Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_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: 2211860
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:815646 original size:14 final size:14
Alignment explanation
Indices: 815627--815684 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
815617 AACGCGAAAT
815627 GAATCGCAACGAGA
1 GAATCGCAACGAGA
815641 GAATCGCAACGAGAAA
1 GAATCGCAACGAG--A
*
815657 TGAAAATCGCAATGAGA
1 -G--AATCGCAACGAGA
815674 GAATCGCAACG
1 GAATCGCAACG
815685 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.59
16 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:815666 original size:19 final size:19
Alignment explanation
Indices: 815612--815746 Score: 105
Period size: 19 Copynumber: 7.7 Consensus size: 19
815602 GTAAATGACT
815612 ATCGCAACGCGAAATG--A
1 ATCGCAACGCGAAATGAAA
*
815629 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
815643 ATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
815662 ATCGCAA--TG--A-GAGA
1 ATCGCAACGCGAAATGAAA
815676 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* **
815695 ATCACAACGCGAAACCAAA
1 ATCGCAACGCGAAATGAAA
**
815714 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAATGAAA
815733 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
815747 CTATAATCGC
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 18 0.19
15 3 0.03
16 2 0.02
17 8 0.08
18 2 0.02
19 61 0.64
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.09
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:815674 original size:33 final size:33
Alignment explanation
Indices: 815612--815703 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
815602 GTAAATGACT
815612 ATCGCAACGCGAAATG--AATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
815643 ATCGCAACGAGAAATGAAAATCGCAATGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
815676 ATCGCAACGCGAAATGAAAATCACAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
815704 CGAAACCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 15 0.28
33 39 0.72
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:815726 original size:38 final size:38
Alignment explanation
Indices: 815675--815756 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
815665 GCAATGAGAG
**
815675 AATCGCAACGCGAAATGAAAATCACAACGCGAAACCAA
1 AATCGCAACGCGAAACCAAAATCACAACGCGAAACCAA
* * *
815713 AATCGCAACGCGAAACCAAAATCGCAACGCGAAACTAT
1 AATCGCAACGCGAAACCAAAATCACAACGCGAAACCAA
815751 AATCGC
1 AATCGC
815757 GTTGCGATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.10
Consensus pattern (38 bp):
AATCGCAACGCGAAACCAAAATCACAACGCGAAACCAA
Found at i:815756 original size:19 final size:19
Alignment explanation
Indices: 815675--815747 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
815665 GCAATGAGAG
**
815675 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
*
815694 AATCACAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
815713 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
815732 AATCGCAACGCGAAAC
1 AATCGCAACGCGAAAC
815748 TATAATCGCG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.48, C:0.29, G:0.16, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:815835 original size:40 final size:39
Alignment explanation
Indices: 815753--815828 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
815743 GAAACTATAA
* **
815753 TCGCGTTGCGATTTTCATTTCGCATTGCGATAGTCAAAT
1 TCGCATTGCGATAGTCATTTCGCATTGCGATAGTCAAAT
815792 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCA
1 TCGCATTGCGATAGTCA-TTTCGCATTGCGATAGTCA
815829 TTTTCGCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (39 bp):
TCGCATTGCGATAGTCATTTCGCATTGCGATAGTCAAAT
Found at i:815843 original size:20 final size:20
Alignment explanation
Indices: 815770--815835 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
815760 GCGATTTTCA
*
815770 TTTCGCATTGCGATAGTCAA
1 TTTCGCATTGCGATAGTCAT
*
815790 ATTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
815810 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
815830 TTTCGC
1 TTTCGC
815836 GTTACGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTCGCATTGCGATAGTCAT
Found at i:816418 original size:21 final size:21
Alignment explanation
Indices: 816327--816431 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
816317 GACTCACTTG
*
816327 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
816349 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
816369 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
816390 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
816411 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
816432 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:816424 original size:42 final size:42
Alignment explanation
Indices: 816325--816434 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
816315 CCGACTCACT
* * * *
816325 TGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCAC
* **
816367 TATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCAC
1 TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCAC
*
816409 TGTCATCGTTGAAGAGGT-CCCTCCCA
1 TGTCATCGTTCAAGA-GTCCCCTCCCA
816435 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCAC
Found at i:817773 original size:34 final size:33
Alignment explanation
Indices: 817696--817780 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
817686 TCGCAACGCG
** **
817696 GAAATGACTATCGCAACGAGAGAATTGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCACAATGC
*
817729 GAAATGAAAATCGCAACGAGTGAATCACAATGC
1 GAAATGAAAATCGCAACGAGAGAATCACAATGC
*
817762 GAAAATGAAAATCGTAACG
1 G-AAATGAAAATCGCAACG
817781 CGAAACTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 29 0.64
34 16 0.36
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.16
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCACAATGC
Found at i:817852 original size:33 final size:33
Alignment explanation
Indices: 817795--817890 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
817785 ACTAATTTCG
*
817795 CGTTGCAATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
* *
817829 CGTTGCGATTTTCATTTCGCATTGCAATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
817862 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
817891 AGTCAATTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 32 0.59
34 22 0.41
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.42
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:817887 original size:20 final size:20
Alignment explanation
Indices: 817862--817950 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
817852 GCAATTCTCT
817862 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
817882 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
817902 CATTGCGATAGTCATTTCCA
1 CGTTGCGATAGTCATTTCCG
**
817922 TATTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
817942 CGTTGCGAT
1 CGTTGCGAT
817951 TTCCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:820417 original size:24 final size:24
Alignment explanation
Indices: 820383--820436 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
820373 CTGAAAAATC
820383 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
820407 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
820431 ATCAAA
1 ATCAAA
820437 TTTAGAATAC
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:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:820758 original size:20 final size:20
Alignment explanation
Indices: 820730--820782 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
820720 CGATAGTCAA
*
820730 AATCTCATTGCGATTTACAG
1 AATCGCATTGCGATTTACAG
* *
820750 ATTCGCATTGCGATTTACAT
1 AATCGCATTGCGATTTACAG
820770 AATCGCATTGCGA
1 AATCGCATTGCGA
820783 ATTAGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (20 bp):
AATCGCATTGCGATTTACAG
Found at i:820796 original size:21 final size:21
Alignment explanation
Indices: 820752--820818 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
820742 ATTTACAGAT
* * *
820752 TCGCATTGCGATTTA-CATAA
1 TCGCATTGCGAATTAGGAAAA
820772 TCGCATTGCGAATTAGGAAAA
1 TCGCATTGCGAATTAGGAAAA
** * *
820793 TCGCAACGCGAATTTGGGAAA
1 TCGCATTGCGAATTAGGAAAA
820814 TCGCA
1 TCGCA
820819 ATGCTATAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (21 bp):
TCGCATTGCGAATTAGGAAAA
Found at i:820896 original size:19 final size:19
Alignment explanation
Indices: 820872--820921 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
820862 CGATACCGGA
820872 GATCGCGTTGCAAATTATC
1 GATCGCGTTGCAAATTATC
* * *
820891 GATCGCGTTGCGATTTATG
1 GATCGCGTTGCAAATTATC
820910 GATACGCGTTGC
1 GAT-CGCGTTGC
820922 GATTTTACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (19 bp):
GATCGCGTTGCAAATTATC
Found at i:820940 original size:21 final size:21
Alignment explanation
Indices: 820916--821026 Score: 120
Period size: 21 Copynumber: 5.4 Consensus size: 21
820906 TATGGATACG
**
820916 CGTTGCGATTTTACGTCTTGT
1 CGTTGCGATTTTACGGATTGT
*
820937 CGTTGCGA-TTTACGGATACG-
1 CGTTGCGATTTTACGGAT-TGT
*
820957 CGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTTACGGATTGT
**
820978 CGTTGCGA-TTTACGGATACT
1 CGTTGCGATTTTACGGATTGT
**
820998 CGTTGCGATTTTACGGATACT
1 CGTTGCGATTTTACGGATTGT
821019 CGTTGCGA
1 CGTTGCGA
821027 AAGTCAGAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
20 33 0.42
21 45 0.58
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTTACGGATTGT
Found at i:820944 original size:41 final size:41
Alignment explanation
Indices: 820896--821026 Score: 208
Period size: 41 Copynumber: 3.2 Consensus size: 41
820886 TTATCGATCG
* *
820896 CGTTGCGATTTATGGATACGCGTTGCGATTTTACGTCTTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
820937 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
* * **
820978 CGTTGCGATTTACGGATACTCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
821019 CGTTGCGA
1 CGTTGCGA
821027 AAGTCAGAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
Found at i:821041 original size:82 final size:82
Alignment explanation
Indices: 820896--821049 Score: 186
Period size: 82 Copynumber: 1.9 Consensus size: 82
820886 TTATCGATCG
* ** ** * * *
820896 CGTTGCGATTTATGGATACGCGTTGCGATTTTACGTCTTGTCGTTGCGATTTACGGATACGCGTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAGTCACGAATACGCGTT
*
820961 GCGATTTTACGTATTGT
66 GCAATTTTACGTATTGT
*
820978 CGTTGCGATTTACGGATACTCGTTGCGATTTTACGGATACTCGTTGCGAAAGTCA-GAAT-CGCG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCG--AGTCACGAATACGCG
821041 TTGCAATTT
64 TTGCAATTT
821050 ATATGTTCGC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
82 54 0.90
83 3 0.05
84 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (82 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAGTCACGAATACGCGTT
GCAATTTTACGTATTGT
Found at i:821085 original size:20 final size:20
Alignment explanation
Indices: 821034--821196 Score: 89
Period size: 20 Copynumber: 8.0 Consensus size: 20
821024 CGAAAGTCAG
* *
821034 AATCGCGTTGCAATTTATAT
1 AATCGCGTTGCGATTTTTAT
**
821054 GTTCGCGTTGCGATTTTTAT
1 AATCGCGTTGCGATTTTTAT
* ** *
821074 ATTCGCGTTGCGATTCTGGAA
1 AATCGCGTTGCGATT-TTTAT
* ** *
821095 AATCACAATGCGAATTTGTACT
1 AATCGCGTTGCG-ATTTTTA-T
* *
821117 -ATCGCATTGCGATTCTTCAT
1 AATCGCGTTGCGATT-TTTAT
* *
821137 AATCGCGTTGCGA-TTCTAG
1 AATCGCGTTGCGATTTTTAT
*
821156 AGATCGCGTTGCGATTTTGGA-
1 A-ATCGCGTTGCGATTTT-TAT
*
821177 GATCGCGTTGCGATTTTTAT
1 AATCGCGTTGCGATTTTTAT
821197 TTGGCATTGC
Statistics
Matches: 108, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.04
20 63 0.58
21 37 0.34
22 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTTAT
Found at i:827496 original size:16 final size:16
Alignment explanation
Indices: 827475--827507 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
827465 TAATAAATAA
827475 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
827491 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
827507 A
1 A
827508 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:827594 original size:16 final size:16
Alignment explanation
Indices: 827573--827631 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
827563 CATTTAATAA
827573 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
827589 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
827605 ATAAATGAACTCGAAC
1 ATAAACGAACACGAAC
827621 ATAAACGAACA
1 ATAAACGAACA
827632 TAAACGTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.56, C:0.22, G:0.12, T:0.10
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:828395 original size:24 final size:24
Alignment explanation
Indices: 828360--828414 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
828350 GATTGGGTTA
828360 AACATAAATGAATGAACATAAACG
1 AACATAAATGAATGAACATAAACG
*
828384 AACATAATTGAATGAACATAAACG
1 AACATAAATGAATGAACATAAACG
828408 AACATAA
1 AACATAA
828415 CCAAACGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (24 bp):
AACATAAATGAATGAACATAAACG
Found at i:828420 original size:14 final size:14
Alignment explanation
Indices: 828403--828435 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
828393 GAATGAACAT
828403 AAACGAACATAACC
1 AAACGAACATAACC
828417 AAACGAACATAACC
1 AAACGAACATAACC
*
828431 GAACG
1 AAACG
828436 TTCACGAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.27, G:0.12, T:0.06
Consensus pattern (14 bp):
AAACGAACATAACC
Found at i:828424 original size:24 final size:24
Alignment explanation
Indices: 828373--828434 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
828363 ATAAATGAAT
*** *
828373 GAACATAAACGAACATAATTGAAT
1 GAACATAAACGAACATAACCAAAC
828397 GAACATAAACGAACATAACCAAAC
1 GAACATAAACGAACATAACCAAAC
*
828421 GAACATAACCGAAC
1 GAACATAAACGAAC
828435 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.55, C:0.21, G:0.11, T:0.13
Consensus pattern (24 bp):
GAACATAAACGAACATAACCAAAC
Found at i:834616 original size:39 final size:36
Alignment explanation
Indices: 834539--834860 Score: 234
Period size: 38 Copynumber: 8.8 Consensus size: 36
834529 TGAAACTACG
* * *
834539 TATATAATATATAGTTTTT-AATA-GTTTTTAAAAT
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAAT
**
834573 TATATAATATATAGTTTAAAAAAAACATTTTAGAAAAT
1 TATATAATATATAGTTT-TTAAAAACATTTT-GAAAAT
* *
834611 ATATATAATATATAATTTTTAAAATCATTTTGAAAACT
1 -TATATAATATATAGTTTTTAAAAACATTTTGAAAA-T
*
834649 TATATATATATATAGTTTTTGAAAACATTTTTGAAAA-
1 TATATA-ATATATAGTTTTTAAAAACA-TTTTGAAAAT
* *
834686 CATAT-ATATTATAG-TTTTGAAAACATTTTGAAAACATT
1 TATATAATA-TATAGTTTTTAAAAACATTTTG-AAA-A-T
* *
834724 TATATATTATATAGTTTTT-AAAACGTTTTTGGAAAATT
1 TATATAATATATAGTTTTTAAAAAC-ATTTT-GAAAA-T
* * * *
834762 TATATAATCT-T-TTTTTTGAAAACATGTTGAAAAAAT
1 TATATAATATATAGTTTTTAAAAACATTTTG--AAAAT
* *
834798 TCATATATTATATAG--TTTAAAAACATTTTGAAATT
1 T-ATATAATATATAGTTTTTAAAAACATTTTGAAAAT
* * *
834833 TATATATTATAT-GTTTTTGAAAATATTT
1 TATATAATATATAGTTTTTAAAAACATTT
834861 ATGTATATAT
Statistics
Matches: 234, Mismatches: 29, Indels: 49
0.75 0.09 0.16
Matches are distributed among these distances:
33 1 0.00
34 33 0.14
35 34 0.15
36 19 0.08
37 49 0.21
38 59 0.25
39 38 0.16
40 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAAT
Found at i:834640 original size:38 final size:36
Alignment explanation
Indices: 834525--834874 Score: 243
Period size: 37 Copynumber: 9.5 Consensus size: 36
834515 ATATATACAT
* *
834525 ATTTTGAAACTACGTATATAATATATAGTTTTTAATA-
1 ATTTTGAAAATA--TATATAATATATAGTTTTTAAAAC
* * **
834562 GTTTTTAAAAT-TATATAATATATAGTTTAAAAAAAAC
1 ATTTTGAAAATATATATAATATATAGTTT--TTAAAAC
*
834599 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAGTTTTTAAAA-C
834637 ATTTTGAAAACT-TATATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAA-TATATATA-ATATATAGTTTTT-AAAAC
* *
834675 ATTTTTGAAAACATATAT-AT-TATAGTTTTGAAAAC
1 A-TTTTGAAAATATATATAATATATAGTTTTTAAAAC
* *
834710 ATTTTGAAAACATTTATATATTATATAGTTTTTAAAAC
1 ATTTTG-AAA-ATATATATAATATATAGTTTTTAAAAC
* * * *
834748 GTTTTTGGAAAATTTATATAATCT-T-TTTTTTGAAAAC
1 -ATTTT-GAAAATATATATAATATATAGTTTTT-AAAAC
* * * *
834785 ATGTTGAAAAAATTCATATATTATATAG-TTTAAAAAC
1 ATTTTGAAAATA-T-ATATAATATATAGTTTTTAAAAC
* * *
834822 ATTTTG-AAATTTATATATTATAT-GTTTTTGAAAAT
1 ATTTTGAAAATATATATAATATATAGTTTTT-AAAAC
* *
834857 ATTTATGTATATATATAT
1 ATTT-TGAAAATATATAT
834875 TATTTATAAT
Statistics
Matches: 250, Mismatches: 37, Indels: 52
0.74 0.11 0.15
Matches are distributed among these distances:
33 1 0.00
34 36 0.14
35 23 0.09
36 32 0.13
37 61 0.24
38 55 0.22
39 41 0.16
40 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
Found at i:834716 original size:11 final size:11
Alignment explanation
Indices: 834700--834724 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
834690 TATATTATAG
834700 TTTTGAAAACA
1 TTTTGAAAACA
834711 TTTTGAAAACA
1 TTTTGAAAACA
834722 TTT
1 TTT
834725 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:834729 original size:73 final size:75
Alignment explanation
Indices: 834521--834860 Score: 283
Period size: 75 Copynumber: 4.6 Consensus size: 75
834511 TTATATATAT
* * * * * *
834521 ACATATTTTGAAACTACGTATATAATATATAGTTTTTAATA-GTTTT-TAAA-A-TTATATAATA
1 ACAT-TTTTGAAAATA--TATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTA
**
834582 TATAGTTTAAAAAAA
63 TATAGTTT--TTAAA
* * *
834597 ACATTTTAGAAAATATATATAATATATAATTTTTAAAATCATTTTGAAAAC--TTATATATATAT
1 ACATTTTTGAAAATATATATAATATATAGTTTTGAAAA-CATTTTGAAAACATTTATATAT-TAT
834660 ATAGTTTTTGAAA
64 ATAGTTTTT-AAA
*
834673 ACATTTTTGAAAACATATAT-AT-TATAGTTTTGAAAACATTTTGAAAACATTTATATATTATAT
1 ACATTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTATAT
834736 AGTTTTTAAA
66 AGTTTTTAAA
* * * ** * * *
834746 ACGTTTTTGGAAAATTTATATAATCT-TTTTTTTGAAAACATGTTGAAAAAATTCATATATTATA
1 ACATTTTT-GAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTATA
*
834810 TAG-TTTAAAA
65 TAGTTTTTAAA
* * *
834820 ACA-TTTTG-AAATTTATATATTATAT-GTTTTTGAAAATATTT
1 ACATTTTTGAAAATATATATAATATATAG-TTTTGAAAACATTT
834861 ATGTATATAT
Statistics
Matches: 223, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
71 13 0.06
72 14 0.06
73 47 0.21
74 42 0.19
75 61 0.27
76 36 0.16
77 10 0.04
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (75 bp):
ACATTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTATAT
AGTTTTTAAA
Found at i:834867 original size:24 final size:24
Alignment explanation
Indices: 834823--834868 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
834813 TTTAAAAACA
*
834823 TTTTGAAATTTATATATTATATGT
1 TTTTGAAATATATATATTATATGT
*
834847 TTTTGAAA-ATATTTATGTATAT
1 TTTTGAAATATATATAT-TATAT
834869 ATATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTGAAATATATATATTATATGT
Found at i:834906 original size:11 final size:11
Alignment explanation
Indices: 834884--834913 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
834874 TTATTTATAA
834884 TTATTATTTATT
1 TTATT-TTTATT
834896 TTATTTTTATT
1 TTATTTTTATT
834907 TTATTTT
1 TTATTTT
834914 ATTGTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:836287 original size:6 final size:6
Alignment explanation
Indices: 836276--836312 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
836266 TCGGATCGAA
* *
836276 TAATTT TAATTT TAATTT TAATTT AAATTC TAATTT T
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT T
836313 CGCAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (6 bp):
TAATTT
Found at i:837957 original size:19 final size:19
Alignment explanation
Indices: 837923--837967 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
837913 ATTTAGACAT
837923 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
837941 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
837960 TTTGCATT
1 TTTGCATT
837968 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:841573 original size:164 final size:163
Alignment explanation
Indices: 841303--841810 Score: 712
Period size: 165 Copynumber: 3.1 Consensus size: 163
841293 TGCAGCTTAG
* * *
841303 CTCAAGGCCAGAAGGGCTATCTGCCACCAAA-ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCAAGAAGGGTTATCTGCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
* * **
841367 ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
66 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTAC
* *
841432 ACTCAGCTTCAAGGGCATAACATTTACAGCATAA
130 ACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* ** *
841466 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCAAGAAGGGTTATCTGCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
841531 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
66 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTAC
* ** *
841596 GCTCAGCTTCGAGGGCGCATCATTTGCAGCATAA
130 ACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* * * *
841630 CTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTG-CAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* * *
841695 CATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTA
65 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTA
* * * *
841760 CACTCAACTTCGAGGTCATATCATTTACAACATAG
129 CACTCAGCTTCGAGGGCATATCATTTACAGCATAA
*
841795 CTCATGGCAAGAAGGG
1 CTCAAGGCAAGAAGGG
841811 CTATTTGTCA
Statistics
Matches: 305, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
163 26 0.09
164 139 0.46
165 140 0.46
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (163 bp):
CTCAAGGCAAGAAGGGTTATCTGCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCGAGTTCGATTACA
CTCAGCTTCGAGGGCATATCATTTACAGCATAA
Found at i:841729 original size:165 final size:164
Alignment explanation
Indices: 841303--841810 Score: 712
Period size: 164 Copynumber: 3.1 Consensus size: 164
841293 TGCAGCTTAG
* *
841303 CTCAAGGCCAGAAGGGCTATCTGCCACCAAA-ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCAAGAAGGGTTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
* * ***
841367 ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
66 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
* *
841432 ACTCAGCTTCAAGGGCATAACATTTACAGCATAA
131 ACTCAGCTTCGAGGGCACAACATTTACAGCATAA
* ** *
841466 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCAAGAAGGGTTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
841531 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
66 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
* * * *
841596 GCTCAGCTTCGAGGGCGCATCATTTGCAGCATAA
131 ACTCAGCTTCGAGGGCACAACATTTACAGCATAA
* * * *
841630 CTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCC-ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* * * *
841695 CATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTA
65 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * * * * *
841760 CACTCAACTTCGAGGTCATATCATTTACAACATAG
130 CACTCAGCTTCGAGGGCACAACATTTACAGCATAA
*
841795 CTCATGGCAAGAAGGG
1 CTCAAGGCAAGAAGGG
841811 CTATTTGTCA
Statistics
Matches: 305, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
163 26 0.09
164 141 0.46
165 138 0.45
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
CTCAAGGCAAGAAGGGTTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
ACTCAGCTTCGAGGGCACAACATTTACAGCATAA
Found at i:841810 original size:81 final size:79
Alignment explanation
Indices: 841290--841814 Score: 465
Period size: 81 Copynumber: 6.4 Consensus size: 79
841280 TAAACAAACT
* * * * * ** *
841290 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCACCAAAACCTTTGAGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCA--AAGACC-CCGAGTTCGATTACGCT
* *
841355 CAGCTCCAAGGCACATC
63 CAGCTTCAAGGCATATC
* * * ** *
841372 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTACGCTCA
*
841437 GCTTCAAGGGCATAAC
65 GCTTCAA-GGCATATC
* * * * * * * ** *
841453 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACC-CCGAGTTCGATTACGC
* *
841518 TCAGCTCCAAGGCACATC
62 TCAGCTTCAAGGCATATC
* *
841536 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACGCTCA
* **
841601 GCTTCGAGGGCGCATC
65 GCTTC-AAGGCATATC
* * * *
841617 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG-C---CAAAGACC-CCGAGTTCGATTACG
*
841682 CTCAGCTCCAAGGCATATC
61 CTCAGCTTCAAGGCATATC
*
841701 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTACGCTCA
* *
841766 ACTTCGAGGTCATATC
65 GCTTCAAGG-CATATC
* * * * *
841782 ATTTACAACATAGCTCATGGCAAGAAGGGCTAT
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTAT
841815 TTGTCAATAA
Statistics
Matches: 361, Mismatches: 67, Indels: 31
0.79 0.15 0.07
Matches are distributed among these distances:
80 81 0.22
81 111 0.31
82 34 0.09
83 36 0.10
84 72 0.20
85 27 0.07
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (79 bp):
ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCGAGTTCGATTACGCTCAG
CTTCAAGGCATATC
Found at i:842483 original size:39 final size:35
Alignment explanation
Indices: 842411--842722 Score: 197
Period size: 38 Copynumber: 8.5 Consensus size: 35
842401 TGAAACTACG
* * * *
842411 TATATAATATATAGTTTTTAATA-GTTTTTAAAAT
1 TATATAATATATAGTTTTAAAAACATTTTGAAAAT
842445 TATATAATATATAGTTTTAAAAAAAACATTTTAGAAAAT
1 TATATAATATATAGTTTT---AAAAACATTTT-GAAAAT
* *
842484 ATATATAATATATAATTTTTAAAATCATTTTGAAAACT
1 -TATATAATATAT-AGTTTTAAAAACATTTTGAAAA-T
*
842522 TATATATATATATAGGTTTTGAAAACATTTTTGAAAA-
1 TATATA-ATATATA-GTTTTAAAAACA-TTTTGAAAAT
* *
842559 CATAT-ATATTATAGTTTTGAAAACATTTTGAAAACATT
1 TATATAATA-TATAGTTTTAAAAACATTTTG-AAA-A-T
* * * **
842597 TATATATTATATAGTTTTTAAAACGTTTTTGGATATTT
1 TATATAATATATAGTTTTAAAAAC-ATTTT-GA-AAAT
* * * *
842635 TATATAATCCT-T-TTTTTGAAAACATGTTGAAAAAAT
1 TATATAAT-ATATAGTTTTAAAAACATTTTG--AAAAT
* *
842671 TCATATATTATATAG-TTTAAAAACATTTTGAAATT
1 T-ATATAATATATAGTTTTAAAAACATTTTGAAAAT
*
842706 TATATATTATAT-GTTTT
1 TATATAATATATAGTTTT
842723 TGAAAATATT
Statistics
Matches: 221, Mismatches: 30, Indels: 54
0.72 0.10 0.18
Matches are distributed among these distances:
33 1 0.00
34 37 0.17
35 24 0.11
36 12 0.05
37 49 0.22
38 57 0.26
39 22 0.10
40 14 0.06
41 5 0.02
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAAT
Found at i:842513 original size:38 final size:36
Alignment explanation
Indices: 842397--842747 Score: 209
Period size: 37 Copynumber: 9.5 Consensus size: 36
842387 ATATATACAT
* * *
842397 ATTTTGAAACTACGTATATAATATATAGTTTTTAATA-
1 ATTTTGAAAATA--TATATAATATATAGTTTTGAAAAC
* * *
842434 GTTTTTAAAAT-TATATAATATATAGTTTTAAAAAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTT---GAAAAC
* *
842472 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAGTTTTGAAAA-C
842510 ATTTTGAAAACT-TATATATATATATAGGTTTTGAAAAC
1 ATTTTGAAAA-TATATATA-ATATATA-GTTTTGAAAAC
*
842548 ATTTTTGAAAACATATAT-AT-TATAGTTTTGAAAAC
1 A-TTTTGAAAATATATATAATATATAGTTTTGAAAAC
* * *
842583 ATTTTGAAAACATTTATATATTATATAGTTTTTAAAAC
1 ATTTTG-AAA-ATATATATAATATATAGTTTTGAAAAC
* * * * * *
842621 GTTTTTGGATATTTTATATAATCCT-T-TTTTTGAAAAC
1 -ATTTT-GAAAATATATATAAT-ATATAGTTTTGAAAAC
* * * *
842658 ATGTTGAAAAAATTCATATATTATATAG-TTTAAAAAC
1 ATTTTGAAAATA-T-ATATAATATATAGTTTTGAAAAC
* * *
842695 ATTTTG-AAATTTATATATTATAT-GTTTTTGAAAAT
1 ATTTTGAAAATATATATAATATATAG-TTTTGAAAAC
* *
842730 ATTTATGTATATATATAT
1 ATTT-TGAAAATATATAT
842748 TATTTATTAT
Statistics
Matches: 247, Mismatches: 40, Indels: 54
0.72 0.12 0.16
Matches are distributed among these distances:
33 1 0.00
34 34 0.14
35 30 0.12
36 20 0.08
37 66 0.27
38 44 0.18
39 34 0.14
40 18 0.07
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATTTTGAAAATATATATAATATATAGTTTTGAAAAC
Found at i:842589 original size:11 final size:11
Alignment explanation
Indices: 842573--842597 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
842563 TATATTATAG
842573 TTTTGAAAACA
1 TTTTGAAAACA
842584 TTTTGAAAACA
1 TTTTGAAAACA
842595 TTT
1 TTT
842598 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:842740 original size:24 final size:24
Alignment explanation
Indices: 842696--842741 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
842686 TTTAAAAACA
*
842696 TTTTGAAATTTATATATTATATGT
1 TTTTGAAATATATATATTATATGT
*
842720 TTTTGAAA-ATATTTATGTATAT
1 TTTTGAAATATATATAT-TATAT
842742 ATATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTGAAATATATATATTATATGT
Found at i:842778 original size:15 final size:16
Alignment explanation
Indices: 842754--842789 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
842744 ATATTATTTA
842754 TTATTATTA-TTTATT
1 TTATTATTATTTTATT
*
842769 TTATTTTTATTTTATT
1 TTATTATTATTTTATT
842785 TTATT
1 TTATT
842790 GTTTTGGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTATTATTTTATT
Found at i:864856 original size:2 final size:2
Alignment explanation
Indices: 864849--864878 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
864839 AAAGATTGTC
864849 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
864879 TTTAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:865102 original size:40 final size:41
Alignment explanation
Indices: 865023--865105 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
865013 GGGCATGTTT
* ** *
865023 AAAATATTATTTTCTTTGTAATAATTTTAGTTCACAATAAA
1 AAAATATTATCTTAGTTATAATAATTTTAGTTCACAATAAA
*
865064 AAAATATTATCTTAGTTATAAT-ATTTTAGATT-ATAATAAA
1 AAAATATTATCTTAGTTATAATAATTTTAG-TTCACAATAAA
865104 AA
1 AA
865106 TATTATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 16 0.44
41 20 0.56
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (41 bp):
AAAATATTATCTTAGTTATAATAATTTTAGTTCACAATAAA
Found at i:865401 original size:20 final size:21
Alignment explanation
Indices: 865364--865402 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
865354 TTGAGGATAA
865364 TTTTAACTTAAAATATTATTT
1 TTTTAACTTAAAATATTATTT
*
865385 TTTTAATTTAAAA-ATTAT
1 TTTTAACTTAAAATATTAT
865403 ACAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAACTTAAAATATTATTT
Found at i:869859 original size:291 final size:293
Alignment explanation
Indices: 869297--869881 Score: 1124
Period size: 291 Copynumber: 2.0 Consensus size: 293
869287 ATAGTTTCAG
869297 TGGACTTATGACTAATCCGAATGCGAGAGAATGGCGAGACGACCAACATAGTTCAGTTTCAGGCC
1 TGGACTTATGACTAATCCGAATGCGAGAGAATGGCGAGACGACCAACATAGTTCAGTTTCAGGCC
869362 CATTGGATGGTTGCCCATAGAGATCGAAGGATGCAGAAATCGAAGAATCCATCGTCGCTCCGAAA
66 CATTGGATGGTTGCCCATAGAGATCGAAGGATGCAGAAATCGAAGAATCCATCGTCGCTCCGAAA
869427 TCGTGTTCAGAGGGTCGAAAGGGCACGGACTTAACGTTTGAGTTTCATCGGTCGACGAGTTGTGA
131 TCGTGTTCAGAGGGTCGAAAGGGCACGGACTTAACGTTTGAGTTTCATCGGTCGACGAGTTGTGA
869492 TGGTCGATCACTGTGATACGACGACCGACGAGCCTGTCCGTTAAATTTTTAATGACGGGATACTA
196 TGGTCGATCACTGTGATACGACGACCGACGAGCCTGTCCGTTAAATTTTTAATGACGGGATACTA
869557 AAATAAAAATAAAAACTG-A-ATTAGATATAAT
261 AAATAAAAATAAAAACTGAATATTAGATATAAT
869588 TGGACTTATGACTAATCCGAATGCGAGAGAATGGCGAGACGACCAACATAGTTCAGTTTCAGGCC
1 TGGACTTATGACTAATCCGAATGCGAGAGAATGGCGAGACGACCAACATAGTTCAGTTTCAGGCC
869653 CATTGGATGGTTGCCCATAGAGATCGAAGGATGCAGAAATCGAAGAATCCATCGTCGCTCCGAAA
66 CATTGGATGGTTGCCCATAGAGATCGAAGGATGCAGAAATCGAAGAATCCATCGTCGCTCCGAAA
869718 TCGTGTTCAGAGGGTCGAAAGGGCACGGACTTAAACGTTTGAGTTTCATCGGTCGACGAG-TGTG
131 TCGTGTTCAGAGGGTCGAAAGGGCACGGACTT-AACGTTTGAGTTTCATCGGTCGACGAGTTGTG
869782 ATGGTCGATCACTGTGAATACGACGACCGACGAGCCTGTCCGTTAAATTTTTAATGACGGGATAC
195 ATGGTCGATCACTGTG-ATACGACGACCGACGAGCCTGTCCGTTAAATTTTTAATGACGGGATAC
869847 TAAAAT-AAAATAAAAACTGAATATTAGATATAAT
259 TAAAATAAAAATAAAAACTGAATATTAGATATAAT
869881 T
1 T
869882 AAAAAAAATA
Statistics
Matches: 290, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
291 195 0.67
292 82 0.28
293 13 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (293 bp):
TGGACTTATGACTAATCCGAATGCGAGAGAATGGCGAGACGACCAACATAGTTCAGTTTCAGGCC
CATTGGATGGTTGCCCATAGAGATCGAAGGATGCAGAAATCGAAGAATCCATCGTCGCTCCGAAA
TCGTGTTCAGAGGGTCGAAAGGGCACGGACTTAACGTTTGAGTTTCATCGGTCGACGAGTTGTGA
TGGTCGATCACTGTGATACGACGACCGACGAGCCTGTCCGTTAAATTTTTAATGACGGGATACTA
AAATAAAAATAAAAACTGAATATTAGATATAAT
Found at i:870625 original size:36 final size:36
Alignment explanation
Indices: 870573--870691 Score: 220
Period size: 36 Copynumber: 3.3 Consensus size: 36
870563 CCAGAGTGGC
870573 TCCTCCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGT
1 TCCTCCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGT
*
870609 TCCTGCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGT
1 TCCTCCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGT
*
870645 TCCTCCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGC
1 TCCTCCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGT
870681 TCCTCCTCCTC
1 TCCTCCTCCTC
870692 GTTCTACACC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 80 1.00
ACGTcount: A:0.08, C:0.41, G:0.13, T:0.38
Consensus pattern (36 bp):
TCCTCCTCCTCCTTCCCAGTCTTCTAGGTTTCAGGT
Found at i:881886 original size:5 final size:5
Alignment explanation
Indices: 881876--881900 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
881866 ATTAATATTT
881876 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
881901 TTATTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:883106 original size:8 final size:7
Alignment explanation
Indices: 883092--883164 Score: 60
Period size: 7 Copynumber: 9.9 Consensus size: 7
883082 AATAAAATTA
883092 AATAAAT
1 AATAAAT
883099 ACATAAAT
1 A-ATAAAT
883107 AATAATAT
1 AATAA-AT
883115 AATTAAATAT
1 AA-T-AA-AT
883125 AATAAAT
1 AATAAAT
883132 -ATAAAAT
1 AAT-AAAT
883139 AATAAAT
1 AATAAAT
*
883146 -ATAGAT
1 AATAAAT
*
883152 AATATAT
1 AATAAAT
883159 AATAAA
1 AATAAA
883165 AAACTATATA
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
6 7 0.12
7 25 0.45
8 15 0.27
9 2 0.04
10 7 0.12
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:883166 original size:29 final size:32
Alignment explanation
Indices: 883092--883164 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
883082 AATAAAATTA
*
883092 AATAAATACATAAATAATAATATAATTAAATAT
1 AATAAATATA-AAATAATAATATAATTAAATAT
883125 AATAAATATAAAATAATAAATATAGA-TAATATAT
1 AATAAATATAAAATAAT-AATATA-ATTAA-ATAT
883159 AATAAA
1 AATAAA
883165 AAACTATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
32 7 0.19
33 18 0.50
34 11 0.31
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (32 bp):
AATAAATATAAAATAATAATATAATTAAATAT
Found at i:883229 original size:22 final size:21
Alignment explanation
Indices: 883187--883238 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
883177 ATATATTATA
883187 TTTTCAAAAACTACATAATAT
1 TTTTCAAAAACTACATAATAT
*
883208 GTTTTCAAAAACTAGA-ACATAT
1 -TTTTCAAAAACTACATA-ATAT
883230 TTTT-AAAAA
1 TTTTCAAAAA
883239 TTATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.18
21 5 0.18
22 18 0.64
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (21 bp):
TTTTCAAAAACTACATAATAT
Found at i:883331 original size:17 final size:19
Alignment explanation
Indices: 883291--883351 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
883281 CTATATATAT
*
883291 TATATGTTTTC-AAAACTA
1 TATATATTTTCAAAAACTA
*
883309 TATATATATTT-AAAAATTA
1 TATATAT-TTTCAAAAACTA
883328 TATATATTTTCAAAAACTA
1 TATATATTTTCAAAAACTA
883347 TATAT
1 TATAT
883352 TATATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.24
19 28 0.76
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (19 bp):
TATATATTTTCAAAAACTA
Found at i:883379 original size:46 final size:46
Alignment explanation
Indices: 883307--883416 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
883297 TTTTCAAAAC
* *
883307 TATATATATATTTAAA-AATTATATATATTTTCAAAAACTATAT-AT
1 TATATATATATTGAAATAATTATATATATATT-AAAAACTATATAAT
* * *
883352 TATATATATATTGAAATTATTTTATATATATTATAAACTATATAAT
1 TATATATATATTGAAATAATTATATATATATTAAAAACTATATAAT
* * *
883398 AATATAAATACTGAAATAA
1 TATATATATATTGAAATAA
883417 AAATTTTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
45 25 0.46
46 29 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (46 bp):
TATATATATATTGAAATAATTATATATATATTAAAAACTATATAAT
Found at i:907809 original size:21 final size:21
Alignment explanation
Indices: 907775--907816 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
907765 ACCATACCCT
* *
907775 AACTTAAAATCTAAATTATAA
1 AACTTAAAACCTAAATCATAA
*
907796 AACTTAAACCCTAAATCATAA
1 AACTTAAAACCTAAATCATAA
907817 CTTCAAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (21 bp):
AACTTAAAACCTAAATCATAA
Found at i:909543 original size:2 final size:2
Alignment explanation
Indices: 909538--909586 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
909528 ACACACACAC
909538 AT AT AT AT AT 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 AT AT AT AT AT
909580 AT AT AT A
1 AT AT AT A
909587 CTTCTGATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:910131 original size:2 final size:2
Alignment explanation
Indices: 910126--910150 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
910116 TCTCTCCAAG
910126 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
910151 ACCCCAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:912281 original size:2 final size:2
Alignment explanation
Indices: 912268--912299 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
912258 TTAATCTTAA
*
912268 AT AT AA 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
912300 TAATCCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:918163 original size:21 final size:20
Alignment explanation
Indices: 918139--918205 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
918129 ATTCGCATTA
918139 CGATAGTCCAAGTTCGTGTTG
1 CGATAGTCCAAGTTCG-GTTG
*
918160 CGATTTATTCCAAGTTC-GTTG
1 CGA--TAGTCCAAGTTCGGTTG
* *
918181 TGATAGTCGAAGTTCGCGTTG
1 CGATAGTCCAAGTTCG-GTTG
918202 CGAT
1 CGAT
918206 TTATTTAGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 10 0.27
21 16 0.43
23 11 0.30
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGATAGTCCAAGTTCGGTTG
Found at i:918222 original size:27 final size:27
Alignment explanation
Indices: 918184--918237 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
918174 TTCGTTGTGA
918184 TAGTCGAAGTTCGCGTTGCGATTTATT
1 TAGTCGAAGTTCGCGTTGCGATTTATT
918211 TAGTCGAAGTTCGCGTTGCGATTTATT
1 TAGTCGAAGTTCGCGTTGCGATTTATT
918238 CCAAGATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.41
Consensus pattern (27 bp):
TAGTCGAAGTTCGCGTTGCGATTTATT
Found at i:918257 original size:39 final size:39
Alignment explanation
Indices: 918203--918323 Score: 172
Period size: 39 Copynumber: 3.0 Consensus size: 39
918193 TTCGCGTTGC
918203 GATTTATTTAGTCGAAGTTCGCGTTGCGATTTATTCCAA
1 GATTTATTTAGTCGAAGTTCGCGTTGCGATTTATTCCAA
*
918242 GATTTATTTAGTCGAAGTTCGCGTTGCGATTTATTACAA
1 GATTTATTTAGTCGAAGTTCGCGTTGCGATTTATTCCAA
**
918281 -ATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAA
1 GATTTATT----TAGTCGAAGTTCGCGTTGCGATTTATTCCAA
918323 G
1 G
918324 TTCGTTGCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
38 5 0.07
39 38 0.52
42 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (39 bp):
GATTTATTTAGTCGAAGTTCGCGTTGCGATTTATTCCAA
Found at i:918289 original size:21 final size:20
Alignment explanation
Indices: 918263--918334 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
918253 TCGAAGTTCG
*
918263 CGTTGCGATTTATTACAAATT
1 CGTTGCGATTTATT-CAAGTT
*
918284 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTC-AAGTT
918303 CGCGTTGCGATTTATTCCAAGTT
1 --CGTTGCGATTTATT-CAAGTT
918326 CGTTGCGAT
1 CGTTGCGAT
918335 AGTCCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 1 0.02
19 7 0.17
21 25 0.60
23 8 0.19
24 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTATTCAAGTT
Found at i:918309 original size:42 final size:42
Alignment explanation
Indices: 918211--918338 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
918201 GCGATTTATT
**
918211 TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGATTTATT----
1 TAGTCGAAGTTCGCGTTGCGATTTATTCCAA-ATTCGTTGCGA
*
918250 TAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTGCGA
1 TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA
*
918292 TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA
1 TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA
918334 TAGTC
1 TAGTC
918339 CAAAATCGCA
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
38 5 0.06
39 30 0.38
42 45 0.56
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (42 bp):
TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA
Found at i:918781 original size:12 final size:12
Alignment explanation
Indices: 918764--918789 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
918754 AGTTGTAGAG
918764 GGCAGTGACAGT
1 GGCAGTGACAGT
918776 GGCAGTGACAGT
1 GGCAGTGACAGT
918788 GG
1 GG
918790 TGGATCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.46, T:0.15
Consensus pattern (12 bp):
GGCAGTGACAGT
Found at i:923118 original size:15 final size:15
Alignment explanation
Indices: 923098--923127 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
923088 GACCTAACCT
923098 TGCTCAAACAGAGAG
1 TGCTCAAACAGAGAG
923113 TGCTCAAACAGAGAG
1 TGCTCAAACAGAGAG
923128 AATGAACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
TGCTCAAACAGAGAG
Found at i:923142 original size:21 final size:21
Alignment explanation
Indices: 923116--923157 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
923106 CAGAGAGTGC
923116 TCAAACAGAGAGAATGAACGT
1 TCAAACAGAGAGAATGAACGT
923137 TCAAACAGAGAGAATGAACGT
1 TCAAACAGAGAGAATGAACGT
923158 GTTGCATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.24, T:0.14
Consensus pattern (21 bp):
TCAAACAGAGAGAATGAACGT
Found at i:923220 original size:29 final size:29
Alignment explanation
Indices: 923188--923271 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
923178 CCCAACACAT
*
923188 AGGTCGGCATGCCCTCCGGGCGACCTTGC
1 AGGTCGCCATGCCCTCCGGGCGACCTTGC
* *
923217 AGGTCGTCATGCCCTCCGGGCGACCTTGT
1 AGGTCGCCATGCCCTCCGGGCGACCTTGC
*
923246 AGGTCGCCATGCACTCCGGGCGACCT
1 AGGTCGCCATGCCCTCCGGGCGACCT
923272 ACCCTCGCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.12, C:0.37, G:0.32, T:0.19
Consensus pattern (29 bp):
AGGTCGCCATGCCCTCCGGGCGACCTTGC
Found at i:923316 original size:33 final size:33
Alignment explanation
Indices: 923275--923359 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
923265 GCGACCTACC
*
923275 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
923308 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * * *
923341 TTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
923360 TCGGATGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.04
33 44 0.96
ACGTcount: A:0.08, C:0.38, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:923365 original size:14 final size:14
Alignment explanation
Indices: 923346--923373 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
923336 CATAGTTCGT
923346 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
923360 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
923374 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:923453 original size:29 final size:29
Alignment explanation
Indices: 923416--923473 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
923406 GCAATCTCTT
*
923416 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
923445 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
923474 CGACAACACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:926337 original size:21 final size:21
Alignment explanation
Indices: 926311--926351 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
926301 TCTCCCCCCA
926311 AAAAAAAAGGAAAAGGAAAAG
1 AAAAAAAAGGAAAAGGAAAAG
*
926332 AAAAAAAAGGAAAGGGAAAA
1 AAAAAAAAGGAAAAGGAAAA
926352 ACGCCTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGGAAAAGGAAAAG
Found at i:943187 original size:60 final size:61
Alignment explanation
Indices: 943117--943246 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
943107 AAAGCGTAAA
943117 TTACACAAATGATCCCTTAACTATAGGAT-ACTACTTTATT-AAGCCTTTTGACTATTAAAAG
1 TTACA-AAATGATCCCTTAACTATAGGATGAC-ACTTTATTGAAGCCTTTTGACTATTAAAAG
* * * * * * *
943178 TTACAAAATGATCCTTTGACTATCGGATGACGCTTTGTTGAATCCTTTTGATTATTAAAAG
1 TTACAAAATGATCCCTTAACTATAGGATGACACTTTATTGAAGCCTTTTGACTATTAAAAG
*
943239 TTATAAAA
1 TTACAAAA
943247 CCGTCACCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 26 0.44
61 33 0.56
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (61 bp):
TTACAAAATGATCCCTTAACTATAGGATGACACTTTATTGAAGCCTTTTGACTATTAAAAG
Found at i:947907 original size:46 final size:46
Alignment explanation
Indices: 947853--947941 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
947843 AGTAGAGCGC
*
947853 TACCTAAAATGTTATTTTTTCTATCGA-AAATATTAATATCGGATAT
1 TACCTAAAATATTATTTTTTCTA-CGATAAATATTAATATCGGATAT
* *
947899 TACCTAAAATATTATTTTTTCTACTATAAATGTTAATATCGGA
1 TACCTAAAATATTATTTTTTCTACGATAAATATTAATATCGGA
947942 AAGATTCCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 2 0.05
46 37 0.95
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (46 bp):
TACCTAAAATATTATTTTTTCTACGATAAATATTAATATCGGATAT
Found at i:952643 original size:22 final size:21
Alignment explanation
Indices: 952617--952656 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
952607 TTAAATTTTA
*
952617 AAAAAATAAAATATTTTTAGT
1 AAAAAATAAAAAATTTTTAGT
952638 AAAAAATAAAAAATTTTTA
1 AAAAAATAAAAAATTTTTA
952657 AAATTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAATAAAAAATTTTTAGT
Found at i:952665 original size:20 final size:19
Alignment explanation
Indices: 952612--952659 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
952602 TATTTTTAAA
*
952612 TTTTAAAAAAATAAAATAT
1 TTTTAAAAAAATAAAAAAT
952631 TTTTAGTAAAAAATAAAAAAT
1 TTTTA--AAAAAATAAAAAAT
952652 TTTTAAAA
1 TTTTAAAA
952660 TTAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
21 18 0.69
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTTAAAAAAATAAAAAAT
Found at i:963770 original size:29 final size:29
Alignment explanation
Indices: 963716--963771 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
963706 TGTTTTCGCC
* * *
963716 TCCCCTAAAATTTTATAAGTTTAAGTTTG
1 TCCCCTAAAATTTTAAAAATTCAAGTTTG
963745 TCCCCTAAAATTTTAAAAATTCAAGTT
1 TCCCCTAAAATTTTAAAAATTCAAGTT
963772 CATCCCAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (29 bp):
TCCCCTAAAATTTTAAAAATTCAAGTTTG
Found at i:973089 original size:22 final size:23
Alignment explanation
Indices: 973047--973089 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
973037 TTAAATTATA
*
973047 AAAATAAAATATTATTTTAAAAT
1 AAAATAAAATATTATTATAAAAT
*
973070 AAAATGAAA-ATTATTATAAA
1 AAAATAAAATATTATTATAAA
973090 GCTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATAAAATATTATTATAAAAT
Found at i:975600 original size:31 final size:31
Alignment explanation
Indices: 975536--975608 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
975526 AGTAACGAGC
** *
975536 TTAACGAGCACAAATCGAACAACAAGTTTTT
1 TTAACGAGCACAAATCGAACAACAAAATCTT
* * *
975567 TTAATGAGCACAAGTTGAACAACAAAATCTT
1 TTAACGAGCACAAATCGAACAACAAAATCTT
975598 TTAACGAGCAC
1 TTAACGAGCAC
975609 GAGTCGAGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (31 bp):
TTAACGAGCACAAATCGAACAACAAAATCTT
Found at i:980726 original size:331 final size:332
Alignment explanation
Indices: 979573--980900 Score: 2631
Period size: 332 Copynumber: 4.0 Consensus size: 332
979563 CAAACACTAT
979573 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
1 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
979638 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
66 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
979703 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
131 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
979768 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
196 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
979833 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
261 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
979898 GAGTTGA
326 GAGTTGA
979905 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
1 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
979970 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
66 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
980035 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
131 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
980100 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
196 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
980165 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
261 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
980230 GAGTTGA
326 GAGTTGA
980237 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
1 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
980302 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
66 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
980367 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
131 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
*
980432 TATACTATTAACACCGACTATTA-CTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
196 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
980496 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
261 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
980561 GAGTTGA
326 GAGTTGA
980568 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
1 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
980633 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
66 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
*
980698 AAGAGAGGCTTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
131 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
980763 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
196 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
980828 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
261 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
980893 GAGTTGA
326 GAGTTGA
980900 A
1 A
980901 GAGAGAATGG
Statistics
Matches: 992, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
331 329 0.33
332 663 0.67
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (332 bp):
AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
GAGTTGA
Found at i:980840 original size:663 final size:664
Alignment explanation
Indices: 979573--980900 Score: 2631
Period size: 663 Copynumber: 2.0 Consensus size: 664
979563 CAAACACTAT
979573 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
1 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
979638 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
66 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
979703 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
131 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
*
979768 TATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
196 TATACTATTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
979833 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
261 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
979898 GAGTTGAAAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGAT
326 GAGTTGAAAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGAT
979963 TGTCCTAAACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGG
391 TGTCCTAAACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGG
980028 AAAAATAAAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGA
456 AAAAATAAAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGA
980093 GTCCCACTATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATA
521 GTCCCACTATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATA
980158 AATAGATTAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGAT
586 AATAGATTAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGAT
980223 TCATAGTGAGTTGA
651 TCATAGTGAGTTGA
980237 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
1 AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
980302 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
66 AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
980367 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
131 AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
980432 TATACTATTAACACCGACTATTA-CTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
196 TATACTATTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
980496 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
261 TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
980561 GAGTTGAAAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGAT
326 GAGTTGAAAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGAT
980626 TGTCCTAAACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGG
391 TGTCCTAAACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGG
*
980691 AAAAATAAAGAGAGGCTTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGA
456 AAAAATAAAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGA
980756 GTCCCACTATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATA
521 GTCCCACTATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATA
980821 AATAGATTAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGAT
586 AATAGATTAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGAT
980886 TCATAGTGAGTTGA
651 TCATAGTGAGTTGA
980900 A
1 A
980901 GAGAGAATGG
Statistics
Matches: 662, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
663 445 0.67
664 217 0.33
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (664 bp):
AAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGATTGTCCTA
AACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGGAAAAATA
AAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGAGTCCCAC
TATACTATTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATAAATAGAT
TAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGATTCATAGT
GAGTTGAAAATGAAAAGATCACCCACGATTATGCCATGAGCCCCACGGTAGTAGCTACTAGTGAT
TGTCCTAAACCGTTCTTGTCCAGCAGTGTCCCACTATACATTCAACCAAACAGTAAACTAACTGG
AAAAATAAAGAGAGGCCTTTAACGTTCTTGTCCAGCAGTGTCCTAAACCGTTCTTGTCCAGCAGA
GTCCCACTATACTTTTAACACCGACTATTACCTATACACACAAAATTTAGGCCTTTTAACGAATA
AATAGATTAAGGCTTAATCTGAACAGCATGGCATACAAATAAAGAGAGAACATACTATTCAGGAT
TCATAGTGAGTTGA
Found at i:986847 original size:16 final size:16
Alignment explanation
Indices: 986826--986859 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
986816 TGGGTGATGC
986826 GTATCCCTCCAGAAGA
1 GTATCCCTCCAGAAGA
986842 GTATCCCTCCAGAAGA
1 GTATCCCTCCAGAAGA
986858 GT
1 GT
986860 CGAGTTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (16 bp):
GTATCCCTCCAGAAGA
Found at i:987594 original size:28 final size:28
Alignment explanation
Indices: 987554--987610 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
987544 GTTTTGCAGC
987554 AATCATTTCTGCAGGGCATAGAGAATGA
1 AATCATTTCTGCAGGGCATAGAGAATGA
987582 AATCATTTCTGCAGGGCATAGAGAATGA
1 AATCATTTCTGCAGGGCATAGAGAATGA
987610 A
1 A
987611 GGTATTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (28 bp):
AATCATTTCTGCAGGGCATAGAGAATGA
Found at i:991267 original size:32 final size:32
Alignment explanation
Indices: 991225--991298 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
991215 AAAAGTGTTT
*
991225 TTGCCTTATTTTAACCCC-AAAAAAAATAGAG
1 TTGCCCTATTTTAACCCCAAAAAAAAATAGAG
991256 TGTGCCCTATTTTAACCCCAAAAAAAAATAGAG
1 T-TGCCCTATTTTAACCCCAAAAAAAAATAGAG
*
991289 TTACCCTATT
1 TTGCCCTATT
991299 GTGCCAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 1 0.03
32 24 0.62
33 14 0.36
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (32 bp):
TTGCCCTATTTTAACCCCAAAAAAAAATAGAG
Found at i:992614 original size:20 final size:20
Alignment explanation
Indices: 992565--992757 Score: 117
Period size: 20 Copynumber: 9.6 Consensus size: 20
992555 ATTTTCCCAG
*
992565 AATCGCAACGCG-AA-TATGA
1 AATCGCAACGCGTAACCAT-A
992584 AATCGCAAACGCG-AACACATA
1 AATCGC-AACGCGTAAC-CATA
* *
992605 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTAACCATA
* * *
992625 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTAACCATA
* **
992645 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGTAACCATA
* * * *
992665 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGTAACCATA
* * *
992685 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTAACCATA
* *
992705 AATCGCAACGAC--AATACGTAA
1 AATCGCAACG-CGTAA-CCAT-A
* *
992726 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTAACCATA
992746 AATCGCAACGCG
1 AATCGCAACGCG
992758 ATTTTTAAAG
Statistics
Matches: 148, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.05
20 114 0.77
21 24 0.16
22 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTAACCATA
Found at i:992647 original size:40 final size:40
Alignment explanation
Indices: 992603--992755 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
992593 CGCGAACACA
992603 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCG
* *
992643 TAAATCGCAACGCGTATCTGTAAATCGCAATGTGTATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCG
* *** *
992683 TATATCGCAACGCGTATCCGTAAATCGCAACGACAATACG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCG
992723 TAAAATCGCAACGCGTATCCGTAAATCGCAACG
1 T-AAATCGCAACGCGTATCCGTAAATCGCAACG
992756 CGATTTTTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 72 0.71
41 30 0.29
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCG
Found at i:992655 original size:60 final size:60
Alignment explanation
Indices: 992565--992757 Score: 230
Period size: 60 Copynumber: 3.2 Consensus size: 60
992555 ATTTTCCCAG
* ** *
992565 AATCGCAACGCGAATATG-AAATCGCAAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGC-AACGCGAACACGTAAATCGCAACGCGTATCCGTA
* * * * *
992625 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-TGTAAATCGCAATGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACGTAAATCGCAACGCGTATCCGTA
* *
992685 TATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAACACGT-AAATCGCAACGCGTATCCGTA
992746 AATCGCAACGCG
1 AATCGCAACGCG
992758 ATTTTTAAAG
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
59 1 0.01
60 70 0.63
61 40 0.36
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
Found at i:993177 original size:18 final size:18
Alignment explanation
Indices: 993128--993177 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
993118 ATTTCACTTA
*
993128 GATTTCATTTCGCGTTAC
1 GATTTCATTTCGCGTTGC
*
993146 GA-TTC---TCTCGTTGC
1 GATTTCATTTCGCGTTGC
993160 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
993178 TATTCTCGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
17 3 0.12
18 10 0.40
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:993187 original size:30 final size:32
Alignment explanation
Indices: 993128--993196 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
993118 ATTTCACTTA
993128 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
* *
993160 GATTTCATTTCGCGTTGCTA-T-TCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
*
993190 GTTTTCA
1 GATTTCA
993197 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 15 0.44
31 1 0.03
32 18 0.53
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCGTTGC
Found at i:993342 original size:19 final size:19
Alignment explanation
Indices: 993276--993361 Score: 91
Period size: 19 Copynumber: 4.3 Consensus size: 19
993266 TGCAGAAGAG
993276 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGA-A-AAATGAAAA
* **
993297 TCGCAACGTGAAAATGACTA
1 TCGCAACG-AAAAATGAAAA
993317 TCTGCAACGAAAAATGAAAA
1 TC-GCAACGAAAAATGAAAA
**
993337 TCGCAACGCGAAATGAAAA
1 TCGCAACGAAAAATGAAAA
993356 TCGCAA
1 TCGCAA
993362 ACGAGAGAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
19 21 0.38
20 19 0.35
21 15 0.27
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
TCGCAACGAAAAATGAAAA
Found at i:993412 original size:19 final size:19
Alignment explanation
Indices: 993390--993504 Score: 96
Period size: 20 Copynumber: 6.1 Consensus size: 19
993380 GAAACCAAAA
*
993390 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
993409 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
993423 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
993442 TCGCGTTGCGATTTTTCATTT
1 TCGCGTTGCGA-TTTTCA-TT
* ***
993463 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
993483 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
993503 TC
1 TC
993505 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 22 0.28
20 25 0.32
21 5 0.06
22 10 0.13
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:993482 original size:41 final size:41
Alignment explanation
Indices: 993420--993504 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
993410 CGCGTTGCGA
***
993420 TTCTCTCGTTGCGATTTTCATT-TCGCGTTGCGATTTTTCAT
1 TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGA-TTTTCAT
*
993461 TTCTCTCGTTGCGACAGTCATTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
993502 TTC
1 TTC
993505 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 29 0.74
42 10 0.26
ACGTcount: A:0.11, C:0.25, G:0.16, T:0.48
Consensus pattern (41 bp):
TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
Found at i:993501 original size:20 final size:20
Alignment explanation
Indices: 993419--993502 Score: 107
Period size: 20 Copynumber: 4.2 Consensus size: 20
993409 TCGCGTTGCG
993419 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
993439 ATT-TCGCGTTGCGATTTTTC
1 ATTCTCTCGTTGCGA-TTTTC
***
993459 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
993480 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
993500 ATT
1 ATT
993503 TCAACCAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
19 10 0.19
20 28 0.53
21 5 0.09
22 10 0.19
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.48
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:995422 original size:14 final size:14
Alignment explanation
Indices: 995403--995438 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
995393 ATTGTTTAAT
995403 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
995417 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
995431 TGATTTGT
1 TGATTTGT
995439 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:995561 original size:19 final size:19
Alignment explanation
Indices: 995545--995641 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
995535 AAAAATGACT
995545 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
995564 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
995583 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
995597 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
995616 ATCGCAATGC-ATAATGAAA
1 ATCGCAATGCGA-AATGAAA
995635 ATCGCAA
1 ATCGCAA
995642 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 53 0.76
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:995673 original size:52 final size:52
Alignment explanation
Indices: 995545--995660 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
995535 AAAAATGACT
995545 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
995597 ATCGCAATGCGAAATGAAAATCGCAATGC-ATAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGA-AATGAAAATCGCAACGAGAGA
*
995649 ATCGTAATGCGA
1 ATCGCAATGCGA
995661 TTTTCATTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 1 0.02
52 61 0.98
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:995732 original size:33 final size:33
Alignment explanation
Indices: 995674--995840 Score: 160
Period size: 33 Copynumber: 4.8 Consensus size: 33
995664 TCATTTCGCA
995674 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
995708 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG
* * * * *
995745 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
995780 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
995814 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
995841 TTCATTTCCG
Statistics
Matches: 108, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
31 4 0.04
32 6 0.06
33 34 0.31
34 33 0.31
35 4 0.04
36 3 0.03
37 2 0.02
38 2 0.02
39 8 0.07
40 3 0.03
41 9 0.08
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:995913 original size:72 final size:71
Alignment explanation
Indices: 995656--995965 Score: 320
Period size: 72 Copynumber: 4.4 Consensus size: 71
995646 AGAATCGTAA
* * *
995656 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTC-GTTGCG-ATTTTC
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCCGCA-TTGC
* *
995719 -ATTTCGCAT
62 GATTTCTCGT
*
995728 TGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT-CGCATTGCGAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGAT
*
995787 TT-TCATT
65 TTCTC-GT
* * * *
995794 TCCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
995858 ATTCTCTCGT
63 ATT-TCTCGT
995868 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
995933 T-TCATGT
66 TCTC--GT
*
995940 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
995966 CTCTCGTTGC
Statistics
Matches: 203, Mismatches: 16, Indels: 38
0.79 0.06 0.15
Matches are distributed among these distances:
65 8 0.04
66 15 0.07
67 20 0.10
68 1 0.00
69 5 0.02
70 8 0.04
71 4 0.02
72 106 0.52
73 26 0.13
74 8 0.04
75 2 0.01
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (71 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
TCTCGT
Found at i:995994 original size:53 final size:53
Alignment explanation
Indices: 995656--995979 Score: 527
Period size: 53 Copynumber: 6.1 Consensus size: 53
995646 AGAATCGTAA
995656 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
995709 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
995762 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
995815 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
995868 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCT-CG--T
*
995926 TGCGATTTTCA--T-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
995973 TGCGATT
1 TGCGATT
995980 GTAATTTCCG
Statistics
Matches: 262, Mismatches: 3, Indels: 18
0.93 0.01 0.06
Matches are distributed among these distances:
47 8 0.03
49 2 0.01
50 2 0.01
51 3 0.01
52 10 0.04
53 216 0.82
54 3 0.01
55 3 0.01
56 3 0.01
58 12 0.05
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:999218 original size:20 final size:20
Alignment explanation
Indices: 999190--999418 Score: 226
Period size: 20 Copynumber: 11.4 Consensus size: 20
999180 AAATTTTAGT
* * *
999190 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
999210 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
999230 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
999250 GTTGCGATTTACGAATTATC
1 GTTGCGATTTACGGATTCGC
*
999270 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
999290 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
999310 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
999330 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
999350 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
999370 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
999390 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
999410 GTTGCGATT
1 GTTGCGATT
999419 CTGGAAAATC
Statistics
Matches: 179, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1002379 original size:21 final size:21
Alignment explanation
Indices: 1002344--1002385 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
1002334 TAAAGGAACT
1002344 AATTATATATGTTTTCTATTTAA
1 AATTATATA-GTTTT-TATTTAA
1002367 AATTATATA-TTTTTATTTA
1 AATTATATAGTTTTTATTTA
1002386 TTTGTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
23 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTATATAGTTTTTATTTAA
Found at i:1002575 original size:15 final size:15
Alignment explanation
Indices: 1002555--1002585 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1002545 ATTTTATTTA
1002555 AATTTAAACTAATAG
1 AATTTAAACTAATAG
*
1002570 AATTTAAATTAATAG
1 AATTTAAACTAATAG
1002585 A
1 A
1002586 CTAAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
AATTTAAACTAATAG
Found at i:1007581 original size:25 final size:25
Alignment explanation
Indices: 1007553--1007603 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1007543 ATACTATTTT
*
1007553 TATTATCATATAAAATATAAAAATA
1 TATTAACATATAAAATATAAAAATA
* * *
1007578 TATTAAGATATTAAATATAATAATA
1 TATTAACATATAAAATATAAAAATA
1007603 T
1 T
1007604 CAATTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TATTAACATATAAAATATAAAAATA
Found at i:1013717 original size:183 final size:183
Alignment explanation
Indices: 1013399--1013768 Score: 514
Period size: 183 Copynumber: 2.0 Consensus size: 183
1013389 CTTCATTTGT
* *
1013399 GAACCAAACGATTCACTTGATCCATTGTCATATCCTTCATAGGTGACATTACTATGAACTCCCTC
1 GAACCAAACGATTCACTTGATCCATTGTCAAATCCTTCATAGGTGACATTACGATGAACTCCCTC
* * *
1013464 TCTCATTCTCCCTGATCTTGAACACGGAGGAACCAGGGAACCTAAAACATCACTCTCATCAAATT
66 TCTCATTCTACATGATCTTGAACACGGAGGAACCAGGGAACCTAAAACATCACTCTCATCAAACT
* *
1013529 TCTCCAAATTTTCAGAACCTAAATCACCAAATGCC-CTACCTCTACTCTTATTA
131 TCTCCAAATTTTCAGAACCCAAATCACCAAAT-CCTCTACCTCCACTCTTATTA
* *
1013582 GAACCAGAA-GATTCACTTGATCCATTGTCAAATCCTTCATATGTGACATTACGATGAACTCTCT
1 GAACCA-AACGATTCACTTGATCCATTGTCAAATCCTTCATAGGTGACATTACGATGAACTCCCT
* * * * * ** *
1013646 CTTTCATTCTTACAT-ATCTTGAGCGCTGAGGGA-TTGAGGAACCTAAAACATCACTCTCATTAA
65 CTCTCATTC-TACATGATCTTGAACACGGAGGAACCAG-GGAACCTAAAACATCACTCTCATCAA
*
1013709 ACTTCTCCAAATTTTCAGAACCCAAATTACCAAATCCTCTACCTCCACTCTTATTA
128 ACTTCTCCAAATTTTCAGAACCCAAATCACCAAATCCTCTACCTCCACTCTTATTA
1013765 GAAC
1 GAAC
1013769 TATCCGACGA
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
182 3 0.02
183 157 0.95
184 5 0.03
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (183 bp):
GAACCAAACGATTCACTTGATCCATTGTCAAATCCTTCATAGGTGACATTACGATGAACTCCCTC
TCTCATTCTACATGATCTTGAACACGGAGGAACCAGGGAACCTAAAACATCACTCTCATCAAACT
TCTCCAAATTTTCAGAACCCAAATCACCAAATCCTCTACCTCCACTCTTATTA
Found at i:1014080 original size:210 final size:209
Alignment explanation
Indices: 1013581--1014085 Score: 597
Period size: 210 Copynumber: 2.4 Consensus size: 209
1013571 TACTCTTATT
*
1013581 AGAACCAGAAGATTCACTTGATCCATTGTCAAATCCTTCATATGTGACATTACGATGAACTCTCT
1 AGAACCAGAAGATTCACTTGATCCATTGT-AAATCCTTCATATGTGACATTACTATGAACTCTCT
* * * ** * *
1013646 CTTTCATTCTTACATATCTTGAGCGCTGAGGGATTGAGGAACCTAAAACATCACTCTCATTAAAC
65 CTCTCATTCTTCCAGATCTCAAACGCTGAGGAATTGAGGAACCTAAAACATCACTCTCATTAAAC
* *
1013711 TTCTCCAAATTTTCAGAACCCAAATTACCAAATCCTCTACCTCCACTCTTATTAGAACTATCCGA
130 TTCTCCAAATTTTCAGAACCCAAATCACCAAATCCTCTACCTCCACTCTTATTAGAACTAGCCGA
*
1013776 CGAATCCTTCATTTG
195 CGAATCATTCATTTG
* * * * * *
1013791 TGAACCTGAAGATTCACTTGATCCATGGCTATATCCTTCATATGTGACATTACTGTGAACTCTCA
1 AGAACCAGAAGATTCACTTGATCCATTG-TAAATCCTTCATATGTGACATTACTATGAACTCTCT
* *
1013856 CTCTCGTTCTTCCAGATCTCAAACGCTGA-GAATTTGAGGAACCTAAAACATCAGC-CTCATTAG
65 CTCTCATTCTTCCAGATCTCAAACGCTGAGGAA-TTGAGGAACCTAAAACATCA-CTCTCATTAA
* * * * *
1013919 A-TATCTCCAAATTTTCCGAGCCCAAATCA-TATAATCC-CTTACCTCTACTCTTATTGGAACTA
128 ACT-TCTCCAAATTTTCAGAACCCAAATCACCA-AATCCTC-TACCTCCACTCTTATTAGAACTA
*
1013981 GCTGACGAATCATTCATTTG
190 GCCGACGAATCATTCATTTG
* * * * *
1014001 AGAACCAGAAGATTCACTTGAGCAATTGTAGGATCCTTGATACGTGACATTACTATGAACTCTCT
1 AGAACCAGAAGATTCACTTGATCCATTGTA-AATCCTTCATATGTGACATTACTATGAACTCTCT
* * * *
1014066 CACCCCTCCTTCCAGATCTC
65 CTCTCATTCTTCCAGATCTC
1014086 GGCGTCCGAG
Statistics
Matches: 249, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
209 7 0.03
210 240 0.96
211 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (209 bp):
AGAACCAGAAGATTCACTTGATCCATTGTAAATCCTTCATATGTGACATTACTATGAACTCTCTC
TCTCATTCTTCCAGATCTCAAACGCTGAGGAATTGAGGAACCTAAAACATCACTCTCATTAAACT
TCTCCAAATTTTCAGAACCCAAATCACCAAATCCTCTACCTCCACTCTTATTAGAACTAGCCGAC
GAATCATTCATTTG
Found at i:1014115 original size:210 final size:210
Alignment explanation
Indices: 1013681--1014224 Score: 494
Period size: 210 Copynumber: 2.6 Consensus size: 210
1013671 CTGAGGGATT
* *
1013681 GAGGAACCTAAAACATCACTCTCATTAAACTTCTCCAAATTTTCAGAACCCAAATTACCAAATCC
1 GAGGAACCTAAAACATCACACTCATTAAACTTCTCCAAATTTTCAGAACCCAAATCACCAAATCC
* * * *
1013746 TCTACCTCCACTCTTATTAGAACTATCCGACGAATCCTTCATTTGTGAACCTGAAGATTCACTTG
66 TCTACCTCCACTCTTATTAGAACTAGCCGACGAATCATTCATTTGAGAACCAGAAGATTCACTTG
* * * * * * * * *
1013811 ATCCATGGCTATATCCTTCATATGTGACATTACTGTGAACTCTCACTCTCGTTCTTCCAGATCTC
131 AGCAATGGCTAGATCCTTCATACGTGACATTACTATGAACTCTCACACCCCTCCTTCCAGATCTC
* *
1013876 AAACGCTGAGAATTT
196 AAACGCCGAGAATTC
* * * *
1013891 GAGGAACCTAAAACATCAGC-CTCATTAGA-TATCTCCAAATTTTCCGAGCCCAAATCA-TATAA
1 GAGGAACCTAAAACATCA-CACTCATTAAACT-TCTCCAAATTTTCAGAACCCAAATCACCA-AA
* * *
1013953 TCC-CTTACCTCTACTCTTATTGGAACTAGCTGACGAATCATTCATTTGAGAACCAGAAGATTCA
63 TCCTC-TACCTCCACTCTTATTAGAACTAGCCGACGAATCATTCATTTGAGAACCAGAAGATTCA
* * *
1014017 CTTGAGCAATTG-TAGGATCCTTGATACGTGACATTACTATGAACTCTCTCACCCCTCCTTCCAG
127 CTTGAGCAATGGCTA-GATCCTTCATACGTGACATTACTATGAACTCTCACACCCCTCCTTCCAG
**
1014081 ATCTC-GGCGTCCGAGTAA-TC
191 ATCTCAAACG-CCGAG-AATTC
** * * * * * *
1014101 G-GGAAATGTAAAACATCACACTCATTTAACTTCCCATTCAAATTTTCAGAAGCAAAACCACTAA
1 GAGG-AACCTAAAACATCACACTCATTAAACTT--C-TCCAAATTTTCAGAACCCAAATCACCAA
* * * * * * * * * *
1014165 ATCCCCTATCTCTACACTCATTAGAACCTTG-TGACGAATCCTTCATATGTGAACCAGAAG
62 ATCCTCTACCTCCACTCTTATTAGAA-CTAGCCGACGAATCATTCATTTGAGAACCAGAAG
1014225 GTTTGCTTGA
Statistics
Matches: 272, Mismatches: 46, Indels: 29
0.78 0.13 0.08
Matches are distributed among these distances:
209 10 0.04
210 186 0.68
211 4 0.01
212 1 0.00
213 65 0.24
214 6 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (210 bp):
GAGGAACCTAAAACATCACACTCATTAAACTTCTCCAAATTTTCAGAACCCAAATCACCAAATCC
TCTACCTCCACTCTTATTAGAACTAGCCGACGAATCATTCATTTGAGAACCAGAAGATTCACTTG
AGCAATGGCTAGATCCTTCATACGTGACATTACTATGAACTCTCACACCCCTCCTTCCAGATCTC
AAACGCCGAGAATTC
Found at i:1023694 original size:14 final size:14
Alignment explanation
Indices: 1023675--1023701 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1023665 CTCAATTAAT
1023675 TTTATGTTCGTTTG
1 TTTATGTTCGTTTG
1023689 TTTATGTTCGTTT
1 TTTATGTTCGTTT
1023702 ACGTTCGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.19, T:0.67
Consensus pattern (14 bp):
TTTATGTTCGTTTG
Found at i:1023997 original size:19 final size:19
Alignment explanation
Indices: 1023973--1024034 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
1023963 TATATGAAGG
1023973 TTAAATTGTAAATTTATCC
1 TTAAATTGTAAATTTATCC
* * * ***
1023992 TTAAATTAT-TA-TGAAGG
1 TTAAATTGTAAATTTATCC
1024009 TTAAATTGTAAATTTATCC
1 TTAAATTGTAAATTTATCC
1024028 TTAAATT
1 TTAAATT
1024035 ATTTTAGACT
Statistics
Matches: 29, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
17 10 0.34
18 2 0.07
19 17 0.59
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (19 bp):
TTAAATTGTAAATTTATCC
Found at i:1024005 original size:36 final size:36
Alignment explanation
Indices: 1023965--1024037 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1023955 AACAATTTTA
1023965 TATGAAGGTTAAATTGTAAATTTATCCTTAAATTAT
1 TATGAAGGTTAAATTGTAAATTTATCCTTAAATTAT
1024001 TATGAAGGTTAAATTGTAAATTTATCCTTAAATTAT
1 TATGAAGGTTAAATTGTAAATTTATCCTTAAATTAT
1024037 T
1 T
1024038 TTAGACTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.45
Consensus pattern (36 bp):
TATGAAGGTTAAATTGTAAATTTATCCTTAAATTAT
Found at i:1031954 original size:16 final size:18
Alignment explanation
Indices: 1031910--1031954 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1031900 TGTTTATAAG
*
1031910 GGAATTGAAATATGTGAA
1 GGAATTGGAATATGTGAA
*
1031928 GGAATTAGAATATGT-AA
1 GGAATTGGAATATGTGAA
1031945 -GAATTGGAAT
1 GGAATTGGAAT
1031955 TTGAATCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (18 bp):
GGAATTGGAATATGTGAA
Found at i:1032569 original size:28 final size:28
Alignment explanation
Indices: 1032534--1032633 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
1032524 TTTTCATCCT
*
1032534 AAACCCGACCCGAATATTACACTTAAAA
1 AAACCCGACCCGAATATTAAACTTAAAA
* * * *
1032562 AAGCCCGACACGATTATCAAACTTAAAA
1 AAACCCGACCCGAATATTAAACTTAAAA
1032590 AAACCCGACCCGAATATTAAACTTAAAA
1 AAACCCGACCCGAATATTAAACTTAAAA
1032618 AAACCCGACCCGAATA
1 AAACCCGACCCGAATA
1032634 CCAAAAAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.16
Consensus pattern (28 bp):
AAACCCGACCCGAATATTAAACTTAAAA
Found at i:1037374 original size:2 final size:2
Alignment explanation
Indices: 1037367--1037400 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1037357 CCCTTACCCC
1037367 AT 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 AT
1037401 GAGAAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1047862 original size:20 final size:20
Alignment explanation
Indices: 1047839--1047889 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1047829 CATATGGTAA
* *
1047839 AGTATTGATACTAAAAGGTC
1 AGTATCGATACTAAAAGGCC
* *
1047859 AGTACCGATACTGAAAGGCC
1 AGTATCGATACTAAAAGGCC
*
1047879 AGTATCAATAC
1 AGTATCGATAC
1047890 CAGCGTACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTAAAAGGCC
Found at i:1055296 original size:19 final size:19
Alignment explanation
Indices: 1055272--1055313 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1055262 TAAGTTACAA
1055272 TTGATAAAATTATGAGATT
1 TTGATAAAATTATGAGATT
* *
1055291 TTGATAAAGTTGTGAGATT
1 TTGATAAAATTATGAGATT
1055310 TTGA
1 TTGA
1055314 ATTTATAATA
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:0.00, G:0.21, T:0.43
Consensus pattern (19 bp):
TTGATAAAATTATGAGATT
Found at i:1055432 original size:14 final size:13
Alignment explanation
Indices: 1055410--1055447 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
1055400 ACTTTTTATA
1055410 TTAATTATAATTC
1 TTAATTATAATTC
*
1055423 TTATATTATAAATC
1 TTA-ATTATAATTC
1055437 TTAATTATAAT
1 TTAATTATAAT
1055448 CATTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTATAATTC
Found at i:1055453 original size:13 final size:12
Alignment explanation
Indices: 1055410--1055453 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
1055400 ACTTTTTATA
1055410 TTAATTATAATTC
1 TTAATTATAA-TC
1055423 TTATATTATAAATC
1 TTA-ATTAT-AATC
1055437 TTAATTATAATC
1 TTAATTATAATC
1055449 ATTAA
1 -TTAA
1055454 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 10 0.36
15 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATTATAATC
Found at i:1055673 original size:2 final size:2
Alignment explanation
Indices: 1055666--1055691 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1055656 ATTTAAAATA
1055666 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
1055692 TCACATGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1056110 original size:15 final size:15
Alignment explanation
Indices: 1056090--1056143 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
1056080 TATAATATAC
1056090 ATTATATATACATGA
1 ATTATATATACATGA
1056105 ATTATAT-TATCATGA
1 ATTATATATA-CATGA
1056120 CATTCAT-TATACAT--
1 -ATT-ATATATACATGA
1056134 ATTATATATA
1 ATTATATATA
1056144 TATATATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.06
13 7 0.21
14 2 0.06
15 12 0.35
16 7 0.21
17 4 0.12
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (15 bp):
ATTATATATACATGA
Found at i:1056158 original size:15 final size:15
Alignment explanation
Indices: 1056080--1056164 Score: 52
Period size: 15 Copynumber: 5.5 Consensus size: 15
1056070 AATATAAATG
1056080 TATA-ATATACATTA
1 TATATATATACATTA
*
1056094 TATATACATGA-ATTA
1 TATATATAT-ACATTA
1056109 TAT-TATCATGACATTCA
1 TATATAT-AT-ACATT-A
* *
1056126 T-TATACATATTATATA
1 TATATATATA-CAT-TA
1056142 TATATATATACATTA
1 TATATATATACATTA
*
1056157 TAAATATA
1 TATATATA
1056165 ATGTGTACTT
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
14 6 0.11
15 24 0.44
16 13 0.24
17 12 0.22
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (15 bp):
TATATATATACATTA
Found at i:1060454 original size:17 final size:18
Alignment explanation
Indices: 1060432--1060465 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1060422 TTGATAAATA
1060432 TTTGATTCGAG-TTTGAG
1 TTTGATTCGAGATTTGAG
*
1060449 TTTGATTTGAGATTTGA
1 TTTGATTCGAGATTTGA
1060466 TATTCGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (18 bp):
TTTGATTCGAGATTTGAG
Found at i:1068134 original size:34 final size:34
Alignment explanation
Indices: 1068073--1068180 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
1068063 CCCGCCCCGA
* *
1068073 TTATATATATATATATATATATATATATATATAATATT
1 TTATATAT-TTTATAT-TA-AT-TATATATAAAATATT
*
1068111 TTATATATTTTATATTAATTATATATAGAATATT
1 TTATATATTTTATATTAATTATATATAAAATATT
*
1068145 GTATATATTTTATATTAATTATATATAAAATATT
1 TTATATATTTTATATTAATTATATATAAAATATT
1068179 TT
1 TT
1068181 CGGGTTCGGG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 47 0.72
35 2 0.03
36 2 0.03
37 6 0.09
38 8 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (34 bp):
TTATATATTTTATATTAATTATATATAAAATATT
Found at i:1068143 original size:18 final size:18
Alignment explanation
Indices: 1068072--1068178 Score: 87
Period size: 16 Copynumber: 5.9 Consensus size: 18
1068062 CCCCGCCCCG
1068072 ATTATATATATATATATATA
1 ATTATATATATA-ATAT-TA
1068092 TATATATATATATAATATT-
1 -AT-TATATATATAATATTA
* *
1068111 -TTATATATTTTATATTA
1 ATTATATATATAATATTA
*
1068128 ATTATATATAGAATATT-
1 ATTATATATATAATATTA
* * *
1068145 -GTATATATTTTATATTA
1 ATTATATATATAATATTA
*
1068162 ATTATATATAAAATATT
1 ATTATATATATAATATT
1068179 TTCGGGTTCG
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
16 25 0.37
17 1 0.01
18 25 0.37
20 1 0.01
21 6 0.09
22 10 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTATATATATAATATTA
Found at i:1068152 original size:2 final size:2
Alignment explanation
Indices: 1068074--1068137 Score: 68
Period size: 2 Copynumber: 35.0 Consensus size: 2
1068064 CCGCCCCGAT
*
1068074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1068114 TA TA T- TT TA TA T- TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1068138 GAATATTGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
1 6 0.11
2 48 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Done.