Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 122 of 199
Found at i:37118864 original size:24 final size:20
Alignment explanation
Indices: 37118837--37118896 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 20
37118827 ATGAATATTT
37118837 TAAAAAAGAATTTTGAAAAATAAA
1 TAAAAAA-AATTTT--AAAAT-AA
*
37118861 TAAATAAAAATTATAAAATAA
1 TAAA-AAAAATTTTAAAATAA
37118882 TAAAAAATAATTTTA
1 TAAAAAA-AATTTTA
37118897 TTATTTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 3 0.09
21 12 0.38
22 5 0.16
24 9 0.28
25 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
TAAAAAAAATTTTAAAATAA
Found at i:37118885 original size:21 final size:22
Alignment explanation
Indices: 37118853--37118893 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
37118843 AGAATTTTGA
37118853 AAAATAAATAAATAAA-AATTAT
1 AAAATAAATAAA-AAATAATTAT
37118875 AAAAT-AATAAAAAATAATT
1 AAAATAAATAAAAAATAATT
37118894 TTATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 10 0.56
22 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATAAATAAAAAATAATTAT
Found at i:37128016 original size:84 final size:84
Alignment explanation
Indices: 37127905--37128118 Score: 410
Period size: 84 Copynumber: 2.5 Consensus size: 84
37127895 CAAAGGATCC
*
37127905 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
37127970 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
37127989 CGGTGGAATCAGCACTTAGCAATCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
37128054 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
37128073 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
37128119 TTCACATAGT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 127 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:37128024 original size:42 final size:42
Alignment explanation
Indices: 37127860--37128117 Score: 317
Period size: 42 Copynumber: 6.1 Consensus size: 42
37127850 TAATTGATAC
* **
37127860 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AAGGAT
* * *
37127903 CCCGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* *
37127946 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* *
37127988 ACGGTGGAATCAGCACTTAGCAATCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* *
37128030 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
*
37128072 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
37128114 ACGG
1 ACGG
37128118 GTTCACATAG
Statistics
Matches: 184, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.02
41 40 0.22
42 59 0.32
43 46 0.25
44 35 0.19
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
Found at i:37130553 original size:18 final size:18
Alignment explanation
Indices: 37130530--37130564 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37130520 CAGAATTATG
*
37130530 GGCCCACATGCCGGTGTT
1 GGCCCACATGCCCGTGTT
*
37130548 GGCCCATATGCCCGTGT
1 GGCCCACATGCCCGTGT
37130565 GACCCACACG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.34, G:0.31, T:0.23
Consensus pattern (18 bp):
GGCCCACATGCCCGTGTT
Found at i:37131776 original size:10 final size:10
Alignment explanation
Indices: 37131761--37131846 Score: 60
Period size: 10 Copynumber: 9.0 Consensus size: 10
37131751 TTTGAAATAT
37131761 TTTAATATAA
1 TTTAATATAA
37131771 TTTAATATAA
1 TTTAATATAA
**
37131781 AATAAT-TAA
1 TTTAATATAA
37131790 TTTCAAAATATAA
1 TTT---AATATAA
*
37131803 TTTAAAATAA
1 TTTAATATAA
37131813 ---AATAT--
1 TTTAATATAA
*
37131818 TTTAA-ATAT
1 TTTAATATAA
37131827 TTTAATATAA
1 TTTAATATAA
37131837 TTTAATATAA
1 TTTAATATAA
37131847 AAATAATTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
7 6 0.10
8 2 0.03
9 9 0.15
10 33 0.56
12 3 0.05
13 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTAATATAA
Found at i:37131839 original size:34 final size:34
Alignment explanation
Indices: 37131740--37131848 Score: 134
Period size: 34 Copynumber: 3.3 Consensus size: 34
37131730 AGAAAATATA
*
37131740 AAAATAAAATATTTGAAATATTTTAATATAATTT
1 AAAATAAAATATTTTAAATATTTTAATATAATTT
* * **
37131774 AATATAAAATA-ATT-AAT-TTCAAAATATAATTT
1 AAAATAAAATATTTTAAATATT-TTAATATAATTT
37131806 AAAATAAAATATTTTAAATATTTTAATATAATTT
1 AAAATAAAATATTTTAAATATTTTAATATAATTT
*
37131840 AATATAAAA
1 AAAATAAAA
37131849 ATAATTATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
31 2 0.03
32 23 0.38
33 3 0.05
34 31 0.51
35 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (34 bp):
AAAATAAAATATTTTAAATATTTTAATATAATTT
Found at i:37131864 original size:66 final size:64
Alignment explanation
Indices: 37131732--37131927 Score: 212
Period size: 66 Copynumber: 3.1 Consensus size: 64
37131722 TTGAACCTAG
*
37131732 AAAATAT-A-AAAATAAAATATTTGAAATATTTTAATATAATTTAATAT-AAAATAATTA-ATTT
1 AAAATATAATAAAATAAAATATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATA-TT
37131793 CAAAATATAATTTAAAATAAAATATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATA
1 -AAAATATAA--TAAAATAAAATATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATA
37131858 TT
63 TT
* * * * * *
37131860 AAAATATTAAT-AAATTATATATTTT---TATTTTTAT-TAAATTATATTTAATAATAATTATAT
1 AAAATA-TAATAAAATAAAATATTTTAAATATTTTAATATAATTTA-ATATAAAAATAATTATAT
37131920 T
64 T
37131921 AAAATAT
1 AAAATAT
37131928 GATTAAATTA
Statistics
Matches: 119, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
60 7 0.06
61 31 0.26
62 7 0.06
63 1 0.01
64 12 0.10
65 1 0.01
66 44 0.37
67 15 0.13
68 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.45
Consensus pattern (64 bp):
AAAATATAATAAAATAAAATATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATATT
Found at i:37131866 original size:32 final size:31
Alignment explanation
Indices: 37131764--37131866 Score: 109
Period size: 32 Copynumber: 3.2 Consensus size: 31
37131754 GAAATATTTT
37131764 AATATAATTTAATATAAAATAATTA-ATTTCAA
1 AATATAATTTAATATAAAATAATTATA-TT-AA
* * **
37131796 AATATAATTTAAAATAAAATATTTTAAATATTTT
1 AATATAATTTAATATAAAATA-ATT--ATATTAA
37131830 AATATAATTTAATATAAAAATAATTATATTAA
1 AATATAATTTAATAT-AAAATAATTATATTAA
37131862 AATAT
1 AATAT
37131867 TAATAAATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
32 30 0.52
33 2 0.03
34 16 0.28
35 9 0.16
36 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
AATATAATTTAATATAAAATAATTATATTAA
Found at i:37131917 original size:61 final size:57
Alignment explanation
Indices: 37131848--37131990 Score: 187
Period size: 57 Copynumber: 2.4 Consensus size: 57
37131838 TTAATATAAA
*
37131848 AATAATTATATTAAAATATTAATAAATTATATATTTTTATTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAAATATTAATAAA-T-TAT-TTATT-TTTTTATTAAATTATATTTAAT
* * *
37131909 AATAATTATATTAAAATATGATTAAATTATTTATTTTTTTATTAAATTATTTTTAAT
1 AATAATTATATTAAAATATTAATAAATTATTTATTTTTTTATTAAATTATATTTAAT
** *
37131966 AATAATCGTATTAAAATTTTAATAA
1 AATAATTATATTAAAATATTAATAA
37131991 CAATAATCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 41 0.56
58 4 0.05
59 3 0.04
60 1 0.01
61 24 0.33
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (57 bp):
AATAATTATATTAAAATATTAATAAATTATTTATTTTTTTATTAAATTATATTTAAT
Found at i:37132164 original size:16 final size:15
Alignment explanation
Indices: 37132143--37132210 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
37132133 TAAATTATTG
*
37132143 ATTACATCTTTATTCC
1 ATTACAT-TCTATTCC
*
37132159 ATTACAGTTCTATTTC
1 ATTACA-TTCTATTCC
*
37132175 ATTACAACTCTATTCC
1 ATTAC-ATTCTATTCC
* *
37132191 ATAACAATTTTATTCC
1 ATTAC-ATTCTATTCC
37132207 ATTA
1 ATTA
37132211 TAGCGAACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 40 0.95
17 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTACATTCTATTCC
Found at i:37132180 original size:32 final size:32
Alignment explanation
Indices: 37132143--37132210 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
37132133 TAAATTATTG
* * * * *
37132143 ATTACATCTTTATTCCATTACAGTTCTATTTC
1 ATTACAACTCTATTCCATAACAATTCTATTCC
*
37132175 ATTACAACTCTATTCCATAACAATTTTATTCC
1 ATTACAACTCTATTCCATAACAATTCTATTCC
37132207 ATTA
1 ATTA
37132211 TAGCGAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.01, T:0.46
Consensus pattern (32 bp):
ATTACAACTCTATTCCATAACAATTCTATTCC
Found at i:37132697 original size:15 final size:15
Alignment explanation
Indices: 37132677--37132728 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
37132667 ACTACAAAAC
37132677 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
37132692 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
37132711 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
37132726 ATT
1 ATT
37132729 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:37132714 original size:19 final size:19
Alignment explanation
Indices: 37132690--37132726 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37132680 TATTATTAAT
*
37132690 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
37132709 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
37132727 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:37132779 original size:13 final size:13
Alignment explanation
Indices: 37132761--37132785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37132751 TTGTGAAGAA
37132761 TATTATTAAAATT
1 TATTATTAAAATT
37132774 TATTATTAAAAT
1 TATTATTAAAAT
37132786 AAATTAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTATTAAAATT
Found at i:37135038 original size:45 final size:45
Alignment explanation
Indices: 37134987--37135076 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
37134977 AGTTCATTTG
37134987 TAGGTTTGATGTATATGCATGAGGATGTGTGGGGTCATAGTGACA
1 TAGGTTTGATGTATATGCATGAGGATGTGTGGGGTCATAGTGACA
37135032 TAGGTTTGATGTATATGCATGAGGATGTGTGGGGTCATAGTGACA
1 TAGGTTTGATGTATATGCATGAGGATGTGTGGGGTCATAGTGACA
37135077 GGTTTCATCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.36, T:0.33
Consensus pattern (45 bp):
TAGGTTTGATGTATATGCATGAGGATGTGTGGGGTCATAGTGACA
Found at i:37139583 original size:24 final size:24
Alignment explanation
Indices: 37139551--37139599 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
37139541 AGTTTGTGAG
37139551 ATTACTTGTTTAATGATTAGTGTA
1 ATTACTTGTTTAATGATTAGTGTA
37139575 ATTACTTGTTTAATGATTAGTGTA
1 ATTACTTGTTTAATGATTAGTGTA
37139599 A
1 A
37139600 GAACAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (24 bp):
ATTACTTGTTTAATGATTAGTGTA
Found at i:37142936 original size:18 final size:18
Alignment explanation
Indices: 37142913--37142948 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37142903 TCTATGAGTT
*
37142913 TATATTACATGGGATTTA
1 TATATTACAGGGGATTTA
37142931 TATATTACAGGGGATTTA
1 TATATTACAGGGGATTTA
37142949 GCCTGGACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (18 bp):
TATATTACAGGGGATTTA
Found at i:37149962 original size:6 final size:6
Alignment explanation
Indices: 37149953--37149985 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
37149943 TGGGTGCTAC
37149953 TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGC
1 TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGC
37149986 CGTTGAGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.48, T:0.33
Consensus pattern (6 bp):
TGCTGG
Found at i:37149968 original size:18 final size:18
Alignment explanation
Indices: 37149945--37149985 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
37149935 TGAACTAGTG
37149945 GGTGCTACTGCTGGTGCT
1 GGTGCTACTGCTGGTGCT
**
37149963 GGTGCTGGTGCTGGTGCT
1 GGTGCTACTGCTGGTGCT
37149981 GGTGC
1 GGTGC
37149986 CGTTGAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.02, C:0.20, G:0.46, T:0.32
Consensus pattern (18 bp):
GGTGCTACTGCTGGTGCT
Found at i:37152477 original size:33 final size:33
Alignment explanation
Indices: 37152435--37152593 Score: 212
Period size: 33 Copynumber: 4.8 Consensus size: 33
37152425 TCAACATAAG
*
37152435 TGATTGGAACATCTACCAGGGCAGCTTCATCGA-
1 TGATTGGAACATCTATCAGGGCAGCTTCATC-AT
* *
37152468 TGATTGGAACATCTATCGGGGCAGCTTCGTCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* *
37152501 TGATTGGAACATCTATCAGGGCAACTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* **
37152534 TGATTGGAACACCTATTGGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* *
37152567 TGATTGGAACATCTATCGGGGGAGCTT
1 TGATTGGAACATCTATCAGGGCAGCTT
37152594 TAGCATTCTG
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
32 1 0.01
33 109 0.99
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAT
Found at i:37152541 original size:66 final size:66
Alignment explanation
Indices: 37152435--37152583 Score: 244
Period size: 66 Copynumber: 2.3 Consensus size: 66
37152425 TCAACATAAG
* * * * *
37152435 TGATTGGAACATCTACCAGGGCAGCTTCATCGATGATTGGAACATCTATCGGGGCAGCTTCGTCA
1 TGATTGGAACATCTATCAGGGCAACTTCATCAATGATTGGAACACCTATCGGGGCAGCTTCATCA
37152500 T
66 T
*
37152501 TGATTGGAACATCTATCAGGGCAACTTCATCAATGATTGGAACACCTATTGGGGCAGCTTCATCA
1 TGATTGGAACATCTATCAGGGCAACTTCATCAATGATTGGAACACCTATCGGGGCAGCTTCATCA
37152566 T
66 T
37152567 TGATTGGAACATCTATC
1 TGATTGGAACATCTATC
37152584 GGGGGAGCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (66 bp):
TGATTGGAACATCTATCAGGGCAACTTCATCAATGATTGGAACACCTATCGGGGCAGCTTCATCA
T
Found at i:37164121 original size:29 final size:29
Alignment explanation
Indices: 37164087--37164146 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
37164077 TTGGCTATTA
* *
37164087 AAAATTTTCAAATAAGGAAGTTTTCTTTC
1 AAAATTTTCAAATAAGGAAATTTTCATTC
37164116 AAAATTTTCAAATAAGGAAATTTTCATTC
1 AAAATTTTCAAATAAGGAAATTTTCATTC
37164145 AA
1 AA
37164147 TTATGGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (29 bp):
AAAATTTTCAAATAAGGAAATTTTCATTC
Found at i:37164138 original size:16 final size:16
Alignment explanation
Indices: 37164088--37164141 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
37164078 TGGCTATTAA
37164088 AAATTTTCAAATAAGG
1 AAATTTTCAAATAAGG
* ** *
37164104 AAGTTTTC-TTTCA--
1 AAATTTTCAAATAAGG
37164117 AAATTTTCAAATAAGG
1 AAATTTTCAAATAAGG
37164133 AAATTTTCA
1 AAATTTTCA
37164142 TTCAATTATG
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
13 7 0.26
14 2 0.07
15 2 0.07
16 16 0.59
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (16 bp):
AAATTTTCAAATAAGG
Found at i:37164208 original size:21 final size:21
Alignment explanation
Indices: 37164182--37164227 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
37164172 AGCCTCTTTT
37164182 TTAATAGGTATGTTTTTATCA
1 TTAATAGGTATGTTTTTATCA
*
37164203 TTAATAGGTATGTTTTTGTCA
1 TTAATAGGTATGTTTTTATCA
37164224 TTAA
1 TTAA
37164228 CCTGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (21 bp):
TTAATAGGTATGTTTTTATCA
Found at i:37174409 original size:50 final size:50
Alignment explanation
Indices: 37174334--37174621 Score: 366
Period size: 50 Copynumber: 5.8 Consensus size: 50
37174324 TTGGGTAAAT
* *
37174334 AGGTCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
*
37174384 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* * * * *
37174434 AGGTCCCATATAAGACCAT-TTTGGGACATGGCGTTGGCACTGGGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
** * *
37174483 AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
** * * *
37174533 AACTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA--GTACATGAA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAG
** *
37174582 ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37174622 TGTTATTAAC
Statistics
Matches: 208, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.00
49 84 0.40
50 123 0.59
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
Found at i:37174472 original size:99 final size:99
Alignment explanation
Indices: 37174334--37174621 Score: 364
Period size: 99 Copynumber: 2.9 Consensus size: 99
37174324 TTGGGTAAAT
* * *
37174334 AGGTCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTCCCATGTAAGA
1 AGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA-CGACATGAGAGGTCCCATGTAAGA
*
37174399 CCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
65 CCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* * * ** **
37174434 AGGTCCCATATAAGACCAT-TTTGGGACATGGCGTTGGCACTGGGATGAGAGGTCCCCCGTAAGA
1 AGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCAC-GACATGAGAGGTCCCATGTAAGA
* *
37174498 CCATGTCTGGGACATGGCATGGGCACCGATATGAG
65 CCATGTCTGGGACATGGCATTGGCACCGAGATGAG
** * **
37174533 AACTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA-GTACATGAAACATCCCATGTAAGA
1 AGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACG-ACATGAGAGGTCCCATGTAAGA
*
37174597 CCATGTCTGGGACATGGCTTTGGCA
65 CCATGTCTGGGACATGGCATTGGCA
37174622 TGTTATTAAC
Statistics
Matches: 160, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
98 2 0.01
99 123 0.77
100 35 0.22
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (99 bp):
AGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACGACATGAGAGGTCCCATGTAAGAC
CATGTCTGGGACATGGCATTGGCACCGAGATGAG
Found at i:37174608 original size:149 final size:148
Alignment explanation
Indices: 37174334--37174621 Score: 416
Period size: 149 Copynumber: 1.9 Consensus size: 148
37174324 TTGGGTAAAT
** * **
37174334 AGGTCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTCCCATGTAAGA
1 AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGA
* * * * ** *
37174399 CCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATATAAGACCATTTTGGGACATG
66 CCATATCTGGGACATGGCATTGGCA-CGACATGAAACATCCCATATAAGACCATTCTGGGACATG
37174464 GCGTTGGCACTGGGATGAG
130 GCGTTGGCACTGGGATGAG
37174483 AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGA
1 AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGA
*
37174548 CCATATCTGGGACATGGCATTGGCA-GTACATGAAACATCCCATGTAAGACCATGTCTGGGACAT
66 CCATATCTGGGACATGGCATTGGCACG-ACATGAAACATCCCATATAAGACCAT-TCTGGGACAT
*
37174612 GGCTTTGGCA
129 GGCGTTGGCA
37174622 TGTTATTAAC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
147 1 0.01
148 21 0.17
149 101 0.82
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (148 bp):
AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGA
CCATATCTGGGACATGGCATTGGCACGACATGAAACATCCCATATAAGACCATTCTGGGACATGG
CGTTGGCACTGGGATGAG
Found at i:37186948 original size:24 final size:24
Alignment explanation
Indices: 37186910--37187099 Score: 164
Period size: 24 Copynumber: 7.8 Consensus size: 24
37186900 GTTTCGACCC
* *
37186910 ACAGCTCATATGAGCATACCAATT
1 ACAGCTCGTGTGAGCATACCAATT
* * *
37186934 ACAGCTTGTGAGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACC-AATT
* * *
37186959 ACAGCTTGTGTGTGCATATCAATT
1 ACAGCTCGTGTGAGCATACCAATT
* * *
37186983 ACAGCTTGTGAGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACC-AATT
* * *
37187008 ACAGCCCGTGTGTGCATATCAATT
1 ACAGCTCGTGTGAGCATACCAATT
* * *
37187032 ACAGCTCGTGAGAGCATATCGATTT
1 ACAGCTCGTGTGAGCATA-CCAATT
* * *
37187057 ACAACTCGTGTGAGCATATCGATT
1 ACAGCTCGTGTGAGCATACCAATT
*
37187081 ACAACTCGTGTGAGCATAC
1 ACAGCTCGTGTGAGCATAC
37187100 ATGTACAGGA
Statistics
Matches: 131, Mismatches: 32, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
24 74 0.56
25 57 0.44
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ACAGCTCGTGTGAGCATACCAATT
Found at i:37186976 original size:49 final size:49
Alignment explanation
Indices: 37186923--37187099 Score: 255
Period size: 49 Copynumber: 3.6 Consensus size: 49
37186913 GCTCATATGA
* * *
37186923 GCATACCAATTACAGCTTGTGAGAGCATACCGATTTACAGCTTGTGTGT
1 GCATATCAATTACAGCTCGTGAGAGCATACCGATTTACAGCTCGTGTGT
* *
37186972 GCATATCAATTACAGCTTGTGAGAGCATACCGATTTACAGCCCGTGTGT
1 GCATATCAATTACAGCTCGTGAGAGCATACCGATTTACAGCTCGTGTGT
* * *
37187021 GCATATCAATTACAGCTCGTGAGAGCATATCGATTTACAACTCGTGTGA
1 GCATATCAATTACAGCTCGTGAGAGCATACCGATTTACAGCTCGTGTGT
* * *
37187070 GCATATCGATTACAACTCGTGTGAGCATAC
1 GCATATCAATTACAGCTCGTGAGAGCATAC
37187100 ATGTACAGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 116 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (49 bp):
GCATATCAATTACAGCTCGTGAGAGCATACCGATTTACAGCTCGTGTGT
Found at i:37189724 original size:5 final size:5
Alignment explanation
Indices: 37189714--37189742 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37189704 CACTGTACTT
37189714 ACCTC ACCTC ACCTC ACCTC ACCTC ACCT
1 ACCTC ACCTC ACCTC ACCTC ACCTC ACCT
37189743 TGTGGCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.59, G:0.00, T:0.21
Consensus pattern (5 bp):
ACCTC
Found at i:37191875 original size:17 final size:17
Alignment explanation
Indices: 37191849--37191882 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37191839 CACTAACATG
*
37191849 AAAATGCAATGACAATA
1 AAAATACAATGACAATA
*
37191866 AAAATACAATGATAATA
1 AAAATACAATGACAATA
37191883 TTCACTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (17 bp):
AAAATACAATGACAATA
Found at i:37194188 original size:11 final size:11
Alignment explanation
Indices: 37194172--37194198 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37194162 AACTTGAACA
37194172 AAAATAAAAAT
1 AAAATAAAAAT
37194183 AAAATAAAAAT
1 AAAATAAAAAT
37194194 AAAAT
1 AAAAT
37194199 TATATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:37209605 original size:41 final size:41
Alignment explanation
Indices: 37209555--37209646 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
37209545 TGGCTAGCCG
** *
37209555 GTGTGGCCCACATGGCCTGTCACAT-GACCTCACACACACAT
1 GTGTGGCCCACATAACCTGTCACATAG-CCTCACACACACAC
** * *
37209596 GTGTGGCCCATGTAACCTGTTACATAGCCTCACACACACCC
1 GTGTGGCCCACATAACCTGTCACATAGCCTCACACACACAC
37209637 GTGTGGCCCA
1 GTGTGGCCCA
37209647 TACGGTCCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (41 bp):
GTGTGGCCCACATAACCTGTCACATAGCCTCACACACACAC
Found at i:37211615 original size:3 final size:3
Alignment explanation
Indices: 37211601--37211660 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
37211591 AAATTGTTAT
*
37211601 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
37211647 TCT- TTA TTT TTA TT
1 T-TA TTA TTA TTA TT
37211661 TTTTATATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.90
4 4 0.08
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37214438 original size:23 final size:22
Alignment explanation
Indices: 37214398--37214446 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
37214388 ATAGAAAAAG
*
37214398 ATATATATGCAACGATATATATT
1 ATATATATGAAACGATATATA-T
37214421 ATATATTATGAAAC-ATATATAT
1 ATATA-TATGAAACGATATATAT
37214443 ATAT
1 ATAT
37214447 TAATATTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (22 bp):
ATATATATGAAACGATATATAT
Found at i:37215915 original size:22 final size:22
Alignment explanation
Indices: 37215887--37216039 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
37215877 TTTATTGTTC
*
37215887 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
37215909 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
37215931 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
37215953 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
37215975 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
37215997 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
37216019 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
37216040 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:37216549 original size:92 final size:92
Alignment explanation
Indices: 37216392--37216864 Score: 946
Period size: 92 Copynumber: 5.1 Consensus size: 92
37216382 GTTTAAAAGC
37216392 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
37216457 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
37216484 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
37216549 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
37216576 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
37216641 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
37216668 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
37216733 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
37216760 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
37216825 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
37216852 ATTCATTTACGTA
1 ATTCATTTACGTA
37216865 ACACATAACT
Statistics
Matches: 381, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 381 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (92 bp):
ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
TTACTATTTTTTTAATATTATACATAT
Found at i:37216881 original size:9 final size:9
Alignment explanation
Indices: 37216867--37217174 Score: 130
Period size: 9 Copynumber: 35.7 Consensus size: 9
37216857 TTTACGTAAC
37216867 ACATAACTT
1 ACATAACTT
*
37216876 ACATAACCT
1 ACATAACTT
*
37216885 ACTTAA--T
1 ACATAACTT
* * *
37216892 ATATACCCT
1 ACATAACTT
*
37216901 ACATAAATT
1 ACATAACTT
* *
37216910 AAATAAGTT
1 ACATAACTT
37216919 ACATAA-TAAT
1 ACATAACT--T
* *
37216929 ACATACCCT
1 ACATAACTT
*
37216938 ACATAAATT
1 ACATAACTT
* *
37216947 AAATAAGTT
1 ACATAACTT
*
37216956 ACATAAATT
1 ACATAACTT
* *
37216965 AAATAAGTT
1 ACATAACTT
37216974 ACATAA-TAAT
1 ACATAACT--T
* *
37216984 ACATACCCT
1 ACATAACTT
37216993 ACATAACTT
1 ACATAACTT
*
37217002 ACATAA--G
1 ACATAACTT
37217009 ACATAACTT
1 ACATAACTT
*
37217018 TCATAA--T
1 ACATAACTT
*
37217025 ACACAACTT
1 ACATAACTT
*
37217034 ACGTAACTT
1 ACATAACTT
*
37217043 ACATAA--G
1 ACATAACTT
37217050 ACATAACTT
1 ACATAACTT
*
37217059 ACAT--GTGT
1 ACATAACT-T
*
37217067 AAATAA--T
1 ACATAACTT
**
37217074 ACATATTTT
1 ACATAACTT
37217083 ACATAACTT
1 ACATAACTT
*
37217092 ACATAA--G
1 ACATAACTT
37217099 ACATAACTT
1 ACATAACTT
*
37217108 ACATAAGTT
1 ACATAACTT
*
37217117 TCATAA--T
1 ACATAACTT
* *
37217124 ACACATCTT
1 ACATAACTT
**
37217133 ACGCAACTT
1 ACATAACTT
*
37217142 ACACAACTT
1 ACATAACTT
37217151 ACATAACTT
1 ACATAACTT
37217160 ACATAACTT
1 ACATAACTT
37217169 ACATAA
1 ACATAA
37217175 TGTATACCTT
Statistics
Matches: 221, Mismatches: 55, Indels: 46
0.69 0.17 0.14
Matches are distributed among these distances:
7 37 0.17
8 6 0.03
9 166 0.75
10 12 0.05
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (9 bp):
ACATAACTT
Found at i:37216906 original size:34 final size:36
Alignment explanation
Indices: 37216867--37216952 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
37216857 TTTACGTAAC
* * *
37216867 ACATAACTTACATAACCTAC-T-TAATATATACCCT
1 ACATAAATTAAATAACCTACATATAATACATACCCT
**
37216901 ACATAAATTAAATAAGTTACATAATAATACATACCCT
1 ACATAAATTAAATAACCTACAT-ATAATACATACCCT
37216938 ACATAAATTAAATAA
1 ACATAAATTAAATAA
37216953 GTTACATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
34 16 0.36
35 1 0.02
37 27 0.61
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (36 bp):
ACATAAATTAAATAACCTACATATAATACATACCCT
Found at i:37216936 original size:37 final size:37
Alignment explanation
Indices: 37216888--37216961 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
37216878 ATAACCTACT
*
37216888 TAATATATACCCTACATAAATTAAATAAGTTACATAA
1 TAATACATACCCTACATAAATTAAATAAGTTACATAA
37216925 TAATACATACCCTACATAAATTAAATAAGTTACATAA
1 TAATACATACCCTACATAAATTAAATAAGTTACATAA
37216962 ATTAAATAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (37 bp):
TAATACATACCCTACATAAATTAAATAAGTTACATAA
Found at i:37216959 original size:55 final size:55
Alignment explanation
Indices: 37216900--37217008 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
37216890 ATATATACCC
37216900 TACATAAATTAAATAAGTTACATAATAATACATACCCTACATAAATTAAATAAGT
1 TACATAAATTAAATAAGTTACATAATAATACATACCCTACATAAATTAAATAAGT
* *
37216955 TACATAAATTAAATAAGTTACATAATAATACATACCCTACATAACTTACATAAG
1 TACATAAATTAAATAAGTTACATAATAATACATACCCTACATAAATTAAATAAG
37217009 ACATAACTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (55 bp):
TACATAAATTAAATAAGTTACATAATAATACATACCCTACATAAATTAAATAAGT
Found at i:37217012 original size:16 final size:16
Alignment explanation
Indices: 37216993--37217114 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
37216983 TACATACCCT
37216993 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
37217009 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
37217025 ACACAACTTAC----G
1 ACATAACTTACATAAG
37217037 ---TAACTTACATAAG
1 ACATAACTTACATAAG
**
37217050 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
37217066 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
37217083 ACATAACTTACATAAG
1 ACATAACTTACATAAG
37217099 ACATAACTTACATAAG
1 ACATAACTTACATAAG
37217115 TTTCATAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
9 7 0.09
13 1 0.01
15 5 0.06
16 55 0.69
17 6 0.08
18 6 0.08
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:37217040 original size:25 final size:25
Alignment explanation
Indices: 37217024--37217175 Score: 128
Period size: 25 Copynumber: 6.0 Consensus size: 25
37217014 ACTTTCATAA
* *
37217024 TACACAACTTACGTAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
37217049 GACATAACTTACAT--GTGTAAATAA
1 TACATAACTTACATAACT-TACATAA
**
37217073 TACATATTTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
37217098 GACATAACTTACATAAGTTTCATAA
1 TACATAACTTACATAACTTACATAA
* * ** *
37217123 TACACATCTTACGCAACTTACACAA
1 TACATAACTTACATAACTTACATAA
37217148 CTTACATAACTTACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
37217175 T
1 T
37217176 GTATACCTTG
Statistics
Matches: 94, Mismatches: 28, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
23 1 0.01
24 17 0.18
25 55 0.59
26 1 0.01
27 20 0.21
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:37222592 original size:66 final size:65
Alignment explanation
Indices: 37222485--37222650 Score: 217
Period size: 66 Copynumber: 2.5 Consensus size: 65
37222475 CAATATTTTA
* * *
37222485 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
37222549 G
65 G
* *
37222550 CTACAACTGAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
37222615 G
65 G
* ** *
37222616 CAGCAACTTAAAACAGATGCGGCAGCAAGAGAAGC
1 CA-CAACTTAAAGCAGATGCAACAGCGAGAGAAGC
37222651 AGAGACGGCA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 82 0.93
67 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:37222711 original size:21 final size:21
Alignment explanation
Indices: 37222637--37222707 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
37222627 AACAGATGCG
* * *
37222637 GCAGCAAGAGAAGCAGAGACG
1 GCAGCGAGAGAAGCAGAGGCT
* *
37222658 GCAGCGAGAGAAGTACAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
* *
37222679 GCAACGAGGGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
37222700 GCAGCGAG
1 GCAGCGAG
37222708 GGAATCCGAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.41, T:0.04
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGCT
Found at i:37223872 original size:172 final size:173
Alignment explanation
Indices: 37223621--37224224 Score: 727
Period size: 172 Copynumber: 3.5 Consensus size: 173
37223611 TTTAAGATGA
** * * *
37223621 ATGTGATCTGCT-CTGCTGCAACTTCAGAGAGATAAGA-CCAATCATTCTAATCCACTCCTCCT-
1 ATGTGATCTGCTCCT-CTGCAACTTCAGAGAGATAAGATCCAA-GGTTTTAATCCGCTCC-ACTG
* * *
37223683 CAACTTTAGGAAGATAGGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACT
63 CAACTTCAGGGAGATAAGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACT
*
37223748 TTCTTACTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCAG
128 TTCTTACTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAG
* * * **
37223794 ATGCGATCTGCT-TTCTACAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCTTCTGCAA
1 ATGTGATCTGCTCCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAA
* * *
37223858 CTTCAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTACAATTTCAAGGGGATAAGACTTTC
66 CTTCAGGGAGATAAGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTC
37223923 TTACTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGG
131 TTACTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CC-A-G
* * * * * * * * * *
37223969 TTTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTGCTCCACTGCA
1 ATGTGATCTGCTCCTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCGCTCCACTGCA
* ** * **
37224033 ACTTCAGGGAGATAAGATTTG-CCATCTTCAGTCTGCTTCACTGCAACTTCAGGAAGATAAGACT
65 ACTTCAGGGAGATAAGATTTGTTCA--TTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACT
* * * * *
37224097 TGCTTACTTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACTAG
128 TTCTTACTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAG
*
37224143 ATGTGATCTGCT-CTCTGCAACTTCAGAGAAATAAGATCCAAGGTTTTAATCCGCTCCACTGCAA
1 ATGTGATCTGCTCCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAA
37224207 CTTCAGGGAGATAAGATT
66 CTTCAGGGAGATAAGATT
37224225 ATCGGCTTTA
Statistics
Matches: 367, Mismatches: 54, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
171 2 0.01
172 134 0.37
173 79 0.22
174 11 0.03
175 12 0.03
176 60 0.16
177 69 0.19
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (173 bp):
ATGTGATCTGCTCCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGTTCATTCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTC
TTACTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAG
Found at i:37223959 original size:44 final size:44
Alignment explanation
Indices: 37223711--37224140 Score: 226
Period size: 44 Copynumber: 9.8 Consensus size: 44
37223701 ATTTGTTCAT
* * *
37223711 TCAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTTCTTAC
1 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTTAC
* **
37223755 TCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAC---CAGA-
1 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTTAC
** * * ****
37223795 TGC-GATCTGCT-TTCTACAACTTCAGAGAGATAAGATCCAAGGTT--
1 T-CAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTTCTTAC
* * * ** * * *
37223839 TTAATCCGCTCTTCTGCAACTTCAGGGAGATAGGA-TTTGTTCAT
1 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTT-AC
* * *
37223883 TCAGTCTGCCCCACTACAATTTCAAGGG-GATAAGACTTTCTTAC
1 TCAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTTTCTTAC
****
37223927 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTT--
1 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTTCTTAC
* * * * * **
37223971 TTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGA-TTATC-GGC
1 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TCTTAC
* * *
37224014 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGC-CATC
1 -TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTT-CTTA-C
* * *
37224059 TTCAGTCTGCTTCACTGCAACTTCAGGAAGATAAGACTTGCTTAC
1 -TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTTAC
* * *
37224104 TTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACT
1 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
37224141 AGATGTGATC
Statistics
Matches: 294, Mismatches: 67, Indels: 50
0.72 0.16 0.12
Matches are distributed among these distances:
40 21 0.07
41 12 0.04
42 1 0.00
43 10 0.03
44 200 0.68
45 44 0.15
46 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTCTTAC
Found at i:37223978 original size:132 final size:133
Alignment explanation
Indices: 37223811--37224094 Score: 382
Period size: 132 Copynumber: 2.1 Consensus size: 133
37223801 CTGCTTTCTA
* *
37223811 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCTTCTGCAACTTCAGGGAGATAGGATT
1 CAACTTCAGGGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATT
* * * *
37223876 -T-GTTCATTCAGTCTGCCCCACTACAATTTCAAGGG-GATAAGACTTT--CTTAC-TCAGTCTG
66 ATCG-GC-TTCAATCTGCCCCACTACAACTTC-AGGGAGATAAGA-TTTGCCAT-CTTCAGTCTG
37223935 CTCCACTG
126 CTCCACTG
37223943 CAACTTCAGGGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATT
1 CAACTTCAGGGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATT
* * * *
37224008 ATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCA
66 ATCGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCA
37224073 CTG
131 CTG
*
37224076 CAACTTCAGGAAGATAAGA
1 CAACTTCAGGGAGATAAGA
37224095 CTTGCTTACT
Statistics
Matches: 135, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
131 7 0.05
132 90 0.67
133 37 0.27
134 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (133 bp):
CAACTTCAGGGAGATAAGATCCAAGGTTTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATT
ATCGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCA
CTG
Found at i:37224211 original size:44 final size:43
Alignment explanation
Indices: 37223931--37224475 Score: 310
Period size: 44 Copynumber: 12.7 Consensus size: 43
37223921 TCTTACTCAG
37223931 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-CAAGGTTTTAA
* * * * * *
37223975 TCCGCTCCTCTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCA-AGGTTTTAA
* * *
37224019 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA--TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-CAAGGT-TTTAA
* * ** * *
37224064 TCTGCTTCACTGCAACTTCAGGAAGATAAGA-CTTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAGGTT--TTAA
* * * * * *
37224108 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTA-GATGTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAGGTTTTAA
* * *
37224149 TCTGCT-CTCTGCAACTTCAGAGAAATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-CAAGGTTTTAA
* * * *
37224192 TCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCA-AGGTTTTAA
* ** * * * *
37224236 TTTGCTCCACTATAACTTCAGGGAGATAAGA-CTA-GATGTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAGGTTTTAA
* * * **
37224277 TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATC-AAGGTTTTAA
* * * * * *
37224320 TCCGCTCCACTACAACCTCAGGGAGATAGGAT--TGGTTTCTTCTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAGG-TT-TT-AA
* * * * *
37224364 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C-TGGATGTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAGGTTTTAA
* ** * *
37224405 TCTGCT-CTCTGCAACTTCAAAGAGATAAGATC-TGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAG--GTTTTAA
* * *
37224448 TCCGCTCCACTGCGACCTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
37224476 GGATTGGTTT
Statistics
Matches: 383, Mismatches: 92, Indels: 52
0.73 0.17 0.10
Matches are distributed among these distances:
40 62 0.16
41 31 0.08
42 6 0.02
43 34 0.09
44 217 0.57
45 32 0.08
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCAAGGTTTTAA
Found at i:37224482 original size:128 final size:129
Alignment explanation
Indices: 37224108--37224489 Score: 538
Period size: 128 Copynumber: 3.0 Consensus size: 129
37224098 GCTTACTTAG
* *
37224108 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAG
** * * * **
37224173 ATAAGATC-CAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT-ATCGGCTT-TA
66 ATAAGATCTGTA-GTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTGGT-TTCTTCTA
37224235 A
129 A
* ** * *
37224236 TTTGCTCCACTATAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAG
* *
37224301 ATAAGATCTGTGGTTTTAATCCGCTCCACTACAACCTCAGGGAGATAGGATTGGTTTCTTCT-A
66 ATAAGATCTGTAGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTGGTTTCTTCTAA
* *
37224364 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGTGATCTGCTCTCTGCAACTTCAAAGAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAG
* *
37224429 ATAAGATCTGTAGCTTTAATCCGCTCCACTGCGACCTCAGGGAGATAGGATTGGTTTCTTC
66 ATAAGATCTGTAGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTGGTTTCTTC
37224490 CCGGTTTGTT
Statistics
Matches: 224, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
128 222 0.99
129 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTAGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTGGTTTCTTCTAA
Found at i:37233699 original size:266 final size:267
Alignment explanation
Indices: 37233216--37233822 Score: 982
Period size: 266 Copynumber: 2.3 Consensus size: 267
37233206 GCCTTCCTAG
* *
37233216 GTTATAGTGGAGCAGATTGAAACCGCGATGGTGAATCTTACTCCCCTCGCGGTGTAGTGGAACAG
1 GTTATAGTGGAGCAGATTGAAACCACGATGGTGAATCTTACTCCCCTAGCGGTGTAGTGGAACAG
* * *
37233281 ATTGAAGCTGCGACGGCGAATCTAGTTTCTCCAACATTGCAATTTAAAAGATTGAAGCCGCAACG
66 ATTGAAGCTGCGACGACGAATCTAGTTTCCCCAAAATTGCAATTTAAAAGATTGAAGCCGCAACG
37233346 GCGAATCTTATTTCCCCGACGTTATAGCGGAGCAGATTGAAGCCACGACGACGAATCTTATCTCT
131 GCGAATCTTATTTCCCCGACGTTATAGCGGAGCAGATTGAAGCCACGACGACGAATCTTATCTCT
37233411 TTGGCATTAAGGTCTAGATTAGCTGAAGTACAGCAGATTGAAGCTATGGGCAGCGAATCCTATCT
196 TTGGCATTAAGGTCTAGATTAGCTGAAGTACAGCAGATTGAAGCTATGGGCAGCGAATCCTATCT
37233476 CTTTGGC
261 CTTTGGC
* *
37233483 GTTATAGTGGAGCAGATTGAAACCACGACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAG
1 GTTATAGTGGAGCAGATTGAAACCACGATGGTGAATCTTACTCCCCTAGCGGTGTAGTGGAACAG
*
37233548 ATTGAAGCTGCGACGACGAATCTAG-TTCCCCAAAATTGCAATTTAAAAGATTGAAGCCGCAACT
66 ATTGAAGCTGCGACGACGAATCTAGTTTCCCCAAAATTGCAATTTAAAAGATTGAAGCCGCAACG
** * * *
37233612 GCGAATCTTATTTCCTTGGCGTTATAGCGGAGCAGATTGAAGCCCCGACGGCGAATCTTATCTCT
131 GCGAATCTTATTTCCCCGACGTTATAGCGGAGCAGATTGAAGCCACGACGACGAATCTTATCTCT
* * * * * *
37233677 TTGGCGTTAAGGTTTGGATTAGCTGAAGTAGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCT
196 TTGGCATTAAGGTCTAGATTAGCTGAAGTACAGCAGATTGAAGCTATGGGCAGCGAATCCTATCT
37233742 CTTTGGC
261 CTTTGGC
* * * * *
37233749 GTTACAGTGGAGCAGATTGAAACCACGATGGTGAATCTTACTCCTCTAGCAGTGCAGTGGATCAG
1 GTTATAGTGGAGCAGATTGAAACCACGATGGTGAATCTTACTCCCCTAGCGGTGTAGTGGAACAG
*
37233814 ATCGAAGCT
66 ATTGAAGCT
37233823 ACAATGGCAA
Statistics
Matches: 314, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
266 228 0.73
267 86 0.27
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (267 bp):
GTTATAGTGGAGCAGATTGAAACCACGATGGTGAATCTTACTCCCCTAGCGGTGTAGTGGAACAG
ATTGAAGCTGCGACGACGAATCTAGTTTCCCCAAAATTGCAATTTAAAAGATTGAAGCCGCAACG
GCGAATCTTATTTCCCCGACGTTATAGCGGAGCAGATTGAAGCCACGACGACGAATCTTATCTCT
TTGGCATTAAGGTCTAGATTAGCTGAAGTACAGCAGATTGAAGCTATGGGCAGCGAATCCTATCT
CTTTGGC
Found at i:37233931 original size:44 final size:44
Alignment explanation
Indices: 37233861--37234186 Score: 205
Period size: 44 Copynumber: 7.5 Consensus size: 44
37233851 TGCAATGGTG
*
37233861 AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTAAAGACAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAAT
* * **
37233905 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAA-ACTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGACAAT
* * * * * *
37233948 GGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-T--CG-CATCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA-AT
** * * **
37233989 TGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-AAGTA-AGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-ACAAT
*
37234032 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGAC-A-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GACAAT
* * *
37234078 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAAT
* **
37234122 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCACAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA-CA-AT
* *
37234167 -ATTTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTG
37234187 TAGAAAGCAA
Statistics
Matches: 220, Mismatches: 38, Indels: 48
0.72 0.12 0.16
Matches are distributed among these distances:
40 21 0.10
41 7 0.03
42 4 0.02
43 15 0.07
44 136 0.62
45 28 0.13
46 6 0.03
47 2 0.01
48 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAAT
Found at i:37234273 original size:217 final size:216
Alignment explanation
Indices: 37233861--37234275 Score: 575
Period size: 217 Copynumber: 1.9 Consensus size: 216
37233851 TGCAATGGTG
*
37233861 AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTAAAGACAATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATCAAAGACAATAATCCTATCTCCCTGAAGTTG
* **** * * *
37233926 TAGTGGAGCGAATTAAAACTTTGGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCTTG
66 CAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
* * * *
37233991 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
131 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGAATAAGTAACCAAGTCTTATCCTCC-GAAGTTGCA
37234056 GTGAGGCAGACTGAAGATGACA
195 GTGAGGCAGACTGAAGATGACA
* * *
37234078 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATCAAAGACAATAATCCTATCTCCCTGAAGTTG
* * * *
37234143 CAGTGGAGTGGATTAAAACCACATATTTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
66 CAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
*
37234208 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATATAAG-ACACCAA-TCTTATTTCTCC-AAGGTT
131 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-ATAAGTA-ACCAAGTCTTA-TCCTCCGAA-GTT
37234270 GCAGTG
192 GCAGTG
37234276 GAGTGGATTG
Statistics
Matches: 173, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
216 2 0.01
217 158 0.91
218 13 0.08
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (216 bp):
AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATCAAAGACAATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
TCTTATCTCCCTGAAGTTGCAGCGGAGCAGAATAAGTAACCAAGTCTTATCCTCCGAAGTTGCAG
TGAGGCAGACTGAAGATGACA
Found at i:37234274 original size:128 final size:127
Alignment explanation
Indices: 37234080--37234314 Score: 314
Period size: 128 Copynumber: 1.8 Consensus size: 127
37234070 AGATGACAAA
* * *
37234080 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGACGACAATCCTATCTCCC-GAAGTTGCA
* *
37234145 GTGGAGTGGATTAAAACCACATATTTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
65 GTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
* *
37234208 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGAT-ATAAGAC-ACCAATCTTATTTCTCC-AAGGTT
1 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCA-AAGACGA-CAATCCTATCTC-CCGAA-GTT
* * *
37234270 GCAGTGGAGTGGATTGAAACCGCAGATCTTATCTCTTTGAAGTTG
62 GCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
37234315 CAGAGAACAG
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
127 4 0.04
128 87 0.94
129 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (127 bp):
TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGACGACAATCCTATCTCCCGAAGTTGCAG
TGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGAAAGCAAATCGCATCTAG
Found at i:37235648 original size:19 final size:19
Alignment explanation
Indices: 37235606--37235648 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
37235596 ATTTATTATC
*
37235606 ATTATCATTATTATTATCT
1 ATTATCATTATTATTATAT
* *
37235625 ATTATCTTTATTTTTATAT
1 ATTATCATTATTATTATAT
*
37235644 TTTAT
1 ATTAT
37235649 ATTCATGCGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATCATTATTATTATAT
Found at i:37236328 original size:13 final size:14
Alignment explanation
Indices: 37236294--37236331 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
37236284 TGCTTTTATA
37236294 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
37236309 TAT-TTATTT-GTT
1 TATATTATTTCGTT
37236321 TATATTATTTC
1 TATATTATTTC
37236332 TATGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:37237246 original size:26 final size:26
Alignment explanation
Indices: 37237211--37237260 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
37237201 TAGAAAGAAA
37237211 AAAAAAGTTTGTTCATCCCTTTACAG
1 AAAAAAGTTTGTTCATCCCTTTACAG
*
37237237 AAAAAAGTTTGTTCATCGCTTTAC
1 AAAAAAGTTTGTTCATCCCTTTAC
37237261 TTTGTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (26 bp):
AAAAAAGTTTGTTCATCCCTTTACAG
Found at i:37240216 original size:62 final size:62
Alignment explanation
Indices: 37240140--37240262 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
37240130 ATGTAAGTGT
* *
37240140 GATTTTGTCCTGTTTTTAATGATTTTTATGTTTTTGAAGTCGCAGCTTAATTTACCTAGCCC
1 GATTTTGTCCTGTTTTTAATGATTTTTATGTTTTTGAAGTCCCAGCTTAATCTACCTAGCCC
37240202 GATTTTGTCCTGTTTTTAATGATTTTTATGTTTTTGAAGTCCCAGCTTAATCTACCTAGCC
1 GATTTTGTCCTGTTTTTAATGATTTTTATGTTTTTGAAGTCCCAGCTTAATCTACCTAGCC
37240263 TGAGGACTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (62 bp):
GATTTTGTCCTGTTTTTAATGATTTTTATGTTTTTGAAGTCCCAGCTTAATCTACCTAGCCC
Found at i:37240842 original size:40 final size:41
Alignment explanation
Indices: 37240786--37240935 Score: 180
Period size: 40 Copynumber: 3.7 Consensus size: 41
37240776 AAAATACTTG
* * *
37240786 CTTGTACTTTGGTACCCTTGATTGCACATACGTGCCCCTGT
1 CTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGT
* * * *
37240827 -TTGTACTTCGGTACCCCTGATTGCATATACAT-TCCTTTT
1 CTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGT
** *
37240866 CTTGTACTTCGGTAGTCCTGATTGCACATACATACCCCT-T
1 CTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGT
*
37240906 CTTATACTTCGGTACCCCTGATTGCACATA
1 CTTGTACTTCGGTACCCCTGATTGCACATA
37240936 TGTGCCCATG
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
39 4 0.04
40 85 0.92
41 3 0.03
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (41 bp):
CTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGT
Found at i:37240951 original size:40 final size:41
Alignment explanation
Indices: 37240790--37240955 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 41
37240780 TACTTGCTTG
* * * *
37240790 TACTTTGGTACCCTTGATTGCACATACGTGCCCCTGT-TTG
1 TACTTCGGTACCCCTGATTGCACATACATGCCCCTGTCTTA
* * * * *
37240830 TACTTCGGTACCCCTGATTGCATATACAT-TCCTTTTCTTG
1 TACTTCGGTACCCCTGATTGCACATACATGCCCCTGTCTTA
** *
37240870 TACTTCGGTAGTCCTGATTGCACATACATACCCCT-TCTTA
1 TACTTCGGTACCCCTGATTGCACATACATGCCCCTGTCTTA
** *
37240910 TACTTCGGTACCCCTGATTGCACATATGTGCCCATGT-TTA
1 TACTTCGGTACCCCTGATTGCACATACATGCCCCTGTCTTA
37240950 TACTTC
1 TACTTC
37240956 AGTAATTTCA
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 4 0.04
40 96 0.92
41 4 0.04
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (41 bp):
TACTTCGGTACCCCTGATTGCACATACATGCCCCTGTCTTA
Found at i:37244287 original size:41 final size:42
Alignment explanation
Indices: 37244230--37244427 Score: 190
Period size: 42 Copynumber: 4.7 Consensus size: 42
37244220 CTTGGTGGAT
*
37244230 TCAGCACTTAGCAACCACC-TTAAATTCAATGATATGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAATAATATGGGGAA
* * *
37244271 TCAGCACTTAGCAACCACCTTTATATTCAGTAATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAATAATATGGGGAA
* * * *
37244313 TCAGCACATAACAACC-CCTTTCAAAATTGAA-GATATGGTGGAA
1 TCAGCACTTAGCAACCACCTTT--AAATTCAATAATATGG-GGAA
* * * *
37244356 TTAACACTTAGCAACCACCTTTAAAGTCAATAAT-TCAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAATAATAT-GGGGAA
* **
37244398 TCAACACTTAGCAACC-CCTTTTTATTCAAT
1 TCAGCACTTAGCAACCACCTTTAAATTCAAT
37244428 GTTTTCCGGT
Statistics
Matches: 127, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
41 35 0.28
42 63 0.50
43 24 0.19
44 5 0.04
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAATAATATGGGGAA
Found at i:37244364 original size:85 final size:85
Alignment explanation
Indices: 37244251--37244418 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
37244241 CAACCACCTT
* * * * *
37244251 AAATTCAATGATATGGGGAATCAGCACTTAGCAACCACCTTTATATTCAGTAATACGGGGAATCA
1 AAATTCAATGATATGGGGAATCAACACTTAGCAACCACCTTTAAAGTCAATAATACAGGGAATCA
*
37244316 GCACATAACAACCCCTTTCA
66 ACACATAACAACCCCTTTCA
* * *
37244336 AAATTGAA-GATATGGTGGAATTAACACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAATC
1 AAATTCAATGATATGG-GGAATCAACACTTAGCAACCACCTTTAAAGTCAATAATACAGGGAATC
* *
37244400 AACACTTAGCAACCCCTTT
65 AACACATAACAACCCCTTT
37244419 TTATTCAATG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 7 0.10
85 64 0.90
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (85 bp):
AAATTCAATGATATGGGGAATCAACACTTAGCAACCACCTTTAAAGTCAATAATACAGGGAATCA
ACACATAACAACCCCTTTCA
Found at i:37245980 original size:32 final size:32
Alignment explanation
Indices: 37245944--37246006 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
37245934 TAAGTGTGTG
*
37245944 TGAATTATGAATTTAATTATTTATTGTGTAAC
1 TGAATTATGAATTTAATTATTTATTCTGTAAC
* *
37245976 TGAATTATGAATTTGATTGTTTATTCTGTAA
1 TGAATTATGAATTTAATTATTTATTCTGTAA
37246007 GTGAGTTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (32 bp):
TGAATTATGAATTTAATTATTTATTCTGTAAC
Found at i:37246306 original size:37 final size:37
Alignment explanation
Indices: 37246252--37246333 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
37246242 TATGGTCCTG
*
37246252 ATATATATAATATATATGCCTCTATGG-TTCTATTAT-
1 ATATATATAATATATATGCCTCTAGGGATT-TATTATA
* *
37246288 ATATATACTTATATATATGCCTTTAGGGATTTATTATA
1 ATATATA-TAATATATATGCCTCTAGGGATTTATTATA
37246326 ATATATAT
1 ATATATAT
37246334 GTGTTTATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 7 0.17
37 24 0.60
38 9 0.22
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (37 bp):
ATATATATAATATATATGCCTCTAGGGATTTATTATA
Found at i:37257982 original size:27 final size:27
Alignment explanation
Indices: 37257935--37258058 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
37257925 TATTGGCCTT
*
37257935 GATGGGTCAAAATTACCAAAATACCCTC
1 GATGGGT-AAAATGACCAAAATACCCTC
* *
37257963 GATGGGTAAAATGACTAAAATACTCTC
1 GATGGGTAAAATGACCAAAATACCCTC
*
37257990 GATGGGTAAAATGACCGAAATACCCTC
1 GATGGGTAAAATGACCAAAATACCCTC
** *
37258017 G-TAGGGTAAAATGACCGTAATGCCC-C
1 GAT-GGGTAAAATGACCAAAATACCCTC
*
37258043 TATAGGGTAAAATGAC
1 GAT-GGGTAAAATGAC
37258059 TGTAATTCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.02
27 76 0.89
28 7 0.08
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
GATGGGTAAAATGACCAAAATACCCTC
Found at i:37258063 original size:27 final size:27
Alignment explanation
Indices: 37257993--37258134 Score: 106
Period size: 27 Copynumber: 5.3 Consensus size: 27
37257983 TACTCTCGAT
* * *
37257993 GGGTAAAATGACCGAAAT-ACCCTCGTA
1 GGGTAAAATGACCGTAATGCCCCT-ATA
37258020 GGGTAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * *
37258047 GGGTAAAATGACTGTAATTCTCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * *** * * *
37258074 GGTTTAAATGACTAAAATACCCATGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * * *
37258101 AGGTTAAATGGCCGTAATGCCCCTAGA
1 GGGTAAAATGACCGTAATGCCCCTATA
37258128 GGGTAAA
1 GGGTAAA
37258135 TGATTATTTT
Statistics
Matches: 88, Mismatches: 26, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
27 84 0.95
28 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTATA
Found at i:37258149 original size:26 final size:27
Alignment explanation
Indices: 37258120--37258170 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
37258110 GGCCGTAATG
37258120 CCCCTAGAGGGTAAATGATT-ATTTTT
1 CCCCTAGAGGGTAAATGATTGATTTTT
* *
37258146 CCCCTCGAGTGTAAATGATTGATTT
1 CCCCTAGAGGGTAAATGATTGATTT
37258171 ATTTGTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
CCCCTAGAGGGTAAATGATTGATTTTT
Found at i:37258192 original size:24 final size:24
Alignment explanation
Indices: 37258157--37258265 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
37258147 CCCTCGAGTG
* *
37258157 TAAATGATTGATTTATTTGTGATT
1 TAAATGACTGATTTGTTTGTGATT
*
37258181 TAAATGACTGATTT-TTCTGCGATT
1 TAAATGACTGATTTGTT-TGTGATT
* *
37258205 TAAATGA-TCGATTTGTCTATGATT
1 TAAATGACT-GATTTGTTTGTGATT
***
37258229 GGTATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTTTGTGATT
**
37258253 TGTATGACTGATT
1 TAAATGACTGATT
37258266 CTGAGCATGG
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.04
24 65 0.93
25 2 0.03
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.49
Consensus pattern (24 bp):
TAAATGACTGATTTGTTTGTGATT
Found at i:37258482 original size:32 final size:31
Alignment explanation
Indices: 37258437--37258575 Score: 163
Period size: 32 Copynumber: 4.4 Consensus size: 31
37258427 GTTGCGATGC
*
37258437 TACTGATGACTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACC-T
*
37258469 TACTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACC-T
* * *
37258501 TACTGATGGCTATGTGCCGATCATATCACTCC
1 TACTGATGGCTTTGTGCCGATCATATTAC-CT
* *
37258533 TACTGGTGGCTTTGTGCCAATCATATTA-CT
1 TACTGATGGCTTTGTGCCGATCATATTACCT
*
37258563 GTACTTATGGCTT
1 -TACTGATGGCTT
37258576 GTAGCCATTC
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
30 1 0.01
31 10 0.11
32 79 0.87
33 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (31 bp):
TACTGATGGCTTTGTGCCGATCATATTACCT
Found at i:37258592 original size:22 final size:22
Alignment explanation
Indices: 37258567--37258613 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
37258557 ATTACTGTAC
* * *
37258567 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
37258589 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
37258611 TTA
1 TTA
37258614 CGACTATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:37261400 original size:51 final size:49
Alignment explanation
Indices: 37261275--37261460 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 49
37261265 GTGAAAGTGA
*
37261275 TGGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-G-T
* * * *
37261325 AGGTCGCATGTGTAGTACTATGTGCATGCTACTATGTGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * * *
37261375 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
* *
37261425 GATGGTCACATGTGTAGCACTATGTGCAGGTTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
37261461 TGTGGACCGG
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 43 0.38
51 69 0.61
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:37261401 original size:101 final size:102
Alignment explanation
Indices: 37261278--37261464 Score: 279
Period size: 101 Copynumber: 1.8 Consensus size: 102
37261268 AAAGTGATGG
* * * *
37261278 TCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGC
*
37261341 ACTATGTGCATGCTACTATGTGTACCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGTGTACCAGATAGCTTCGA
* *
37261379 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGCA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGCA
*
37261444 CTATGTGCAGGTTACTATGTG
66 CTATGTGCAGGCTACTATGTG
37261465 GACCGGTATC
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGCA
CTATGTGCAGGCTACTATGTGTACCAGATAGCTTCGA
Found at i:37261539 original size:46 final size:43
Alignment explanation
Indices: 37261466--37261564 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
37261456 TACTATGTGG
*
37261466 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
37261509 ACCGGATATCATTTATTACAAATGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
37261555 ACCGTGTATC
1 ACCG-GTATC
37261565 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 11 0.23
45 2 0.04
46 27 0.56
47 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37270660 original size:21 final size:21
Alignment explanation
Indices: 37270618--37270660 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37270608 TACAAATAGG
**
37270618 ACATTAAAACATACATTTCAT
1 ACATTAAAACATACATAACAT
* *
37270639 ACATTAATATATACATAACAT
1 ACATTAAAACATACATAACAT
37270660 A
1 A
37270661 AATCATTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
ACATTAAAACATACATAACAT
Found at i:37277774 original size:43 final size:43
Alignment explanation
Indices: 37277722--37278202 Score: 479
Period size: 43 Copynumber: 11.2 Consensus size: 43
37277712 TTTGGGATTG
* *
37277722 CGCCACTAAAGACCAC-GACCTTTAGCGGCGCTTTTTCGACAAA
1 CGCCGCTAAAGACC-CTGACCTTTAGCGGCGCTTTTTCAACAAA
* * * * *
37277765 CGCCGCTAAAGACCCTGATCTTTAGCGACGCTTTTCCTACAAT
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCAACAAA
* * *
37277808 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTCCTACAAT
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCAACAAA
* * * *
37277851 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTCTTTCCACGAG
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCAACAAA
* *
37277894 CGCCGCTAAAGACCCTAACCTTTCGCGGCGCTTTTTTC-ACAAA
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGC-TTTTTCAACAAA
* * ** * *
37277937 CGTCGCTAATGACCGAGACCTTTAGCGGTGCTTTTGT-AACAAG
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTT-TCAACAAA
* *
37277980 CGCCGCTAAAGACCCTAACCTTTCGCGGCGCTTTTTTC-ACAAA
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGC-TTTTTCAACAAA
* * ** *
37278023 CGTCGCTAATGACCGAGACCTTTAGCGGTGCTTTTGT-AACAAA
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTT-TCAACAAA
* ** *
37278066 CGCCGCTGAAGACCAGGACCTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCAACAAA
* ** * * *
37278109 CGCCGCTAAAGACCCTGACCATTAGCGATGATTTTTCCATAAA
1 CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCAACAAA
* * * *
37278152 CGCCGCTAATGACAAC-GACCTTTAGCGGCGCTTTTTTAAAAAA
1 CGCCGCTAAAGAC-CCTGACCTTTAGCGGCGCTTTTTCAACAAA
37278195 CGCCGCTA
1 CGCCGCTA
37278203 GTTTTGGCAG
Statistics
Matches: 363, Mismatches: 65, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
42 10 0.03
43 343 0.94
44 10 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCAACAAA
Found at i:37278409 original size:19 final size:19
Alignment explanation
Indices: 37278385--37278421 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37278375 ACAAAAATGA
*
37278385 TAAAAGTTAAAATGATAAT
1 TAAAAGTCAAAATGATAAT
37278404 TAAAAGTCAAAATGATAA
1 TAAAAGTCAAAATGATAA
37278422 AAATATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAAGTCAAAATGATAAT
Found at i:37282690 original size:23 final size:23
Alignment explanation
Indices: 37282664--37282736 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
37282654 TCTCCTTTCT
*
37282664 CAGCACATCGTATGTCTCGACAC
1 CAGCACATCGTATGTCTCAACAC
* ** * * *
37282687 CAGCCCATAAT-TGTTTTAACTC
1 CAGCACATCGTATGTCTCAACAC
37282709 TCAGCACATCGTATGTCTCAACAC
1 -CAGCACATCGTATGTCTCAACAC
37282733 CAGC
1 CAGC
37282737 CCATAATTGT
Statistics
Matches: 35, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
22 7 0.20
23 20 0.57
24 8 0.23
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (23 bp):
CAGCACATCGTATGTCTCAACAC
Found at i:37282733 original size:46 final size:46
Alignment explanation
Indices: 37282661--37282755 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
37282651 AGTTCTCCTT
*
37282661 TCTCAGCACATCGTATGTCTCGACACCAGCCCATAATTGTTTTAAC
1 TCTCAGCACATCGTATGTCTCAACACCAGCCCATAATTGTTTTAAC
37282707 TCTCAGCACATCGTATGTCTCAACACCAGCCCATAATTGTTTTAAC
1 TCTCAGCACATCGTATGTCTCAACACCAGCCCATAATTGTTTTAAC
37282753 TCT
1 TCT
37282756 TCAATAAGTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.32
Consensus pattern (46 bp):
TCTCAGCACATCGTATGTCTCAACACCAGCCCATAATTGTTTTAAC
Found at i:37284107 original size:25 final size:23
Alignment explanation
Indices: 37284073--37284194 Score: 113
Period size: 25 Copynumber: 5.0 Consensus size: 23
37284063 ATAATTAAGC
37284073 TATGTAAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGT-A-TTATGTAT
*
37284098 TATGTAAGTTATTTATTATGAATAT
1 TATGTAAGTTATGTATTATG--TAT
*
37284123 TATGTAAGTTATGTATTATGAAAAT
1 TATGTAAGTTATGTATTATG--TAT
*
37284148 TATGTAAGTTGTGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGT-A-T
37284173 TATGT-A-TTATGTAAGTTATGTA
1 TATGTAAGTTATGT-A-TTATGTA
37284195 AATTATTTAT
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
23 10 0.12
24 5 0.06
25 70 0.82
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (23 bp):
TATGTAAGTTATGTATTATGTAT
Found at i:37284138 original size:41 final size:41
Alignment explanation
Indices: 37284081--37284208 Score: 170
Period size: 41 Copynumber: 3.1 Consensus size: 41
37284071 GCTATGTAAG
*
37284081 TTATGTAAGTTATGTATTATGTAAGTTAT-TTA-TTATGAATA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATG--TA
* * *
37284122 TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
* *
37284163 TTATGTAAGTTATGTATTATGTAAGTTATGTAAATTATTTA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
37284204 TTATG
1 TTATG
37284209 AAAATTAAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
41 70 0.92
42 2 0.03
43 4 0.05
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
Found at i:37284195 original size:25 final size:25
Alignment explanation
Indices: 37284162--37284232 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
37284152 TAAGTTGTGT
*
37284162 ATTATGTAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
37284187 GTTATGTAAATTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
37284212 ATTAAGTAAGTTATGTCTTAT
1 ATTATGTAAGTTATGTATTAT
37284233 ATTAAAAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:37284208 original size:16 final size:16
Alignment explanation
Indices: 37284081--37284194 Score: 126
Period size: 16 Copynumber: 7.0 Consensus size: 16
37284071 GCTATGTAAG
37284081 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
37284097 TTATGTAAGTTATTTA
1 TTATGTAAGTTATGTA
*
37284113 TTATG-AATATTATGTAA
1 TTATGTAA-GTTATGT-A
*
37284130 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
37284147 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
37284163 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
37284179 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
37284195 AATTATTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
15 2 0.02
16 68 0.82
17 3 0.04
18 10 0.12
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:37284332 original size:10 final size:11
Alignment explanation
Indices: 37284309--37284403 Score: 54
Period size: 11 Copynumber: 8.5 Consensus size: 11
37284299 TTTTCAATAT
37284309 ATATATTAAAA
1 ATATATTAAAA
37284320 ATATATT-AAA
1 ATATATTAAAA
**
37284330 ATATGGTAGAAA
1 ATATATTA-AAA
*
37284342 TATATGTTAAAA
1 -ATATATTAAAA
*
37284354 ATATA-TAAAT
1 ATATATTAAAA
* **
37284364 TTACGTTAAATTA
1 ATATATTAAA--A
37284377 A-AT-TTAAAA
1 ATATATTAAAA
37284386 ATTATATTAAAA
1 A-TATATTAAAA
37284398 ATATAT
1 ATATAT
37284404 ATTAAATTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.03
10 14 0.22
11 27 0.42
12 14 0.22
13 7 0.11
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:37284396 original size:18 final size:17
Alignment explanation
Indices: 37284373--37284428 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
37284363 TTTACGTTAA
37284373 ATTAAATTTAAAAATTAT
1 ATTAAATTTAAAAA-TAT
*
37284391 ATT-AA---AAATATAT
1 ATTAAATTTAAAAATAT
37284404 ATTAAATTTAAAAA-AT
1 ATTAAATTTAAAAATAT
37284420 ATATAAATT
1 AT-TAAATT
37284429 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
16 4 0.13
17 12 0.39
18 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAATTTAAAAATAT
Found at i:37284397 original size:12 final size:13
Alignment explanation
Indices: 37284380--37284409 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37284370 TAAATTAAAT
37284380 TTAAAAAT-TATA
1 TTAAAAATATATA
37284392 TTAAAAATATATA
1 TTAAAAATATATA
37284405 TTAAA
1 TTAAA
37284410 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAAATATATA
Found at i:37284456 original size:23 final size:22
Alignment explanation
Indices: 37284350--37284445 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 22
37284340 AATATATGTT
* **
37284350 AAAAATATATAAATTTACGTTA
1 AAAAATATATAAATTAAATTTA
* * *
37284372 AATTAAATTTAAAAATTATA-TT-
1 AA--AAATATATAAATTAAATTTA
37284394 AAAAATATAT--ATTAAATTTA
1 AAAAATATATAAATTAAATTTA
*
37284414 AAAAATATATAAATTAAATTTT
1 AAAAATATATAAATTAAATTTA
*
37284436 AAAAGTATAT
1 AAAAATATAT
37284446 GCATATAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
18 5 0.09
19 2 0.03
20 16 0.28
22 22 0.38
23 2 0.03
24 11 0.19
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAAATATATAAATTAAATTTA
Found at i:37284801 original size:18 final size:18
Alignment explanation
Indices: 37284778--37284815 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37284768 GCTAACTTTG
37284778 TTTGCTTTTAAACTAATC
1 TTTGCTTTTAAACTAATC
37284796 TTTGCTTTTAAACTAATC
1 TTTGCTTTTAAACTAATC
37284814 TT
1 TT
37284816 CCACTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTGCTTTTAAACTAATC
Found at i:37285693 original size:12 final size:12
Alignment explanation
Indices: 37285673--37285712 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
37285663 CAAACAGTTT
*
37285673 CAAACTTATGAA
1 CAAAATTATGAA
*
37285685 CAAAATTATTAA
1 CAAAATTATGAA
*
37285697 CAAAATTATGAG
1 CAAAATTATGAA
37285709 CAAA
1 CAAA
37285713 CAGTATTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:37285723 original size:24 final size:24
Alignment explanation
Indices: 37285662--37285723 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
37285652 ATCCTGTAAT
*
37285662 ACAAACAGT-TT-CAAACTTATGA
1 ACAAACAGTATTACAAAATTATGA
*
37285684 ACAAA-ATTATTAACAAAATTATGA
1 ACAAACAGTATT-ACAAAATTATGA
*
37285708 GCAAACAGTATTACAA
1 ACAAACAGTATTACAA
37285724 GCCTGCAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.06
22 7 0.22
24 18 0.56
25 5 0.16
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.26
Consensus pattern (24 bp):
ACAAACAGTATTACAAAATTATGA
Found at i:37286433 original size:16 final size:16
Alignment explanation
Indices: 37286412--37286443 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37286402 TATTTATTTC
37286412 TTAATTGTATCTTTTA
1 TTAATTGTATCTTTTA
37286428 TTAATTGTATCTTTTA
1 TTAATTGTATCTTTTA
37286444 ATTACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
TTAATTGTATCTTTTA
Found at i:37287154 original size:22 final size:22
Alignment explanation
Indices: 37287128--37287176 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
37287118 ATCCAAAACA
* *
37287128 CTAAATCCCTAACTCCTAACCC
1 CTAAATCCCAAACCCCTAACCC
*
37287150 TTAAATCCCAAACCCCTAACCC
1 CTAAATCCCAAACCCCTAACCC
37287172 CTAAA
1 CTAAA
37287177 CCAATAAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAAATCCCAAACCCCTAACCC
Found at i:37287172 original size:7 final size:7
Alignment explanation
Indices: 37287134--37287228 Score: 55
Period size: 7 Copynumber: 13.1 Consensus size: 7
37287124 AACACTAAAT
37287134 CCCTAAC
1 CCCTAAC
*
37287141 TCCTAAC
1 CCCTAAC
* *
37287148 CCTTAAAT
1 CCCT-AAC
*
37287156 CCCAAAC
1 CCCTAAC
37287163 CCCTAAC
1 CCCTAAC
37287170 CCCTAAAC
1 CCCT-AAC
** *
37287178 CAATAAA
1 CCCTAAC
*
37287185 CCTTAAAC
1 CCCT-AAC
*
37287193 TCCTAAC
1 CCCTAAC
**
37287200 TTCTAAC
1 CCCTAAC
*
37287207 CTCTAAC
1 CCCTAAC
37287214 CCCTAAC
1 CCCTAAC
37287221 CCCTAAC
1 CCCTAAC
37287228 C
1 C
37287229 AATAAACCTT
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
7 53 0.80
8 13 0.20
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:37287277 original size:14 final size:15
Alignment explanation
Indices: 37287260--37287292 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
37287250 CTTAAATCAG
37287260 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
37287274 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
37287289 AATC
1 AATC
37287293 TATAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:37287657 original size:41 final size:41
Alignment explanation
Indices: 37287599--37287944 Score: 453
Period size: 41 Copynumber: 8.4 Consensus size: 41
37287589 GAATGTTTTT
*
37287599 GCGGCGCTTCTAT-AAAAACGCTGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCT-TCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * *
37287640 GCGGCGCTTCCTCAAAAACGCTGCTAAAGGCCCGACCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * *
37287681 GCGGCGCTTATTCAAAAACACCGCTAAAGGCCCGACCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * *
37287722 GCGGTGCTTATTCAAAAACGCCGCTAAAGGCCCGACCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
37287763 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
37287804 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * * * * *
37287845 GCAGCG-TTTTTGAAGAAGCTCCGCTAAAGGCCAGAGCATTA
1 GCGGCGCTTCTTCAA-AAACGCCGCTAAAGGCCCGAGCATTA
** * * * *
37287886 GCGGCAATGCTTAAAAAACACTGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
*
37287927 GCGGCGCTTCTTAAAAAA
1 GCGGCGCTTCTTCAAAAA
37287945 TGCCACTACA
Statistics
Matches: 273, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
40 7 0.03
41 261 0.96
42 5 0.02
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
Found at i:37288130 original size:40 final size:41
Alignment explanation
Indices: 37288019--37288131 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 41
37288009 TCCAAAAAAT
* * *
37288019 GCCGCTAATGCTTG-TTTTTAGCGGCGTTTTCT-AACAATC
1 GCCGCTAATGCTAGATTTTTAGCGGCGTTTTTTGAACAAGC
* * ** * *
37288058 GCCGCTAGTGCTCGACCTTTAGCGGTGCTTTTTGAA-AAGC
1 GCCGCTAATGCTAGATTTTTAGCGGCGTTTTTTGAACAAGC
*
37288098 GCCGCTAATGCTAGATTTTTAGTGGCGTTTTTTG
1 GCCGCTAATGCTAGATTTTTAGCGGCGTTTTTTG
37288132 TCCAATCGCG
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
39 12 0.21
40 43 0.75
41 2 0.04
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (41 bp):
GCCGCTAATGCTAGATTTTTAGCGGCGTTTTTTGAACAAGC
Found at i:37294359 original size:14 final size:15
Alignment explanation
Indices: 37294323--37294362 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
37294313 TGCTCTACCA
37294323 TTATTATTATTTTTG
1 TTATTATTATTTTTG
37294338 -TATATATT-TTTTTG
1 TTAT-TATTATTTTTG
37294352 TTATTATTATT
1 TTATTATTATT
37294363 AACATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
TTATTATTATTTTTG
Found at i:37296549 original size:19 final size:20
Alignment explanation
Indices: 37296505--37296549 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
37296495 AACGTCTCTT
*
37296505 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
37296524 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
37296543 TATGCAT
1 TATGCAT
37296550 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:37299255 original size:43 final size:42
Alignment explanation
Indices: 37299180--37299262 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
37299170 AAAAGGTGGG
37299180 ACCAAGGTGAAAGCCTACAAAGGACGCTTTGAGTCAAAAAAAA
1 ACCAAGGTGAAAGCCTACAAAGGACGCTTTGAG-CAAAAAAAA
37299223 ACCAAGGTGAAAGCCTACAAAGGGATC-C-TTGAGCAAAAAA
1 ACCAAGGTGAAAGCCTACAAA-GGA-CGCTTTGAGCAAAAAA
37299263 TGGAGAGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
42 7 0.18
43 26 0.68
44 4 0.11
45 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (42 bp):
ACCAAGGTGAAAGCCTACAAAGGACGCTTTGAGCAAAAAAAA
Found at i:37300591 original size:44 final size:44
Alignment explanation
Indices: 37300519--37301062 Score: 226
Period size: 44 Copynumber: 12.4 Consensus size: 44
37300509 AGCAGGTTGA
37300519 AAAGA-AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * *** * *
37300562 AAATATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
* * *
37300607 GAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * * * * * *
37300651 AAAGATAGCAGATCTTGCCTTCCTATA-TAGACAGCGAAGCAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACT-GGC-GTGAAGTAGATC
* ** * * * ** ** * * *
37300696 GAAGATGGCTGAT-TT-TACCTCCTCGTGGTTACAGTGGAGTACATT
1 AAAGATAACAGATCTTGT-CTTCAT-GTACTGGC-GTGAAGTAGATC
* * * * *** * *
37300741 GAAG---CCAGTAT-TTCTATTCCCATACTGGTGGCGAAGTAGATC
1 AAAGATAACAG-ATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
* * ** * *
37300783 GAAGAAAATGGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* *** * *
37300827 AAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
* * ** ** *
37300872 GAAGAAAATGGATCTTGTCTTCATGTGTTGGCATGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* *** *
37300916 AAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
* * ** * *
37300961 GAAGAAAATGGATCTTGCCTTCATGTATTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* ** * * * * * *
37301005 AAAGATAGCAGGCCTTGTCTTCACGAATTAGCATGAAATAGATC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
37301049 AAAGAT-ACAG-TCTT
1 AAAGATAACAGATCTT
37301063 ATCTCCCTGA
Statistics
Matches: 355, Mismatches: 130, Indels: 33
0.69 0.25 0.06
Matches are distributed among these distances:
42 19 0.05
43 15 0.04
44 176 0.50
45 144 0.41
46 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
Found at i:37300688 original size:89 final size:89
Alignment explanation
Indices: 37300528--37301026 Score: 586
Period size: 89 Copynumber: 5.6 Consensus size: 89
37300518 AAAAGAAACA
* * *
37300528 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACCAGATCTTGTCTTCCCATACTGG
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
*
37300593 TGGCGAAGTAGATCGAAGAAAATA
66 TGGCGAAGTAGATCGAAGAAAATG
* * *
37300617 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGCCTTCCTATA-TAG
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT-G
*** *
37300681 ACAGCGAAGCAGATCGAAG---ATG
65 GTGGCGAAGTAGATCGAAGAAAATG
* * * * * * * * ** * *
37300703 GCTGATTTTACCTCCTCGTGGTT-ACAGTGGAGT--A-CATTGA-AGCCAGTAT-TTCTATTCCC
1 GAT-CTTGT-CTTCAT-GT-ATTGGC-GTGAAGTAGATCAAAGATAG-CAG-ATCTTGTCTTCCC
37300762 ATACTGGTGGCGAAGTAGATCGAAGAAAATG
59 ATACTGGTGGCGAAGTAGATCGAAGAAAATG
*
37300793 GATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
37300858 TGGCGAAGTAGATCGAAGAAAATG
66 TGGCGAAGTAGATCGAAGAAAATG
* *
37300882 GATCTTGTCTTCATGTGTTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
*
37300947 TGGTGAAGTAGATCGAAGAAAATG
66 TGGCGAAGTAGATCGAAGAAAATG
* **
37300971 GATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGCCTTGTCTTC
1 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
37301027 ACGAATTAGC
Statistics
Matches: 344, Mismatches: 48, Indels: 36
0.80 0.11 0.08
Matches are distributed among these distances:
86 13 0.04
87 38 0.11
88 16 0.05
89 263 0.76
90 14 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
TGGCGAAGTAGATCGAAGAAAATG
Found at i:37300875 original size:176 final size:175
Alignment explanation
Indices: 37300551--37301026 Score: 543
Period size: 176 Copynumber: 2.7 Consensus size: 175
37300541 TGTACTGGCG
* * * *
37300551 TGAAGTAGATCAAATATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAT
1 TGAAGTA-ATCAAAGATAGCAGATCTTCTATTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAT
* * * *
37300616 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGCCTTCCTATATAG
65 GGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATATAG
* * *
37300681 ACAGCGAAGCAGATCGAAG-ATGGCTGATTTTACCTCCTCGTGGTT-ACA
130 ACAGCGAAGCAGATCGAAGAATGGAT-ATTGT-CCTCAT-GT-GTTGACA
* **
37300729 GTGGAGT-A-CATTGA-AGCCAGTAT-TTCTATTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 -TGAAGTAATCAAAGATAG-CAG-ATCTTCTATTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
*
37300790 ATGGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATAC
63 ATGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA-
*** * * * *
37300855 T-GGTGGCGAAGTAGATCGAAGAAAATGGATCTTGTCTTCATGTGTTGGCA
127 TAGACAGCGAAGCAGATCGAAG--AATGGATATTGTCCTCATGTGTTGACA
* * *
37300905 TGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAAT
1 TGAAGTA-ATCAAAGATAGCAGATCTTCTATTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAT
* **
37300970 GGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGCCTTGTCTTC
65 GGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
37301027 ACGAATTAGC
Statistics
Matches: 253, Mismatches: 32, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
175 9 0.04
176 121 0.48
177 11 0.04
178 100 0.40
179 12 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (175 bp):
TGAAGTAATCAAAGATAGCAGATCTTCTATTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATG
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATATAGA
CAGCGAAGCAGATCGAAGAATGGATATTGTCCTCATGTGTTGACA
Found at i:37302490 original size:14 final size:15
Alignment explanation
Indices: 37302454--37302493 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
37302444 TGCTCTACCA
37302454 TTATTATTATTTTTG
1 TTATTATTATTTTTG
37302469 -TATATATT-TTTTTG
1 TTAT-TATTATTTTTG
37302483 TTATTATTATT
1 TTATTATTATT
37302494 AACATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
TTATTATTATTTTTG
Found at i:37303709 original size:27 final size:27
Alignment explanation
Indices: 37303661--37303987 Score: 292
Period size: 27 Copynumber: 12.4 Consensus size: 27
37303651 GGGTATAACA
* ** *
37303661 GTCATTTTACCCTAAGAAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37303688 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37303715 GTCATTCTAACCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
37303742 ATCATTTTACCGTATGGGGGTATTTAA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37303769 ATCATTTTACCCTATTGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37303796 GTCAATTTAGCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37303823 GTCATTTTACTCTATGAGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37303850 GTCATTTTACCATATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
37303877 GTCATTTTA-CC-A------TATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37303896 GTCATTCTACCCAATGGGGGTACTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
37303923 ATTATTCTACCCTATTGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37303950 GTCATTTTACCTTTTGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
37303977 GTCATTTTACC
1 GTCATTTTACC
37303988 TATTTTAGGG
Statistics
Matches: 242, Mismatches: 50, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
19 14 0.06
20 2 0.01
21 1 0.00
25 1 0.00
26 1 0.00
27 223 0.92
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:37303898 original size:19 final size:19
Alignment explanation
Indices: 37303870--37303906 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37303860 CATATAGGGG
* *
37303870 TATTTTGGTCATTTTACCA
1 TATTTCGGTCATTCTACCA
37303889 TATTTCGGTCATTCTACC
1 TATTTCGGTCATTCTACC
37303907 CAATGGGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTTCGGTCATTCTACCA
Found at i:37303945 original size:73 final size:73
Alignment explanation
Indices: 37303816--37303960 Score: 200
Period size: 73 Copynumber: 2.0 Consensus size: 73
37303806 CCTATGAGGG
* * * * *
37303816 TATTTCGGTCATTTTACTCTATGAGGGTAATTCGGTCATTTTACCATATAGGGGTATTTTGGTCA
1 TATTTCGGTCATTCTACCCAATGAGGGTAATTCGATCATTCTACCATATAGGGGTATTTTGGTCA
37303881 TTTTACCA
66 TTTTACCA
* * * * *
37303889 TATTTCGGTCATTCTACCCAATGGGGGTACTTCGATTATTCTACCCTATTGGGGTATTTTGGTCA
1 TATTTCGGTCATTCTACCCAATGAGGGTAATTCGATCATTCTACCATATAGGGGTATTTTGGTCA
37303954 TTTTACC
66 TTTTACC
37303961 TTTTGGGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (73 bp):
TATTTCGGTCATTCTACCCAATGAGGGTAATTCGATCATTCTACCATATAGGGGTATTTTGGTCA
TTTTACCA
Found at i:37307726 original size:9 final size:9
Alignment explanation
Indices: 37307707--37307793 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 9
37307697 ATAATGAAAT
37307707 AAAAT-AAA
1 AAAATAAAA
*
37307715 AAACTAAAA
1 AAAATAAAA
37307724 AAAATAAAA
1 AAAATAAAA
*
37307733 GCAAAAAAAACA
1 --AAAATAAA-A
*
37307745 AAAGAAAAACA
1 AAA-ATAAA-A
*
37307756 AAAACAAAA
1 AAAATAAAA
*
37307765 ACAAATATAA
1 A-AAATAAAA
*
37307775 AATATAAAA
1 AAAATAAAA
37307784 ATAAATAAAA
1 A-AAATAAAA
37307794 TATAAAACTA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 4 0.06
9 20 0.32
10 21 0.33
11 17 0.27
12 1 0.02
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:37307729 original size:17 final size:16
Alignment explanation
Indices: 37307707--37307801 Score: 61
Period size: 16 Copynumber: 5.8 Consensus size: 16
37307697 ATAATGAAAT
37307707 AAAATAAAAAACTAAAA
1 AAAATAAAAAAC-AAAA
*
37307724 AAAAT-AAAAGCAAAA
1 AAAATAAAAAACAAAA
*
37307739 AAAACAAAAGAA-AAACA
1 AAAATAAAA-AACAAA-A
*
37307756 AAAA-CAAAAACAAATA
1 AAAATAAAAAACAAA-A
* *
37307772 TAAAATATAAAAATAAAT
1 -AAAATA-AAAAACAAAA
*
37307790 AAAATATAAAAC
1 AAAATAAAAAAC
37307802 TAAATGAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
15 10 0.16
16 22 0.36
17 21 0.34
19 8 0.13
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAATAAAAAACAAAA
Found at i:37307752 original size:14 final size:15
Alignment explanation
Indices: 37307720--37307769 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
37307710 ATAAAAAACT
*
37307720 AAAAAAAATAAAAGC
1 AAAAAAAACAAAAGC
*
37307735 AAAAAAAACAAAAGAA
1 AAAAAAAACAAAAG-C
*
37307751 AAACAAAAACAAAAAC
1 AAA-AAAAACAAAAGC
37307767 AAA
1 AAA
37307770 TATAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 13 0.45
16 6 0.21
17 10 0.34
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (15 bp):
AAAAAAAACAAAAGC
Found at i:37307752 original size:20 final size:19
Alignment explanation
Indices: 37307720--37307765 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
37307710 ATAAAAAACT
* *
37307720 AAAAAAAATAAAAGCAAAA
1 AAAAAAAAGAAAAACAAAA
37307739 AAAACAAAAGAAAAACAAAA
1 AAAA-AAAAGAAAAACAAAA
37307759 ACAAAAA
1 A-AAAAA
37307766 CAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAACAAAA
Found at i:37307752 original size:26 final size:25
Alignment explanation
Indices: 37307712--37307765 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
37307702 GAAATAAAAT
* * *
37307712 AAAAAACTAAAAAAAATAAAAGCAA
1 AAAAAACAAAAAAAAACAAAAACAA
37307737 AAAAAACAAAAGAAAAACAAAAACAA
1 AAAAAACAAAA-AAAAACAAAAACAA
37307763 AAA
1 AAA
37307766 CAAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.83, C:0.09, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAACAAAAAAAAACAAAAACAA
Found at i:37307776 original size:24 final size:25
Alignment explanation
Indices: 37307738--37307800 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
37307728 TAAAAGCAAA
*
37307738 AAAAACAAA-AGAAAA-ACAAAAAC
1 AAAAACAAATATAAAATACAAAAAC
* *
37307761 AAAAACAAATATAAAATATAAAAAT
1 AAAAACAAATATAAAATACAAAAAC
*
37307786 AAATA-AAATATAAAA
1 AAAAACAAATATAAAA
37307801 CTAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.26
24 15 0.44
25 10 0.29
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.13
Consensus pattern (25 bp):
AAAAACAAATATAAAATACAAAAAC
Found at i:37307805 original size:17 final size:17
Alignment explanation
Indices: 37307771--37307811 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
37307761 AAAAACAAAT
37307771 ATAAAATATAAAAATAA
1 ATAAAATATAAAAATAA
*
37307788 ATAAAATATAAAACTAA
1 ATAAAATATAAAAATAA
*
37307805 ATGAAAT
1 ATAAAAT
37307812 TACTTTGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
ATAAAATATAAAAATAA
Found at i:37310490 original size:32 final size:32
Alignment explanation
Indices: 37310454--37310546 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 32
37310444 CCTAAATTTA
37310454 GCTAATATCTCTTTCAAGAGTAAGAGCAAAAT
1 GCTAATATCTCTTTCAAGAGTAAGAGCAAAAT
*
37310486 GCTAATATCTCTTTCGAGAGTAAGAGCAAAAT
1 GCTAATATCTCTTTCAAGAGTAAGAGCAAAAT
*
37310518 GTTAATATCTCTTTCGAA-AGTAAGAGCAA
1 GCTAATATCTCTTTC-AAGAGTAAGAGCAA
37310547 CTAACTCTAG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 56 0.98
33 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (32 bp):
GCTAATATCTCTTTCAAGAGTAAGAGCAAAAT
Found at i:37318348 original size:15 final size:15
Alignment explanation
Indices: 37318328--37318356 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37318318 AACCCTCTCT
37318328 CCTCTCTTCTCTTCA
1 CCTCTCTTCTCTTCA
37318343 CCTCTCTTCTCTTC
1 CCTCTCTTCTCTTC
37318357 CTCTCCTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (15 bp):
CCTCTCTTCTCTTCA
Found at i:37319212 original size:27 final size:27
Alignment explanation
Indices: 37319063--37319210 Score: 197
Period size: 27 Copynumber: 5.5 Consensus size: 27
37319053 ATACCACCGG
* **
37319063 AGGGTAAAATGACCGAAATATCTTCAA
1 AGGGTAAAATGACCGAAATACCCCCAA
*
37319090 ACGGTAAAATGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAA
* * * *
37319117 AGGTTAAAATGACCAAAATACCCCTAG
1 AGGGTAAAATGACCGAAATACCCCCAA
*
37319144 AGGGTAAAATGACTGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAA
* *
37319171 AGGGTAAAATGACTGAAATACCCCCAT
1 AGGGTAAAATGACCGAAATACCCCCAA
37319198 AGGGTAAAATGAC
1 AGGGTAAAATGAC
37319211 TGTTATACCT
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAATACCCCCAA
Found at i:37319219 original size:81 final size:81
Alignment explanation
Indices: 37319041--37319210 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 81
37319031 GATTCATGAG
* * * **
37319041 AAAATAACCAAAATACCACC-GGAGGGTAAAATGACCGAAATATCTTCAAACGGTAAAATGACCG
1 AAAATGACCAAAATACC-CCTAGAGGGTAAAATGACCGAAATACCCCCAAACGGTAAAATGACCG
*
37319105 AAATACCCCCAAAGGTT
65 AAATACCCCCAAAGGGT
* * *
37319122 AAAATGACCAAAATACCCCTAGAGGGTAAAATGACTGAAATACCCCCAAAGGGTAAAATGACTGA
1 AAAATGACCAAAATACCCCTAGAGGGTAAAATGACCGAAATACCCCCAAACGGTAAAATGACCGA
*
37319187 AATACCCCCATAGGGT
66 AATACCCCCAAAGGGT
37319203 AAAATGAC
1 AAAATGAC
37319211 TGTTATACCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.03
81 76 0.97
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (81 bp):
AAAATGACCAAAATACCCCTAGAGGGTAAAATGACCGAAATACCCCCAAACGGTAAAATGACCGA
AATACCCCCAAAGGGT
Found at i:37319455 original size:26 final size:26
Alignment explanation
Indices: 37319405--37319455 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
37319395 GCCACATATA
*
37319405 CTATTACTGGCAGCTTCACTGCGATT
1 CTATTACTGGCAGCTTCACTACGATT
**
37319431 CTATTACTGGCAGCTTTGCTACGAT
1 CTATTACTGGCAGCTTCACTACGAT
37319456 ATTGGTGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
CTATTACTGGCAGCTTCACTACGATT
Found at i:37319604 original size:28 final size:28
Alignment explanation
Indices: 37319564--37319673 Score: 159
Period size: 28 Copynumber: 4.0 Consensus size: 28
37319554 ACTGTACTGG
37319564 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
37319592 TTACTGTATTGGGTTGAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
37319620 TTACTATAATGGGCTAAGGCCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
37319648 TTACTGT-TTTGGCTAAGGCCCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
37319674 GTGCTATTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 17 0.24
28 55 0.76
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:37320940 original size:5 final size:5
Alignment explanation
Indices: 37320930--37320954 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37320920 CAAACGGGCA
37320930 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
37320955 CACTATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Done.