Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 350 of 427
Found at i:101826757 original size:9 final size:9
Alignment explanation
Indices: 101826743--101826783 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
101826733 ATAAGTATAA
101826743 AATTAACCG
1 AATTAACCG
101826752 AATTAACCG
1 AATTAACCG
*
101826761 AATT-ACAAG
1 AATTAAC-CG
101826770 AATTAACCG
1 AATTAACCG
101826779 AATTA
1 AATTA
101826784 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:101826816 original size:5 final size:6
Alignment explanation
Indices: 101826801--101826841 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
101826791 AAAATTATAT
*
101826801 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
101826842 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:101826893 original size:18 final size:18
Alignment explanation
Indices: 101826867--101826904 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
101826857 ATTTTTATGA
101826867 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
* *
101826885 TTGGTTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
101826903 TT
1 TT
101826905 AATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.03, G:0.45, T:0.45
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:101828501 original size:21 final size:21
Alignment explanation
Indices: 101828475--101828554 Score: 108
Period size: 21 Copynumber: 3.8 Consensus size: 21
101828465 TTAGTTTTTT
101828475 GAGCTTCTGTTCAACTCTTAC
1 GAGCTTCTGTTCAACTCTTAC
*
101828496 GAGCTTCTGTTCAGCTCTTAC
1 GAGCTTCTGTTCAACTCTTAC
*
101828517 GAGCTTTCTG-TCAGGCTCTTAC
1 GAGC-TTCTGTTCA-ACTCTTAC
*
101828539 GAGTTTCTGTTCAACT
1 GAGCTTCTGTTCAACT
101828555 TTCAAGCTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
21 34 0.64
22 19 0.36
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCTTAC
Found at i:101828837 original size:31 final size:31
Alignment explanation
Indices: 101828778--101828837 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
101828768 TATACATGAA
*
101828778 ATATATGGAAATGATGGCATATGATATATTG
1 ATATATGGAAATGATGACATATGATATATTG
* *
101828809 ATATATTGAAATGGATGATATATG-TATAT
1 ATATATGGAAAT-GATGACATATGATATAT
101828838 GAAGAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (31 bp):
ATATATGGAAATGATGACATATGATATATTG
Found at i:101829808 original size:20 final size:20
Alignment explanation
Indices: 101829783--101829851 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
101829773 GGTAAGTAAC
101829783 TTAGTTTGAAATAATGCAAA
1 TTAGTTTGAAATAATGCAAA
* *
101829803 TTAGTTTGGTTAATAAGTG--AC
1 TTAGTTT-G-AAATAA-TGCAAA
101829824 TTAGTTTGAAATAATGCAAA
1 TTAGTTTGAAATAATGCAAA
101829844 TTAGTTTG
1 TTAGTTTG
101829852 GTTAACCTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.05
19 5 0.12
20 17 0.43
21 9 0.22
22 5 0.12
23 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (20 bp):
TTAGTTTGAAATAATGCAAA
Found at i:101829820 original size:41 final size:41
Alignment explanation
Indices: 101829775--101829856 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
101829765 TTTTGATAGG
101829775 TAAGTAACTTAGTTTGAAATAATGCAAATTAGTTTGGTTAA
1 TAAGTAACTTAGTTTGAAATAATGCAAATTAGTTTGGTTAA
*
101829816 TAAGTGACTTAGTTTGAAATAATGCAAATTAGTTTGGTTAA
1 TAAGTAACTTAGTTTGAAATAATGCAAATTAGTTTGGTTAA
101829857 CCTTGGGTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (41 bp):
TAAGTAACTTAGTTTGAAATAATGCAAATTAGTTTGGTTAA
Found at i:101831765 original size:21 final size:21
Alignment explanation
Indices: 101831739--101831808 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
101831729 ATGAGAGCTA
101831739 AACAGAAACCCATAAAGGTTG
1 AACAGAAACCCATAAAGGTTG
* * *
101831760 AACAGAAGCTCGT-AAGAGTTG
1 AACAGAAACCCATAAAG-GTTG
* *
101831781 AACAGAAACCCATAAGGGTTA
1 AACAGAAACCCATAAAGGTTG
101831802 AACAGAA
1 AACAGAA
101831809 GCTCAAAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.08
21 34 0.87
22 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (21 bp):
AACAGAAACCCATAAAGGTTG
Found at i:101831831 original size:42 final size:42
Alignment explanation
Indices: 101831718--101831896 Score: 162
Period size: 42 Copynumber: 4.3 Consensus size: 42
101831708 CCGAAGGCTG
* ** * * *
101831718 AACAAAAGCTCATGAGAGCTAAACAGAAACCCATAA-AGGTTG
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGA-GTTA
** * * *
101831760 AACAGAAGCTCGTAAGAGTTGAACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGAGTTA
* * * *
101831802 AACAGAAGCTCAAAAGAGCTGAAGGGAAACTCATATGAGATA
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGAGTTA
* * * *
101831844 AACAGAAGCTCAATAGAGCTGAACGAAAACACATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGAGTTA
*
101831886 AATAGAAGCTC
1 AACAGAAGCTC
101831897 GTGAGAGCTA
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 114 1.00
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGAGTTA
Found at i:101831904 original size:42 final size:42
Alignment explanation
Indices: 101831760--101831914 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
101831750 ATAAAGGTTG
* * * * *
101831760 AACAGAAGCTCGTAAGAGTTGAAC-AGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACGA-AAACACATATGAGTTA
* * * * *
101831802 AACAGAAGCTCAAAAGAGCTGAAGGGAAACTCATATGAGATA
1 AACAGAAGCTCATAAGAGCTGAACGAAAACACATATGAGTTA
101831844 AACAGAAGCTCA-ATAGAGCTGAACGAAAACACATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTGAACGAAAACACATATGAGTTA
* * * *
101831886 AATAGAAGCTCGTGAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTGAAC-GAAA
101831915 GTAAACACGA
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 87 0.95
43 4 0.04
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACGAAAACACATATGAGTTA
Found at i:101832091 original size:17 final size:17
Alignment explanation
Indices: 101832054--101832091 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
101832044 TATTCAATTC
*
101832054 AAAT-TTTCAATTTTAA
1 AAATATTTCAATTTCAA
*
101832070 TAATATTTCAATTTCAA
1 AAATATTTCAATTTCAA
101832087 AAATA
1 AAATA
101832092 GAATAAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATTTCAATTTCAA
Found at i:101836307 original size:91 final size:92
Alignment explanation
Indices: 101836078--101836325 Score: 232
Period size: 91 Copynumber: 2.7 Consensus size: 92
101836068 CACATCAATT
* * * * * *
101836078 CAACCGATAACACGCTAGATGCACATAATGCAAATCATGTAGGTTAAATATTCTCCTCCGATAAC
1 CAACCGATAACATGCTAGATGCACATAGTGCAAAACCTGTAGGCTAAATACTCTCCTCCGATAAC
* * *
101836143 ACGCCAAATTGCTAATAAGAGCTATTT
66 ACGCCAAATTACCAATAAGAGCTATTA
* * * * * * *
101836170 CAACCAATAACATG-TCAGATGCACATAGTGTAAAGCCCGTAAGCTAAATGCTCTCCTCCTATAA
1 CAACCGATAACATGCT-AGATGCACATAGTGCAAAACCTGTAGGCTAAATACTCTCCTCCGATAA
* * *
101836234 -ATGCCAAATTACCCATAA-AGGTTATTA
65 CACGCCAAATTACCAATAAGA-GCTATTA
* * * * * *
101836261 CAACCGATAACGTGCTAGATACACATAGTACAAAACCTGTAGGCTAACTATTCTCTTCCGATAAC
1 CAACCGATAACATGCTAGATGCACATAGTGCAAAACCTGTAGGCTAAATACTCTCCTCCGATAAC
101836326 TTGCCAAAAA
Statistics
Matches: 121, Mismatches: 31, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
90 1 0.01
91 69 0.57
92 51 0.42
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (92 bp):
CAACCGATAACATGCTAGATGCACATAGTGCAAAACCTGTAGGCTAAATACTCTCCTCCGATAAC
ACGCCAAATTACCAATAAGAGCTATTA
Found at i:101839060 original size:21 final size:20
Alignment explanation
Indices: 101839017--101839060 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
101839007 AAAATGAGTC
* * *
101839017 TTAGTTTATTTTTAGTGTTT
1 TTAGGTTATGTTTAGTCTTT
101839037 TTAGGTTATGTTTAGTACTTT
1 TTAGGTTATGTTTAGT-CTTT
101839058 TTA
1 TTA
101839061 TATACCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (20 bp):
TTAGGTTATGTTTAGTCTTT
Found at i:101842095 original size:56 final size:56
Alignment explanation
Indices: 101842032--101842194 Score: 229
Period size: 56 Copynumber: 2.9 Consensus size: 56
101842022 ACCATGGCAT
101842032 CGATATATGTGTGCGAGTAAGACCATGTTTGATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCATGTTTGATACGTTGGCATCGATATGTGATTC
* * * *
101842088 CGATATATGTCTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCATGTTTGATACGTTGGCATCGATATGTGATTC
* * * **
101842144 CGATTTATGTGTGCGAGTAAGACCCTGTCTGGGACAG-TGGCATCGATATGT
1 CGATATATGTGTGCGAGTAAGACCATGTTTGATAC-GTTGGCATCGATATGT
101842195 AATTACATGT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 93 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCATGTTTGATACGTTGGCATCGATATGTGATTC
Found at i:101843184 original size:15 final size:15
Alignment explanation
Indices: 101843164--101843195 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
101843154 AATAAGCATA
*
101843164 TTTTGGTAAGTATGT
1 TTTTGGTAAATATGT
101843179 TTTTGGTAAATATGT
1 TTTTGGTAAATATGT
101843194 TT
1 TT
101843196 GTGATGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (15 bp):
TTTTGGTAAATATGT
Found at i:101847913 original size:11 final size:11
Alignment explanation
Indices: 101847899--101847938 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
101847889 TATTTTCTCC
101847899 CTATTTTACTA
1 CTATTTTACTA
101847910 CTATTTTACTA
1 CTATTTTACTA
* * *
101847921 GTATGTTGCTA
1 CTATTTTACTA
101847932 CTATTTT
1 CTATTTT
101847939 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:101849253 original size:2 final size:2
Alignment explanation
Indices: 101849246--101849288 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
101849236 TAACCAAAAC
101849246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101849288 A
1 A
101849289 GACCTTTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101850602 original size:46 final size:46
Alignment explanation
Indices: 101850526--101850885 Score: 461
Period size: 46 Copynumber: 7.8 Consensus size: 46
101850516 TGATGTCATA
* * * * *
101850526 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
101850572 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
101850619 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * * *
101850665 GTATCTTTTAGCCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
101850711 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * * * *
101850757 GTGTCTTTCAACCATGGTCTTACACACTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
101850803 GTATCTTTCAACCATGATCCTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
101850849 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
101850886 AGAGCACACT
Statistics
Matches: 280, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
46 241 0.86
47 39 0.14
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:101856597 original size:31 final size:31
Alignment explanation
Indices: 101856527--101856587 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
101856517 ATTTGGTTAT
*
101856527 TGAACTATTTGAAAGTTTTCATTTAAGTCAC
1 TGAACTATTTAAAAGTTTTCATTTAAGTCAC
*
101856558 TGAACTATTTAAAAGTTTTTATTTAAGTCA
1 TGAACTATTTAAAAGTTTTCATTTAAGTCA
101856588 TTGGTCTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
TGAACTATTTAAAAGTTTTCATTTAAGTCAC
Found at i:101857864 original size:2 final size:2
Alignment explanation
Indices: 101857859--101857888 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
101857849 ATATGCCTAC
101857859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101857889 GGTTTCTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101862941 original size:14 final size:14
Alignment explanation
Indices: 101862922--101862960 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
101862912 CCAGAAATGT
101862922 AAATTATTTTTT-A
1 AAATTATTTTTTGA
*
101862935 GAAATTATTTTCTGA
1 -AAATTATTTTTTGA
101862950 AAATTATTTTT
1 AAATTATTTTT
101862961 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (14 bp):
AAATTATTTTTTGA
Found at i:101864137 original size:31 final size:30
Alignment explanation
Indices: 101864080--101864138 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
101864070 GTAAATACTC
* * * *
101864080 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGCAAATATGA
101864110 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAA-AGTGCAAATAT
101864139 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGCAAATATGA
Found at i:101865933 original size:5 final size:5
Alignment explanation
Indices: 101865917--101865953 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
101865907 AGAGTTTTTT
101865917 GGCCC GGGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
101865954 AATTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.43, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:101866094 original size:22 final size:22
Alignment explanation
Indices: 101866055--101866113 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
101866045 GTTTTAAGAA
*
101866055 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
101866076 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
101866098 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
101866114 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:101866130 original size:26 final size:24
Alignment explanation
Indices: 101866084--101866132 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
101866074 ATTTGTTTTA
*
101866084 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
101866108 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
101866133 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:101866144 original size:26 final size:26
Alignment explanation
Indices: 101866087--101866145 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
101866077 TGTTTTAATA
*
101866087 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
101866112 TTGATTTATTATATTTTTAAA-ATTTT
1 TTTATTTATTATATTTTTAAATA-TAT
101866138 TTTATTTA
1 TTTATTTA
101866146 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:101879673 original size:19 final size:20
Alignment explanation
Indices: 101879649--101879686 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
101879639 ATTTTTAAAG
101879649 AATATA-GTGTATA-GTTGTA
1 AATATATGT-TATAGGTTGTA
101879668 AATATATGTTATAGGTTGT
1 AATATATGTTATAGGTTGT
101879687 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (20 bp):
AATATATGTTATAGGTTGTA
Found at i:101880619 original size:26 final size:24
Alignment explanation
Indices: 101880579--101880638 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
101880569 TTATTTTATT
* * *
101880579 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
101880603 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
101880629 AAATAAATAT
1 AAATAAATAT
101880639 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:101880650 original size:22 final size:22
Alignment explanation
Indices: 101880609--101880667 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
101880599 ATAATAAATC
* *
101880609 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
101880629 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
101880651 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
101880668 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:101883049 original size:25 final size:25
Alignment explanation
Indices: 101883021--101883076 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
101883011 TGAGCTTCTT
* *
101883021 GTTATACATCCCAGATAAGCTTCCC
1 GTTATACAGCCCACATAAGCTTCCC
* * * *
101883046 GTTACATAGCTCACATGAGCTTCCC
1 GTTATACAGCCCACATAAGCTTCCC
101883071 GTTATA
1 GTTATA
101883077 TGGCTCGAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (25 bp):
GTTATACAGCCCACATAAGCTTCCC
Found at i:101886617 original size:18 final size:18
Alignment explanation
Indices: 101886591--101886629 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
101886581 TCAGAAATAA
*
101886591 TGGGCTCACACGCCCATG
1 TGGGCTCACACACCCATG
* *
101886609 TGGGGTCACACACCCGTG
1 TGGGCTCACACACCCATG
101886627 TGG
1 TGG
101886630 CCCATACGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.18
Consensus pattern (18 bp):
TGGGCTCACACACCCATG
Found at i:101887872 original size:3 final size:3
Alignment explanation
Indices: 101887858--101887902 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
101887848 TAAAAGATAT
* * * *
101887858 TTA TTA TAA TTA TTA TTA TAA TTA TTA TAA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
101887903 AATAATATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:101888418 original size:17 final size:18
Alignment explanation
Indices: 101888393--101888426 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
101888383 TATATGAGTT
*
101888393 AATTGGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
101888410 AATTAGGATATAAATTG
1 AATTAGGATATAAATTG
101888427 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:101888922 original size:23 final size:22
Alignment explanation
Indices: 101888896--101888956 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
101888886 AGGCACTTTA
101888896 TGTGTCATATTTCAAGCACCTCG
1 TGTGTC-TATTTCAAGCACCTCG
* *
101888919 TGTGTCGTA--TCAGGTACCTCG
1 TGTGTC-TATTTCAAGCACCTCG
101888940 TGTGT-TATTTCAAGCAC
1 TGTGTCTATTTCAAGCAC
101888957 TTATGTGTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.06
21 21 0.68
23 8 0.26
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTGTCTATTTCAAGCACCTCG
Found at i:101891714 original size:15 final size:16
Alignment explanation
Indices: 101891674--101891730 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
101891664 CACAACTAAT
*
101891674 TGAAAAAGAAGAAAAA
1 TGAAGAAGAAGAAAAA
*
101891690 TGAAGGAGAA-AAAAA
1 TGAAGAAGAAGAAAAA
*
101891705 TGGAGAAGAAGGGAAAAA
1 TGAAGAAGAA--GAAAAA
101891723 -GAAGAAGA
1 TGAAGAAGA
101891731 GAAGTTCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 13 0.39
16 8 0.24
17 7 0.21
18 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (16 bp):
TGAAGAAGAAGAAAAA
Found at i:101898195 original size:33 final size:33
Alignment explanation
Indices: 101898157--101898247 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
101898147 ACGCCCATGT
101898157 ACCTTGCCCGTGTGGGTCACACGGCCCAAATTG
1 ACCTTGCCCGTGTGGGTCACACGGCCCAAATTG
* *
101898190 GCCTTGCCCGTGTGGGTCACACGGCCCAAATTT
1 ACCTTGCCCGTGTGGGTCACACGGCCCAAATTG
* *
101898223 ACCTTGCTCGTGTGGATCACACGGC
1 ACCTTGCCCGTGTGGGTCACACGGC
101898248 ATGGCCCAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.23
Consensus pattern (33 bp):
ACCTTGCCCGTGTGGGTCACACGGCCCAAATTG
Found at i:101898857 original size:22 final size:20
Alignment explanation
Indices: 101898798--101898857 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
101898788 CACAACTAAT
*
101898798 AGAAAAAGAAGAAAATGAAGA
1 AGAAAAAGAAGAAGA-GAAGA
*
101898819 AGAAAAA-AA-TAGAGAAGA
1 AGAAAAAGAAGAAGAGAAGA
101898837 AGGGAAAAAGAAGAAGAGAAG
1 A--GAAAAAGAAGAAGAGAAG
101898858 TTTGGCAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 8 0.25
21 9 0.28
22 7 0.22
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.03
Consensus pattern (20 bp):
AGAAAAAGAAGAAGAGAAGA
Found at i:101901985 original size:30 final size:30
Alignment explanation
Indices: 101901951--101902014 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
101901941 GGTTCGTAAT
101901951 ATGTTAGAAAATTTCTTTGGTTAGTAGTGC
1 ATGTTAGAAAATTTCTTTGGTTAGTAGTGC
101901981 ATGTTAGAAAATTTCTTTGGTTAGTAGTGC
1 ATGTTAGAAAATTTCTTTGGTTAGTAGTGC
101902011 ATGT
1 ATGT
101902015 CAACCTCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (30 bp):
ATGTTAGAAAATTTCTTTGGTTAGTAGTGC
Found at i:101906747 original size:14 final size:14
Alignment explanation
Indices: 101906728--101906756 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
101906718 CTTTGAGTAT
101906728 TTTCTGCTTTCCTC
1 TTTCTGCTTTCCTC
101906742 TTTCTGCTTTCCTC
1 TTTCTGCTTTCCTC
101906756 T
1 T
101906757 CTTCGTATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTCTGCTTTCCTC
Found at i:101910240 original size:16 final size:18
Alignment explanation
Indices: 101910205--101910242 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101910195 ATCCTTATTT
*
101910205 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
101910223 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
101910239 AAAT
1 AAAT
101910243 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:101913775 original size:26 final size:26
Alignment explanation
Indices: 101913666--101913767 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
101913656 CATGAAATTC
101913666 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
101913692 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
101913718 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
101913744 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
101913768 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:101921674 original size:24 final size:23
Alignment explanation
Indices: 101921636--101921690 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
101921626 AATACATGTT
*
101921636 CATAATAT-ATATAAAACGTATA
1 CATAATATAATATAAAACATATA
* *
101921658 TATAATATAATATTAAAACATTTA
1 CATAATATAATA-TAAAACATATA
101921682 CATAATATA
1 CATAATATA
101921691 TACACATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.26
23 3 0.11
24 17 0.63
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:101922078 original size:30 final size:31
Alignment explanation
Indices: 101922032--101922091 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
101922022 TAATAATAAT
*
101922032 AAAAATAAATATAATAACA-ATATTGAAATAC
1 AAAAATAAATACAATAA-AGATATTGAAATAC
101922063 AAAAA-AAATACAATAAAGATATTGAAATA
1 AAAAATAAATACAATAAAGATATTGAAATA
101922092 AAGTAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 21 0.78
31 5 0.19
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (31 bp):
AAAAATAAATACAATAAAGATATTGAAATAC
Found at i:101922297 original size:3 final size:3
Alignment explanation
Indices: 101922289--101922374 Score: 140
Period size: 3 Copynumber: 29.0 Consensus size: 3
101922279 GAGTACATAC
101922289 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
101922337 TAA TAA TAA TAA TAA TAA T-A TCAA TAA T-A TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
101922375 CAAGGATATT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
2 4 0.05
3 72 0.92
4 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:101927474 original size:30 final size:30
Alignment explanation
Indices: 101927440--101927498 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
101927430 ACCTATAACG
*
101927440 GTTAATTTTATCAAGATTAATGGTTATTCA
1 GTTAACTTTATCAAGATTAATGGTTATTCA
101927470 GTTAACTTTATCAAGATTAATGGTTATTC
1 GTTAACTTTATCAAGATTAATGGTTATTC
101927499 TTTTTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (30 bp):
GTTAACTTTATCAAGATTAATGGTTATTCA
Found at i:101931858 original size:34 final size:34
Alignment explanation
Indices: 101931814--101931878 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
101931804 CTGGCAGAAA
101931814 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
* *
101931848 TCGGTGGTGGAGCAGAGGGGAGCACCTGCTG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTG
101931879 CGGCTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.48, T:0.15
Consensus pattern (34 bp):
TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
Found at i:101932330 original size:16 final size:17
Alignment explanation
Indices: 101932299--101932331 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
101932289 TACTAATTTA
101932299 AAATTTTAAGAAAAATT
1 AAATTTTAAGAAAAATT
101932316 AAATTTTAA-AAAAATT
1 AAATTTTAAGAAAAATT
101932332 CAAAGGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTTTAAGAAAAATT
Found at i:101936207 original size:17 final size:18
Alignment explanation
Indices: 101936180--101936220 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
101936170 ACAAATTGAA
*
101936180 ACGTGT-GGGCCACACGG
1 ACGTGTAGGCCCACACGG
*
101936197 GCGTGTAGGCCCACACGG
1 ACGTGTAGGCCCACACGG
101936215 ACGTGT
1 ACGTGT
101936221 GAAATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.17, C:0.29, G:0.39, T:0.15
Consensus pattern (18 bp):
ACGTGTAGGCCCACACGG
Found at i:101937732 original size:32 final size:32
Alignment explanation
Indices: 101937691--101937756 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
101937681 TTTAACCTTT
*
101937691 ATACAATTTAGTCCTTAATCCTGAAATTTGAA
1 ATACAATTTAGTCCTTAATCCCGAAATTTGAA
101937723 ATACAATTTAGTCCTTAATCCCGAAATTTGAA
1 ATACAATTTAGTCCTTAATCCCGAAATTTGAA
101937755 AT
1 AT
101937757 TCAACCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (32 bp):
ATACAATTTAGTCCTTAATCCCGAAATTTGAA
Found at i:101953724 original size:3 final size:3
Alignment explanation
Indices: 101953716--101953747 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
101953706 AAATAGATAT
101953716 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
101953748 GTTAACTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:101954260 original size:16 final size:17
Alignment explanation
Indices: 101954239--101954271 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
101954229 TAAATGAGTT
101954239 AATTAGGAT-TAAATTG
1 AATTAGGATATAAATTG
*
101954255 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
101954272 GATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AATTAGGATATAAATTG
Found at i:101958436 original size:23 final size:23
Alignment explanation
Indices: 101958393--101958436 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
101958383 ATGAGTCATT
* *
101958393 TTCTAAAGATAGACTAAGTTTCC
1 TTCTAAAGATAAACAAAGTTTCC
101958416 TTCT-AAGATAAACAAATGTTT
1 TTCTAAAGATAAACAAA-GTTT
101958437 TAATTTAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (23 bp):
TTCTAAAGATAAACAAAGTTTCC
Found at i:101962740 original size:2 final size:2
Alignment explanation
Indices: 101962733--101962769 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
101962723 TACTATAGGT
101962733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101962770 TGAAAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101962997 original size:23 final size:23
Alignment explanation
Indices: 101962965--101963009 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
101962955 ATGGTAAGAA
*
101962965 AATGTTTTGAACAAGCACCAAGC
1 AATGTCTTGAACAAGCACCAAGC
101962988 AATGTCTTGAACAAGCACCAAG
1 AATGTCTTGAACAAGCACCAAG
101963010 TACCCCAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (23 bp):
AATGTCTTGAACAAGCACCAAGC
Found at i:101968469 original size:3 final size:3
Alignment explanation
Indices: 101968461--101968495 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
101968451 GAAAAGGGGT
101968461 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
101968496 GGAAACTAAA
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):
TAA
Found at i:101973184 original size:20 final size:20
Alignment explanation
Indices: 101973159--101973218 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
101973149 TTTGGTCCAT
101973159 TTTTAAAAAAAATATAAAAA
1 TTTTAAAAAAAATATAAAAA
* *
101973179 TTTTAAAAATATTA-AAAAA
1 TTTTAAAAAAAATATAAAAA
* * * *
101973198 ATCTAAAGAATATATAAAAA
1 TTTTAAAAAAAATATAAAAA
101973218 T
1 T
101973219 AAAAAAAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
TTTTAAAAAAAATATAAAAA
Found at i:101973185 original size:9 final size:9
Alignment explanation
Indices: 101973166--101973219 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
101973156 CATTTTTAAA
101973166 AAAAATA-T
1 AAAAATATT
*
101973174 AAAAATTTT
1 AAAAATATT
101973183 AAAAATATT
1 AAAAATATT
*
101973192 AAAAAAATCT
1 AAAAATAT-T
101973202 AAAGAATATAT
1 AAA-AATAT-T
101973213 AAAAATA
1 AAAAATA
101973220 AAAAAAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
8 6 0.16
9 16 0.42
10 8 0.21
11 8 0.21
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:101973240 original size:30 final size:29
Alignment explanation
Indices: 101973164--101973233 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
101973154 TCCATTTTTA
* *
101973164 AAAAAAATATAAA-AAT-TTTAAAAATATT
1 AAAAAAATCTAAAGAATATATAAAAATA-T
101973192 AAAAAAATCTAAAGAATATATAAAAATA-
1 AAAAAAATCTAAAGAATATATAAAAATAT
101973220 AAAAAAATTCTAAA
1 AAAAAAA-TCTAAA
101973234 ATAATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 19 0.51
29 9 0.24
30 9 0.24
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (29 bp):
AAAAAAATCTAAAGAATATATAAAAATAT
Found at i:101973752 original size:21 final size:20
Alignment explanation
Indices: 101973714--101973754 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
101973704 TGAGGTTCAA
* *
101973714 AAGCACTTTTCAACCCAAAC
1 AAGCACTTCTCAAACCAAAC
101973734 AAGCAGCTTCTCAAACCAAAC
1 AAGCA-CTTCTCAAACCAAAC
101973755 CTTGATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.17
Consensus pattern (20 bp):
AAGCACTTCTCAAACCAAAC
Found at i:101979220 original size:2 final size:2
Alignment explanation
Indices: 101979213--101979247 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
101979203 TTTAATTAAT
101979213 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101979248 TAGTTTGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101979480 original size:2 final size:2
Alignment explanation
Indices: 101979473--101979509 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
101979463 TGTCTACAAA
101979473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101979510 AATTATTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101983534 original size:30 final size:30
Alignment explanation
Indices: 101983500--101983569 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 30
101983490 TAGCCGAGTA
101983500 TTAATTT-CGTTGGAAAAAGAAAAAAAAATC
1 TTAATTTAC-TTGGAAAAAGAAAAAAAAATC
101983530 TTAATTTACTTGGAAAAAGAAAAAAAAATC
1 TTAATTTACTTGGAAAAAGAAAAAAAAATC
101983560 TTAATTTACT
1 TTAATTTACT
101983570 AAGTAAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (30 bp):
TTAATTTACTTGGAAAAAGAAAAAAAAATC
Found at i:101985812 original size:23 final size:22
Alignment explanation
Indices: 101985784--101985835 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
101985774 TGTAAGAAAC
* *
101985784 AGTTTGTAACTGTTGGAAATAA
1 AGTTTGTAACTGCTGAAAATAA
101985806 TAGTTTGTAACTGCTGAAAATAA
1 -AGTTTGTAACTGCTGAAAATAA
101985829 A-TTTGTA
1 AGTTTGTA
101985836 TTACTAACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 6 0.22
22 1 0.04
23 20 0.74
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (22 bp):
AGTTTGTAACTGCTGAAAATAA
Found at i:101997959 original size:16 final size:16
Alignment explanation
Indices: 101997938--101997986 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
101997928 AGTGTTTTTT
101997938 TTTAAAATAAATATAC
1 TTTAAAATAAATATAC
*
101997954 TTT-AAA-AATTATA-
1 TTTAAAATAAATATAC
*
101997967 TTAAAAATAAATAATAC
1 TTTAAAATAAAT-ATAC
101997984 TTT
1 TTT
101997987 TTTAGTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 6 0.24
16 6 0.24
17 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAATAAATATAC
Found at i:102020302 original size:46 final size:46
Alignment explanation
Indices: 102020235--102020406 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
102020225 TGTAACCCGC
*
102020235 CCATAAGCGAAGTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
102020281 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * *
102020331 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
102020374 CCATAAGTGAACTCGGACTCAACTCAACGAGCT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCT
102020407 TGGATGCCTA
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:102020354 original size:93 final size:93
Alignment explanation
Indices: 102020242--102020451 Score: 339
Period size: 93 Copynumber: 2.3 Consensus size: 93
102020232 CGCCCATAAG
* *
102020242 CGAAGTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
102020307 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
102020335 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* * *
102020400 ACGAGCTTGGATGCCTAGTTACATTTTA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
102020428 CGAACTCAGAATCAACTCTACGAG
1 CGAACTCGGACTCAACTCAACGAG
102020452 TTCAGATGCC
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 108 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:102020358 original size:47 final size:47
Alignment explanation
Indices: 102020289--102020461 Score: 167
Period size: 47 Copynumber: 3.7 Consensus size: 47
102020279 ATCCATAAGT
*
102020289 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTAAC
* * *
102020336 GAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TAA-C
* * *
102020382 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATTTTAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTAAC
* * * * *
102020429 GAACTCAGAATCAACTCTACGAGTTCAGATGCC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCC
102020462 CAAATTTGAA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 27 0.27
47 55 0.54
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTAAC
Found at i:102042193 original size:38 final size:38
Alignment explanation
Indices: 102042134--102042245 Score: 161
Period size: 38 Copynumber: 2.9 Consensus size: 38
102042124 ATGCTATGAA
102042134 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
* * * *
102042172 CAATTCAACATTGGCAATAAACATGCTTATCATGTATT
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
* * *
102042210 CAATTTAACACTAGCAGTAGACACGCTTAACATGTA
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTA
102042246 CTCAGTAGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (38 bp):
CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
Found at i:102043762 original size:3 final size:3
Alignment explanation
Indices: 102043719--102043747 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
102043709 ACAGTCTCTG
102043719 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
102043748 GATATCAAAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:102044395 original size:85 final size:86
Alignment explanation
Indices: 102044243--102044411 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 86
102044233 AGATAAAATC
* * * * * * * *
102044243 ATTTGCGGTTATTGCCACTTATTGTGAGTGCACAATATGGTTTTAGGTTAAACAAACTGCCATTG
1 ATTTGCAGTTACTGCCACTTATTGTGAGTGCACAACATGATTTCAGATTAAACAAACCGCCACTG
102044308 GG-TTTGTGGACAAGCCACAT
66 GGTTTTGTGGACAAGCCACAT
* *
102044328 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACAT-ATTTGCAGATTACACAAACCGCCACT
1 ATTTGCAGTTACTGCCACTTATTGTGAGTGCACAACATGATTT-CAGATTAAACAAACCGCCACT
*
102044392 GGGTTTTGTGGACGAGCCAC
65 GGGTTTTGTGGACAAGCCAC
102044412 CACTTATTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
84 3 0.04
85 53 0.75
86 15 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (86 bp):
ATTTGCAGTTACTGCCACTTATTGTGAGTGCACAACATGATTTCAGATTAAACAAACCGCCACTG
GGTTTTGTGGACAAGCCACAT
Found at i:102045916 original size:103 final size:103
Alignment explanation
Indices: 102045737--102045943 Score: 396
Period size: 103 Copynumber: 2.0 Consensus size: 103
102045727 TTAAGGTTAG
102045737 TATGAGATTCAAGAACAAGGAGCATCAAAATAGTTTCAAGCACGAAATTAGTTTGGCACATCGTA
1 TATGAGATTCAAGAACAAGGAGCATCAAAATAGTTTCAAGCACGAAATTAGTTTGGCACATCGTA
*
102045802 TTATCCCCTATTTGCCCCCTTTAGTAACCCTTTCTTGC
66 TAATCCCCTATTTGCCCCCTTTAGTAACCCTTTCTTGC
102045840 TATGAGATTCAAGAACAAGGAGCATCAAAATAGTTTCAAGCACGAAATTAGTTTGGCACATCGTA
1 TATGAGATTCAAGAACAAGGAGCATCAAAATAGTTTCAAGCACGAAATTAGTTTGGCACATCGTA
*
102045905 TAATCCCCTATTTTCCCCCTTTAGTAACCCTTTCTTGC
66 TAATCCCCTATTTGCCCCCTTTAGTAACCCTTTCTTGC
102045943 T
1 T
102045944 CACCCTTTTA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (103 bp):
TATGAGATTCAAGAACAAGGAGCATCAAAATAGTTTCAAGCACGAAATTAGTTTGGCACATCGTA
TAATCCCCTATTTGCCCCCTTTAGTAACCCTTTCTTGC
Found at i:102049034 original size:38 final size:38
Alignment explanation
Indices: 102048991--102049083 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 38
102048981 TATCCAGTAT
* *
102048991 GACATGCTTAACATGTATTTAATTCAACATTAGCAATCA
1 GACATGCTTAACATGTATTCAATTCAACACTAGCAAT-A
* *
102049030 -ACATGCTTATCATGTATTCAATTTAACACTAGCAATA
1 GACATGCTTAACATGTATTCAATTCAACACTAGCAATA
*
102049067 GTCATGCTTAACATGTA
1 GACATGCTTAACATGTA
102049084 CTTAGTAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.02
38 46 0.98
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (38 bp):
GACATGCTTAACATGTATTCAATTCAACACTAGCAATA
Found at i:102051497 original size:46 final size:47
Alignment explanation
Indices: 102051419--102051513 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 47
102051409 TATTTTGGCT
* *
102051419 TACTAAATATTTAATTAAATTACATAATATTTATTATGAAATTATTTA
1 TACTAAATATTTAAATAAAATACATAATATTTATTAT-AAATTATTTA
* * *
102051467 TACT-AAT-TTTAAATAAAATATATATTATTTATTATTAATTATTTA
1 TACTAAATATTTAAATAAAATACATAATATTTATTATAAATTATTTA
102051512 TA
1 TA
102051514 AGTGGCTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 11 0.26
46 24 0.57
47 3 0.07
48 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (47 bp):
TACTAAATATTTAAATAAAATACATAATATTTATTATAAATTATTTA
Found at i:102055291 original size:25 final size:25
Alignment explanation
Indices: 102055241--102055289 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
102055231 AATTACTTGG
* *
102055241 TAAGAAATTTTAGTATAATTACAAA
1 TAAGAAATTTGAGTATAATTAAAAA
*
102055266 TAAGAAATTTGATTAT-ATTAAAAA
1 TAAGAAATTTGAGTATAATTAAAAA
102055290 ATTTATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
TAAGAAATTTGAGTATAATTAAAAA
Found at i:102066424 original size:2 final size:2
Alignment explanation
Indices: 102066417--102066442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102066407 TATGAAAAGT
102066417 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
102066443 AATTCTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102069053 original size:28 final size:29
Alignment explanation
Indices: 102069006--102069064 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
102068996 AATATATATT
* *
102069006 TTTTTATTTTTAATCATAATTACATTTTA
1 TTTTTAATTTTAATCATAATCACATTTTA
*
102069035 TTTTTAATTTTAAT-ATAATCACTTTTTA
1 TTTTTAATTTTAATCATAATCACATTTTA
102069063 TT
1 TT
102069065 ATATTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTAATTTTAATCATAATCACATTTTA
Found at i:102069130 original size:40 final size:40
Alignment explanation
Indices: 102069058--102069140 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 40
102069048 TATAATCACT
* *
102069058 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTCAATTTGTGTATTATTTTAAGAATTG
** * * * *
102069098 TTTTAATATATTTTTTATTTGTTTCTTATTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTATTTTAAGAATTG
102069138 TTT
1 TTT
102069141 AAAATGTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTATTTTAAGAATTG
Found at i:102069389 original size:16 final size:16
Alignment explanation
Indices: 102069362--102069406 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
102069352 TTTTCTTTCA
*
102069362 TTCCTTTTCATTTTTT
1 TTCCTTTCCATTTTTT
* *
102069378 TTTCTTTCCATTCTTT
1 TTCCTTTCCATTTTTT
102069394 TTCCTTTCC-TTTT
1 TTCCTTTCCATTTT
102069407 CCTTATCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 3 0.12
16 21 0.88
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCCTTTCCATTTTTT
Found at i:102069406 original size:26 final size:25
Alignment explanation
Indices: 102069351--102069407 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
102069341 TCCTTATTCT
*
102069351 CTTTTCTTTCATTCCTTTTCATTTT
1 CTTTTCTTTCATTCCTTTTCATTTC
* * *
102069376 TTTTTCTTTCCATTCTTTTTCCTTTC
1 CTTTTCTTT-CATTCCTTTTCATTTC
102069402 CTTTTC
1 CTTTTC
102069408 CTTATCTTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.68
Consensus pattern (25 bp):
CTTTTCTTTCATTCCTTTTCATTTC
Found at i:102079362 original size:3 final size:3
Alignment explanation
Indices: 102079354--102079391 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
102079344 TCTAGTTTTT
102079354 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
102079392 TATTTAAATG
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:102081186 original size:21 final size:21
Alignment explanation
Indices: 102081117--102081185 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
102081107 AATACAAGCA
* *
102081117 GTTTATCTACAAACACTAGTG
1 GTTTATCTGCAAACACTGGTG
*
102081138 GTTTATCTGCAAACATTGGTG
1 GTTTATCTGCAAACACTGGTG
* *
102081159 GTTTATTTGCAAATACTGGTG
1 GTTTATCTGCAAACACTGGTG
102081180 GTTTAT
1 GTTTAT
102081186 TCATGAACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (21 bp):
GTTTATCTGCAAACACTGGTG
Found at i:102082666 original size:29 final size:29
Alignment explanation
Indices: 102082633--102082762 Score: 188
Period size: 29 Copynumber: 4.5 Consensus size: 29
102082623 TTGTGTGTAC
* *
102082633 AATGTGAAAAGGGATAGCTTCTACTATTG
1 AATGTGAAAAGGGATAGCTTCGACTATCG
* *
102082662 AATGTGAAAAAGGATAGCTTCGGCTATCG
1 AATGTGAAAAGGGATAGCTTCGACTATCG
* * *
102082691 AATGTGTAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGACTATCG
*
102082720 AATGTGAAAAAGGATAGCTTCGACTATCG
1 AATGTGAAAAGGGATAGCTTCGACTATCG
102082749 AATGTGAAAAGGGA
1 AATGTGAAAAGGGA
102082763 AGGTATACTT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (29 bp):
AATGTGAAAAGGGATAGCTTCGACTATCG
Found at i:102082799 original size:33 final size:33
Alignment explanation
Indices: 102082753--102082962 Score: 199
Period size: 33 Copynumber: 6.4 Consensus size: 33
102082743 CTATCGAATG
*
102082753 TGAAAAGGGAAGGTATACTTTGTGTATACCACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * *
102082786 AGAAAATGAAAGGTATACTTTGTGTATACCAAT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * * *
102082819 TGAAAAGGATATGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* ** *
102082851 TGGAAAGGTTAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* *
102082884 TGAAAAGGAAAGGCATACTTTGTGTGTACCACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * * * * * * *
102082917 CGAAAA-TAAACGTATACCTCGAGTGTACAACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
*
102082949 GGAAAAGGAAAGGT
1 TGAAAAGGAAAGGT
102082963 CCATTAAAAA
Statistics
Matches: 141, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
32 50 0.35
33 91 0.65
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACT
Found at i:102082932 original size:65 final size:65
Alignment explanation
Indices: 102082753--102082933 Score: 213
Period size: 65 Copynumber: 2.8 Consensus size: 65
102082743 CTATCGAATG
* *
102082753 TGAAAAGGGAAGGTATACTTTGTGTATACCACTAGAAAATGAAAGGTATACTTTGTGTATACCAA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCACTAGAAAAT-AAAGGTATACTTTGTGTATACCAA
102082818 T
65 T
* * * * * *
102082819 TGAAAAGGATATGTACACTTTGTGTGTA-CACTTGGAAAGGT-TAGGTATACTTTGTGTATACCA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCAC-TAGAAA-ATAAAGGTATACTTTGTGTATACCA
*
102082882 TT
64 AT
* * *
102082884 TGAAAAGGAAAGGCATACTTTGTGTGTACCACTCGAAAATAAACGTATAC
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCACTAGAAAATAAAGGTATAC
102082934 CTCGAGTGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
64 1 0.01
65 61 0.65
66 31 0.33
67 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (65 bp):
TGAAAAGGAAAGGTATACTTTGTGTGTACCACTAGAAAATAAAGGTATACTTTGTGTATACCAAT
Found at i:102082956 original size:98 final size:99
Alignment explanation
Indices: 102082754--102082962 Score: 235
Period size: 98 Copynumber: 2.1 Consensus size: 99
102082744 TATCGAATGT
* *
102082754 GAAAAGGGAAGGTATACTTTGTGTATACCACTAGAAAATGAAAGGTATACTTTGTGTATACCAAT
1 GAAAAGGGAAGGTATACTTTGTGTATACCACTAGAAAAGGAAAGGCATACTTTGTGTATACCAAT
* * * * * *
102082819 TGAAAAGGATATGTACACTTTGTGTGTACACTTG
66 CGAAAAGGAAACGTACACCTCGAGTGTACACTTG
** * * * *
102082853 G-AAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGCATACTTTGTGTGTACCACT
1 GAAAAGGGAAGGTATACTTTGTGTATACCACTAGAAAAGGAAAGGCATACTTTGTGTATACCAAT
* *
102082917 CGAAAA-TAAACGTATACCTCGAGTGTACAAC-TG
66 CGAAAAGGAAACGTACACCTCGAGTGTAC-ACTTG
*
102082950 GAAAAGGAAAGGT
1 GAAAAGGGAAGGT
102082963 CCATTAAAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
97 18 0.20
98 71 0.79
99 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (99 bp):
GAAAAGGGAAGGTATACTTTGTGTATACCACTAGAAAAGGAAAGGCATACTTTGTGTATACCAAT
CGAAAAGGAAACGTACACCTCGAGTGTACACTTG
Found at i:102084126 original size:66 final size:66
Alignment explanation
Indices: 102084044--102084174 Score: 262
Period size: 66 Copynumber: 2.0 Consensus size: 66
102084034 TGTATAGGGA
102084044 CTTAGTTTTTCTATGATGATTATTGTTGTGATTAGCCAAAGGTATTGGCTTATATTGATTTGTTG
1 CTTAGTTTTTCTATGATGATTATTGTTGTGATTAGCCAAAGGTATTGGCTTATATTGATTTGTTG
102084109 C
66 C
102084110 CTTAGTTTTTCTATGATGATTATTGTTGTGATTAGCCAAAGGTATTGGCTTATATTGATTTGTTG
1 CTTAGTTTTTCTATGATGATTATTGTTGTGATTAGCCAAAGGTATTGGCTTATATTGATTTGTTG
102084175 TTTATAGCCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.49
Consensus pattern (66 bp):
CTTAGTTTTTCTATGATGATTATTGTTGTGATTAGCCAAAGGTATTGGCTTATATTGATTTGTTG
C
Found at i:102085542 original size:23 final size:24
Alignment explanation
Indices: 102085500--102085549 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
102085490 TAATCACTTT
*
102085500 AATATTAAATTTAATCTAATA-TA
1 AATATTAAATTAAATCTAATATTA
* *
102085523 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAATATTA
102085547 AAT
1 AAT
102085550 CTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATTAAATTAAATCTAATATTA
Found at i:102085682 original size:37 final size:36
Alignment explanation
Indices: 102085626--102085695 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
102085616 CACTTTAATA
*
102085626 TTAAATTAATAAAATACTATTAAGATAATTATTAAAT
1 TTAAATTAATAAAATACTATTAAAATAA-TATTAAAT
*
102085663 TTAATTTAATAATAA-ACTATTAAAATAATATTA
1 TTAAATTAATAA-AATACTATTAAAATAATATTA
102085696 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 5 0.17
37 23 0.77
38 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAAATTAATAAAATACTATTAAAATAATATTAAAT
Found at i:102088584 original size:341 final size:342
Alignment explanation
Indices: 102087960--102088630 Score: 875
Period size: 341 Copynumber: 2.0 Consensus size: 342
102087950 GTTTTTACAA
* * ** * * *
102087960 AAAAAATAATCTAAAATAATTAATCCGAGTGGGTTGGGTCAAACTTAGGTTTAGTATTTTTAATT
1 AAAAAATAATCTAAAAAAATTAATACGAGTGGGTCAGGTCAAACTCAGGTTTAGCATTTTTAATC
* * * * * * * *
102088025 TAGGTCAGGCTTGGGCAGAATTTTAAACCTATTTTTTGAGTTGAGCCTATAAAACATATCTAAAA
66 TAGGTCAGGCTTGAGCAGAATTATAAACCCATTTTTAGAGTCGAGCCTAGAAAACAGACCTAAAA
* *
102088090 TTTTGCATCGACCCAACCCAACCCATGATCAAGTCTACTGTAGGGACATCTAATAGGAAATATTC
131 ATTTGCATCGACCCAACCCAACCCATGATCAAGTCTACTATAGGGACATCTAATAGGAAATATTC
* *
102088155 CATTTCTTCATGCTACATTTTATTTAAACATGTCCTTCATGACGAAAAGAGTTAATTACACTAAA
196 AATCTCTTCATGCTACATTTTATTTAAACATGTCCTTCATGACGAAAAGAGTTAATTACACTAAA
* * *
102088220 CATCTCTAAATTATGATCTTTATTTTAAATTGGTCCTCAACTTTTGAAA-AATTTTAATTATATT
261 CATCTCTAAATTATAATCTTTATTTTAAATTGGTCCTCAAATTTT-AAATAATTTTAATTACATT
102088284 CTCAAATTTTAATTATAT
325 CTCAAATTTTAATTATAT
* ** *
102088302 AAAAAATAATCTAAAAAAATTAATACGGGTGGGTCAGGTCAGGCTCGGGTTTAGCATTTTTAATC
1 AAAAAATAATCTAAAAAAATTAATACGAGTGGGTCAGGTCAAACTCAGGTTTAGCATTTTTAATC
* ** *
102088367 TAGGTCTGGCTTGAGCAGAATTATAGGCCCATTTTTAG-GTCGGGCCTAGAAAA-AGAGCCTAAA
66 TAGGTCAGGCTTGAGCAGAATTATAAACCCATTTTTAGAGTCGAGCCTAGAAAACAGA-CCTAAA
* *** * * * * * *
102088430 AATTTGCATTGACCTGGCTCGACCCATTATCAGGTCTAGTATAGGGGCATCTAATAGGAAATATT
130 AATTTGCATCGACCCAACCCAACCCATGATCAAGTCTACTATAGGGACATCTAATAGGAAATATT
* *
102088495 CAATCTCTTCATGTTACATTTTATTTAAACATGTCCTTCGTAT-A-GGAAAGAGTTAATTACACT
195 CAATCTCTTCATGCTACATTTTATTTAAACATGTCCTTC--ATGACGAAAAGAGTTAATTACACT
**
102088558 AAACATCTCTAAATTATAATCTTTATTTTAAATTGGTCCTCAAATTTTAAATTTTTTTAATTACA
258 AAACATCTCTAAATTATAATCTTTATTTTAAATTGGTCCTCAAATTTTAAATAATTTTAATTACA
102088623 TTCTCAAA
323 TTCTCAAA
102088631 CTATCAATGT
Statistics
Matches: 281, Mismatches: 44, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
340 5 0.02
341 188 0.67
342 86 0.31
343 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (342 bp):
AAAAAATAATCTAAAAAAATTAATACGAGTGGGTCAGGTCAAACTCAGGTTTAGCATTTTTAATC
TAGGTCAGGCTTGAGCAGAATTATAAACCCATTTTTAGAGTCGAGCCTAGAAAACAGACCTAAAA
ATTTGCATCGACCCAACCCAACCCATGATCAAGTCTACTATAGGGACATCTAATAGGAAATATTC
AATCTCTTCATGCTACATTTTATTTAAACATGTCCTTCATGACGAAAAGAGTTAATTACACTAAA
CATCTCTAAATTATAATCTTTATTTTAAATTGGTCCTCAAATTTTAAATAATTTTAATTACATTC
TCAAATTTTAATTATAT
Found at i:102088845 original size:16 final size:15
Alignment explanation
Indices: 102088826--102088855 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
102088816 TCGGTTTTAC
102088826 TTTATTTTTAGTTTTT
1 TTTATTTTTA-TTTTT
102088842 TTTATTTTTATTTT
1 TTTATTTTTATTTT
102088856 AAAAGCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTATTTTTATTTTT
Found at i:102089280 original size:17 final size:16
Alignment explanation
Indices: 102089252--102089287 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
102089242 ACTTTTGAAT
102089252 ATATTTAATATATAAA
1 ATATTTAATATATAAA
*
102089268 ATATTTGAATATATCAA
1 ATATTT-AATATATAAA
102089285 ATA
1 ATA
102089288 AATTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATTTAATATATAAA
Found at i:102089295 original size:26 final size:26
Alignment explanation
Indices: 102089245--102089295 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
102089235 TATTGATACT
** *
102089245 TTTGAATATATTTAATATATAAAATA
1 TTTGAATATATCAAATAAATAAAATA
*
102089271 TTTGAATATATCAAATAAATTAAAT
1 TTTGAATATATCAAATAAATAAAAT
102089296 TAAATAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
TTTGAATATATCAAATAAATAAAATA
Found at i:102095088 original size:26 final size:26
Alignment explanation
Indices: 102095038--102095089 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
102095028 TATATGTATT
*
102095038 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* * *
102095064 AAAATGTATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
102095090 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:102095165 original size:2 final size:2
Alignment explanation
Indices: 102095160--102095184 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102095150 ACACACACAC
102095160 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
102095185 ATAATGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102095408 original size:11 final size:11
Alignment explanation
Indices: 102095394--102095468 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
102095384 TATTTACATA
102095394 ATATAAAAAAT
1 ATATAAAAAAT
*
102095405 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
102095418 GATATTAAAAAT
1 -ATATAAAAAAT
102095430 ATATACATAAAA-
1 ATATA-A-AAAAT
*
102095442 ATATAATAAAT
1 ATATAAAAAAT
* *
102095453 ATATATAATAT
1 ATATAAAAAAT
102095464 ATATA
1 ATATA
102095469 TATATAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
10 3 0.06
11 22 0.44
12 12 0.24
13 9 0.18
14 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:102095415 original size:45 final size:45
Alignment explanation
Indices: 102095354--102095490 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 45
102095344 CAATATAGAC
* * *
102095354 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
102095399 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
* *
102095447 ATAAATATAT--ATAATAT-ATATATATATAATATATACATAATATA
1 AAAAATATATACATAATATGATAT-TA-AAAATATATACATAATATA
102095491 GTTTTAAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
44 6 0.08
45 36 0.45
46 11 0.14
47 12 0.15
48 15 0.19
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.36
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:102095433 original size:16 final size:14
Alignment explanation
Indices: 102095423--102095486 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 14
102095413 AATATGATAT
102095423 TAAAAATATATACA
1 TAAAAATATATACA
*
102095437 TAAAAATATAATAAA
1 TAAAAATAT-ATACA
*
102095452 TATATATAATATATATA
1 TA-A-A-AATATATACA
*
102095469 TATATAATATATACA
1 TA-AAAATATATACA
102095484 TAA
1 TAA
102095487 TATAGTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 10 0.24
15 17 0.40
16 1 0.02
17 9 0.21
18 5 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATATATACA
Found at i:102095469 original size:11 final size:11
Alignment explanation
Indices: 102095441--102095490 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
102095431 TATACATAAA
102095441 AATATA-ATA-
1 AATATATATAT
102095450 AATATATATAAT
1 AATATATAT-AT
102095462 ATATATATATAT
1 A-ATATATATAT
*
102095474 AATATATACAT
1 AATATATATAT
102095485 AATATA
1 AATATA
102095491 GTTTTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 6 0.17
10 2 0.06
11 16 0.44
12 4 0.11
13 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:102095471 original size:15 final size:15
Alignment explanation
Indices: 102095442--102095481 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
102095432 ATACATAAAA
102095442 ATATAATA-A-ATAT
1 ATATAATATATATAT
102095455 ATATAATATATATAT
1 ATATAATATATATAT
102095470 ATATAATATATA
1 ATATAATATATA
102095482 CATAATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 8 0.32
14 1 0.04
15 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAATATATATAT
Found at i:102095478 original size:9 final size:9
Alignment explanation
Indices: 102095441--102095490 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
102095431 TATACATAAA
102095441 AATATA-AT
1 AATATATAT
102095449 AAATATATAT
1 -AATATATAT
102095459 AATATATAT
1 AATATATAT
102095468 -ATATATA-
1 AATATATAT
*
102095475 ATATATACAT
1 A-ATATATAT
102095485 AATATA
1 AATATA
102095491 GTTTTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
8 7 0.19
9 26 0.72
10 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATATAT
Found at i:102095508 original size:2 final size:2
Alignment explanation
Indices: 102095428--102095490 Score: 53
Period size: 2 Copynumber: 33.5 Consensus size: 2
102095418 GATATTAAAA
* * * *
102095428 AT AT AT AC AT AA AA AT AT A- AT AA AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
102095468 AT AT AT A- AT AT AT AC AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
102095491 GTTTTAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (2 bp):
AT
Found at i:102095615 original size:23 final size:23
Alignment explanation
Indices: 102095570--102095615 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
102095560 AATACCTCAT
* *
102095570 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
102095593 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
102095616 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:102095715 original size:12 final size:11
Alignment explanation
Indices: 102095675--102095742 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 11
102095665 TATAAGTGTA
*
102095675 ATAATAGTAATT
1 ATAATAATAA-T
*
102095687 ATAATACTAAT
1 ATAATAATAAT
102095698 ACTAATAATAGAT
1 A-TAATAATA-AT
*
102095711 ATAATAATAGT
1 ATAATAATAAT
*
102095722 AGTAAAAATAAT
1 A-TAATAATAAT
102095734 ATAAATAAT
1 AT-AATAAT
102095743 GTGTACATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 5 0.11
12 38 0.83
13 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:102097558 original size:89 final size:89
Alignment explanation
Indices: 102097442--102097616 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
102097432 AAGACTAGTG
*
102097442 ATTTTCAGCCTATTACCCTATTACTTAGGAGG-TTAAGCCTTAGTGGCTTGAATCTGCTTCACTG
1 ATTTTCAGCCTATTACCCTACTACTTAGG-GGATTAAGCCTTAGTGGCTTGAATCTGCTTCACTG
102097506 CAACTTCAGGAAGGCAAGATTTGTA
65 CAACTTCAGGAAGGCAAGATTTGTA
* * * *
102097531 ATTTTCAGCCTATTACCCTACTGCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTGTTTCACTGC
1 ATTTTCAGCCTATTACCCTACTACTTAGGGGATTAAGCCTTAGTGGCTTGAATCTGCTTCACTGC
102097596 AACTTCAGGAAGGCAAGATTT
66 AACTTCAGGAAGGCAAGATTT
102097617 ATCGTCTTCG
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 2 0.03
89 78 0.98
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (89 bp):
ATTTTCAGCCTATTACCCTACTACTTAGGGGATTAAGCCTTAGTGGCTTGAATCTGCTTCACTGC
AACTTCAGGAAGGCAAGATTTGTA
Found at i:102102622 original size:19 final size:17
Alignment explanation
Indices: 102102588--102102625 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
102102578 GTATATATTA
102102588 TCTTTATTATTTTAATT
1 TCTTTATTATTTTAATT
102102605 TCTTATATTATGTTTAATT
1 TCTT-TATTAT-TTTAATT
102102624 TC
1 TC
102102626 ATAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 9 0.47
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (17 bp):
TCTTTATTATTTTAATT
Found at i:102102632 original size:18 final size:18
Alignment explanation
Indices: 102102592--102102632 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
102102582 ATATTATCTT
*
102102592 TATTATTTTAATTTCTTA
1 TATTATTTTAATTTCATA
102102610 TATTATGTTTAATTTCATA
1 TATTAT-TTTAATTTCATA
102102629 -ATTA
1 TATTA
102102633 ATTTGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTATTTTAATTTCATA
Found at i:102103812 original size:2 final size:2
Alignment explanation
Indices: 102103805--102103829 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102103795 CCTCATAATT
102103805 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
102103830 TGTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102108032 original size:2 final size:2
Alignment explanation
Indices: 102107986--102108015 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102107976 GAATTTTAGA
102107986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102108016 TAGAATGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102109893 original size:16 final size:17
Alignment explanation
Indices: 102109874--102109914 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
102109864 TTTTCCCTCA
*
102109874 TTTTCTTTCTTTTTTC-
1 TTTTCTTTCCTTTTTCT
*
102109890 TTTTCTTCCCTTTTTCT
1 TTTTCTTTCCTTTTTCT
102109907 TTTTCTTT
1 TTTTCTTT
102109915 TTCCCTGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTTCCTTTTTCT
Found at i:102109904 original size:27 final size:27
Alignment explanation
Indices: 102109857--102109917 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 27
102109847 CCTCTTTTTA
102109857 TTTTTCTTTTTCCCTCATTTTCTTTCT-
1 TTTTTCTTTTTCCCT-ATTTTCTTTCTC
*
102109884 TTTTTCTTTTCTTCCCT-TTTTCTTTTTC
1 TTTTTC-TTT-TTCCCTATTTTCTTTCTC
102109912 TTTTTC
1 TTTTTC
102109918 CCTGGCTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 15 0.50
28 9 0.30
29 6 0.20
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTTTCTTTTTCCCTATTTTCTTTCTC
Found at i:102111438 original size:25 final size:25
Alignment explanation
Indices: 102111410--102111461 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
102111400 TTTGGCTTGA
102111410 CATTTACTAAGCAATATCAGAA-ATT
1 CATTTACTAAGCAATATCA-AATATT
* *
102111435 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
102111460 CA
1 CA
102111462 AATTATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:102116738 original size:31 final size:32
Alignment explanation
Indices: 102116691--102116754 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
102116681 TACAATCATC
*
102116691 GCTCTAACATTGCTTTTCATTTATTTT-GAGA
1 GCTCCAACATTGCTTTTCATTTATTTTAGAGA
* *
102116722 GCTCCAACTTTGCTTTTCATTTTTTTTAGAGA
1 GCTCCAACATTGCTTTTCATTTATTTTAGAGA
102116754 G
1 G
102116755 GAATATTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (32 bp):
GCTCCAACATTGCTTTTCATTTATTTTAGAGA
Found at i:102118526 original size:43 final size:43
Alignment explanation
Indices: 102118445--102118530 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
102118435 GGCAATCAGA
* * * **
102118445 GATATTATTGATGCTTTTTCCACTATTTCTTATGAAAAGCCTC
1 GATATTATTGACGCTTTTTCCACTATTCCTGACAAAAAGCCTC
102118488 GATATTATTGACGCTTTTTCCACTATTCCTGACAAAAAGCCTC
1 GATATTATTGACGCTTTTTCCACTATTCCTGACAAAAAGCCTC
102118531 CCTTACCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (43 bp):
GATATTATTGACGCTTTTTCCACTATTCCTGACAAAAAGCCTC
Found at i:102124478 original size:21 final size:21
Alignment explanation
Indices: 102124454--102124494 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102124444 CTTTCTTATA
*
102124454 TTTTTATATATTATTTATTTG
1 TTTTTATATACTATTTATTTG
*
102124475 TTTTTTTATACTATTTATTT
1 TTTTTATATACTATTTATTT
102124495 TACTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTATATACTATTTATTTG
Found at i:102136786 original size:206 final size:208
Alignment explanation
Indices: 102136423--102137116 Score: 1132
Period size: 207 Copynumber: 3.4 Consensus size: 208
102136413 GCAGATCTGG
* *
102136423 CTGAGGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAAAT-GAAGAT-ATAG
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAAC-AAATCGAAGATCATAG
*
102136486 CTAATTTGGCTTTCACGTGCTTACGATGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTC
65 CTAATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
* *
102136551 AGAGAACAAATCAAAGTTTGGCCTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCC
130 AGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
* *
102136616 TTCAGATGATTAGA
195 TTCAGATGTTTATA
*
102136630 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGC
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATCATAGC
* *
102136693 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTGTGTATTGTCA
66 TAATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
102136758 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTGGCCT
131 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
102136823 TCAGATGTTTATA
196 TCAGATGTTTATA
* * *
102136836 CTGAAGCAAGATCCAAGATGATTTGGCAT-CTTCGTACTTACAAAGAACAAATCAAAGA-CATAG
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTT-GTGCTTACAAGGAACAAATCGAAGATCATAG
*
102136899 CTAATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTCTC
65 CTAATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
*
102136964 AGAGAACAAATCAAAGTTTGGTGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
130 AGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
*
102137029 TTCATATGTTTATA
195 TTCAGATGTTTATA
* *
102137043 CTGAAGCAAGATCCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATCATAGC
*
102137107 TGATTTGGCT
66 TAATTTGGCT
102137117 GAAGCAGACC
Statistics
Matches: 452, Mismatches: 29, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
205 6 0.01
206 190 0.42
207 253 0.56
208 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (208 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATCATAGC
TAATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
TCAGATGTTTATA
Found at i:102143704 original size:96 final size:95
Alignment explanation
Indices: 102143541--102143735 Score: 300
Period size: 96 Copynumber: 2.0 Consensus size: 95
102143531 CCAGCTCGAA
* * * * *
102143541 TTTTAGATAAGCGTATTTAAAGAGAGGTCATCATGCAGTGACTGAAGTTTACGTGGAGTGGGCTA
1 TTTTAGATAAACATATTTAAAGAGAGGTCATAATGCAGTCACTGAAGTTCACGTGGAGTGGGCTA
102143606 ATTCTTTCCCAGAGGATGAAACATGGGAGG
66 ATTCTTTCCCAGAGGATGAAACATGGGAGG
* * *
102143636 TTTTAGATAAACATATTTACAAGAGATGTCATAATGCAGTCACTGAGGTTCGCGTGGAGTGGGCT
1 TTTTAGATAAACATATTTA-AAGAGAGGTCATAATGCAGTCACTGAAGTTCACGTGGAGTGGGCT
*
102143701 AATTCTTTCTCAGAGGATGAAACATGGGAGG
65 AATTCTTTCCCAGAGGATGAAACATGGGAGG
102143732 TTTT
1 TTTT
102143736 GGGCTAATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 17 0.19
96 73 0.81
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (95 bp):
TTTTAGATAAACATATTTAAAGAGAGGTCATAATGCAGTCACTGAAGTTCACGTGGAGTGGGCTA
ATTCTTTCCCAGAGGATGAAACATGGGAGG
Found at i:102143750 original size:40 final size:40
Alignment explanation
Indices: 102143695--102143771 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
102143685 TCGCGTGGAG
102143695 TGGGCTAATTCTTTCTC-AGAGGATGAAACATGGGAGGTTT
1 TGGGCTAATTCTTTCTCGA-AGGATGAAACATGGGAGGTTT
102143735 TGGGCTAATTCTTTCTCGAAGGATGAAACATGGGAGG
1 TGGGCTAATTCTTTCTCGAAGGATGAAACATGGGAGG
102143772 CCTTCTCTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (40 bp):
TGGGCTAATTCTTTCTCGAAGGATGAAACATGGGAGGTTT
Found at i:102145478 original size:11 final size:11
Alignment explanation
Indices: 102145464--102145506 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
102145454 TCTTTCAATA
102145464 TTCTCTCAAAT
1 TTCTCTCAAAT
102145475 TTCTCTCAAA-
1 TTCTCTCAAAT
102145485 TT-TCTCAAAT
1 TTCTCTCAAAT
102145495 TTCTCTCAAAT
1 TTCTCTCAAAT
102145506 T
1 T
102145507 CCTTTCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.23
10 4 0.13
11 19 0.63
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:102145492 original size:20 final size:20
Alignment explanation
Indices: 102145467--102145506 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
102145457 TTCAATATTC
102145467 TCTCAAATTTCTCTCAAATT
1 TCTCAAATTTCTCTCAAATT
102145487 TCTCAAATTTCTCTCAAATT
1 TCTCAAATTTCTCTCAAATT
102145507 CCTTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (20 bp):
TCTCAAATTTCTCTCAAATT
Found at i:102145515 original size:11 final size:10
Alignment explanation
Indices: 102145458--102145507 Score: 66
Period size: 11 Copynumber: 4.8 Consensus size: 10
102145448 CTTCAATCTT
102145458 TCAATATTCTC
1 TCAA-ATTCTC
102145469 TCAAATTTCTC
1 TCAAA-TTCTC
102145480 TCAAATT-TC
1 TCAAATTCTC
102145489 TCAAATTTCTC
1 TCAAA-TTCTC
102145500 TCAAATTC
1 TCAAATTC
102145508 CTTTCAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.19
10 8 0.22
11 21 0.58
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (10 bp):
TCAAATTCTC
Done.