Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 208 of 344
Found at i:68941176 original size:15 final size:14
Alignment explanation
Indices: 68941156--68941210 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
68941146 TCGGCCCAAC
*
68941156 AAAACAAACAAATCA
1 AAAACAAAAAAAT-A
68941171 AAAACAACAAAAATA
1 AAAACAA-AAAAATA
*
68941186 AAAACAAATAAA-A
1 AAAACAAAAAAATA
*
68941199 AAAATAAAAAAA
1 AAAACAAAAAAA
68941211 GGTCCATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.31
14 4 0.11
15 15 0.43
16 5 0.14
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACAAAAAAATA
Found at i:68941198 original size:9 final size:9
Alignment explanation
Indices: 68941179--68941210 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
68941169 CAAAAACAAC
68941179 AAAAATAAA
1 AAAAATAAA
68941188 AACAAATAAA
1 AA-AAATAAA
68941198 AAAAATAAA
1 AAAAATAAA
68941207 AAAA
1 AAAA
68941211 GGTCCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAATAAA
Found at i:68947561 original size:18 final size:19
Alignment explanation
Indices: 68947516--68947563 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
68947506 CATGATATAC
68947516 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
68947536 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
68947554 A-AACATAATA
1 ATAACATAATA
68947564 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:68947764 original size:20 final size:20
Alignment explanation
Indices: 68947728--68947765 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68947718 GGAAAATAAT
*
68947728 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
68947748 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
68947766 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:68947847 original size:19 final size:19
Alignment explanation
Indices: 68947823--68947860 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68947813 AAAATAAACA
*
68947823 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
68947842 AATAATATAATAAATATAG
1 AATAATACAATAAATATAG
68947861 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:68948994 original size:17 final size:20
Alignment explanation
Indices: 68948972--68949008 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
68948962 TAGTTTTAAT
68948972 TGGGTC-AC-GGGT-GTTTG
1 TGGGTCTACTGGGTAGTTTG
68948989 TGGGTCTACTGGGTAGTTTG
1 TGGGTCTACTGGGTAGTTTG
68949009 AGCCTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 4 0.24
20 5 0.29
ACGTcount: A:0.08, C:0.11, G:0.43, T:0.38
Consensus pattern (20 bp):
TGGGTCTACTGGGTAGTTTG
Found at i:68949577 original size:76 final size:79
Alignment explanation
Indices: 68949396--68949616 Score: 319
Period size: 76 Copynumber: 2.8 Consensus size: 79
68949386 TCAAATTATC
*
68949396 TTGAGTCTGCTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCA
1 TTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAA-GTCCTCGATTTGTT-CTTGTAAGCA
68949461 CAAGGATGCCAAACCAT
64 CAAGGATGCC-AACCAT
* *
68949478 CTGAGTCTGTTTGAGGACATTTGAG-GTCATATCTGCAACGTCCTC-ATTTGTTCTTGTAAGCAC
1 TTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAA-GTCCTCGATTTGTTCTTGTAAGCAC
*
68949541 AAGGATG-C-ATCAT
65 AAGGATGCCAACCAT
*
68949554 TTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGC-AGTCCTCGATTT-TTCTTGTAAGCACA
1 TTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGTCCTCGATTTGTTCTTGTAAGCACA
68949617 GGTGCCNNNN
Statistics
Matches: 129, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
75 20 0.16
76 31 0.24
77 11 0.09
78 1 0.01
79 18 0.14
80 7 0.05
81 19 0.15
82 22 0.17
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (79 bp):
TTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGTCCTCGATTTGTTCTTGTAAGCACA
AGGATGCCAACCAT
Found at i:68961380 original size:18 final size:19
Alignment explanation
Indices: 68961335--68961382 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
68961325 CATGATATAC
68961335 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
68961355 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
68961373 A-AACATAATA
1 ATAACATAATA
68961383 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:68961580 original size:20 final size:20
Alignment explanation
Indices: 68961544--68961581 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68961534 GGAAAATAAT
*
68961544 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
68961564 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
68961582 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:68961663 original size:19 final size:19
Alignment explanation
Indices: 68961639--68961676 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68961629 AAAATAAACA
*
68961639 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
68961658 AATAATATAATAAATATAG
1 AATAATACAATAAATATAG
68961677 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:68962812 original size:17 final size:20
Alignment explanation
Indices: 68962790--68962826 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
68962780 TAGTTTTAAT
68962790 TGGGTC-AC-GGGT-GTTTG
1 TGGGTCTACTGGGTAGTTTG
68962807 TGGGTCTACTGGGTAGTTTG
1 TGGGTCTACTGGGTAGTTTG
68962827 GGCCTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 4 0.24
20 5 0.29
ACGTcount: A:0.08, C:0.11, G:0.43, T:0.38
Consensus pattern (20 bp):
TGGGTCTACTGGGTAGTTTG
Found at i:68964495 original size:17 final size:17
Alignment explanation
Indices: 68964473--68964505 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68964463 CTTTTCAACA
68964473 TCAAATCAAT-ACATATT
1 TCAAAT-AATCACATATT
68964490 TCAAATAATCACATAT
1 TCAAATAATCACATAT
68964506 AATCATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAATAATCACATATT
Found at i:68968066 original size:6 final size:5
Alignment explanation
Indices: 68968025--68968091 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
68968015 TTATATATCT
* * *
68968025 ATATA TATATT ATAATA ATATA ATATA GTGTA ATATTA ATATA ATAATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATA-TA ATATA AT-ATA
* *
68968074 AAATA ATATA TTATA ATA
1 ATATA ATATA ATATA ATA
68968092 AAAATCTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
5 31 0.65
6 17 0.35
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:68968089 original size:18 final size:18
Alignment explanation
Indices: 68968029--68968094 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 18
68968019 ATATCTATAT
*
68968029 ATATATTATAATAATATA
1 ATATATTATAATAAAATA
* * *
68968047 ATATAGTGTAAT--ATTA
1 ATATATTATAATAAAATA
68968063 ATATA--ATAATAAAATA
1 ATATATTATAATAAAATA
68968079 ATATATTATAATAAAA
1 ATATATTATAATAAAA
68968095 ATCTTAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.11
16 15 0.39
18 19 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
ATATATTATAATAAAATA
Found at i:68968091 original size:32 final size:32
Alignment explanation
Indices: 68968031--68968091 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
68968021 ATCTATATAT
* * *
68968031 ATATTATAATAATATAATATAGTGTAATATTA
1 ATATAATAATAAAATAATATAGTATAATATTA
*
68968063 ATATAATAATAAAATAATATATTATAATA
1 ATATAATAATAAAATAATATAGTATAATA
68968092 AAAATCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (32 bp):
ATATAATAATAAAATAATATAGTATAATATTA
Found at i:68977256 original size:5 final size:5
Alignment explanation
Indices: 68977243--68977275 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
68977233 ATACACTATG
*
68977243 AATCC AATCT AATCC AATCC AATCC AATCC AAT
1 AATCC AATCC AATCC AATCC AATCC AATCC AAT
68977276 AGCAAGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (5 bp):
AATCC
Found at i:68981759 original size:20 final size:20
Alignment explanation
Indices: 68981734--68981777 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
68981724 CGGGTAGGGG
68981734 ACACGGACATGTCCCAAAGC
1 ACACGGACATGTCCCAAAGC
*
68981754 ACACGGGCATGTCCCAAAGC
1 ACACGGACATGTCCCAAAGC
68981774 ACAC
1 ACAC
68981778 AGGCGTGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.36, G:0.20, T:0.09
Consensus pattern (20 bp):
ACACGGACATGTCCCAAAGC
Found at i:68986795 original size:45 final size:45
Alignment explanation
Indices: 68986724--68986816 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
68986714 CTATTACCGC
* *
68986724 TACTGCTACTGTTATCGATTCAGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
* * *
68986769 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGGATATTGT
1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
68986814 TAC
1 TAC
68986817 CGTACTGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (45 bp):
TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
Found at i:68986887 original size:59 final size:59
Alignment explanation
Indices: 68986819--68986949 Score: 208
Period size: 59 Copynumber: 2.2 Consensus size: 59
68986809 ATTGTTACCG
* * *
68986819 TACTGTTACTGTTGCTGTTCCGGATTTATTCTGATGAGGTACTCTGTGTGCCATACTGC
1 TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC
* *
68986878 TACTGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
1 TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC
*
68986937 TACTATTACTGTT
1 TACTGTTACTGTT
68986950 CCGGCTTCGG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (59 bp):
TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC
Found at i:68987226 original size:18 final size:18
Alignment explanation
Indices: 68987054--68987228 Score: 57
Period size: 18 Copynumber: 9.3 Consensus size: 18
68987044 AAAGGTATAA
* *
68987054 AATAACTGAATATTACTG
1 AATAACTGACTGTTACTG
* *
68987072 AATAATTGA-TCATTACTG
1 AATAACTGACT-GTTACTG
* * *
68987090 AATAACTCAATTGTTACTA
1 AATAACT-GACTGTTACTG
* * *
68987109 AATATCTGA-TTTTACTA
1 AATAACTGACTGTTACTG
*
68987126 AATAATTGACTGTTACTG
1 AATAACTGACTGTTACTG
* *
68987144 GATAACCGATCAATTGATCGATACTG
1 AATAACTGA-C---TG-T---TACTG
** * *
68987170 AATAACTGGTTATTATTG
1 AATAACTGACTGTTACTG
* * *
68987188 AATAATTGATTGTTACCG
1 AATAACTGACTGTTACTG
*
68987206 AATAACTGACTGTTGCTG
1 AATAACTGACTGTTACTG
68987224 AATAA
1 AATAA
68987229 ATAATTGTTG
Statistics
Matches: 115, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
17 15 0.13
18 70 0.61
19 13 0.11
20 1 0.01
21 1 0.01
22 3 0.03
23 1 0.01
26 11 0.10
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (18 bp):
AATAACTGACTGTTACTG
Found at i:68997072 original size:47 final size:47
Alignment explanation
Indices: 68997012--68997133 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
68997002 GCATTGGCAC
*
68997012 TAAGACCAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
68997059 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
68997106 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
68997134 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:68997241 original size:55 final size:54
Alignment explanation
Indices: 68997112--68997308 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
68997102 TTGGTAAGAT
* * *
68997112 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
68997166 AAGGAAATCATGTACGACCATGTCAAGATATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
68997221 AAAGG-TCCCATGTAAGACCATGCCAAGCCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* *
68997274 AAGGATACCATATAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
68997309 ATGGTAAATT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 41 0.34
55 39 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:69004053 original size:23 final size:22
Alignment explanation
Indices: 69004027--69004214 Score: 191
Period size: 23 Copynumber: 8.2 Consensus size: 22
69004017 GCTACAATAG
*
69004027 AGTGGTAGCTTTGGCTACATCTC
1 AGTGGTAGCTTCGGCTACAT-TC
69004050 AGTGGTAGCTTCGGCTACAATAT-
1 AGTGGTAGCTTCGGCTAC-AT-TC
*
69004073 AGTGGTAGCTTCGGTTACATCTC
1 AGTGGTAGCTTCGGCTACAT-TC
* *
69004096 AGTGGTAGCTTCAGCTACAATAC
1 AGTGGTAGCTTCGGCTAC-ATTC
*
69004119 AGTGGTAGCTTCGGCTACAATAC
1 AGTGGTAGCTTCGGCTAC-ATTC
*
69004142 AGTGGTAGCTTCGGCTACA-AC
1 AGTGGTAGCTTCGGCTACATTC
*
69004163 ATAGTGGTAGCTTCGGCTACGTTAC
1 --AGTGGTAGCTTCGGCTACATT-C
* *
69004188 AGTGATAGCTTCGGCTATATTAC
1 AGTGGTAGCTTCGGCTACATT-C
69004211 AGTG
1 AGTG
69004215 TGGCACTTTG
Statistics
Matches: 145, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.01
22 4 0.03
23 133 0.92
24 5 0.03
25 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (22 bp):
AGTGGTAGCTTCGGCTACATTC
Found at i:69004083 original size:46 final size:45
Alignment explanation
Indices: 69004016--69004204 Score: 261
Period size: 46 Copynumber: 4.1 Consensus size: 45
69004006 GGAATCTATA
* *
69004016 GGCTACAATAGAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTACAT-TCAGTGGTAGCTTC
*
69004062 GGCTACAATATAGTGGTAGCTTCGGTTACATCTCAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTACAT-TCAGTGGTAGCTTC
* * *
69004108 AGCTACAATACAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTAC-ATTCAGTGGTAGCTTC
* * *
69004154 GGCTACAACATAGTGGTAGCTTCGGCTACGTTACAGTGATAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTACATT-CAGTGGTAGCTTC
69004200 GGCTA
1 GGCTA
69004205 TATTACAGTG
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 125 0.98
47 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (45 bp):
GGCTACAATATAGTGGTAGCTTCGGCTACATTCAGTGGTAGCTTC
Found at i:69004138 original size:69 final size:68
Alignment explanation
Indices: 69004016--69004214 Score: 247
Period size: 69 Copynumber: 2.9 Consensus size: 68
69004006 GGAATCTATA
* * * * *
69004016 GGCTACAATAGAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAG
1 GGCTACAACATAGTGGTAGCTTCGGCTACAT-ACAGTGGTAGCTTCGGCTACAATACAGTGGTAG
69004081 CTTC
65 CTTC
* * *
69004085 GGTTACATC-TCAGTGGTAGCTTCAGCTACAATACAGTGGTAGCTTCGGCTACAATACAGTGGTA
1 GGCTACAACAT-AGTGGTAGCTTCGGCTAC-ATACAGTGGTAGCTTCGGCTACAATACAGTGGTA
69004149 GCTTC
64 GCTTC
* * * *
69004154 GGCTACAACATAGTGGTAGCTTCGGCTACGTTACAGTGATAGCTTCGGCTATATTACAGTG
1 GGCTACAACATAGTGGTAGCTTCGGCTAC-ATACAGTGGTAGCTTCGGCTACAATACAGTG
69004215 TGGCACTTTG
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
69 108 0.97
70 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (68 bp):
GGCTACAACATAGTGGTAGCTTCGGCTACATACAGTGGTAGCTTCGGCTACAATACAGTGGTAGC
TTC
Found at i:69007204 original size:55 final size:54
Alignment explanation
Indices: 69007082--69007271 Score: 194
Period size: 55 Copynumber: 3.5 Consensus size: 54
69007072 GATAAGGATA
* **
69007082 TCATGTAAGACCATGCCAAG-CATTGGCATTGATAAGTTCTATAAGGCAAGAA--AA
1 TCATGTAAGACCATGCCAAGACA-TGGCATTGATGAGTTCTATAAGG-AA-AATGTC
*
69007136 TCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAATGTC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGAAAATGTC
* * * *
69007191 TCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGG-CAATGATAC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAAATG-T-C
* *
69007245 -CACGTAAGACCATGTCAAGACATGGCA
1 TCATGTAAGACCATGCCAAGACATGGCA
69007272 ATGGTAAGAT
Statistics
Matches: 117, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 37 0.32
55 44 0.38
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (54 bp):
TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAAATGTC
Found at i:69012104 original size:18 final size:16
Alignment explanation
Indices: 69012065--69012116 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
69012055 GCTTTAAGGC
*
69012065 TTTGTTTTT-AGTTTT
1 TTTGTTTTTAATTTTT
*
69012080 ATTGTTTTCTAATTTTCT
1 TTTGTTTT-TAATTTT-T
69012098 TTTGTTTTTAATTTTT
1 TTTGTTTTTAATTTTT
69012114 TTT
1 TTT
69012117 TTGGATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 7 0.23
16 5 0.16
17 11 0.35
18 8 0.26
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.77
Consensus pattern (16 bp):
TTTGTTTTTAATTTTT
Found at i:69014605 original size:40 final size:39
Alignment explanation
Indices: 69014552--69014712 Score: 128
Period size: 40 Copynumber: 4.0 Consensus size: 39
69014542 AAAATCGAAT
* * *
69014552 AGATCGAGTATTAGCAGCGCTTTTTAAAAAACGCGGCTAA
1 AGATCAAGCATTAGC-GCGCTTTTTAAAAAACGCCGCTAA
* *
69014592 AGATCAAGCATTAGTG-GCATTTTTAAGAAACGGCCGCTAA
1 AGATCAAGCATTAGCGCGC-TTTTTAAAAAAC-GCCGCTAA
* * * * *
69014632 AGATCGAGCATTAGCGGGGTTTTTAAGAAAGCGCCGCTAT
1 AGATCAAGCATTAGCGCGCTTTTTAA-AAAACGCCGCTAA
* * * *
69014672 AGGTCAATC-TATAGCGGCGCTTTTTTAAAAACACCGCTAA
1 AGATCAAGCAT-TAGC-GCGCTTTTTAAAAAACGCCGCTAA
69014712 A
1 A
69014713 AGATTAAAGC
Statistics
Matches: 95, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
38 2 0.02
39 13 0.14
40 68 0.72
41 12 0.13
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (39 bp):
AGATCAAGCATTAGCGCGCTTTTTAAAAAACGCCGCTAA
Found at i:69015346 original size:21 final size:21
Alignment explanation
Indices: 69015322--69015361 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
69015312 TCTCTAGTCA
69015322 TAAACCATAAACTA-TAAACTG
1 TAAACCATAAA-TATTAAACTG
*
69015343 TAAACCCTAAATATTAAAC
1 TAAACCATAAATATTAAAC
69015362 CTTGAATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAACCATAAATATTAAACTG
Found at i:69015455 original size:21 final size:22
Alignment explanation
Indices: 69015431--69015524 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 22
69015421 AATATAGATT
69015431 CCTAAATCATAAAACTATAAA-
1 CCTAAATCATAAAACTATAAAC
* * *
69015452 CCTAAATCACTAGACCT-TAAAT
1 CCTAAATCA-TAAAACTATAAAC
** * *
69015474 TATAAAACTTAAAACTATAAAC
1 CCTAAATCATAAAACTATAAAC
* *
69015496 CCTAAATC-TTAAACCATAAAC
1 CCTAAATCATAAAACTATAAAC
69015517 CCTAAATC
1 CCTAAATC
69015525 CAAAATCATA
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 37 0.66
22 19 0.34
ACGTcount: A:0.50, C:0.23, G:0.01, T:0.26
Consensus pattern (22 bp):
CCTAAATCATAAAACTATAAAC
Found at i:69015534 original size:21 final size:21
Alignment explanation
Indices: 69015484--69015536 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
69015474 TATAAAACTT
* *
69015484 AAAACTATAAACCCTAAATCT
1 AAAACCATAAACCCTAAATCC
*
69015505 TAAACCATAAACCCTAAATCC
1 AAAACCATAAACCCTAAATCC
*
69015526 AAAATCATAAA
1 AAAACCATAAA
69015537 ACCTTAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAACCATAAACCCTAAATCC
Found at i:69015896 original size:3 final size:3
Alignment explanation
Indices: 69015888--69015913 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
69015878 ATTAATAGTA
69015888 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
69015914 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:69016294 original size:75 final size:74
Alignment explanation
Indices: 69016152--69016297 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 74
69016142 TTTTCACTAG
* *
69016152 AAAACGCCACAAACATCTATTAATAGATTGCAAAACGGCGTCGTTATTACCTTGTTATTAGTGGC
1 AAAACGCCACAAACATCTA-TAAGAGATTGCAAAACGGCATCGTTATTACCTTGTTATTAGTGGC
69016217 GCTTTTTGGA
65 GCTTTTTGGA
* * * *
69016227 AAAATGCCACAAAACATCTA-AAGAGATTTCAAAACGTCATCGTTTTATAGCCTT-TTATTAGTG
1 AAAACGCCAC-AAACATCTATAAGAGATTGCAAAACGGCATCGTTAT-TA-CCTTGTTATTAGTG
69016290 GCGCTTTT
63 GCGCTTTT
69016298 ATAAACGCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
74 21 0.34
75 28 0.45
76 13 0.21
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (74 bp):
AAAACGCCACAAACATCTATAAGAGATTGCAAAACGGCATCGTTATTACCTTGTTATTAGTGGCG
CTTTTTGGA
Found at i:69016342 original size:188 final size:188
Alignment explanation
Indices: 69016013--69016427 Score: 466
Period size: 188 Copynumber: 2.2 Consensus size: 188
69016003 TTTTGAAGCT
* * * *
69016013 TTGTTATTAATGGCACTTTTAAAAAAAATGCCACAAAACATCTATTAAGAGATCGTAAAACGGCG
1 TTGTTATTAGTGGCGCTTTT--TAAAAATGCCACAAAACATCTA-TAAGAGATCGTAAAACGGCA
* * * * * **
69016078 TCATTTACATCCTTGTTATTAGTGGTGCTTCTATAAACACCGCAACAGGTGTAAATTACCGGTGT
63 TCATTTACAGCCTTGTTATTAGTGGCGCTTCTATAAACACCACAAAAGATGTAAATTACCGGCAT
* *
69016143 TTTCACTAGAAAACGCCACAAACATCTATTAATAGATTGC-AAAACGGCGTCG-TTATTA-CC
128 TTTCACTAG-AAACGCCACAAAAATCTATTAATAGATTGCAAAAACGACGTCGTTTA-TAGCC
* *
69016203 TTGTTATTAGTGGCGCTTTTTGGAAAAATGCCACAAAACATCTA-AAGAGAT-TTCAAAACGTCA
1 TTGTTATTAGTGGCGCTTTTT--AAAAATGCCACAAAACATCTATAAGAGATCGT-AAAACGGCA
* * * *
69016266 TCGTTTTATAGCCTT-TTATTAGTGGCGCTTTTATAAACGCCACAAAAGATGTGAAA-TACCGGC
63 TC-ATTTACAGCCTTGTTATTAGTGGCGCTTCTATAAACACCACAAAAGATGT-AAATTACCGGC
* *
69016329 ATTTTCGCTAGAAACGCCACAAAAATCTATTAATAGATTGCAAAAACTACGTCGTTTATAGCC
126 ATTTTCACTAGAAACGCCACAAAAATCTATTAATAGATTGCAAAAACGACGTCGTTTATAGCC
* * *
69016392 TTCCTAATTAGTGGCGCTTTATAAAAATGCCACAAA
1 TT-GTTATTAGTGGCGCTTTTTAAAAATGCCACAAA
69016428 TATTTTTGAA
Statistics
Matches: 192, Mismatches: 24, Indels: 20
0.81 0.10 0.08
Matches are distributed among these distances:
187 30 0.16
188 88 0.46
189 19 0.10
190 55 0.29
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (188 bp):
TTGTTATTAGTGGCGCTTTTTAAAAATGCCACAAAACATCTATAAGAGATCGTAAAACGGCATCA
TTTACAGCCTTGTTATTAGTGGCGCTTCTATAAACACCACAAAAGATGTAAATTACCGGCATTTT
CACTAGAAACGCCACAAAAATCTATTAATAGATTGCAAAAACGACGTCGTTTATAGCC
Found at i:69018263 original size:24 final size:24
Alignment explanation
Indices: 69018236--69018283 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
69018226 AATTATTATT
* *
69018236 CAAATATTCTCGTTCGTTTTATCA
1 CAAATATTATCGTCCGTTTTATCA
69018260 CAAATATTATCGTCCGTTTTATCA
1 CAAATATTATCGTCCGTTTTATCA
69018284 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (24 bp):
CAAATATTATCGTCCGTTTTATCA
Found at i:69018523 original size:19 final size:19
Alignment explanation
Indices: 69018499--69018614 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 19
69018489 CAATCTTATT
69018499 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
69018518 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
69018537 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTTGGA
69018557 TTAATTAATAATATAATTTGGA
1 TTAA-T--TAATATAATTTGGA
* *
69018579 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
69018598 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
69018615 TTATAAATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
18 4 0.05
19 27 0.35
20 24 0.31
21 5 0.06
22 18 0.23
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:69018571 original size:22 final size:23
Alignment explanation
Indices: 69018533--69018584 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
69018523 TTATTTAAAT
*
69018533 ATTATTTAATTAATATAATTTGG
1 ATTAATTAATTAATATAATTTGG
69018556 ATTAATTAA-TAATATAATTTGG
1 ATTAATTAATTAATATAATTTGG
69018578 ATTAATT
1 ATTAATT
69018585 TATTTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATTAATTAATTAATATAATTTGG
Found at i:69018580 original size:61 final size:62
Alignment explanation
Indices: 69018499--69018614 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 62
69018489 CAATCTTATT
*
69018499 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATATAATTTGGATTAA
1 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
69018561 TTAA-TAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT
1 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT
69018615 TTATAAATAC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 49 0.92
62 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (62 bp):
TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
Found at i:69018614 original size:29 final size:29
Alignment explanation
Indices: 69018519--69018643 Score: 103
Period size: 29 Copynumber: 4.2 Consensus size: 29
69018509 TAATTTGGAT
*
69018519 TAATTTATTTAAATATTATTTAATTAATA
1 TAATTTATTTAAATATTATTAAATTAATA
* * * *
69018548 TAATTTGGA-TTAATTAATAATATAATTTGGAT-
1 TAATTT--ATTTAAAT-ATTAT-TAAATT-AATA
69018580 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTTATTTAAATATTATTAAATTAATA
* * *
69018609 TAATTT-TTATAAATACTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTAAATTAATA
69018638 TAATTT
1 TAATTT
69018644 TTTTTTCCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
28 4 0.05
29 40 0.53
30 10 0.13
31 10 0.13
32 10 0.13
33 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTAAATTAATA
Found at i:69018933 original size:9 final size:9
Alignment explanation
Indices: 69018916--69019036 Score: 113
Period size: 9 Copynumber: 13.7 Consensus size: 9
69018906 TATATACTTG
69018916 AACTTACAT
1 AACTTACAT
*
69018925 AACTCACAT
1 AACTTACAT
*
69018934 AACTCACAT
1 AACTTACAT
*
69018943 AACTCACAT
1 AACTTACAT
*
69018952 AACTCACAT
1 AACTTACAT
*
69018961 AACTTACAG
1 AACTTACAT
*
69018970 AAGTTACAT
1 AACTTACAT
*
69018979 AATTTACAT
1 AACTTACAT
69018988 AACTTACAT
1 AACTTACAT
69018997 AA--TACAT
1 AACTTACAT
* *
69019004 AA-ATATAT
1 AACTTACAT
* *
69019012 ATCATATCAT
1 AACTTA-CAT
69019022 AACTTACAT
1 AACTTACAT
69019031 AACTTA
1 AACTTA
69019037 ATTAGAGTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
7 7 0.07
8 5 0.05
9 79 0.81
10 6 0.06
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:69018934 original size:32 final size:31
Alignment explanation
Indices: 69018873--69018935 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
69018863 TTCTAAAAAT
* *
69018873 ATATATACTTGAATACATCACTAGTACATAAA
1 ATATATACTTGAATACATAACTA-CACATAAA
69018905 ATATATACTTGAACTTACATAACT-CACATAA
1 ATATATACTTGAA--TACATAACTACACATAA
69018936 CTCACATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.70
34 8 0.30
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (31 bp):
ATATATACTTGAATACATAACTACACATAAA
Found at i:69024548 original size:15 final size:15
Alignment explanation
Indices: 69024528--69024567 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
69024518 ACTTAGAGCA
*
69024528 GAGGCAGTAGAGAGG
1 GAGGCAGCAGAGAGG
69024543 GAGGCAGCAGAGAGG
1 GAGGCAGCAGAGAGG
* *
69024558 AAGCCAGCAG
1 GAGGCAGCAG
69024568 CAGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.47, T:0.03
Consensus pattern (15 bp):
GAGGCAGCAGAGAGG
Found at i:69024591 original size:21 final size:21
Alignment explanation
Indices: 69024543--69024597 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
69024533 AGTAGAGAGG
* *
69024543 GAGGCAGCAGAGAGGAAGCCA
1 GAGGCAGCAGCGAGAAAGCCA
*
69024564 GCA-GCAGCAGCGAGAAAGGCA
1 G-AGGCAGCAGCGAGAAAGCCA
69024585 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
69024598 TGACAGCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.42, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAAAGCCA
Found at i:69024873 original size:31 final size:31
Alignment explanation
Indices: 69024838--69024903 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
69024828 TTATATTTTT
* * *
69024838 ATGCTACATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTATTTTTGGTTGGATTTA
*
69024869 ATGCTATATTTGCTATTTTTGGTTGGATTTA
1 ATGCTACATTTGCTATTTTTGGTTGGATTTA
69024900 ATGC
1 ATGC
69024904 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTATTTTTGGTTGGATTTA
Found at i:69027972 original size:16 final size:17
Alignment explanation
Indices: 69027953--69027995 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
69027943 TTTTTAGATT
69027953 TTTTTAAA-ATAT-TATA
1 TTTTTAAATATATATA-A
69027969 TTTTTAAATATATATAA
1 TTTTTAAATATATATAA
69027986 TTTTTGAAAT
1 TTTTT-AAAT
69027996 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTTAAATATATATAA
Found at i:69027972 original size:17 final size:16
Alignment explanation
Indices: 69027953--69027995 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
69027943 TTTTTAGATT
69027953 TTTTTAAA-ATATTATA
1 TTTTTAAATATA-TATA
69027969 TTTTTAAATATATATAA
1 TTTTTAAATATATAT-A
69027986 TTTTTGAAAT
1 TTTTT-AAAT
69027996 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTTTAAATATATATA
Found at i:69028002 original size:18 final size:18
Alignment explanation
Indices: 69027964--69028049 Score: 50
Period size: 19 Copynumber: 4.7 Consensus size: 18
69027954 TTTTAAAATA
*
69027964 TTAT-ATTTTT-AAATAT
1 TTATAATTTTTGAAATTT
*
69027980 ATATAATTTTTGAAATTT
1 TTATAATTTTTGAAATTT
* *
69027998 TTATAAATATTTGGAATTT
1 TTAT-AATTTTTGAAATTT
* * **
69028017 TGAAAATTATTTTGATTTTTT
1 TTATAA-T-TTTTGA-AATTT
69028038 TTATAATTTTTG
1 TTATAATTTTTG
69028050 TTGAGAGAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
16 3 0.06
17 6 0.12
18 10 0.20
19 20 0.39
20 5 0.10
21 7 0.14
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TTATAATTTTTGAAATTT
Found at i:69028027 original size:19 final size:20
Alignment explanation
Indices: 69027984--69028028 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
69027974 AAATATATAT
*
69027984 AATT-TTTGAAATTTTTATA
1 AATTATTTGAAATTTTGATA
*
69028003 AA-TATTTGGAATTTTGA-A
1 AATTATTTGAAATTTTGATA
69028021 AATTATTT
1 AATTATTT
69028029 TGATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (20 bp):
AATTATTTGAAATTTTGATA
Found at i:69028847 original size:14 final size:14
Alignment explanation
Indices: 69028823--69028859 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
69028813 TAAAATTAAA
69028823 TTTTA-TTTTTTTC
1 TTTTATTTTTTTTC
69028836 TTTTATTTTTTTTC
1 TTTTATTTTTTTTC
69028850 TTTTATTTTT
1 TTTTATTTTT
69028860 CTTCATCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTATTTTTTTTC
Found at i:69031041 original size:23 final size:23
Alignment explanation
Indices: 69030989--69031039 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
69030979 GAATTTTTCT
69030989 TTTA-TTATTATTTACTTACTTA
1 TTTATTTATTATTTACTTACTTA
*
69031011 TTTATTTATTATTGT-CTTGCTT-
1 TTTATTTATTATT-TACTTACTTA
69031033 TTTATTT
1 TTTATTT
69031040 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 11 0.42
23 14 0.54
24 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTATTTATTATTTACTTACTTA
Found at i:69037405 original size:27 final size:28
Alignment explanation
Indices: 69037368--69037680 Score: 305
Period size: 27 Copynumber: 11.6 Consensus size: 28
69037358 TAATAAAGAG
69037368 AAATTACCGAAATACCCCT-AATTTGTA
1 AAATTACCGAAATACCCCTCAATTTGTA
* *
69037395 AAATTATCGAAATA-CCCTCAA-TTGTG
1 AAATTACCGAAATACCCCTCAATTTGTA
*
69037421 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCTCAATTTGTA
* * *
69037448 AAATTACCAAAATACCCC-CGATTTGTG
1 AAATTACCGAAATACCCCTCAATTTGTA
* *
69037475 AAATTACC-AAA-ACACCTTCGATTTGTA
1 AAATTACCGAAATAC-CCCTCAATTTGTA
*
69037502 AAATTACCGAAACA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCTCAATTTGTA
69037529 AAATTACC-AAA-ACACCCTCAATTTGTA
1 AAATTACCGAAATAC-CCCTCAATTTGTA
* * * *
69037556 AAATTACCGAAACA-TCTTCGATTTGTA
1 AAATTACCGAAATACCCCTCAATTTGTA
*
69037583 AAATTACCGAAATA-CCCTCGATTTGTA
1 AAATTACCGAAATACCCCTCAATTTGTA
* * *
69037610 AAATTACCGAAACACTCCT-ACTTTGTA
1 AAATTACCGAAATACCCCTCAATTTGTA
* * * *
69037637 AAATTATCGAAATACCCTTGTAA--TATA
1 AAATTACCGAAATACCCCT-CAATTTGTA
69037664 AAATTACCGAAATACCC
1 AAATTACCGAAATACCC
69037681 TTGTAGTGTA
Statistics
Matches: 242, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
25 3 0.01
26 35 0.14
27 189 0.78
28 12 0.05
29 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (28 bp):
AAATTACCGAAATACCCCTCAATTTGTA
Found at i:69037535 original size:81 final size:81
Alignment explanation
Indices: 69037368--69037681 Score: 364
Period size: 81 Copynumber: 3.9 Consensus size: 81
69037358 TAATAAAGAG
* * * * * * * *
69037368 AAATTACCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCTC-AATTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCCAATTTGTAAAATTACCGAAACACCTTCGATTTGTAAAATTACCGAA
69037432 ATACCCTCAATTTGTA
66 ATACCCTCAATTTGTA
* * *
69037448 AAATTACCAAAATACCCCCGATTTGTGAAATTACCAAAACACCTTCGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCCCAATTTGTAAAATTACCGAAACACCTTCGATTTGTAAAATTACCGAA
*
69037513 ACACCCTCAATTTGTA
66 ATACCCTCAATTTGTA
* * *
69037529 AAATTACCAAAACACCCTCAATTTGTAAAATTACCGAAACATCTTCGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCCCAATTTGTAAAATTACCGAAACACCTTCGATTTGTAAAATTACCGAA
*
69037594 ATACCCTCGATTTGTA
66 ATACCCTCAATTTGTA
* * * * * * * * *
69037610 AAATTACCGAAACACTCCTACTTTGTAAAATTATCGAAATACCCTT-G-TAATATAAAATTACCG
1 AAATTACCAAAATACCCCCAATTTGTAAAATTACCGAAACA-CCTTCGAT-TTGTAAAATTACCG
69037673 AAATACCCT
64 AAATACCCT
69037682 TGTAGTGTAA
Statistics
Matches: 201, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
80 39 0.19
81 159 0.79
82 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCCCAATTTGTAAAATTACCGAAACACCTTCGATTTGTAAAATTACCGAA
ATACCCTCAATTTGTA
Found at i:69037712 original size:27 final size:27
Alignment explanation
Indices: 69037634--69037724 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
69037624 CTCCTACTTT
* * **
69037634 GTAAAATTATCGAAATACCCTTGTAAT
1 GTAAAATGACCGAAATACCCTTGTAGG
* * *
69037661 ATAAAATTACCGAAATACCCTTGTAGT
1 GTAAAATGACCGAAATACCCTTGTAGG
*
69037688 GTAAAATGACCGACATA-CCTCTGTAGG
1 GTAAAATGACCGAAATACCCT-TGTAGG
69037715 GTAAAATGAC
1 GTAAAATGAC
69037725 TATTTTTCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCTTGTAGG
Found at i:69042060 original size:19 final size:19
Alignment explanation
Indices: 69042036--69042080 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
69042026 CGACGTCTTT
* *
69042036 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
69042055 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
69042074 TGCATTA
1 TGCATTA
69042081 AAGTCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:69046881 original size:25 final size:25
Alignment explanation
Indices: 69046836--69046883 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
69046826 ACAACTTCTA
* *
69046836 AAGAAAACTCAAGAGAGAATTCTTG
1 AAGAAAACCCAAGAGAAAATTCTTG
69046861 AAGAAAACCCCAA-AGAAAATTCT
1 AAGAAAA-CCCAAGAGAAAATTCT
69046884 GCACTCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (25 bp):
AAGAAAACCCAAGAGAAAATTCTTG
Found at i:69054302 original size:28 final size:27
Alignment explanation
Indices: 69054261--69054330 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
69054251 AATTGTTTTG
*
69054261 TATATTACTAATTTTAA-ATTTCCTTTCA
1 TATATTACTTATTTTAAGA-TTCCTTT-A
* *
69054289 TATAATACTTATTTTAAGATTCGTTTA
1 TATATTACTTATTTTAAGATTCCTTTA
69054316 TATATTA-TTATTTTA
1 TATATTACTTATTTTA
69054331 TATATTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.22
27 7 0.19
28 21 0.57
29 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATTACTTATTTTAAGATTCCTTTA
Found at i:69060255 original size:24 final size:24
Alignment explanation
Indices: 69060227--69060277 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
69060217 TTAGCAAGTC
*
69060227 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
* *
69060251 AAATATATTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
69060275 AAA
1 AAA
69060278 CCTTCTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATGCT
Found at i:69062224 original size:24 final size:24
Alignment explanation
Indices: 69062196--69062244 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
69062186 TTAGCAAGTC
* *
69062196 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACAAATAAATGCT
* *
69062220 AAATATATTATACAAATAAATGCT
1 AAATAAACTATACAAATAAATGCT
69062244 A
1 A
69062245 CTTCTAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACAAATAAATGCT
Found at i:69063188 original size:50 final size:50
Alignment explanation
Indices: 69063129--69063240 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
69063119 GATAATTTGG
* * *
69063129 CACAAAGGCTTTCTAGAAAATTCACCATAAAGGCTTTCCAAATGATACGC
1 CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
* ** * **
69063179 CACAGAGGCTTTCCAGGGAATTCATCACAAAAGCTTTCCAAATTCTACGC
1 CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
69063229 CACAAAGGCTTT
1 CACAAAGGCTTT
69063241 TGAGAGTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (50 bp):
CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
Found at i:69064037 original size:24 final size:24
Alignment explanation
Indices: 69064010--69064060 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
69064000 TTTATATTAG
*
69064010 AATCCTCATTATAGGCATTTTACT
1 AATCCTCATTATAGACATTTTACT
69064034 AATCCTCATTATAGACATTTTACT
1 AATCCTCATTATAGACATTTTACT
69064058 AAT
1 AAT
69064061 ATTTCAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (24 bp):
AATCCTCATTATAGACATTTTACT
Found at i:69066706 original size:22 final size:22
Alignment explanation
Indices: 69066668--69066725 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
69066658 ATATTTTTAC
* * *
69066668 TATTATCTATTATTATCATATT
1 TATTATATATTTTTATCATATA
*
69066690 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTT-TATCATATA
69066712 TATTTATATATTTT
1 TA-TTATATATTTT
69066726 ATTTTTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 15 0.50
23 4 0.13
24 6 0.20
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATATATTTTTATCATATA
Found at i:69066937 original size:3 final size:3
Alignment explanation
Indices: 69066927--69066978 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
69066917 TTTTTTTTCG
* * * *
69066927 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TAT TGT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
69066974 TAT TA
1 TAT TA
69066979 ATGTATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:69067105 original size:27 final size:27
Alignment explanation
Indices: 69067072--69067136 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
69067062 TCCTAATATA
*
69067072 TATATTATGTATA-CATTTTTTAAATAC
1 TATATTATGTATATAATTTTTT-AATAC
*
69067099 TATATTATATATATAATTTTTTAATAC
1 TATATTATGTATATAATTTTTTAATAC
*
69067126 CATATTATGTA
1 TATATTATGTA
69067137 CATATTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (27 bp):
TATATTATGTATATAATTTTTTAATAC
Found at i:69067181 original size:12 final size:12
Alignment explanation
Indices: 69067166--69067277 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
69067156 TTTTTATCCC
69067166 TATTATATTTAT
1 TATTATATTTAT
69067178 TATTA-A--TAT
1 TATTATATTTAT
*
69067187 TAGTATATATT-T
1 TATTATAT-TTAT
*
69067199 TATTATACGTGTA-
1 TATTATA--TTTAT
69067212 TATATATACTTT-T
1 TAT-TATA-TTTAT
69067225 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
69067240 T-TT-TATATAT
1 TATTATATTTAT
*
69067250 CATTATATTTAT
1 TATTATATTTAT
*
69067262 TATTATACTTAT
1 TATTATATTTAT
69067274 TATT
1 TATT
69067278 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 34 0.45
13 17 0.22
14 8 0.11
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:69067244 original size:18 final size:18
Alignment explanation
Indices: 69067221--69067279 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
69067211 ATATATATAC
*
69067221 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
69067239 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
69067257 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
69067276 TTTT
1 TTTT
69067280 CACTATTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:69067379 original size:20 final size:20
Alignment explanation
Indices: 69067337--69067382 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
69067327 GGTATACATA
* *
69067337 TATTTTTTTGTACATATTGT
1 TATTTTTTTGTACACATTAT
69067357 TATTTTTTT-TACACATATAT
1 TATTTTTTTGTACACAT-TAT
69067377 TATTTT
1 TATTTT
69067383 ATTATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTTTTTTGTACACATTAT
Found at i:69071087 original size:22 final size:22
Alignment explanation
Indices: 69071061--69071105 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
69071051 ATTCATGTCT
69071061 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
69071083 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
69071105 A
1 A
69071106 TTCATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:69078968 original size:40 final size:40
Alignment explanation
Indices: 69078920--69079104 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
69078910 GCTACTCGTT
*
69078920 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACA
* * * *
69078960 CAATTGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * *
69079000 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * * *
69079039 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CA
69079080 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69079105 CATCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 74 0.62
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
Found at i:69079047 original size:79 final size:81
Alignment explanation
Indices: 69078920--69079102 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 81
69078910 GCTACTCGTT
* ** * *
69078920 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAATTGCCTTTGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCC-TTCGGATCTTAACCCG
* *
69078984 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
69079000 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
69079063 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
69079080 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
69079103 GACATCATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
78 6 0.07
79 49 0.57
80 31 0.36
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:69082632 original size:90 final size:88
Alignment explanation
Indices: 69082523--69082771 Score: 340
Period size: 88 Copynumber: 2.8 Consensus size: 88
69082513 TCTATTTTTC
* *
69082523 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTTCACATGCCGAGGTATTTCCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATGCCGAGGTATTTTCAAAT
69082588 TCTGTTTTCAAACTATGTTTTCCA
65 TCTGTTTTCAAACTATGTTTTCCA
* *
69082612 AAAAACTCAACTCATATTGCGAGAGGTGAGTTGAACTTTGG--ACATGCCGAGGTATTTTCAAAT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAAT
***
69082675 TCTGTTTTTCAGTTTATGTTTTCCAA
65 TCTG-TTTTCAAACTATGTTTTCC-A
* * * *
69082701 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG-GTCACATGCCGAGGTATTTTCAAAT
69082766 TCTGTT
65 TCTGTT
69082772 CGTCAAAAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
87 25 0.18
88 48 0.34
89 11 0.08
90 34 0.24
91 23 0.16
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAATT
CTGTTTTCAAACTATGTTTTCCA
Found at i:69082955 original size:148 final size:148
Alignment explanation
Indices: 69082702--69083258 Score: 624
Period size: 148 Copynumber: 3.7 Consensus size: 148
69082692 GTTTTCCAAA
* **
69082702 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTATTTTCAATTT
* *
69082767 CTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGT
64 CTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGT
69082831 ATTTTCAATTCCTGTTTTTT
129 ATTTTCAATTCCTGTTTTTT
* *
69082851 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGTTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
* * *
69082915 TGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTA
65 TGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTA
* **
69082980 TTTTCAATTTCTGTTTTCA
130 TTTTCAATTCCTGTTTTTT
* * * *
69082999 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* * *
69083064 G-TCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACG-CTGAGGT
66 GTTC-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC-GAGGT
*
69083125 AATTTT-AATTTTTGTTCCTCAATTTATGTTT
129 -ATTTTCAA------TTCCT---GTT-T-TTT
* * * *
69083156 CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGTTATTTTTAAT
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
* *
69083221 TTCTGTTTTTCATCAAAATCAACTCATATTGCGAGAGG
62 TTCTGTTCTTCA-AAAAATCAACTCATATTGCGAGAGG
69083259 GTCACGGGCC
Statistics
Matches: 348, Mismatches: 37, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
146 11 0.03
147 35 0.10
148 173 0.50
149 35 0.10
152 4 0.01
155 2 0.01
156 1 0.00
157 1 0.00
161 62 0.18
162 24 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (148 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTAT
TTTCAATTCCTGTTTTTT
Found at i:69083098 original size:222 final size:222
Alignment explanation
Indices: 69082700--69083258 Score: 678
Period size: 222 Copynumber: 2.5 Consensus size: 222
69082690 ATGTTTTCCA
*
69082700 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGTATTTTCAAT
* * ** *
69082765 TTCTGTTCGTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCACATGTCGAGG
66 TTCTGTTCGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAG-CACACGTCGAGG
** *
69082830 TATTTTCAATTCCTGTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
130 TATTTTCAATTCCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
69082895 GTTGAGGTAATTTTAATTTCTGTTCATC
195 GCTGAGGTAATTTTAATTTCTGTTCATC
* * *
69082923 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGTATTTTCAAT
* *
69082988 TTCTGTT-TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAG-ACACGTTGAGGT
66 TTCTGTTCGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGCACACGTCGAGGT
*
69083051 ATTTTCAAATT-CTGTCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGAC
131 ATTTTC-AATTCCTGT-TTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
69083115 ACGCTGAGGTAATTTTAATTTTTGTTCCTCAATTTATGTTTC
193 ACGCTGAGGTAATTTTAATTTCTG-T--TC-----A----TC
* ** * * *
69083157 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-A-GGACACGCTAAGTTATTTTTAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGTATTTTCAA
** *
69083220 TTTCTGTTTTTCATCAAAATCAACTCATATTGCGAGAGG
65 TTTCTGTTCGTCA--AAAATCAACTCATATTACGAGAGG
69083259 GTCACGGGCC
Statistics
Matches: 290, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
220 20 0.07
221 7 0.02
222 101 0.35
223 69 0.24
225 2 0.01
230 1 0.00
233 23 0.08
234 6 0.02
235 38 0.13
236 23 0.08
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (222 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGTATTTTCAAT
TTCTGTTCGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGCACACGTCGAGGT
ATTTTCAATTCCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTTAATTTCTGTTCATC
Found at i:69083110 original size:74 final size:73
Alignment explanation
Indices: 69082680--69083140 Score: 547
Period size: 74 Copynumber: 6.2 Consensus size: 73
69082670 CAAATTCTGT
* * * **
69082680 TTTTCAGTTTATGTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTCTGTTTT-C-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
*
69082745 CACGCTGAGGTA
62 CACGTTGAGGTA
* * *
69082757 TTTTCAATTTCTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
* *
69082821 ATGTCGAGGTA
63 ACGTTGAGGTA
* ** *
69082832 TTTTCAATTCCTGTTTT-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
69082896 TTGAGGTAA
66 TTGAGGT-A
*
69082905 TTTT-AATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 TTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
*
69082968 CATGTTGAGGTA
62 CACGTTGAGGTA
* *
69082980 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
69083044 TTGAGGTA
66 TTGAGGTA
* *
69083052 TTTTCAAATTCTGTCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
69083117 GCTGAGGTAA
65 GTTGAGGT-A
*
69083127 TTTT-AATTTTTGTT
1 TTTTCAATTTCTGTT
69083141 CCTCAATTTA
Statistics
Matches: 337, Mismatches: 32, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
72 45 0.13
73 13 0.04
74 170 0.50
75 72 0.21
76 22 0.07
77 14 0.04
78 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
TTGAGGTA
Found at i:69083218 original size:87 final size:86
Alignment explanation
Indices: 69083067--69083227 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 86
69083057 AAATTCTGTC
* *
69083067 TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTTA
*
69083132 ATTTTTGTTCCTCAATTTATG
66 ATTTCTGTTCCTCAATTTATG
* * *
69083153 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGTTATTTTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTT
69083218 AATTTCTGTT
65 AATTTCTGTT
69083228 TTTCATCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 4 0.06
87 64 0.94
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (86 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTTA
ATTTCTGTTCCTCAATTTATG
Found at i:69083354 original size:45 final size:45
Alignment explanation
Indices: 69083286--69083375 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
69083276 GAATAAAGAT
* * *
69083286 TGGAGTTGATCGAAGACACCAGATTTTGTCTCTT-TGAAGTTGCAG
1 TGGAGCTGATCGAAGACACCAGATCTTGCCT-TTCTGAAGTTGCAG
* * *
69083331 TGGAGCTGATCGAGGATATCAGATCTTGCCTTTCTGAAGTTGCAG
1 TGGAGCTGATCGAAGACACCAGATCTTGCCTTTCTGAAGTTGCAG
69083376 AAGAGAAGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (45 bp):
TGGAGCTGATCGAAGACACCAGATCTTGCCTTTCTGAAGTTGCAG
Found at i:69083565 original size:42 final size:42
Alignment explanation
Indices: 69083483--69083565 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
69083473 CCACAAATCT
* ** *
69083483 CATATCCTTGAAGTTACGTTGGAGTAGATTGAAGCTACAAGG
1 CATATCCTTGAAGTTACGGTGGAGTAGATCAAAGCAACAAGG
* *
69083525 CATAT-CTCTGAAGTTGCGGTGGAGTGGATCAAAGCAACAAG
1 CATATCCT-TGAAGTTACGGTGGAGTAGATCAAAGCAACAAG
69083566 ATACAGTGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (42 bp):
CATATCCTTGAAGTTACGGTGGAGTAGATCAAAGCAACAAGG
Found at i:69083983 original size:16 final size:15
Alignment explanation
Indices: 69083941--69083984 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
69083931 TGACCTGTAG
69083941 CACTTGCTCCATCGC
1 CACTTGCTCCATCGC
69083956 CAC-TGTCTCCATCAGC
1 CACTTG-CTCCATC-GC
*
69083972 CACTTGCACCATC
1 CACTTGCTCCATC
69083985 TCATCGTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 11 0.44
17 2 0.08
ACGTcount: A:0.18, C:0.45, G:0.11, T:0.25
Consensus pattern (15 bp):
CACTTGCTCCATCGC
Found at i:69084296 original size:10 final size:10
Alignment explanation
Indices: 69084281--69084318 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
69084271 ACATATTTTT
69084281 TAAAAAATAA
1 TAAAAAATAA
69084291 TAAAAAAT--
1 TAAAAAATAA
*
69084299 CAAAAAATAA
1 TAAAAAATAA
69084309 TAAAAAATAA
1 TAAAAAATAA
69084319 AAATACCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.29
10 17 0.71
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:69084305 original size:18 final size:17
Alignment explanation
Indices: 69084281--69084321 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
69084271 ACATATTTTT
69084281 TAAAAAATAATAAAAAA
1 TAAAAAATAATAAAAAA
69084298 TCAAAAAATAATAAAAAA
1 T-AAAAAATAATAAAAAA
69084316 TAAAAA
1 TAAAAA
69084322 TACCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (17 bp):
TAAAAAATAATAAAAAA
Found at i:69084969 original size:22 final size:23
Alignment explanation
Indices: 69084931--69084990 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
69084921 ATATTTTTGC
* * *
69084931 TATTATCTATTAT-TATCATATT
1 TATTATATATTTTCTATCATATA
*
69084953 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTTCTATCATATA
69084975 TATTTATATATTTTCT
1 TA-TTATATATTTTCT
69084991 TTTTAGTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.16
22 15 0.47
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATATATTTTCTATCATATA
Found at i:69085204 original size:3 final size:3
Alignment explanation
Indices: 69085192--69085246 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
69085182 TTTGTTTTTG
* * *
69085192 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
69085239 TAA TAT TA
1 TAT TAT TA
69085247 GTGTATATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:69085461 original size:39 final size:38
Alignment explanation
Indices: 69085366--69085462 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
69085356 TTTAAATACT
*
69085366 ATATTATATATATTTTAATACCATATTATGTACATATTA
1 ATATTATATATATTTT-ATACCATATTATATACATATTA
* * * **
69085405 TTATTATATCTATTTT-TATCCCTATTATATTTATTATTA
1 ATATTATATATATTTTATA-CCATATTATATACA-TATTA
69085444 ATATTAGTATATATTTTAT
1 ATATTA-TATATATTTTAT
69085463 TATGCGTGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
37 2 0.04
38 10 0.22
39 24 0.52
40 9 0.20
41 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (38 bp):
ATATTATATATATTTTATACCATATTATATACATATTA
Found at i:69085505 original size:18 final size:18
Alignment explanation
Indices: 69085482--69085540 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
69085472 ATATATATAC
*
69085482 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
69085500 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
69085518 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
69085537 TTTT
1 TTTT
69085541 CACTATTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:69089379 original size:49 final size:49
Alignment explanation
Indices: 69089323--69089568 Score: 303
Period size: 49 Copynumber: 5.0 Consensus size: 49
69089313 GTAGACAAGG
* * *
69089323 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
69089372 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * * *
69089422 CCATCTGATACACGTAATAGCCTGCACTTAGTACTACACACGTGATCAAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
69089472 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAA
1 -TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
69089522 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
69089569 TCACTATAGA
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 83 0.50
50 46 0.28
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:69089845 original size:27 final size:27
Alignment explanation
Indices: 69089815--69089868 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
69089805 TCATACAACC
* *
69089815 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
69089842 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
69089869 TCACATTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:69095196 original size:49 final size:49
Alignment explanation
Indices: 69095124--69095297 Score: 222
Period size: 49 Copynumber: 3.5 Consensus size: 49
69095114 TGAGGTCACG
* *
69095124 TGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
* * * ** * *
69095173 TGTGTGGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
* * * *
69095223 TGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
69095272 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
69095298 TGTGTACCAA
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 63 0.62
50 39 0.38
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
Found at i:69095287 original size:99 final size:99
Alignment explanation
Indices: 69095116--69095297 Score: 301
Period size: 99 Copynumber: 1.8 Consensus size: 99
69095106 ATCTATAGTG
* * * * * * *
69095116 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATAATTGGTCGCATGTGTGGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
69095181 ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
69095215 AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
69095280 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
69095298 TGTGTACCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (99 bp):
AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
Found at i:69100497 original size:19 final size:19
Alignment explanation
Indices: 69100473--69100512 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
69100463 AAGGAGAAAA
69100473 ATCTTACTATGTTCATAAC
1 ATCTTACTATGTTCATAAC
*
69100492 ATCTTACTTTGTTCATAAC
1 ATCTTACTATGTTCATAAC
69100511 AT
1 AT
69100513 TTGCACCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (19 bp):
ATCTTACTATGTTCATAAC
Found at i:69101954 original size:127 final size:127
Alignment explanation
Indices: 69101805--69102036 Score: 374
Period size: 127 Copynumber: 1.8 Consensus size: 127
69101795 ACCTTTCGAG
* *
69101805 AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATTGTACCCTAATGTGCTGGGTTTTGATTT
1 AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
*
69101870 TCCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
66 ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
* * * *
69101932 AACAAGGCAATATTTTGTGTTTGGAAATTTGAGAAATCGTGCCCTAATGTGCTGGGTTTCGGTTT
1 AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
* * *
69101997 ACTGTTTGACCAAATAACCGAATATCCTTTTAAAATTTCA
66 ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCA
69102037 ATGCATGCGT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 95 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (127 bp):
AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
Found at i:69105454 original size:12 final size:12
Alignment explanation
Indices: 69105424--69105473 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
69105414 AGAAAGGTTG
69105424 GAACAAATGC-A
1 GAACAAATGCAA
*
69105435 GAAGCAGATGCAA
1 GAA-CAAATGCAA
*
69105448 GAACAGATGCAA
1 GAACAAATGCAA
*
69105460 GCACAAATGCAA
1 GAACAAATGCAA
69105472 GA
1 GA
69105474 GCAACTGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 3 0.09
12 26 0.79
13 4 0.12
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.08
Consensus pattern (12 bp):
GAACAAATGCAA
Found at i:69105754 original size:84 final size:84
Alignment explanation
Indices: 69105613--69105774 Score: 263
Period size: 84 Copynumber: 1.9 Consensus size: 84
69105603 GAATGACCAT
* *
69105613 GAAGATCCTCTCTACCCCCCTGGTTTCACCTCGACAAATGCTCAAACGCAACCTGAGATGCACAC
1 GAAGATCCTCTCTACCCCCCTGGTTTCACCCCGAAAAATGCTCAAACGCAACCTGAGATGCACAC
69105678 GCGAAGGCCATCCATTACA
66 GCGAAGGCCATCCATTACA
** *
69105697 GAAGATCCTCTCTACCCTTCTAGG-TTCACCCCGAAAAATGCTCAAACGTAACCTGAGATGCACA
1 GAAGATCCTCTCTACCCCCCT-GGTTTCACCCCGAAAAATGCTCAAACGCAACCTGAGATGCACA
69105761 CGCGAAGGCCATCC
65 CGCGAAGGCCATCC
69105775 GTTATATTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
84 70 0.97
85 2 0.03
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (84 bp):
GAAGATCCTCTCTACCCCCCTGGTTTCACCCCGAAAAATGCTCAAACGCAACCTGAGATGCACAC
GCGAAGGCCATCCATTACA
Found at i:69109386 original size:40 final size:40
Alignment explanation
Indices: 69109333--69109725 Score: 660
Period size: 40 Copynumber: 9.8 Consensus size: 40
69109323 CAGCCGCAAA
* * * *
69109333 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
69109373 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
69109413 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
69109453 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
69109493 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
69109533 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
69109573 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
69109613 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
69109653 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
69109693 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
69109726 TCCAATGTTC
Statistics
Matches: 331, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:69118441 original size:7 final size:7
Alignment explanation
Indices: 69118429--69118460 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
69118419 AACAATAGCG
69118429 ATTATTT
1 ATTATTT
69118436 ATTATTT
1 ATTATTT
69118443 ATTATTT
1 ATTATTT
69118450 ATTATTT
1 ATTATTT
69118457 ATTA
1 ATTA
69118461 ATAAAAAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTATTT
Found at i:69118579 original size:24 final size:24
Alignment explanation
Indices: 69118552--69118602 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
69118542 GTTCAAGGTC
69118552 GTCGTTTCGGACTTCGATTTCCAA
1 GTCGTTTCGGACTTCGATTTCCAA
69118576 GTCGTTTCGGACTTCGATTTCCAA
1 GTCGTTTCGGACTTCGATTTCCAA
69118600 GTC
1 GTC
69118603 TACATATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (24 bp):
GTCGTTTCGGACTTCGATTTCCAA
Found at i:69122812 original size:40 final size:39
Alignment explanation
Indices: 69122761--69122926 Score: 170
Period size: 40 Copynumber: 4.2 Consensus size: 39
69122751 AAATTATACT
* * * *
69122761 CTGTTTTTACTTTGGTACCCCTGATTGTACATACGTGCTC
1 CTGTTTGTACTTCGGTACCCCTAATTGCACATACGTGC-C
* * *
69122801 CTGTTTGTACTTCGGTACCTCTAATTACACATACATGCCC
1 CTGTTTGTACTTCGGTACCCCTAATTGCACATACGTG-CC
*
69122841 CTGTTTGTACTTCGGTACCCCTAATTTCACATACGTGCC
1 CTGTTTGTACTTCGGTACCCCTAATTGCACATACGTGCC
* * * * * *
69122880 CATTTTTTTACTTCAGTATCCCTGATTGCACTTACGTGCC
1 C-TGTTTGTACTTCGGTACCCCTAATTGCACATACGTGCC
69122920 CTTGTTT
1 C-TGTTT
69122927 ACATTTCAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.03
40 101 0.96
41 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.40
Consensus pattern (39 bp):
CTGTTTGTACTTCGGTACCCCTAATTGCACATACGTGCC
Found at i:69128231 original size:46 final size:47
Alignment explanation
Indices: 69128161--69128287 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 47
69128151 TGATATGTGT
* *
69128161 GCTAGTGTAAGACATGTATAGGACATGCATCGGCTACATTATGA-GAG-
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGC--CATTAAGATGAGA
69128208 GC-AGTGTAAGACATGTATGGGACATGCATCGG-CATTAAGATGAGA
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCATTAAGATGAGA
* *
69128253 GCTAGTGTAAGACATGTCTGGGACATTCATCGGCC
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCC
69128288 TCGAGATATA
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
43 7 0.10
44 3 0.04
45 2 0.03
46 57 0.79
47 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTATGGGACATGCATCGGCCATTAAGATGAGA
Found at i:69128405 original size:49 final size:49
Alignment explanation
Indices: 69128347--69128515 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 49
69128337 TGTTGTGTGT
* * *
69128347 CAGTTTAAGACCTGTCTGGGACATGACATCAACAC-CGATAGATGAGAGC
1 CAGTATAAGACCTGTCTGGGACATGGCATCAAC-CTCGATAGATGAAAGC
* * *
69128396 CAGTATAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGT
1 CAGTATAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * * * * * **
69128445 CAATGTAAGACTTGTTTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTATAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
*
69128492 CAGTGTAAGACCATGTCTGGGACA
1 CAGTATAAGACC-TGTCTGGGACA
69128516 CAACGTCGGC
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
47 14 0.14
48 11 0.11
49 74 0.75
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
CAGTATAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:69128415 original size:141 final size:146
Alignment explanation
Indices: 69128245--69128515 Score: 351
Period size: 142 Copynumber: 1.9 Consensus size: 146
69128235 ATCGGCATTA
* * * * *
69128245 AGATGAGAGCTAGTGTAAGACATGTCTGGGACAT-TCATCGGCCTCGAGATAT-ACAAG-CTAGT
1 AGATGAGAGCCAGTATAAGACATGTCTGGGACATGGCATCGACCTCGAGATATGA-AAGTC-AAT
* * * *
69128307 GTAAGACTTGTTTGAGACATGGCGTC-AGC-TTGTTGTG-T-GTCAGTTTAAGACC-TGTCTGGG
64 GTAAGACTTGTTTGAGACATGGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGG
69128367 ACATGACATCAACACCGAT
128 ACATGACATCAACACCGAT
* *
69128386 AGATGAGAGCCAGTATAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTCAATGT
1 AGATGAGAGCCAGTATAAGACATGTCTGGGACATGGCATCGACCTCGAGATATGAAAGTCAATGT
*
69128451 AAGACTTGTTTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACA
66 AAGACTTGTTTGAGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACA
69128516 CAACGTCGGC
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
141 31 0.28
142 45 0.41
143 10 0.09
144 1 0.01
145 12 0.11
146 11 0.10
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (146 bp):
AGATGAGAGCCAGTATAAGACATGTCTGGGACATGGCATCGACCTCGAGATATGAAAGTCAATGT
AAGACTTGTTTGAGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACA
TGACATCAACACCGAT
Found at i:69132968 original size:21 final size:20
Alignment explanation
Indices: 69132938--69132976 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
69132928 CGCGTCTACT
69132938 CAAGGCAATTATAATTCAAGA
1 CAAGGCAATT-TAATTCAAGA
* *
69132959 CAAGGGAATTTTATTCAA
1 CAAGGCAATTTAATTCAA
69132977 CAACAACAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
CAAGGCAATTTAATTCAAGA
Found at i:69146201 original size:16 final size:16
Alignment explanation
Indices: 69146180--69146210 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
69146170 GTAACGCCCT
69146180 AAAAATCTCGAAATCC
1 AAAAATCTCGAAATCC
69146196 AAAAATCTCGAAATC
1 AAAAATCTCGAAATC
69146211 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATCTCGAAATCC
Found at i:69147443 original size:8 final size:8
Alignment explanation
Indices: 69147430--69147476 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
69147420 GTAGATCGGT
*
69147430 AAAAGCTG
1 AAAAGCCG
69147438 AAAAGCCG
1 AAAAGCCG
*
69147446 AAATGCCG
1 AAAAGCCG
*
69147454 AAAAGTC-
1 AAAAGCCG
69147461 AAAATGCCG
1 AAAA-GCCG
69147470 AAAAGCC
1 AAAAGCC
69147477 TAAAGTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
7 4 0.12
8 24 0.75
9 4 0.12
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:69147458 original size:16 final size:16
Alignment explanation
Indices: 69147437--69147476 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
69147427 GGTAAAAGCT
*
69147437 GAAAAGCCGAAATGCC
1 GAAAAGCCAAAATGCC
*
69147453 GAAAAGTCAAAATGCC
1 GAAAAGCCAAAATGCC
69147469 GAAAAGCC
1 GAAAAGCC
69147477 TAAAGTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.07
Consensus pattern (16 bp):
GAAAAGCCAAAATGCC
Found at i:69147738 original size:29 final size:29
Alignment explanation
Indices: 69147696--69147751 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
69147686 CATGAGTACA
*
69147696 AGGTGATTGGGGCCTAACGGGCCATATAG
1 AGGTGATTGGGGCCTAACAGGCCATATAG
* *
69147725 AGGTGATTTGGGCCTAATAGGCCATAT
1 AGGTGATTGGGGCCTAACAGGCCATAT
69147752 GAATATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
AGGTGATTGGGGCCTAACAGGCCATATAG
Found at i:69147814 original size:29 final size:29
Alignment explanation
Indices: 69147705--69147814 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
69147695 AAGGTGATTG
* * * *
69147705 GGGCCTAACGGGCCATATAG-AGGTGATTT
1 GGGCCTGATGGGCCATAT-GAATGTGAATT
* * *
69147734 GGGCCTAATAGGCCATATGAATATGAATT
1 GGGCCTGATGGGCCATATGAATGTGAATT
69147763 GGGCCTGATGGGCCATATGAATGTGAATT
1 GGGCCTGATGGGCCATATGAATGTGAATT
*
69147792 GGGCGTGATGGGCCATATGAATG
1 GGGCCTGATGGGCCATATGAATG
69147815 AGATGGGCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 1 0.01
29 70 0.99
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
GGGCCTGATGGGCCATATGAATGTGAATT
Found at i:69160163 original size:17 final size:19
Alignment explanation
Indices: 69160141--69160175 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
69160131 AAATTTAATG
69160141 ATTAAA-AGAGAC-AAAAA
1 ATTAAATAGAGACTAAAAA
69160158 ATTAAATAGAGACTAAAA
1 ATTAAATAGAGACTAAAA
69160176 TAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (19 bp):
ATTAAATAGAGACTAAAAA
Found at i:69164559 original size:21 final size:21
Alignment explanation
Indices: 69164533--69164574 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
69164523 TTATACCTTA
69164533 ATTTATTCTAATAGTGTATAT
1 ATTTATTCTAATAGTGTATAT
69164554 ATTTATTCTAATAGTGTATAT
1 ATTTATTCTAATAGTGTATAT
69164575 TGTAGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
ATTTATTCTAATAGTGTATAT
Found at i:69164775 original size:68 final size:68
Alignment explanation
Indices: 69164666--69164808 Score: 277
Period size: 68 Copynumber: 2.1 Consensus size: 68
69164656 ACACTCCTCG
*
69164666 TAAAATTAAAGTATTTTATTGACAGTGTTTTATATACAAACATAAAATATAAATATACTAAATGA
1 TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
69164731 TTT
66 TTT
69164734 TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
1 TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
69164799 TTT
66 TTT
69164802 TAAAATT
1 TAAAATT
69164809 TGATTTTAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (68 bp):
TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
TTT
Found at i:69166567 original size:36 final size:36
Alignment explanation
Indices: 69166520--69166591 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
69166510 ACAAAAGTAC
69166520 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
1 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
69166556 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
1 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
69166592 CTTGGCTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (36 bp):
ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
Found at i:69170126 original size:15 final size:14
Alignment explanation
Indices: 69170105--69170146 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
69170095 TACTAACTGC
* *
69170105 TAACTGTTAATAGT
1 TAACTGTTAACAAT
69170119 TCAACTGTTAACAAT
1 T-AACTGTTAACAAT
69170134 TAACTGTT-ACAAT
1 TAACTGTTAACAAT
69170147 CGTTTCATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (14 bp):
TAACTGTTAACAAT
Found at i:69199395 original size:16 final size:16
Alignment explanation
Indices: 69199374--69199407 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
69199364 ACAATAAGAG
69199374 AAGAATGCAACATTGC
1 AAGAATGCAACATTGC
69199390 AAGAATGCAACATTGC
1 AAGAATGCAACATTGC
69199406 AA
1 AA
69199408 CAGCAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (16 bp):
AAGAATGCAACATTGC
Found at i:69201845 original size:23 final size:24
Alignment explanation
Indices: 69201800--69201846 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
69201790 TATCCCGACG
*
69201800 CATACAATGGCCTATTTTTTACTT
1 CATACAATGGCCTAGTTTTTACTT
69201824 CATACAATGGCCT-GTTTTTACTT
1 CATACAATGGCCTAGTTTTTACTT
69201847 TCTAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (24 bp):
CATACAATGGCCTAGTTTTTACTT
Found at i:69206265 original size:20 final size:21
Alignment explanation
Indices: 69206240--69206299 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
69206230 CGTTCCCCTT
69206240 TTTTTGTTC-TTTCTCTTTTC
1 TTTTTGTTCTTTTCTCTTTTC
*
69206260 TTTTTGTTCTTTTCTATTTTC
1 TTTTTGTTCTTTTCTCTTTTC
*
69206281 TTTTTCTTCTTTTCTCTTT
1 TTTTTGTTCTTTTCTCTTT
69206300 CACCGTATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 9 0.25
21 27 0.75
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTTTGTTCTTTTCTCTTTTC
Found at i:69206298 original size:7 final size:7
Alignment explanation
Indices: 69206249--69206299 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
69206239 TTTTTTGTTC
69206249 TTTCTCT
1 TTTCTCT
69206256 TTTCT-T
1 TTTCTCT
*
69206262 TTTGTTCT
1 TTT-CTCT
*
69206270 TTTCTAT
1 TTTCTCT
69206277 TTTCT-T
1 TTTCTCT
69206283 TTTCTTCT
1 TTTC-TCT
69206291 TTTCTCT
1 TTTCTCT
69206298 TT
1 TT
69206300 CACCGTATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 9 0.24
7 19 0.51
8 9 0.24
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (7 bp):
TTTCTCT
Found at i:69210063 original size:3 final size:3
Alignment explanation
Indices: 69210055--69210080 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
69210045 AAGAATGAAA
69210055 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
69210081 AAGCAGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:69211199 original size:20 final size:21
Alignment explanation
Indices: 69211169--69211209 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
69211159 ATTAAATATA
*
69211169 ACAATAAATTTATATTTTAAT
1 ACAATAAATTTATAATTTAAT
69211190 ACAA-AAATTTATAATTTAAT
1 ACAATAAATTTATAATTTAAT
69211210 TATGAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ACAATAAATTTATAATTTAAT
Found at i:69211516 original size:17 final size:17
Alignment explanation
Indices: 69211485--69211530 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
69211475 ATAGTCTCTC
69211485 ATTTTTTTTCATTTAAT
1 ATTTTTTTTCATTTAAT
*
69211502 -TTTTATTTTCGTTTAAT
1 ATTTT-TTTTCATTTAAT
*
69211519 ATTTTTTATCAT
1 ATTTTTTTTCAT
69211531 CCATTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (17 bp):
ATTTTTTTTCATTTAAT
Found at i:69216770 original size:34 final size:34
Alignment explanation
Indices: 69216743--69216813 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
69216733 TGCTATTGAG
*
69216743 TTGAACTGTTATAAGCATATTAATTGCTACTGTA
1 TTGAACTGTTATAAACATATTAATTGCTACTGTA
* *
69216777 TTGAACTGTTATAAACATATTGATTTCTACTGTA
1 TTGAACTGTTATAAACATATTAATTGCTACTGTA
69216811 TTG
1 TTG
69216814 TTCTATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (34 bp):
TTGAACTGTTATAAACATATTAATTGCTACTGTA
Found at i:69216968 original size:45 final size:45
Alignment explanation
Indices: 69216904--69217011 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
69216894 ACAAAGGAAG
* * * * *
69216904 TATTAGCAACTTTTATCTACACCGTTTAGTGGTTTATCAATACCA
1 TATTAGCAGCTTTTATCTACACCGATTAATGGTTTACCAACACCA
* * *
69216949 TATTAGCAGCTTTTATCTACACTGATTAATGGTTTACCCACACCG
1 TATTAGCAGCTTTTATCTACACCGATTAATGGTTTACCAACACCA
* *
69216994 TATTAGAAGCTTTAATCT
1 TATTAGCAGCTTTTATCT
69217012 GCAAATGTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (45 bp):
TATTAGCAGCTTTTATCTACACCGATTAATGGTTTACCAACACCA
Found at i:69218608 original size:21 final size:21
Alignment explanation
Indices: 69218582--69218664 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
69218572 TGATCAGTAT
*
69218582 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
69218603 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
69218624 ACGACACGCGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
69218646 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
69218665 GATCGATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:69218652 original size:23 final size:23
Alignment explanation
Indices: 69218580--69218654 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
69218570 CCTGATCAGT
** *
69218580 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
69218602 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
69218622 ATACGACACGCGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
69218645 ATACGACACA
1 ATACGACACA
69218655 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Done.