAAT
101007890 TTTAAATATATATTTT
1 TTTAAATATATATTTT
101007906 TGAAATTATT
Statistics
Matches: 110, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
50 12 0.11
51 9 0.08
53 3 0.03
56 1 0.01
57 40 0.36
58 43 0.39
59 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (54 bp):
TTTAAATATATATTTTAAATTTATCTTATTATTTATTTATTATTAATTTTAAAT
Found at i:101007821 original size:57 final size:57
Alignment explanation
Indices: 101007744--101007905 Score: 229
Period size: 58 Copynumber: 2.8 Consensus size: 57
101007734 ATATTTAAAT
101007744 TTATTTATTTTATTTATTATTAATTTTAAATTTTAAATATATATTTTGTATTTATCC
1 TTATTTATTTTATTTATTATTAATTTTAAATTTTAAATATATATTTTGTATTTATCC
* * * *
101007801 TTATTT-TATTTATTTATTATTAATTTTAAATTTTAAATTTTAAATGTTGTCTTTATCC
1 TTATTTAT-TTTATTTATTATTAATTTTAAATTTTAAA-TATATATTTTGTATTTATCC
* *
101007859 TTATTTATTTTATTTATTTTTTATTCTT-AATTTTAAATATATATTTT
1 TTATTTATTTTATTTATTATTAATT-TTAAATTTTAAATATATATTTT
101007906 TGAAATTATT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
56 1 0.01
57 42 0.46
58 46 0.50
59 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (57 bp):
TTATTTATTTTATTTATTATTAATTTTAAATTTTAAATATATATTTTGTATTTATCC
Found at i:101007936 original size:22 final size:20
Alignment explanation
Indices: 101007908--101007962 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
101007898 TATATTTTTG
*
101007908 AAATTATTTTTTTAAAGTTTA
1 AAATTATTTTTTTAAA-TATA
*
101007929 AATATTA-TTTATTAAATATA
1 AA-ATTATTTTTTTAAATATA
*
101007949 AAATAATTTTTTTA
1 AAATTATTTTTTTA
101007963 TTAATACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 3 0.11
20 11 0.39
21 10 0.36
22 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTATTTTTTTAAATATA
Found at i:101008053 original size:7 final size:7
Alignment explanation
Indices: 101008041--101008065 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
101008031 AAATGTATAT
101008041 TTTAAAA
1 TTTAAAA
101008048 TTTAAAA
1 TTTAAAA
101008055 TTTAAAA
1 TTTAAAA
101008062 TTTA
1 TTTA
101008066 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:101008072 original size:14 final size:14
Alignment explanation
Indices: 101008024--101008074 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
101008014 TAGTTTTATA
*
101008024 ATATTTT-AAATGT
1 ATATTTTAAAATTT
101008037 ATATTTTAAAATTT
1 ATATTTTAAAATTT
* *
101008051 AAAATTTAAAATTT
1 ATATTTTAAAATTT
*
101008065 ATTTTTTAAA
1 ATATTTTAAA
101008075 TATTAAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 7 0.23
14 24 0.77
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
ATATTTTAAAATTT
Found at i:101008225 original size:22 final size:22
Alignment explanation
Indices: 101008198--101008245 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
101008188 TTTAAAAAAA
*
101008198 TTTAAAAT-TTAAAATATTATTT
1 TTTAAAATGTT-AAATATAATTT
101008220 TTT-AAATGTTAAATATAATTT
1 TTTAAAATGTTAAATATAATTT
101008241 TTTAA
1 TTTAA
101008246 TAATATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTAAAATGTTAAATATAATTT
Found at i:101008265 original size:52 final size:52
Alignment explanation
Indices: 101008158--101008268 Score: 129
Period size: 52 Copynumber: 2.1 Consensus size: 52
101008148 TATATTTTTT
* *
101008158 AATATTTTTTTTAAAGTTTTAAATATATATTTTAAAAAAATTTAAAATTTAA
1 AATATTTTTTTTAAAGTGTTAAATATATATTTTAAAAAAATATAAAATTTAA
** *
101008210 AATATTATTTTTTAAA-TGTTAAATATA-ATTTTTTAATAATATAAGACATTT-A
1 AATATT-TTTTTTAAAGTGTTAAATATATATTTTAAAAAAATATAA-A-ATTTAA
101008262 AATATTT
1 AATATTT
101008269 AAAGATATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
51 14 0.27
52 24 0.47
53 13 0.25
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (52 bp):
AATATTTTTTTTAAAGTGTTAAATATATATTTTAAAAAAATATAAAATTTAA
Found at i:101008440 original size:17 final size:18
Alignment explanation
Indices: 101008420--101008470 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 18
101008410 TAAAGTTTTT
*
101008420 TTAAAA-TTAAGAAAAAG
1 TTAAAAGTTAAAAAAAAG
101008437 TTAAAAGTTAAAAAAAAG
1 TTAAAAGTTAAAAAAAAG
*
101008455 --AAAACTTAAAAAAAAG
1 TTAAAAGTTAAAAAAAAG
101008471 AAAAAGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 15 0.48
17 6 0.19
18 10 0.32
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.20
Consensus pattern (18 bp):
TTAAAAGTTAAAAAAAAG
Found at i:101008458 original size:16 final size:16
Alignment explanation
Indices: 101008439--101008474 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
101008429 AGAAAAAGTT
*
101008439 AAAAGTTAAAAAAAAG
1 AAAACTTAAAAAAAAG
101008455 AAAACTTAAAAAAAAG
1 AAAACTTAAAAAAAAG
101008471 AAAA
1 AAAA
101008475 AGAATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAACTTAAAAAAAAG
Found at i:101021091 original size:28 final size:28
Alignment explanation
Indices: 101021058--101021114 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
101021048 AAAGTTAATC
101021058 TAGCAAACAAGCAGTAAAAGAGAAACGA
1 TAGCAAACAAGCAGTAAAAGAGAAACGA
101021086 TAGCAAACAAGCAGTAAAAGAGAAACGA
1 TAGCAAACAAGCAGTAAAAGAGAAACGA
101021114 T
1 T
101021115 CCTAGCAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.56, C:0.14, G:0.21, T:0.09
Consensus pattern (28 bp):
TAGCAAACAAGCAGTAAAAGAGAAACGA
Found at i:101022332 original size:17 final size:17
Alignment explanation
Indices: 101022312--101022347 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
101022302 CAAAATTGAC
101022312 TTATATTTTAAATAAAT
1 TTATATTTTAAATAAAT
* *
101022329 TTATTTTTTTAATAAAT
1 TTATATTTTAAATAAAT
101022346 TT
1 TT
101022348 TCGGATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTTTAAATAAAT
Found at i:101029454 original size:28 final size:27
Alignment explanation
Indices: 101029423--101029551 Score: 150
Period size: 28 Copynumber: 4.7 Consensus size: 27
101029413 AGTTTGTTAG
* *
101029423 GACTATCTTACATGTTGAAGTTCGTCAA
1 GACTATCTTATATG-TGAAGTCCGTCAA
* * *
101029451 GACTATTTTATATGTGAAAGTTCATCAA
1 GACTATCTTATATGTG-AAGTCCGTCAA
* *
101029479 GACTATTTTATATGTGGAGTCCGTCAA
1 GACTATCTTATATGTGAAGTCCGTCAA
*
101029506 GACTATCTTATATGTGGAAGTCCGTCAG
1 GACTATCTTATATGT-GAAGTCCGTCAA
*
101029534 GACTATCTTATAAGTGAA
1 GACTATCTTATATGTGAA
101029552 AATATGTCAG
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
27 27 0.30
28 62 0.70
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (27 bp):
GACTATCTTATATGTGAAGTCCGTCAA
Found at i:101029560 original size:28 final size:28
Alignment explanation
Indices: 101029500--101029567 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
101029490 ATGTGGAGTC
* * * * *
101029500 CGTCAAGACTATCTTATATGTGGAAGTC
1 CGTCAGGACTATCTTATAAGTGAAAATA
101029528 CGTCAGGACTATCTTATAAGTGAAAATA
1 CGTCAGGACTATCTTATAAGTGAAAATA
*
101029556 TGTCAGGACTAT
1 CGTCAGGACTAT
101029568 TTTACAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (28 bp):
CGTCAGGACTATCTTATAAGTGAAAATA
Found at i:101039191 original size:21 final size:22
Alignment explanation
Indices: 101039167--101039229 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 22
101039157 CTACCAAATA
*
101039167 AAATATTTTTTAAAA-AATTTT
1 AAATATATTTTAAAAGAATTTT
*
101039188 AAATATAATTTAAAAGAA-TTT
1 AAATATATTTTAAAAGAATTTT
* *
101039209 AAATATATTTAAAAATAATTT
1 AAATATATTTTAAAAGAATTT
101039230 AAAAAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 31 0.89
22 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATATTTTAAAAGAATTTT
Found at i:101039230 original size:21 final size:21
Alignment explanation
Indices: 101039175--101039232 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
101039165 TAAAATATTT
*
101039175 TTTAAAAAATTTTAAATATAA
1 TTTAAAAAAATTTAAATATAA
*
101039196 TTTAAAAGAATTTAAATAT-A
1 TTTAAAAAAATTTAAATATAA
101039216 TTTAAAAATAATTTAAA
1 TTTAAAAA-AATTTAAA
101039233 AAATAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTAAAAAAATTTAAATATAA
Found at i:101039242 original size:15 final size:15
Alignment explanation
Indices: 101039222--101039263 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
101039212 TATATTTAAA
101039222 AATAATTTAAAAAAT
1 AATAATTTAAAAAAT
*
101039237 AATAATTTTAAAAGAT
1 AATAA-TTTAAAAAAT
*
101039253 TAT-ATTTAAAA
1 AATAATTTAAAA
101039264 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATAATTTAAAAAAT
Found at i:101039275 original size:104 final size:103
Alignment explanation
Indices: 101039179--101039375 Score: 244
Period size: 103 Copynumber: 1.9 Consensus size: 103
101039169 ATATTTTTTA
*
101039179 AAAAATTTTAAA-TATA-ATTTAAAAGAATT-TAAATATATTTAAAAAT-AATTTAAAAAAT-A-
1 AAAAATGTTAAAGTATACATTTAAAA-AATTATAAA-ATA---AAAAATAAATTTAAAAAATCAT
*
101039238 ATAATTTTAAAAGATTATATTTAAAATTTTAAAAAATAATATTT
61 ATAATTTTAAAA-AATATATTTAAAATTTTAAAAAATAATATTT
* * *
101039282 AAAAATGTTAAAGTATACATTTAAAATATTATAAAATAAATAATAAATTTAAAAGATCATATAAT
1 AAAAATGTTAAAGTATACATTTAAAAAATTATAAAATAAAAAATAAATTTAAAAAATCATATAAT
*
101039347 TTTAAAAAATATATTTAAATTTTTAAAAA
66 TTTAAAAAATATATTTAAAATTTTAAAAA
101039376 TATGTTTAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
101 5 0.06
102 11 0.13
103 32 0.39
104 22 0.27
105 12 0.15
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (103 bp):
AAAAATGTTAAAGTATACATTTAAAAAATTATAAAATAAAAAATAAATTTAAAAAATCATATAAT
TTTAAAAAATATATTTAAAATTTTAAAAAATAATATTT
Found at i:101039278 original size:38 final size:39
Alignment explanation
Indices: 101039212--101039286 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 39
101039202 AGAATTTAAA
*
101039212 TATATTTAAAAATAATTTAAAAAATAATAATTTTAAAAGAT
1 TATATTTAAAAAT-ATTTAAAAAATAAT-ATTTAAAAAGAT
101039253 TATATTT-AAAAT-TTTAAAAAATAATATTTAAAAA
1 TATATTTAAAAATATTTAAAAAATAATATTTAAAAA
101039287 TGTTAAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
37 8 0.24
38 13 0.39
40 5 0.15
41 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (39 bp):
TATATTTAAAAATATTTAAAAAATAATATTTAAAAAGAT
Found at i:101039286 original size:23 final size:22
Alignment explanation
Indices: 101039240--101039320 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
101039230 AAAAAATAAT
* *
101039240 AATTTTAAAAGATTATATTTAA
1 AATTTTAAAAAATAATATTTAA
101039262 AATTTTAAAAAATAATATTTAAA
1 AATTTTAAAAAATAATATTT-AA
* ** *
101039285 AATGTTAAAGTAT-ACATTTAA
1 AATTTTAAAAAATAATATTTAA
* *
101039306 AATATTATAAAATAA
1 AATTTTAAAAAATAA
101039321 ATAATAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 11 0.23
22 24 0.51
23 12 0.26
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.40
Consensus pattern (22 bp):
AATTTTAAAAAATAATATTTAA
Found at i:101039308 original size:44 final size:42
Alignment explanation
Indices: 101039256--101039402 Score: 123
Period size: 44 Copynumber: 3.6 Consensus size: 42
101039246 AAAAGATTAT
101039256 ATTTAAAATTTTAAAAAATAATATTTAAAAATGTT-AAAGTATAC
1 ATTTAAAATTTTAAAAAATAATATTTAAAAAT-TTAAAAG-AT-C
* *
101039300 ATTTAAAATATTATAAAATAA-A--TAATAAATTTAAAAGATC
1 ATTTAAAATTTTAAAAAATAATATTTAA-AAATTTAAAAGATC
* **
101039340 A--TATAATTTTAAAAAAT-ATATTTAAATTTTTAAAA-AT-
1 ATTTAAAATTTTAAAAAATAATATTTAAAAATTTAAAAGATC
* *
101039377 ATGTTTAAATTTTTAAAAATAATATT
1 AT-TTAAAATTTTAAAAAATAATATT
101039403 AGAAATTATT
Statistics
Matches: 84, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
37 2 0.02
38 16 0.19
39 8 0.10
40 18 0.21
41 12 0.14
42 8 0.10
43 1 0.01
44 19 0.23
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (42 bp):
ATTTAAAATTTTAAAAAATAATATTTAAAAATTTAAAAGATC
Found at i:101039360 original size:17 final size:17
Alignment explanation
Indices: 101039319--101039360 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
101039309 ATTATAAAAT
101039319 AAATA-ATAAATTTAAA
1 AAATATATAAATTTAAA
* *
101039335 AGATCATATAATTTTAAA
1 AAAT-ATATAAATTTAAA
101039353 AAATATAT
1 AAATATAT
101039361 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 5 0.24
18 13 0.62
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATATAAATTTAAA
Found at i:101039367 original size:20 final size:20
Alignment explanation
Indices: 101039240--101039402 Score: 100
Period size: 20 Copynumber: 7.9 Consensus size: 20
101039230 AAAAAATAAT
*
101039240 AATTTTAAAAGATTATATTTAA
1 AATTTTAAAA-AATATATTT-A
101039262 AATTTTAAAAAATAATATTTAAA
1 AATTTTAAAAAAT-ATATTT--A
* ** *
101039285 AATGTTAAAGTATACATTTAA
1 AATTTTAAAAAATATATTT-A
* * * *
101039306 AATATTATAAAATAAATAATA
1 AATTTTAAAAAATATAT-TTA
*
101039327 AA-TTTAAAAGATCATA--T-
1 AATTTTAAAAAAT-ATATTTA
101039344 AATTTTAAAAAATATATTTA
1 AATTTTAAAAAATATATTTA
* *
101039364 AATTTTTAAAAATATGTTTA
1 AATTTTAAAAAATATATTTA
*
101039384 AATTTTTAAAAATAATATT
1 AATTTTAAAAAAT-ATATT
101039403 AGAAATTATT
Statistics
Matches: 113, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
17 5 0.04
18 10 0.09
19 1 0.01
20 38 0.34
21 25 0.22
22 22 0.19
23 12 0.11
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (20 bp):
AATTTTAAAAAATATATTTA
Found at i:101039375 original size:21 final size:21
Alignment explanation
Indices: 101039253--101039319 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
101039243 TTTAAAAGAT
101039253 TATATTTAAAATTTTAAAAAA
1 TATATTTAAAATTTTAAAAAA
* **
101039274 TAATATTTAAAAATGTTAAAGTA
1 T-ATATTT-AAAATTTTAAAAAA
* * *
101039297 TACATTTAAAATATTATAAAA
1 TATATTTAAAATTTTAAAAAA
101039318 TA
1 TA
101039320 AATAATAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 13 0.36
22 11 0.31
23 12 0.33
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (21 bp):
TATATTTAAAATTTTAAAAAA
Found at i:101039390 original size:21 final size:20
Alignment explanation
Indices: 101039344--101039417 Score: 94
Period size: 20 Copynumber: 3.5 Consensus size: 20
101039334 AAGATCATAT
*
101039344 AATTTTAAAAAATATATTTA
1 AATTTTTAAAAATATATTTA
*
101039364 AATTTTTAAAAATATGTTTA
1 AATTTTTAAAAATATATTTA
*
101039384 AATTTTTAAAAATAATATTAGA
1 AATTTTTAAAAAT-ATATT-TA
101039406 AATTATTTAAAA
1 AATT-TTTAAAA
101039418 TATTATAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 31 0.66
21 4 0.09
22 5 0.11
23 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTTTTAAAAATATATTTA
Found at i:101050475 original size:39 final size:39
Alignment explanation
Indices: 101050413--101050488 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
101050403 ATCGTGATCT
* * *
101050413 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACG
101050452 GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAA
1 GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAA
101050489 TTGAAACCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACG
Found at i:101058986 original size:51 final size:50
Alignment explanation
Indices: 101058915--101059074 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
101058905 CTGATCACAT
101058915 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
101058966 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
101059016 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
101059067 TTGTCACT
1 TTATCACT
101059075 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:101066783 original size:51 final size:50
Alignment explanation
Indices: 101066712--101066871 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
101066702 CTGATCACAT
101066712 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
101066763 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
101066813 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
101066864 TTGTCACT
1 TTATCACT
101066872 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:101074594 original size:14 final size:14
Alignment explanation
Indices: 101074575--101074604 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
101074565 TTAATATAAT
*
101074575 TATTTCTATTAAAA
1 TATTTCGATTAAAA
101074589 TATTTCGATTAAAA
1 TATTTCGATTAAAA
101074603 TA
1 TA
101074605 CTTATGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TATTTCGATTAAAA
Found at i:101076209 original size:33 final size:30
Alignment explanation
Indices: 101076163--101076231 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
101076153 GGTCCCACCT
*
101076163 GCAGTTGTACCACCAACTATTGCTCCACTACCA
1 GCAGTTGTACCA-C--CTATTGCTCCAATACCA
* *
101076196 GCAGTTGTGCCACCTATTGCTCCAATACCT
1 GCAGTTGTACCACCTATTGCTCCAATACCA
101076226 GCAGTT
1 GCAGTT
101076232 CGCCCTCCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 21 0.64
32 1 0.03
33 11 0.33
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (30 bp):
GCAGTTGTACCACCTATTGCTCCAATACCA
Found at i:101092129 original size:20 final size:20
Alignment explanation
Indices: 101092106--101092143 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
101092096 TGTGTATATT
101092106 ATTTGAATTTATGGATTTGA
1 ATTTGAATTTATGGATTTGA
*
101092126 ATTTGAATTTTTGGATTT
1 ATTTGAATTTATGGATTT
101092144 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (20 bp):
ATTTGAATTTATGGATTTGA
Found at i:101093770 original size:5 final size:5
Alignment explanation
Indices: 101093762--101093791 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
101093752 TTAACTCAAA
101093762 TAATT TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT TAATT
101093792 CAAATTTCAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:101105068 original size:8 final size:8
Alignment explanation
Indices: 101105057--101105094 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
101105047 CCTTTTTTTT
101105057 TTTTTTAC
1 TTTTTTAC
101105065 TTTTTTAC
1 TTTTTTAC
101105073 TTTTTTCAC
1 TTTTTT-AC
101105082 -TTTTT-C
1 TTTTTTAC
101105088 TTTTTTA
1 TTTTTTA
101105095 TTATTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.04
7 5 0.19
8 19 0.70
9 2 0.07
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAC
Found at i:101105069 original size:16 final size:16
Alignment explanation
Indices: 101105048--101105103 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
101105038 TGTCAGTTTC
101105048 CTTTTTTTTTTTTTTA
1 CTTTTTTTTTTTTTTA
* *
101105064 CTTTTTTACTTTTTTCA
1 CTTTTTT-TTTTTTTTA
*
101105081 CTTTTTCTTTTTTATTA
1 CTTTTT-TTTTTTTTTA
101105098 -TTTTTT
1 CTTTTTT
101105104 GTCTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 1 0.03
16 12 0.36
17 19 0.58
18 1 0.03
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTTTTTTTTTTA
Found at i:101105102 original size:17 final size:16
Alignment explanation
Indices: 101105049--101105103 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
101105039 GTCAGTTTCC
101105049 TTTTTT-TTTTTTTTA
1 TTTTTTCTTTTTTTTA
*
101105064 CTTTTTTAC-TTTTTTCA
1 -TTTTTT-CTTTTTTTTA
*
101105081 CTTTTTCTTTTTTATTA
1 TTTTTTCTTTTTT-TTA
101105098 TTTTTT
1 TTTTTT
101105104 GTCTTTTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 16 0.52
17 14 0.45
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTA
Found at i:101105132 original size:13 final size:14
Alignment explanation
Indices: 101105114--101105142 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
101105104 GTCTTTTACC
101105114 TTTATTTATT-TTA
1 TTTATTTATTATTA
101105127 TTTATTTATTATTA
1 TTTATTTATTATTA
101105141 TT
1 TT
101105143 AACTTTAAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:101105187 original size:24 final size:22
Alignment explanation
Indices: 101105154--101105222 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
101105144 ACTTTAAAAA
*
101105154 ATTTGAAATATATATTTGAAAT
1 ATTTTAAATATATATTTGAAAT
**
101105176 ATTTTATTAATATATATATTTTAA-
1 ATTTTA--AATATATAT-TTGAAAT
101105200 ATTTTAAATATATATTTTGAAAT
1 ATTTTAAATATATA-TTTGAAAT
101105223 TATATTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
22 17 0.46
23 1 0.03
24 15 0.41
25 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTTAAATATATATTTGAAAT
Found at i:101105195 original size:26 final size:24
Alignment explanation
Indices: 101105161--101105222 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 24
101105151 AAAATTTGAA
101105161 ATATATATTTGAAATATTTTATTAAT
1 ATATATATTTGAAATATTTTA--AAT
*
101105187 ATATATATTT-TAA-ATTTTAAAT
1 ATATATATTTGAAATATTTTAAAT
101105209 ATATAT-TTTGAAAT
1 ATATATATTTGAAAT
101105223 TATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.09
22 11 0.34
24 6 0.19
25 2 0.06
26 10 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
ATATATATTTGAAATATTTTAAAT
Found at i:101105212 original size:20 final size:22
Alignment explanation
Indices: 101105182--101105223 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
101105172 AAATATTTTA
101105182 TTAATATATATATTTT-AAATT
1 TTAATATATATATTTTGAAATT
101105203 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
101105224 ATATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:101105227 original size:33 final size:31
Alignment explanation
Indices: 101105167--101105255 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 31
101105157 TGAAATATAT
101105167 ATTTGAAATATT-TTATTAATATATATATTTTAAA
1 ATTT-AAATATTATT-TTAA-AT-TATATTTTAAA
*
101105201 TTTTAAATATATATTTTGAAATTATATTTTAAA
1 ATTTAAATAT-TATTTT-AAATTATATTTTAAA
101105234 ATTTAAATATTATTTTAAATTA
1 ATTTAAATATTATTTTAAATTA
101105256 AAAATAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 26 0.52
34 8 0.16
35 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTAAATATTATTTTAAATTATATTTTAAA
Found at i:101105229 original size:26 final size:25
Alignment explanation
Indices: 101105154--101105233 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 25
101105144 ACTTTAAAAA
*
101105154 ATTTGAAATATATA-TTTGAAATAT
1 ATTTTAAATATATATTTTGAAATAT
*
101105178 TTTATTAATATATATATTTT---A-A-
1 ATT-TTAA-ATATATATTTTGAAATAT
101105200 ATTTTAAATATATATTTTGAAATTAT
1 ATTTTAAATATATATTTTGAAA-TAT
101105226 ATTTTAAA
1 ATTTTAAA
101105234 ATTTAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
20 11 0.25
21 4 0.09
22 2 0.05
23 2 0.05
24 3 0.07
25 4 0.09
26 15 0.34
27 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTTTAAATATATATTTTGAAATAT
Found at i:101105236 original size:13 final size:12
Alignment explanation
Indices: 101105200--101105233 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
101105190 TATATTTTAA
101105200 ATTTTAAATATAT
1 ATTTTAAAT-TAT
101105213 ATTTTGAAATTAT
1 ATTTT-AAATTAT
101105226 ATTTTAAA
1 ATTTTAAA
101105234 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 13 0.65
14 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
ATTTTAAATTAT
Found at i:101105266 original size:31 final size:33
Alignment explanation
Indices: 101105202--101105266 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
101105192 TATTTTAAAT
* ** *
101105202 TTTAAATATATATTTTGAAATTATATTTTAAAA
1 TTTAAATATATATTTTGAAATTAAAAATAAAAA
101105235 TTTAAATAT-TATTTT-AAATTAAAAATAAAAA
1 TTTAAATATATATTTTGAAATTAAAAATAAAAA
101105266 T
1 T
101105267 ATATTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 13 0.46
32 6 0.21
33 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (33 bp):
TTTAAATATATATTTTGAAATTAAAAATAAAAA
Found at i:101105358 original size:18 final size:19
Alignment explanation
Indices: 101105335--101105419 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 19
101105325 CATCTTTCAC
101105335 TTTTTTTTAACTTTTTTAT
1 TTTTTTTTAACTTTTTTAT
*
101105354 TTTTTTTTTACTTTTTTATTGT
1 TTTTTTTTAACTTTTTTA---T
*
101105376 CTTTTTCTTTAAATTTTTTA-
1 -TTTTT-TTTAACTTTTTTAT
* * *
101105396 CTTTTTTTAAGTTTTATAT
1 TTTTTTTTAACTTTTTTAT
101105415 TTTTT
1 TTTTT
101105420 CTTATTTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
18 11 0.21
19 25 0.47
22 1 0.02
23 5 0.09
24 11 0.21
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTAACTTTTTTAT
Found at i:101105488 original size:23 final size:23
Alignment explanation
Indices: 101105462--101105538 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
101105452 TTTGTTATTA
*
101105462 ATTTTAAAAAATTTAAAATGTAT
1 ATTTTAAAAAATTTAAAATATAT
* *** *
101105485 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAAAAATTTAAAATATAT
* *
101105508 ATTTTTTAAAAATTTTAAATAT-T
1 A-TTTTAAAAAATTTAAAATATAT
101105531 ATTTTAAA
1 ATTTTAAA
101105539 TTATTTTTTA
Statistics
Matches: 39, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
22 6 0.15
23 20 0.51
24 13 0.33
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTTAAAAAATTTAAAATATAT
Found at i:101105553 original size:13 final size:13
Alignment explanation
Indices: 101105519--101105550 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
101105509 TTTTTTAAAA
101105519 ATTTTAAA-TATT
1 ATTTTAAATTATT
101105531 ATTTTAAATTATT
1 ATTTTAAATTATT
101105544 -TTTTAAA
1 ATTTTAAA
101105551 ATTTTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:101105563 original size:22 final size:20
Alignment explanation
Indices: 101105531--101105607 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 20
101105521 TTTAAATATT
101105531 ATTTTAAATTATTTTTTAAA
1 ATTTTAAATTATTTTTTAAA
101105551 ATTTTGAATATTATTTTTTAAA
1 ATTTT-AA-ATTATTTTTTAAA
101105573 CA--TTAAATATATATTTTTAATA
1 -ATTTTAAAT-TAT-TTTTTAA-A
*
101105595 A-TATAAATTATTT
1 ATTTTAAATTATTT
101105608 AAATATTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
19 2 0.04
20 12 0.24
21 15 0.31
22 19 0.39
23 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
ATTTTAAATTATTTTTTAAA
Found at i:101105696 original size:21 final size:21
Alignment explanation
Indices: 101105657--101105696 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
101105647 TTTTTTAATA
*
101105657 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
101105678 TTTTATAATATT-TTAAATT
1 TTTTA-AATATTATTAAATT
101105697 ATGATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:101105706 original size:29 final size:30
Alignment explanation
Indices: 101105640--101105703 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
101105630 TTCAAATTTA
* * *
101105640 TTATTAGTTTTTTAATATTTTAAATATTAT
1 TTATTTGTTTTATAATATTTTAAATATGAT
101105670 TTAATTTGTTTTATAATATTTTAAATTATGAT
1 TT-ATTTGTTTTATAATATTTTAAA-TATGAT
101105702 TT
1 TT
101105704 TTGAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 20 0.69
32 7 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (30 bp):
TTATTTGTTTTATAATATTTTAAATATGAT
Found at i:101106017 original size:19 final size:20
Alignment explanation
Indices: 101105995--101106038 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
101105985 AAATAAAAAA
101105995 TATTTGTTAAAAAAAG-ATT
1 TATTTGTTAAAAAAAGAATT
*
101106014 TATTTGTTAAAAAATGAATT
1 TATTTGTTAAAAAAAGAATT
101106034 TATTT
1 TATTT
101106039 AAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (20 bp):
TATTTGTTAAAAAAAGAATT
Found at i:101106094 original size:20 final size:19
Alignment explanation
Indices: 101106040--101106094 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
101106030 AATTTATTTA
101106040 AAAATATATATATTAAAAAGT
1 AAAA-ATATATATT-AAAAGT
* *
101106061 AAAAATTTAAATTAAAAGTT
1 AAAAATATATATTAAAAG-T
*
101106081 AAAACTATATATTA
1 AAAAATATATATTA
101106095 TAAAATCACG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.18
20 19 0.68
21 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATATATATTAAAAGT
Found at i:101106520 original size:20 final size:20
Alignment explanation
Indices: 101106497--101106559 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
101106487 GTTGATTATA
101106497 ATTTTTAAATTTTAGTTCAC
1 ATTTTTAAATTTTAGTTCAC
* *
101106517 ATTTATAAATTTATA-TATTA-
1 ATTTTTAAATTT-TAGT-TCAC
* *
101106537 ATTTTTTAATTTTAGTACAC
1 ATTTTTAAATTTTAGTTCAC
101106557 ATT
1 ATT
101106560 CATAAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.09
20 26 0.79
21 4 0.12
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTTAAATTTTAGTTCAC
Found at i:101106539 original size:40 final size:41
Alignment explanation
Indices: 101106495--101106579 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
101106485 GTGTTGATTA
* *
101106495 TAATTTTTAAATTTTAGTTCACATTTATAAATTTATATA-T
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
* *
101106535 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
101106576 TAAT
1 TAAT
101106580 ATATATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (41 bp):
TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
Found at i:101106590 original size:40 final size:40
Alignment explanation
Indices: 101106504--101106590 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
101106494 ATAATTTTTA
* * * *
101106504 AATTTTAGTTCACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
*
101106544 AATTTTAGTACACATTCATAAATTTATGTACTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
101106584 ATTTTTA
1 AATTTTA
101106591 ATAGATAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:101106792 original size:16 final size:17
Alignment explanation
Indices: 101106738--101106806 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
101106728 GAAAAATGAT
*
101106738 TTTTTAATATATTTAAAA
1 TTTTAAATATA-TTAAAA
* * *
101106756 TTTTAAAAAACATAAAAA
1 TTTT-AAATATATTAAAA
*
101106774 ATTTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
101106791 TTTTAAATATGTTAAA
1 TTTTAAATATATTAAA
101106807 GAAAATGTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 24 0.60
18 12 0.30
19 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:101108909 original size:30 final size:30
Alignment explanation
Indices: 101108873--101108949 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
101108863 GTCTCAGAGT
**
101108873 AGTTCATATCACCTGGACATAGGCGGTTCA
1 AGTTCATATCACCCAGACATAGGCGGTTCA
*
101108903 AGTTCATATCACCCAGACATAGGCGGTTCG
1 AGTTCATATCACCCAGACATAGGCGGTTCA
*
101108933 AGTTCATTTCACCCAGA
1 AGTTCATATCACCCAGA
101108950 GCAACCACCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGGCGGTTCA
Found at i:101112263 original size:16 final size:16
Alignment explanation
Indices: 101112232--101112268 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
101112222 TCTTTAAAAT
*
101112232 TAATTT-TAAAATTTA
1 TAATTTATAAAAATTA
101112247 TAATTTATAAAAATTA
1 TAATTTATAAAAATTA
101112263 T-ATTTA
1 TAATTTA
101112269 AGATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATTTATAAAAATTA
Found at i:101112295 original size:18 final size:19
Alignment explanation
Indices: 101112252--101112295 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
101112242 ATTTATAATT
*
101112252 TATAAAAATTATATTTAAGA
1 TATAAAAA-TATATTTAAAA
*
101112272 TTTAAAAA-ATATTTAAAA
1 TATAAAAATATATTTAAAA
101112290 TATAAA
1 TATAAA
101112296 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 14 0.67
20 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATAAAAATATATTTAAAA
Found at i:101112462 original size:57 final size:57
Alignment explanation
Indices: 101112283--101112466 Score: 150
Period size: 57 Copynumber: 3.2 Consensus size: 57
101112273 TTAAAAAATA
101112283 TTTAAAATATAAATTTAAAATATTATAAAA-TAAATAATAAATTTGAAAGGTCATATC
1 TTTAAAATATAAATTTAAAATATTATAAAACT-AATAATAAATTTGAAAGGTCATATC
* * * * *
101112340 TTCAAAAAATAATATATTTTAAATAATT-TAAAAATCATAATTAAAAAAATTAT-AAA--ACA-A
1 TT--TAAAAT-ATAAATTTAAAAT-ATTAT-AAAA-C-TAA-T-AATAAATT-TGAAAGGTCATA
101112400 --
56 TC
* *
101112400 ATTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATC
1 TTTAAAATATAAATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATC
101112457 TTTAAAATAT
1 TTTAAAATAT
101112467 TTAAATGTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
51 1 0.01
52 10 0.10
53 1 0.01
54 5 0.05
55 2 0.02
56 7 0.07
57 23 0.24
58 5 0.05
59 5 0.05
60 13 0.13
61 7 0.07
62 1 0.01
63 4 0.04
64 2 0.02
65 10 0.10
66 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (57 bp):
TTTAAAATATAAATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATC
Found at i:101112557 original size:20 final size:20
Alignment explanation
Indices: 101112534--101112613 Score: 64
Period size: 20 Copynumber: 4.1 Consensus size: 20
101112524 TTTAAACAAT
101112534 AATTTAAAAATAATATTTAA
1 AATTTAAAAATAATATTTAA
*
101112554 AATTTAGAAA-AATAATTT-A
1 AATTTAAAAATAAT-ATTTAA
*
101112573 AA---AAATAT-ATATTTAA
1 AATTTAAAAATAATATTTAA
101112589 AATTTAAAAAATATATATTATAA
1 AATTT-AAAAATA-ATATT-TAA
101112612 AA
1 AA
101112614 CATTTCAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
15 4 0.09
16 8 0.17
19 6 0.13
20 18 0.39
22 5 0.11
23 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
AATTTAAAAATAATATTTAA
Found at i:101112577 original size:34 final size:33
Alignment explanation
Indices: 101112498--101112601 Score: 140
Period size: 33 Copynumber: 3.1 Consensus size: 33
101112488 AAATATGTTT
* * *
101112498 AATAA-TTAGAAAATAATATTTAAATTTTTAAAC
1 AATAATTTAAAAAATAATATTTAAA-ATTTAAAA
101112531 AATAATTT-AAAAATAATATTTAAAATTTAGAAA
1 AATAATTTAAAAAATAATATTTAAAATTTA-AAA
101112564 AATAATTTAAAAAATATATATTTAAAATTTAAAA
1 AATAATTTAAAAAATA-ATATTTAAAATTTAAAA
101112598 AATA
1 AATA
101112602 TATATTATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
32 4 0.06
33 30 0.47
34 16 0.25
35 14 0.22
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.38
Consensus pattern (33 bp):
AATAATTTAAAAAATAATATTTAAAATTTAAAA
Found at i:101112592 original size:22 final size:23
Alignment explanation
Indices: 101112567--101112613 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
101112557 TTAGAAAAAT
101112567 AATTTAAAAAATATATATT-TAA
1 AATTTAAAAAATATATATTATAA
101112589 AATTTAAAAAATATATATTATAA
1 AATTTAAAAAATATATATTATAA
101112612 AA
1 AA
101112614 CATTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTAAAAAATATATATTATAA
Found at i:101112657 original size:4 final size:4
Alignment explanation
Indices: 101112643--101112720 Score: 77
Period size: 4 Copynumber: 18.8 Consensus size: 4
101112633 AAGTTTTTTA
* *
101112643 AAAT TAAT AAAT AAAT AAA- AATAA AAAT AAAT AAAT AAAT AAAT AAAGAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT -AA-AT
* *
101112693 AAAG AAAA AAAT AAAT AAAAT AAAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAA
101112721 CATTTCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
3 2 0.03
4 49 0.78
5 10 0.16
6 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:101112777 original size:9 final size:9
Alignment explanation
Indices: 101112763--101112796 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
101112753 TTAATAACAA
101112763 AAAATAAAT
1 AAAATAAAT
101112772 AAAATAAAT
1 AAAATAAAT
101112781 AAACA-AAAT
1 AAA-ATAAAT
101112790 AAAATAA
1 AAAATAA
101112797 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:101112780 original size:13 final size:13
Alignment explanation
Indices: 101112750--101112792 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
101112740 AAAATTTTCA
* *
101112750 AAATTAATAACAAA
1 AAATAAATAA-AAT
101112764 AAATAAATAAAAT
1 AAATAAATAAAAT
*
101112777 AAATAAACAAAAT
1 AAATAAATAAAAT
101112790 AAA
1 AAA
101112793 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:101112794 original size:23 final size:24
Alignment explanation
Indices: 101112749--101112805 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
101112739 TAAAATTTTC
*
101112749 AAAATTAAT-AACAAAAAATAAAT
1 AAAATAAATAAACAAAAAATAAAT
*
101112772 AAAATAAATAAACAAAATA-AAAT
1 AAAATAAATAAACAAAAAATAAAT
*
101112795 AAGAAAAAATA
1 AA-AATAAATA
101112806 TAAAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATAAATAAACAAAAAATAAAT
Found at i:101112831 original size:37 final size:35
Alignment explanation
Indices: 101112755--101112871 Score: 92
Period size: 37 Copynumber: 3.1 Consensus size: 35
101112745 TTTCAAAATT
* * *
101112755 AATAACAAAAAATAAATAAAA-TAAATAAACAAAATAA
1 AATAA-AAAAAAT--ATAAAATTAAAAAAAGAAAAAAA
101112792 AATAAGAAAAAATATAAAACTTAAAAAAAGAAAAAAA
1 AATAA-AAAAAATATAAAA-TTAAAAAAAGAAAAAAA
*
101112829 AATTAAAGAAAAAGATAAAAGTTAATAAAAAAGTAAAAAAA
1 AA-TAAA-AAAAATATAAAA-TT-A-AAAAAAG-AAAAAAA
101112870 AA
1 AA
101112872 GTGAAACTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
35 6 0.09
37 28 0.42
38 16 0.24
39 1 0.01
40 7 0.10
41 9 0.13
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (35 bp):
AATAAAAAAAATATAAAATTAAAAAAAGAAAAAAA
Found at i:101112848 original size:19 final size:18
Alignment explanation
Indices: 101112798--101112867 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
101112788 ATAAAATAAG
* *
101112798 AAAAAATATAAAACTTAA
1 AAAAAAGATAAAAATTAA
* *
101112816 AAAAAGAAAAAAAAATTAA
1 AAAAA-AGATAAAAATTAA
*
101112835 AGAAAAAGATAAAAGTTAA
1 A-AAAAAGATAAAAATTAA
101112854 TAAAAAAG-TAAAAA
1 -AAAAAAGATAAAAA
101112868 AAAAGTGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 10 0.24
19 27 0.64
20 5 0.12
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAAAGATAAAAATTAA
Found at i:101112973 original size:7 final size:7
Alignment explanation
Indices: 101112963--101112998 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
101112953 TATATTATAT
101112963 ATTTTTA
1 ATTTTTA
101112970 ATTTTTA
1 ATTTTTA
*
101112977 A-TTTAA
1 ATTTTTA
101112983 ATTTTTA
1 ATTTTTA
101112990 ATTTTTA
1 ATTTTTA
101112997 AT
1 AT
101112999 ATATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:101112987 original size:13 final size:13
Alignment explanation
Indices: 101112969--101112993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101112959 ATATATTTTT
101112969 AATTTTTAATTTA
1 AATTTTTAATTTA
101112982 AATTTTTAATTT
1 AATTTTTAATTT
101112994 TTAATATATA
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):
AATTTTTAATTTA
Found at i:101112988 original size:20 final size:20
Alignment explanation
Indices: 101112958--101113010 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
101112948 CTAGTTATAT
*
101112958 TATATATTTTTAATTTTTAA
1 TATAAATTTTTAATTTTTAA
*
101112978 TTTAAATTTTTAATTTTTAA
1 TATAAATTTTTAATTTTTAA
*
101112998 TATATATTTTTAA
1 TATAAATTTTTAA
101113011 AAAAATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATAAATTTTTAATTTTTAA
Found at i:101113302 original size:13 final size:13
Alignment explanation
Indices: 101113267--101113349 Score: 54
Period size: 13 Copynumber: 6.7 Consensus size: 13
101113257 AATATTTAAA
*
101113267 ATTTAAAA-AAAT
1 ATTTAAAATATAT
101113279 AATTTCAAAATATAT
1 -ATTT-AAAATATAT
101113294 ATTTAAAAT-T-T
1 ATTTAAAATATAT
*
101113305 -TTAAAAATATAT
1 ATTTAAAATATAT
101113317 A-TTAATAA-A-AT
1 ATTTAA-AATATAT
*
101113328 ATTTCAAATATAT
1 ATTTAAAATATAT
*
101113341 ATTTCAAAT
1 ATTTAAAAT
101113350 TTTTTAAAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
10 7 0.12
11 7 0.12
12 10 0.18
13 22 0.39
14 8 0.14
15 3 0.05
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:101113330 original size:34 final size:32
Alignment explanation
Indices: 101113245--101113336 Score: 105
Period size: 34 Copynumber: 2.8 Consensus size: 32
101113235 TTCATATTTT
101113245 ATAATATTAAAAAATATTTAAAATTTAAAAAA
1 ATAATATTAAAAAATATTTAAAATTTAAAAAA
**
101113277 ATAAT-TTCAAAATATATATTTAAAATTTTTAAAA
1 ATAATATT-AAAA-A-ATATTTAAAATTTAAAAAA
*
101113311 ATATATATTAATAAAATATTTCAAAT
1 ATA-ATATTAA-AAAATATTTAAAAT
101113337 ATATATTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
31 2 0.04
32 9 0.18
33 1 0.02
34 30 0.59
35 5 0.10
36 4 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
ATAATATTAAAAAATATTTAAAATTTAAAAAA
Found at i:101113394 original size:18 final size:19
Alignment explanation
Indices: 101113361--101113398 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
101113351 TTTTAAAGTT
*
101113361 AATAATAATTAATAAATAA
1 AATAATAATAAATAAATAA
101113380 AATAA-AATAAATAAATAA
1 AATAATAATAAATAAATAA
101113398 A
1 A
101113399 GGTAAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAATAATAAATAAATAA
Found at i:101116747 original size:119 final size:119
Alignment explanation
Indices: 101116536--101116777 Score: 484
Period size: 119 Copynumber: 2.0 Consensus size: 119
101116526 ATAATTGAAT
101116536 GATAAGTATGAAACGTAATTGAATGCATGCTTTGTGTGCTTCATGTTAGAATCATTTAAGTGCTA
1 GATAAGTATGAAACGTAATTGAATGCATGCTTTGTGTGCTTCATGTTAGAATCATTTAAGTGCTA
101116601 AACTTCCAAGTTGTACAAATATAACATGTTTGAATTGGTAAATGGTTTGTTTTA
66 AACTTCCAAGTTGTACAAATATAACATGTTTGAATTGGTAAATGGTTTGTTTTA
101116655 GATAAGTATGAAACGTAATTGAATGCATGCTTTGTGTGCTTCATGTTAGAATCATTTAAGTGCTA
1 GATAAGTATGAAACGTAATTGAATGCATGCTTTGTGTGCTTCATGTTAGAATCATTTAAGTGCTA
101116720 AACTTCCAAGTTGTACAAATATAACATGTTTGAATTGGTAAATGGTTTGTTTTA
66 AACTTCCAAGTTGTACAAATATAACATGTTTGAATTGGTAAATGGTTTGTTTTA
101116774 GATA
1 GATA
101116778 TGGATAATTG
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 123 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (119 bp):
GATAAGTATGAAACGTAATTGAATGCATGCTTTGTGTGCTTCATGTTAGAATCATTTAAGTGCTA
AACTTCCAAGTTGTACAAATATAACATGTTTGAATTGGTAAATGGTTTGTTTTA
Found at i:101123119 original size:13 final size:13
Alignment explanation
Indices: 101123103--101123128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101123093 ATAAAAATGA
101123103 TAAAAAGAAATTT
1 TAAAAAGAAATTT
101123116 TAAAAAGAAATTT
1 TAAAAAGAAATTT
101123129 GATTTAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
TAAAAAGAAATTT
Found at i:101125848 original size:3 final size:3
Alignment explanation
Indices: 101125840--101125868 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
101125830 GATCGTTGTC
101125840 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
101125869 AGGAGGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:101126353 original size:42 final size:42
Alignment explanation
Indices: 101126295--101126381 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
101126285 CAATGTTGAT
101126295 TTTTTGTCAATTGTACATTATTTCTATTAGTAAAATAATAAA
1 TTTTTGTCAATTGTACATTATTTCTATTAGTAAAATAATAAA
101126337 TTTTTGTCAATTGTACATTATTTCTATTAGTAAAATAATAAA
1 TTTTTGTCAATTGTACATTATTTCTATTAGTAAAATAATAAA
101126379 TTT
1 TTT
101126382 AACTCTTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (42 bp):
TTTTTGTCAATTGTACATTATTTCTATTAGTAAAATAATAAA
Found at i:101128939 original size:46 final size:44
Alignment explanation
Indices: 101128880--101128994 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
101128870 ACAGGACAGA
* *
101128880 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
101128926 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
101128970 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
101128995 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:101128975 original size:44 final size:45
Alignment explanation
Indices: 101128880--101129013 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
101128870 ACAGGACAGA
* *
101128880 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
101128926 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
101128970 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
101129014 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:101135270 original size:46 final size:44
Alignment explanation
Indices: 101135211--101135325 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
101135201 ACAGGACAGA
* *
101135211 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
101135257 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
101135301 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
101135326 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:101135306 original size:44 final size:45
Alignment explanation
Indices: 101135211--101135344 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
101135201 ACAGGACAGA
* *
101135211 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
101135257 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
101135301 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
101135345 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:101140685 original size:11 final size:12
Alignment explanation
Indices: 101140669--101140706 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
101140659 GTAAGGATAA
101140669 ATTTTTTTA-TG
1 ATTTTTTTATTG
101140680 ATTTTTTTATTG
1 ATTTTTTTATTG
*
101140692 CTTTTTTTAATTG
1 ATTTTTTT-ATTG
101140705 AT
1 AT
101140707 GTACTACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 9 0.39
13 5 0.22
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (12 bp):
ATTTTTTTATTG
Found at i:101149976 original size:27 final size:27
Alignment explanation
Indices: 101149938--101149993 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
101149928 CTAAGATTTA
101149938 AATCTATCTGTAAGATCAAACTCTGAG
1 AATCTATCTGTAAGATCAAACTCTGAG
101149965 AATCTATCTGTAAGATCAAACTCTGAG
1 AATCTATCTGTAAGATCAAACTCTGAG
101149992 AA
1 AA
101149994 ATGGAACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
AATCTATCTGTAAGATCAAACTCTGAG
Found at i:101152054 original size:20 final size:19
Alignment explanation
Indices: 101152015--101152054 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
101152005 AAATAATAAG
*
101152015 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
101152034 AATTCTATTTTCTACGAATA
1 AATT-TATTTTCTAAGAATA
101152054 A
1 A
101152055 CAATTCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:101152516 original size:3 final size:3
Alignment explanation
Indices: 101152508--101152533 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101152498 GTACACTTAT
101152508 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
101152534 TGTGGGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:101153646 original size:20 final size:20
Alignment explanation
Indices: 101153618--101153655 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101153608 TTAATAGTTC
101153618 AAAAAATA-TATATTATTTAT
1 AAAAAATATTAT-TTATTTAT
*
101153638 AAAATATATTATTTATTT
1 AAAAAATATTATTTATTT
101153656 CGATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAAAATATTATTTATTTAT
Found at i:101160188 original size:17 final size:17
Alignment explanation
Indices: 101160160--101160194 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
101160150 TTTGTAATTT
101160160 ATGAATTGTG-AATAAA
1 ATGAATTGTGAAATAAA
101160176 ATGAATATGTGAAATAAA
1 ATGAAT-TGTGAAATAAA
101160194 A
1 A
101160195 ATGTAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (17 bp):
ATGAATTGTGAAATAAA
Found at i:101163724 original size:197 final size:197
Alignment explanation
Indices: 101163389--101163784 Score: 659
Period size: 197 Copynumber: 2.0 Consensus size: 197
101163379 GTTCTTTATC
* * * *
101163389 ATAATATTTCCCACTAAAGTAAATGCTCAGTTCTAATTTAACGAAACTAATAGTTGAAATTTGAC
1 ATAATATTTCCCACTAAAGCAAATCCTCAGTTCTAATGTAACGAAACTAATAGTTGAAATCTGAC
101163454 CAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTTT
66 CAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTTT
*
101163519 ATAATTAGATACCCAGAATTACTGTTGTACTTAACCTTTAACATTTTTGGGTGTGACATAAGTGT
131 ATAATTAGATACCCAAAATTACTGTTGTACTTAACCTTTAACATTTTTGGGTGTGACATAAGTGT
101163584 TT
196 TT
*
101163586 ATAATATTTCCCACTAAAGCAAATACCT-AGTTCTAATGTAACGAAACTAATAGTTGAAATCTGG
1 ATAATATTTCCCACTAAAGCAAAT-CCTCAGTTCTAATGTAACGAAACTAATAGTTGAAATCTGA
* * * *
101163650 CCAATTACCAAATCAGTTAGCAAGATTCACGTAATTACACTAATACCCTTATAAATAGGAAGTTT
65 CCAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTT
** *
101163715 TATAATTAGATACCCAAAATTACTGTTGTACTTCTCTTTTAACATTTTTGGGTGTGACATAAGTG
130 TATAATTAGATACCCAAAATTACTGTTGTACTTAACCTTTAACATTTTTGGGTGTGACATAAGTG
101163780 TTT
195 TTT
101163783 AT
1 AT
101163785 GTTATGTTTG
Statistics
Matches: 185, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
197 183 0.99
198 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (197 bp):
ATAATATTTCCCACTAAAGCAAATCCTCAGTTCTAATGTAACGAAACTAATAGTTGAAATCTGAC
CAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTTT
ATAATTAGATACCCAAAATTACTGTTGTACTTAACCTTTAACATTTTTGGGTGTGACATAAGTGT
TT
Found at i:101165726 original size:27 final size:25
Alignment explanation
Indices: 101165688--101165756 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
101165678 CATCGCGACC
*
101165688 CACAGCTCATGTGAGCAGGCCAATTTT
1 CACAGCTCATGTGAGCA--CCAATATT
* **
101165715 CACAGCTCATGTAAGCACTTATATT
1 CACAGCTCATGTGAGCACCAATATT
*
101165740 CACAGCTCGTGTGAGCA
1 CACAGCTCATGTGAGCA
101165757 ACTCTATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 20 0.56
27 16 0.44
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (25 bp):
CACAGCTCATGTGAGCACCAATATT
Found at i:101174556 original size:16 final size:16
Alignment explanation
Indices: 101174506--101174549 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
101174496 GATTGGGGTA
*
101174506 AATGGAATAGAGCTGT
1 AATGGAATAGAGATGT
* *
101174522 AATAGAAAAGAGATGT
1 AATGGAATAGAGATGT
101174538 AATGGAATAGAG
1 AATGGAATAGAG
101174550 TTATAATCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.30, T:0.20
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Found at i:101174756 original size:58 final size:58
Alignment explanation
Indices: 101174693--101174853 Score: 177
Period size: 58 Copynumber: 2.8 Consensus size: 58
101174683 TATTATTAAA
*
101174693 TTTTAATA-AGATTATTATTGAATATAATTTAATAAAAATAATAAATAATTTAAT-CATT
1 TTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATACA-T
* * * **
101174751 TTTTAACATAATTATTATTAAATATAATTCAAT-AAAATATTGTATAATTTAATAACAT
1 TTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAAT-ACAT
* *
101174809 TCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 TTTTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAATAA
101174854 TATATAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
57 17 0.20
58 46 0.55
59 13 0.15
60 8 0.10
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
TTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATACAT
Found at i:101180954 original size:186 final size:186
Alignment explanation
Indices: 101180639--101181012 Score: 721
Period size: 186 Copynumber: 2.0 Consensus size: 186
101180629 TGAACTTCAT
*
101180639 ATCTAACCTTATGGATGAATTTGTGCTAGGTTTATGGATTAAATTGAGTTGCATTATGTCATGTT
1 ATCTAACCTTATGGATGAATTTGTGCTAGGTTTATGGATTAAATTGAGTTACATTATGTCATGTT
*
101180704 TACTTAATTGAAATTGTGAATGAATGGTAAGTTATACTTATTAGCTATTCGAGCTTATTAAGCTT
66 TACTTAATTGAAATTGTGAATGAATGGTAAGTTATACTTATTAGCTATTCGAGCTTACTAAGCTT
101180769 TATAGTTTACTCTGTTTACTTTTCCGTGTTTTATAGTGAATTCGAAGCTTGCTCGG
131 TATAGTTTACTCTGTTTACTTTTCCGTGTTTTATAGTGAATTCGAAGCTTGCTCGG
101180825 ATCTAACCTTATGGATGAATTTGTGCTAGGTTTATGGATTAAATTGAGTTACATTATGTCATGTT
1 ATCTAACCTTATGGATGAATTTGTGCTAGGTTTATGGATTAAATTGAGTTACATTATGTCATGTT
101180890 TACTTAATTGAAATTGTGAATGAATGGTAAGTTATACTTATTAGCTATTCGAGCTTACTAAGCTT
66 TACTTAATTGAAATTGTGAATGAATGGTAAGTTATACTTATTAGCTATTCGAGCTTACTAAGCTT
*
101180955 TATAGTTTACTCTGTTTACTTTTCCGTGTTTTATAGTGAATTCGAAGCTTGCTTGG
131 TATAGTTTACTCTGTTTACTTTTCCGTGTTTTATAGTGAATTCGAAGCTTGCTCGG
101181011 AT
1 AT
101181013 TGGGAGTTGT
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 185 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (186 bp):
ATCTAACCTTATGGATGAATTTGTGCTAGGTTTATGGATTAAATTGAGTTACATTATGTCATGTT
TACTTAATTGAAATTGTGAATGAATGGTAAGTTATACTTATTAGCTATTCGAGCTTACTAAGCTT
TATAGTTTACTCTGTTTACTTTTCCGTGTTTTATAGTGAATTCGAAGCTTGCTCGG
Found at i:101186697 original size:13 final size:13
Alignment explanation
Indices: 101186679--101186703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101186669 AATATGACTT
101186679 AATATAAAAATAA
1 AATATAAAAATAA
101186692 AATATAAAAATA
1 AATATAAAAATA
101186704 TATTTTTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATATAAAAATAA
Found at i:101188316 original size:44 final size:44
Alignment explanation
Indices: 101188233--101188317 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
101188223 GACACACAAG
* * **
101188233 GTGCCTCATCGACTCGAAGTTGAAGTAACAGTACGACACTTATA
1 GTGCCTCATCGACTCGAAGTCGAAGTAACACTAAAACACTTATA
* *
101188277 GTGCCTCATCGACTC-AAGGTCGAAGTATCCCTAAAACACTT
1 GTGCCTCATCGACTCGAA-GTCGAAGTAACACTAAAACACTT
101188318 CCAATCCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (44 bp):
GTGCCTCATCGACTCGAAGTCGAAGTAACACTAAAACACTTATA
Found at i:101189219 original size:3 final size:3
Alignment explanation
Indices: 101189211--101189247 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
101189201 TTTATTAACT
101189211 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
101189248 TATTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:101189252 original size:3 final size:3
Alignment explanation
Indices: 101189246--101189283 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
101189236 AATAATAATA
101189246 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
101189284 AATAAGTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.