Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 64 of 117
Found at i:14001073 original size:21 final size:21
Alignment explanation
Indices: 14001027--14001105 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
14001017 AATAAATAAG
*
14001027 AAAAT-AAAAT-AACAAACAA
1 AAAATAAAAATCAAAAAACAA
*
14001046 AATAATAAAAATCAAAAAAGAA
1 AA-AATAAAAATCAAAAAACAA
** * *
14001068 AAAATAAAAAAGAAAAACCAT
1 AAAATAAAAATCAAAAAACAA
14001089 AAAATAAAAA-CAAAAAA
1 AAAATAAAAATCAAAAAA
14001106 TTAATAACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.04
20 8 0.17
21 29 0.60
22 9 0.19
ACGTcount: A:0.80, C:0.08, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAATAAAAATCAAAAAACAA
Found at i:14001998 original size:15 final size:15
Alignment explanation
Indices: 14001978--14002006 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14001968 AATAGGATCT
14001978 AAAATTGAATCTACG
1 AAAATTGAATCTACG
14001993 AAAATTGAATCTAC
1 AAAATTGAATCTAC
14002007 AAATTTTCCT
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:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (15 bp):
AAAATTGAATCTACG
Found at i:14002119 original size:7 final size:7
Alignment explanation
Indices: 14002089--14002127 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
14002079 ATATACAAAT
14002089 AAAATAA
1 AAAATAA
14002096 AATAATAA
1 AA-AATAA
**
14002104 AAACCAA
1 AAAATAA
14002111 AAAATAA
1 AAAATAA
14002118 AAAATAA
1 AAAATAA
14002125 AAA
1 AAA
14002128 TAGTGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:14002523 original size:43 final size:43
Alignment explanation
Indices: 14002384--14002665 Score: 189
Period size: 43 Copynumber: 6.5 Consensus size: 43
14002374 CTTAACGAGA
** * *
14002384 GCTTTGAAACTTT-AAAATTTTAAAATATTAC-CTCTCAA-AAAG
1 GCTTTGAAACTTTGAAAA-TTTAAAATGCT-CTTTCTCAATAGAG
* * * ** * *
14002426 GCTTTGAAGCTTCAGAAAATCTAAAATGCTCCATATCAACA-AG
1 GCTTTGAAACTT-TGAAAATTTAAAATGCTCTTTCTCAATAGAG
* *
14002469 GACTTTGAAACTTTGAAAATTCAAAATGCTCTTTCTCAATAGAA
1 G-CTTTGAAACTTTGAAAATTTAAAATGCTCTTTCTCAATAGAG
* * * * * *
14002513 GCTTTAAAACTTTGAAATTTTAGAATGTTCTTTCTTAATAGGG
1 GCTTTGAAACTTTGAAAATTTAAAATGCTCTTTCTCAATAGAG
* * * *
14002556 GTTTTGAAATTTTGGAAAATTTAAAATGCT-TTCACTCAACAGAG
1 GCTTTGAAACTTT-GAAAATTTAAAATGCTCTT-TCTCAATAGAG
* *
14002600 GCTTTGAAACTTTGAAAAATTTAAAATACTACTTT-TCCAACAGAG
1 GCTTTGAAACTTTG-AAAATTTAAAATGCT-CTTTCT-CAATAGAG
* * *
14002645 GTTTTGAAATTTTAAAAATTT
1 GCTTTGAAACTTTGAAAATTT
14002666 GCAACTAGAA
Statistics
Matches: 187, Mismatches: 41, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
42 12 0.06
43 84 0.45
44 70 0.37
45 19 0.10
46 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (43 bp):
GCTTTGAAACTTTGAAAATTTAAAATGCTCTTTCTCAATAGAG
Found at i:14002607 original size:44 final size:44
Alignment explanation
Indices: 14002558--14002665 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
14002548 TAATAGGGGT
* *
14002558 TTTGAAATTTTGGAAAATTTAAAATGCT-TTCACTCAACAGAGGC
1 TTTGAAATTTTGAAAAATTTAAAATACTATTCAC-CAACAGAGGC
* ** *
14002602 TTTGAAACTTTGAAAAATTTAAAATACTACTTTTCCAACAGAGGT
1 TTTGAAATTTTGAAAAATTTAAAATACTA-TTCACCAACAGAGGC
14002647 TTTGAAATTTT-AAAAATTT
1 TTTGAAATTTTGAAAAATTT
14002666 GCAACTAGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 33 0.60
45 19 0.35
46 3 0.05
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (44 bp):
TTTGAAATTTTGAAAAATTTAAAATACTATTCACCAACAGAGGC
Found at i:14002715 original size:52 final size:51
Alignment explanation
Indices: 14002648--14002768 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 51
14002638 AACAGAGGTT
**
14002648 TTGAAATTTTAAAAATTTGCAACTAGAAAAAAGC-TCTTTCTCAACAAAGGCA
1 TTGAAATTTTAAAAATTCACAAC-A-AAAAAAGCTTCTTTCTCAACAAAGGCA
* * *
14002700 TTGAAATTTTAAAAATTCACCACAAAAAAAGCTTTTTTTTTCAACAAAGGCA
1 TTGAAATTTTAAAAATTCACAACAAAAAAAGC-TTCTTTCTCAACAAAGGCA
* *
14002752 TTGCAACTTTAAAAATT
1 TTGAAATTTTAAAAATT
14002769 AAAAAGGTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 8 0.13
51 1 0.02
52 51 0.85
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (51 bp):
TTGAAATTTTAAAAATTCACAACAAAAAAAGCTTCTTTCTCAACAAAGGCA
Found at i:14003937 original size:16 final size:15
Alignment explanation
Indices: 14003902--14003938 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
14003892 TTTCTCTTTT
*
14003902 TTTTTATTTTTTTCA
1 TTTTCATTTTTTTCA
14003917 TTTTCATTTTTTTCAA
1 TTTTCATTTTTTTC-A
14003933 TTTTCA
1 TTTTCA
14003939 AACAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCATTTTTTTCA
Found at i:14006767 original size:24 final size:24
Alignment explanation
Indices: 14006739--14006784 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
14006729 TTTGTTGTAC
14006739 TAGCTTACATTCAAGCTTCAAGGG
1 TAGCTTACATTCAAGCTTCAAGGG
*
14006763 TAGCTTACATTTAAGCTTCAAG
1 TAGCTTACATTCAAGCTTCAAG
14006785 TGCTTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (24 bp):
TAGCTTACATTCAAGCTTCAAGGG
Found at i:14007070 original size:27 final size:27
Alignment explanation
Indices: 14007040--14007102 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
14007030 AAGCTTTTTC
14007040 ATTATCAAATTCATCAATATGAATAGA
1 ATTATCAAATTCATCAATATGAATAGA
* *
14007067 ATTATCAAATTTATCAATGTGAATAGA
1 ATTATCAAATTCATCAATATGAATAGA
*
14007094 ATTTTCAAA
1 ATTATCAAA
14007103 ATCAAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (27 bp):
ATTATCAAATTCATCAATATGAATAGA
Found at i:14012075 original size:18 final size:19
Alignment explanation
Indices: 14012039--14012077 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14012029 AGGACATTTA
14012039 TGTTTTAATGTTTGGTTTTG
1 TGTTTTAA-GTTTGGTTTTG
*
14012059 TGTTTTAA-TTTGTTTTTG
1 TGTTTTAAGTTTGGTTTTG
14012077 T
1 T
14012078 AGGGATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (19 bp):
TGTTTTAAGTTTGGTTTTG
Found at i:14013830 original size:19 final size:18
Alignment explanation
Indices: 14013806--14013885 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
14013796 TGAAACCCCA
*
14013806 AAACCACCCTCCAAATCCT
1 AAACCACCTTCCAAA-CCT
14013825 AAACCA-CTTCTCAAACCAT
1 AAACCACCTTC-CAAACC-T
*
14013844 ACACCACCTTCCAAACCCT
1 AAACCACCTTCCAAA-CCT
* *
14013863 AAATCACCTT-TAAACCCT
1 AAACCACCTTCCAAA-CCT
14013881 AAACC
1 AAACC
14013886 CTAAAACCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 16 0.31
19 29 0.57
20 6 0.12
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (18 bp):
AAACCACCTTCCAAACCT
Found at i:14013904 original size:44 final size:43
Alignment explanation
Indices: 14013856--14013965 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
14013846 ACCACCTTCC
* * *
14013856 AAACCCTAAATCACCTTTAAACC-CTAAACCCTAAAACCTAACTT
1 AAACCCTAAATAACC-TT-AACCTCTAAACCCTAAAACCCAACCT
* *
14013900 AAACCCTAAGCTAACCTTAACCTCTAAACCCTAAAGCCCAACCT
1 AAACCCTAA-ATAACCTTAACCTCTAAACCCTAAAACCCAACCT
*
14013944 AAACCCTAAACTAACCCTAACC
1 AAACCCTAAA-TAACCTTAACC
14013966 CTTTAACCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 4 0.07
44 48 0.86
45 4 0.07
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (43 bp):
AAACCCTAAATAACCTTAACCTCTAAACCCTAAAACCCAACCT
Found at i:14013952 original size:26 final size:25
Alignment explanation
Indices: 14013873--14013954 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 25
14013863 AAATCACCTT
14013873 TAAACC-CTAAACCCTAA---AACC
1 TAAACCTCTAAACCCTAAGCCAACC
*
14013894 T-AA-CT-TAAACCCTAAGCTAACC
1 TAAACCTCTAAACCCTAAGCCAACC
*
14013916 TTAACCTCTAAACCCTAAAGCCCAACC
1 TAAACCTCTAAACCCT-AAG-CCAACC
14013943 TAAACC-CTAAAC
1 TAAACCTCTAAAC
14013955 TAACCCTAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
19 11 0.22
20 2 0.04
21 1 0.02
22 5 0.10
23 2 0.04
24 2 0.04
25 8 0.16
26 9 0.18
27 10 0.20
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.18
Consensus pattern (25 bp):
TAAACCTCTAAACCCTAAGCCAACC
Found at i:14014037 original size:19 final size:17
Alignment explanation
Indices: 14013991--14014040 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
14013981 AAAATCCTAA
14013991 CCAAGACCCTAACTAACT
1 CCAA-ACCCTAACTAACT
* *
14014009 CTAAATCCTAAGCTAAACT
1 CCAAACCCTAA-CT-AACT
14014028 CCAAACCCTAACT
1 CCAAACCCTAACT
14014041 TAGACCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.23
18 7 0.27
19 13 0.50
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.20
Consensus pattern (17 bp):
CCAAACCCTAACTAACT
Found at i:14015594 original size:17 final size:18
Alignment explanation
Indices: 14015572--14015605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14015562 TAACAAAGCC
14015572 AAAAAAC-AAAACAAATA
1 AAAAAACAAAAACAAATA
14015589 AAAAAACAAAAACAAAT
1 AAAAAACAAAAACAAAT
14015606 TTTTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (18 bp):
AAAAAACAAAAACAAATA
Found at i:14015880 original size:37 final size:37
Alignment explanation
Indices: 14015830--14015908 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
14015820 GGAAATAATA
* *
14015830 AGATAGCACATGCATTCCATTTCATGCACATATCAAT
1 AGATAACACATGCATTCCATCTCATGCACATATCAAT
*
14015867 AGATAACACATGCATTCCATCTCATGCACATATTAAT
1 AGATAACACATGCATTCCATCTCATGCACATATCAAT
14015904 AGATA
1 AGATA
14015909 GTATATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (37 bp):
AGATAACACATGCATTCCATCTCATGCACATATCAAT
Found at i:14015975 original size:72 final size:73
Alignment explanation
Indices: 14015851--14015985 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 73
14015841 GCATTCCATT
* * *
14015851 TCATGCACATATCAATAGATAACACATGCATTCCATCTCATGCACATATTAATAGATAGTATATA
1 TCATGCACATATCAATAGATAACACATGCAGTCCATCTCATACACATATTAATAGATAATATATA
14015916 TATTCTCC
66 TATTCTCC
* * * * * *
14015924 TCATGCACATCAT-AATAGA-CATACATGCAGTCTATCTCATACATATCTTAATGGATAATATA
1 TCATGCACAT-ATCAATAGATAACACATGCAGTCCATCTCATACACATATTAATAGATAATATA
14015986 AGCATTCCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
72 34 0.65
73 16 0.31
74 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (73 bp):
TCATGCACATATCAATAGATAACACATGCAGTCCATCTCATACACATATTAATAGATAATATATA
TATTCTCC
Found at i:14019487 original size:20 final size:20
Alignment explanation
Indices: 14019462--14019505 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
14019452 CAAAAAAAAA
*
14019462 AAAAAAAAAAGAACAAGAAG
1 AAAAAAAAAAGAAAAAGAAG
* *
14019482 AAAAAAGAAAGAAAAAGATG
1 AAAAAAAAAAGAAAAAGAAG
14019502 AAAA
1 AAAA
14019506 GAAATGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAGAAG
Found at i:14019972 original size:17 final size:18
Alignment explanation
Indices: 14019952--14019988 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14019942 AAATAAAAAT
*
14019952 AAAATGCTTTGTTTT-AA
1 AAAATGATTTGTTTTCAA
14019969 AAAATGATTTGTTTTCAA
1 AAAATGATTTGTTTTCAA
14019987 AA
1 AA
14019989 GAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
AAAATGATTTGTTTTCAA
Found at i:14023209 original size:62 final size:62
Alignment explanation
Indices: 14023143--14023297 Score: 177
Period size: 61 Copynumber: 2.5 Consensus size: 62
14023133 AACGGATGCA
* * * * * * *
14023143 ATCAAAGAGTAGGGTTTTAGGTGTAAGATTCTGTTACGACTCACATCGATAGAACGACAATG
1 ATCAAAGAGTAGGGTTTCAGGTGCAGGATTCTATTACGACTCACATCAACAGAACGACAACG
* * ** * *
14023205 ATCAAA-AGTATGATTTCAGGTGCAGGATTCTATTGTGACTCACATTAACAGAATGACAACG
1 ATCAAAGAGTAGGGTTTCAGGTGCAGGATTCTATTACGACTCACATCAACAGAACGACAACG
*
14023266 ATCAAAGAGTGGGGTTTCAGGTGCAGGATTCT
1 ATCAAAGAGTAGGGTTTCAGGTGCAGGATTCT
14023298 TGACTAGAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 48 0.63
62 28 0.37
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (62 bp):
ATCAAAGAGTAGGGTTTCAGGTGCAGGATTCTATTACGACTCACATCAACAGAACGACAACG
Found at i:14023819 original size:33 final size:33
Alignment explanation
Indices: 14023782--14023878 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 33
14023772 CGCTTTTAAA
14023782 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * ** *
14023815 AAAAATTTAAAAAAAT--ATTTTT-TTG---AG
1 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
*
14023842 GAAAAGTTGAAAGTATCAATTTTTCTT-AAAGAT
1 AAAAAGTTGAAAGTATCAATTTTTCTTGAAA-AT
14023875 AAAA
1 AAAA
14023879 TTTTCAAAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
27 12 0.27
29 6 0.13
30 5 0.11
31 6 0.13
33 16 0.36
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.36
Consensus pattern (33 bp):
AAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
Found at i:14023848 original size:60 final size:59
Alignment explanation
Indices: 14023783--14023982 Score: 262
Period size: 60 Copynumber: 3.4 Consensus size: 59
14023773 GCTTTTAAAA
14023783 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAAATATTTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTT-AAAAAATATTTTTTTGAGG
* *
14023843 AAAAGTTGAAAGTATCAATTTTTCTT-AAAGATAAAATTTTCAAAAGATATTTTTTT-AGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAA-ATAAAAATTT-AAAAAATATTTTTTTGAGG
* * ** * *
14023902 AAAAGTTGAGAGTATTAATTTTTCTTGAAAAT-AAAATTTTGAAAATGTGTTTTTTGAAG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAATAT-TTTTTTGAGG
14023961 AAAAGTTGAAAGTATCTAATTT
1 AAAAGTTGAAAGTATC-AATTT
14023983 CCTTGAATGA
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
57 5 0.04
58 12 0.10
59 48 0.39
60 57 0.47
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.40
Consensus pattern (59 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAATATTTTTTTGAGG
Found at i:14023908 original size:59 final size:59
Alignment explanation
Indices: 14023783--14023982 Score: 269
Period size: 59 Copynumber: 3.4 Consensus size: 59
14023773 GCTTTTAAAA
* *
14023783 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAAATATTTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAGATATTTTTTT-AGG
*
14023843 AAAAGTTGAAAGTATCAATTTTTCTT-AAAGATAAAATTTTCAAAAGATATTTTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAA-ATAAAATTTTAAAAAGATATTTTTTTAGG
* * * * * *
14023902 AAAAGTTGAGAGTATTAATTTTTCTTGAAAATAAAATTTTGAAAATG-TGTTTTTTGAAG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT-AAAAAGATATTTTTTTAGG
14023961 AAAAGTTGAAAGTATCTAATTT
1 AAAAGTTGAAAGTATC-AATTT
14023983 CCTTGAATGA
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
59 63 0.51
60 61 0.49
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.40
Consensus pattern (59 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAGATATTTTTTTAGG
Found at i:14025117 original size:62 final size:62
Alignment explanation
Indices: 14025044--14025199 Score: 222
Period size: 62 Copynumber: 2.5 Consensus size: 62
14025034 AATAGGGATT
* *
14025044 ATCAAAGAGTAGGGTTTTAAGTGTAGGATTCTGTTGCAACTCACATCAACAGAACAACAATG
1 ATCAAAGAGTAGGGTTTCAAGTGTAGGATTCTGTTGCAACTCACATCAACAGAACAACAACG
* ** * **
14025106 ATCAAAGAGTAGGGTTTCATGTGTAGGATTCTGTTGTGACTCACATCAGCAGAATGACAACG
1 ATCAAAGAGTAGGGTTTCAAGTGTAGGATTCTGTTGCAACTCACATCAACAGAACAACAACG
* *
14025168 ATCAAAGAGTGGGGTTTCAAATGTAGGATTCT
1 ATCAAAGAGTAGGGTTTCAAGTGTAGGATTCT
14025200 TGACTAGAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 83 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (62 bp):
ATCAAAGAGTAGGGTTTCAAGTGTAGGATTCTGTTGCAACTCACATCAACAGAACAACAACG
Found at i:14025754 original size:60 final size:58
Alignment explanation
Indices: 14025690--14025896 Score: 238
Period size: 58 Copynumber: 3.5 Consensus size: 58
14025680 CATTTTTAAT
*
14025690 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATGAAAATTTCAAAAAATGTTTCTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTTCAAAAAATATTT-TTTGAG
* * * *
14025750 GAAAAATTAAAAGTATCAA-TTTTCTTTGAAGATAAAATTTTCAAAAGATATTTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAA-TTTCAAAAAATATTTTTTGAG
* * * ** *
14025809 AAAAAGTTTAGAGTATCAATTTTT-TTTTAAATAAAAATTTCAAAAAATATTTTTTTAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTTCAAAAAATATTTTTTGAG
* *
14025867 GAAAAGTTGAAGGTATCAATTTTCCTTGAA
1 GAAAAGTTGAAAGTATCAATTTTTCTTGAA
14025897 TAAATGCATT
Statistics
Matches: 121, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
58 43 0.36
59 37 0.31
60 41 0.34
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (58 bp):
GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCAAAAAATATTTTTTGAG
Found at i:14032102 original size:19 final size:19
Alignment explanation
Indices: 14032078--14032153 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 19
14032068 TACTGCTGGT
14032078 AAATATATATAATAATTAAA
1 AAATATATATAATAATT-AA
14032098 AATATAATATGATAATATATTATA
1 AA-AT-ATAT-ATAATA-ATTA-A
*
14032122 AAAT-TGATATAAAAATATAA
1 AAATAT-ATATAATAAT-TAA
14032142 AAATA-ATATAAT
1 AAATATATATAAT
14032154 TTAAAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
19 6 0.13
20 9 0.20
21 10 0.22
22 6 0.13
23 9 0.20
24 6 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAATATATATAATAATTAA
Found at i:14032131 original size:24 final size:23
Alignment explanation
Indices: 14032082--14032146 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
14032072 GCTGGTAAAT
14032082 ATATATAATA-ATTAAAAATATA
1 ATATATAATATATTAAAAATATA
*
14032104 ATATGATAATATATTATAAAAT-TG
1 ATAT-ATAATATATTA-AAAATATA
*
14032128 ATATA-AAAATA-TAAAAATA
1 ATATATAATATATTAAAAATA
14032147 ATATAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 5 0.14
21 2 0.05
22 9 0.24
23 7 0.19
24 9 0.24
25 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
ATATATAATATATTAAAAATATA
Found at i:14032159 original size:35 final size:36
Alignment explanation
Indices: 14032089--14032179 Score: 98
Period size: 35 Copynumber: 2.5 Consensus size: 36
14032079 AATATATATA
*
14032089 ATAATTAAAAATATAATATGATAATATATTATAAAATT
1 ATAA-TAAAAATATAA-ATAATAATATATTATAAAATT
14032127 GAT-ATAAAAATATAAA-AATAATATAATT-TAAAATT
1 -ATAATAAAAATATAAATAATAATAT-ATTATAAAATT
*
14032162 TTAATAAAAATTATAAAT
1 ATAATAAAAA-TATAAAT
14032180 GAATTTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
34 1 0.02
35 21 0.46
36 10 0.22
37 11 0.24
38 1 0.02
39 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (36 bp):
ATAATAAAAATATAAATAATAATATATTATAAAATT
Found at i:14032264 original size:18 final size:18
Alignment explanation
Indices: 14032225--14032264 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14032215 TGATACGAAT
***
14032225 TATAAAATATAATATTTT
1 TATAAAATATAATATAAA
14032243 TATAAAATATAATATAAA
1 TATAAAATATAATATAAA
14032261 TATA
1 TATA
14032265 TGCATCGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAAATATAATATAAA
Found at i:14033159 original size:47 final size:45
Alignment explanation
Indices: 14033081--14033177 Score: 151
Period size: 48 Copynumber: 2.1 Consensus size: 45
14033071 TGCTCTTTCA
14033081 AATTTTTTCTGGTTTAGTATTTTCTTAGATTTGATTATTTGGATCTT
1 AATTTTTTCTGGTTTAGTATTTTCTTAGATTTGA-TATTTGGAT-TT
*
14033128 CAATTTTTTTTGGTTTAGTATTTT-TTAGATTTGATATTTGGATTT
1 -AATTTTTTCTGGTTTAGTATTTTCTTAGATTTGATATTTGGATTT
14033173 AATTT
1 AATTT
14033178 GCTAAGTATC
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
44 5 0.10
45 2 0.04
46 9 0.19
47 10 0.21
48 22 0.46
ACGTcount: A:0.21, C:0.04, G:0.14, T:0.61
Consensus pattern (45 bp):
AATTTTTTCTGGTTTAGTATTTTCTTAGATTTGATATTTGGATTT
Found at i:14033346 original size:7 final size:7
Alignment explanation
Indices: 14033334--14033360 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14033324 CGAGTTTATA
14033334 TTAAATT
1 TTAAATT
14033341 TTAAATT
1 TTAAATT
14033348 TTAAATT
1 TTAAATT
14033355 TTAAAT
1 TTAAAT
14033361 CGAGTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:14038149 original size:6 final size:6
Alignment explanation
Indices: 14038124--14038193 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
14038114 AGCCTGAAAT
* * **
14038124 TTTTAA -TTTGA TTTTAA TTTTGA TTTTGC TTTTAA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
* *
14038171 -TTTAGA TTTTAT TTTTAG TTTTA
1 TTTTA-A TTTTAA TTTTAA TTTTA
14038194 GTTTGTACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
5 8 0.15
6 41 0.77
7 4 0.08
ACGTcount: A:0.24, C:0.01, G:0.07, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:14038180 original size:24 final size:24
Alignment explanation
Indices: 14038134--14038193 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
14038124 TTTTAATTTG
* * *
14038134 ATTTTAATTTTGATTTTGCTTTTA
1 ATTTTAATTTTAATTTAGATTTTA
14038158 ATTTTAATTTTAATTTAGATTTTA
1 ATTTTAATTTTAATTTAGATTTTA
* *
14038182 TTTTTAGTTTTA
1 ATTTTAATTTTA
14038194 GTTTGTACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.67
Consensus pattern (24 bp):
ATTTTAATTTTAATTTAGATTTTA
Found at i:14038391 original size:19 final size:19
Alignment explanation
Indices: 14038367--14038403 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14038357 AAATGAAATT
14038367 TTGGAAATCGTGGAGATTC
1 TTGGAAATCGTGGAGATTC
*
14038386 TTGGAAATCTTGGAGATT
1 TTGGAAATCGTGGAGATT
14038404 TGGTGAGAAC
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:0.27, C:0.08, G:0.30, T:0.35
Consensus pattern (19 bp):
TTGGAAATCGTGGAGATTC
Found at i:14038912 original size:26 final size:25
Alignment explanation
Indices: 14038883--14038985 Score: 77
Period size: 26 Copynumber: 4.0 Consensus size: 25
14038873 TATTTGTGTG
14038883 ATTGCATGA-TTATTATTATATATTTA
1 ATTGCATGATTTA-TATTAT-TATTTA
14038909 ATTGCATGATTTATATTATTATTTGCA
1 ATTGCATGATTTATATTATTATTT--A
** * *
14038936 TTATTATAT-ATTTA-ATTGTATGTTTA
1 --ATTGCATGATTTATATTAT-TATTTA
*
14038962 TTTGCATGATTTATATTATTATTT
1 ATTGCATGATTTATATTATTATTT
14038986 GCATAATTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
24 4 0.07
25 14 0.23
26 20 0.33
27 8 0.13
28 9 0.15
29 5 0.08
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
ATTGCATGATTTATATTATTATTTA
Found at i:14038924 original size:21 final size:21
Alignment explanation
Indices: 14038898--14038962 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
14038888 ATGATTATTA
14038898 TTATATATTTAATTGCATGAT
1 TTATATATTTAATTGCATGAT
* *
14038919 TTATAT-TATTATTTGCATTA-
1 TTATATAT-TTAATTGCATGAT
*
14038939 TTATATATTTAATTGTATG-T
1 TTATATATTTAATTGCATGAT
14038959 TTAT
1 TTAT
14038963 TTGCATGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (21 bp):
TTATATATTTAATTGCATGAT
Found at i:14038969 original size:53 final size:53
Alignment explanation
Indices: 14038905--14039006 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
14038895 TTATTATATA
*
14038905 TTTAATTGCATGATTTATATTATTATTTGCATTATTATATATTTAATTGTATG
1 TTTAATTGCATGATTTATATTATTATTTGCATAATTATATATTTAATTGTATG
*
14038958 TTTATTTGCATGATTTATATTATTATTTGCATAATTATATATTTAATTG
1 TTTAATTGCATGATTTATATTATTATTTGCATAATTATATATTTAATTG
14039007 CATAATTTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (53 bp):
TTTAATTGCATGATTTATATTATTATTTGCATAATTATATATTTAATTGTATG
Found at i:14038980 original size:41 final size:41
Alignment explanation
Indices: 14038893--14038983 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
14038883 ATTGCATGAT
* *
14038893 TATTATTATATATTTAATTGCATGATTTATATTATTATTTG
1 TATTATTATATATTTAATTGCATGATTTATATTATGATTTA
* *
14038934 CATTATTATATATTTAATTGTATG-TTTAT-TTGCATGATTTA
1 TATTATTATATATTTAATTGCATGATTTATATT--ATGATTTA
14038975 TATTATTAT
1 TATTATTAT
14038984 TTGCATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 2 0.05
40 5 0.12
41 36 0.84
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (41 bp):
TATTATTATATATTTAATTGCATGATTTATATTATGATTTA
Found at i:14038984 original size:21 final size:22
Alignment explanation
Indices: 14038959--14039013 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
14038949 AATTGTATGT
*
14038959 TTATTTGCATGATT-TATATTA
1 TTATTTGCATAATTATATATTA
14038980 TTATTTGCATAATTATATA-T-
1 TTATTTGCATAATTATATATTA
*
14039000 TTAATTGCATAATT
1 TTATTTGCATAATT
14039014 TACATTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 13 0.42
21 14 0.45
22 4 0.13
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TTATTTGCATAATTATATATTA
Found at i:14038997 original size:20 final size:20
Alignment explanation
Indices: 14038948--14039013 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
14038938 ATTATATATT
* *
14038948 TAATTGTATGTTTATTTGCA
1 TAATTATATATTTATTTGCA
*
14038968 TGATT-TATATTATTATTTGCA
1 TAATTATATA-T-TTATTTGCA
*
14038989 TAATTATATATTTAATTGCA
1 TAATTATATATTTATTTGCA
14039009 TAATT
1 TAATT
14039014 TACATTGCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 3 0.08
20 18 0.46
21 14 0.36
22 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
TAATTATATATTTATTTGCA
Found at i:14039036 original size:53 final size:53
Alignment explanation
Indices: 14038902--14039036 Score: 148
Period size: 53 Copynumber: 2.5 Consensus size: 53
14038892 TTATTATTAT
* * * * *
14038902 ATATTTAATTGCATGATTTATATTATTATTTGCATTATTATATATTTAATTGT
1 ATATTTAATTGCATGAATTACATGATTATTTGCATAATTATATATTTAATTGC
* * * * *
14038955 ATGTTTATTTGCATGATTTATATTATTATTTGCATAATTATATATTTAATTGC
1 ATATTTAATTGCATGAATTACATGATTATTTGCATAATTATATATTTAATTGC
14039008 ATAATTTACATTGC-T-AATTACATGATTAT
1 AT-ATTTA-ATTGCATGAATTACATGATTAT
14039037 ATATTTAATT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
53 62 0.87
54 5 0.07
55 4 0.06
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (53 bp):
ATATTTAATTGCATGAATTACATGATTATTTGCATAATTATATATTTAATTGC
Found at i:14039180 original size:24 final size:23
Alignment explanation
Indices: 14039153--14039208 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
14039143 TTGCACGATT
*
14039153 TTATATTTATTACATGATATGATA
1 TTATATTTATTACATGAT-TAATA
*
14039177 TTATATGTTATTGCATGATTAATA
1 TTATAT-TTATTACATGATTAATA
14039201 TTATATTT
1 TTATATTT
14039209 GAATGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 16 0.55
25 11 0.38
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (23 bp):
TTATATTTATTACATGATTAATA
Found at i:14039346 original size:19 final size:18
Alignment explanation
Indices: 14039322--14039395 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
14039312 TATATTTCCA
14039322 TGAATGGTTATTATATATT
1 TGAATGG-TATTATATATT
*
14039341 TGAATGGTATTTTATATTAT
1 TGAATGGTATTATATA-T-T
* *
14039361 TGCAT-G-ATAATATATT
1 TGAATGGTATTATATATT
* *
14039377 TGCATGATATTATATATT
1 TGAATGGTATTATATATT
14039395 T
1 T
14039396 ACATGATTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.13
17 1 0.02
18 24 0.53
19 9 0.20
20 5 0.11
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (18 bp):
TGAATGGTATTATATATT
Found at i:14039374 original size:18 final size:17
Alignment explanation
Indices: 14039353--14039394 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
14039343 AATGGTATTT
14039353 TATATTATTGCATGATAA
1 TATA-TATTGCATGATAA
*
14039371 TATAT-TTGCATGATAT
1 TATATATTGCATGATAA
14039387 TATATATT
1 TATATATT
14039395 TACATGATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 15 0.68
17 3 0.14
18 4 0.18
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (17 bp):
TATATATTGCATGATAA
Found at i:14039438 original size:20 final size:18
Alignment explanation
Indices: 14039330--14039438 Score: 91
Period size: 18 Copynumber: 6.0 Consensus size: 18
14039320 CATGAATGGT
* *
14039330 TATTATATATTTGAATGG
1 TATTATATATTTGCATGA
*
14039348 TATTTTATATTATTGCATGA
1 TATTATATA-T-TTGCATGA
14039368 TA--ATATATTTGCATGA
1 TATTATATATTTGCATGA
*
14039384 TATTATATATTTACATGA
1 TATTATATATTTGCATGA
* *
14039402 TTGTTAT-TA-TTGTATGA
1 -TATTATATATTTGCATGA
14039419 TAATTGATATATTTGCATGA
1 T-ATT-ATATATTTGCATGA
14039439 CATTTTGCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
16 11 0.15
17 9 0.12
18 29 0.40
19 8 0.11
20 15 0.21
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:14044036 original size:10 final size:10
Alignment explanation
Indices: 14044021--14044050 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
14044011 ATGGAATAGT
14044021 AAAAAAAAAG
1 AAAAAAAAAG
14044031 AAAAAAAAAG
1 AAAAAAAAAG
14044041 AAAAGAAAAA
1 AAAA-AAAAA
14044051 AAAGATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:14044055 original size:14 final size:15
Alignment explanation
Indices: 14044021--14044053 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14044011 ATGGAATAGT
14044021 AAAAA-AAAAGAAAA
1 AAAAAGAAAAGAAAA
14044035 AAAAAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
14044050 AAAA
1 AAAA
14044054 GATTAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:14045290 original size:22 final size:21
Alignment explanation
Indices: 14045265--14045338 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
14045255 CATAATCTTC
14045265 AAGACCTTTGGGCAAGATTTAT
1 AAGACCTTTGGGCAAGATTT-T
* *
14045287 AAGAGCTCTGGGCATA-ATTTT
1 AAGACCTTTGGGCA-AGATTTT
* *
14045308 CAAGACCTTTGGACATGATTTGT
1 -AAGACCTTTGGGCAAGATTT-T
14045331 AAGACCTT
1 AAGACCTT
14045339 CAAGCATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.02
22 39 0.93
23 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (21 bp):
AAGACCTTTGGGCAAGATTTT
Found at i:14045337 original size:88 final size:87
Alignment explanation
Indices: 14045147--14045355 Score: 210
Period size: 88 Copynumber: 2.4 Consensus size: 87
14045137 AAGATAAGAA
** * * * *
14045147 ATGATTTGTAAGACCTCTGAGCGTAATCTTCAAGACTTTTGGGTAAATTTGTAAGACTTCCAAGC
1 ATGATTTGTAAGACCTCCAAGCATAATCTTCAAGACCTTTGGGCAAATTTATAAGACTTCCAAGC
*
14045212 ATGATTTGTAAGACCTTTAGGC
66 ATAATTTGTAAGACCTTTAGGC
* * * ** ***
14045234 CTAATCTCAAAGACCTCCAAGCATAATCTTCAAGACCTTTGGGCAAGATTTATAAGAGC-TCTGG
1 ATGATTTGTAAGACCTCCAAGCATAATCTTCAAGACCTTTGGGCAA-ATTTATAAGA-CTTCCAA
14045298 GCATAATTT-TCAAGACCTTT-GGAC
64 GCATAATTTGT-AAGACCTTTAGG-C
*
14045322 ATGATTTGTAAGACCTTCAAGCATAATC-TCAAGA
1 ATGATTTGTAAGACCTCCAAGCATAATCTTCAAGA
14045356 AAACTAAAGT
Statistics
Matches: 97, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
87 45 0.46
88 51 0.53
89 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (87 bp):
ATGATTTGTAAGACCTCCAAGCATAATCTTCAAGACCTTTGGGCAAATTTATAAGACTTCCAAGC
ATAATTTGTAAGACCTTTAGGC
Found at i:14045346 original size:44 final size:44
Alignment explanation
Indices: 14045147--14045355 Score: 151
Period size: 44 Copynumber: 4.8 Consensus size: 44
14045137 AAGATAAGAA
* * * *
14045147 ATGATTTGTAAGACC-TCTGAGCGTAATCTTCAAGACTTTTGGGT
1 ATGATTTGTAAGACCTTC-AAGCATAATCTTCAAGACCTTTGGGC
* * * *
14045191 A-AATTTGTAAGA-CTTCCAAGCATGAT-TTGTAAGACCTTTAGGC
1 ATGATTTGTAAGACCTT-CAAGCATAATCTT-CAAGACCTTTGGGC
* * * ** *
14045234 CTAATCTCAAAGACCTCCAAGCATAATCTTCAAGACCTTTGGGC
1 ATGATTTGTAAGACCTTCAAGCATAATCTTCAAGACCTTTGGGC
* * * ** * *
14045278 AAGATTTATAAGAGC-TCTGGGCATAATTTTCAAGACCTTTGGAC
1 ATGATTTGTAAGACCTTC-AAGCATAATCTTCAAGACCTTTGGGC
14045322 ATGATTTGTAAGACCTTCAAGCATAATC-TCAAGA
1 ATGATTTGTAAGACCTTCAAGCATAATCTTCAAGA
14045356 AAACTAAAGT
Statistics
Matches: 123, Mismatches: 34, Indels: 17
0.71 0.20 0.10
Matches are distributed among these distances:
42 3 0.02
43 34 0.28
44 80 0.65
45 6 0.05
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
ATGATTTGTAAGACCTTCAAGCATAATCTTCAAGACCTTTGGGC
Found at i:14045791 original size:37 final size:37
Alignment explanation
Indices: 14045741--14045814 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
14045731 GATTTGATTG
*
14045741 TTTAAAGTTTCAAGCCTTAGTTATGGGGGAGCTTTTA
1 TTTAAAGTTTCAAGCCTTAATTATGGGGGAGCTTTTA
*
14045778 TTTAAAGTTTCAAGCCTTAATTATGGGGGAGTTTTTA
1 TTTAAAGTTTCAAGCCTTAATTATGGGGGAGCTTTTA
14045815 GGATTTTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (37 bp):
TTTAAAGTTTCAAGCCTTAATTATGGGGGAGCTTTTA
Found at i:14046069 original size:12 final size:12
Alignment explanation
Indices: 14046034--14046085 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
14046024 TTTTAATCTG
*
14046034 ATTTTAATTTTG
1 ATTTTAATTTTC
* *
14046046 ATTTCACTTTTC
1 ATTTTAATTTTC
14046058 ATTTTAATTTTC
1 ATTTTAATTTTC
* *
14046070 AATTCAATTTT-
1 ATTTTAATTTTC
14046081 ATTTT
1 ATTTT
14046086 TAGTTTTAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
11 3 0.10
12 28 0.90
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTTAATTTTC
Found at i:14046087 original size:24 final size:24
Alignment explanation
Indices: 14046034--14046085 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
14046024 TTTTAATCTG
* * *
14046034 ATTTTAATTTTGATTTCACTTTTC
1 ATTTTAATTTTCAATTCAATTTTC
14046058 ATTTTAATTTTCAATTCAATTTT-
1 ATTTTAATTTTCAATTCAATTTTC
14046081 ATTTT
1 ATTTT
14046086 TAGTTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTTTAATTTTCAATTCAATTTTC
Found at i:14046722 original size:20 final size:20
Alignment explanation
Indices: 14046699--14046777 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
14046689 TGCATGAATT
* * *
14046699 TGCATGACTATTAATTTGTT
1 TGCATGATTATTAATTTATC
*
14046719 TGCATGATTGTTAATTTATC
1 TGCATGATTATTAATTTATC
*
14046739 TGCATGATTGTTAATTTATC
1 TGCATGATTATTAATTTATC
*
14046759 TGCATGATTATCAATTTAT
1 TGCATGATTATTAATTTAT
14046778 TTATTTGTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (20 bp):
TGCATGATTATTAATTTATC
Found at i:14046849 original size:21 final size:20
Alignment explanation
Indices: 14046828--14046906 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
14046818 GCATGTTTAT
*
14046828 TTGCATGATTTATATTATTAT
1 TTGCAT-ATTTATATTATTAA
*
14046849 TTGCATAATTATA-TAGTTAA
1 TTGCATATTTATATTA-TTAA
* *
14046869 TCGCATATTTTACATTATTAA
1 TTGCATA-TTTATATTATTAA
14046890 TTGCATGATTATATATT
1 TTGCAT-ATT-TATATT
14046907 TAATTGAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 21 0.46
22 8 0.17
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.51
Consensus pattern (20 bp):
TTGCATATTTATATTATTAA
Found at i:14047058 original size:25 final size:23
Alignment explanation
Indices: 14047013--14047073 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 23
14047003 TATTATTGCA
*
14047013 TGATTTTATATTTATTGCATGAT
1 TGATATTATATTTATTGCATGAT
14047036 GTGATATTATATATTATTGCATGAT
1 -TGATATTATAT-TTATTGCATGAT
*
14047061 TAATATTATATTT
1 TGATATTATATTT
14047074 GAATGATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 12 0.35
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (23 bp):
TGATATTATATTTATTGCATGAT
Found at i:14047066 original size:24 final size:23
Alignment explanation
Indices: 14046994--14047071 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
14046984 GGTTATATAT
*
14046994 TTATATGAT-TATTATTGCATGA
1 TTATATTATATATTATTGCATGA
14047016 -T-T-TTATAT-TTATTGCATGA
1 TTATATTATATATTATTGCATGA
14047035 TGTGATATTATATATTATTGCATGA
1 T-T-ATATTATATATTATTGCATGA
14047060 TTAATATTATAT
1 TT-ATATTATAT
14047072 TTGAATGATA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.30
20 2 0.04
21 2 0.04
23 1 0.02
24 16 0.34
25 12 0.26
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.53
Consensus pattern (23 bp):
TTATATTATATATTATTGCATGA
Found at i:14047070 original size:22 final size:21
Alignment explanation
Indices: 14046994--14047072 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 21
14046984 GGTTATATAT
*
14046994 TTATATGATTATTATTGCATGA
1 TTATATTA-TATTATTGCATGA
*
14047016 TTTTA-TAT-TTATTGCATGA
1 TTATATTATATTATTGCATGA
14047035 TGTGATATTATATATTATTGCATGA
1 T-T-ATA-T-TATATTATTGCATGA
14047060 TTAATATTATATT
1 TT-ATATTATATT
14047073 TGAATGATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
19 12 0.26
20 2 0.04
21 3 0.06
22 10 0.21
23 1 0.02
24 7 0.15
25 12 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TTATATTATATTATTGCATGA
Found at i:14047209 original size:36 final size:36
Alignment explanation
Indices: 14047140--14047224 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
14047130 ACATAATTAC
* *
14047140 TAATATATTTG--TGCTATTATATTTGATTTCATGA
1 TAATATATTTGCATGCTATTATATATGATTGCATGA
* * *
14047174 TTATATATTTGCATGGTATTTTATATGATTGCATGA
1 TAATATATTTGCATGCTATTATATATGATTGCATGA
*
14047210 TAATATGTTTGCATG
1 TAATATATTTGCATG
14047225 ATTGTTATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 10 0.24
36 32 0.76
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (36 bp):
TAATATATTTGCATGCTATTATATATGATTGCATGA
Found at i:14047221 original size:16 final size:16
Alignment explanation
Indices: 14047196--14047226 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14047186 ATGGTATTTT
14047196 ATATGATTGCATGATA
1 ATATGATTGCATGATA
*
14047212 ATATGTTTGCATGAT
1 ATATGATTGCATGAT
14047227 TGTTATTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (16 bp):
ATATGATTGCATGATA
Found at i:14047615 original size:21 final size:21
Alignment explanation
Indices: 14047582--14047621 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14047572 ACCAGCACTC
*
14047582 AGGCCCGAACACCAGGGACCA
1 AGGCCCGAACACCAAGGACCA
* *
14047603 AGGCTCGAGCACCAAGGAC
1 AGGCCCGAACACCAAGGAC
14047622 AATTGTTGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.35, G:0.30, T:0.03
Consensus pattern (21 bp):
AGGCCCGAACACCAAGGACCA
Found at i:14061584 original size:16 final size:17
Alignment explanation
Indices: 14061552--14061586 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14061542 ATTTTAATTT
14061552 ATTATTATATTTATAAA
1 ATTATTATATTTATAAA
*
14061569 ATTATTA-ATTTTTAAA
1 ATTATTATATTTATAAA
14061585 AT
1 AT
14061587 AAATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATTATATTTATAAA
Found at i:14068505 original size:19 final size:18
Alignment explanation
Indices: 14068481--14068529 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
14068471 AAGGAGATGT
14068481 GAAAAAAAAAAAAACAAAA
1 GAAAAAAAAAAAAA-AAAA
**
14068500 GAAAAAAAGAAAAAAAAGT
1 GAAAAAAA-AAAAAAAAAA
14068519 GAAAAAAAAAA
1 GAAAAAAAAAA
14068530 TACTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 3 0.11
19 18 0.67
20 6 0.22
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (18 bp):
GAAAAAAAAAAAAAAAAA
Found at i:14068506 original size:17 final size:17
Alignment explanation
Indices: 14068483--14068529 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
14068473 GGAGATGTGA
*
14068483 AAAAAAAAAAAACAAAAG
1 AAAAAAAAAAAA-AAAGG
14068501 AAAAAAAGAAAAAAAAGTG
1 AAAAAAA-AAAAAAAAG-G
14068520 AAAAAAAAAA
1 AAAAAAAAAA
14068530 TACTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGG
Found at i:14069731 original size:46 final size:45
Alignment explanation
Indices: 14069656--14069888 Score: 206
Period size: 45 Copynumber: 5.2 Consensus size: 45
14069646 TTAAAATTTT
* * *
14069656 AATCTTTAAAATTTTGGATGTAAAACCATAAAATTTTTTGAATGAG
1 AATCTTTAAAATTTTGGATGTGAATCC-TAAAATTTTTTAAATGAG
* * * *
14069702 AATCTTTAAAATTTTGGATGTGAAGCCATAAAGTTTTTGAAA-AAG
1 AATCTTTAAAATTTTGGATGTGAATCC-TAAAATTTTTTAAATGAG
* * ** *
14069747 AA-CATTTGAAACTTTGGATGTGAATCTCTAAAACCTTTTAAATGTG
1 AATC-TTTAAAATTTTGGATGTGAATC-CTAAAATTTTTTAAATGAG
** * * *
14069793 AATCTTTAAAATTTTTTATGTGAATCCTTAAATTTTTCAAATGAA
1 AATCTTTAAAATTTTGGATGTGAATCCTAAAATTTTTTAAATGAG
* *
14069838 AATGTTTAACATTTTGGCA--TGAATCTCTAAAATTTTTT-AATGAG
1 AATCTTTAAAATTTTGG-ATGTGAATC-CTAAAATTTTTTAAATGAG
14069882 AATCTTT
1 AATCTTT
14069889 GAATTTTAGA
Statistics
Matches: 148, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
44 18 0.12
45 69 0.47
46 60 0.41
47 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (45 bp):
AATCTTTAAAATTTTGGATGTGAATCCTAAAATTTTTTAAATGAG
Found at i:14069733 original size:22 final size:22
Alignment explanation
Indices: 14069662--14069738 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
14069652 TTTTAATCTT
*
14069662 TAAAATTTTGGATGTAAAACCA
1 TAAAATTTTGGATGTGAAACCA
* * * **
14069684 TAAAATTTTTTGAATGAGAATCTT
1 TAAAA--TTTTGGATGTGAAACCA
*
14069708 TAAAATTTTGGATGTGAAGCCA
1 TAAAATTTTGGATGTGAAACCA
*
14069730 TAAAGTTTT
1 TAAAATTTT
14069739 TGAAAAAGAA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
22 25 0.61
24 16 0.39
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (22 bp):
TAAAATTTTGGATGTGAAACCA
Found at i:14069780 original size:22 final size:22
Alignment explanation
Indices: 14069755--14069818 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 22
14069745 AGAACATTTG
**
14069755 AAACTTTGGATGTGAATCTCTA
1 AAACTTTAAATGTGAATCTCTA
*
14069777 AAACCTTTTAAATGTGAATCTTTA
1 AAA-C-TTTAAATGTGAATCTCTA
* **
14069801 AAATTTTTTATGTGAATC
1 AAACTTTAAATGTGAATC
14069819 CTTAAATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 15 0.44
23 1 0.03
24 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (22 bp):
AAACTTTAAATGTGAATCTCTA
Found at i:14069827 original size:21 final size:22
Alignment explanation
Indices: 14069788--14069829 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14069778 AACCTTTTAA
*
14069788 ATGTGAATCTTTAAAATTTTTT
1 ATGTGAATCCTTAAAATTTTTT
14069810 ATGTGAATCCTT-AAATTTTT
1 ATGTGAATCCTTAAAATTTTT
14069830 CAAATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (22 bp):
ATGTGAATCCTTAAAATTTTTT
Found at i:14069854 original size:91 final size:90
Alignment explanation
Indices: 14069664--14069888 Score: 226
Period size: 91 Copynumber: 2.5 Consensus size: 90
14069654 TTAATCTTTA
* * *
14069664 AAATTTTGGATGTAAAAC-CATAAAATTTTTTGAATGAGAATCTTTAAAATTTTGGATGTGAAGC
1 AAATTTTGGATGTGAATCTC-TAAAA-TTTTTAAATGAGAATCTTTAAAATTTTGGATGTGAAGC
* *
14069728 CATAAAGTTTTTGAAAAAGAACATTTG
64 CATAAAGTTTTTGAAAAAGAAAATTTT
* * * ** *
14069755 AAACTTTGGATGTGAATCTCTAAAACCTTTTAAATGTGAATCTTTAAAATTTTTTATGTGAATCC
1 AAATTTTGGATGTGAATCTCTAAAA-TTTTTAAATGAGAATCTTTAAAATTTTGGATGTGAAGCC
* * *
14069820 TTAAA-TTTTT-CAAATGAAAATGTTT
65 ATAAAGTTTTTGAAAAAGAAAAT-TTT
*
14069845 AACATTTTGGCA--TGAATCTCTAAAATTTTTTAATGAGAATCTTT
1 AA-ATTTTGG-ATGTGAATCTCTAAAATTTTTAAATGAGAATCTTT
14069889 GAATTTTAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
89 24 0.22
90 22 0.20
91 63 0.57
92 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (90 bp):
AAATTTTGGATGTGAATCTCTAAAATTTTTAAATGAGAATCTTTAAAATTTTGGATGTGAAGCCA
TAAAGTTTTTGAAAAAGAAAATTTT
Found at i:14069884 original size:23 final size:23
Alignment explanation
Indices: 14069768--14069886 Score: 66
Period size: 21 Copynumber: 5.3 Consensus size: 23
14069758 CTTTGGATGT
* *
14069768 GAATCTCTAAAACCTTTTAAATGT
1 GAATCTCTAAAA-TTTTTAAATGA
* * *
14069792 GAATCTTTAAAATTTTT-TATGT
1 GAATCTCTAAAATTTTTAAATGA
*
14069814 GAATC-CTTAAATTTTTCAAATGA
1 GAATCTCTAAAATTTTT-AAATGA
* * * * ***
14069837 AAATGTTTAACATTTTGGCAT--
1 GAATCTCTAAAATTTTTAAATGA
*
14069858 GAATCTCTAAAATTTTTTAATGA
1 GAATCTCTAAAATTTTTAAATGA
14069881 GAATCT
1 GAATCT
14069887 TTGAATTTTA
Statistics
Matches: 68, Mismatches: 22, Indels: 11
0.67 0.22 0.11
Matches are distributed among these distances:
21 23 0.34
22 9 0.13
23 18 0.26
24 18 0.26
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (23 bp):
GAATCTCTAAAATTTTTAAATGA
Found at i:14070116 original size:17 final size:16
Alignment explanation
Indices: 14070095--14070156 Score: 72
Period size: 17 Copynumber: 3.7 Consensus size: 16
14070085 TGAATATTCC
14070095 ATTTTTGTGAAACTAA
1 ATTTTTGTGAAACTAA
*
14070111 AGTTTTTGTGAACCTAA
1 A-TTTTTGTGAAACTAA
14070128 ATTTTT-TGCAAATCTAAA
1 ATTTTTGTG-AAA-CT-AA
14070146 ATTTTTGTGAA
1 ATTTTTGTGAA
14070157 CCTGAAGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.05
16 8 0.21
17 17 0.44
18 10 0.26
19 2 0.05
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (16 bp):
ATTTTTGTGAAACTAA
Found at i:14070171 original size:34 final size:34
Alignment explanation
Indices: 14070107--14070173 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
14070097 TTTTGTGAAA
* * *
14070107 CTAAAGTTTTTGTGAACCTAAATTTTTTGCAAAT
1 CTAAAATTTTTGTGAACCTAAAGTTCTTGCAAAT
*
14070141 CTAAAATTTTTGTGAACCTGAAGTTCTTGCAAA
1 CTAAAATTTTTGTGAACCTAAAGTTCTTGCAAA
14070174 CCTGAAGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (34 bp):
CTAAAATTTTTGTGAACCTAAAGTTCTTGCAAAT
Found at i:14070176 original size:51 final size:51
Alignment explanation
Indices: 14070095--14070266 Score: 139
Period size: 51 Copynumber: 3.4 Consensus size: 51
14070085 TGAATATTCC
* * * ** * * *
14070095 ATTTTTGTGAAACTAAAGTTTTTGTGAACCTAAATTTTTTGCAAATCTAAA
1 ATTTTTGTGAACCTGAAGTTCTTGCAAACCTAAAGTTCTTGCAAACCTAAA
* *
14070146 ATTTTTGTGAACCTGAAGTTCTTGCAAACCTGAAGTTCTTGCAAACCTGAA
1 ATTTTTGTGAACCTGAAGTTCTTGCAAACCTAAAGTTCTTGCAAACCTAAA
* * * * * * *
14070197 ATTATTGAGAACCTGGAA-CTCTTGCAAATCTAAAATTCTTGCGAACTTAAA
1 ATTTTTGTGAACCT-GAAGTTCTTGCAAACCTAAAGTTCTTGCAAACCTAAA
* * * *
14070248 GTTCTTATGAATCTGAAGT
1 ATTTTTGTGAACCTGAAGT
14070267 CCTGGCGAAC
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
50 3 0.03
51 88 0.94
52 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (51 bp):
ATTTTTGTGAACCTGAAGTTCTTGCAAACCTAAAGTTCTTGCAAACCTAAA
Found at i:14070177 original size:17 final size:17
Alignment explanation
Indices: 14070155--14070253 Score: 85
Period size: 17 Copynumber: 5.8 Consensus size: 17
14070145 AATTTTTGTG
14070155 AACCTGAAGTTCTTGCA
1 AACCTGAAGTTCTTGCA
14070172 AACCTGAAGTTCTTGCA
1 AACCTGAAGTTCTTGCA
* *
14070189 AACCTGAAATTATTG-A
1 AACCTGAAGTTCTTGCA
*
14070205 GAACCTGGAA-CTCTTGCA
1 -AACCT-GAAGTTCTTGCA
* * * *
14070223 AATCTAAAATTCTTGCG
1 AACCTGAAGTTCTTGCA
* *
14070240 AACTTAAAGTTCTT
1 AACCTGAAGTTCTT
14070254 ATGAATCTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
16 3 0.04
17 60 0.90
18 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (17 bp):
AACCTGAAGTTCTTGCA
Found at i:14070193 original size:34 final size:34
Alignment explanation
Indices: 14070155--14070253 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 34
14070145 AATTTTTGTG
*
14070155 AACCTGAAGTTCTTGCAAACCTGAAGTTCTTGCA
1 AACCTGAAATTCTTGCAAACCTGAAGTTCTTGCA
* *
14070189 AACCTGAAATTATTG-AGAACCTGGAA-CTCTTGCA
1 AACCTGAAATTCTTGCA-AACCT-GAAGTTCTTGCA
* * * * *
14070223 AATCTAAAATTCTTGCGAACTTAAAGTTCTT
1 AACCTGAAATTCTTGCAAACCTGAAGTTCTT
14070254 ATGAATCTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
33 3 0.06
34 45 0.88
35 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (34 bp):
AACCTGAAATTCTTGCAAACCTGAAGTTCTTGCA
Found at i:14070261 original size:34 final size:34
Alignment explanation
Indices: 14070223--14070292 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
14070213 AACTCTTGCA
* *
14070223 AATCTAAAATTCTTGCGAACTT-AAAGTTCTTATG
1 AATCTAAAATCCTGGCGAACTTGAAA-TTCTTATG
* * *
14070257 AATCTGAAGTCCTGGCGAACTTGAAATTCTTGTG
1 AATCTAAAATCCTGGCGAACTTGAAATTCTTATG
14070291 AA
1 AA
14070293 ATTGAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (34 bp):
AATCTAAAATCCTGGCGAACTTGAAATTCTTATG
Found at i:14070264 original size:85 final size:85
Alignment explanation
Indices: 14070133--14070322 Score: 202
Period size: 85 Copynumber: 2.2 Consensus size: 85
14070123 CCTAAATTTT
* * * * * *
14070133 TTGCAAATCTAAAATTTTTGTGAACCTGAAGTTCTTGCAAACCTGAAGTTCTTGCAAACCTGAAA
1 TTGCAAATCTAAAATTCTTGCGAACCTAAAGTTCTTACAAACCTGAAGTCCTGGCAAACCTGAAA
*
14070198 TTATTGAGAACCTGGAA-CTC
66 TTATTGAGAA-ATGGAATCTC
* ** * * *
14070218 TTGCAAATCTAAAATTCTTGCGAACTTAAAGTTCTTATGAATCTGAAGTCCTGGCGAACTTGAAA
1 TTGCAAATCTAAAATTCTTGCGAACCTAAAGTTCTTACAAACCTGAAGTCCTGGCAAACCTGAAA
* * * *
14070283 TTCTTGTGAAATTGAATTTC
66 TTATTGAGAAATGGAATCTC
*
14070303 TTGCAAATCTAAAAGTCTTG
1 TTGCAAATCTAAAATTCTTG
14070323 TGAATCTTTA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 4 0.05
85 82 0.95
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (85 bp):
TTGCAAATCTAAAATTCTTGCGAACCTAAAGTTCTTACAAACCTGAAGTCCTGGCAAACCTGAAA
TTATTGAGAAATGGAATCTC
Found at i:14070439 original size:18 final size:18
Alignment explanation
Indices: 14070416--14070451 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14070406 CTTTTATGAA
*
14070416 TTTGGAACTTTTGAAAAT
1 TTTGGAACCTTTGAAAAT
*
14070434 TTTGGAACCTTTGCAAAT
1 TTTGGAACCTTTGAAAAT
14070452 AGGGAAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (18 bp):
TTTGGAACCTTTGAAAAT
Found at i:14070508 original size:34 final size:34
Alignment explanation
Indices: 14070435--14070550 Score: 133
Period size: 35 Copynumber: 3.4 Consensus size: 34
14070425 TTTGAAAATT
* * * * *
14070435 TTGGAACCTTTGCAAATAGGGAAACTCTGTGAAAT
1 TTGGAATCTTTGCAAAT-CGGAACCTCTATGAAAC
14070470 TTGGAATCTTTGCAAATCGGAACCTCTATGAAAC
1 TTGGAATCTTTGCAAATCGGAACCTCTATGAAAC
* * *
14070504 TTGGAATCTTTACAAATCTAGAACCTCTATGATAC
1 TTGGAATCTTTGCAAATC-GGAACCTCTATGAAAC
*
14070539 TTGAAATCTTTG
1 TTGGAATCTTTG
14070551 TGAATTAGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
34 30 0.43
35 40 0.57
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (34 bp):
TTGGAATCTTTGCAAATCGGAACCTCTATGAAAC
Found at i:14070564 original size:35 final size:36
Alignment explanation
Indices: 14070454--14070549 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 36
14070444 TTGCAAATAG
* * * * *
14070454 GGAAACTCTGTGAAATTTGGAATCTTTGCAAATC--
1 GGAACCTCTATGAAACTTGAAATCTTTACAAATCTA
*
14070488 GGAACCTCTATGAAACTTGGAATCTTTACAAATCTA
1 GGAACCTCTATGAAACTTGAAATCTTTACAAATCTA
*
14070524 -GAACCTCTATGATACTTGAAATCTTT
1 GGAACCTCTATGAAACTTGAAATCTTT
14070550 GTGAATTAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
34 30 0.56
35 24 0.44
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (36 bp):
GGAACCTCTATGAAACTTGAAATCTTTACAAATCTA
Found at i:14072151 original size:24 final size:23
Alignment explanation
Indices: 14072122--14072185 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
14072112 TAGGTTATCA
14072122 TTTATTTTATTTTTT-TTTTGAATT
1 TTTATTTTATTTTTTGTTTT--ATT
14072146 TTTATTTTTATTTTTTGTTTTATT
1 TTTA-TTTTATTTTTTGTTTTATT
*
14072170 TTTATATTTATATTTT
1 TTTAT-TTTATTTTTT
14072186 AATATTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 1 0.03
24 20 0.56
25 11 0.31
26 4 0.11
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (23 bp):
TTTATTTTATTTTTTGTTTTATT
Found at i:14072152 original size:6 final size:6
Alignment explanation
Indices: 14072122--14072200 Score: 65
Period size: 6 Copynumber: 12.3 Consensus size: 6
14072112 TAGGTTATCA
14072122 TTTA-T TTTATT TTT-TT TTTGAATT TTTATT TTTATT TTT-TGT TTTATT
1 TTTATT TTTATT TTTATT TTT--ATT TTTATT TTTATT TTTAT-T TTTATT
14072170 TTTATAT TTATATT TTAATATT TATTATT TT
1 TTTAT-T TT-TATT TT--TATT T-TTATT TT
14072201 AAATGGTTGA
Statistics
Matches: 64, Mismatches: 0, Indels: 19
0.77 0.00 0.23
Matches are distributed among these distances:
5 10 0.16
6 27 0.42
7 12 0.19
8 14 0.22
9 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:14076318 original size:11 final size:11
Alignment explanation
Indices: 14076302--14076326 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14076292 TTGTCTGGTA
14076302 TCCCCTAGCTG
1 TCCCCTAGCTG
14076313 TCCCCTAGCTG
1 TCCCCTAGCTG
14076324 TCC
1 TCC
14076327 ATTCTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.48, G:0.16, T:0.28
Consensus pattern (11 bp):
TCCCCTAGCTG
Found at i:14082800 original size:150 final size:150
Alignment explanation
Indices: 14082533--14082831 Score: 582
Period size: 150 Copynumber: 2.0 Consensus size: 150
14082523 TTTGGAAAAT
14082533 TTCAACATCAATTCTTCTATCATCCTCCTATTATTCCCTAAATTATTCTTGCTCCATTGTACTAG
1 TTCAACATCAATTCTTCTATCATCCTCCTATTATTCCCTAAATTATTCTTGCTCCATTGTACTAG
14082598 CAATTTCCTACACCTTTTTAACTTCATATACAATATGAAAGAATTTGATCCCTAACACAACT-CC
66 CAATTTCCTACACCTTTTTAACTTCATATACAATATGAAAGAATTTGATCCCTAACACAACTCCC
14082662 CCCCATCCTTCTTTTATAAA
131 CCCCATCCTTCTTTTATAAA
14082682 TTCAACATCAATTCTTCTATCATCCTTCCTATTATTCCCTAAATTATTCTTGCTCCATTGTACTA
1 TTCAACATCAATTCTTCTATCATCC-TCCTATTATTCCCTAAATTATTCTTGCTCCATTGTACTA
14082747 GCAATTTCCTACACCTTTTTAACTTCATATACAATATGAAAGAATTTGATCCCTAACACAACTCC
65 GCAATTTCCTACACCTTTTTAACTTCATATACAATATGAAAGAATTTGATCCCTAACACAACTCC
14082812 CCCCCATCCTTCTTTTATAA
130 CCCCCATCCTTCTTTTATAA
14082832 TCATCTCGCA
Statistics
Matches: 148, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
149 25 0.17
150 102 0.69
151 21 0.14
ACGTcount: A:0.29, C:0.28, G:0.04, T:0.38
Consensus pattern (150 bp):
TTCAACATCAATTCTTCTATCATCCTCCTATTATTCCCTAAATTATTCTTGCTCCATTGTACTAG
CAATTTCCTACACCTTTTTAACTTCATATACAATATGAAAGAATTTGATCCCTAACACAACTCCC
CCCCATCCTTCTTTTATAAA
Found at i:14087992 original size:15 final size:15
Alignment explanation
Indices: 14087964--14087998 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14087954 ATTTAATGAA
*
14087964 TTAA-TTTAATTAAT
1 TTAATTTTAAATAAT
14087978 TTAATTTTAAATAAT
1 TTAATTTTAAATAAT
14087993 TTAATT
1 TTAATT
14087999 CAAAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATTTTAAATAAT
Found at i:14093909 original size:20 final size:20
Alignment explanation
Indices: 14093884--14093926 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
14093874 AATGAAGCAT
*
14093884 AAGCTAGTGACGTAAGGAGA
1 AAGCTAGTGACATAAGGAGA
14093904 AAGCTAGTGACATAAGGAGA
1 AAGCTAGTGACATAAGGAGA
14093924 AAG
1 AAG
14093927 GAGTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.33, T:0.14
Consensus pattern (20 bp):
AAGCTAGTGACATAAGGAGA
Found at i:14097157 original size:19 final size:20
Alignment explanation
Indices: 14097125--14097163 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14097115 TACTGAAAAA
14097125 AAATTTTTAGTAGA-ATTTT
1 AAATTTTTAGTAGATATTTT
14097144 AAATTTTTCA-TAGATATTTT
1 AAATTTTT-AGTAGATATTTT
14097164 TTTATTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
AAATTTTTAGTAGATATTTT
Found at i:14098828 original size:219 final size:219
Alignment explanation
Indices: 14098403--14098837 Score: 573
Period size: 219 Copynumber: 2.0 Consensus size: 219
14098393 TTTTTACATT
*
14098403 AACACTTATTTTTTGATTTGGAATTACTTTTTATTTATAATAATAATTTTTTATGTTACCAATTT
1 AACACTTATTTTTTGATTTGGAATTACTTTTTATTTATAATAATAATTTTTTATGTTACCAACTT
* * *
14098468 AATTATTTATATTATAATAATATTTTTTTTTACACTCATTCTTATATTTTATTACGTTTAAAATT
66 AATTATTTATATTAAAATAATATTTTTTTTTACAATCATTCTTATATTTCATTACGTTTAAAATT
* *
14098533 ATCACAACTTTTTTTAAGGTGTTACAATACTTCTAATACACTTTATATCAACTGATATAAATATT
131 ATCACAACTTTTTTTAAGGTGTTACAATAATTCTAATACACTTTATATCAAATGATATAAATATT
*
14098598 ACGATTATTCTCA-CATTTTTAGTA
196 ACCATTATTCTCATC-TTTTTAGTA
* **
14098622 AACACTTAATTTTTT-A-TT-GAATTATTTATTTATTTATAATAATAATTCTTTTATGTTGTCAA
1 AACACTT-ATTTTTTGATTTGGAATTACTT-TTTATTTATAATAATAATT-TTTTATGTTACCAA
* ** *
14098684 CTTAATTATTTATGTTAAAATAA-ATTTTTTTTTACAATTGTTCTTATATTTCATTATG-TTAAG
63 CTTAATTATTTATATTAAAATAATATTTTTTTTTACAATCATTCTTATATTTCATTACGTTTAA-
* *
14098747 AATTATCACAACTTTTTTCTAAGGTGTTACAATAATTCTAA-CCTATTTTATA-CTAAATGATAC
127 AATTATCACAACTTTTTT-TAAGGTGTTACAATAATTCTAATAC-ACTTTATATC-AAATGATA-
*
14098810 T-AATTTTACCATTATTCTCATCTTTTTA
188 TAAATATTACCATTATTCTCATCTTTTTA
14098838 CATTATGATA
Statistics
Matches: 190, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
217 12 0.06
218 71 0.37
219 98 0.52
220 9 0.05
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (219 bp):
AACACTTATTTTTTGATTTGGAATTACTTTTTATTTATAATAATAATTTTTTATGTTACCAACTT
AATTATTTATATTAAAATAATATTTTTTTTTACAATCATTCTTATATTTCATTACGTTTAAAATT
ATCACAACTTTTTTTAAGGTGTTACAATAATTCTAATACACTTTATATCAAATGATATAAATATT
ACCATTATTCTCATCTTTTTAGTA
Found at i:14098958 original size:38 final size:40
Alignment explanation
Indices: 14098916--14098999 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
14098906 ATTAACATGT
*
14098916 ATTTTTATG-T-TTACAATTAATT-TTTAC-TTATAATAATA
1 ATTTTTATGTTGTTA-AATTAATTATTTACGATATAATAA-A
*
14098954 ATTTTTATGTTGTTAATTTAATTATTTACGATATAATAAA
1 ATTTTTATGTTGTTAAATTAATTATTTACGATATAATAAA
14098994 ATTTTT
1 ATTTTT
14099000 TTATGCTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
38 9 0.22
39 8 0.20
40 15 0.38
41 8 0.20
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.56
Consensus pattern (40 bp):
ATTTTTATGTTGTTAAATTAATTATTTACGATATAATAAA
Found at i:14100635 original size:13 final size:13
Alignment explanation
Indices: 14100617--14100642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14100607 TAATGATCAA
14100617 AGGTTAGTAAGGT
1 AGGTTAGTAAGGT
14100630 AGGTTAGTAAGGT
1 AGGTTAGTAAGGT
14100643 TGGGTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
AGGTTAGTAAGGT
Found at i:14102532 original size:271 final size:271
Alignment explanation
Indices: 14102049--14102587 Score: 979
Period size: 271 Copynumber: 2.0 Consensus size: 271
14102039 ATATATAATC
* * *
14102049 TAGAAATTCTTGAACTTATTAAGTTAAATGATGGGTTTGATTATATTATTGTAATTTCTCTAAAT
1 TAGAAATTCTTGAACTTAGTAAGTTAAATGATGGGTTTGATTATATCATTGTAATTTCACTAAAT
14102114 TTAGAAAGGCAAAGGAGCTCTCATGCCCAAAATATTCATTGGGTATTAATCCAACTTACAAAACC
66 TTAGAAAGGCAAAGGAGCTCTCATGCCCAAAATATTCATTGGGTATTAATCCAACTTACAAAACC
14102179 AAGTTATTGAACTGAAGAACTAATTATGTTTATCTCTTCGTTTCAGTTTTGCTATTCTTCTCACT
131 AAGTTATTGAACTGAAGAACTAATTATGTTTATCTCTTCGTTTCAGTTTTGCTATTCTTCTCACT
* *
14102244 TGATGTGACAATAATATATTGTATAAATGACTATGTGTGATTTATTAATTCAAATCTCTAATTAT
196 TGATGTGACAATAATATATTGTATAAATGACTATATGTGATTTATTAAATCAAATCTCTAATTAT
14102309 TGCAATATTTT
261 TGCAATATTTT
14102320 TAGAAATTCTTGAACTTAGTAAGTTAAATGATGGGTTTGATTATATCATTGTAATTTCACTAAAT
1 TAGAAATTCTTGAACTTAGTAAGTTAAATGATGGGTTTGATTATATCATTGTAATTTCACTAAAT
* *
14102385 TTAGAAAGGCAAAGGAGCTCTCGTGCCCAAAATATTCATTGGGTATTAATCCAGCTTACAAAACC
66 TTAGAAAGGCAAAGGAGCTCTCATGCCCAAAATATTCATTGGGTATTAATCCAACTTACAAAACC
* * *
14102450 AAGTTATTGAAGTGAAGTACTAATTATGTTTATCTCTTTGTTTCAGTTTTGCTATTCTTCTCACT
131 AAGTTATTGAACTGAAGAACTAATTATGTTTATCTCTTCGTTTCAGTTTTGCTATTCTTCTCACT
*
14102515 TGATGTGACAATAATATATTGTATAAGTGACTATATGTGATTTATTAAATCAAATCTCTAATTAT
196 TGATGTGACAATAATATATTGTATAAATGACTATATGTGATTTATTAAATCAAATCTCTAATTAT
14102580 TGCAATAT
261 TGCAATAT
14102588 CATGTAATTT
Statistics
Matches: 257, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
271 257 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (271 bp):
TAGAAATTCTTGAACTTAGTAAGTTAAATGATGGGTTTGATTATATCATTGTAATTTCACTAAAT
TTAGAAAGGCAAAGGAGCTCTCATGCCCAAAATATTCATTGGGTATTAATCCAACTTACAAAACC
AAGTTATTGAACTGAAGAACTAATTATGTTTATCTCTTCGTTTCAGTTTTGCTATTCTTCTCACT
TGATGTGACAATAATATATTGTATAAATGACTATATGTGATTTATTAAATCAAATCTCTAATTAT
TGCAATATTTT
Found at i:14105430 original size:21 final size:20
Alignment explanation
Indices: 14105406--14105455 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
14105396 TAATAATTGT
*
14105406 TTTATGTTATCAAAAATATTA
1 TTTATATTAT-AAAAATATTA
* *
14105427 TTTATATTATAATAATATCTT
1 TTTATATTATAAAAATAT-TA
14105448 TTTATATT
1 TTTATATT
14105456 TGTTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTATATTATAAAAATATTA
Found at i:14105736 original size:21 final size:21
Alignment explanation
Indices: 14105663--14105739 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
14105653 TTTTGTTTAG
*
14105663 AATAA-TTTTTA-TTTATAAT
1 AATAATTTTTTACGTTATAAT
**
14105682 AATAATTTTTTATATTATTAAT
1 AATAATTTTTTACGTTA-TAAT
* *
14105704 -TTAATTATTTACGTTATAAT
1 AATAATTTTTTACGTTATAAT
*
14105724 AATATTTTTTTACGTT
1 AATAATTTTTTACGTT
14105740 TATTGTTATC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.11
20 10 0.22
21 27 0.59
22 4 0.09
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (21 bp):
AATAATTTTTTACGTTATAAT
Found at i:14106109 original size:19 final size:19
Alignment explanation
Indices: 14106083--14106125 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
14106073 TTAACTTTTA
*
14106083 TTTTTTTGT-TTAAAATTT
1 TTTTTTTGTCATAAAATTT
*
14106101 TTTTATTTGTCATAATATTT
1 TTTT-TTTGTCATAAAATTT
14106121 TTTTT
1 TTTTT
14106126 ATATTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTTTTGTCATAAAATTT
Found at i:14112262 original size:27 final size:27
Alignment explanation
Indices: 14112232--14112283 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
14112222 TATATTTTCT
*
14112232 TTAAAATAAAATTATACGACAGTTAAC
1 TTAAAAAAAAATTATACGACAGTTAAC
14112259 TTAAAAAAAAATTATACGACAGTTA
1 TTAAAAAAAAATTATACGACAGTTA
14112284 GTACCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (27 bp):
TTAAAAAAAAATTATACGACAGTTAAC
Found at i:14112397 original size:14 final size:14
Alignment explanation
Indices: 14112378--14112410 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14112368 TACTATTAAA
14112378 ATATTAA-ATATTTT
1 ATATTAATAT-TTTT
14112392 ATATTAATATTTTT
1 ATATTAATATTTTT
14112406 ATATT
1 ATATT
14112411 TTATATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTAATATTTTT
Found at i:14113006 original size:4 final size:4
Alignment explanation
Indices: 14112999--14113055 Score: 50
Period size: 4 Copynumber: 15.0 Consensus size: 4
14112989 TATATATAAA
* *
14112999 TTAT TTAT TTAA TTAT TTAT TTA- -TAT TTAT TT-T TTAT ATAT TTAAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT
*
14113045 TT-T ATAT TTAT
1 TTAT TTAT TTAT
14113056 ATTAAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
2 2 0.05
3 5 0.12
4 31 0.74
5 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:14113014 original size:12 final size:12
Alignment explanation
Indices: 14112997--14113059 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
14112987 AATATATATA
14112997 AATTATTTATTT
1 AATTATTTATTT
14113009 AATTATTTATTT
1 AATTATTTATTT
14113021 -A-TATTTATTT
1 AATTATTTATTT
* *
14113031 -TTTATATATTT
1 AATTATTTATTT
14113042 AATT-TTATATTT
1 AATTATT-TATTT
14113054 ATATTA
1 A-ATTA
14113060 AAAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.21
11 10 0.24
12 20 0.48
13 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:14113049 original size:21 final size:21
Alignment explanation
Indices: 14113000--14113046 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14112990 ATATATAAAT
* *
14113000 TATTTATTTAATTATTTATTTA
1 TATTTATTT-TTTATATATTTA
14113022 TATTTATTTTTTATATATTTA
1 TATTTATTTTTTATATATTTA
14113043 -ATTT
1 TATTT
14113047 TATATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
22 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTATTTTTTATATATTTA
Found at i:14113545 original size:21 final size:23
Alignment explanation
Indices: 14113499--14113564 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
14113489 GTCTATGTGA
14113499 ATAATTTTTTTAAATAACATATAAG
1 ATAATTTTTTT-AATAACA-ATAAG
14113524 ATAATTTTTTTAA-AAC-ATAAG
1 ATAATTTTTTTAATAACAATAAG
* *
14113545 ATAGTTATTTTTAATTACAA
1 ATAATT-TTTTTAATAACAA
14113565 ATTAAATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 10 0.28
22 7 0.19
23 5 0.14
24 3 0.08
25 11 0.31
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (23 bp):
ATAATTTTTTTAATAACAATAAG
Found at i:14114227 original size:49 final size:51
Alignment explanation
Indices: 14114142--14114239 Score: 130
Period size: 49 Copynumber: 1.9 Consensus size: 51
14114132 TATACATAAT
*
14114142 TTTTTTATTTTTTAGTAATTTTTTTCCAAGATATATTCTATTACTATTACAA
1 TTTTTTATTGTTTAGTAATTTTTTT-CAAGATATATTCTATTACTATTACAA
* *
14114194 TTTTTT-TTGTTTA-TAACTTTTTTT-AAGATATATTTTATTATTATTA
1 TTTTTTATTGTTTAGTAA-TTTTTTTCAAGATATATTCTATTACTATTA
14114240 TAGTTTCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 20 0.48
50 3 0.07
51 13 0.31
52 6 0.14
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (51 bp):
TTTTTTATTGTTTAGTAATTTTTTTCAAGATATATTCTATTACTATTACAA
Found at i:14121242 original size:2 final size:2
Alignment explanation
Indices: 14121235--14121263 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14121225 GAGAACTAGG
14121235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14121264 CACATTGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14124471 original size:12 final size:12
Alignment explanation
Indices: 14124454--14124501 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
14124444 TATTGATATC
14124454 TATATATATGTA
1 TATATATATGTA
*
14124466 TGTATATATGTA
1 TATATATATGTA
* *
14124478 TACATATATATA
1 TATATATATGTA
14124490 TATATATATGTA
1 TATATATATGTA
14124502 AGTGTAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (12 bp):
TATATATATGTA
Found at i:14124485 original size:6 final size:6
Alignment explanation
Indices: 14124449--14124498 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
14124439 GGTTATATTG
* * * * *
14124449 ATATCT ATATAT ATGTAT GTATAT ATGTAT ACATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
14124497 AT
1 AT
14124499 GTAAGTGTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (6 bp):
ATATAT
Found at i:14124488 original size:4 final size:4
Alignment explanation
Indices: 14124449--14124498 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
14124439 GGTTATATTG
* * * * *
14124449 ATAT CTAT ATAT ATGT ATGT ATAT ATGT ATAC ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
14124497 AT
1 AT
14124499 GTAAGTGTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (4 bp):
ATAT
Found at i:14124627 original size:22 final size:22
Alignment explanation
Indices: 14124574--14124628 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 22
14124564 AAATTTTATC
14124574 ATTT-TTTATTTATTTAATAAA
1 ATTTATTTATTTATTTAATAAA
14124595 ATTAATATATTTATTTATTTAATAAA
1 A-T--T-TATTTATTTATTTAATAAA
14124621 ATTTATTT
1 ATTTATTT
14124629 GCCATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.03
22 6 0.21
23 1 0.03
24 1 0.03
25 2 0.07
26 18 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTATTTATTTATTTAATAAA
Found at i:14125111 original size:19 final size:18
Alignment explanation
Indices: 14125087--14125131 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
14125077 ACATGAACAT
14125087 ATAATAATAG-ATTATATTA
1 ATAATAATAGTATT-TA-TA
14125106 ATAATAAATAGTATTTATA
1 ATAAT-AATAGTATTTATA
14125125 ATAATAA
1 ATAATAA
14125132 GAAACTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 12 0.50
20 7 0.29
21 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
ATAATAATAGTATTTATA
Found at i:14125688 original size:20 final size:20
Alignment explanation
Indices: 14125662--14125707 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
14125652 TATTTTAATC
14125662 ATATTATAACGTATA-AAAAAT
1 ATATTATAA-GTA-ACAAAAAT
14125683 -TATTATAAGTAACAAAAAT
1 ATATTATAAGTAACAAAAAT
14125702 ATATTA
1 ATATTA
14125708 ATTTGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
ATATTATAAGTAACAAAAAT
Found at i:14127267 original size:17 final size:18
Alignment explanation
Indices: 14127234--14127268 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14127224 GTTTCGGGTA
*
14127234 TTTTTTTTATGTGTTTGT
1 TTTTTTTTATATGTTTGT
14127252 TTTTTTTTATAT-TTTGT
1 TTTTTTTTATATGTTTGT
14127269 ATAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTTTTTATATGTTTGT
Found at i:14127740 original size:26 final size:24
Alignment explanation
Indices: 14127689--14127741 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
14127679 CTAGGATAAG
* *
14127689 ATTCTTAGAAATTTCAAATGATAA
1 ATTCTTAGAAATCTCAAATGAGAA
*
14127713 ATTCTTAAGAAATCTCTAGATGAGAA
1 ATTCTT-AGAAATCTC-AAATGAGAA
14127739 ATT
1 ATT
14127742 TTCTCTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 8 0.33
26 10 0.42
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (24 bp):
ATTCTTAGAAATCTCAAATGAGAA
Found at i:14129001 original size:23 final size:23
Alignment explanation
Indices: 14128975--14129026 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
14128965 ATCATTTTCA
*
14128975 TATCATTTCATT-TCGTGCATCAT
1 TATCATTTCATTCT-ATGCATCAT
14128998 TATCATTTCATTCTATGCATCAT
1 TATCATTTCATTCTATGCATCAT
*
14129021 TTTCAT
1 TATCAT
14129027 GCTCATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.50
Consensus pattern (23 bp):
TATCATTTCATTCTATGCATCAT
Found at i:14131011 original size:23 final size:23
Alignment explanation
Indices: 14130979--14131022 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
14130969 GAAGTTTCTT
*
14130979 ATAATTTTAGGATTTCTTTTAGA
1 ATAATATTAGGATTTCTTTTAGA
14131002 ATAATATTAGGATTTCTTTTA
1 ATAATATTAGGATTTCTTTTA
14131023 TGCAATAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (23 bp):
ATAATATTAGGATTTCTTTTAGA
Found at i:14131909 original size:11 final size:10
Alignment explanation
Indices: 14131893--14131994 Score: 89
Period size: 11 Copynumber: 9.5 Consensus size: 10
14131883 ATGAAGGAAG
14131893 GAAAAAAAAGA
1 GAAAAAAAA-A
14131904 GAAAAAAGAAA
1 GAAAAAA-AAA
14131915 GAATGAAAAAAA
1 GAA--AAAAAAA
14131927 -AAAAAAAGAA
1 GAAAAAAA-AA
14131937 GAAAGAAAAAA
1 GAAA-AAAAAA
*
14131948 TAAAGAAAAAA
1 GAAA-AAAAAA
*
14131959 TAAAAAAAAA
1 GAAAAAAAAA
*
14131969 GAAAAAAATAT
1 GAAAAAAA-AA
*
14131980 GAAAAGAAAA
1 GAAAAAAAAA
14131990 GAAAA
1 GAAAA
14131995 GGAAAACTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.06
10 21 0.27
11 40 0.51
12 9 0.11
13 4 0.05
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:14131913 original size:7 final size:7
Alignment explanation
Indices: 14131897--14131975 Score: 63
Period size: 7 Copynumber: 10.9 Consensus size: 7
14131887 AGGAAGGAAA
14131897 AAAAAGAG
1 AAAAA-AG
14131905 AAAAAAG
1 AAAAAAG
*
14131912 AAAGAATG
1 AAA-AAAG
*
14131920 AAAAAAAA
1 -AAAAAAG
14131928 AAAAAAG
1 AAAAAAG
*
14131935 AAGAAAG
1 AAAAAAG
*
14131942 AAAAAAT
1 AAAAAAG
14131949 AAAGAAA-
1 AAA-AAAG
14131956 AAATAAA-
1 AAA-AAAG
14131963 AAAAAAG
1 AAAAAAG
14131970 AAAAAA
1 AAAAAA
14131976 ATATGAAAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
6 3 0.05
7 40 0.68
8 13 0.22
9 3 0.05
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:14131922 original size:26 final size:24
Alignment explanation
Indices: 14131893--14131976 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
14131883 ATGAAGGAAG
*
14131893 GAAAAAAAAGAGAAAAAAGAAAGAAT
1 GAAAAAAAA-AGAAAAAAG-AAGAAA
14131919 G-AAAAAAAA-AAAAAAGAAGAAA
1 GAAAAAAAAAGAAAAAAGAAGAAA
* *
14131941 GAAAAAATAAAGAAAAAATAAAAAA
1 GAAAAAA-AAAGAAAAAAGAAGAAA
*
14131966 AAAGAAAAAAA
1 GAA-AAAAAAA
14131977 TATGAAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
22 6 0.12
23 12 0.24
24 4 0.08
25 23 0.46
26 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAGAAGAAA
Found at i:14131924 original size:1 final size:1
Alignment explanation
Indices: 14131920--14131976 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
14131910 AGAAAGAATG
* * * * * * *
14131920 AAAAAAAAAAAAAAGAAGAAAGAAAAAATAAAGAAAAAATAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14131977 TATGAAAAGA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.04
Consensus pattern (1 bp):
A
Found at i:14131926 original size:18 final size:17
Alignment explanation
Indices: 14131894--14131976 Score: 77
Period size: 17 Copynumber: 5.0 Consensus size: 17
14131884 TGAAGGAAGG
14131894 AAAAAAAAG-AGAAAAA
1 AAAAAAAAGAAGAAAAA
* *
14131910 AGAAAGAATG-A-AAAAA
1 A-AAAAAAAGAAGAAAAA
14131926 AAAAAAAAGAAGAAAGAA
1 AAAAAAAAGAAGAAA-AA
*
14131944 AAAATAAAGAA-AAAATA
1 AAAAAAAAGAAGAAAA-A
14131961 AAAAAAAAGAA-AAAAA
1 AAAAAAAAGAAGAAAAA
14131977 TATGAAAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.11
16 10 0.18
17 28 0.50
18 12 0.21
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (17 bp):
AAAAAAAAGAAGAAAAA
Found at i:14131953 original size:37 final size:35
Alignment explanation
Indices: 14131903--14131971 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
14131893 GAAAAAAAAG
14131903 AGAAAAAAGAAAGAATGAAAAAAAAAAAAAAGAAGAA
1 AGAAAAAAGAAAGAA--AAAAAAAAAAAAAAGAAGAA
* *
14131940 AGAAAAAATAAAGAAAAAATAAAAAAAAAGAA
1 AGAAAAAAGAAAGAAAAAAAAAAAAAAAAGAA
14131972 AAAAATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 16 0.53
37 14 0.47
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (35 bp):
AGAAAAAAGAAAGAAAAAAAAAAAAAAAAGAAGAA
Found at i:14131978 original size:18 final size:17
Alignment explanation
Indices: 14131905--14131976 Score: 81
Period size: 17 Copynumber: 4.1 Consensus size: 17
14131895 AAAAAAAGAG
*
14131905 AAAAAAGAAAGAATGAAAA
1 AAAAAAAAAAGAA--AAAA
*
14131924 AAAAAAAAAAGAAGAAAG
1 AAAAAAAAAAGAA-AAAA
*
14131942 AAAAAATAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
*
14131959 TAAAAAAAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
14131976 A
1 A
14131977 TATGAAAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
17 18 0.39
18 16 0.35
19 12 0.26
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAA
Found at i:14132698 original size:63 final size:63
Alignment explanation
Indices: 14132598--14132731 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 63
14132588 CAATGGACAC
* * * * *
14132598 AATTTGTTTTGGAATGGTTAGGGTTGAGAAACCTATGAGTGGTGACCTAGTGATGGATG-ATAA
1 AATTTGTTTTGGAATGGCTAAGGCTGAGAAACCTATGAGTAGTGACCCAGTGATGG-TGAATAA
* * *
14132661 AATTTGTTTTGGAATGGCTAATGCTGAGACACTTATGAGTAGTGACCCAGTGATGGTGAATAA
1 AATTTGTTTTGGAATGGCTAAGGCTGAGAAACCTATGAGTAGTGACCCAGTGATGGTGAATAA
*
14132724 AACTTGTT
1 AATTTGTT
14132732 CTGAAATTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 2 0.03
63 59 0.97
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (63 bp):
AATTTGTTTTGGAATGGCTAAGGCTGAGAAACCTATGAGTAGTGACCCAGTGATGGTGAATAA
Done.