Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 17 of 132
Found at i:4903658 original size:19 final size:21
Alignment explanation
Indices: 4903615--4903665 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
4903605 GACCAAACAT
4903615 GTTGACTTTGACTATTGACCA
1 GTTGACTTTGACTATTGACCA
*
4903636 -TTGACTTTGACT-TTGA-GA
1 GTTGACTTTGACTATTGACCA
4903654 GTTGACTTTGAC
1 GTTGACTTTGAC
4903666 CAAACATGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 12 0.43
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (21 bp):
GTTGACTTTGACTATTGACCA
Found at i:4910157 original size:32 final size:31
Alignment explanation
Indices: 4910089--4910175 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
4910079 AGGTGCATTT
4910089 GAAAAAAAGTTTAGTATCATGAAGCACCTTC
1 GAAAAAAAGTTTAGTATCATGAAGCACCTTC
**
4910120 GAAAAAAAGTTTAGTATCATTCAGCACCTTC
1 GAAAAAAAGTTTAGTATCATGAAGCACCTTC
4910151 GAAAAAAAAGTTTAGTATCATGAAG
1 G-AAAAAAAGTTTAGTATCATGAAG
4910176 GAGGAAGGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 30 0.59
32 21 0.41
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (31 bp):
GAAAAAAAGTTTAGTATCATGAAGCACCTTC
Found at i:4910625 original size:36 final size:35
Alignment explanation
Indices: 4910557--4910659 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 35
4910547 CTTTATACGG
**
4910557 GTTTATTTCAATCTTTTTTAAAAGTTGTTTTAGATAA
1 GTTTATTTCAATC-TTTTT-AAAGTTACTTTAGATAA
** *
4910594 TGTTTATTTTTATCTTTTTAAAGTTACTTTAGATGA
1 -GTTTATTTCAATCTTTTTAAAGTTACTTTAGATAA
* *
4910630 GTTTATCTCAATTTTTTTAAAGGTTACTTT
1 GTTTATTTCAATCTTTTTAAA-GTTACTTT
4910660 GGTTACTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
35 17 0.31
36 22 0.40
37 5 0.09
38 11 0.20
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (35 bp):
GTTTATTTCAATCTTTTTAAAGTTACTTTAGATAA
Found at i:4910706 original size:36 final size:38
Alignment explanation
Indices: 4910660--4910815 Score: 123
Period size: 36 Copynumber: 4.3 Consensus size: 38
4910650 AGGTTACTTT
* *
4910660 GGTTACTTTAGGCAAGGTCTATTTTAAC-TTTTTTAAA
1 GGTTGCTTTAGGCAAGGTCTATTTCAACATTTTTTAAA
* * *
4910697 -GTTGCTTTAGAC-GGGTCTATTTCAACAGTTTTTAAA
1 GGTTGCTTTAGGCAAGGTCTATTTCAACATTTTTTAAA
* * *
4910733 GGTTGCTTTAAGTAAGATCTATTTC-A-ATTTTTT-AA
1 GGTTGCTTTAGGCAAGGTCTATTTCAACATTTTTTAAA
** * *
4910768 GGTTATTTTA---AATTGGTCTATTTTAACTTTTTTTAAA
1 GGTTGCTTTAGGCAA--GGTCTATTTCAACATTTTTTAAA
4910805 GGTTGCTTTAG
1 GGTTGCTTTAG
4910816 ATAAAATTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 17
0.72 0.14 0.13
Matches are distributed among these distances:
32 2 0.02
34 8 0.09
35 23 0.25
36 30 0.33
37 20 0.22
38 9 0.10
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (38 bp):
GGTTGCTTTAGGCAAGGTCTATTTCAACATTTTTTAAA
Found at i:4910738 original size:37 final size:36
Alignment explanation
Indices: 4910673--4910816 Score: 129
Period size: 35 Copynumber: 4.0 Consensus size: 36
4910663 TACTTTAGGC
*
4910673 AAGGTCTATTTTAAC-TTTTTTAAA-GTTGCTTTAG
1 AAGGTCTATTTCAACATTTTTTAAAGGTTGCTTTAG
* *
4910707 ACGGGTCTATTTCAACAGTTTTTAAAGGTTGCTTTAAG
1 A-AGGTCTATTTCAACATTTTTTAAAGGTTGCTTT-AG
* **
4910745 TAAGATCTATTTC-A-ATTTTTT-AAGGTTATTTTA-
1 -AAGGTCTATTTCAACATTTTTTAAAGGTTGCTTTAG
* *
4910778 AATTGGTCTATTTTAACTTTTTTTAAAGGTTGCTTTAG
1 AA--GGTCTATTTCAACATTTTTTAAAGGTTGCTTTAG
4910816 A
1 A
4910817 TAAAATTTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
32 2 0.02
34 10 0.12
35 22 0.26
36 20 0.23
37 19 0.22
38 12 0.14
39 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (36 bp):
AAGGTCTATTTCAACATTTTTTAAAGGTTGCTTTAG
Found at i:4912931 original size:33 final size:32
Alignment explanation
Indices: 4912893--4912954 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
4912883 ATAATAGTGC
* * *
4912893 AATAGTAGCAAAATAGTGAAAAAAAAACAAGAA
1 AATAGTAACAAAACAAT-AAAAAAAAACAAGAA
4912926 AATAGTAACAAAACAATAAAAAAAAACAA
1 AATAGTAACAAAACAATAAAAAAAAACAA
4912955 CAAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.11
Consensus pattern (32 bp):
AATAGTAACAAAACAATAAAAAAAAACAAGAA
Found at i:4912949 original size:22 final size:22
Alignment explanation
Indices: 4912902--4912949 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4912892 CAATAGTAGC
*
4912902 AAAATAGTGAAAAAAAAACAAG
1 AAAATAGTGAAAAAAAAACAAA
* *
4912924 AAAATAGT-AACAAAACAATAAA
1 AAAATAGTGAA-AAAAAAACAAA
4912946 AAAA
1 AAAA
4912950 AACAACAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAATAGTGAAAAAAAAACAAA
Found at i:4912952 original size:32 final size:33
Alignment explanation
Indices: 4912893--4912972 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 33
4912883 ATAATAGTGC
* * *
4912893 AATAGTAGCAAAATAGTGAAAAAAAAACAAGAA
1 AATAGTAACAAAACAATGAAAAAAAAACAAGAA
*
4912926 AATAGTAACAAAACAATAAAAAAAAACAACAAGAA
1 AATAGTAACAAAACAAT-GAAAAAAA-AACAAGAA
*
4912961 AAAAGTAA-AAAA
1 AATAGTAACAAAA
4912973 GTATAGTAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 14 0.35
34 11 0.28
35 15 0.38
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (33 bp):
AATAGTAACAAAACAATGAAAAAAAAACAAGAA
Found at i:4916019 original size:26 final size:26
Alignment explanation
Indices: 4915966--4916021 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
4915956 CCAAAAGAGC
* *
4915966 GATCACAGCTCGCCAGGCTCACTTGT
1 GATCACAGCTCGCCAAGCCCACTTGT
*
4915992 GATCAGAGCTCGCCAAGCCCA-TTAGT
1 GATCACAGCTCGCCAAGCCCACTT-GT
4916018 GATC
1 GATC
4916022 CCTGCTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (26 bp):
GATCACAGCTCGCCAAGCCCACTTGT
Found at i:4923311 original size:36 final size:36
Alignment explanation
Indices: 4923258--4923458 Score: 101
Period size: 37 Copynumber: 5.5 Consensus size: 36
4923248 TCCAATTTTT
*
4923258 TTTTTAAAGGTTTTCTTAGACAAGTTCTATCCAAACC
1 TTTTTAAAGGTTGTCTTAGACAAGTTCTATCC-AACC
** * *
4923295 TTTTT-AAGGTTGTCTTAGA-TGGGTCTATTCCAACAT
1 TTTTTAAAGGTTGTCTTAGACAAGTTCTA-TCCAAC-C
* *
4923331 TTTTTAAAGGTTG-CTTTTGACAAAGTT-TATTCTAACC
1 TTTTTAAAGGTTGTC-TTAGAC-AAGTTCTA-TCCAACC
* * * **
4923368 TTTTT-CAGGTTGTCTTAGACGAG-TATATCCCAATTT
1 TTTTTAAAGGTTGTCTTAGACAAGTTCTAT-CCAA-CC
* * *
4923404 TTTTTAAAGGTTG-CTTTAGACAGGATGTATCCAAACC
1 TTTTTAAAGGTTGTC-TTAGACAAGTTCTATCC-AACC
* * *
4923441 TTCTTAAAGCTTGGCTTA
1 TTTTTAAAGGTTGTCTTA
4923459 TGTTGACTTA
Statistics
Matches: 124, Mismatches: 25, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
34 2 0.02
35 15 0.12
36 39 0.31
37 51 0.41
38 15 0.12
39 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTTTAAAGGTTGTCTTAGACAAGTTCTATCCAACC
Found at i:4923353 original size:73 final size:72
Alignment explanation
Indices: 4923257--4923447 Score: 206
Period size: 73 Copynumber: 2.6 Consensus size: 72
4923247 TTCCAATTTT
* * *
4923257 TTTTTTAAAGGTT--TTCTTAGACAAGTTCTATCCAAACCTTTTTAAGGTTGTCTTAGATGGGTC
1 TTTTTTAAAGGTTGCTT-TT-GACAAGTT-TATCCAAACCTTTTTAAGGTTGTCTTAGACGAGTA
*
4923320 TATTCCAACA
63 TATCCCAACA
* * *
4923330 TTTTTTAAAGGTTGCTTTTGACAAAGTTTATTCTAACCTTTTTCAGGTTGTCTTAGACGAGTATA
1 TTTTTTAAAGGTTGCTTTTGAC-AAGTTTATCCAAACCTTTTTAAGGTTGTCTTAGACGAGTATA
**
4923395 TCCCAATT
65 TCCCAACA
* * * *
4923403 TTTTTTAAAGGTTGCTTTAGACAGGATGTATCCAAACCTTCTTAA
1 TTTTTTAAAGGTTGCTTTTGACAAG-TTTATCCAAACCTTTTTAA
4923448 AGCTTGGCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
72 2 0.02
73 87 0.89
74 7 0.07
75 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (72 bp):
TTTTTTAAAGGTTGCTTTTGACAAGTTTATCCAAACCTTTTTAAGGTTGTCTTAGACGAGTATAT
CCCAACA
Found at i:4923866 original size:52 final size:52
Alignment explanation
Indices: 4923788--4923892 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
4923778 TTAGTAAAGA
*
4923788 AGCATGCATGGTAACTCTCACCCATCAATACTGACAACACC-TTCAAATCATC
1 AGCATGCATGGAAACTCTCACCCATCAATACTGACAACACCATT-AAATCATC
* ** *
4923840 AGCATGCATGGAAACTTTCGGCCATCAATACTGAGAACACCATTAAATCATC
1 AGCATGCATGGAAACTCTCACCCATCAATACTGACAACACCATTAAATCATC
4923892 A
1 A
4923893 TGACATTCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 45 0.96
53 2 0.04
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (52 bp):
AGCATGCATGGAAACTCTCACCCATCAATACTGACAACACCATTAAATCATC
Found at i:4924319 original size:68 final size:68
Alignment explanation
Indices: 4924210--4924349 Score: 244
Period size: 68 Copynumber: 2.1 Consensus size: 68
4924200 GGATTAGAAA
*
4924210 AAGGCAAAATCGAAATTAGCAGATTTGCACATTTGGTTAATTTTCCTTATGGATATTGTGTAATT
1 AAGGCAAAATCGAAATTAGCAGATTTGCACATTTGGTTAATTTTCCTTATGGATATTCTGTAATT
*
4924275 GGT
66 GGC
* *
4924278 AAGGCAAAATCGAAATTAGTAGATTTGCACATTTGGTTAATTTTCCTTATGGATATTCTGTATTT
1 AAGGCAAAATCGAAATTAGCAGATTTGCACATTTGGTTAATTTTCCTTATGGATATTCTGTAATT
4924343 GGC
66 GGC
4924346 AAGG
1 AAGG
4924350 ATTAGAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (68 bp):
AAGGCAAAATCGAAATTAGCAGATTTGCACATTTGGTTAATTTTCCTTATGGATATTCTGTAATT
GGC
Found at i:4926117 original size:24 final size:23
Alignment explanation
Indices: 4926088--4926195 Score: 110
Period size: 23 Copynumber: 4.7 Consensus size: 23
4926078 ACAAAAAGCC
* *
4926088 AAAACAACAGCAAAAATAATAGTA
1 AAAACAACAACAAAAATAATA-AA
* *
4926112 AAAACAACAACAAAAATAACAGCA
1 AAAACAACAACAAAAATAATA-AA
* *
4926136 AAAACAAC-ACCAAAATAGTAAA
1 AAAACAACAACAAAAATAATAAA
* *
4926158 AAAACAACAACCAAAACAATAAA
1 AAAACAACAACAAAAATAATAAA
*
4926181 AAAACAACATCAAAA
1 AAAACAACAACAAAA
4926196 CAACAATCAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
22 9 0.12
23 34 0.47
24 29 0.40
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.07
Consensus pattern (23 bp):
AAAACAACAACAAAAATAATAAA
Found at i:4926126 original size:12 final size:12
Alignment explanation
Indices: 4926088--4926207 Score: 77
Period size: 12 Copynumber: 10.2 Consensus size: 12
4926078 ACAAAAAGCC
*
4926088 AAAACAACAGCA
1 AAAACAACAACA
* * **
4926100 AAAATAATAGTA
1 AAAACAACAACA
4926112 AAAACAACAACA
1 AAAACAACAACA
* *
4926124 AAAATAACAGCA
1 AAAACAACAACA
*
4926136 AAAACAAC-ACC
1 AAAACAACAACA
* **
4926147 AAAATAGTAA-A
1 AAAACAACAACA
*
4926158 AAAACAACAACC
1 AAAACAACAACA
*
4926170 AAAACAATAA-A
1 AAAACAACAACA
*
4926181 AAAACAACATC-
1 AAAACAACAACA
4926192 AAAACAACAATCA
1 AAAACAACAA-CA
4926205 AAA
1 AAA
4926208 CAGTAAAAAA
Statistics
Matches: 78, Mismatches: 25, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
11 30 0.38
12 45 0.58
13 3 0.04
ACGTcount: A:0.70, C:0.19, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAACAACAACA
Found at i:4926196 original size:34 final size:32
Alignment explanation
Indices: 4926157--4926230 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 32
4926147 AAAATAGTAA
4926157 AAAAACAACAACCAAAACAATAAAAAAACAAC
1 AAAAACAACAACCAAAACAATAAAAAAACAAC
* * *
4926189 ATCAAAACAACAATCAAAACAGTAAAAAAAGAAC
1 A--AAAACAACAACCAAAACAATAAAAAAACAAC
4926223 AAAAACAA
1 AAAAACAA
4926231 TAATATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 8 0.22
34 29 0.78
ACGTcount: A:0.73, C:0.19, G:0.03, T:0.05
Consensus pattern (32 bp):
AAAAACAACAACCAAAACAATAAAAAAACAAC
Found at i:4926485 original size:20 final size:20
Alignment explanation
Indices: 4926460--4926515 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4926450 TTGTACTCGC
4926460 CCATCCCCACTCGCCCCGCA
1 CCATCCCCACTCGCCCCGCA
* *
4926480 CCATCCCCGCTCTCCCCGCA
1 CCATCCCCACTCGCCCCGCA
* * *
4926500 TCATCTCCACCCGCCC
1 CCATCCCCACTCGCCC
4926516 GCATAATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.64, G:0.09, T:0.14
Consensus pattern (20 bp):
CCATCCCCACTCGCCCCGCA
Found at i:4926570 original size:25 final size:25
Alignment explanation
Indices: 4926542--4926589 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4926532 ATATTTAAAA
4926542 AATAAA-ATTTATAAAAATTTAATTG
1 AATAAATATTT-TAAAAATTTAATTG
*
4926567 AATAAATATTTTAATAATTTAAT
1 AATAAATATTTTAAAAATTTAAT
4926590 ATTAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
AATAAATATTTTAAAAATTTAATTG
Found at i:4927929 original size:19 final size:19
Alignment explanation
Indices: 4927905--4927947 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4927895 AAATATAAAT
4927905 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
4927924 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
4927943 TAAAT
1 TAAAT
4927948 CTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:4929225 original size:22 final size:22
Alignment explanation
Indices: 4929177--4929226 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
4929167 ATATTCAAAC
*
4929177 AATAACAATGAAATAATAACAA
1 AATAATAATGAAATAATAACAA
* ** *
4929199 CATAATAATGAAATGGTAGCAA
1 AATAATAATGAAATAATAACAA
4929221 AATAAT
1 AATAAT
4929227 GAAAAAACAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAATAATGAAATAATAACAA
Found at i:4929244 original size:22 final size:23
Alignment explanation
Indices: 4929219--4929278 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
4929209 AAATGGTAGC
*
4929219 AAAATAATGAAAAAACAA-C-AAG
1 AAAATAAT-AAAAAAAAAGCAAAG
*
4929241 AAAATAGTAAAAAAAAAAGCAAAG
1 AAAATAAT-AAAAAAAAAGCAAAG
*
4929265 AAAACAATAAAAAA
1 AAAATAATAAAAAA
4929279 GACTTCATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 15 0.48
23 7 0.23
24 9 0.29
ACGTcount: A:0.77, C:0.07, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAATAATAAAAAAAAAGCAAAG
Found at i:4949931 original size:14 final size:14
Alignment explanation
Indices: 4949912--4949940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4949902 TAGTTCAAAT
4949912 CAATTACAAGAAAG
1 CAATTACAAGAAAG
4949926 CAATTACAAGAAAG
1 CAATTACAAGAAAG
4949940 C
1 C
4949941 GTCAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (14 bp):
CAATTACAAGAAAG
Found at i:4951975 original size:44 final size:44
Alignment explanation
Indices: 4951926--4952015 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
4951916 TTTGAAATAA
* *
4951926 AATAGAAATTATGATAATTATACATTTAAAAACAATTATAATTT
1 AATAGAAATTATGATAATTACACATTTAAAAACAATTAGAATTT
* *
4951970 AATAGAAGTTATGATAATTACACATTTAAAAATAATTAGAATTT
1 AATAGAAATTATGATAATTACACATTTAAAAACAATTAGAATTT
4952014 AA
1 AA
4952016 ATTACAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (44 bp):
AATAGAAATTATGATAATTACACATTTAAAAACAATTAGAATTT
Found at i:4952015 original size:17 final size:18
Alignment explanation
Indices: 4951983--4952016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4951973 AGAAGTTATG
4951983 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
4952001 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
4952017 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:4960321 original size:14 final size:13
Alignment explanation
Indices: 4960297--4960336 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
4960287 TTCCATAGCC
*
4960297 TTTTCTTTTCTTT
1 TTTTTTTTTCTTT
4960310 TTCTTTTTTTCTTT
1 TT-TTTTTTTCTTT
4960324 TTTTTTTTCTCTT
1 TTTTTTTT-TCTT
4960337 CCTTTGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:4964455 original size:20 final size:20
Alignment explanation
Indices: 4964430--4964468 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4964420 TTATATAATT
4964430 ATCTATTATTTA-ATTATTAC
1 ATCTA-TATTTATATTATTAC
4964450 ATCTATATTTATATTATTA
1 ATCTATATTTATATTATTA
4964469 TTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
ATCTATATTTATATTATTAC
Found at i:4969485 original size:21 final size:21
Alignment explanation
Indices: 4969461--4969503 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4969451 TTAACAAGTG
*
4969461 TAAAAAAAT-CTTCAATTTTTT
1 TAAAAAAATAATT-AATTTTTT
4969482 TAAAAAAATAATTAATTTTTT
1 TAAAAAAATAATTAATTTTTT
4969503 T
1 T
4969504 TTACACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAAAAATAATTAATTTTTT
Found at i:4969693 original size:37 final size:38
Alignment explanation
Indices: 4969655--4969771 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 38
4969645 AAAATAAATA
4969655 AAAATTGTAAAAATTATTAAATTTTAATAAAAATATA-
1 AAAATTGTAAAAATTATTAAATTTTAATAAAAATATAG
* * * *
4969692 AAATACT-TAAAATTTATTAAAATTTAGA-AAAAATATAT
1 AAA-ATTGTAAAAATTATTAAATTTTA-ATAAAAATATAG
* *
4969730 AAAAGTTGTAAAAAATTA-TAAATTAT-ATAGAAATATAG
1 AAAA-TTGT-AAAAATTATTAAATTTTAATAAAAATATAG
4969768 AAAA
1 AAAA
4969772 AATTTATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
37 31 0.48
38 19 0.30
39 7 0.11
40 7 0.11
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (38 bp):
AAAATTGTAAAAATTATTAAATTTTAATAAAAATATAG
Found at i:4969749 original size:19 final size:18
Alignment explanation
Indices: 4969635--4969843 Score: 77
Period size: 19 Copynumber: 10.9 Consensus size: 18
4969625 CATGTGTCAA
* *
4969635 AAAATTATAAAAAATAAAT
1 AAAATTGTAAAAAAT-TAT
4969654 AAAAATTGT-AAAAATTAT
1 -AAAATTGTAAAAAATTAT
* * *
4969672 TAAATTTTAATAAAAATAT
1 AAAATTGTAA-AAAATTAT
** * *
4969691 AAAATACTTAAAATTTATT
1 AAAATTGTAAAAAATTA-T
4969710 AAAATT-TAGAAAAAATATAT
1 AAAATTGT--AAAAAAT-TAT
4969730 AAAAGTTGTAAAAAATTAT
1 AAAA-TTGTAAAAAATTAT
* * *
4969749 -AAATTATATAGAAATATAGAA
1 AAAATTGTA-A-AAA-AT-TAT
*
4969770 AAAATT-TATAAAATTTTAT
1 AAAATTGTA-AAAA-ATTAT
* *
4969789 AAAGTAGTAAGAAAATTAT
1 AAAATTGTAA-AAAATTAT
*
4969808 AAAAATGTAAATAAA-TAT
1 AAAATTGTAAA-AAATTAT
4969826 AAAATTTGTAAGAAAATT
1 AAAA-TTGTAA-AAAATT
4969844 TTGAAAAACA
Statistics
Matches: 143, Mismatches: 27, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
17 10 0.07
18 21 0.15
19 59 0.41
20 38 0.27
21 9 0.06
22 6 0.04
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
AAAATTGTAAAAAATTAT
Found at i:4969758 original size:30 final size:30
Alignment explanation
Indices: 4969724--4969810 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
4969714 TTTAGAAAAA
*
4969724 ATATATAAAAGTTGTAAAAAATTATAAATT
1 ATATATAAAAGTAGTAAAAAATTATAAATT
*
4969754 ATATAGAAATA-TAG-AAAAAATTTATAAAATT
1 ATATATAAA-AGTAGTAAAAAA-TTAT-AAATT
4969785 -T-TAT-AAAGTAGTAAGAAAATTATAAA
1 ATATATAAAAGTAGTAA-AAAATTATAAA
4969811 AATGTAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
27 1 0.02
28 8 0.17
29 14 0.29
30 19 0.40
31 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (30 bp):
ATATATAAAAGTAGTAAAAAATTATAAATT
Found at i:4969811 original size:29 final size:28
Alignment explanation
Indices: 4969720--4969811 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 28
4969710 AAAATTTAGA
* *
4969720 AAAAATATATAAAAGTTGTAAAAAATTAT
1 AAAATTATAT-AAAGTAGTAAAAAATTAT
*
4969749 -AAATTATATAGAAATA-TAGAAAAAATTTAT
1 AAAATTATATA-AAGTAGT--AAAAAA-TTAT
*
4969779 AAAATTTTATAAAGTAGTAAGAAAATTAT
1 AAAATTATATAAAGTAGTAA-AAAATTAT
4969808 AAAA
1 AAAA
4969812 ATGTAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
27 2 0.04
28 11 0.22
29 16 0.31
30 12 0.24
31 10 0.20
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (28 bp):
AAAATTATATAAAGTAGTAAAAAATTAT
Found at i:4970055 original size:9 final size:9
Alignment explanation
Indices: 4970033--4970125 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
4970023 TTTTTATGTA
4970033 TTTTATTAACT
1 TTTTA-TAA-T
*
4970044 TTTTATGAT
1 TTTTATAAT
*
4970053 TTTTATAAA
1 TTTTATAAT
*
4970062 TTTTACAATT
1 TTTTATAA-T
*
4970072 TTTTATATTT
1 TTTTATA-AT
*
4970082 TTTTATGAT
1 TTTTATAAT
*
4970091 TTTTATAGTT
1 TTTTATA-AT
*
4970101 TTTTCTAAT
1 TTTTATAAT
4970110 TTTTAATAAT
1 TTTT-ATAAT
4970120 ATTTTA
1 -TTTTA
4970126 ATATTTTTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
9 27 0.43
10 27 0.43
11 9 0.14
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:4970056 original size:20 final size:20
Alignment explanation
Indices: 4970022--4970096 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
4970012 ATTAAAGTGT
4970022 CTTTTTATG-TATTTTATTAA
1 CTTTTTATGAT-TTTTATTAA
4970042 CTTTTTATGATTTTTA-TAA
1 CTTTTTATGATTTTTATTAA
* ** *
4970061 -ATTTTACAATTTTT-TATAT
1 CTTTTTATGATTTTTAT-TAA
*
4970080 TTTTTTATGATTTTTAT
1 CTTTTTATGATTTTTAT
4970097 AGTTTTTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 11 0.26
19 5 0.12
20 25 0.58
21 2 0.05
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
CTTTTTATGATTTTTATTAA
Found at i:4970065 original size:19 final size:19
Alignment explanation
Indices: 4970023--4970133 Score: 66
Period size: 19 Copynumber: 5.7 Consensus size: 19
4970013 TTAAAGTGTC
*
4970023 TTTTTATG-TATTTTATTAAC
1 TTTTTATGAT-TTTTA-TAAA
4970043 TTTTTATGATTTTTATAAA
1 TTTTTATGATTTTTATAAA
** **
4970062 -TTTTACAATTTTTTATATT
1 TTTTTATGA-TTTTTATAAA
**
4970081 TTTTTATGATTTTTATAGT
1 TTTTTATGATTTTTATAAA
* *
4970100 TTTTTCTAATTTTTAATAATA
1 TTTTTATGATTTTT-ATAA-A
*
4970121 TTTTAAT-ATTTTT
1 TTTTTATGATTTTT
4970134 TTATTGATTT
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
18 6 0.08
19 32 0.44
20 28 0.39
21 6 0.08
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTATGATTTTTATAAA
Found at i:4970092 original size:11 final size:10
Alignment explanation
Indices: 4970070--4970137 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
4970060 AATTTTACAA
4970070 TTTTTTATAT
1 TTTTTTATAT
4970080 TTTTTTATGA-
1 TTTTTTAT-AT
*
4970090 -TTTTTATAG
1 TTTTTTATAT
* *
4970099 TTTTTTCTAA
1 TTTTTTATAT
*
4970109 TTTTTAATAAT
1 TTTTTTAT-AT
* *
4970120 ATTTTAATAT
1 TTTTTTATAT
4970130 TTTTTTAT
1 TTTTTTAT
4970138 TGATTTTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
8 1 0.02
9 7 0.15
10 29 0.63
11 9 0.20
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:4983330 original size:20 final size:20
Alignment explanation
Indices: 4983307--4983345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4983297 ATACATACAC
4983307 ATCATAAATT-ATATAAACTT
1 ATCA-AAATTCATATAAACTT
4983327 ATCAAAATTCATATAAACT
1 ATCAAAATTCATATAAACT
4983346 ATATTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
ATCAAAATTCATATAAACTT
Found at i:4986291 original size:21 final size:21
Alignment explanation
Indices: 4986265--4986313 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4986255 ATTATGTAAC
* *
4986265 TTGGATTTATAATCTTTAGGT
1 TTGGATTTATAAACTTTAGAT
* *
4986286 TTGGATTTCTAAACTTTATAT
1 TTGGATTTATAAACTTTAGAT
4986307 TTGGATT
1 TTGGATT
4986314 ATGCTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.53
Consensus pattern (21 bp):
TTGGATTTATAAACTTTAGAT
Found at i:4990620 original size:13 final size:13
Alignment explanation
Indices: 4990596--4990637 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
4990586 ACCCAAATTC
*
4990596 ATTTTAATTTTTA
1 ATTTTAATTTTCA
4990609 ATTTTTAATTTTCA
1 A-TTTTAATTTTCA
*
4990623 AGTTTAA-TTTCA
1 ATTTTAATTTTCA
4990635 ATT
1 ATT
4990638 GAATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 7 0.28
13 6 0.24
14 12 0.48
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (13 bp):
ATTTTAATTTTCA
Found at i:4992997 original size:9 final size:9
Alignment explanation
Indices: 4992983--4993008 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4992973 TAGCATCAAG
4992983 ATTTATTTA
1 ATTTATTTA
4992992 ATTTATTTA
1 ATTTATTTA
4993001 ATTTATTT
1 ATTTATTT
4993009 TTGTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTATTTA
Found at i:4995283 original size:2 final size:2
Alignment explanation
Indices: 4995276--4995302 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4995266 AATTAGGATT
4995276 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4995303 GCGGGCAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4998840 original size:27 final size:28
Alignment explanation
Indices: 4998810--4998862 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4998800 ATTTTTGACC
4998810 AAAAAAA-TGCTTTTGTAAAGTTTTTAA
1 AAAAAAAGTGCTTTTGTAAAGTTTTTAA
4998837 AAAAAAAGTGCTTTTGTAAAGTTTTT
1 AAAAAAAGTGCTTTTGTAAAGTTTTT
4998863 TTTTCTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (28 bp):
AAAAAAAGTGCTTTTGTAAAGTTTTTAA
Found at i:4999777 original size:21 final size:20
Alignment explanation
Indices: 4999753--4999796 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4999743 TTTTTATCTT
*
4999753 AATTATATTAATTTAAATTTA
1 AATTATATTAA-TAAAATTTA
* *
4999774 AATTATCTTTATAAAATTTA
1 AATTATATTAATAAAATTTA
4999794 AAT
1 AAT
4999797 ATTTCTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATATTAATAAAATTTA
Found at i:4999982 original size:5 final size:5
Alignment explanation
Indices: 4999972--4999999 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4999962 ACCATCACTA
4999972 CCTCC CCTCC CCTCC CCTCC CCTCC CCT
1 CCTCC CCTCC CCTCC CCTCC CCTCC CCT
5000000 GTCGTGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21
Consensus pattern (5 bp):
CCTCC
Found at i:5003411 original size:154 final size:154
Alignment explanation
Indices: 5003127--5003438 Score: 588
Period size: 154 Copynumber: 2.0 Consensus size: 154
5003117 GACTCAGTAA
5003127 GAATAGATGGCCAATCTTTTGGCGAGGCAGTGTATTTAGCTGAAACAATTGATCCCATGATTTCT
1 GAATAGATGGCCAATCTTTTGGCGAGGCAGTGTATTTAGCTGAAACAATTGATCCCATGATTTCT
*
5003192 TTTCAATGCTACAAGGTAATGAATAATGGGTTGGGTTGTGTAGGATGAGTTCATGCCCTGTCTTA
66 TTTCAATGCTACAAGGTAATGAATAATGGGTTGGGTTGTGTAGGATGAGTTCATGCCCTGCCTTA
5003257 AAGGCATACTAATGGAACCCAACT
131 AAGGCATACTAATGGAACCCAACT
*
5003281 GAATAGATGGCCAATCTTTTGGCGAGGCAGTGTATTTTGCTGAAACAATTGATCCCATGATTTCT
1 GAATAGATGGCCAATCTTTTGGCGAGGCAGTGTATTTAGCTGAAACAATTGATCCCATGATTTCT
*
5003346 TTTCAATGCTACAAGGTAATGAATAATGGGTTGGGTTGTGTAGGATGAGTTCATGCCTTGCCTTA
66 TTTCAATGCTACAAGGTAATGAATAATGGGTTGGGTTGTGTAGGATGAGTTCATGCCCTGCCTTA
*
5003411 AAGGTATACTAATGGAACCCAACT
131 AAGGCATACTAATGGAACCCAACT
5003435 GAAT
1 GAAT
5003439 CTACAACACC
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (154 bp):
GAATAGATGGCCAATCTTTTGGCGAGGCAGTGTATTTAGCTGAAACAATTGATCCCATGATTTCT
TTTCAATGCTACAAGGTAATGAATAATGGGTTGGGTTGTGTAGGATGAGTTCATGCCCTGCCTTA
AAGGCATACTAATGGAACCCAACT
Found at i:5013368 original size:18 final size:19
Alignment explanation
Indices: 5013329--5013368 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
5013319 TCACGTCAGC
* *
5013329 AAATGAATTTAAACTTAAA
1 AAATGAATTAAAACTAAAA
5013348 AAAT-AATTAAAACTAAAA
1 AAATGAATTAAAACTAAAA
5013366 AAA
1 AAA
5013369 CATTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATGAATTAAAACTAAAA
Found at i:5013375 original size:18 final size:18
Alignment explanation
Indices: 5013335--5013377 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5013325 CAGCAAATGA
* *
5013335 ATTT-AAACTTAAAAAAT
1 ATTTAAAACTAAAAAAAC
*
5013352 AATTAAAACTAAAAAAAC
1 ATTTAAAACTAAAAAAAC
5013370 ATTTAAAA
1 ATTTAAAA
5013378 AATTTTTGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
ATTTAAAACTAAAAAAAC
Found at i:5013418 original size:9 final size:9
Alignment explanation
Indices: 5013392--5013427 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
5013382 TTTGGGACTC
*
5013392 ACAATTAAC
1 ACAATTAAA
5013401 ACAATTAAA
1 ACAATTAAA
5013410 ACAATTAAA
1 ACAATTAAA
*
5013419 AAAATTAAA
1 ACAATTAAA
5013428 CACTAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (9 bp):
ACAATTAAA
Found at i:5013438 original size:18 final size:18
Alignment explanation
Indices: 5013417--5013452 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5013407 AAAACAATTA
5013417 AAAAAATTAAACACTAAC
1 AAAAAATTAAACACTAAC
* *
5013435 AAAAAATTGAACCCTAAC
1 AAAAAATTAAACACTAAC
5013453 TTTTGAATCA
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:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAAATTAAACACTAAC
Found at i:5014710 original size:22 final size:22
Alignment explanation
Indices: 5014667--5014710 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
5014657 AAAATTATTT
*
5014667 AATAATTTTATTATTTCAAAAA
1 AATAATTTTATAATTTCAAAAA
*
5014689 AATAATTTTAATAATTTTAAAA
1 AATAATTTT-ATAATTTCAAAA
5014711 TCATTTGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATTTTATAATTTCAAAAA
Found at i:5016579 original size:12 final size:13
Alignment explanation
Indices: 5016554--5016578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5016544 TAATGATATT
5016554 TAATTTTTTAAAA
1 TAATTTTTTAAAA
5016567 TAATTTTTTAAA
1 TAATTTTTTAAA
5016579 TTTTTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTTTAAAA
Found at i:5020092 original size:21 final size:22
Alignment explanation
Indices: 5020068--5020119 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
5020058 TCAAAACATG
5020068 AAAATAATATAA-ACATATCT-T
1 AAAATAATATAACACATAT-TGT
*
5020089 AAAATTATATAACACATATTGT
1 AAAATAATATAACACATATTGT
5020111 -AAATAATAT
1 AAAATAATAT
5020120 GATATGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATAATATAACACATATTGT
Found at i:5020879 original size:1 final size:1
Alignment explanation
Indices: 5020873--5020898 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
5020863 GGTCATTCAG
5020873 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
5020899 TAAATGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:5022497 original size:20 final size:20
Alignment explanation
Indices: 5022469--5022506 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5022459 TTTTTGGTTA
5022469 TTTTGGTTTCAACTTGAAGC
1 TTTTGGTTTCAACTTGAAGC
* *
5022489 TTTTTGTTTGAACTTGAA
1 TTTTGGTTTCAACTTGAA
5022507 AAACCTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTTGGTTTCAACTTGAAGC
Found at i:5036054 original size:20 final size:21
Alignment explanation
Indices: 5036014--5036055 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5036004 GGAGAATTAA
* *
5036014 AAAAATTAAAATATATTAATT
1 AAAAATAAAAATATATAAATT
5036035 AAAAATAAAAATATA-AAATT
1 AAAAATAAAAATATATAAATT
5036055 A
1 A
5036056 TTTGCATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATAAAAATATATAAATT
Found at i:5045030 original size:24 final size:23
Alignment explanation
Indices: 5044998--5045043 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
5044988 CCCAGCCCGG
5044998 ATTTATAATAATAATTTTATTTTT
1 ATTTATAATAATAATTTT-TTTTT
* *
5045022 ATTTTTAATACTAATTTTTTTT
1 ATTTATAATAATAATTTTTTTT
5045044 GCTTGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTATAATAATAATTTTTTTTT
Found at i:5054460 original size:31 final size:31
Alignment explanation
Indices: 5054422--5054489 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
5054412 GGGGTTATTA
* *
5054422 AAGTAATTTTATTTTGTTAGTAGTAGTTAGT
1 AAGTAATTTTATTTTGTTAGTAGTAGTAAAT
5054453 AAGTAATTTTATTTTGTTAGTAGTAGTAAAT
1 AAGTAATTTTATTTTGTTAGTAGTAGTAAAT
5054484 AAGTAA
1 AAGTAA
5054490 GTAATATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (31 bp):
AAGTAATTTTATTTTGTTAGTAGTAGTAAAT
Found at i:5061427 original size:2 final size:2
Alignment explanation
Indices: 5061420--5061444 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5061410 ATAAAAATTC
5061420 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5061445 AGGAGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5070179 original size:18 final size:18
Alignment explanation
Indices: 5070158--5070202 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
5070148 AATAATGATA
5070158 ATAATAAAATTA-AATACT
1 ATAATAAAATTATAATA-T
*
5070176 ATAATAATATTATAATAT
1 ATAATAAAATTATAATAT
*
5070194 AGAATAAAA
1 ATAATAAAA
5070203 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAATAAAATTATAATAT
Found at i:5072710 original size:23 final size:23
Alignment explanation
Indices: 5072684--5072727 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5072674 GAAAAATTCA
* *
5072684 AATAGTTGGGTGATAAAAAAACG
1 AATAGTTGGATGACAAAAAAACG
5072707 AATAGTTGGATGACAAAAAAA
1 AATAGTTGGATGACAAAAAAA
5072728 AATCCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.23, T:0.20
Consensus pattern (23 bp):
AATAGTTGGATGACAAAAAAACG
Found at i:5073123 original size:9 final size:9
Alignment explanation
Indices: 5073103--5073136 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
5073093 ATAGATATAT
5073103 AAAATTATAA
1 AAAATTA-AA
5073113 AAAATTAAA
1 AAAATTAAA
5073122 AAAATCTAAA
1 AAAAT-TAAA
5073132 AAAAT
1 AAAAT
5073137 CCCAACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATTAAA
Found at i:5073493 original size:78 final size:79
Alignment explanation
Indices: 5073400--5073564 Score: 287
Period size: 78 Copynumber: 2.1 Consensus size: 79
5073390 TCACCATATA
* *
5073400 AATTAATTATTGAAATTGATAATTTGTTGTAGTATTTATCTGTGTCGTCTTATTGATTAATGATA
1 AATTAATTATCGAAATTGATAATTTGTTATAGTATTTATCTGTGTCGTCTTATTGATTAATGATA
5073465 TACATAA-TTTTTT
66 TACATAATTTTTTT
*
5073478 AATTAATTATCGAAATTGATAATTTGTTATAGTATTTATTTGTGTCGTCTTATTGATTAATGATA
1 AATTAATTATCGAAATTGATAATTTGTTATAGTATTTATCTGTGTCGTCTTATTGATTAATGATA
5073543 TACATAATTTTTTT
66 TACATAATTTTTTT
*
5073557 AAATAATT
1 AATTAATT
5073565 TTTTATTGGT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 69 0.84
79 13 0.16
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (79 bp):
AATTAATTATCGAAATTGATAATTTGTTATAGTATTTATCTGTGTCGTCTTATTGATTAATGATA
TACATAATTTTTTT
Found at i:5085581 original size:10 final size:12
Alignment explanation
Indices: 5085551--5085582 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5085541 TAATTAAAAA
5085551 TATAAAATTATT
1 TATAAAATTATT
5085563 TATAAAATT-TT
1 TATAAAATTATT
5085574 TA-AAAATTA
1 TATAAAATTA
5085583 CTTTGGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.32
11 4 0.21
12 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATAAAATTATT
Found at i:5086916 original size:2 final size:2
Alignment explanation
Indices: 5086909--5086983 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
5086899 TTATACTGTA
5086909 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5086951 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5086984 TTGAAAATAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:5092572 original size:21 final size:21
Alignment explanation
Indices: 5092534--5092573 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5092524 GTTTATATAT
*
5092534 TTTAAAAAATTCCATAAAATC
1 TTTAAAAAATACCATAAAATC
5092555 TTTAAAAAA-ACCACTAAAA
1 TTTAAAAAATACCA-TAAAA
5092574 AACATTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
TTTAAAAAATACCATAAAATC
Found at i:5094709 original size:17 final size:18
Alignment explanation
Indices: 5094687--5094723 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5094677 TTAAATTTCA
*
5094687 AATTC-AATAACTCGAAT
1 AATTCAAATAACTCAAAT
5094704 AATTCAAATAACTCAAAT
1 AATTCAAATAACTCAAAT
5094722 AA
1 AA
5094724 AAAATTGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.27
Consensus pattern (18 bp):
AATTCAAATAACTCAAAT
Found at i:5094851 original size:26 final size:25
Alignment explanation
Indices: 5094822--5094870 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
5094812 AATGGTTTTT
5094822 AAAATTCATAATATTTAAAAAATTCC
1 AAAATTCAT-ATATTTAAAAAATTCC
* * *
5094848 AAAATTTATATGTTTTAAAAATT
1 AAAATTCATATATTTAAAAAATT
5094871 ATAAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (25 bp):
AAAATTCATATATTTAAAAAATTCC
Found at i:5094876 original size:25 final size:26
Alignment explanation
Indices: 5094821--5094876 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
5094811 AAATGGTTTT
*
5094821 TAAAATTCATAATATTTAAAAAATTC
1 TAAAATTCATAATATTTAAAAAATTA
* * * *
5094847 CAAAATTTAT-ATGTTTTAAAAATTA
1 TAAAATTCATAATATTTAAAAAATTA
5094872 TAAAA
1 TAAAA
5094877 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAATTCATAATATTTAAAAAATTA
Found at i:5095025 original size:16 final size:16
Alignment explanation
Indices: 5095006--5095036 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5094996 TTGAAAGAGT
5095006 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
5095022 TTTCAAATTTATATG
1 TTTCAAATATATATG
5095037 CCCTACCATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:5098201 original size:30 final size:29
Alignment explanation
Indices: 5098175--5098258 Score: 80
Period size: 35 Copynumber: 2.7 Consensus size: 29
5098165 TTAATAATAC
5098175 TAAAT-TTTTAAAAATAATAAAAAATAAT
1 TAAATATTTTAAAAATAATAAAAAATAAT
* *
5098203 TTAATATTTTAAAAATTATAAAAATATAAATT
1 TAAATATTTTAAAAATAATAAAAA-AT-AA-T
*
5098235 ATAAAAATATTTTAAAAATGATAA
1 -T--AAATATTTTAAAAATAATAA
5098259 TATGGACTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 2 0.04
31 2 0.04
32 1 0.02
33 1 0.02
35 18 0.40
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (29 bp):
TAAATATTTTAAAAATAATAAAAAATAAT
Found at i:5098235 original size:15 final size:15
Alignment explanation
Indices: 5098215--5098244 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5098205 AATATTTTAA
5098215 AAATTATAAAAATAT
1 AAATTATAAAAATAT
5098230 AAATTATAAAAATAT
1 AAATTATAAAAATAT
5098245 TTTAAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:5098618 original size:19 final size:21
Alignment explanation
Indices: 5098586--5098626 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
5098576 ATAAATTATT
*
5098586 AGAATATTTATAAAAA-TAAA
1 AGAATATATATAAAAATTAAA
5098606 AGAATATAT-TAAAAATTAAA
1 AGAATATATATAAAAATTAAA
5098626 A
1 A
5098627 AAATTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AGAATATATATAAAAATTAAA
Found at i:5102156 original size:24 final size:21
Alignment explanation
Indices: 5102129--5102178 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
5102119 AAATGGAAAA
5102129 AAAAATTAAAGAAAGAAATAATGT
1 AAAAATTAAA-AAA-AAATAAT-T
*
5102153 AAAAA-TAAAATAAAATAATT
1 AAAAATTAAAAAAAAATAATT
5102173 AAAAAT
1 AAAAAT
5102179 ATTTTTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 2 0.08
23 4 0.17
24 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (21 bp):
AAAAATTAAAAAAAAATAATT
Found at i:5115194 original size:12 final size:13
Alignment explanation
Indices: 5115163--5115217 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
5115153 AAATAAAAAT
*
5115163 AAATTTAATTATC
1 AAATTTAAATATC
5115176 AAATTTAAATATC
1 AAATTTAAATATC
*
5115189 -AATTTAAATA-A
1 AAATTTAAATATC
5115200 AAATATATAAATATC
1 AAAT-T-TAAATATC
5115215 AAA
1 AAA
5115218 ATAAACTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
12 13 0.37
13 13 0.37
14 6 0.17
15 3 0.09
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTAAATATC
Found at i:5115864 original size:62 final size:61
Alignment explanation
Indices: 5115788--5115903 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
5115778 TTTTTTAAAA
* *
5115788 TTTAAATTTTTTTTGGT-GATGTCATATTAAATGATGTTACCACTTT-CTTAAATCAACTTTT
1 TTTAAATATTTTTT-GTAG-TGTCATATTAAATGATGTCACCACTTTCCTTAAATCAACTTTT
5115849 TTTAAATGATTTTTTGTAGTGTCATATTAAATGATGTCACCACTTTCCTTAAATC
1 TTTAAAT-ATTTTTTGTAGTGTCATATTAAATGATGTCACCACTTTCCTTAAATC
5115904 TCAAATGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
61 35 0.70
62 15 0.30
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.48
Consensus pattern (61 bp):
TTTAAATATTTTTTGTAGTGTCATATTAAATGATGTCACCACTTTCCTTAAATCAACTTTT
Found at i:5116175 original size:101 final size:97
Alignment explanation
Indices: 5116053--5116289 Score: 287
Period size: 100 Copynumber: 2.4 Consensus size: 97
5116043 ATTTAAAATT
* * *
5116053 TTTTTGGTGGAACCATTTTAAATGGTGCCACCTAATTGATTTTTTTGTGTTTTTTATTATATAAT
1 TTTTTGGTGGAACCA-TTTAAATGGCGCCACC-AATTGA-TTTTTTAT-TTTTTCATTAT-TAAT
*
5116118 ATTTAAATATATAATTTAATTT-ATTTATATATTTTA
61 ATTTAAATATATAATTTAATTTAATATATATATTTTA
* * *
5116154 TTTTTGGTGGACCCATATTAAATGGCGCCACCCGATTTATTTTTTATTTTTTCATTATTAATATT
1 TTTTTGGTGGAACCAT-TTAAATGGCGCCA-CCAATTGATTTTTTATTTTTTCATTATTAATATT
* *
5116219 TAAATATATAGTTTCATTTAAATATATATATTTTA
64 TAAATATATAATTTAATTT-AATATATATATTTTA
* *
5116254 TTTTTTGTGGAGCCATTCTAAATGGCGCCACCAATT
1 TTTTTGGTGGAACCATT-TAAATGGCGCCACCAATT
5116290 CCCGATGAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
98 24 0.20
99 16 0.13
100 47 0.39
101 30 0.25
102 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (97 bp):
TTTTTGGTGGAACCATTTAAATGGCGCCACCAATTGATTTTTTATTTTTTCATTATTAATATTTA
AATATATAATTTAATTTAATATATATATTTTA
Found at i:5125759 original size:20 final size:20
Alignment explanation
Indices: 5125734--5125779 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 20
5125724 AAATACAAGC
5125734 AATGTCTCAAATACATCATA
1 AATGTCTCAAATACATCATA
5125754 AATGTCTCAAATACATCATA
1 AATGTCTCAAATACATCATA
5125774 ATATGT
1 A-ATGT
5125780 TTATTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (20 bp):
AATGTCTCAAATACATCATA
Found at i:5131694 original size:37 final size:36
Alignment explanation
Indices: 5131653--5131735 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 36
5131643 CTTACTAAAG
*
5131653 TTAAAATTTTT-ATTGAATTTTATTATTCA-ATTTTAAT
1 TTAAAATTTTTCAATGAA-TTTATT-TT-ATATTTTAAT
*
5131690 TTAAAATATTTTCAATGAATTTATTTTATATTTTACT
1 TTAAAAT-TTTTCAATGAATTTATTTTATATTTTAAT
5131727 TTAAAATTT
1 TTAAAATTT
5131736 AAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 3 0.07
37 23 0.56
38 10 0.24
39 5 0.12
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (36 bp):
TTAAAATTTTTCAATGAATTTATTTTATATTTTAAT
Found at i:5132648 original size:22 final size:21
Alignment explanation
Indices: 5132600--5132650 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
5132590 ACTTTTTGCC
* * *
5132600 ACTATTTTTTATTATTTTGCT
1 ACTATTTTCTATTATATTACT
*
5132621 ATTATTTATCTATTATATTACT
1 ACTATTT-TCTATTATATTACT
5132643 ACTATTTT
1 ACTATTTT
5132651 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
ACTATTTTCTATTATATTACT
Found at i:5133586 original size:18 final size:19
Alignment explanation
Indices: 5133542--5133586 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
5133532 CGGGTATTTC
*
5133542 TTTTAT-ATTTTAATTAGA
1 TTTTATAATTTTAATTAAA
5133560 TATTT-TAATTTT-ATTAAA
1 T-TTTATAATTTTAATTAAA
5133578 TTTTATAAT
1 TTTTATAAT
5133587 ATGATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTAATTAAA
Found at i:5134732 original size:6 final size:6
Alignment explanation
Indices: 5134721--5134754 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
5134711 TTTTGAACCC
*
5134721 CCCCTT CCCCTT CCCCTT CCACTT CCCCTT CCCC
1 CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCCC
5134755 CACCCAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.68, G:0.00, T:0.29
Consensus pattern (6 bp):
CCCCTT
Found at i:5138174 original size:23 final size:23
Alignment explanation
Indices: 5138142--5138229 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
5138132 TTACTGTTCA
*
5138142 GCACCGTGTGTGCTTACTGATTT
1 GCACTGTGTGTGCTTACTGATTT
* * * *
5138165 GCAGTATGTGTGCTTATTGTTTT
1 GCACTGTGTGTGCTTACTGATTT
* *
5138188 GCACTGCGTGTGCCTACTGATTT
1 GCACTGTGTGTGCTTACTGATTT
*
5138211 GCATTGTGTGTGCTTACTG
1 GCACTGTGTGTGCTTACTG
5138230 TTTCCCTAGC
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.12, C:0.18, G:0.27, T:0.42
Consensus pattern (23 bp):
GCACTGTGTGTGCTTACTGATTT
Found at i:5140496 original size:14 final size:14
Alignment explanation
Indices: 5140473--5140507 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5140463 AGATATTAGT
5140473 TAATAATAATAAAA
1 TAATAATAATAAAA
* *
5140487 TAATACTAATTAAA
1 TAATAATAATAAAA
5140501 TAATAAT
1 TAATAAT
5140508 TTATATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:5140530 original size:13 final size:13
Alignment explanation
Indices: 5140486--5140543 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
5140476 TAATAATAAA
*
5140486 ATAATACTAA-TT
1 ATAATATTAATTT
*
5140498 A-AATAATAATTT
1 ATAATATTAATTT
*
5140510 ATATTATT-ATATT
1 ATAATATTAAT-TT
5140523 ATAATATTAATTT
1 ATAATATTAATTT
5140536 ATAATATT
1 ATAATATT
5140544 TTAAATCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 7 0.18
12 6 0.16
13 23 0.61
14 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAATATTAATTT
Found at i:5140533 original size:26 final size:25
Alignment explanation
Indices: 5140486--5140543 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
5140476 TAATAATAAA
*
5140486 ATAATACTA-ATTAAATAATAATTT
1 ATAATATTATATTAAATAATAATTT
* *
5140510 ATATTATTATATTATAATATTAATTT
1 ATAATATTATATTA-AATAATAATTT
5140536 ATAATATT
1 ATAATATT
5140544 TTAAATCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.25
25 4 0.14
26 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATATTATATTAAATAATAATTT
Found at i:5143571 original size:23 final size:23
Alignment explanation
Indices: 5143540--5143622 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
5143530 GGGGAAACAG
5143540 TAAGCACACACAGTGCAAATCAA
1 TAAGCACACACAGTGCAAATCAA
* * * *
5143563 TAGGCACACGCAATGCAAAACAA
1 TAAGCACACACAGTGCAAATCAA
*
5143586 TAAGCACACACAGTGCAAATCAG
1 TAAGCACACACAGTGCAAATCAA
5143609 TAAGCACACACAGT
1 TAAGCACACACAGT
5143623 ACTGAACAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.46, C:0.27, G:0.16, T:0.12
Consensus pattern (23 bp):
TAAGCACACACAGTGCAAATCAA
Found at i:5143632 original size:23 final size:22
Alignment explanation
Indices: 5143534--5143636 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 22
5143524 AGTGCTGGGG
*
5143534 AAACAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACACAGTAC
* * * * *
5143556 AAATCAATAGGCACACGCAATGC
1 AAA-CAGTAAGCACACACAGTAC
* *
5143579 AAAACAATAAGCACACACAGTGC
1 -AAACAGTAAGCACACACAGTAC
5143602 AAATCAGTAAGCACACACAGTAC
1 AAA-CAGTAAGCACACACAGTAC
*
5143625 TGAACAGTAAGC
1 -AAACAGTAAGC
5143637 GCGCTAATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
22 6 0.09
23 56 0.84
24 5 0.07
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.12
Consensus pattern (22 bp):
AAACAGTAAGCACACACAGTAC
Found at i:5143636 original size:46 final size:46
Alignment explanation
Indices: 5143534--5143636 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
5143524 AGTGCTGGGG
* * *
5143534 AAACAGTAAGCACACACAGTGCAAATCAATAGGCACACGCAATGCA
1 AAACAGTAAGCACACACAGTGCAAATCAATAAGCACACACAATACA
* * * *
5143580 AAACAATAAGCACACACAGTGCAAATCAGTAAGCACACACAGTACT
1 AAACAGTAAGCACACACAGTGCAAATCAATAAGCACACACAATACA
*
5143626 GAACAGTAAGC
1 AAACAGTAAGC
5143637 GCGCTAATGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.12
Consensus pattern (46 bp):
AAACAGTAAGCACACACAGTGCAAATCAATAAGCACACACAATACA
Found at i:5146971 original size:18 final size:19
Alignment explanation
Indices: 5146925--5146971 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
5146915 AAATTAAAAA
*
5146925 AAAATATAAAACTACATTT
1 AAAATATAAAAATACATTT
*
5146944 AAAA-ATTAAAAAT-TATTT
1 AAAATA-TAAAAATACATTT
5146962 AAAATATAAA
1 AAAATATAAA
5146972 TTTAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATATAAAAATACATTT
Found at i:5150985 original size:17 final size:17
Alignment explanation
Indices: 5150960--5151000 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
5150950 GAAAAAAGTA
5150960 GTTACAAGAATATGAAAG
1 GTTA-AAGAATATGAAAG
*
5150978 GTTAAAGAATATGGAAG
1 GTTAAAGAATATGAAAG
5150995 GTTAAA
1 GTTAAA
5151001 AGTCAAGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (17 bp):
GTTAAAGAATATGAAAG
Found at i:5172585 original size:21 final size:21
Alignment explanation
Indices: 5172561--5172612 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
5172551 TGAAATGCAA
* *
5172561 GTATCGGTAGTTAGCATACTT
1 GTATCGGTAGTAAGCAAACTT
*
5172582 GTATCGGTAGTAATCAAACTT
1 GTATCGGTAGTAAGCAAACTT
*
5172603 GTATAGGTAG
1 GTATCGGTAG
5172613 AGCTAAGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGTAAGCAAACTT
Found at i:5174303 original size:23 final size:23
Alignment explanation
Indices: 5174276--5174326 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
5174266 TTAATCGATC
*
5174276 TAATTTGATTG-AAGGTCGGTTAA
1 TAATTT-ATTGAAAGGTCGATTAA
* *
5174299 TAATTTTTTGAAAGTTCGATTAA
1 TAATTTATTGAAAGGTCGATTAA
5174322 TAATT
1 TAATT
5174327 AATTCGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (23 bp):
TAATTTATTGAAAGGTCGATTAA
Found at i:5175819 original size:31 final size:29
Alignment explanation
Indices: 5175749--5175820 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
5175739 ACTTCAGATT
* *
5175749 ACATTTTAGTCACTTATGTTTGAAATGTC
1 ACATTTTAGTCACTTACGTTTGAAATGTA
* **
5175778 ACGTTTTAGTCACTTACGTTAATGAGTTGTA
1 ACATTTTAGTCACTTACGTT--TGAAATGTA
5175809 ACATTTTAGTCA
1 ACATTTTAGTCA
5175821 TTGAACCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATGTA
Found at i:5175979 original size:21 final size:22
Alignment explanation
Indices: 5175948--5175988 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5175938 TTAATTATTT
* *
5175948 TTTGCTTCTCCCTCTTTTTTTC
1 TTTGCTTCTCCATCTCTTTTTC
5175970 TTTG-TTCTCCATCTCTTTT
1 TTTGCTTCTCCATCTCTTTT
5175989 AATGTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTGCTTCTCCATCTCTTTTTC
Found at i:5178137 original size:29 final size:29
Alignment explanation
Indices: 5178097--5178270 Score: 160
Period size: 29 Copynumber: 5.9 Consensus size: 29
5178087 CAAGTCCCTA
5178097 AACTATCCAAAAATTCCATTTTTACCCTCG
1 AACT-TCCAAAAATTCCATTTTTACCCTCG
* * *
5178127 AACTTCTAAAAATCCCATTTTTTGA-CCTTG
1 AACTTCCAAAAATTCCA-TTTTT-ACCCTCG
*
5178157 AAACTTCCAAAAA-TCACATTTTTACTCTCG
1 -AACTTCCAAAAATTC-CATTTTTACCCTCG
* * *
5178187 AACTCCCAAAAATCCCATTTTGA-CCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
* *
5178215 AAACCTCC-AAAATTACATTTTTACCAC-CG
1 -AACTTCCAAAAATTCCATTTTTACC-CTCG
*
5178244 AACTTCCAAAAATTCCATTTTGACCCT
1 AACTTCCAAAAATTCCATTTTTACCCT
5178271 AAAGCTTGAA
Statistics
Matches: 114, Mismatches: 19, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
28 23 0.20
29 53 0.46
30 24 0.21
31 14 0.12
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:5178198 original size:60 final size:59
Alignment explanation
Indices: 5178096--5178264 Score: 202
Period size: 60 Copynumber: 2.8 Consensus size: 59
5178086 ACAAGTCCCT
* *
5178096 AAACTATCCAAAAATTC-CATTTTTACCCTCGAACTTCTAAAAATCCCATTTTTTGACCTTG
1 AAACT-TCCAAAAA-TCACATTTTTA-CCTCGAACTTCCAAAAATCCCATTTTTTGACCTCG
*
5178157 AAACTTCCAAAAATCACATTTTTACTCTCGAACTCCCAAAAATCCCA--TTTTGACCTCG
1 AAACTTCCAAAAATCACATTTTTAC-CTCGAACTTCCAAAAATCCCATTTTTTGACCTCG
* * * *
5178215 AAACCTCC-AAAATTACATTTTTACCACCGAACTTCCAAAAATTCCATTTT
1 AAACTTCCAAAAATCACATTTTTACC-TCGAACTTCCAAAAATCCCATTTT
5178265 GACCCTAAAG
Statistics
Matches: 95, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
56 1 0.01
57 32 0.34
58 17 0.18
59 5 0.05
60 35 0.37
61 5 0.05
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (59 bp):
AAACTTCCAAAAATCACATTTTTACCTCGAACTTCCAAAAATCCCATTTTTTGACCTCG
Found at i:5178253 original size:57 final size:57
Alignment explanation
Indices: 5178102--5178268 Score: 210
Period size: 57 Copynumber: 2.9 Consensus size: 57
5178092 CCCTAAACTA
* * * *
5178102 TCCAAAAATTCCATTTTTACCCTCGAACTTCTAAAAATCCCATTTTTTGACCTTGAAACT
1 TCCAAAAATTACATTTTTACCC-CGAACTTCCAAAAATCCCA--TTTTGACCTCGAAACC
* * *
5178162 TCCAAAAATCACATTTTTACTCTCGAACTCCCAAAAATCCCATTTTGACCTCGAAACC
1 TCCAAAAATTACATTTTTAC-CCCGAACTTCCAAAAATCCCATTTTGACCTCGAAACC
*
5178220 TCC-AAAATTACATTTTTACCACCGAACTTCCAAAAATTCCATTTTGACC
1 TCCAAAAATTACATTTTTACC-CCGAACTTCCAAAAATCCCATTTTGACC
5178269 CTAAAGCTTG
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
56 1 0.01
57 40 0.43
58 17 0.18
60 35 0.37
61 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (57 bp):
TCCAAAAATTACATTTTTACCCCGAACTTCCAAAAATCCCATTTTGACCTCGAAACC
Found at i:5178382 original size:29 final size:29
Alignment explanation
Indices: 5178291--5178382 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
5178281 AAAAATACCA
* * *
5178291 TTTACCCCTAGATGTCTAAAAACTCCATT
1 TTTACCCCCAGATGTCCAAAAATTCCATT
* *
5178320 TTTAAACCCCACA-ACT-TTCAAAAATTACC-GT
1 TTT--ACCCC-CAGA-TGTCCAAAAATT-CCATT
5178351 TTTACCCCCAGATGTCCAAAAATTCCATT
1 TTTACCCCCAGATGTCCAAAAATTCCATT
5178380 TTT
1 TTT
5178383 GATCCTAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
28 5 0.10
29 22 0.46
31 17 0.35
32 4 0.08
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (29 bp):
TTTACCCCCAGATGTCCAAAAATTCCATT
Found at i:5178427 original size:58 final size:58
Alignment explanation
Indices: 5178335--5178469 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 58
5178325 ACCCCACAAC
* ** *
5178335 TTTCAAAAATTACCGTTTTACCCCCAGATGTCCAAAAATTCCATTTTTGATCC-T-AATT
1 TTTCAAAAATTACCATTTTACCCCCAGACATCC-AAAATTCCATTTTT-AACCTTAAATT
* * * *
5178393 TTTCTAAAATTACCATTTTACCTCTAGACATCCAAAATTTCATTTTTAACCTTAAATT
1 TTTCAAAAATTACCATTTTACCCCCAGACATCCAAAATTCCATTTTTAACCTTAAATT
* *
5178451 TTCCCAAAATTACCATTTT
1 TTTCAAAAATTACCATTTT
5178470 GCCCTCGAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 3 0.05
57 14 0.22
58 48 0.74
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.41
Consensus pattern (58 bp):
TTTCAAAAATTACCATTTTACCCCCAGACATCCAAAATTCCATTTTTAACCTTAAATT
Found at i:5178515 original size:28 final size:29
Alignment explanation
Indices: 5178454--5178515 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
5178444 TTAAATTTTC
* *
5178454 CCAAAATTACCATTTTGCCCTCGAGAGTT
1 CCAAAATTACAATTTTGCCCTCCAGAGTT
*
5178483 -TAAAATTACAATTTTGCCC-CCAG-GTAT
1 CCAAAATTACAATTTTGCCCTCCAGAGT-T
5178510 CCAAAA
1 CCAAAA
5178516 AGTCGCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 4 0.15
28 21 0.78
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (29 bp):
CCAAAATTACAATTTTGCCCTCCAGAGTT
Found at i:5187436 original size:18 final size:19
Alignment explanation
Indices: 5187413--5187448 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5187403 AATTTTGAAG
*
5187413 AAAAAATATT-TGAAAAAC
1 AAAAAAAATTATGAAAAAC
5187431 AAAAAAAATTATGAAAAA
1 AAAAAAAATTATGAAAAA
5187449 AATTAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (19 bp):
AAAAAAAATTATGAAAAAC
Found at i:5190389 original size:43 final size:43
Alignment explanation
Indices: 5190298--5190395 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 43
5190288 TAAATAAAAA
* * * * *
5190298 GTTTGCAGA-TAATTGCTAGTAGGTTATGGATGAATCATTAGT
1 GTTTGCAGATTAATTGCCAGTAAGTTATAGATGAAACACTAGT
*
5190340 GTTTTGCAGATTAATTGCCAGTAAGTTGTAGATGAAACACTAGT
1 G-TTTGCAGATTAATTGCCAGTAAGTTATAGATGAAACACTAGT
5190384 GTTTGCAGATTA
1 GTTTGCAGATTA
5190396 TCAAACTGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 19 0.40
44 28 0.58
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (43 bp):
GTTTGCAGATTAATTGCCAGTAAGTTATAGATGAAACACTAGT
Found at i:5190516 original size:32 final size:33
Alignment explanation
Indices: 5190477--5190550 Score: 87
Period size: 38 Copynumber: 2.1 Consensus size: 33
5190467 ACGGTATAAA
*
5190477 AACAATAG-ACATGCTTAACATGTATTCAGTTC
1 AACAATAGAAAATGCTTAACATGTATTCAGTTC
5190509 AACAATAGCAATAAAAATGCTTAACATGTATTCAGTTC
1 AACAATAG-----AAAATGCTTAACATGTATTCAGTTC
5190547 AACA
1 AACA
5190551 GTCGTGGTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
32 8 0.23
38 27 0.77
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (33 bp):
AACAATAGAAAATGCTTAACATGTATTCAGTTC
Found at i:5190574 original size:29 final size:29
Alignment explanation
Indices: 5190542--5190613 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
5190532 ACATGTATTC
5190542 AGTTCAACAGTCGTGGTAGACATGCTTTT
1 AGTTCAACAGTCGTGGTAGACATGCTTTT
5190571 AGTTCAACAGTCGTGGTAGACATGCTTTT
1 AGTTCAACAGTCGTGGTAGACATGCTTTT
5190600 AGTTCAACAGTCGT
1 AGTTCAACAGTCGT
5190614 AGTGTTAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (29 bp):
AGTTCAACAGTCGTGGTAGACATGCTTTT
Found at i:5192247 original size:29 final size:30
Alignment explanation
Indices: 5192214--5192274 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
5192204 ACTTATTTTA
*
5192214 TTATTAATTTTGTTATTA-TTTAGAGGCAT
1 TTATTAATTTTGTTACTATTTTAGAGGCAT
5192243 TTATTAATTTTGTTACTATTTTAGAGGCAT
1 TTATTAATTTTGTTACTATTTTAGAGGCAT
5192273 TT
1 TT
5192275 GTTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTATTAATTTTGTTACTATTTTAGAGGCAT
Found at i:5192756 original size:5 final size:5
Alignment explanation
Indices: 5192746--5192778 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
5192736 TTTTAAAAAT
5192746 ATTTA ATTTA ATTTA ATTTA ATTTA ATATTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA AT
5192779 AATTTTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTA
Found at i:5195084 original size:18 final size:17
Alignment explanation
Indices: 5195052--5195086 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5195042 CATTTTGTAA
*
5195052 TATTTATATTATTGAAT
1 TATTTATACTATTGAAT
5195069 TATTTAATACTATTGAAT
1 TATTT-ATACTATTGAAT
5195087 CTTTATAAAT
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:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (17 bp):
TATTTATACTATTGAAT
Found at i:5195374 original size:19 final size:20
Alignment explanation
Indices: 5195350--5195389 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5195340 AGTTAATAAC
*
5195350 AAATTTGATTATGGT-GGAT
1 AAATTTGATTACGGTAGGAT
5195369 AAATTTGATTACGGTAGGAT
1 AAATTTGATTACGGTAGGAT
5195389 A
1 A
5195390 GTGATTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (20 bp):
AAATTTGATTACGGTAGGAT
Found at i:5196108 original size:26 final size:26
Alignment explanation
Indices: 5196075--5196151 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
5196065 ATTTTTTAGG
*
5196075 TTTAAATTTATTAAATTTAAATTCAT
1 TTTAAATTTATTAAATTTAAATTCAA
* *
5196101 TTTAAATTTA-AAATATTTGAAA-TGAA
1 TTTAAATTTATTAA-ATTT-AAATTCAA
5196127 TTTAAATTTAATTAAAATTTAAATT
1 TTTAAATTT-ATT-AAATTTAAATT
5196152 GAAAAGTCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 2 0.05
26 25 0.61
27 7 0.17
28 5 0.12
29 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (26 bp):
TTTAAATTTATTAAATTTAAATTCAA
Found at i:5196203 original size:13 final size:13
Alignment explanation
Indices: 5196182--5196229 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
5196172 TCCATTTACA
5196182 AAGGCCCAAATTG
1 AAGGCCCAAATTG
* * *
5196195 AAGGACCAATTTAA
1 AAGGCCCAAATT-G
5196209 AAGGCCCAAATTG
1 AAGGCCCAAATTG
*
5196222 AGGGCCCA
1 AAGGCCCA
5196230 TTTACAATGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
AAGGCCCAAATTG
Found at i:5196218 original size:27 final size:27
Alignment explanation
Indices: 5196175--5196246 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
5196165 AGCCAAGTCC
5196175 ATTTACAAAGGCCCAAATTGAAGGACCA
1 ATTTACAAAGGCCCAAATTG-AGGACCA
* *
5196203 ATTTA-AAAGGCCCAAATTGAGGGCCC
1 ATTTACAAAGGCCCAAATTGAGGACCA
*
5196229 ATTTACAATGGCCCAAAT
1 ATTTACAAAGGCCCAAAT
5196247 AGGCCCAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.25
27 25 0.62
28 5 0.12
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (27 bp):
ATTTACAAAGGCCCAAATTGAGGACCA
Found at i:5198044 original size:29 final size:30
Alignment explanation
Indices: 5198001--5198088 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
5197991 ATGGGTCCCT
5198001 AAACTATCCAAAAATCACATTTTGACCCCG
1 AAACTATCCAAAAATCACATTTTGACCCCG
* * *
5198031 AAACT-TCTAAAAATTACATTTTTACCCTC-
1 AAACTATCCAAAAATCACATTTTGACCC-CG
* * *
5198060 AAATTTTCCAAAATTC-CATTTT-ACCCCG
1 AAACTATCCAAAAATCACATTTTGACCCCG
5198088 A
1 A
5198089 TTTTGAAATG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 29 0.60
30 13 0.27
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (30 bp):
AAACTATCCAAAAATCACATTTTGACCCCG
Found at i:5210471 original size:200 final size:202
Alignment explanation
Indices: 5209541--5210826 Score: 1901
Period size: 201 Copynumber: 6.4 Consensus size: 202
5209531 TCTTCCTGAT
* *
5209541 GAGAAGAACACCAACTTAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTTG-TGAGAC
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCC-TGATGAGAC
*
5209605 ACTGAGAAGCAAGTCGAAGA-AATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCA
65 ACTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCA
* *
5209669 GATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCAACTTCCTGAT
130 AATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCATCTTCCTGAT
5209734 GAGATACA
195 GAGATACA
* * *
5209742 GAGAAGAATACCAACTCAGCGCTAAAAAACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
* *
5209807 CTGAGAAGCAAGTTGAA-ACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
66 CTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
* * *
5209871 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCGAAACAAGTGAGGCGGTCATCTTCCTGATA
131 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCATCTTCCTGATG
5209936 AGATACA
196 AGATACA
* *
5209943 GAGAAGAATACCAACTCAGCGCTCAAACACGAGTAAATCTTCGAACCCAGCTTCCTGATGAGACA
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
* * * *
5210008 CTGAGAAGCAGGTTGAA-ACAATAAAAAGGTTAGTTTCTTGATGAGACACAGAGAAGTAGACCAA
66 CTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
* *
5210072 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCACAACAAGCGAGGCAGTCATCTTCCTGATG
131 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCATCTTCCTGATG
*
5210137 AGGTACA
196 AGATACA
* *
5210144 GAGAAGAATACCAACTCAGCGCTCAAACACGAGTAAATCTTCGAACCCAGCTTCCTGATGAGACA
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
* *
5210209 CTGAGAAGCAGGTCGAAG-CAATAAAAAGGTTAGCTTCCTAATGAGATACAGAGAAGTGGACCAA
66 CTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
** * * *
5210273 ATTTATCTTCCTGAGGAGATCCAGAGAAGC-AACTTAAAACAACCGAGACGGTCATCTTCCTGAT
131 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAA-TCAAAACAAGCGAGGCGGTCATCTTCCTGAT
5210337 GAGATACA
195 GAGATACA
* * *
5210345 GAGAAGAATACCAACTCAACACT-AAACGCGAGCAAATCTTCGAACCCAACTTCCTGATGAGACA
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
* * * *
5210409 CTAAGAAGCAGGTCGAAGA-AATAAAAAGGTTAGTTTCCTGATGAGACCCAAAGAAGTGGACCAA
66 CTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
* * ** * * *
5210473 ATTCGTCTTCCTGAGGAGATCCAGATAAGCAAATTGAAACAAACGAGACGGTCATCTTCCTAATG
131 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCATCTTCCTGATG
5210538 AGATACA
196 AGATACA
* **
5210545 GAGAAGAATGCCAACTCAACGCTC-AATGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
* * * * * *
5210609 CCGATAAGCAAGTC-AAAATAATAAAAAGGTTAGCTTCCTGATGAGACACAAAGAAGTGGACCAA
66 CTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
* * ** * *
5210673 ATTCGTCTTCTTGAGGAGACCCAGAGAAGCGAATTGAAACAAACGAGGCGGTCATATTCCTGATG
131 ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCATCTTCCTGATG
*
5210738 AGACACA
196 AGATACA
* * *
5210745 GAGAAGAATACCAACTCAACACT-TAACACGAGCAAATCTTCGAACCCAGCTTCCTGGTGAGACA
1 GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
5210809 CTGAGAAGCAGGTCGAAG
66 CTGAGAAGCAGGTCGAAG
5210827 TCAACAAACT
Statistics
Matches: 992, Mismatches: 83, Indels: 20
0.91 0.08 0.02
Matches are distributed among these distances:
199 3 0.00
200 408 0.41
201 581 0.59
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (202 bp):
GAGAAGAATACCAACTCAACGCTCAAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
CTGAGAAGCAGGTCGAAGACAATAAAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAA
ATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGGTCATCTTCCTGATG
AGATACA
Found at i:5211256 original size:13 final size:13
Alignment explanation
Indices: 5211238--5211285 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
5211228 TCCATTTACA
5211238 AAGGCCCAAATTG
1 AAGGCCCAAATTG
* *
5211251 AAGGCCCAATTTAA
1 AAGGCCCAAATT-G
5211265 AAGGCCCAAATTG
1 AAGGCCCAAATTG
*
5211278 AGGGCCCA
1 AAGGCCCA
5211286 TTTACAATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (13 bp):
AAGGCCCAAATTG
Found at i:5211270 original size:14 final size:14
Alignment explanation
Indices: 5211231--5211273 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
5211221 AGCCAAGTCC
5211231 ATTTACAAAGGCCCA
1 ATTTA-AAAGGCCCA
* *
5211246 AATT-GAAGGCCCA
1 ATTTAAAAGGCCCA
5211259 ATTTAAAAGGCCCA
1 ATTTAAAAGGCCCA
5211273 A
1 A
5211274 ATTGAGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.48
14 9 0.39
15 3 0.13
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (14 bp):
ATTTAAAAGGCCCA
Found at i:5211274 original size:27 final size:27
Alignment explanation
Indices: 5211229--5211302 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
5211219 ATAGCCAAGT
5211229 CCATTTACAAAGGCCCAAATTGAAGGC
1 CCATTTACAAAGGCCCAAATTGAAGGC
*
5211256 CCAATTTA-AAAGGCCCAAATTGAGGGC
1 CC-ATTTACAAAGGCCCAAATTGAAGGC
*
5211283 CCATTTACAATGGCCCAAAT
1 CCATTTACAAAGGCCCAAAT
5211303 AGGCCCAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.12
27 33 0.77
28 5 0.12
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (27 bp):
CCATTTACAAAGGCCCAAATTGAAGGC
Found at i:5213109 original size:29 final size:29
Alignment explanation
Indices: 5213064--5213124 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
5213054 GCTTATGGGT
5213064 CCCTAAACTATCCAAAAATCACATTTTGA
1 CCCTAAACTATCCAAAAATCACATTTTGA
* * *
5213093 CCCTAAAAC-ATCTAAAAATTACATTTTTA
1 CCCT-AAACTATCCAAAAATCACATTTTGA
5213122 CCC
1 CCC
5213125 CCAAATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.30
Consensus pattern (29 bp):
CCCTAAACTATCCAAAAATCACATTTTGA
Found at i:5213177 original size:59 final size:58
Alignment explanation
Indices: 5213106--5213418 Score: 291
Period size: 58 Copynumber: 5.4 Consensus size: 58
5213096 TAAAACATCT
* *
5213106 AAAAATTA-CATTTTTACCCCCAAATTTTCCAAAATTCC-TTATTTAACC-CTATTTCAAC
1 AAAAATTACCA-TTTTACCCCCAAACTTTCCAAAATTCCATT-TTTAACCTCGATTTC-AC
* * * *
5213164 AAAAATTACCATTTTACCCCCAAACTTTCCTAAATTCCATTTTAAACCCCAATTTTGC-C
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGA-TTT-CAC
* * * *
5213223 CAAAATTACCATTTTACCCTCGAA-TCTTCCAAAATTCCATTTTTGACCTCGATTTCAC
1 AAAAATTACCATTTTACCCCCAAACT-TTCCAAAATTCCATTTTTAACCTCGATTTCAC
* * * **
5213281 CAAAATTACCGTTTTACCCCAAAACTTTCCAAAACCCCA-TTTTAACCTCGATTTCAC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
* * * * *
5213338 TAAAAATTACCATTTTACCCCCAAACCTTCTAAAATCCCATTTTTAATCTTGAATTTTC-C
1 -AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCG-A-TTTCAC
*
5213398 CAAAATTA-CATTTTAGCCCCC
1 AAAAATTACCATTTTA-CCCCC
5213419 TAATAGTCAA
Statistics
Matches: 214, Mismatches: 28, Indels: 25
0.80 0.10 0.09
Matches are distributed among these distances:
57 18 0.08
58 115 0.54
59 71 0.33
60 5 0.02
61 5 0.02
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
Found at i:5213203 original size:28 final size:27
Alignment explanation
Indices: 5213107--5213361 Score: 110
Period size: 29 Copynumber: 8.8 Consensus size: 27
5213097 AAAACATCTA
5213107 AAAATTA-CATTTTTACCCCCAAATTTTCC
1 AAAATTACCA-TTTTACCCCC-AA-TTTCC
* * *
5213136 AAAATT-CCTTATTTA-ACCCTATTTCAAC
1 AAAATTACCAT-TTTACCCCCAATTTC--C
5213164 AAAAATTACCATTTTACCCCCAAACTTTCC
1 -AAAATTACCATTTTACCCCC-AA-TTTCC
* *
5213194 TAAATT-CCATTTTAAACCCCAATTTTGCCC
1 AAAATTACCATTTT-ACCCCCAA-TTT--CC
*
5213224 AAAATTACCATTTTACCCTCGAATCTTCC
1 AAAATTACCATTTTACCC-CCAAT-TTCC
* *
5213253 AAAATT-CCATTTTTGA-CCTCGATTTCACC
1 AAAATTACCA-TTTT-ACCCCCAATTT--CC
* *
5213282 AAAATTACCGTTTTACCCCAAAACTTTCC
1 AAAATTACCATTTTACCCC-CAA-TTTCC
** * * *
5213311 AAAA-CCCCATTTTAACCTCGATTTCAC
1 AAAATTACCATTTTACCCCCAATTTC-C
5213338 TAAAAATTACCATTTTACCCCCAA
1 --AAAATTACCATTTTACCCCCAA
5213362 ACCTTCTAAA
Statistics
Matches: 168, Mismatches: 31, Indels: 53
0.67 0.12 0.21
Matches are distributed among these distances:
26 8 0.05
27 5 0.03
28 32 0.19
29 69 0.41
30 34 0.20
31 16 0.10
32 4 0.02
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAATTACCATTTTACCCCCAATTTCC
Found at i:5213286 original size:117 final size:116
Alignment explanation
Indices: 5213106--5213418 Score: 330
Period size: 117 Copynumber: 2.7 Consensus size: 116
5213096 TAAAACATCT
* * *
5213106 AAAAATTA-CATTTTTACCCCCAAATTTTCCAAAATTCC-TTATTTAACC-CTATTTCAACAAAA
1 AAAAATTACCA-TTTTACCCCCAAATCTTCCAAAATTCCATT-TTTAACCTCGATTTC-ACCAAA
* ** **
5213168 ATTACCATTTTACCCCCAAACTTTCCTAAATTCCATTTTAAACCCCAATTTTGCC
63 ATTACCATTTTACCCCCAAACTTTCCAAAACCCCATTTT-AACCCCAATTTCACC
* * * *
5213223 CAAAATTACCATTTTACCCTCGAATCTTCCAAAATTCCATTTTTGACCTCGATTTCACCAAAATT
1 AAAAATTACCATTTTACCCCCAAATCTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATT
* * * * *
5213288 ACCGTTTTACCCCAAAACTTTCCAAAACCCCATTTTAACCTCGATTTCACT
66 ACCATTTTACCCCCAAACTTTCCAAAACCCCATTTTAACCCCAATTTCACC
* * * * *
5213339 AAAAATTACCATTTTACCCCCAAACCTTCTAAAATCCCATTTTTAATCTTGAATTTTC-CCAAAA
1 AAAAATTACCATTTTACCCCCAAATCTTCCAAAATTCCATTTTTAACCTCG-A-TTTCACCAAAA
5213403 TTA-CATTTTAGCCCCC
64 TTACCATTTTA-CCCCC
5213419 TAATAGTCAA
Statistics
Matches: 162, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
116 58 0.36
117 90 0.56
118 14 0.09
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (116 bp):
AAAAATTACCATTTTACCCCCAAATCTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATT
ACCATTTTACCCCCAAACTTTCCAAAACCCCATTTTAACCCCAATTTCACC
Found at i:5219693 original size:53 final size:53
Alignment explanation
Indices: 5219613--5219720 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
5219603 ATAAAATAAA
*
5219613 ATTAGAAAACTTAGGAGAATCGTCTACCCAACCAATCTCTCATAAGATAGATG
1 ATTAGAAAACTTAGGAGAATCGTCTACCCAACCAATCCCTCATAAGATAGATG
* *
5219666 ATTAGAGAACTTAGGAGAATCGTCTACCCAACCAATCCCTCATAGGATAGATG
1 ATTAGAAAACTTAGGAGAATCGTCTACCCAACCAATCCCTCATAAGATAGATG
5219719 AT
1 AT
5219721 CTAAATAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (53 bp):
ATTAGAAAACTTAGGAGAATCGTCTACCCAACCAATCCCTCATAAGATAGATG
Done.