Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007355.1 Hibiscus syriacus cultivar Beakdansim tig00019715_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: 72223
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Found at i:858 original size:6 final size:6
Alignment explanation
Indices: 847--946 Score: 157
Period size: 6 Copynumber: 16.5 Consensus size: 6
837 ATTATGCTTG
847 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
**
895 AAAAGA AAAAGA AAAAGA AAATTA AAAAGA AAAA-A AAGGAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA--AAGA AAAAGA
944 AAA
1 AAA
947 GGAGGGTTCA
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
5 3 0.03
6 79 0.91
7 2 0.02
8 3 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:2661 original size:131 final size:130
Alignment explanation
Indices: 2516--2760 Score: 289
Period size: 131 Copynumber: 1.9 Consensus size: 130
2506 TTTTGCTCGG
* * * *
2516 TTCTTCACAGAAGGAGTCAAA-CTAGCATAA-TCTATTTTGCTCGATTTTATCATAGAATGAGGT
1 TTCTTCACAAAAGGAGTCAAATC-AGCATAACT-TATTTTGCTCGATTCTATCACAAAATGAGGT
* ** *
2579 AGATCAAC-ATCGATAGTTTGTTTGATTCTTCACAGAAGGAGTTGGATCAACAATTTCATTCCGG
64 ACATCAACTATCGA-AAATT-ATTGATTCTTCACAGAAGGAGTTGGATCAACAATTTCATTCCGG
2643 TTGA
127 TTGA
** * *
2647 TTCTTCACAAAAGGAGTTGAATCAGCATAACTTATTTTGTTTGATTCTATCACAAAATGAGGTAC
1 TTCTTCACAAAAGGAGTCAAATCAGCATAACTTATTTTGCTCGATTCTATCACAAAATGAGGTAC
* * * *
2712 ATCGACTTTGGAAAATTATTGATTCTTCATAGAAGGAGTTGGATCAACA
66 ATCAACTATCGAAAATTATTGATTCTTCACAGAAGGAGTTGGATCAACA
2761 TTTTTCATGT
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
130 30 0.32
131 60 0.63
132 5 0.05
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (130 bp):
TTCTTCACAAAAGGAGTCAAATCAGCATAACTTATTTTGCTCGATTCTATCACAAAATGAGGTAC
ATCAACTATCGAAAATTATTGATTCTTCACAGAAGGAGTTGGATCAACAATTTCATTCCGGTTGA
Found at i:4034 original size:19 final size:21
Alignment explanation
Indices: 4006--4053 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
3996 TAACTTAAAG
4006 TAAAACATTA-A-AAAATATA
1 TAAAACATTATAGAAAATATA
*
4025 TAAAATATTATAGAAAATATCA
1 TAAAACATTATAGAAAATAT-A
*
4047 TATAACA
1 TAAAACA
4054 ACATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 7 0.30
22 6 0.26
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAACATTATAGAAAATATA
Found at i:6419 original size:19 final size:19
Alignment explanation
Indices: 6350--6417 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
6340 ACCATATCGA
*
6350 TAGATTCATAACTATACTTT
1 TAGATTCATAACTTTAC-TT
*
6370 TAGATTCACAACTTTACTT
1 TAGATTCATAACTTTACTT
* *
6389 TAGATTCGTAGCTTTACTT
1 TAGATTCATAACTTTACTT
*
6408 TATATTCATA
1 TAGATTCATA
6418 GCCCAATGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (19 bp):
TAGATTCATAACTTTACTT
Found at i:25819 original size:15 final size:15
Alignment explanation
Indices: 25801--25842 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
25791 ACCGATAATG
*
25801 AGAGTATAAATAGTA
1 AGAGTATAAATACTA
*
25816 AGAGTGTAAATACTA
1 AGAGTATAAATACTA
*
25831 AGAGTACAAATA
1 AGAGTATAAATA
25843 TGAGAGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (15 bp):
AGAGTATAAATACTA
Found at i:26735 original size:64 final size:64
Alignment explanation
Indices: 26639--26766 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
26629 CGTTTTAAAC
* * *
26639 AGATTAGCTTTATTTGACAATTCTTCCCTCCCAAGTAAATAATTTTTCTTTGAAGTACTCTTAT
1 AGATTAGCTTTATATGACAATTCTTCCCTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
* * * *
26703 AGATTGGCTTTATATGATAATTTTTCCTTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
1 AGATTAGCTTTATATGACAATTCTTCCCTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
26767 GGATAGATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (64 bp):
AGATTAGCTTTATATGACAATTCTTCCCTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
Found at i:28035 original size:20 final size:20
Alignment explanation
Indices: 27970--28048 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
27960 CGGAGGGCTG
* *
27970 GTATCCATACCAAAAGTTTG
1 GTATCCATACCAAAGGTTTA
* *
27990 GTATCCATACTAAAAGGTTCA
1 GTATCCATAC-CAAAGGTTTA
*
28011 GTATCCATACCAGAGGTTTA
1 GTATCCATACCAAAGGTTTA
* * *
28031 ATATCAATATCAAAGGTT
1 GTATCCATACCAAAGGTT
28049 GTTAAAGGAC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCCATACCAAAGGTTTA
Found at i:29362 original size:21 final size:21
Alignment explanation
Indices: 29336--29389 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
29326 GTATTACATG
* *
29336 GTATCCATACCATATGAACTA
1 GTATCCATACCAGATAAACTA
29357 GTATCCATACCAGATAAACTA
1 GTATCCATACCAGATAAACTA
*
29378 ATATCCATACCA
1 GTATCCATACCA
29390 AAGGCTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (21 bp):
GTATCCATACCAGATAAACTA
Found at i:36398 original size:57 final size:56
Alignment explanation
Indices: 36311--36424 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 56
36301 ATAACAATCT
36311 ATGGCAAAAGTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
1 ATGGCAAAAGTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
*
36367 ATGGCAAAATGTTTTTGGACTTGAATTGAATTTATTCCAAGTTTTCAAAAATAATTC
1 ATGGCAAAA-GTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
36424 A
1 A
36425 AAGTCCATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 9 0.16
57 47 0.84
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (56 bp):
ATGGCAAAAGTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
Found at i:36754 original size:21 final size:21
Alignment explanation
Indices: 36730--36769 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36720 TAACAAAGGT
36730 AGTACCGATACTCC-CTGTAGG
1 AGTACCGATAC-CCTCTGTAGG
*
36751 AGTACTGATACCCTCTGTA
1 AGTACCGATACCCTCTGTA
36770 CTAGGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (21 bp):
AGTACCGATACCCTCTGTAGG
Found at i:37408 original size:40 final size:40
Alignment explanation
Indices: 37353--37434 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
37343 TGGAAGATAA
*
37353 AAAGTTGATTGTAGATAGACCGCTTAAGTTTGATAGAATT
1 AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
37393 AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
1 AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
37433 AA
1 AA
37435 GTTTAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (40 bp):
AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
Found at i:37428 original size:22 final size:22
Alignment explanation
Indices: 37364--37429 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
37354 AAGTTGATTG
37364 TAGATAGACCGCTTAAGTTTGA
1 TAGATAGACCGCTTAAGTTTGA
* *
37386 TAGAATTA-A-AG-TT--GATT-A
1 TAG-A-TAGACCGCTTAAGTTTGA
37404 TAGATAGACCGCTTAAGTTTGA
1 TAGATAGACCGCTTAAGTTTGA
37426 TAGA
1 TAGA
37430 ATTAAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 5 0.16
19 5 0.16
21 5 0.16
22 9 0.28
23 2 0.06
24 2 0.06
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (22 bp):
TAGATAGACCGCTTAAGTTTGA
Found at i:40626 original size:205 final size:210
Alignment explanation
Indices: 40386--40861 Score: 737
Period size: 215 Copynumber: 2.3 Consensus size: 210
40376 AAATTAGAAT
* *
40386 TAAATTGAACAAATATGGAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAAACAACACACAATGATGAG
* * *
40451 GGATCAAATCAAAATAA-T-TT-T-GTTGAAATTAATACAAAAAAGTATTAAATTATACCTATTT
66 GGATCAAATCAAAATAATTATTGTGGTTGAAATTAATACAAAAAAGTATAAAACTATACCCATTT
*
40512 AAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTAAGATGCAAA
131 AAAAAGTTATGGGCCAATTAAAAAATAGAAATAAATAATAAGTATGGGTCAATTTAAGATGCAAA
**
40577 TAAAATTTGGAGGAC
196 TAAAATTTAAAGGAC
40592 TAAATTGAACAAATAT-GAATTACAAATAAAAATTTAAATAAATTAAACAACACACAATGATGAG
1 TAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAAACAACACACAATGATGAG
*
40656 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAATAGTATAAAACTATAC
66 GGATCAAATCAAAATAA--TT--ATTGT--GGTTGAAATTAATACAAAAAAGTATAAAACTATAC
* *
40721 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAATAATAAGTATGGGTCAATTTCATA
125 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAATAATAAGTATGGGTCAATTTAAGA
*
40786 TGCAATTAAAATTTAAAGGAC
190 TGCAAATAAAATTTAAAGGAC
* *
40807 TAAATTGAACAAATATAAAATTAAAAATAAAAATTTAAATAAATTAAACAACACA
1 TAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAAACAACACA
40862 GAGGGATCAA
Statistics
Matches: 246, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
205 64 0.26
206 16 0.07
208 1 0.00
211 2 0.01
212 1 0.00
215 126 0.51
216 36 0.15
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (210 bp):
TAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAAACAACACACAATGATGAG
GGATCAAATCAAAATAATTATTGTGGTTGAAATTAATACAAAAAAGTATAAAACTATACCCATTT
AAAAAGTTATGGGCCAATTAAAAAATAGAAATAAATAATAAGTATGGGTCAATTTAAGATGCAAA
TAAAATTTAAAGGAC
Found at i:40952 original size:2 final size:2
Alignment explanation
Indices: 40947--41216 Score: 171
Period size: 2 Copynumber: 134.0 Consensus size: 2
40937 AAAACAACTA
40947 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
* * * * * * *
40989 AA ACT AT AT A- AT TT TT AT A- AT TT TT AT A- AT TT TT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
41029 AA AT -T AT GT TT AT AT GA- ACT AT AT AT AT AA ACT AT AT AT GT
1 AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT A-T AT AT AT AT
* * * *
41070 AA ACT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AA
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
41113 ACT AT A- AA AA AT AT AT AGT TT AT AA ACT AT A- AT TT AT AT -T
1 A-T AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT
* *
41153 A- AT AT AGT AT AT AT AT GT AT AA ACT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
41196 AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT A-T AT AT
41217 CTGTATAAAC
Statistics
Matches: 212, Mismatches: 36, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
1 9 0.04
2 190 0.90
3 13 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:41007 original size:9 final size:9
Alignment explanation
Indices: 40995--41025 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
40985 ATATAAACTA
40995 TATAATTTT
1 TATAATTTT
41004 TATAATTTT
1 TATAATTTT
41013 TATAATTTT
1 TATAATTTT
41022 TATA
1 TATA
41026 TATAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATAATTTT
Found at i:41697 original size:2 final size:2
Alignment explanation
Indices: 41692--41782 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
41682 TTTAGTCACT
41692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41734 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41776 TA TA TA T
1 TA TA TA T
41783 TCAAAGTGAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41901 original size:17 final size:18
Alignment explanation
Indices: 41879--41921 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
41869 TTGGGAAATT
*
41879 TTGAGAA-TATAGGGAAA
1 TTGAGAATTAAAGGGAAA
41896 TTGAGAATTTAAAGGGAAA
1 TTGAGAA-TTAAAGGGAAA
41915 TTGAGAA
1 TTGAGAA
41922 ATTTAGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
19 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.26
Consensus pattern (18 bp):
TTGAGAATTAAAGGGAAA
Found at i:41911 original size:19 final size:20
Alignment explanation
Indices: 41889--41933 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
41879 TTGAGAATAT
41889 AGGGAAATTGAG-AATTTAA
1 AGGGAAATTGAGAAATTTAA
*
41908 AGGGAAATTGAGAAATTTAG
1 AGGGAAATTGAGAAATTTAA
41928 AGGGAA
1 AGGGAA
41934 TAGAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (20 bp):
AGGGAAATTGAGAAATTTAA
Found at i:41943 original size:46 final size:46
Alignment explanation
Indices: 41854--41943 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
41844 TTTTATTTAG
* * * **
41854 GAATTTATAGGGAAATTGGGAAATTTTGAGAATATAGGGAAATTGA
1 GAATTTAAAGGGAAATTGAGAAATTTAGAGAATATAGAAAAATTGA
*
41900 GAATTTAAAGGGAAATTGAGAAATTTAGAGGGA-ATAGAAAAATT
1 GAATTTAAAGGGAAATTGAGAAATTTAGA-GAATATAGAAAAATT
41944 TGGAAAGTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 35 0.95
47 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.28
Consensus pattern (46 bp):
GAATTTAAAGGGAAATTGAGAAATTTAGAGAATATAGAAAAATTGA
Found at i:41944 original size:19 final size:20
Alignment explanation
Indices: 41901--41944 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
41891 GGAAATTGAG
* *
41901 AATTTAAAGGGAAATTGAGA
1 AATTTAAAGGGAAATAGAAA
*
41921 AATTTAGAGGG-AATAGAAA
1 AATTTAAAGGGAAATAGAAA
41940 AATTT
1 AATTT
41945 GGAAAGTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (20 bp):
AATTTAAAGGGAAATAGAAA
Found at i:42158 original size:2 final size:2
Alignment explanation
Indices: 42139--42262 Score: 68
Period size: 2 Copynumber: 64.0 Consensus size: 2
42129 TACTTTTAAT
* * * * *
42139 TA TA TA TG TA TA TG TA TA TA AA CTA TA TA -A AA TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * *
42182 TA AA T- TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
42221 TA TA TA TA -A CTA -A TA TA -A GTA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
42261 TA
1 TA
42263 GAAACACTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
1 9 0.10
2 78 0.84
3 6 0.06
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:42246 original size:32 final size:32
Alignment explanation
Indices: 42140--42262 Score: 103
Period size: 34 Copynumber: 3.9 Consensus size: 32
42130 ACTTTTAATT
* * *
42140 ATATATGTATATGTATATAAACTATATA-AAAT-
1 ATATA-GTATATATATATATA-TATATATAACTA
* * * *
42172 ATATAGTTTATAAAT-TATA-ATTTAT-ATTA
1 ATATAGTATATATATATATATATATATAACTA
*
42201 ATATAGTATATATATATATGTATATATAACTA
1 ATATAGTATATATATATATATATATATAACTA
42233 ATATAAGTAATATATATATATATATATATA
1 ATAT-AGT-ATATATATATATATATATATA
42263 GAAACACTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
28 6 0.08
29 13 0.18
30 6 0.08
31 12 0.17
32 12 0.17
33 3 0.04
34 20 0.28
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (32 bp):
ATATAGTATATATATATATATATATATAACTA
Found at i:42448 original size:13 final size:13
Alignment explanation
Indices: 42430--42490 Score: 77
Period size: 13 Copynumber: 4.3 Consensus size: 13
42420 CCATGTATAG
42430 TATATATAAACTA
1 TATATATAAACTA
42443 TATATATAAACTA
1 TATATATAAACTA
42456 TATATATATATACATGTA
1 TATATATA-A-AC---TA
42474 TATATATAAACTA
1 TATATATAAACTA
42487 TATA
1 TATA
42491 AAGTAAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
13 27 0.63
14 1 0.02
15 2 0.05
16 2 0.05
17 1 0.02
18 10 0.23
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:42448 original size:20 final size:20
Alignment explanation
Indices: 42409--42448 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42399 TATAATACAT
* *
42409 GTATGTATAAACCATGTATA
1 GTATATATAAACCATATATA
*
42429 GTATATATAAACTATATATA
1 GTATATATAAACCATATATA
42449 TAAACTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
GTATATATAAACCATATATA
Found at i:42479 original size:31 final size:32
Alignment explanation
Indices: 42399--42490 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 32
42389 ATACGTAACT
* * *
42399 TATA-ATACATGTATGTATA-AACCATGTATAG
1 TATATATACATGTATATATATAAAC-TATATAG
**
42430 TATATATA-AACTATATATATAAACTATATA-
1 TATATATACATGTATATATATAAACTATATAG
42460 TATATATACATGTATATATATAAACTATATA
1 TATATATACATGTATATATATAAACTATATA
42491 AAGTAAATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 8 0.16
31 37 0.73
32 6 0.12
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (32 bp):
TATATATACATGTATATATATAAACTATATAG
Found at i:42490 original size:2 final size:2
Alignment explanation
Indices: 42425--42481 Score: 51
Period size: 2 Copynumber: 27.0 Consensus size: 2
42415 ATAAACCATG
* *
42425 TA TA GTA TA TA TA AA CTA TA TA TA TA AA CTA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
42468 CA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA
42482 AACTATATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 40 0.91
3 4 0.09
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:42595 original size:14 final size:14
Alignment explanation
Indices: 42565--42636 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
42555 TAGTTTATAG
*
42565 AAACCCTAAA-TCAT
1 AAACCCTAAACT-TT
42579 AAACCCTAAACTTT
1 AAACCCTAAACTTT
* *
42593 AAATCATAAA-TATT
1 AAACCCTAAACT-TT
**
42607 AAACCCTAAACCCT
1 AAACCCTAAACTTT
42621 -AACCCTAAACTTT
1 AAACCCTAAACTTT
42634 AAA
1 AAA
42637 TTATAAATAC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
13 12 0.27
14 32 0.71
15 1 0.02
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCCTAAACTTT
Found at i:42616 original size:7 final size:7
Alignment explanation
Indices: 42606--42677 Score: 56
Period size: 7 Copynumber: 10.4 Consensus size: 7
42596 TCATAAATAT
42606 TAAACCC
1 TAAACCC
42613 TAAACCC
1 TAAACCC
42620 T-AACCC
1 TAAACCC
**
42626 TAAACTT
1 TAAACCC
***
42633 TAAATTA
1 TAAACCC
**
42640 TAAATAC
1 TAAACCC
*
42647 TAAACAC
1 TAAACCC
42654 TAAACCC
1 TAAACCC
*
42661 TAAACCT
1 TAAACCC
42668 TAAACCC
1 TAAACCC
42675 TAA
1 TAA
42678 TATAAATAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
6 6 0.11
7 48 0.89
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:42630 original size:41 final size:42
Alignment explanation
Indices: 42565--42672 Score: 155
Period size: 41 Copynumber: 2.6 Consensus size: 42
42555 TAGTTTATAG
* * *
42565 AAACCCTAAATCATAAACCCTAAACTTTAAATCATAAATATT
1 AAACCCTAAACCCTAAACCCTAAACTTTAAATCATAAATACT
*
42607 AAACCCTAAACCCT-AACCCTAAACTTTAAATTATAAATACT
1 AAACCCTAAACCCTAAACCCTAAACTTTAAATCATAAATACT
* *
42648 AAACACTAAACCCTAAACCTTAAAC
1 AAACCCTAAACCCTAAACCCTAAAC
42673 CCTAATATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 38 0.64
42 21 0.36
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (42 bp):
AAACCCTAAACCCTAAACCCTAAACTTTAAATCATAAATACT
Found at i:44075 original size:19 final size:19
Alignment explanation
Indices: 44051--44099 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
44041 ACAATGTTTT
44051 TATGAATAGTACTATACAG-
1 TATGAATAGTACTATA-AGA
*
44070 TATGAATAGTACTATATGA
1 TATGAATAGTACTATAAGA
44089 TATGAATAGTA
1 TATGAATAGTA
44100 TCGATATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (19 bp):
TATGAATAGTACTATAAGA
Found at i:44213 original size:21 final size:23
Alignment explanation
Indices: 44177--44228 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
44167 TTTTCCAGAA
44177 TGCTACATGGGTACCGATACCC-
1 TGCTACATGGGTACCGATACCCT
* *
44199 TGCTACA-GTGTACCGATGCCCT
1 TGCTACATGGGTACCGATACCCT
44221 TGCTACAT
1 TGCTACAT
44229 TAATTTTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (23 bp):
TGCTACATGGGTACCGATACCCT
Found at i:44822 original size:18 final size:18
Alignment explanation
Indices: 44799--44833 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44789 CCACTATGAA
*
44799 ATGTCCCGAATGACCACT
1 ATGTCCCGAAGGACCACT
*
44817 ATGTCCTGAAGGACCAC
1 ATGTCCCGAAGGACCAC
44834 GTACAACCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:47166 original size:2 final size:2
Alignment explanation
Indices: 47159--47186 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47149 GCCAATTAAT
47159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47187 GCTTAAGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53151 original size:22 final size:21
Alignment explanation
Indices: 53111--53150 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
53101 GAGTTTATTT
53111 TCATTTTTCAATTTTAAAATA
1 TCATTTTTCAATTTTAAAATA
53132 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
53151 ACAATTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:54932 original size:18 final size:19
Alignment explanation
Indices: 54886--54932 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
54876 GGACCCTTAG
*
54886 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
54905 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
54922 TGCATTCGATG
1 TGCA-TCGATG
54933 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:54965 original size:45 final size:45
Alignment explanation
Indices: 54901--55007 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
54891 CGATGCACTA
*
54901 AGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGT-C
1 AGAGTGCATCGATGCATAAAATGCATTCGATG-TTCAAAATAATCC
*
54946 AGAGTGCATCGATGCATAAAATGCATTCGATGTTCAATATAATCC
1 AGAGTGCATCGATGCATAAAATGCATTCGATGTTCAAAATAATCC
54991 ATG-GTGCATCGATGCAT
1 A-GAGTGCATCGATGCAT
55008 GGATTGGTGC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 9 0.16
45 48 0.83
46 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
AGAGTGCATCGATGCATAAAATGCATTCGATGTTCAAAATAATCC
Found at i:55092 original size:12 final size:12
Alignment explanation
Indices: 55077--55101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55067 AATACTTTGT
55077 AAAAATTGTTTA
1 AAAAATTGTTTA
55089 AAAAATTGTTTA
1 AAAAATTGTTTA
55101 A
1 A
55102 GTATAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAAAATTGTTTA
Found at i:55399 original size:14 final size:14
Alignment explanation
Indices: 55376--55448 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
55366 ATAGTTTATA
*
55376 TAAACCCTAAACCC
1 TAAACACTAAACCC
**
55390 TAAACACTAAACTT
1 TAAACACTAAACCC
*
55404 TAAAC-CATAAACAC
1 TAAACAC-TAAACCC
* *
55418 TAAACATTAAACCT
1 TAAACACTAAACCC
55432 TAAATCAC-AAACCC
1 TAAA-CACTAAACCC
55446 TAA
1 TAA
55449 TATAAATGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
13 1 0.02
14 43 0.93
15 2 0.04
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACACTAAACCC
Found at i:55407 original size:21 final size:21
Alignment explanation
Indices: 55383--55443 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
55373 ATATAAACCC
* *
55383 TAAACCCTAAACACTAAACTT
1 TAAACCATAAACACTAAACAT
55404 TAAACCATAAACACTAAACAT
1 TAAACCATAAACACTAAACAT
*
55425 TAAACCTTAAATCAC-AAAC
1 TAAACCATAAA-CACTAAAC
55444 CCTAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 33 0.92
22 3 0.08
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACACTAAACAT
Found at i:55874 original size:2 final size:2
Alignment explanation
Indices: 55816--55866 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
55806 ATAAACCATG
* *
55816 TA TA GTA TA TA TA AA CTA TA TA TA TA TA -A CA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55859 TA TA TA TA
1 TA TA TA TA
55867 ACTATATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
1 1 0.02
2 39 0.91
3 3 0.07
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:55973 original size:21 final size:21
Alignment explanation
Indices: 55947--55998 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
55937 ATAGTTTATA
55947 TAAACCCTAAACACTAAACT-T
1 TAAACCCTAAACACTAAA-TAT
*
55968 TAAACCATAAACACTAAATAT
1 TAAACCCTAAACACTAAATAT
*
55989 TAAGCCCTAA
1 TAAACCCTAA
55999 TGTAAATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACACTAAATAT
Found at i:56519 original size:16 final size:16
Alignment explanation
Indices: 56490--56533 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
56480 TTTCGTCCAT
56490 GGTAATATAT-AAGTCA
1 GGTAA-ATATCAAGTCA
56506 GGTAAATATCAAGTCA
1 GGTAAATATCAAGTCA
56522 GGTAAATATCAA
1 GGTAAATATCAA
56534 ATCATGTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (16 bp):
GGTAAATATCAAGTCA
Found at i:57241 original size:2 final size:2
Alignment explanation
Indices: 57236--57278 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
57226 ATAGCATCAT
*
57236 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57278 T
1 T
57279 TGATATTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57284 original size:10 final size:9
Alignment explanation
Indices: 57234--57284 Score: 63
Period size: 8 Copynumber: 5.8 Consensus size: 9
57224 AAATAGCATC
57234 ATTATATAT
1 ATTATATAT
57243 ATGTATATAT
1 AT-TATATAT
57253 A-TATATAT
1 ATTATATAT
57261 A-TATATAT
1 ATTATATAT
57269 A-TATATAT
1 ATTATATAT
57277 ATTGATAT
1 ATT-ATAT
57285 TTCTTTTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
8 24 0.62
9 3 0.08
10 12 0.31
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (9 bp):
ATTATATAT
Found at i:57699 original size:9 final size:9
Alignment explanation
Indices: 57680--57720 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
57670 CTATCTCTCT
57680 AAAAAAT-A
1 AAAAAATGA
57688 AAAAAATGA
1 AAAAAATGA
*
57697 AAAAATATAA
1 AAAAA-ATGA
57707 AAAAAATGA
1 AAAAAATGA
57716 AAAAA
1 AAAAA
57721 GTTAGTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:62034 original size:14 final size:14
Alignment explanation
Indices: 62015--62075 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
62005 AGAAATATAG
62015 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
* *
62029 AAAAAAGAAGGAAA
1 AAAAAAAAAAGAAA
*
62043 AAATAAAAAGAGAAA
1 AAA-AAAAAAAGAAA
* *
62058 AATAAAAAATGAAA
1 AAAAAAAAAAGAAA
62072 AAAA
1 AAAA
62076 TAAGAAATAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
14 27 0.73
15 10 0.27
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:62037 original size:29 final size:28
Alignment explanation
Indices: 61999--62092 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 28
61989 ACACAGAGAG
*
61999 AAAATAAGAAATATAGAAAAAAAAAAGAA
1 AAAAAAAGAAA-ATAGAAAAAAAAAAGAA
* *
62028 AAAAAAAGAAGGA-A-AAAATAAAAAGAGA
1 AAAAAAAGAA-AATAGAAAAAAAAAAGA-A
* *
62056 AAAATAA-AAAAT-GAAAAAAATAAGAA
1 AAAAAAAGAAAATAGAAAAAAAAAAGAA
* *
62082 ATACAAAGAAA
1 AAAAAAAGAAA
62093 GAAAGAAGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
26 6 0.12
27 26 0.52
28 8 0.16
29 10 0.20
ACGTcount: A:0.79, C:0.01, G:0.12, T:0.09
Consensus pattern (28 bp):
AAAAAAAGAAAATAGAAAAAAAAAAGAA
Found at i:62076 original size:16 final size:16
Alignment explanation
Indices: 62040--62083 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
62030 AAAAAGAAGG
62040 AAAAAAT-AAAAA-GA
1 AAAAAATAAAAAATGA
*
62054 GAAAAATAAAAAATGA
1 AAAAAATAAAAAATGA
*
62070 AAAAAATAAGAAAT
1 AAAAAATAAAAAAT
62084 ACAAAGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 14 0.56
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAATGA
Found at i:62779 original size:2 final size:2
Alignment explanation
Indices: 62772--62822 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
62762 TGAAACACAT
62772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62814 TA TA TA TA T
1 TA TA TA TA T
62823 TTCTTTTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66881 original size:3 final size:3
Alignment explanation
Indices: 66866--66932 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
66856 TTCATTTGAA
*
66866 TAT TAT T-T ATAT TAT TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
66910 TAT TAT TAT TAA TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
66933 CATACATCAG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 54 0.95
4 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:68159 original size:15 final size:14
Alignment explanation
Indices: 68118--68159 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
68108 TGTAAATTAG
68118 ATATTTAATTTTAAT
1 ATATTTAA-TTTAAT
68133 ATATTTAATTTAAT
1 ATATTTAATTTAAT
68147 ATATTTTAATTTA
1 ATA-TTTAATTTA
68160 GTCATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATTTAATTTAAT
Found at i:68435 original size:18 final size:19
Alignment explanation
Indices: 68402--68439 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
68392 TATCCTAGAA
68402 AATATATTAATTTTTTATT
1 AATATATTAATTTTTTATT
*
68421 AATAT-TTATTTTTTTATT
1 AATATATTAATTTTTTATT
68439 A
1 A
68440 TTAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATATATTAATTTTTTATT
Done.