Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000655.1 Hibiscus syriacus cultivar Beakdansim tig00001267_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 161880
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1341 original size:33 final size:33
Alignment explanation
Indices: 1299--1397 Score: 198
Period size: 33 Copynumber: 3.0 Consensus size: 33
1289 CCTAGTACAG
1299 ATGGTGGACACGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
1332 ATGGTGGACACGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
1365 ATGGTGGACACGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
1398 GGCACTACGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (33 bp):
ATGGTGGACACGACCTTATGTGTCATACGGATT
Found at i:1495 original size:20 final size:20
Alignment explanation
Indices: 1458--1496 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1448 AATATTGGGC
* * *
1458 TATTTTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
1478 TATTGTCTATGGTATATGG
1 TATTGTCTATGGTATATGG
1497 ATATGGAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.56
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:1954 original size:12 final size:12
Alignment explanation
Indices: 1916--1962 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1906 ATGTTGAAAA
1916 TACTGTAGCAGT
1 TACTGTAGCAGT
* *
1928 TATTGTAGTAG-
1 TACTGTAGCAGT
*
1939 TACTGCAGCAGT
1 TACTGTAGCAGT
*
1951 TACTATAGCAGT
1 TACTGTAGCAGT
1963 GCATCGATGC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (12 bp):
TACTGTAGCAGT
Found at i:2090 original size:22 final size:23
Alignment explanation
Indices: 2037--2099 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
2027 GCATCGATAC
*
2037 ACTGTTCATCACTATTCACGGGT
1 ACTGTTCATCACTATTCACGGAT
* *
2060 ACTGTTCATCACTGTTTAC-GAT
1 ACTGTTCATCACTATTCACGGAT
*
2082 ATTGTTCATCACTATTCA
1 ACTGTTCATCACTATTCA
2100 TAAAAAATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.40
Consensus pattern (23 bp):
ACTGTTCATCACTATTCACGGAT
Found at i:3696 original size:21 final size:20
Alignment explanation
Indices: 3671--3719 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
3661 TAAGCTGTGT
**
3671 ATTATAAATTAAATATTAATA
1 ATTATAAAAAAAATA-TAATA
3692 ATTATATAAAAAAATATAATA
1 ATTATA-AAAAAAATATAATA
*
3713 ATAATAA
1 ATTATAA
3720 TAATAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTATAAAAAAAATATAATA
Found at i:3713 original size:3 final size:3
Alignment explanation
Indices: 3682--3731 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
3672 TTATAAATTA
* * *
3682 AAT ATT AAT AAT TAT -AT AA- AAA AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3727 AAT AA
1 AAT AA
3732 ATTTAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12735 original size:60 final size:60
Alignment explanation
Indices: 12664--12776 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
12654 GTCGAGTAAC
* * * *
12664 CATTTTGTAACTTTTAATAATC-GAGAGACTCAACAAATCAATTCCCTATAGTCTGAGGAT
1 CATTTTATAACTTTTAATAATCGGA-AGACTCAACAAAGCAATACCCTAAAGTCTGAGGAT
* *
12724 CATTTTATAACTTTTAATAGTCGGAAGACTCAATAAAGCAATACCCTAAAGTC
1 CATTTTATAACTTTTAATAATCGGAAGACTCAACAAAGCAATACCCTAAAGTC
12777 AAAACACCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAATCGGAAGACTCAACAAAGCAATACCCTAAAGTCTGAGGAT
Found at i:12788 original size:60 final size:60
Alignment explanation
Indices: 12662--12788 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
12652 TAGTCGAGTA
* * * * ** **
12662 ACCATTTTGTAACTTTTAATAATCGAGAGACTCAACAAATCAATTCCCTATAGTCTGAGG
1 ACCATTTTATAACTTTTAATAATCGAGAGACTCAACAAAGCAATACCCTAAAGTCAAAAC
* * *
12722 ATCATTTTATAACTTTTAATAGTCG-GAAGACTCAATAAAGCAATACCCTAAAGTCAAAAC
1 ACCATTTTATAACTTTTAATAATCGAG-AGACTCAACAAAGCAATACCCTAAAGTCAAAAC
12782 ACCATTT
1 ACCATTT
12789 GTGTACTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
59 1 0.02
60 53 0.98
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (60 bp):
ACCATTTTATAACTTTTAATAATCGAGAGACTCAACAAAGCAATACCCTAAAGTCAAAAC
Found at i:22375 original size:23 final size:23
Alignment explanation
Indices: 22303--22412 Score: 122
Period size: 23 Copynumber: 4.9 Consensus size: 23
22293 AGCTCATAAT
*
22303 TTGCACCGAAGTGCCACATA--A
1 TTGCACCGAAGTGCCACATATGG
*
22324 TTGTC-TCGAAG-GACCACATA-GG
1 TTG-CACCGAAGTG-CCACATATGG
*
22346 TTGCACCTAAGTGCCACATATGG
1 TTGCACCGAAGTGCCACATATGG
* *
22369 TTACACCGAAGTGCCACATAGGG
1 TTGCACCGAAGTGCCACATATGG
22392 TTGCACCGAAGTGCCACATAT
1 TTGCACCGAAGTGCCACATAT
22413 TTTTCCCAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
20 1 0.01
21 16 0.22
22 15 0.20
23 42 0.57
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACATATGG
Found at i:22431 original size:21 final size:21
Alignment explanation
Indices: 22397--22453 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
22387 TAGGGTTGCA
* *
22397 CCGAAGTG-CCACATATTTTTC
1 CCGAAG-GACCACATAATTGTC
22418 CC-AGAGGACCACATAATTGTC
1 CCGA-AGGACCACATAATTGTC
22439 CCGAAGGACCACATA
1 CCGAAGGACCACATA
22454 GACCCTCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (21 bp):
CCGAAGGACCACATAATTGTC
Found at i:23162 original size:55 final size:55
Alignment explanation
Indices: 22964--23163 Score: 296
Period size: 55 Copynumber: 3.6 Consensus size: 55
22954 TCATACTTGG
* *
22964 GGGTATCGATACACTTCTCAGTGTACCGATACAAAAATAGTAC--TCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAAT-G-ACATTCGATGTTTTGA
* *
23019 GGGTATCGATATACTCCTCAGTGTACCGATACAGAAATGACATTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTTGA
*
23074 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTTCA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTTGA
* * *
23129 GGGTATCGATACACTCTTAAGTATACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
23164 CTCATACAAA
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 2 0.01
54 1 0.01
55 131 0.98
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTTGA
Found at i:25222 original size:64 final size:64
Alignment explanation
Indices: 25153--25311 Score: 196
Period size: 64 Copynumber: 2.5 Consensus size: 64
25143 TTGAATGTGT
** ***
25153 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATGCAATTCATG
25216 C
64 C
* * *
25217 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
* *
25281 ACCGATGCATCAGTAGTGCATCGATGCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATAC
25312 TTTCATTGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 1 0.01
64 79 0.95
65 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:26209 original size:31 final size:31
Alignment explanation
Indices: 26171--26235 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
26161 AGAGTCGAGG
*
26171 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
26202 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
26233 GTT
1 GTT
26236 ACCGAGGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:26322 original size:29 final size:30
Alignment explanation
Indices: 26221--26319 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
26211 GGTTCTTCGG
*
26221 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
26251 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
26281 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
26310 GACCTCTGGA
1 GACCTCTGGA
26320 TAGGTCATTC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
29 18 0.28
30 47 0.72
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:31803 original size:22 final size:22
Alignment explanation
Indices: 31778--31915 Score: 88
Period size: 22 Copynumber: 6.3 Consensus size: 22
31768 CACCACAGCT
*
31778 CATAATTTGCACCGAAGTGCCA
1 CATAATTTGTACCGAAGTGCCA
* *
31800 CATAA-TTATCCCGAAG-GACCA
1 CATAATTTGTACCGAAGTG-CCA
* *
31821 CAT-ATGTTGTACCAAAGTACCA
1 CATAAT-TTGTACCGAAGTGCCA
** * *
31843 CATAGGTTGTACCGAAGTACCC
1 CATAATTTGTACCGAAGTGCCA
**
31865 CATAGGGTTGTACCGAAGTGCCA
1 CATA-ATTTGTACCGAAGTGCCA
* *
31888 CAT-ATTTGTCCCGGAG-GACCA
1 CATAATTTGTACCGAAGTG-CCA
31909 CATAATT
1 CATAATT
31916 ATCCCGAAGG
Statistics
Matches: 91, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
20 3 0.03
21 29 0.32
22 40 0.44
23 19 0.21
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (22 bp):
CATAATTTGTACCGAAGTGCCA
Found at i:31815 original size:21 final size:22
Alignment explanation
Indices: 31788--31891 Score: 104
Period size: 22 Copynumber: 4.7 Consensus size: 22
31778 CATAATTTGC
* *
31788 ACCGAAGTGCCACATA-ATTAT
1 ACCGAAGTGCCACATAGGTTGT
* *
31809 CCCGAAG-GACCACATATGTTGT
1 ACCGAAGTG-CCACATAGGTTGT
* *
31831 ACCAAAGTACCACATAGGTTGT
1 ACCGAAGTGCCACATAGGTTGT
* *
31853 ACCGAAGTACCCCATAGGGTTGT
1 ACCGAAGTGCCACATA-GGTTGT
31876 ACCGAAGTGCCACATA
1 ACCGAAGTGCCACATA
31892 TTTGTCCCGG
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.01
21 13 0.19
22 34 0.50
23 20 0.29
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (22 bp):
ACCGAAGTGCCACATAGGTTGT
Found at i:31877 original size:23 final size:22
Alignment explanation
Indices: 31788--31934 Score: 111
Period size: 21 Copynumber: 6.8 Consensus size: 22
31778 CATAATTTGC
* * *
31788 ACCGAAGTGCCACATA-ATTAT
1 ACCGAAGTACCACATAGGTTGT
* * *
31809 CCCGAAGGACCACATATGTTGT
1 ACCGAAGTACCACATAGGTTGT
*
31831 ACCAAAGTACCACATAGGTTGT
1 ACCGAAGTACCACATAGGTTGT
*
31853 ACCGAAGTACCCCATAGGGTTGT
1 ACCGAAGTACCACATA-GGTTGT
* *
31876 ACCGAAGTGCCACATA-TTTGT
1 ACCGAAGTACCACATAGGTTGT
* * * * *
31897 CCCGGAGGACCACATA-ATTAT
1 ACCGAAGTACCACATAGGTTGT
* *
31918 CCCGAAGGACCACATAG
1 ACCGAAGTACCACATAG
31935 ACCCTCGACT
Statistics
Matches: 102, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
21 47 0.46
22 35 0.34
23 20 0.20
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (22 bp):
ACCGAAGTACCACATAGGTTGT
Found at i:32639 original size:55 final size:55
Alignment explanation
Indices: 32443--32640 Score: 243
Period size: 55 Copynumber: 3.6 Consensus size: 55
32433 TCATACTTAG
* * * ** *
32443 GGGTATTGATACACTCCTCAGTGTACTGATACACAAATAACACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACATAAATGGCATTCGATGTTTTGA
* * * * * * *
32498 GGGTATCGATACACTCCTTAGTGTATCGAAATATAGATGGCATTCAATATTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACATAAATGGCATTCGATGTTTTGA
* * *
32553 GGGTATCGATACACTCCTCAGTATACTGATACATAAATGGCATTTGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACATAAATGGCATTCGATGTTTTGA
*
32608 GGGTATCGATACACTCCTAAGTGTACCGATACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACA
32641 CACTCATACA
Statistics
Matches: 117, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 117 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACATAAATGGCATTCGATGTTTTGA
Found at i:40154 original size:14 final size:14
Alignment explanation
Indices: 40119--40158 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
40109 TTTTTTTTGT
*
40119 GTTTGTGTT-GTTT
1 GTTTGTGTTCGTTC
*
40132 GTTTATGTTCGTTC
1 GTTTGTGTTCGTTC
40146 GTTTGTGTTCGTT
1 GTTTGTGTTCGTT
40159 TACATTCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.03, C:0.07, G:0.28, T:0.62
Consensus pattern (14 bp):
GTTTGTGTTCGTTC
Found at i:40556 original size:29 final size:30
Alignment explanation
Indices: 40493--40557 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
40483 GAGGGAAGAT
*
40493 GAAGAAAACATTGAAACTAAGCACAAAATT
1 GAAGAAAACATTGAAACTAAGCACAAAATC
* *
40523 GAAGAAAACAATT-AAATTAA-CCCAAAATC
1 GAAGAAAAC-ATTGAAACTAAGCACAAAATC
40552 GAAGAA
1 GAAGAA
40558 GATATACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.42
30 15 0.48
31 3 0.10
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.15
Consensus pattern (30 bp):
GAAGAAAACATTGAAACTAAGCACAAAATC
Found at i:45142 original size:113 final size:113
Alignment explanation
Indices: 44944--45175 Score: 464
Period size: 113 Copynumber: 2.1 Consensus size: 113
44934 TGCTAAGATC
44944 AACCAGTCGTTATTCACTTTGTCGAATGTGATTCATGCTTTGAACAACATGCTGCCCAGAGTACC
1 AACCAGTCGTTATTCACTTTGTCGAATGTGATTCATGCTTTGAACAACATGCTGCCCAGAGTACC
45009 ATATCGAGAAAGCAAATTGACTCGAATATTGCAGGACTCACTCGGGGG
66 ATATCGAGAAAGCAAATTGACTCGAATATTGCAGGACTCACTCGGGGG
45057 AACCAGTCGTTATTCACTTTGTCGAATGTGATTCATGCTTTGAACAACATGCTGCCCAGAGTACC
1 AACCAGTCGTTATTCACTTTGTCGAATGTGATTCATGCTTTGAACAACATGCTGCCCAGAGTACC
45122 ATATCGAGAAAGCAAATTGACTCGAATATTGCAGGACTCACTCGGGGG
66 ATATCGAGAAAGCAAATTGACTCGAATATTGCAGGACTCACTCGGGGG
45170 AACCAG
1 AACCAG
45176 CCGTGCATTG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 119 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (113 bp):
AACCAGTCGTTATTCACTTTGTCGAATGTGATTCATGCTTTGAACAACATGCTGCCCAGAGTACC
ATATCGAGAAAGCAAATTGACTCGAATATTGCAGGACTCACTCGGGGG
Found at i:46156 original size:2 final size:2
Alignment explanation
Indices: 46145--46182 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
46135 AACTTGAAGG
46145 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46183 CTTACCAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50964 original size:27 final size:24
Alignment explanation
Indices: 50926--50992 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 24
50916 CAAAAAAAAT
50926 TCCAGATAAGTTTACCTCACCATCTTC
1 TCCAGATAAGTTTACCT--CCA-CTTC
50953 TCCAGATAAGTTTA-CT-CACTTC
1 TCCAGATAAGTTTACCTCCACTTC
*
50975 TCCGGATAAGTTTACCTC
1 TCCAGATAAGTTTACCTC
50993 GTAATTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 17 0.46
23 4 0.11
26 2 0.05
27 14 0.38
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (24 bp):
TCCAGATAAGTTTACCTCCACTTC
Found at i:55805 original size:21 final size:21
Alignment explanation
Indices: 55779--55853 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
55769 GCGTTGCATT
*
55779 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
55800 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
55821 TCGCGTTACGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
55842 TCGCGTTGCGAT
1 TCGCGTTGCGAT
55854 TTTCCAGTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:55890 original size:22 final size:21
Alignment explanation
Indices: 55865--55936 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
55855 TTCCAGTTCG
55865 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACA-TTGT
** * *
55887 CGTTGCGATTTTCGA-AAT-T
1 CGTTGCGATAGTCTACATTGT
*
55906 CGTTGCGATAGTCTACAATTGC
1 CGTTGCGATAGTCTAC-ATTGT
55928 CGTTGCGAT
1 CGTTGCGAT
55937 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.34
20 1 0.03
21 3 0.08
22 21 0.55
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (21 bp):
CGTTGCGATAGTCTACATTGT
Found at i:55910 original size:19 final size:19
Alignment explanation
Indices: 55886--55954 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
55876 TCTACAGTTG
*
55886 TCGTTGCGATTTTCGAAAT
1 TCGTTGCGATTTTCCAAAT
** *
55905 TCGTTGCGATAGTCTACAAT
1 TCGTTGCGATTTTCCA-AAT
55925 TGCCGTTGCGATTTTCCAAAT
1 T--CGTTGCGATTTTCCAAAT
55946 TCGTTGCGA
1 TCGTTGCGA
55955 AAATCGCGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 21 0.51
20 4 0.10
21 4 0.10
22 12 0.29
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:55910 original size:41 final size:41
Alignment explanation
Indices: 55845--55954 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
55835 TTGAAAATCG
* * *
55845 CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAATTGC
*
55887 CGTTGCGATTTTCGAAATTCGTTGCGATAGTCTACAATTGC
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAATTGC
55928 CGTTGCGATTTTCCAAATTCGTTGCGA
1 CGTTGCGATTTTCCAAATTCGTTGCGA
55955 AAATCGCGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 46 0.74
42 13 0.21
43 3 0.05
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAATTGC
Found at i:55983 original size:20 final size:20
Alignment explanation
Indices: 55958--56214 Score: 135
Period size: 20 Copynumber: 12.9 Consensus size: 20
55948 GTTGCGAAAA
*
55958 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
*
55978 TCGCGTTGCGATTTTTCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
55998 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
* *
56020 T-GTCGTTGCGATCTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
* *
56041 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
56061 T-GCCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
**
56082 T--CGTTGCGA------AAA
1 TCGCGTTGCGATTTTCCAGT
*
56094 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
56114 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* ** **
56134 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAGT
*
56155 TCGCGTTGCGATTTTTCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
56175 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
56197 T-GTCGTTGCGATTTTCCA
1 TCG-CGTTGCGATTTTCCA
56215 AATTCGTTGC
Statistics
Matches: 183, Mismatches: 33, Indels: 42
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.02
14 8 0.04
19 17 0.09
20 89 0.49
21 25 0.14
22 41 0.22
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:56014 original size:136 final size:135
Alignment explanation
Indices: 55842--56230 Score: 631
Period size: 136 Copynumber: 2.9 Consensus size: 135
55832 TAGTTGAAAA
55842 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCGAAATTC
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC-AAATTC
*
55907 GTTGCGATAGTCTACAATTGCCGTTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTT
65 GTTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTT
55972 TCCATT
130 TCCATT
* *
55978 TCGCGTTGCGATTTTTCAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATCTTCCAAATTC
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCAAATTC
56043 GTTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTT
65 GTTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTT
56108 TCCATT
130 TCCATT
* * * *
56114 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTTC-AGTT
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGA-TTTTCAAATT
*
56176 CGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAAT
64 --CGTTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATTCGTTGCGAAAAT
56231 TCGTTGTGAT
Statistics
Matches: 238, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
134 3 0.01
135 12 0.05
136 220 0.92
137 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (135 bp):
TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCAAATTCG
TTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATTCGTTGCGAAAATCGCGTTGCGATTTT
CCATT
Found at i:56026 original size:22 final size:22
Alignment explanation
Indices: 56001--56072 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
55991 TTTCAGTTCG
56001 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
56023 CGTTGCGAT-CT-TCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
*
56042 CGTTGCGATAGTCTACAGTTGC
1 CGTTGCGATAGTCTACAGTTGT
56064 CGTTGCGAT
1 CGTTGCGAT
56073 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 18 0.47
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:56046 original size:19 final size:19
Alignment explanation
Indices: 56022--56090 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
56012 TCTACAGTTG
*
56022 TCGTTGCGATCTTCCAAAT
1 TCGTTGCGATATTCCAAAT
* * *
56041 TCGTTGCGATAGTCTACAGT
1 TCGTTGCGATATTCCA-AAT
*
56061 TGCCGTTGCGATTTTCCAAAT
1 T--CGTTGCGATATTCCAAAT
56082 TCGTTGCGA
1 TCGTTGCGA
56091 AAATCGCGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 21 0.54
20 3 0.08
21 3 0.08
22 12 0.31
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (19 bp):
TCGTTGCGATATTCCAAAT
Found at i:56050 original size:41 final size:41
Alignment explanation
Indices: 56001--56090 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
55991 TTTCAGTTCG
*
56001 CGTTGCGATAGTCTACAGTTGTCGTTGCGATCTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGCCGTTGCGATCTTCCAAATT
*
56042 CGTTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGCCGTTGCGATCTTCCAAATT
56083 CGTTGCGA
1 CGTTGCGA
56091 AAATCGCGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGCCGTTGCGATCTTCCAAATT
Found at i:56498 original size:6 final size:5
Alignment explanation
Indices: 56469--56502 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
56459 CCGTCTCGTC
56469 TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TC
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TC
56503 CGTCTCGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.00, C:0.21, G:0.53, T:0.26
Consensus pattern (5 bp):
TCGGG
Found at i:56600 original size:22 final size:22
Alignment explanation
Indices: 56572--56628 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
56562 CTATTTTTTA
56572 ACTATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
56594 ACTATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
56616 ACTATCGCAACGA
1 ACTATCGCAACGA
56629 ATTTGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.18
Consensus pattern (22 bp):
ACTATCGCAACGACAACTGTAG
Found at i:56684 original size:20 final size:20
Alignment explanation
Indices: 56659--56776 Score: 119
Period size: 20 Copynumber: 5.8 Consensus size: 20
56649 ATTGTAGACT
56659 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
56679 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
56700 ATAGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
56720 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
56741 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
56761 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
56777 CAACGCGAAT
Statistics
Matches: 74, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 45 0.61
21 29 0.39
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:56701 original size:41 final size:41
Alignment explanation
Indices: 56656--56772 Score: 225
Period size: 41 Copynumber: 2.9 Consensus size: 41
56646 GACATTGTAG
56656 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
56697 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
56738 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
56773 AATGCAACGC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:56708 original size:21 final size:21
Alignment explanation
Indices: 56679--56752 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
56669 GAAATGGAAA
56679 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
56700 ATAGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
56720 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
56741 ATCGCAACGCGA
1 ATCGCAACGCGA
56753 AATGGAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:59531 original size:191 final size:189
Alignment explanation
Indices: 59193--59610 Score: 577
Period size: 191 Copynumber: 2.2 Consensus size: 189
59183 TTTAATGGTG
* * *
59193 TTTTGGTAACAAACGCCGCAAGTAATTCGTA-ATTTAGTGGCGTTTTGACAAAAACGCCGCAAAT
1 TTTTGGTAACAAACGCCGCAAATGATTCGTACA-TTAGTGGCGTTTTGACAAAAACACCGCAAAT
** * *
59257 GTTTTTTTATTTAAAAGCCATTAACTTTAGACATATAACGACATTTTTTAATATACGCCGCAACA
65 GTTTTTAAAATTAAAAGCCATTAACTTTAGACATATAACGACATTTTTTAATAAACGCCGCAACA
*
59322 GATTAGTACTTTAGCGGTGTTTTAACAAAAATGCCGCAATAGGGTTCATATATAGCGGCA
130 GATTAGTACTTTAGCGGTGTTTTAACAAAAATGCCGCAATAGGGTTCACATATAGCGGCA
*
59382 TTTTGGTAACAAACGCCGCAAATGATTCGTACATTAGTGGCGTTTTGACAAAAAACACCGTAAAT
1 TTTTGGTAACAAACGCCGCAAATGATTCGTACATTAGTGGCGTTTTGAC-AAAAACACCGCAAAT
* *** * * *
59447 GTTTTTAAAATTAAAACGCCATTAACTTTAGACATATAGCGGTGTTTTTTAATAAACGTCGTAAT
65 GTTTTTAAAATTAAAA-GCCATTAACTTTAGACATATAACGACATTTTTTAATAAACGCCGCAAC
* * * * *
59512 ATATTAGTACTTTAGCGGTGTTTTGACAAAAATGCTGTAATAGGGTTCACATATAGCGGCG
129 AGATTAGTACTTTAGCGGTGTTTTAACAAAAATGCCGCAATAGGGTTCACATATAGCGGCA
** **
59573 TTTTGGTAACAAATACCGCAAATGATTTTTACATTAGT
1 TTTTGGTAACAAACGCCGCAAATGATTCGTACATTAGT
59611 TGCTTTCATA
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
189 45 0.22
190 27 0.13
191 129 0.64
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (189 bp):
TTTTGGTAACAAACGCCGCAAATGATTCGTACATTAGTGGCGTTTTGACAAAAACACCGCAAATG
TTTTTAAAATTAAAAGCCATTAACTTTAGACATATAACGACATTTTTTAATAAACGCCGCAACAG
ATTAGTACTTTAGCGGTGTTTTAACAAAAATGCCGCAATAGGGTTCACATATAGCGGCA
Found at i:59734 original size:13 final size:13
Alignment explanation
Indices: 59716--59791 Score: 102
Period size: 13 Copynumber: 6.0 Consensus size: 13
59706 ATCATTTCCA
59716 TCTCCTTCACTGC
1 TCTCCTTCACTGC
*
59729 TCTCCTTAACTGC
1 TCTCCTTCACTGC
*
59742 AC-CCTTCACTGC
1 TCTCCTTCACTGC
*
59754 TCTCCTTCATTGC
1 TCTCCTTCACTGC
*
59767 GC-CCTTCACTGC
1 TCTCCTTCACTGC
59779 TCTCCTTCACTGC
1 TCTCCTTCACTGC
59792 GCCCAGCATC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
12 20 0.38
13 33 0.62
ACGTcount: A:0.11, C:0.45, G:0.09, T:0.36
Consensus pattern (13 bp):
TCTCCTTCACTGC
Found at i:59792 original size:25 final size:25
Alignment explanation
Indices: 59719--59795 Score: 127
Period size: 25 Copynumber: 3.1 Consensus size: 25
59709 ATTTCCATCT
* *
59719 CCTTCACTGCTCTCCTTAACTGCAC
1 CCTTCACTGCTCTCCTTCACTGCGC
*
59744 CCTTCACTGCTCTCCTTCATTGCGC
1 CCTTCACTGCTCTCCTTCACTGCGC
59769 CCTTCACTGCTCTCCTTCACTGCGC
1 CCTTCACTGCTCTCCTTCACTGCGC
59794 CC
1 CC
59796 AGCATCCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.10, C:0.47, G:0.10, T:0.32
Consensus pattern (25 bp):
CCTTCACTGCTCTCCTTCACTGCGC
Found at i:65782 original size:44 final size:44
Alignment explanation
Indices: 65733--65900 Score: 201
Period size: 44 Copynumber: 3.8 Consensus size: 44
65723 TTATTTATAA
* * *
65733 ACCTTTAACGACGTTTGTATACTGAAAACGCCGCTATATACCAG
1 ACCTTTAGCGACGTTTGTATCCTAAAAACGCCGCTATATACCAG
* * *
65777 ACCTTTAGCGGCGTTTGTATCTTAAAAACGTCGCTATATACCAG
1 ACCTTTAGCGACGTTTGTATCCTAAAAACGCCGCTATATACCAG
* * * * * *
65821 ATCTTTAGCGGCGTTTGCATCCTAAAAACGCGGCAATATACAAG
1 ACCTTTAGCGACGTTTGTATCCTAAAAACGCCGCTATATACCAG
* * *
65865 ACCTTTATCGACATTTGTATCCAAAAAACGCCGCTA
1 ACCTTTAGCGACGTTTGTATCCTAAAAACGCCGCTA
65901 AATCTCAAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 103 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
ACCTTTAGCGACGTTTGTATCCTAAAAACGCCGCTATATACCAG
Found at i:66385 original size:14 final size:14
Alignment explanation
Indices: 66358--66402 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
66348 ATTTAAGGTA
66358 AAATATATTAAATATT
1 AAATATA-TAAATA-T
66374 AAATA-ATAAATAT
1 AAATATATAAATAT
*
66387 AAATATATAACTAT
1 AAATATATAAATAT
66401 AA
1 AA
66403 TCAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 1 0.04
16 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATATAAATAT
Found at i:72579 original size:27 final size:27
Alignment explanation
Indices: 72548--72599 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
72538 ATGTTTACAT
* *
72548 TATGTCATTGAGTCGATGCTTGAAACA
1 TATGTCATCGAGTCAATGCTTGAAACA
72575 TATGTCATCGAGTCAATGCTTGAAA
1 TATGTCATCGAGTCAATGCTTGAAA
72600 TCAACATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (27 bp):
TATGTCATCGAGTCAATGCTTGAAACA
Found at i:74402 original size:3 final size:3
Alignment explanation
Indices: 74394--74427 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
74384 ATTGATTCAG
74394 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
74428 GGTTAAGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:75426 original size:17 final size:18
Alignment explanation
Indices: 75406--75442 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
75396 TTAAATATTG
*
75406 TTTT-AAATAATTACATT
1 TTTTAAAATAATAACATT
75423 TTTTAAAATAATAACATT
1 TTTTAAAATAATAACATT
75441 TT
1 TT
75443 CACCTCGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAATAATAACATT
Found at i:79352 original size:43 final size:43
Alignment explanation
Indices: 79289--79383 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
79279 CCTCCAACCG
* * *
79289 AACACACCATAATGTGTAGGTTTCCAAGAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCAAGAACCATACAACCACC
*
79332 AACACACCATAATGTATAGGTTCCCCAGAACCATACAACCACC
1 AACACACCATAATGTATAGGTTCCCAAGAACCATACAACCACC
79375 AACACACCA
1 AACACACCA
79384 AGTAAGGCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.40, C:0.35, G:0.09, T:0.16
Consensus pattern (43 bp):
AACACACCATAATGTATAGGTTCCCAAGAACCATACAACCACC
Found at i:79529 original size:24 final size:24
Alignment explanation
Indices: 79499--79617 Score: 141
Period size: 24 Copynumber: 5.0 Consensus size: 24
79489 AAACATAATT
* * *
79499 CATGTCAGGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
79523 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* * *
79547 CAAGTCAAGTATGAGATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
*
79571 CATGTC-AGATATCAGATTAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
79595 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
79618 TCAAATCGAA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.02
24 77 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:79633 original size:48 final size:48
Alignment explanation
Indices: 79541--79635 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
79531 GTATCATATC
* * ** *
79541 AGAATCCAAGTCAAGTATGAGATCATAATCCATGTCAGATATCAGATT
1 AGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAATCAGATT
* *
79589 AGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAAATCAGAT
1 AGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AAATCAGAT
79636 AAAATATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.03
48 38 0.97
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (48 bp):
AGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAATCAGATT
Found at i:84674 original size:43 final size:43
Alignment explanation
Indices: 84611--84705 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
84601 CCTCCAACCG
* *
84611 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
*
84654 AACACACCATAATGTATAGGTTCCCCATAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
84697 AACACACCA
1 AACACACCA
84706 AGTAAGGCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.38, C:0.37, G:0.08, T:0.17
Consensus pattern (43 bp):
AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
Found at i:84851 original size:24 final size:24
Alignment explanation
Indices: 84821--84939 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
84811 AAACATAATT
* *
84821 CATGTCAGGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
*
84845 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* *
84869 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
*
84893 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
*
84917 CATGTCAAGTATCATATCCGAAT
1 CATGTCAAGTATCATATCAGAAT
84940 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.95
25 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:84955 original size:48 final size:48
Alignment explanation
Indices: 84855--84957 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
84845 CAGGTCAAGT
* ** *
84855 ATCATATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAA
* * * *
84903 ATCAGATCAGAATCCATGTCAAGTATCATATCCGAATTCAAATC-GAAA
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AA
84951 ATCAGAT
1 ATCAGAT
84958 AAAATATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAA
Found at i:84955 original size:72 final size:72
Alignment explanation
Indices: 84821--84957 Score: 186
Period size: 72 Copynumber: 1.9 Consensus size: 72
84811 AAACATAATT
* * * *
84821 CATGTCAGGTATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAGATATCAGATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAATCAAGAATCAGAT
84886 CAGAATC
66 CAGAATC
* * * *
84893 CATGTCAGATATCAGATCAGAATCCATGTCAAGTATCATATCCGAATTCAAATCGAA-AATCAGA
1 CATGTCAGATATCAGATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAATC-AAGAATCAGA
84957 T
65 T
84958 AAAATATTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 54 0.96
73 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (72 bp):
CATGTCAGATATCAGATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAATCAAGAATCAGAT
CAGAATC
Found at i:90416 original size:23 final size:23
Alignment explanation
Indices: 90390--90448 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
90380 CGTATAAATG
*
90390 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACATAGAATTA
* * *
90413 CACCGAAGTTCCGCATAGAATTG
1 CACCGAAGTGCCACATAGAATTA
90436 CACCGAAGTGCCA
1 CACCGAAGTGCCA
90449 TATAAAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTA
Found at i:90989 original size:14 final size:14
Alignment explanation
Indices: 90966--91000 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
90956 ATTCCAACTC
90966 ATAGTCATATATAT
1 ATAGTCATATATAT
*
90980 ATAGTTATATATAT
1 ATAGTCATATATAT
90994 ATA-TCAT
1 ATAGTCAT
91001 TTTACCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (14 bp):
ATAGTCATATATAT
Found at i:94209 original size:14 final size:14
Alignment explanation
Indices: 94190--94251 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 14
94180 TTTTGATGTG
94190 TGAAATGTATGATA
1 TGAAATGTATGATA
*
94204 TGAAATGTAT-AAA
1 TGAAATGTATGATA
*
94217 TG---TATATGATA
1 TGAAATGTATGATA
94228 TGAAATGTATGATA
1 TGAAATGTATGATA
*
94242 TGATATGTAT
1 TGAAATGTAT
94252 AAATGTTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 4 0.10
11 4 0.10
13 4 0.10
14 27 0.69
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (14 bp):
TGAAATGTATGATA
Found at i:94225 original size:19 final size:19
Alignment explanation
Indices: 94201--94257 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
94191 GAAATGTATG
*
94201 ATATGAAATGTATAAATGT
1 ATATGATATGTATAAATGT
* **
94220 ATATGATATGAAATGTATG-
1 ATATGATATG-TATAAATGT
94239 ATATGATATGTATAAATGT
1 ATATGATATGTATAAATGT
94258 TAAGTACAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 5 0.17
19 19 0.66
20 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.39
Consensus pattern (19 bp):
ATATGATATGTATAAATGT
Found at i:94228 original size:24 final size:24
Alignment explanation
Indices: 94185--94257 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
94175 ATGTGTTTTG
*
94185 ATGTGTGAAATG-TATGATATGAA
1 ATGTATGAAATGATATGATATGAA
94208 ATGTAT-AAATGTATATGATATGAA
1 ATGTATGAAATG-ATATGATATGAA
*
94232 ATGTATGATATGATATG-TAT-AA
1 ATGTATGAAATGATATGATATGAA
94254 ATGT
1 ATGT
94258 TAAGTACAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.24
23 8 0.18
24 22 0.49
25 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (24 bp):
ATGTATGAAATGATATGATATGAA
Found at i:98527 original size:22 final size:19
Alignment explanation
Indices: 98482--98528 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 19
98472 AATACCAAAA
98482 TAGTATCGATACCTAGGGG
1 TAGTATCGATACCTAGGGG
98501 T--TATCGATACCATAAGAGGG
1 TAGTATCGATACC-T-AG-GGG
98521 TAGTATCG
1 TAGTATCG
98529 GTACTATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.43
18 1 0.04
19 3 0.13
20 4 0.17
22 5 0.22
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (19 bp):
TAGTATCGATACCTAGGGG
Found at i:98992 original size:16 final size:17
Alignment explanation
Indices: 98961--98993 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98951 ATGGTAACTA
*
98961 TGTGTTATACATGATCT
1 TGTGTGATACATGATCT
98978 TGTGTGATA-ATGATCT
1 TGTGTGATACATGATCT
98994 AGGTGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.45
Consensus pattern (17 bp):
TGTGTGATACATGATCT
Found at i:99170 original size:2 final size:2
Alignment explanation
Indices: 99163--99194 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
99153 AGTTATGAGA
99163 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99195 GCTTAAGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99941 original size:22 final size:22
Alignment explanation
Indices: 99913--99959 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
99903 TTGATGTGTG
99913 AAATGTATGAAATGAAATGTAT
1 AAATGTATGAAATGAAATGTAT
* *
99935 AAATGTATGATATGATATGTAT
1 AAATGTATGAAATGAAATGTAT
99957 AAA
1 AAA
99960 AGTACAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (22 bp):
AAATGTATGAAATGAAATGTAT
Found at i:109102 original size:53 final size:52
Alignment explanation
Indices: 109044--109211 Score: 121
Period size: 53 Copynumber: 3.2 Consensus size: 52
109034 ATCATATATG
109044 GTATCGATACCATTTTAGCATTCTGTTTTGACAGTATCGGTACTGCCTTAGCA
1 GTATCGATACCATTTTAGCATTCTGTTTTGACAGTATCGGTACT-CCTTAGCA
* *** * ** * * ** *
109097 GTATCGGTACTGCTTCATTATTTTGGGTTT--CAGTATCTATA-TCATATATG--
1 GTATCGATACCATTTTAGCATTCT-GTTTTGACAGTATCGGTACTCCT-TA-GCA
* *
109147 GTATCGATATCATTTTAGCATTCTGTTTTGACAGTATCGGTACTTCCTCAGCA
1 GTATCGATACCATTTTAGCATTCTGTTTTGACAGTATCGGTAC-TCCTTAGCA
*
109200 GTATCGGTACCA
1 GTATCGATACCA
109212 CTTCATTATT
Statistics
Matches: 78, Mismatches: 28, Indels: 18
0.63 0.23 0.15
Matches are distributed among these distances:
49 4 0.05
50 17 0.22
51 13 0.17
52 11 0.14
53 29 0.37
54 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (52 bp):
GTATCGATACCATTTTAGCATTCTGTTTTGACAGTATCGGTACTCCTTAGCA
Found at i:109145 original size:103 final size:103
Alignment explanation
Indices: 108969--109291 Score: 494
Period size: 103 Copynumber: 3.2 Consensus size: 103
108959 TTGACAGCTT
* * *
108969 TTTTGACAATATCGGTACTGCCTCAGCAGTATC---AATACTACATTATTTTGGGTTTCAGTAT-
1 TTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
*
109030 TGATATCATATATGGTATCGATACCATTTTAGCATTCTG
66 T-ATATCATATATGGTATCGATATCATTTTAGCATTCTG
* *
109069 TTTTGACAGTATCGGTACTGCCTTAGCAGTATCGGTACTGCTTCATTATTTTGGGTTTCAGTATC
1 TTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
109134 TATATCATATATGGTATCGATATCATTTTAGCATTCTG
66 TATATCATATATGGTATCGATATCATTTTAGCATTCTG
* * *
109172 TTTTGACAGTATCGGTACTTCCTCAGCAGTATCGGTACCACTTCATTATTTTGGGTTTCAATATC
1 TTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
* *
109237 GATATCATATATGGTATC-AGTATCATTTTAGCATTATG
66 TATATCATATATGGTATCGA-TATCATTTTAGCATTCTG
109275 TTTTGACAGTATCGGTA
1 TTTTGACAGTATCGGTA
109292 ATGCTTCATT
Statistics
Matches: 205, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
100 31 0.15
102 1 0.00
103 172 0.84
104 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (103 bp):
TTTTGACAGTATCGGTACTGCCTCAGCAGTATCGGTACTACTTCATTATTTTGGGTTTCAGTATC
TATATCATATATGGTATCGATATCATTTTAGCATTCTG
Found at i:113117 original size:20 final size:20
Alignment explanation
Indices: 113051--113110 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
113041 ACAATATCGG
* *
113051 TACTTGATGAATAGTATCAA
1 TACTAGATGAACAGTATCAA
113071 TACT-GATCAAGAACAGTATCAA
1 TACTAGAT---GAACAGTATCAA
113093 TACTAGATGAACAGTATC
1 TACTAGATGAACAGTATC
113111 GGTACTAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 3 0.09
20 14 0.40
22 15 0.43
23 3 0.09
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
TACTAGATGAACAGTATCAA
Found at i:120106 original size:21 final size:22
Alignment explanation
Indices: 120031--120119 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 22
120021 GCACTTTTAG
*
120031 TGAAGAGGGAATCGATACCCCCT
1 TGAAG-GGGAATCGATTCCCCCT
*
120054 TGAAGGGGAACCGATTCCCCCTT
1 TGAAGGGGAATCGATTCCCCC-T
*
120077 TGAATGGGAATCGATTCCCTCCT
1 TGAAGGGGAATCGATTCCC-CCT
*
120100 TG-A-GGGAATCGATACCCCCT
1 TGAAGGGGAATCGATTCCCCCT
120120 ACAGGTTCTG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.05
21 13 0.22
22 15 0.25
23 26 0.44
24 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (22 bp):
TGAAGGGGAATCGATTCCCCCT
Found at i:125264 original size:17 final size:17
Alignment explanation
Indices: 125242--125279 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
125232 TATCAAATAT
125242 GGTTTATGAATAAAAAG
1 GGTTTATGAATAAAAAG
125259 GGTTTATGAATAAAAAG
1 GGTTTATGAATAAAAAG
125276 GGTT
1 GGTT
125280 AAAGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
GGTTTATGAATAAAAAG
Found at i:125637 original size:19 final size:19
Alignment explanation
Indices: 125615--125718 Score: 93
Period size: 19 Copynumber: 5.2 Consensus size: 19
125605 TTATAAATAA
*
125615 CAGATAATTTTATTCATTT
1 CAGACAATTTTATTCATTT
125634 CAGACAATTTTATTCATTT
1 CAGACAATTTTATTCATTT
** * *
125653 CAGATTATTTCAACTT-ATAAATAA
1 CAGACAATTT-TA-TTCAT---T-T
*
125677 CATACAATTTTATTCATTT
1 CAGACAATTTTATTCATTT
125696 CAGACAATTTTATTCATTT
1 CAGACAATTTTATTCATTT
125715 CAGA
1 CAGA
125719 TTATTTCAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 48 0.72
20 4 0.06
21 2 0.03
22 2 0.03
23 4 0.06
24 7 0.10
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (19 bp):
CAGACAATTTTATTCATTT
Found at i:125673 original size:62 final size:62
Alignment explanation
Indices: 125595--125752 Score: 282
Period size: 62 Copynumber: 2.6 Consensus size: 62
125585 TTTTACCTTT
*
125595 ATTA-TTCAACTTATAAATAACAGATAATTTTATTCATTTCAGACAATTTTATTCATTTCAG
1 ATTATTTCAACTTATAAATAACAGACAATTTTATTCATTTCAGACAATTTTATTCATTTCAG
*
125656 ATTATTTCAACTTATAAATAACATACAATTTTATTCATTTCAGACAATTTTATTCATTTCAG
1 ATTATTTCAACTTATAAATAACAGACAATTTTATTCATTTCAGACAATTTTATTCATTTCAG
*
125718 ATTATTTCAACTTATAAATAATAGACAATTTTATT
1 ATTATTTCAACTTATAAATAACAGACAATTTTATT
125753 TGTTTTTACT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
61 4 0.04
62 88 0.96
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.45
Consensus pattern (62 bp):
ATTATTTCAACTTATAAATAACAGACAATTTTATTCATTTCAGACAATTTTATTCATTTCAG
Found at i:129351 original size:16 final size:17
Alignment explanation
Indices: 129316--129351 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
129306 TTAAATATTG
*
129316 TTTTAAATAATTACATT
1 TTTTAAATAATAACATT
*
129333 TTTTCAATAATAACATT
1 TTTTAAATAATAACATT
129350 TT
1 TT
129352 CACCTCGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAAATAATAACATT
Found at i:134661 original size:30 final size:29
Alignment explanation
Indices: 134622--134680 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
134612 GAGAATTTAC
* *
134622 ATGAACTACGTGATTACATGTATATGTGA
1 ATGAACTACGAGATTACATGAATATGTGA
* *
134651 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTACATGAATATGTGA
134681 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTACATGAATATGTGA
Found at i:134939 original size:23 final size:23
Alignment explanation
Indices: 134913--134978 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
134903 TCTTATATGG
*
134913 CACTTCGGTGCATTTCTATGCGA
1 CACTTCGGTGCATTTCTACGCGA
* * * *
134936 CACTTAGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGCGA
*
134959 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
134979 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGA
Found at i:137473 original size:15 final size:15
Alignment explanation
Indices: 137455--137489 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
137445 TCTATAACTA
*
137455 AATATTTTTTAATAT
1 AATATTTGTTAATAT
137470 AATATTTGTTAATAT
1 AATATTTGTTAATAT
137485 AATAT
1 AATAT
137490 AATATAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATATTTGTTAATAT
Found at i:138026 original size:20 final size:20
Alignment explanation
Indices: 138001--138077 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
137991 AGGCTGCAAT
138001 AATAGTATCGGTACTTGATG
1 AATAGTATCGGTACTTGATG
*
138021 AATAGTATCGATAC-TGATCAAG
1 AATAGTATCGGTACTTGAT---G
* * *
138043 AACATTATCGGTACTGGATG
1 AATAGTATCGGTACTTGATG
*
138063 AATAGTATCAGTACT
1 AATAGTATCGGTACT
138078 AAGTGCACAG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 4 0.09
20 26 0.58
22 12 0.27
23 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
AATAGTATCGGTACTTGATG
Found at i:140228 original size:30 final size:30
Alignment explanation
Indices: 140193--140270 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
140183 ATTGTTTGGG
140193 TGCCCTAATGGGCTAATTAAATTAGTCGAT
1 TGCCCTAATGGGCTAATTAAATTAGTCGAT
140223 TGCCCTAATGGGCTAATTAAATTAGTCGAT
1 TGCCCTAATGGGCTAATTAAATTAGTCGAT
*
140253 TGCCCTAATGGGCCAATT
1 TGCCCTAATGGGCTAATT
140271 TGGCCTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (30 bp):
TGCCCTAATGGGCTAATTAAATTAGTCGAT
Found at i:145141 original size:20 final size:20
Alignment explanation
Indices: 145113--145152 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
145103 ACCCAAAATA
145113 ATGAAGCAGTACCGATACTG
1 ATGAAGCAGTACCGATACTG
*
145133 ATGAGGCAGTACCGATACTG
1 ATGAAGCAGTACCGATACTG
145153 TCAAAAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (20 bp):
ATGAAGCAGTACCGATACTG
Found at i:145336 original size:50 final size:50
Alignment explanation
Indices: 145277--145431 Score: 120
Period size: 50 Copynumber: 3.0 Consensus size: 50
145267 TGCTAAAATG
145277 GTATCGATACCATCTATGATATCGATACTAAAACCCAAAATAATGAAGTA
1 GTATCGATACCATCTATGATATCGATACTAAAACCCAAAATAATGAAGTA
* * * ** * * *
145327 GTATCGATA-C-TGCTGAGGAAGTATTGATACTGTCAAAA--CAGAATGCTAAAATG
1 GTATCGATACCAT-CT-ATG-A-TATCGATAC--T-AAAACCCAAAATAATGAAGTA
* * *
145380 GTACCGATACCATATATGATATCGATACTAAAACCTAAAATAATGAAGTA
1 GTATCGATACCATCTATGATATCGATACTAAAACCCAAAATAATGAAGTA
145430 GT
1 GT
145432 GCCGATACTA
Statistics
Matches: 75, Mismatches: 19, Indels: 22
0.65 0.16 0.19
Matches are distributed among these distances:
48 5 0.07
49 4 0.05
50 21 0.28
51 9 0.12
52 9 0.12
53 19 0.25
54 3 0.04
55 5 0.07
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (50 bp):
GTATCGATACCATCTATGATATCGATACTAAAACCCAAAATAATGAAGTA
Found at i:145428 original size:103 final size:102
Alignment explanation
Indices: 145094--145440 Score: 507
Period size: 103 Copynumber: 3.4 Consensus size: 102
145084 AATCAGTATT
* * * *
145094 GATACTGAAACCCAAAATAATGAAGCAGTACCGATACTGATGAGGCAGTACCGATACTGTCAAAA
1 GATACTAAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAGTATCGATACTGTCAAAA
*
145159 AGGAATGCTAAAATGGTACTGATACCATATATGATATC
66 A-GAATGCTAAAATGGTACCGATACCATATATGATATC
* * *
145197 GATACTAAAACCCAGAATAATGAAGCAGTATCGATACTGCTGAGGCAA-TATCGATTCTGTCAAA
1 GATACTAAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGG-AAGTATCGATACTGTCAAA
* *
145261 ATAGAATGCTAAAATGGTATCGATACCATCTATGATATC
65 A-AGAATGCTAAAATGGTACCGATACCATATATGATATC
* * *
145300 GATACTAAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTATTGATACTGTCAAAA
1 GATACTAAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAGTATCGATACTGTCAAAA
145365 CAGAATGCTAAAATGGTACCGATACCATATATGATATC
66 -AGAATGCTAAAATGGTACCGATACCATATATGATATC
* * *
145403 GATACTAAAACCTAAAATAATGAAGTAGTGCCGATACT
1 GATACTAAAACCCAAAATAATGAAGCAGTACCGATACT
145441 ATCAAAACAA
Statistics
Matches: 221, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
102 2 0.01
103 217 0.98
104 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (102 bp):
GATACTAAAACCCAAAATAATGAAGCAGTACCGATACTGCTGAGGAAGTATCGATACTGTCAAAA
AGAATGCTAAAATGGTACCGATACCATATATGATATC
Found at i:147490 original size:19 final size:19
Alignment explanation
Indices: 147468--147509 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
147458 TTATAAATAA
*
147468 CAGACAATTTTATTCATTC
1 CAGACAAATTTATTCATTC
*
147487 CAGACAAATTTATTCATTT
1 CAGACAAATTTATTCATTC
147506 CAGA
1 CAGA
147510 TTATTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (19 bp):
CAGACAAATTTATTCATTC
Found at i:148188 original size:103 final size:103
Alignment explanation
Indices: 148063--148545 Score: 580
Period size: 103 Copynumber: 4.7 Consensus size: 103
148053 ATCGATACAT
* * * * * * * *
148063 ATATCGATACTGAAAACGAAAATAATAAAGCACTGTCGATATTGTTGAGGCAA-TACCAATACTG
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGG-AAGTACCAATACTG
* *
148127 TCAAATCAGAATGCTAAAATGTTATCGATACCATATATA
65 TCAAAACAGAATGCTAAAATGGTATCGATACCATATATA
* **
148166 ATATCGAGACTGAAACCCAAAATAATGAAGTAGTATCGATACTAATGAGGAAGTACCAATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTACCAATACTGT
* * *
148231 CAAAATATAATGCTAAAATGGTA-CTGATACCATATATG
66 CAAAACAGAATGCTAAAATGGTATC-GATACCATATATA
* * *
148269 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGTTACTGCTGA-GACATTACCGATACTG
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGA-AGTACCAATACTG
* *
148333 TCAAAACAGAATGCTAAAATGGT-TCCGATATCATATATG
65 TCAAAACAGAATGCTAAAATGGTAT-CGATACCATATATA
* * **
148372 ATATCGGTACTGAATCCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTACTGATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTACCAATACTGT
* *
148437 CAAAACAGAACGCTAAAATGGTAT-TATACCATATATA
66 CAAAACAGAATGCTAAAATGGTATCGATACCATATATA
* * * * * * * *
148474 ATGTCGTTACAGAAACTCAAAATAATGAAGTAGTACCGATACTACTGAGGCAGTACCGATACTGT
1 ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTACCAATACTGT
148539 CAAAACA
66 CAAAACA
148546 ACGATCAAGC
Statistics
Matches: 331, Mismatches: 42, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
102 78 0.24
103 249 0.75
104 4 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (103 bp):
ATATCGATACTGAAACCCAAAATAATGAAGTAGTATCGATACTGCTGAGGAAGTACCAATACTGT
CAAAACAGAATGCTAAAATGGTATCGATACCATATATA
Done.