Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004638.1 Hibiscus syriacus cultivar Beakdansim tig00010387_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: 89821
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Found at i:8122 original size:15 final size:15
Alignment explanation
Indices: 8102--8155 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 15
8092 TATTACACTT
8102 AAATCAATCAAAAAA
1 AAATCAATCAAAAAA
8117 AAATCAAAAAAAATCAAAAAA
1 AAATC-----AA-TCAAAAAA
8138 AAATCAATCAAAAAA
1 AAATCAATCAAAAAA
8153 AAA
1 AAA
8156 GAAAAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
20 2 0.06
21 13 0.39
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (15 bp):
AAATCAATCAAAAAA
Found at i:8127 original size:10 final size:11
Alignment explanation
Indices: 8107--8144 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
8097 CACTTAAATC
8107 AATCAAAAAAA
1 AATCAAAAAAA
8118 AATC-AAAAAA
1 AATCAAAAAAA
8128 AATCAAAAAAA
1 AATCAAAAAAA
8139 AATCAA
1 AATCAA
8145 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (11 bp):
AATCAAAAAAA
Found at i:8130 original size:25 final size:24
Alignment explanation
Indices: 8102--8154 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 24
8092 TATTACACTT
8102 AAATCAATCAAAAAAA-AATCAAAAA
1 AAATCAA--AAAAAAACAATCAAAAA
8127 AAATCAAAAAAAAATCAATCAAAAA
1 AAATCAAAAAAAAA-CAATCAAAAA
8152 AAA
1 AAA
8155 AGAAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.27
25 19 0.73
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (24 bp):
AAATCAAAAAAAAACAATCAAAAA
Found at i:8160 original size:21 final size:20
Alignment explanation
Indices: 8110--8162 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
8100 TTAAATCAAT
8110 CAAAAAAAAATCAAAAAAAA
1 CAAAAAAAAATCAAAAAAAA
8130 TCAAAAAAAAATCAATCAAAAAA
1 -CAAAAAAAAATCAA--AAAAAA
8153 -AAAGAAAAAA
1 CAAA-AAAAAA
8163 GAAAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 17 0.59
22 6 0.21
23 6 0.21
ACGTcount: A:0.81, C:0.09, G:0.02, T:0.08
Consensus pattern (20 bp):
CAAAAAAAAATCAAAAAAAA
Found at i:8160 original size:25 final size:23
Alignment explanation
Indices: 8111--8168 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
8101 TAAATCAATC
*
8111 AAAAAAAAATCAAAAAAAATCAA
1 AAAAAAAAATCAAAAAAAAACAA
*
8134 AAAAAAATCAATCAAAAAAAAAGAA
1 AAAAAAA--AATCAAAAAAAAACAA
8159 AAAAGAAAAA
1 AAAA-AAAAA
8169 ATTAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 7 0.23
24 2 0.07
25 18 0.60
26 3 0.10
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (23 bp):
AAAAAAAAATCAAAAAAAAACAA
Found at i:9325 original size:141 final size:141
Alignment explanation
Indices: 9107--9377 Score: 377
Period size: 141 Copynumber: 1.9 Consensus size: 141
9097 AACATCAACT
9107 GACCAGATCTCCTCGACACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGAA
1 GACCAGATCTCCTCGACACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGAA
* ** *
9172 GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
9237 TACCCTTAGAC
131 TACCCTTAGAC
* * *
9248 GACCAGA-CTTCCTC-ATCACGTAGGAGCCGTGTCAACCTTA-GATAATCAGCCGTCCTCATCAC
1 GACCAGATC-TCCTCGA-CACGTAGGAG-AGTGTCAACATTAGGATAACCAGCCGTCCTCATCAC
* * * * * *
9310 GTAGGAACCTAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCGCGTATGAGCCGTGTC
63 GAAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTC
9375 ATC
128 ATC
9378 CATTGACCAG
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
140 2 0.02
141 101 0.89
142 11 0.10
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (141 bp):
GACCAGATCTCCTCGACACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGAA
GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
TACCCTTAGAC
Found at i:9631 original size:20 final size:19
Alignment explanation
Indices: 9603--9663 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
9593 TGTCCGGGTC
*
9603 TTTTATATTTATTTATTTAT
1 TTTTTTATTTATTTA-TTAT
9623 TTTTTTATTT-TATTATTAT
1 TTTTTTATTTAT-TTATTAT
*
9642 TATTTTTATTATTTTTATTAT
1 T-TTTTTATT-TATTTATTAT
9663 T
1 T
9664 ATTAATATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 6 0.17
20 20 0.56
21 9 0.25
22 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTATTTATTAT
Found at i:9638 original size:3 final size:3
Alignment explanation
Indices: 9627--9667 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
9617 ATTTATTTTT
* *
9627 TTA TT- TTA TTA TTA TTA TTT TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9668 ATATACAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:9650 original size:9 final size:9
Alignment explanation
Indices: 9605--9663 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
9595 TCCGGGTCTT
*
9605 TTATATTTA
1 TTATTTTTA
*
9614 TT-TATTTA
1 TTATTTTTA
9622 TT-TTTTTA
1 TTATTTTTA
*
9630 TTTTATTATTA
1 --TTATTTTTA
9641 TTATTTTTA
1 TTATTTTTA
9650 TTATTTTTA
1 TTATTTTTA
9659 TTATT
1 TTATT
9664 ATTAATATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
8 13 0.30
9 24 0.55
10 2 0.05
11 5 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTTA
Found at i:9664 original size:12 final size:12
Alignment explanation
Indices: 9605--9667 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
9595 TCCGGGTCTT
*
9605 TTATATTTATTTA
1 TTATTTTTA-TTA
9618 TTTATTTTT-TTA
1 -TTATTTTTATTA
*
9630 TT-TTATTATTA
1 TTATTTTTATTA
9641 TTATTTTTATTA
1 TTATTTTTATTA
9653 TT-TTTATTATTA
1 TTATTT-TTATTA
9665 TTA
1 TTA
9668 ATATACAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
10 4 0.10
11 10 0.24
12 21 0.50
14 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:11329 original size:18 final size:18
Alignment explanation
Indices: 11286--11329 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
11276 TATGTATAAT
11286 TTATTTTTACTTATGTTA
1 TTATTTTTACTTATGTTA
*
11304 TTGTTTTTACTTAT-TTA
1 TTATTTTTACTTATGTTA
11321 TTATATTTT
1 TTAT-TTTT
11330 CTTTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTATTTTTACTTATGTTA
Found at i:15264 original size:17 final size:17
Alignment explanation
Indices: 15242--15277 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15232 TTAGGATGCA
15242 TTGTTTTAAAATTATGT
1 TTGTTTTAAAATTATGT
15259 TTGTTTTAAAATTATGT
1 TTGTTTTAAAATTATGT
15276 TT
1 TT
15278 AAACTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (17 bp):
TTGTTTTAAAATTATGT
Found at i:15892 original size:17 final size:17
Alignment explanation
Indices: 15872--15911 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
15862 AAATCTACTG
15872 AAAATTATAATCATTTA
1 AAAATTATAATCATTTA
*
15889 AAAAATATAATCATTTA
1 AAAATTATAATCATTTA
*
15906 TAAATT
1 AAAATT
15912 TTATCTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTATAATCATTTA
Found at i:16154 original size:21 final size:21
Alignment explanation
Indices: 16130--16191 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
16120 GTTCGGTTAA
* *
16130 TTCGGTCGATTACCGAATTAG
1 TTCGGTCGGTCACCGAATTAG
*
16151 TTCGATCGGTCACCGAATTAG
1 TTCGGTCGGTCACCGAATTAG
16172 TTCGGTCGGTCACCGAATTA
1 TTCGGTCGGTCACCGAATTA
16192 ACCCTTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (21 bp):
TTCGGTCGGTCACCGAATTAG
Found at i:16536 original size:2 final size:2
Alignment explanation
Indices: 16529--16553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16519 AGTACTTGTT
16529 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16554 TTCATTACTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17629 original size:16 final size:16
Alignment explanation
Indices: 17599--17636 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17589 ATTTTGAAAA
17599 ATTTTAAATTATTATAT
1 ATTTT-AATTATTATAT
*
17616 ATTTTAATTTTTATAT
1 ATTTTAATTATTATAT
17632 -TTTTA
1 ATTTTA
17637 TTGATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTAATTATTATAT
Found at i:17637 original size:24 final size:26
Alignment explanation
Indices: 17600--17651 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
17590 TTTTGAAAAA
*
17600 TTTTAAATTATTA-T-ATATTTTAAT
1 TTTTAAATTATTATTGATAATTTAAT
* *
17624 TTTTATATTTTTATTGATAATTTAAT
1 TTTTAAATTATTATTGATAATTTAAT
17650 TT
1 TT
17652 CATTCCTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
26 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTAAATTATTATTGATAATTTAAT
Found at i:20658 original size:3 final size:3
Alignment explanation
Indices: 20650--20692 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
20640 CGTGACCCCC
20650 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
20693 ACTAAATCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:21691 original size:17 final size:18
Alignment explanation
Indices: 21659--21692 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21649 AATTGTCCTT
*
21659 TTAATTTCTCTTTTATTC
1 TTAATTTCTATTTTATTC
21677 TTAATTT-TATTTTATT
1 TTAATTTCTATTTTATT
21693 TTAGTCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
TTAATTTCTATTTTATTC
Found at i:22441 original size:6 final size:6
Alignment explanation
Indices: 22423--22490 Score: 109
Period size: 6 Copynumber: 11.3 Consensus size: 6
22413 TGGCCAGTGA
* *
22423 TGCATG TGAATG TGCATG TGCATG TGAATG TGCATG TGCATG TGCATG
1 TGCATG TGCATG TGCATG TGCATG TGCATG TGCATG TGCATG TGCATG
*
22471 TGAATG TGCATG TGCATG TG
1 TGCATG TGCATG TGCATG TG
22491 GTTGTCATTC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.34
Consensus pattern (6 bp):
TGCATG
Found at i:24729 original size:8 final size:8
Alignment explanation
Indices: 24716--24746 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
24706 ACAAATCAAT
24716 CACACACG
1 CACACACG
24724 CACACACG
1 CACACACG
24732 CACACACG
1 CACACACG
*
24740 CTCACAC
1 CACACAC
24747 ATATATATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.35, C:0.52, G:0.10, T:0.03
Consensus pattern (8 bp):
CACACACG
Found at i:28574 original size:108 final size:108
Alignment explanation
Indices: 28455--28660 Score: 331
Period size: 108 Copynumber: 1.9 Consensus size: 108
28445 AAAAGTTCAT
28455 TTTAATATCTATATTATAAAAAAATCATTGAGTGATGTTAATAATGAAAAAGAAATATTATTATT
1 TTTAATATCTATATTATAAAAAAATCATTGAGTGATGTTAATAATGAAAAAGAAATATTATTATT
* * *
28520 TTTTAAAAATTTAACTTCGGCCAGTTACGTCTGCAAAGTAAAC
66 TTTTAAAAATTCAACTTCGACCAATTACGTCTGCAAAGTAAAC
* * * * *
28563 TTTAATTTCTATATTATAAAAAAATCATTGAGTGATTTTAATAATGAAAAAGGAATATTGTTCTT
1 TTTAATATCTATATTATAAAAAAATCATTGAGTGATGTTAATAATGAAAAAGAAATATTATTATT
*
28628 TTTTAAAAATTCAACTTCGACCAATTATGTCTG
66 TTTTAAAAATTCAACTTCGACCAATTACGTCTG
28661 TAAAATGTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 89 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (108 bp):
TTTAATATCTATATTATAAAAAAATCATTGAGTGATGTTAATAATGAAAAAGAAATATTATTATT
TTTTAAAAATTCAACTTCGACCAATTACGTCTGCAAAGTAAAC
Found at i:29210 original size:43 final size:43
Alignment explanation
Indices: 29154--29244 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
29144 ATATACTTCA
29154 AAAAATTTAAACCATAAATAAATATCGGGGCATATTACTACTT
1 AAAAATTTAAACCATAAATAAATATCGGGGCATATTACTACTT
29197 AAAAATTTAAACCATAAATAAATATCGGGGCATATTACTACTT
1 AAAAATTTAAACCATAAATAAATATCGGGGCATATTACTACTT
29240 AAAAA
1 AAAAA
29245 GTGACTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (43 bp):
AAAAATTTAAACCATAAATAAATATCGGGGCATATTACTACTT
Found at i:29712 original size:15 final size:15
Alignment explanation
Indices: 29692--29722 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29682 TCCTTCATCT
29692 CTCTTTTGCAAATCA
1 CTCTTTTGCAAATCA
29707 CTCTTTTGCAAATCA
1 CTCTTTTGCAAATCA
29722 C
1 C
29723 ACATATGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
CTCTTTTGCAAATCA
Found at i:34907 original size:27 final size:27
Alignment explanation
Indices: 34876--34970 Score: 167
Period size: 27 Copynumber: 3.6 Consensus size: 27
34866 TCTATTTACA
34876 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGATAAC
*
34903 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGATAAC
34930 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGATAAC
34957 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
34971 ATTCCTACAC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 9 0.14
27 57 0.86
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGATAAC
Found at i:36893 original size:16 final size:16
Alignment explanation
Indices: 36872--36906 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
36862 ATAAATCTAA
*
36872 TTAGTTTACATTATCC
1 TTAGTTTAAATTATCC
36888 TTAGTTTAAATTATCC
1 TTAGTTTAAATTATCC
36904 TTA
1 TTA
36907 AGCCAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (16 bp):
TTAGTTTAAATTATCC
Found at i:37033 original size:102 final size:96
Alignment explanation
Indices: 36841--37034 Score: 298
Period size: 102 Copynumber: 2.0 Consensus size: 96
36831 TAAGGTTGTT
* *
36841 AGAGTTTGTTATTTCCTGTAGATAAATCTAATTAGTTTACATTATCCTTAGTTTAAATTATCCTT
1 AGAGTTTGTTATTTCCAGTAGATAAATCTAATTAGTTTACATTATCCTTAATTTAAATTATCCTT
36906 AAGCCAATATTTAATGACATATATAAACAGA
66 AAGCCAATATTTAATGACATATATAAACAGA
*
36937 AGAGTTTGTTATTTCCAGTAGATAAATCTAATTAGTTTAAATTATCCTTATCCTTAATTTAAATT
1 AGAGTTTGTTATTTCCAGTAGATAAATCTAATTAG--T---TTA-CATTATCCTTAATTTAAATT
*
37002 ATCCTTAAGCCAATATTTAATGACGTATATAAA
60 ATCCTTAAGCCAATATTTAATGACATATATAAA
37035 AATAAGAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
96 34 0.39
98 1 0.01
101 3 0.03
102 50 0.57
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (96 bp):
AGAGTTTGTTATTTCCAGTAGATAAATCTAATTAGTTTACATTATCCTTAATTTAAATTATCCTT
AAGCCAATATTTAATGACATATATAAACAGA
Found at i:40370 original size:16 final size:16
Alignment explanation
Indices: 40349--40380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
40339 AATAAATAAG
40349 CGAACATAAACGAACA
1 CGAACATAAACGAACA
40365 CGAACATAAACGAACA
1 CGAACATAAACGAACA
40381 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:40461 original size:10 final size:10
Alignment explanation
Indices: 40446--40530 Score: 81
Period size: 10 Copynumber: 8.7 Consensus size: 10
40436 CATTTAATAA
40446 ATAAACGAAC
1 ATAAACGAAC
40456 ATAAACGAAC
1 ATAAACGAAC
40466 ATAAACGAAC
1 ATAAACGAAC
* *
40476 ACAAACATAAAC
1 ATAAAC--GAAC
40488 A-AACACGAAC
1 ATAA-ACGAAC
*
40498 ATAAATGAAC
1 ATAAACGAAC
40508 ----ACGAAC
1 ATAAACGAAC
40514 ATAAACGAAC
1 ATAAACGAAC
40524 ATAAACG
1 ATAAACG
40531 TTGGAGACCC
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
6 5 0.08
10 47 0.76
11 4 0.06
12 6 0.10
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:40484 original size:16 final size:16
Alignment explanation
Indices: 40463--40529 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
40453 AACATAAACG
40463 AACATAAACGAACACA
1 AACATAAACGAACACA
* *
40479 AACATAAACAAACACG
1 AACATAAACGAACACA
* *
40495 AACATAAATGAACACG
1 AACATAAACGAACACA
*
40511 AACATAAACGAACATA
1 AACATAAACGAACACA
40527 AAC
1 AAC
40530 GTTGGAGACC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.61, C:0.22, G:0.07, T:0.09
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:40497 original size:32 final size:32
Alignment explanation
Indices: 40460--40524 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
40450 ACGAACATAA
40460 ACGAACATAAACGAACACAAACATAAACAAAC
1 ACGAACATAAACGAACACAAACATAAACAAAC
* * *
40492 ACGAACATAAATGAACACGAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACAAAC
40524 A
1 A
40525 TAAACGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.60, C:0.23, G:0.09, T:0.08
Consensus pattern (32 bp):
ACGAACATAAACGAACACAAACATAAACAAAC
Found at i:41815 original size:27 final size:29
Alignment explanation
Indices: 41749--41815 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 29
41739 GAAGGGAAAG
*
41749 AGATGAAGCTCTGTCGAATCGTTGCAGTTGA
1 AGATGAAGCTCCGTCGAATCGTTGCA--TGA
41780 AGACTTGAAGCTCCGTCGAATCGTTGCA-GA
1 AGA--TGAAGCTCCGTCGAATCGTTGCATGA
41810 A-ATGAA
1 AGATGAA
41816 AATTGTGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 4 0.12
29 1 0.03
30 3 0.09
31 3 0.09
33 22 0.67
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (29 bp):
AGATGAAGCTCCGTCGAATCGTTGCATGA
Found at i:42077 original size:24 final size:24
Alignment explanation
Indices: 42040--42095 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
42030 TATTAGGTTA
* *
42040 AACATAAATGAACGCACATAAACG
1 AACATAACTAAACGCACATAAACG
* *
42064 AACATAACTAAACGTATATAAACG
1 AACATAACTAAACGCACATAAACG
42088 AACATAAC
1 AACATAAC
42096 CGAACGTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.55, C:0.20, G:0.09, T:0.16
Consensus pattern (24 bp):
AACATAACTAAACGCACATAAACG
Found at i:42101 original size:24 final size:24
Alignment explanation
Indices: 42057--42102 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
42047 ATGAACGCAC
*
42057 ATAAACGAACATAACTAAACGTAT
1 ATAAACGAACATAACCAAACGTAT
*
42081 ATAAACGAACATAACCGAACGT
1 ATAAACGAACATAACCAAACGT
42103 TCACGAACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.17
Consensus pattern (24 bp):
ATAAACGAACATAACCAAACGTAT
Found at i:56931 original size:38 final size:39
Alignment explanation
Indices: 56880--56953 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 39
56870 TAAGGACTTG
56880 CGGTAAGGACTTACCCTGAGCACAAA-CAGAGGAGCCTA
1 CGGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTA
* *
56918 CGGTAAGGACTTACCCTTAGCACAAAGTAGAGGAGC
1 CGGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGC
56954 ATGCAGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
38 25 0.76
39 8 0.24
ACGTcount: A:0.34, C:0.24, G:0.27, T:0.15
Consensus pattern (39 bp):
CGGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTA
Found at i:56970 original size:39 final size:38
Alignment explanation
Indices: 56882--56970 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
56872 AGGACTTGCG
* *
56882 GTAAGGACTTACCCTGAGCACAAACAGAGGAGCCTACG
1 GTAAGGACTTACCCTGAGCACAAACAGAGGAGCATACA
* * *
56920 GTAAGGACTTACCCTTAGCACAAAGTAGAGGAGCATGCA
1 GTAAGGACTTACCCTGAGCACAAA-CAGAGGAGCATACA
* *
56959 GTATGGTCTTAC
1 GTAAGGACTTAC
56971 AAGTCATGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 23 0.53
39 20 0.47
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (38 bp):
GTAAGGACTTACCCTGAGCACAAACAGAGGAGCATACA
Found at i:58324 original size:30 final size:30
Alignment explanation
Indices: 58290--58351 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
58280 TTTGGAATCA
* * *
58290 AATTTAATCAAATTTTCACTTTGGTCTTCG
1 AATTTAATCAAAATTTCAATTTAGTCTTCG
*
58320 AATTTAATTAAAATTTCAATTTAGTCTTCG
1 AATTTAATCAAAATTTCAATTTAGTCTTCG
58350 AA
1 AA
58352 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (30 bp):
AATTTAATCAAAATTTCAATTTAGTCTTCG
Found at i:60808 original size:39 final size:39
Alignment explanation
Indices: 60713--60808 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
60703 AACATAAGGT
* *
60713 CCTGCGGTAAGGACTTACTCTGAGCATAAAGCAGAGGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAAGCAGAGGAG
* * *
60752 CCTAC-GAATAGGACTTACCCTTAGCACAAAGCAGAGGAG
1 CCTGCGGTA-AGGACTTACCCTGAGCACAAAGCAGAGGAG
* *
60791 TCTGCGGTAAGGTCTTAC
1 CCTGCGGTAAGGACTTAC
60809 AAGTCATAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.04
39 42 0.91
40 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (39 bp):
CCTGCGGTAAGGACTTACCCTGAGCACAAAGCAGAGGAG
Found at i:61577 original size:17 final size:17
Alignment explanation
Indices: 61555--61588 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61545 GATTCGGGTT
61555 GGACAACGGGTCAGGTC
1 GGACAACGGGTCAGGTC
*
61572 GGACAATGGGTCAGGTC
1 GGACAACGGGTCAGGTC
61589 AGGTCGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.41, T:0.15
Consensus pattern (17 bp):
GGACAACGGGTCAGGTC
Found at i:62083 original size:30 final size:30
Alignment explanation
Indices: 62049--62114 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
62039 TTTTAGTTCT
62049 TTTCAAATTTGGATC-CAAATTTAATTAAAA
1 TTTCAAATTTGG-TCACAAATTTAATTAAAA
*
62079 TTTC-ATTTTGGTCATCAAATTTAATTAAAA
1 TTTCAAATTTGGTCA-CAAATTTAATTAAAA
62109 TTTCAA
1 TTTCAA
62115 TTTAGTCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.06
29 6 0.19
30 23 0.72
31 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (30 bp):
TTTCAAATTTGGTCACAAATTTAATTAAAA
Found at i:66003 original size:18 final size:18
Alignment explanation
Indices: 65980--66014 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65970 AATTGTTATT
*
65980 CTCCTTCAGATTCTTCTG
1 CTCCTTCAGATGCTTCTG
*
65998 CTCCTTCGGATGCTTCT
1 CTCCTTCAGATGCTTCT
66015 TCTTCTCCTC
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:0.09, C:0.34, G:0.14, T:0.43
Consensus pattern (18 bp):
CTCCTTCAGATGCTTCTG
Found at i:66020 original size:24 final size:24
Alignment explanation
Indices: 65990--66037 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
65980 CTCCTTCAGA
*
65990 TTCTTCTGCTCCTTCGGATGCTTC
1 TTCTTCTCCTCCTTCGGATGCTTC
*
66014 TTCTTCTCCTCCTTGGGATGCTTC
1 TTCTTCTCCTCCTTCGGATGCTTC
66038 CTCGCCTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.33, G:0.17, T:0.46
Consensus pattern (24 bp):
TTCTTCTCCTCCTTCGGATGCTTC
Found at i:69883 original size:10 final size:10
Alignment explanation
Indices: 69782--69893 Score: 62
Period size: 10 Copynumber: 11.1 Consensus size: 10
69772 TTCATACGAT
* *
69782 ATATATATAT
1 ATATATAAAA
* *
69792 ATATATATAT
1 ATATATAAAA
* *
69802 ATATATATAT
1 ATATATAAAA
* *
69812 ATATATATAT
1 ATATATAAAA
* *
69822 ATATATATAT
1 ATATATAAAA
* *
69832 ATATATATAT
1 ATATATAAAA
* *
69842 ATATATATAT
1 ATATATAAAA
* *
69852 ATATATATAT
1 ATATATAAAA
69862 ATATATATAAA
1 ATATATA-AAA
*
69873 ATGTATAAAA
1 ATATATAAAA
69883 ATATATAAAA
1 ATATATAAAA
69893 A
1 A
69894 ATACCGGTAA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
10 90 0.93
11 7 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (10 bp):
ATATATAAAA
Found at i:69889 original size:2 final size:2
Alignment explanation
Indices: 69780--69870 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
69770 GGTTCATACG
69780 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
69822 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
69864 AT AT AT A
1 AT AT AT A
69871 AAATGTATAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70321 original size:39 final size:39
Alignment explanation
Indices: 70258--70345 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
70248 CATAAGGACT
70258 TGCGGTAAGGACATACCCTGAGCACAAAGCAGAGGAGCC
1 TGCGGTAAGGACATACCCTGAGCACAAAGCAGAGGAGCC
** * * *
70297 TGCGGTAAGGATTTACCTTTAGCACAAAGCAGATGAGCC
1 TGCGGTAAGGACATACCCTGAGCACAAAGCAGAGGAGCC
*
70336 TGCAGTAAGG
1 TGCGGTAAGG
70346 TCTTACAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.30, T:0.17
Consensus pattern (39 bp):
TGCGGTAAGGACATACCCTGAGCACAAAGCAGAGGAGCC
Found at i:74103 original size:39 final size:39
Alignment explanation
Indices: 74015--74103 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
74005 GGACTTGCGA
*
74015 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCTTACGG
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCTGACGG
* * *
74054 CAAGGACTTACCCTTAGCACGAAGCAGAGGAGCCTGA-GG
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAG-CTGACGG
*
74093 TAAGGTCTTAC
1 TAAGGACTTAC
74104 AACTCATAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 40 0.93
40 3 0.07
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCTGACGG
Found at i:75296 original size:14 final size:14
Alignment explanation
Indices: 75277--75313 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
75267 GGAGCAACGA
*
75277 TCGATGACAAAAAG
1 TCGATGAAAAAAAG
75291 TCGATGAAAAAAAG
1 TCGATGAAAAAAAG
75305 TCGATGAAA
1 TCGATGAAA
75314 TGTTTCCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.22, T:0.16
Consensus pattern (14 bp):
TCGATGAAAAAAAG
Found at i:79402 original size:24 final size:24
Alignment explanation
Indices: 79372--79419 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
79362 CTCCTTCAGA
* *
79372 TTCTTCTGCTCCTTGGGATGCTTC
1 TTCTTCTCCTCCTTGAGATGCTTC
79396 TTCTTCTCCTCCTTGAGATGCTTC
1 TTCTTCTCCTCCTTGAGATGCTTC
79420 CTCGCCTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.31, G:0.17, T:0.46
Consensus pattern (24 bp):
TTCTTCTCCTCCTTGAGATGCTTC
Found at i:79437 original size:18 final size:18
Alignment explanation
Indices: 79416--79455 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
79406 CCTTGAGATG
79416 CTTCCTCGCCTTCCGATT
1 CTTCCTCGCCTTCCGATT
** *
79434 CTTCCTCTTCTTCGGATT
1 CTTCCTCGCCTTCCGATT
79452 CTTC
1 CTTC
79456 TTGACCTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.40, G:0.10, T:0.45
Consensus pattern (18 bp):
CTTCCTCGCCTTCCGATT
Found at i:79911 original size:4 final size:4
Alignment explanation
Indices: 79902--79952 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
79892 AAATCTTTTC
* *
79902 TTAT TTAT TTAT TTAT TTAT TTAT TTA- TT-T TTAT TTAA TTAT ATA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
79947 TTAT TT
1 TTAT TT
79953 TGAATTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 6 0.15
4 34 0.85
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:83202 original size:2 final size:2
Alignment explanation
Indices: 83195--83221 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83185 GGTTCATACG
83195 AT 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 AT A
83222 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83708 original size:39 final size:39
Alignment explanation
Indices: 83633--83708 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
83623 CGGTATGCAC
**
83633 TTACCTTGAGCACAAAGCAAAGGACCCTGCGGTAAGGAT
1 TTACCTTGAGCACAAAGCAAAGGACCCTGCAATAAGGAT
* * * *
83672 TTACCTTTAGCACAAAGCAGATGAGCCTGCAATAAGG
1 TTACCTTGAGCACAAAGCAAAGGACCCTGCAATAAGG
83709 TCTTACAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (39 bp):
TTACCTTGAGCACAAAGCAAAGGACCCTGCAATAAGGAT
Found at i:85912 original size:39 final size:40
Alignment explanation
Indices: 85856--85931 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
85846 TAAGGACTTG
85856 CGGTAAGGAACTTACCCTGAGCACAAAGCAGAGGAGCCTA
1 CGGTAAGGAACTTACCCTGAGCACAAAGCAGAGGAGCCTA
* *
85896 CGGTAAGG-ACTTACCCTTAGCACAAAGCAGATGAGC
1 CGGTAAGGAACTTACCCTGAGCACAAAGCAGAGGAGC
85932 ATGCAGTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 26 0.76
40 8 0.24
ACGTcount: A:0.34, C:0.25, G:0.26, T:0.14
Consensus pattern (40 bp):
CGGTAAGGAACTTACCCTGAGCACAAAGCAGAGGAGCCTA
Found at i:85948 original size:39 final size:39
Alignment explanation
Indices: 85858--85948 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
85848 AGGACTTGCG
* *
85858 GTAAGGAACTTACCCTGAGCACAAAGCAGAGGAGCCTACG
1 GTAAGG-ACTTACCCTGAGCACAAAGCAGAGGAGCATACA
* * *
85898 GTAAGGACTTACCCTTAGCACAAAGCAGATGAGCATGCA
1 GTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCATACA
* *
85937 GTATGGTCTTAC
1 GTAAGGACTTAC
85949 AAGTCATGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 38 0.86
40 6 0.14
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (39 bp):
GTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCATACA
Found at i:87292 original size:30 final size:30
Alignment explanation
Indices: 87256--87317 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
87246 TTTAGAATCA
* *
87256 AATTTAATCAAAATTTTACTTTGGTCATCG
1 AATTTAATCAAAATTTTAATTTAGTCATCG
* *
87286 AATTTAATTAAAATTTTAATTTAGTCCTCG
1 AATTTAATCAAAATTTTAATTTAGTCATCG
87316 AA
1 AA
87318 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (30 bp):
AATTTAATCAAAATTTTAATTTAGTCATCG
Found at i:88192 original size:14 final size:14
Alignment explanation
Indices: 88173--88199 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88163 ATCAAGTTTC
88173 TCTCTCAGTGGGTT
1 TCTCTCAGTGGGTT
88187 TCTCTCAGTGGGT
1 TCTCTCAGTGGGT
88200 AGAAACTCGA
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:0.22, G:0.30, T:0.41
Consensus pattern (14 bp):
TCTCTCAGTGGGTT
Found at i:89254 original size:2 final size:2
Alignment explanation
Indices: 89247--89293 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
89237 ATACAATAAA
* *
89247 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC AC CC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
89289 AC AC A
1 AC AC A
89294 TATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Done.