Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007946.1 Hibiscus syriacus cultivar Beakdansim tig00110368_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: 99679
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3310 original size:15 final size:15
Alignment explanation
Indices: 3290--3319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3280 AAACTTTGAA
*
3290 AAACATTTTTCAAAG
1 AAACATTTTCCAAAG
3305 AAACATTTTCCAAAG
1 AAACATTTTCCAAAG
3320 TTGGTTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
AAACATTTTCCAAAG
Found at i:9979 original size:24 final size:24
Alignment explanation
Indices: 9952--10007 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9942 CTATTCTTTC
9952 GCTTCAATTAAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
*
9976 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
10000 GCTTCAAT
1 GCTTCAAT
10008 CGAACTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (24 bp):
GCTTCAATTAAGCTCAAATTTTAG
Found at i:11217 original size:21 final size:21
Alignment explanation
Indices: 11178--11217 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11168 TATTTTAGTT
*
11178 TGTCATGTAAATTTCGTGAAC
1 TGTCATGTAAAATTCGTGAAC
11199 TGTCATGTAAACATT-GTGA
1 TGTCATGTAAA-ATTCGTGA
11218 GGATCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (21 bp):
TGTCATGTAAAATTCGTGAAC
Found at i:12746 original size:23 final size:22
Alignment explanation
Indices: 12716--12784 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
12706 TAAGAATCTT
12716 TGTTCTTGTGACACATTGTTCTA
1 TGTTCTTGTGACACATT-TTCTA
* *
12739 TGTTCTTGTGACACGTTTTTATA
1 TGTTCTTGTGACAC-ATTTTCTA
*
12762 TGCTCTTGTGGCACACATTTTCT
1 TGTTCTTGT-G-ACACATTTTCT
12785 CTACTTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 26 0.68
24 8 0.21
25 4 0.11
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (22 bp):
TGTTCTTGTGACACATTTTCTA
Found at i:18643 original size:20 final size:20
Alignment explanation
Indices: 18620--18661 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18610 CAACGCGAAC
*
18620 TCCAATTTCGCAACA-CAGTT
1 TCCAAATTCGCAA-ATCAGTT
18640 TCCAAATTCGCAAATCAGTT
1 TCCAAATTCGCAAATCAGTT
18660 TC
1 TC
18662 TGCAATCGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (20 bp):
TCCAAATTCGCAAATCAGTT
Found at i:18845 original size:60 final size:58
Alignment explanation
Indices: 18759--18917 Score: 135
Period size: 60 Copynumber: 2.7 Consensus size: 58
18749 TCGCAACTCG
* *
18759 ATTTCTAAATTCGCAACGCGAATTTCTTTTTCGCAACACAAGTTTCATTTTCGCAACAAGA
1 ATTTCTAAA-TCGCAAC-AGATTTTCTTTTTCGCAACACAA-TTTCATTTTCGCAACAAGA
* ** ** *
18820 TTTTCTAAATCGCAACAAGATTTTCTAAATT-GCAACACGAATTTTGTTTTCGCAACACGA
1 ATTTCTAAATCGCAAC-AGATTTTCT-TTTTCGCAACAC-AATTTCATTTTCGCAACAAGA
* * *
18880 ATTT-TAATTTCGCAACAGCTTTT-ATTTTCGCAACACAA
1 ATTTCTAA-ATCGCAACAGATTTTCTTTTTCGCAACACAA
18918 ATGTTTTGAG
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
57 4 0.05
58 7 0.09
59 9 0.11
60 47 0.59
61 12 0.15
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (58 bp):
ATTTCTAAATCGCAACAGATTTTCTTTTTCGCAACACAATTTCATTTTCGCAACAAGA
Found at i:18896 original size:20 final size:21
Alignment explanation
Indices: 18707--18896 Score: 148
Period size: 20 Copynumber: 9.4 Consensus size: 21
18697 ATTTTTCAAA
*
18707 TTCGCAACACGGAATTTC-AAA
1 TTCGCAACAC-GAATTTCTAAT
* *
18728 TTCGCAACTCG-ATTTCTAAA
1 TTCGCAACACGAATTTCTAAT
* *
18748 TTCGCAACTCG-ATTTCTAAA
1 TTCGCAACACGAATTTCTAAT
* *
18768 TTCGCAACGCGAATTTCT-TT
1 TTCGCAACACGAATTTCTAAT
*
18788 TTCGCAACAC-AAGTTTC-ATT
1 TTCGCAACACGAA-TTTCTAAT
* *
18808 TTCGCAACAAGATTTTCTAA-
1 TTCGCAACACGAATTTCTAAT
* * * *
18828 ATCGCAACAAGATTTTCTAAA
1 TTCGCAACACGAATTTCTAAT
**
18849 TT-GCAACACGAATTT-TGTT
1 TTCGCAACACGAATTTCTAAT
18868 TTCGCAACACGAATTT-TAAT
1 TTCGCAACACGAATTTCTAAT
18888 TTCGCAACA
1 TTCGCAACA
18897 GCTTTTATTT
Statistics
Matches: 144, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.07
20 116 0.81
21 18 0.12
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (21 bp):
TTCGCAACACGAATTTCTAAT
Found at i:18908 original size:18 final size:20
Alignment explanation
Indices: 18768--18915 Score: 101
Period size: 20 Copynumber: 7.5 Consensus size: 20
18758 GATTTCTAAA
*
18768 TTCGCAACGCGAATTTCT-TT
1 TTCGCAACACGAATTT-TATT
*
18788 TTCGCAACAC-AAGTTTCATT
1 TTCGCAACACGAA-TTTTATT
* * *
18808 TTCGCAACAAG-ATTTTCTAA
1 TTCGCAACACGAATTTTAT-T
* * * **
18828 ATCGCAACAAGATTTTCTAAA
1 TTCGCAACACGAATTT-TATT
*
18849 TT-GCAACACGAATTTTGTT
1 TTCGCAACACGAATTTTATT
*
18868 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTATT
*
18888 TTCGCAACA-G-CTTTTATT
1 TTCGCAACACGAATTTTATT
18906 TTCGCAACAC
1 TTCGCAACAC
18916 AAATGTTTTG
Statistics
Matches: 100, Mismatches: 20, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
18 15 0.15
19 10 0.10
20 69 0.69
21 5 0.05
22 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (20 bp):
TTCGCAACACGAATTTTATT
Found at i:19073 original size:14 final size:15
Alignment explanation
Indices: 19054--19091 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19044 TCCCCATCTC
19054 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
19068 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
19084 TAATTTTT
1 TAATTTTT
19092 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:19872 original size:24 final size:24
Alignment explanation
Indices: 19845--19898 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19835 GTATTCGAAA
19845 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
19869 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
19893 TTTGAT
1 TTTGAT
19899 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:22153 original size:12 final size:12
Alignment explanation
Indices: 22136--22176 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
22126 AGCAAAAGGA
*
22136 AATCAAAATCGC
1 AATCAAAATCAC
*
22148 AATCAAAATCAA
1 AATCAAAATCAC
*
22160 AATCAAAATCCC
1 AATCAAAATCAC
22172 AATCA
1 AATCA
22177 CAACCGGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (12 bp):
AATCAAAATCAC
Found at i:22157 original size:6 final size:6
Alignment explanation
Indices: 22135--22169 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
22125 AAGCAAAAGG
* *
22135 AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
22170 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:22431 original size:29 final size:29
Alignment explanation
Indices: 22389--22461 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
22379 AATTCGCAAC
* *
22389 GCGAAAGTCAAATTTACGTTGCGATTGTT
1 GCGAAAGTCAAATTCACGTTACGATTGTT
*
22418 GCGAAAGTCAAATTCATGTTACGATTGTT
1 GCGAAAGTCAAATTCACGTTACGATTGTT
*
22447 GCGAAAGACAAATTC
1 GCGAAAGTCAAATTC
22462 GCAATGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
GCGAAAGTCAAATTCACGTTACGATTGTT
Found at i:23977 original size:21 final size:20
Alignment explanation
Indices: 23952--24041 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 20
23942 GTGAATCGGG
**
23952 CTCTTGAACGGTGTGAGGGGC
1 CTCTTGAACAATG-GAGGGGC
23973 CTCTTGAACAATGAGAGGGGC
1 CTCTTGAACAATG-GAGGGGC
* * ***
23994 CTCTTGAATAGTGGGATAAGC
1 CTCTTGAACAAT-GGAGGGGC
*
24015 CTCTTGAACGATAGGAGGGGC
1 CTCTTGAACAAT-GGAGGGGC
24036 CTCTTG
1 CTCTTG
24042 GACGATGACA
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 52 0.98
22 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (20 bp):
CTCTTGAACAATGGAGGGGC
Found at i:24369 original size:21 final size:21
Alignment explanation
Indices: 24345--24442 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 21
24335 GTAGAGCGGC
24345 TACCTCATCACGTAAAGTAGA
1 TACCTCATCACGTAAAGTAGA
* * * *
24366 TACCTCACCATGTAAAGCACCA
1 TACCTCATCACGTAAAGTA-GA
** * * *
24388 T-TGTCGTCGCGTAAA--A-C
1 TACCTCATCACGTAAAGTAGA
24405 TACCTCATCACGTAAAGTAGA
1 TACCTCATCACGTAAAGTAGA
*
24426 TACCTCACCACGTAAAG
1 TACCTCATCACGTAAAG
24443 CACTATTGTC
Statistics
Matches: 55, Mismatches: 17, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
17 1 0.02
18 10 0.18
19 1 0.02
20 1 0.02
21 40 0.73
22 2 0.04
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (21 bp):
TACCTCATCACGTAAAGTAGA
Found at i:24416 original size:60 final size:63
Alignment explanation
Indices: 24344--24483 Score: 223
Period size: 60 Copynumber: 2.3 Consensus size: 63
24334 CGTAGAGCGG
* *
24344 CTACCTCATCACGTAAAGTAGATACCTCACCATGTAAAGCACCATTGTCGTCGCGT-AAA-A-
1 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
*
24404 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACTATTGTCATCGCGTAAAACAT
1 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
*
24467 CTACCTCACCACGTAAA
1 CTACCTCATCACGTAAA
24484 AACCGTACCT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
60 53 0.73
61 3 0.04
62 1 0.01
63 16 0.22
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (63 bp):
CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
Found at i:24481 original size:21 final size:20
Alignment explanation
Indices: 24403--24484 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 20
24393 GTCGCGTAAA
* *
24403 ACTACCTCATCACGTAAAGTAG
1 ACTACCTCACCACGTAAA--AC
*
24425 A-TACCTCACCACGTAAAGC
1 ACTACCTCACCACGTAAAAC
** * *
24444 ACTATTGTCATCGCGTAAAAC
1 ACTA-CCTCACCACGTAAAAC
24465 ATCTACCTCACCACGTAAAA
1 A-CTACCTCACCACGTAAAA
24485 ACCGTACCTC
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 38 0.84
22 4 0.09
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (20 bp):
ACTACCTCACCACGTAAAAC
Found at i:24514 original size:63 final size:61
Alignment explanation
Indices: 24344--24525 Score: 190
Period size: 60 Copynumber: 3.0 Consensus size: 61
24334 CGTAGAGCGG
* * * *
24344 CTACCTCATCACGTAAAGTAGATACCTCACCATGTAAAGCACCATTGTCGTCGCGT-AAAA
1 CTACCTCACCACGTAAAGAAGATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAAAA
* * * * *
24404 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACTATTGTCATCGCGTAAAACA
1 CTACCTCACCACGTAAAGAAGATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAAA-A
* * * *
24466 TCTACCTCACCACGTAAA-AACCG-TACCTCATCACGCCATGCACCATTGTCGTCACGTAAA
1 -CTACCTCACCACGTAAAGAA--GATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAA
24526 GTACCGACCT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
60 53 0.50
61 3 0.03
62 2 0.02
63 46 0.44
64 1 0.01
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (61 bp):
CTACCTCACCACGTAAAGAAGATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAAAA
Found at i:24541 original size:21 final size:21
Alignment explanation
Indices: 24517--24566 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
24507 ACCATTGTCG
*
24517 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
* *
24538 TCACGCAAAGCACTGACCTCA
1 TCACGTAAAGCACCGACCTCA
24559 TCACGTAA
1 TCACGTAA
24567 CTCCCCTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:24756 original size:42 final size:42
Alignment explanation
Indices: 24681--24779 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
24671 GTGATGGAAT
* * * *
24681 AGGTGATGGCTCTCAGTGTGGAGATGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGATATAGAATCGGCTCGATC
*
24723 AGGTGATGGCTCTCGGTGTCGAGCTATAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGATATAGAATCGGCTCGATC
24765 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
24780 AAGTGGGGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.27
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGATATAGAATCGGCTCGATC
Found at i:26332 original size:20 final size:20
Alignment explanation
Indices: 26295--26332 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26285 CTAAAATCGC
* *
26295 GTTGCGAATTTCATTTTCGT
1 GTTGCGAATTTAAGTTTCGT
26315 GTTGCGAATTTAAGTTTC
1 GTTGCGAATTTAAGTTTC
26333 AAAAATTATT
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:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
GTTGCGAATTTAAGTTTCGT
Found at i:26677 original size:22 final size:22
Alignment explanation
Indices: 26647--26697 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
26637 GATAGAGGGG
* * *
26647 GTCGTCGGATATGGGGACGGAT
1 GTCGCCGGAGATGGGGACAGAT
* *
26669 TTCGCCGGAGATGTGGACAGAT
1 GTCGCCGGAGATGGGGACAGAT
26691 GTCGCCG
1 GTCGCCG
26698 TAGAGAGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.41, T:0.22
Consensus pattern (22 bp):
GTCGCCGGAGATGGGGACAGAT
Found at i:26823 original size:19 final size:20
Alignment explanation
Indices: 26801--26838 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26791 AATATTGTGT
26801 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
26820 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
26839 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:26885 original size:20 final size:20
Alignment explanation
Indices: 26862--26902 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
26852 TTTGACTTCT
26862 GTGTTGCGAATTACAAATTC
1 GTGTTGCGAATTACAAATTC
* *
26882 GTGTTGCGATTTACATATTC
1 GTGTTGCGAATTACAAATTC
26902 G
1 G
26903 CTTCGAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (20 bp):
GTGTTGCGAATTACAAATTC
Found at i:34850 original size:13 final size:12
Alignment explanation
Indices: 34815--34849 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
34805 TAAATTGTTA
34815 TTTTTATTTTAT
1 TTTTTATTTTAT
*
34827 TTTAGTATTTTAT
1 TTT-TTATTTTAT
34840 TTTTTATTTT
1 TTTTTATTTT
34850 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:36742 original size:42 final size:42
Alignment explanation
Indices: 36691--36802 Score: 188
Period size: 42 Copynumber: 2.7 Consensus size: 42
36681 AATTTCAGTA
* * **
36691 TTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCTTGTG
1 TTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCCGTG
36733 TTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCCGTG
1 TTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCCGTG
36775 TTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTTGTTTCACGTAATTCGTTTTCCGGAA
36803 TGTAATTCAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
TTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCCGTG
Found at i:37018 original size:10 final size:10
Alignment explanation
Indices: 37003--37048 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
36993 TATTTAAAAT
37003 ATATTTATTA
1 ATATTTATTA
37013 ATATTTATAATA
1 ATATTTAT--TA
37025 ATATTATATT-
1 ATATT-TATTA
37035 ATATTT-TTA
1 ATATTTATTA
37044 ATATT
1 ATATT
37049 ATATAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.41
11 1 0.03
12 7 0.22
13 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATTA
Found at i:37036 original size:26 final size:25
Alignment explanation
Indices: 36974--37036 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
36964 CATTTTCATC
36974 AAAATATTA-ATTATTAAAATATTT
1 AAAATATTATATTATTAAAATATTT
*
36998 AAAATA-TAT-TTATTAATAT-TTAT
1 AAAATATTATATTATTAAAATATT-T
37021 AATAATATTATATTAT
1 AA-AATATTATATTAT
37037 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 14 0.42
24 10 0.30
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATTATATTATTAAAATATTT
Found at i:37038 original size:22 final size:23
Alignment explanation
Indices: 36991--37052 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 23
36981 TAATTATTAA
*
36991 AATATTTAAAAT-ATATT-TATT
1 AATATTTATAATAATATTATATT
37012 AATATTTATAATAATATTATATT
1 AATATTTATAATAATATTATATT
37035 -ATATTT-T--TAATATTATAT
1 AATATTTATAATAATATTATAT
37053 AAAATAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 11 0.29
21 12 0.32
22 11 0.29
23 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATTTATAATAATATTATATT
Found at i:37120 original size:30 final size:31
Alignment explanation
Indices: 37071--37166 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
37061 CAATTATATT
* * *
37071 ATAATAATATAAGATATTTTATTTTAT-TTTA
1 ATAATAATATAATAAATTTT-TTATATATTTA
37102 ATAAT-ATATAATAAATTTTTTATATATTTA
1 ATAATAATATAATAAATTTTTTATATATTTA
* *
37132 ATAATGA-ATAAT--ATTATTTATATATTTCA
1 ATAATAATATAATAAATTTTTTATATATTT-A
37161 ATAATA
1 ATAATA
37167 TTTTAGTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
28 14 0.25
29 11 0.19
30 26 0.46
31 6 0.11
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (31 bp):
ATAATAATATAATAAATTTTTTATATATTTA
Found at i:37423 original size:20 final size:20
Alignment explanation
Indices: 37365--37414 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
37355 TTTTCAGATG
37365 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
37385 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
37405 TTTTCCAGAA
1 TTTTCCAGAA
37415 TTCAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:37433 original size:15 final size:15
Alignment explanation
Indices: 37397--37478 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
37387 TTCCAGAAAT
**
37397 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
37412 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
37426 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
37441 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
37456 GTAATTCAAACTCCA
1 GTAATTCAAATTCCA
37471 GTAATTCA
1 GTAATTCA
37479 TTTTCCGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:37449 original size:30 final size:30
Alignment explanation
Indices: 37397--37478 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
37387 TTCCAGAAAT
37397 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
37426 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
***
37456 GTAATTCAAACTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
37479 TTTTCCGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:37474 original size:45 final size:44
Alignment explanation
Indices: 37397--37484 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
37387 TTCCAGAAAT
** *
37397 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAACTCCAGTAATTCATTTTCCA
37441 GTAATTCAAATTCCAGTAATTCAAACTCCAGTAATTCATTTTCC
1 GTAATTCAAATTCCAG-AATTCAAACTCCAGTAATTCATTTTCC
37485 GGAAAACCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAACTCCAGTAATTCATTTTCCA
Found at i:50096 original size:14 final size:15
Alignment explanation
Indices: 50076--50113 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
50066 AAATCAAAGG
50076 AAAAATAAAACAAAT
1 AAAAATAAAACAAAT
*
50091 -AAAAT-AGACAAAT
1 AAAAATAAAACAAAT
50104 AAAAATAAAA
1 AAAAATAAAA
50114 ATATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.37
14 10 0.53
15 2 0.11
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAATAAAACAAAT
Found at i:50103 original size:22 final size:21
Alignment explanation
Indices: 50054--50107 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
50044 AATAGATAAA
* *
50054 AAAAATAAAGACAAATCAAAGG
1 AAAAATAAA-ACAAATAAAAAG
50076 AAAAATAAAACAAATAAAATAG
1 AAAAATAAAACAAATAAAA-AG
*
50098 ACAAATAAAA
1 AAAAATAAAA
50108 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAAATAAAACAAATAAAAAG
Found at i:51292 original size:17 final size:17
Alignment explanation
Indices: 51270--51302 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51260 AGGTGAATAA
*
51270 AAATAATGAATAAAAAT
1 AAATAATAAATAAAAAT
51287 AAATAATAAATAAAAA
1 AAATAATAAATAAAAA
51303 CTATATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAATAATAAATAAAAAT
Found at i:51294 original size:13 final size:14
Alignment explanation
Indices: 51229--51296 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 14
51219 AACAAAAACA
51229 AAAAAT-AAT-AAT
1 AAAAATAAATGAAT
*
51241 -AAAATAAATAAAT
1 AAAAATAAATGAAT
* * **
51254 GAAAACAGGTGAAT
1 AAAAATAAATGAAT
51268 AAAAAT-AATGAAT
1 AAAAATAAATGAAT
51281 AAAAATAAAT-AAT
1 AAAAATAAATGAAT
51294 AAA
1 AAA
51297 TAAAAACTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
11 5 0.11
12 3 0.07
13 20 0.45
14 16 0.36
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAAATAAATGAAT
Found at i:51434 original size:35 final size:35
Alignment explanation
Indices: 51321--51624 Score: 231
Period size: 36 Copynumber: 8.1 Consensus size: 35
51311 CATATACTAA
*
51321 AAAAATTGTTTTAAAACTATATATAATATACA-TTTC
1 AAAAA-TGTTTTAAAACTATATATTATATA-ATTTTC
* * *
51357 AAAAATATTTTTTTAAAA-TCATATATTATAAAATTTTA
1 -AAAA-A-TGTTTTAAAACT-ATATATTATATAATTTTC
* * *
51395 AAAAATGTTTTTAAACTATATGTTATATAGTTTTC
1 AAAAATGTTTTAAAACTATATATTATATAATTTTC
* *
51430 AAAAATGTTTTAAAAC--TATATTATAT-GTTTTT
1 AAAAATGTTTTAAAACTATATATTATATAATTTTC
*
51462 AAAAATGTTTTTTCAAAAATTATATATTATATATTATATATATTTTC
1 AAAAATG--TTTT-----A--A-A-ACTATATATTATATA-ATTTTC
* *
51509 AAAAATGTTTTAAAAATTATATATTATATAATTTTT
1 AAAAATGTTTT-AAAACTATATATTATATAATTTTC
* *
51545 AAAAATGTTTTAAAAACTATATAATATATATTTTTC
1 AAAAATGTTTT-AAAACTATATATTATATAATTTTC
51581 AAAAATGTTTTGAAAACTATATATTATATACGTATTTTC
1 AAAAATGTTTT-AAAACTATATATTATATA---ATTTTC
51620 AAAAA
1 AAAAA
51625 CCATTTGCAA
Statistics
Matches: 221, Mismatches: 24, Indels: 42
0.77 0.08 0.15
Matches are distributed among these distances:
32 12 0.05
33 9 0.04
34 4 0.02
35 37 0.17
36 67 0.30
37 25 0.11
38 25 0.11
39 12 0.05
41 3 0.01
42 1 0.00
43 1 0.00
45 14 0.06
47 11 0.05
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (35 bp):
AAAAATGTTTTAAAACTATATATTATATAATTTTC
Found at i:51495 original size:80 final size:79
Alignment explanation
Indices: 51418--51576 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 79
51408 AACTATATGT
* *
51418 TATATAGTTTTCAAAAATGTTTT-AAAA-CTATATTATAT-GTTTTTAAAAATGTTTTTTCAAAA
1 TATATA-TTTTCAAAAATGTTTTAAAAATATATATTATATAATTTTTAAAAATG--TTTT-AAAA
* *
51480 ATTATATATTATATATTA
62 ACTATATAATATATATTA
51498 TATATATTTTCAAAAATGTTTTAAAAATTATATATTATATAATTTTTAAAAATGTTTTAAAAACT
1 TATATATTTTCAAAAATGTTTTAAAAA-TATATATTATATAATTTTTAAAAATGTTTTAAAAACT
51563 ATATAATATATATT
65 ATATAATATATATT
51577 TTTCAAAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
79 16 0.23
80 29 0.41
81 4 0.06
82 10 0.14
83 12 0.17
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (79 bp):
TATATATTTTCAAAAATGTTTTAAAAATATATATTATATAATTTTTAAAAATGTTTTAAAAACTA
TATAATATATATTA
Found at i:51534 original size:37 final size:37
Alignment explanation
Indices: 51489--51653 Score: 208
Period size: 36 Copynumber: 4.4 Consensus size: 37
51479 AATTATATAT
*
51489 TATATATTATATATATTTTCAAAAATGTTTTAAAAAT
1 TATATATTATATATATTTTCAAAAATGTTTTAAAAAC
*
51526 TATATATTATATA-ATTTTTAAAAATGTTTTAAAAAC
1 TATATATTATATATATTTTCAAAAATGTTTTAAAAAC
* *
51562 TATATAATATATAT-TTTTCAAAAATGTTTTGAAAAC
1 TATATATTATATATATTTTCAAAAATGTTTTAAAAAC
*** **
51598 TATATATTATATACGTATTTTCAAAAACCATTTGCAAAC
1 TATATATTATATA--TATTTTCAAAAATGTTTTAAAAAC
51637 TATATATGTATATATAT
1 TATATAT-TATATATAT
51654 ATATAAAATG
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
36 65 0.58
37 13 0.12
38 4 0.04
39 25 0.22
40 6 0.05
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAAATGTTTTAAAAAC
Found at i:51651 original size:151 final size:146
Alignment explanation
Indices: 51333--51655 Score: 327
Period size: 151 Copynumber: 2.2 Consensus size: 146
51323 AAATTGTTTT
* * *
51333 AAAACTATATA-TA-ATATACA-TTTCAAAAATATTTTTTTAAAATCATATATTATAAAATTTTA
1 AAAACTATATATTATATATATATTTTCAAAAATATGTTTTAAAAATCATATATTATAAAATTTTA
* **
51395 AAAAATGTTTTTAAACTATATGTTATATAGTTTTCAAAAATGTTTTAAAACTATATTATATGTTT
66 AAAAATGTTTTAAAACTATATAATATATAGTTTTCAAAAATGTTTTAAAACTATATTATATGTTT
*** *
51460 TTAAAAATGTTTTTTC
131 TTAAAAATCCATTTGC
* * *
51476 AAAAATTATATATTATATATTATATATATTTTC-AAAA-ATGTTTTAAAAATTATATATTATATA
1 -AAAA--CTATA-TAT-TA-TATATATATTTTCAAAAATATGTTTTAAAAATCATATATTATAAA
* *
51539 ATTTTTAAAAATGTTTTAAAAACTATATAATATATATTTTTCAAAAATGTTTTGAAAACTATATA
60 ATTTTAAAAAATGTTTT-AAAACTATATAATATATAGTTTTCAAAAATGTTTT-AAAAC--TATA
51604 TTATATACGTATTTTCAAAAA-CCATTTGC
121 TTATAT--GT-TTTT-AAAAATCCATTTGC
51633 -AAACTATATATGTATATATATAT
1 AAAACTATATAT-TATATATATAT
51656 ATAAAATGTG
Statistics
Matches: 146, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
144 4 0.03
146 4 0.03
147 2 0.01
149 2 0.01
150 38 0.26
151 50 0.34
152 14 0.10
153 4 0.03
154 10 0.07
155 3 0.02
156 2 0.01
157 8 0.05
158 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (146 bp):
AAAACTATATATTATATATATATTTTCAAAAATATGTTTTAAAAATCATATATTATAAAATTTTA
AAAAATGTTTTAAAACTATATAATATATAGTTTTCAAAAATGTTTTAAAACTATATTATATGTTT
TTAAAAATCCATTTGC
Found at i:52332 original size:165 final size:165
Alignment explanation
Indices: 52129--53142 Score: 1347
Period size: 165 Copynumber: 6.2 Consensus size: 165
52119 TTTTATTGAT
* * ** * * * *
52129 AGATAGCCCTTCTTGCCTTGGGCTATGTTGTAAATGATGTGCCTTGGAGTTGAGTGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* ** * * * *
52194 TCGGAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTC
66 TCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* * *
52259 GAAGCTGAGTGTAATCGAACTCAAGAGTCTTTGGC
131 GAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
* *
52294 AGATAGCCCTTATCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * *
52359 TC-AACGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT-ATGTTATGCTGCAAATGATGTGCCC
66 TCGAA-GGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGA-GTTATGCTGTAAATGATGTGCCC
* *
52422 TCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGGC
129 TCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
* * * *
52459 AGATAGCTCTTCTAGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * *
52524 TCAAAGGTATTTGGTT-ACAGATAACCCTTCTAGCCCTGAGTTATGCTGTAAATGATATGCCCTC
66 TCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* * *
52588 GAAGCTGAGTGTAATCAAACTTGGGGGTCATTGGC
131 GAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
* * * *
52623 AGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTTCCTTGGACCTGAGTGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
52688 TCGAAGGTCTTTTGG-TGACAGATAACCCATCTAGCCTTGAGTTATACTGTAAATGATGTGCCCT
66 TCGAAGGTC-TTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
*
52752 CGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGAC
130 CGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
* * * * *
52788 AGATAGCACTTCTCGACTTAAGTTATGCTGCAAATGACGTGCCTTGGAACTGAGCGTAGTCTAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * *
52853 TCAAAGGTCTTTGGTT-ACATATAACCCTTCTAGCCCTGAGCTGTGCTATAAATGATATGCCCTC
66 TCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* * *
52917 GAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGC
131 GAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
* * * *
52952 AGATATCCCTTCTCGATTTAAGCTATGCTACAAATGATGTGACTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
**
53017 TCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCT
66 TCGAAGGTC-TTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
*
53081 CGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTAGC
130 CGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
*
53117 AGATAGCCCTTCTTGACTTAAGCTAT
1 AGATAGCCCTTCTCGACTTAAGCTAT
53143 TGTTCGCGTG
Statistics
Matches: 745, Mismatches: 95, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
164 278 0.37
165 465 0.62
166 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (165 bp):
AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
GAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGC
Found at i:52587 original size:329 final size:329
Alignment explanation
Indices: 52160--53142 Score: 1416
Period size: 329 Copynumber: 3.0 Consensus size: 329
52150 GCTATGTTGT
* * * ** **
52160 AAATGATGTGCCTTGGAGTTGAGTGTAGTCGAACTCGGAGGTCTTTGGTTGGTAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTGGTT-ACAGATAACCCTTC
* * * * * * ** *
52225 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGAGTCTT
65 TAGCCCTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
*
52290 TGGCAGATAGCCCTTATCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
130 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * * *
52355 GAACTC-AACGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTT-ATGTTATGCTGCAAATGATG
195 GAACTCGAA-GGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGA-GTTATACTGTAAATGATG
* * *
52417 TGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGGCAGATAGCTCTTCTAGACTTAAGC
257 TGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCACTTCTAGACTTAAGC
52482 TATACTGC
322 TATACTGC
*
52490 AAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTATTTGGTTACAGATAACCCTTCT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCT
* * *
52555 AGCCCTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCAAACTTGGGGGTCATT
66 AGCCCTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
* * * * *
52620 GGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTTCCTTGGACCTGAGTGTAGTCG
131 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
*
52685 AACTCGAAGGTCTTTTGGTGACAGATAACCCATCTAGCCTTGAGTTATACTGTAAATGATGTGCC
196 AACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCC
* * * *
52750 CTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGACAGATAGCACTTCTCGACTTAAGTTATG
261 CTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCACTTCTAGACTTAAGCTATA
52815 CTGC
326 CTGC
* * *
52819 AAATGACGTGCCTTGGAACTGAGCGTAGTCT-AACTCAAAGGTCTTTGGTTACATATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGT-TGAACTCAAAGGTCTTTGGTTACAGATAACCCTTC
* * * *
52883 TAGCCCTGAGCTGTGCTATAAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTT
65 TAGCCCTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
* * *
52948 TGGCAGATATCCCTTCTCGATTTAAGCTATGCTACAAATGATGTGACTTGGAGCTGAGCGTAGTC
130 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
53013 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGC
195 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGC
* * *
53078 CCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTAGCAGATAGCCCTTCTTGACTTAAGCTAT
260 CCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCACTTCTAGACTTAAGCTAT
53143 TGTTCGCGTG
Statistics
Matches: 584, Mismatches: 65, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
329 531 0.91
330 53 0.09
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (329 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCT
AGCCCTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
GGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
AACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCC
CTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCACTTCTAGACTTAAGCTATA
CTGC
Found at i:53060 original size:494 final size:494
Alignment explanation
Indices: 52150--53142 Score: 1398
Period size: 494 Copynumber: 2.0 Consensus size: 494
52140 CTTGCCTTGG
* * ** * **
52150 GCTATGTTGTAAATGATGTGCCTTGGAGTTGAGTGTAGTCGAACTCGGAGGTCTTTGGTTGGTAG
1 GCTATGCTGCAAATGATGTGCCTTGGACCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGACAG
* * * *
52215 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
66 ATAACCCATCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * * *
52280 CAAGAGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCT
131 CAAGAGTCTTTGACAGATAGCACTTATCGACTTAAGCTATGCTACAAATGACGTGCCTTGGAACT
* * * * * *
52345 GAGCGTAGTCGAACTCAACGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTATGTTATGCTGCA
196 GAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTGATGCTATGCTACA
* *
52410 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGGCAGATAGCTCTTCTAGA
261 AATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGGCAGATAGCCCTTCTAGA
* * * *
52475 CTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTATTTGGTT
326 CTTAAGCTATACTACAAATGATGTGACTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTG
*
52540 ACAGATAACCCTTCTAGCCCTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCA
391 ACAGATAACCCTTCTAGCCCTGAGTTATACTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCA
* * *
52605 AACTTGGGGGTCATTGGCAGATAGCCCTTCTCAACTTAA
456 AACTCGAGGGTCATTAGCAGATAGCCCTTCTCAACTTAA
*
52644 GCTATGCTGCAAATGATGTTCCTTGGACCTGAGTGTAGTCGAACTCGAAGGTCTTTTGG-TGACA
1 GCTATGCTGCAAATGATGTGCCTTGGACCTGAGTGTAGTCGAACTCGAAGGTC-TTTGGTTGACA
* * *
52708 GATAACCCATCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAAC
65 GATAACCCATCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAAC
* * * * *
52773 TCGAGGGTCTTTGACAGATAGCACTTCTCGACTTAAGTTATGCTGCAAATGACGTGCCTTGGAAC
130 TCAAGAGTCTTTGACAGATAGCACTTATCGACTTAAGCTATGCTACAAATGACGTGCCTTGGAAC
* * * *
52838 TGAGCGTAGTCTAACTCAAAGGTCTTTGGTT-ACATATAACCCTTCTAGCCCTGA-GCTGTGCTA
195 TGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAG-ACTGATGCTATGCTA
* * * * * *
52901 TAAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATATCCCTTCTC
259 CAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGGCAGATAGCCCTTCTA
* * * *
52966 GATTTAAGCTATGCTACAAATGATGTGACTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
324 GACTTAAGCTATACTACAAATGATGTGACTTGGAGCTGAGCGTAGTCGAACTCAAAGGT-ATTTG
* * *
53031 GTGACAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
388 GTGACAGATAACCCTTCTAGCCCTGAGTTATACTGTAAATGATATGCCCTCGAAGCTGAGTGTAA
* **
53096 TCAAACTCGAGGGTCTTTAGCAGATAGCCCTTCTTGACTTAA
453 TCAAACTCGAGGGTCATTAGCAGATAGCCCTTCTCAACTTAA
53138 GCTAT
1 GCTAT
53143 TGTTCGCGTG
Statistics
Matches: 436, Mismatches: 60, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
493 130 0.30
494 301 0.69
495 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (494 bp):
GCTATGCTGCAAATGATGTGCCTTGGACCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGACAG
ATAACCCATCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
CAAGAGTCTTTGACAGATAGCACTTATCGACTTAAGCTATGCTACAAATGACGTGCCTTGGAACT
GAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTGATGCTATGCTACA
AATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGGCAGATAGCCCTTCTAGA
CTTAAGCTATACTACAAATGATGTGACTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTG
ACAGATAACCCTTCTAGCCCTGAGTTATACTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCA
AACTCGAGGGTCATTAGCAGATAGCCCTTCTCAACTTAA
Found at i:54014 original size:24 final size:24
Alignment explanation
Indices: 53970--54019 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
53960 ATAAAGAACC
*
53970 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
53994 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
54018 AA
1 AA
54020 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:55002 original size:39 final size:40
Alignment explanation
Indices: 54948--55027 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 40
54938 GTAGGATAAA
54948 ATTGAATTTCAACCCTCAG-AAAAAAATAGGCTTCAACAT
1 ATTGAATTTCAACCCTCAGAAAAAAAATAGGCTTCAACAT
54987 ATTGAATTTCAACCCTCAGAAAAAAAAATAGGCTTCAACAT
1 ATTGAATTTCAACCCTCAG-AAAAAAAATAGGCTTCAACAT
55028 GCTAGAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 19 0.49
41 20 0.51
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (40 bp):
ATTGAATTTCAACCCTCAGAAAAAAAATAGGCTTCAACAT
Found at i:64174 original size:24 final size:24
Alignment explanation
Indices: 64130--64179 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
64120 ATAAAGAACC
*
64130 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
64154 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
64178 AA
1 AA
64180 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:65185 original size:81 final size:81
Alignment explanation
Indices: 65008--65394 Score: 388
Period size: 81 Copynumber: 4.7 Consensus size: 81
64998 GGAATTTATC
* * *
65008 AGCTATGCTGCAAATGACGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGAC
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT-G-G-C
* *
65072 AGATAACCCTTCT-AGCCTTG
62 AGATAACCCTTCTCA-ACTTA
* * * *
65092 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-AAGGGTCTTTGGCAGA
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGCAGA
*
65156 TAGCCCTTCTCAACTTA
65 TAACCCTTCTCAACTTA
* * * * *
65173 AGCTATGCTGTAAATGACGTG-CCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTGGC
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC--T--TTGGC
**
65237 AGATAACCCTTCTGGACTTA
62 AGATAACCCTTCTCAACTTA
* * * * * *
65257 AGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGATGGTCTTTGGTAGAT
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGAT
* * *
65322 AGCCCTTCTCGACTTT
66 AACCCTTCTCAACTTA
* * *
65338 AGCTATACTGCAAATGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTT
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
65395 AGTTGGCAAA
Statistics
Matches: 252, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
80 52 0.21
81 80 0.32
82 3 0.01
83 2 0.01
84 62 0.25
85 53 0.21
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (81 bp):
AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGAT
AACCCTTCTCAACTTA
Found at i:65257 original size:84 final size:84
Alignment explanation
Indices: 65008--65437 Score: 439
Period size: 84 Copynumber: 5.2 Consensus size: 84
64998 GGAATTTATC
* *
65008 AGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGAC
1 AGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGC
* * * *
65072 AGATAACCCTTCTAGCCTTG
65 AGATAGCCCTTCTCGACTTA
* * * * * *
65092 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-AAGGGTC--T--TTGG
1 AGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTTGG
*
65152 CAGATAGCCCTTCTCAACTTA
64 CAGATAGCCCTTCTCGACTTA
* * *
65173 AGCTATGCTGTAAATGACGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
1 AGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
* *
65238 GATAACCCTTCTGGACTTA
66 GATAGCCCTTCTCGACTTA
* * * * * * *
65257 AGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGATGGTCTTTGG-T---
1 AGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
*
65318 AGATAGCCCTTCTCGACTTT
65 AGATAGCCCTTCTCGACTTA
* * *
65338 AGCTATACTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCA
1 AGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
* * * *
65403 AATAGCCCTTCTTGTCTTG
66 GATAGCCCTTCTCGACTTA
**
65422 AGCTATATTGCAAATG
1 AGCTATGCTGCAAATG
65438 TTACCTCAAA
Statistics
Matches: 282, Mismatches: 51, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
80 56 0.20
81 75 0.27
82 2 0.01
84 91 0.32
85 58 0.21
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
AGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
GATAGCCCTTCTCGACTTA
Found at i:65282 original size:165 final size:165
Alignment explanation
Indices: 65008--65414 Score: 627
Period size: 165 Copynumber: 2.5 Consensus size: 165
64998 GGAATTTATC
*
65008 AGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGAC
1 AGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGC
* * * *
65072 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
65 AGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAA
65137 CTCAAGGGTCTTTGGCAGATAGCCCTTCTCAACTTA
130 CTCAAGGGTCTTTGGCAGATAGCCCTTCTCAACTTA
* *
65173 AGCTATGCTGTAAATGACGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
1 AGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
*
65238 GATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
66 GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
* * * * *
65303 TCGATGGTCTTTGGTAGATAGCCCTTCTCGACTTT
131 TCAAGGGTCTTTGGCAGATAGCCCTTCTCAACTTA
* * * *
65338 AGCTATACTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCA
1 AGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
* *
65403 AATAGCCCTTCT
66 GATAACCCTTCT
65415 TGTCTTGAGC
Statistics
Matches: 220, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
164 5 0.02
165 215 0.98
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (165 bp):
AGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
TCAAGGGTCTTTGGCAGATAGCCCTTCTCAACTTA
Found at i:70637 original size:4 final size:4
Alignment explanation
Indices: 70628--70665 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
70618 GCTTTAGAGG
* *
70628 AAAT AAAT AAAT AAAT AAAT AAAT AGAT -ACT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
70666 AAGAAGGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 1 0.03
4 28 0.97
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:70757 original size:14 final size:15
Alignment explanation
Indices: 70737--70773 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
70727 AAATCAAAGG
70737 AAAAATAAAACAAAT
1 AAAAATAAAACAAAT
*
70752 -AAAAT-AGACAAAT
1 AAAAATAAAACAAAT
70765 AAAAATAAA
1 AAAAATAAA
70774 TATATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 4
0.75 0.08 0.17
Matches are distributed among these distances:
13 7 0.39
14 10 0.56
15 1 0.06
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAATAAAACAAAT
Found at i:70764 original size:22 final size:21
Alignment explanation
Indices: 70715--70768 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
70705 CAATAGATAA
* *
70715 AAAAATAAAGACAAATCAAAGG
1 AAAAATAAA-ACAAATAAAAAG
70737 AAAAATAAAACAAATAAAATAG
1 AAAAATAAAACAAATAAAA-AG
*
70759 ACAAATAAAA
1 AAAAATAAAA
70769 ATAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAAATAAAACAAATAAAAAG
Found at i:70883 original size:18 final size:18
Alignment explanation
Indices: 70856--70929 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
70846 TAACAATAAT
*
70856 AAATATAAACATAAAAAG
1 AAATAAAAACATAAAAAG
*
70874 AAATAAAAACATATATAAG
1 AAATAAAAACATA-AAAAG
* *
70893 AAATTAAAAGAAAAAAAAAG
1 AAA-TAAAA-ACATAAAAAG
70913 -AATAAATAA-ATAAAAAG
1 AAATAAA-AACATAAAAAG
70930 GACCAACATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 7 0.15
18 17 0.37
19 10 0.22
20 9 0.20
21 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (18 bp):
AAATAAAAACATAAAAAG
Found at i:71965 original size:17 final size:17
Alignment explanation
Indices: 71943--71975 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71933 AGGTGAATAA
*
71943 AAATAATGAATAAAAAT
1 AAATAATAAATAAAAAT
71960 AAATAATAAATAAAAA
1 AAATAATAAATAAAAA
71976 CTATATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAATAATAAATAAAAAT
Found at i:71969 original size:13 final size:13
Alignment explanation
Indices: 71936--71961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71926 TGACAACAGG
71936 TGAATAAAAATAA
1 TGAATAAAAATAA
71949 TGAATAAAAATAA
1 TGAATAAAAATAA
71962 ATAATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
TGAATAAAAATAA
Found at i:72106 original size:35 final size:35
Alignment explanation
Indices: 72000--72318 Score: 144
Period size: 38 Copynumber: 8.7 Consensus size: 35
71990 CTAAAAAATT
* * **
72000 GTTTTAAAACTATATATAATATACATTTCAAAAATA
1 GTTTTTAAACTATATATTATATAGTTTTCAAAAA-A
* * * * *
72036 TTTTTTTAAAATCATATATTATAAAATTTTAAAAAAA
1 -GTTTTTAAACT-ATATATTATATAGTTTTCAAAAAA
* *
72073 GTTTTTAAACTATATGTTATATAGTTTTCAAAAAT
1 GTTTTTAAACTATATATTATATAGTTTTCAAAAAA
* * * *
72108 GTCTTAAAAC--TATATTATAT-GTTTTTAAAAAT
1 GTTTTTAAACTATATATTATATAGTTTTCAAAAAA
* * *
72140 GTTTTTTCAAAAATTATATATTATATATATTTTCAAAAAT
1 G-TTTTT---AAACTATATATTATATA-GTTTTCAAAAAA
* * * *
72180 GTTTTAAAAAATTATATATTATATAATTTTTAAAAATA
1 GTTTT--TAAACTATATATTATATAGTTTTCAAAAA-A
* ** *
72218 -TTTTAAAAACTATATAATATATATTTTTTTCAAAAAT
1 GTTTT-TAAACTATAT-AT-TATATAGTTTTCAAAAAA
* *
72255 GTTTTGAAAACTACATATTATATACGTATTTTCAAAAACCA
1 GTTTT-TAAACTATATATTATATA-G--TTTTCAAAAA--A
**
72296 -TTTGCAAACTATATATGTATATA
1 GTTTTTAAACTATATAT-TATATA
72319 TATATATATA
Statistics
Matches: 221, Mismatches: 40, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
32 12 0.05
33 12 0.05
35 27 0.12
36 27 0.12
37 27 0.12
38 72 0.33
39 24 0.11
40 20 0.09
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (35 bp):
GTTTTTAAACTATATATTATATAGTTTTCAAAAAA
Found at i:72226 original size:36 final size:35
Alignment explanation
Indices: 72001--72278 Score: 181
Period size: 38 Copynumber: 7.6 Consensus size: 35
71991 TAAAAAATTG
* *
72001 TTTTAAAACTATATATAATATACA-TTTCAAAAATA
1 TTTTAAAACTATATATTATATA-ATTTTTAAAAATA
* *
72036 TTTTTTTAAAA-TCATATATTATA-AAATTTTAAAAAAA
1 ---TTTTAAAACT-ATATATTATATAATTTTTAAAAATA
* * * * *
72073 GTTTTTAAACTATATGTTATATAGTTTTCAAAAATG
1 -TTTTAAAACTATATATTATATAATTTTTAAAAATA
* * *
72109 TCTTAAAAC--TATATTATAT-GTTTTTAAAAATGTT
1 TTTTAAAACTATATATTATATAATTTTTAAAAA--TA
* * *
72143 TTTTCAAAAATTATATATTATATATATTTTCAAAAATG
1 TTTT--AAAACTATATATTATATA-ATTTTTAAAAATA
*
72181 TTTTAAAAAATTATATATTATATAATTTTTAAAAATA
1 TTTT--AAAACTATATATTATATAATTTTTAAAAATA
* * *
72218 TTTTAAAAACTATATAATATATATTTTTTTCAAAAATG
1 TTTT-AAAACTATATATTATATA-ATTTTT-AAAAATA
*
72256 TTTTGAAAACTACATATTATATA
1 TTTT-AAAACTATATATTATATA
72279 CGTATTTTCA
Statistics
Matches: 195, Mismatches: 31, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
32 10 0.05
33 9 0.05
34 4 0.02
35 23 0.12
36 32 0.16
37 31 0.16
38 77 0.39
40 9 0.05
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (35 bp):
TTTTAAAACTATATATTATATAATTTTTAAAAATA
Found at i:75330 original size:18 final size:20
Alignment explanation
Indices: 75295--75331 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
75285 ATTACTATTT
*
75295 TATATTTTTTAATATATTAA
1 TATATTTTTAAATATATTAA
75315 TATA-TTTTAAAT-TATTA
1 TATATTTTTAAATATATTA
75332 TTTTTGCAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTTTAAATATATTAA
Found at i:76061 original size:13 final size:13
Alignment explanation
Indices: 76043--76077 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
76033 TGGACTGGAA
76043 ATAGAGAGGGAGC
1 ATAGAGAGGGAGC
76056 ATAGAGAGGGAGC
1 ATAGAGAGGGAGC
76069 ATAGAGAGG
1 ATAGAGAGG
76078 AGAAGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.46, T:0.09
Consensus pattern (13 bp):
ATAGAGAGGGAGC
Found at i:79936 original size:2 final size:2
Alignment explanation
Indices: 79929--79969 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
79919 TTAATGTAAT
79929 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79970 CAATAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:80618 original size:25 final size:24
Alignment explanation
Indices: 80584--80653 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
80574 ATTCAAAAAC
*
80584 TTCATCAAACATTTTTCAAAATTCT
1 TTCATTAAACATTTTT-AAAATTCT
80609 TTCATTAAACATTATTTAAAATTCT
1 TTCATTAAACATT-TTTAAAATTCT
*
80634 TCCA-TAAACCATTTTTAAAA
1 TTCATTAAA-CATTTTTAAAA
80654 CTTCATCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
24 11 0.27
25 27 0.66
26 3 0.07
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (24 bp):
TTCATTAAACATTTTTAAAATTCT
Found at i:80821 original size:24 final size:23
Alignment explanation
Indices: 80777--80851 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 23
80767 GAAGCTCATG
*
80777 TCCATCAAACATTTTTCAAATTCT
1 TCCAT-AAACATTTTTAAAATTCT
* *
80801 TTCATTAAACATTATTAAAATTCT
1 TCCA-TAAACATTTTTAAAATTCT
80825 TCCATAAACCATTTTTAAAACTTCT
1 TCCATAAA-CATTTTTAAAA-TTCT
80850 TC
1 TC
80852 ATCAATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.09
24 32 0.74
25 7 0.16
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (23 bp):
TCCATAAACATTTTTAAAATTCT
Found at i:80926 original size:193 final size:193
Alignment explanation
Indices: 80586--80969 Score: 686
Period size: 193 Copynumber: 2.0 Consensus size: 193
80576 TCAAAAACTT
80586 CATCAAACATTTTTCAAAATTCTTTCATTAAACATTATTTAAAATTCTTCCATAAACCATTTTTA
1 CATCAAACATTTTTCAAAATTCTTTCATTAAACATTATTTAAAATTCTTCCATAAACCATTTTTA
80651 AAACTTCATCAATTTTTTTCACCTTTTGAAAAATAGAAAGAGGAAGAAAAATATTTTCAAACAAG
66 AAACTTCATCAATTTTTTTCACCTTTTGAAAAATAGAAAGAGGAAGAAAAATATTTTCAAACAAG
*
80716 ACAATCTCTCTTGAGTAGATATTGGCATTTGAAACATGTCTTATAAACATAGAAGCTCATGTC
131 ACAATCTCTCTTGAGTAGATATTGGCATTTGAAACATGTCTTATAAACATAGAACCTCATGTC
80779 CATCAAACATTTTTC-AAATTCTTTCATTAAACATTA-TTAAAATTCTTCCATAAACCATTTTTA
1 CATCAAACATTTTTCAAAATTCTTTCATTAAACATTATTTAAAATTCTTCCATAAACCATTTTTA
80842 AAACTTCTTCATCAATTTTTTTCACCTTTTGAAAAATAGAAAGAGGAAG-AAAATATTTTCAAAC
66 AAA---CTTCATCAATTTTTTTCACCTTTTGAAAAATAGAAAGAGGAAGAAAAATATTTTCAAAC
*
80906 AAGACATTCTC-CTTTGAGTAGATATTGGCATTTGAAACATGTCTTATAAACATAGAACCTCATG
128 AAGACAATCTCTC-TTGAGTAGATATTGGCATTTGAAACATGTCTTATAAACATAGAACCTCATG
80970 CTCTGAACTG
Statistics
Matches: 185, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
191 30 0.16
192 22 0.12
193 90 0.49
194 43 0.23
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (193 bp):
CATCAAACATTTTTCAAAATTCTTTCATTAAACATTATTTAAAATTCTTCCATAAACCATTTTTA
AAACTTCATCAATTTTTTTCACCTTTTGAAAAATAGAAAGAGGAAGAAAAATATTTTCAAACAAG
ACAATCTCTCTTGAGTAGATATTGGCATTTGAAACATGTCTTATAAACATAGAACCTCATGTC
Found at i:81231 original size:30 final size:30
Alignment explanation
Indices: 81197--81302 Score: 151
Period size: 30 Copynumber: 3.5 Consensus size: 30
81187 AGTTAAGCAC
81197 CAAATAGTACAGGGACTGGGCCACCAATGT
1 CAAATAGTACAGGGACTGGGCCACCAATGT
81227 CAAATAGTACAGGGACTGGGCCACCAATGT
1 CAAATAGTACAGGGACTGGGCCACCAATGT
* * * *
81257 CAAATAGTATAAGGACTTGACCACTC-ATGT
1 CAAATAGTACAGGGACTGGGCCAC-CAATGT
*
81287 TAAATAGTACAGGGAC
1 CAAATAGTACAGGGAC
81303 CAAGGCCATC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
30 67 0.99
31 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (30 bp):
CAAATAGTACAGGGACTGGGCCACCAATGT
Found at i:84257 original size:2 final size:2
Alignment explanation
Indices: 84250--84293 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
84240 TATTATTCTT
84250 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84292 TA
1 TA
84294 CCCTTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84412 original size:20 final size:20
Alignment explanation
Indices: 84387--84429 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
84377 CATTCTTTTA
84387 TCTAACTCATTTTTTTGACT
1 TCTAACTCATTTTTTTGACT
84407 TCTAACTCATTTTTTTGACT
1 TCTAACTCATTTTTTTGACT
84427 TCT
1 TCT
84430 TAAGGGGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.05, T:0.56
Consensus pattern (20 bp):
TCTAACTCATTTTTTTGACT
Found at i:85354 original size:10 final size:10
Alignment explanation
Indices: 85318--85346 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
85308 TCCTTTACCA
85318 TTTATTTATT
1 TTTATTTATT
85328 TTTATTTATT
1 TTTATTTATT
85338 TTTATTTAT
1 TTTATTTAT
85347 CTCTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTATT
Found at i:98415 original size:23 final size:23
Alignment explanation
Indices: 98371--98434 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
98361 AAGCAACAAT
*
98371 ATAATCATATTTACTAA-ATTATC
1 ATAATTATATTTA-TAATATTATC
* *
98394 ATAATTATATTTATAATTTTATT
1 ATAATTATATTTATAATATTATC
*
98417 ATTATTA-A-TTATAATATT
1 ATAATTATATTTATAATATT
98435 GAAGTGACCA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.26
22 4 0.11
23 22 0.63
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
ATAATTATATTTATAATATTATC
Done.