Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003192.1 Hibiscus syriacus cultivar Beakdansim tig00006716_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: 78206
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Found at i:15572 original size:27 final size:28
Alignment explanation
Indices: 15521--15578 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 28
15511 TTGGAGATAA
15521 TTTAGGTCATTTTACACTTTAGGGC-AT
1 TTTAGGTCATTTTACACTTTAGGGCAAT
15548 TTTA-GTCATTTTACA-TTTCAGGGGCAAT
1 TTTAGGTCATTTTACACTTT-A-GGGCAAT
15576 TTT
1 TTT
15579 TATAATACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.11
26 12 0.43
27 8 0.29
28 5 0.18
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (28 bp):
TTTAGGTCATTTTACACTTTAGGGCAAT
Found at i:18480 original size:19 final size:18
Alignment explanation
Indices: 18433--18480 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
18423 ACACTTTGCA
18433 TTTTGCATTTGCATTTTAC
1 TTTTGCA-TTGCATTTTAC
*
18452 TTTTCACATTGCATTTTATC
1 TTTT-GCATTGCATTTTA-C
18472 TTTTGCATT
1 TTTTGCATT
18481 AAATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (18 bp):
TTTTGCATTGCATTTTAC
Found at i:20610 original size:17 final size:18
Alignment explanation
Indices: 20573--20614 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
20563 TTTGACAATG
20573 AATAATAACTAAAATAAA
1 AATAATAACTAAAATAAA
20591 AATAA-AACTAATAAT-AA
1 AATAATAACTAA-AATAAA
20608 AATAATA
1 AATAATA
20615 TCATAATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AATAATAACTAAAATAAA
Found at i:20613 original size:11 final size:11
Alignment explanation
Indices: 20573--20614 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
20563 TTTGACAATG
20573 AATAATAACTAA
1 AATAATAA-TAA
*
20585 AATAAAAATAA
1 AATAATAATAA
20596 AACTAATAATAA
1 AA-TAATAATAA
20608 AATAATA
1 AATAATA
20615 TCATAATCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (11 bp):
AATAATAATAA
Found at i:22412 original size:54 final size:54
Alignment explanation
Indices: 22338--22830 Score: 546
Period size: 54 Copynumber: 9.1 Consensus size: 54
22328 GCACTAAGTG
* *
22338 AGTGTGCAAACCACGGAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* * * * **
22392 AGTGTGCAACCCACGAAATTCTTCATGTGTTTATGAACAATCGTATAGAAACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* * * * * * *
22446 AGCGTGCAACCCACGAAATTCATCATCT-TTTACTGAACCATCATATATGCACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGA-TGAACAACCGTATAGGCACTA
** * *
22500 AGTGTGCAACCTGCAAAATTCATCTTATGTTGATGAACAACCGTATAGGCACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* * * **
22554 AGTGTGCAACCCAC-AAAATCATCATATTTTGATGAACAACCATATAACCACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* * *
22607 AGTGTGCAACCCAC-ATAATTCATCATATGTTGATGGAGAACCGTATAGGCACAA
1 AGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* * * *
22661 ACTGTGCAACACATGGAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* *
22715 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAATCGTATATGCACTA
1 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
* * * * ***
22769 TA-TGTGCGAACCAATG-AATTCATAATATGTTTATGAATGGCCGTATAGGCACTA
1 -AGTGTGC-AACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
*
22823 CGTGTGCA
1 AGTGTGCA
22831 TCTCAATAAA
Statistics
Matches: 366, Mismatches: 66, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
53 53 0.14
54 303 0.83
55 10 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (54 bp):
AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
Found at i:22736 original size:215 final size:216
Alignment explanation
Indices: 22338--22781 Score: 529
Period size: 215 Copynumber: 2.1 Consensus size: 216
22328 GCACTAAGTG
* * * **
22338 AGTGTGCAAACCACGGAATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACC
1 AGTGTGCAAACCACGAAAATCATCATATGTTGATGAACAACCATATAACCACTAAGTGTGCAACC
* * * * * *
22403 CACGAAATTCTTCATGTGTTTATGAACAATCGTATAGAAACTAAGCGTGCAACCCACGAAATTCA
66 CACGAAATTCATCATATGTTGATGAACAACCGTATAGAAACTAAACGTGCAACACACGAAATTCA
* * * * * ** *
22468 TCATCTTTTACTGAACCATCATATATGCACTAAGTGTGCAACCTGCAAAATTCATCTTATGTTGA
131 TCATATTTGACTGAACAACCATATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGA
22533 TGAACAACCGTATAGGCACTA
196 TGAACAACCGTATAGGCACTA
* *
22554 AGTGTGCAACCCAC-AAAATCATCATATTTTGATGAACAACCATATAACCACTAAGTGTGCAACC
1 AGTGTGCAAACCACGAAAATCATCATATGTTGATGAACAACCATATAACCACTAAGTGTGCAACC
* * ** * *
22618 CAC-ATAATTCATCATATGTTGATGGAGAACCGTATAGGCAC-AAACTGTGCAACACATGGAATT
66 CACGA-AATTCATCATATGTTGATGAACAACCGTATAGAAACTAAAC-GTGCAACACACGAAATT
* *
22681 CATCATATGTTGA-TGAACAACCGTATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGT
129 CATCATAT-TTGACTGAACAACCATATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGT
* *
22745 TGATGAACAATCGTATATGCACTA
193 TGATGAACAACCGTATAGGCACTA
*
22769 TA-TGTGCGAACCA
1 -AGTGTGCAAACCA
22782 ATGAATTCAT
Statistics
Matches: 191, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
214 4 0.02
215 170 0.89
216 17 0.09
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (216 bp):
AGTGTGCAAACCACGAAAATCATCATATGTTGATGAACAACCATATAACCACTAAGTGTGCAACC
CACGAAATTCATCATATGTTGATGAACAACCGTATAGAAACTAAACGTGCAACACACGAAATTCA
TCATATTTGACTGAACAACCATATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGA
TGAACAACCGTATAGGCACTA
Found at i:22817 original size:269 final size:267
Alignment explanation
Indices: 22338--22830 Score: 650
Period size: 269 Copynumber: 1.8 Consensus size: 267
22328 GCACTAAGTG
* * * *
22338 AGTGTGCAAACCACGGAATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACC
1 AGTGTGCAAACCACAGAATTCATCATATGTTGATGAACAACCGTATAGGCACAAACTGTGCAACA
* * * *
22403 CACGAAATTCTTCATGTGTTTATGAACAATCGTATAGAAACTAAGCGTGCAACCCACGAAATTCA
66 CACGAAATTCATCATATGTTGATGAACAACCGTATAGAAACTAAGCGTGCAACCCACGAAATTCA
* * * **
22468 TCATCTTTTACTGAACCATCATATATGCACTAAGTGTGCAACCTGCAAAATTCATCTTATGTTGA
131 TCATATTTGACTGAACAATCATATATGCACTAAGTGTGCAACCTG--AAATTCATAATATGTTGA
22533 TGAACAACCGTATAGGCACTAAGTGTGCAACCCACAAAATCATCATATTTTGATGAACAACCATA
194 TGAACAACCGTATAGGCACTAAGTGTGCAACCCACAAAATCATCATATTTTGATGAACAACCATA
22598 TAACCACTA
259 TAACCACTA
* * * *
22607 AGTGTGCAACCCACATAATTCATCATATGTTGATGGAGAACCGTATAGGCACAAACTGTGCAACA
1 AGTGTGCAAACCACAGAATTCATCATATGTTGATGAACAACCGTATAGGCACAAACTGTGCAACA
* * ** *
22672 CATGGAATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACGAAATTCA
66 CACGAAATTCATCATATGTTGATGAACAACCGTATAGAAACTAAGCGTGCAACCCACGAAATTCA
*
22737 TCATATGTTGA-TGAACAATCGTATATGCACTATA-TGTGCGAACCAATG-AATTCATAATATGT
131 TCATAT-TTGACTGAACAATCATATATGCACTA-AGTGTGC-AACC--TGAAATTCATAATATGT
* *** *
22799 TTATGAATGGCCGTATAGGCACTACGTGTGCA
191 TGATGAACAACCGTATAGGCACTAAGTGTGCA
22831 TCTCAATAAA
Statistics
Matches: 191, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
269 181 0.95
270 8 0.04
272 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (267 bp):
AGTGTGCAAACCACAGAATTCATCATATGTTGATGAACAACCGTATAGGCACAAACTGTGCAACA
CACGAAATTCATCATATGTTGATGAACAACCGTATAGAAACTAAGCGTGCAACCCACGAAATTCA
TCATATTTGACTGAACAATCATATATGCACTAAGTGTGCAACCTGAAATTCATAATATGTTGATG
AACAACCGTATAGGCACTAAGTGTGCAACCCACAAAATCATCATATTTTGATGAACAACCATATA
ACCACTA
Found at i:29040 original size:54 final size:54
Alignment explanation
Indices: 28982--29189 Score: 213
Period size: 54 Copynumber: 3.9 Consensus size: 54
28972 CAAACCATAG
* *
28982 AATTCATCAAATGTTGATGAACAACCGTATAGGCACCAAGTGTGCAACCCACCA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* * * * * * ** * * *
29036 AATTCACCATGTTTTGCTAAACCATAGTATATGCACTAAGTGTGCAACCCGCGA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* * * *
29090 AATGCATCATATATTGATGAACAACGGTATAGCCACTAAGTGTGCAACCCA-CA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* *
29143 GAATTCATCATATGTTGATGGAGAACCGTATAGGCACTACA-TGTGCA
1 -AATTCATCATATGTTGATGAACAACCGTATAGGCACTA-AGTGTGCA
29190 TCTCAATGAA
Statistics
Matches: 120, Mismatches: 32, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
53 1 0.01
54 118 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
Found at i:29838 original size:70 final size:70
Alignment explanation
Indices: 29720--29859 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
29710 GGCTTTGTGG
* *
29720 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGGTATGAGTCTTGTGATGTATGTATCATGG
1 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
29785 AGCAA
66 AGCAA
29790 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
1 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
29855 AGCAA
66 AGCAA
29860 GACTTGCTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (70 bp):
TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
AGCAA
Found at i:31016 original size:22 final size:19
Alignment explanation
Indices: 30971--31035 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 19
30961 AATGGCATCA
30971 ATACCATAGTAGAGTATCG
1 ATACCATAGTAGAGTATCG
* *
30990 GTACCATAGTATAGTAGTATTG
1 ATACCATAG--TAG-AGTATCG
* *
31012 ATACCATGGTAGGGGTATCG
1 ATACCATAGTA-GAGTATCG
31032 ATAC
1 ATAC
31036 TAAGGAGCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 8 0.22
20 11 0.31
21 4 0.11
22 13 0.36
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (19 bp):
ATACCATAGTAGAGTATCG
Found at i:31435 original size:55 final size:55
Alignment explanation
Indices: 31374--31592 Score: 348
Period size: 55 Copynumber: 4.0 Consensus size: 55
31364 AAGTGCGCAA
* *
31374 AAACTTAAGAAATTCTTACTAAGTGGATGAATTTCTGTACGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
* * *
31429 AAACTTAATAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
31484 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
* ** * *
31539 AAACTTAAGAAATCCATACTAAGTGTCTGAATTTCTGTATGGGAAATATATGTG
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTG
31593 CAATTATCAG
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 151 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
Found at i:31972 original size:68 final size:68
Alignment explanation
Indices: 31850--32310 Score: 633
Period size: 68 Copynumber: 6.8 Consensus size: 68
31840 GAAAGGCTAA
* ** * * *
31850 GTGC-TTTGAAAGAAAGGTACCAATTATG-C--TTATATGAAATGCTAAGTGCATTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
31911 ACT
66 ACT
* * * * * *
31914 GTGCATTTGACATAATGGTTTCAATTATGCCAGTTAGATGAAAGCCTAAGTTCCTTTGAGGACTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
31979 ACT
66 ACT
* *
31982 GTGCATTTGACAGAAAGGTGTCAATTATACCCGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
32047 ACT
66 ACT
32050 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
32115 ACT
66 ACT
* *
32118 GTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
**
32183 GTT
66 ACT
* * * *
32186 GTGCATTTGACAAAAAGGTGTCAATTATGTCAGTTTGACGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
**
32251 GTT
66 ACT
* * * * *
32254 GTGCATTTGAAAAAAAGGTGTCAATCATGTCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
32311 AAGTAAAAAC
Statistics
Matches: 357, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
64 4 0.01
65 19 0.05
66 1 0.00
68 333 0.93
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (68 bp):
GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
ACT
Found at i:32405 original size:46 final size:45
Alignment explanation
Indices: 32350--32524 Score: 296
Period size: 46 Copynumber: 3.8 Consensus size: 45
32340 AATGTCATAT
*
32350 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTTTA
1 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
* *
32395 AAAAGGGGCATGGAAGGATGCCATAAATGAAATGTATAATAGTGAA
1 AAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
32441 AAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
1 AAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
*
32487 AAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAA
1 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAA
32525 GGGGTGCATT
Statistics
Matches: 123, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
45 37 0.30
46 86 0.70
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.21
Consensus pattern (45 bp):
AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
Found at i:34621 original size:54 final size:54
Alignment explanation
Indices: 34563--34770 Score: 213
Period size: 54 Copynumber: 3.9 Consensus size: 54
34553 CAAACCATAG
* *
34563 AATTCATCAAATGTTGATGAACAACCGTATAGGCACCAAGTGTGCAACCCACCA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* * * * * * ** * * *
34617 AATTCACCATGTTTTGCTAAACCATAGTATATGCACTAAGTGTGCAACCCGCGA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* * * *
34671 AATGCATCATATATTGATGAACAACGGTATAGCCACTAAGTGTGCAACCCA-CA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* *
34724 GAATTCATCATATGTTGATGGAGAACCGTATAGGCACTACA-TGTGCA
1 -AATTCATCATATGTTGATGAACAACCGTATAGGCACTA-AGTGTGCA
34771 TCTCAATGAA
Statistics
Matches: 120, Mismatches: 32, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
53 1 0.01
54 118 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
Found at i:35419 original size:70 final size:70
Alignment explanation
Indices: 35301--35440 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
35291 GGCTTTGTGG
* *
35301 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGGTATGAGTCTTGTGATGTATGTATCATGG
1 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
35366 AGCAA
66 AGCAA
35371 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
1 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
35436 AGCAA
66 AGCAA
35441 GACTTGCTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (70 bp):
TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
AGCAA
Found at i:36596 original size:22 final size:19
Alignment explanation
Indices: 36551--36615 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 19
36541 AATGGCATCA
36551 ATACCATAGTAGAGTATCG
1 ATACCATAGTAGAGTATCG
* *
36570 GTACCATAGTATAGTAGTATTG
1 ATACCATAG--TAG-AGTATCG
* *
36592 ATACCATGGTAGGGGTATCG
1 ATACCATAGTA-GAGTATCG
36612 ATAC
1 ATAC
36616 TAAGGAGCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 8 0.22
20 11 0.31
21 4 0.11
22 13 0.36
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (19 bp):
ATACCATAGTAGAGTATCG
Found at i:37015 original size:55 final size:55
Alignment explanation
Indices: 36954--37172 Score: 357
Period size: 55 Copynumber: 4.0 Consensus size: 55
36944 AAGTGCGCAA
*
36954 AAACTTAAGAAATTCTTACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
* * *
37009 AAACTTAATAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
37064 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
* ** * *
37119 AAACTTAAGAAATCCATACTAAGTGTCTGAATTTCTGTATGGGAAATATATGTG
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTG
37173 CAATTATCAG
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 152 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGT
Found at i:37553 original size:68 final size:68
Alignment explanation
Indices: 37431--37891 Score: 624
Period size: 68 Copynumber: 6.8 Consensus size: 68
37421 GAAAGGCTAA
* ** * * *
37431 GTGC-TTTGAAAGAAAGGTACCAATTATG-C--TTATATGAAATGCTAAGTGCATTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
37492 ACT
66 ACT
* * * * * *
37495 GTGCATTTGACATAATGGTTTCAATTATGCCAGTTAGATGAAAGCCTAAGTTCCTTTGAGGACTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
37560 ACT
66 ACT
* *
37563 GTGCATTTGACAGAAAGGTGTCAATTATACCCGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
37628 ACT
66 ACT
37631 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
37696 ACT
66 ACT
* *
37699 GTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
**
37764 GTT
66 ACT
* * * * *
37767 GTGCATTTGACAAAAAGGTGTCAATTATGTCGGTTTGACGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
**
37832 GTT
66 ACT
* * * * *
37835 GTGCATTTGAAAAAAAGGTGTCAATCATGTCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
37892 AAGTAAAAAC
Statistics
Matches: 355, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
64 4 0.01
65 19 0.05
66 1 0.00
68 331 0.93
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (68 bp):
GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
ACT
Found at i:37986 original size:46 final size:45
Alignment explanation
Indices: 37931--38105 Score: 296
Period size: 46 Copynumber: 3.8 Consensus size: 45
37921 AATGTCATAT
*
37931 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTTTA
1 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
* *
37976 AAAAGGGGCATGGAAGGATGCCATAAATGAAATGTATAATAGTGAA
1 AAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
38022 AAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
1 AAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
*
38068 AAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAA
1 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAA
38106 GGGGTGCATT
Statistics
Matches: 123, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
45 37 0.30
46 86 0.70
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.21
Consensus pattern (45 bp):
AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
Found at i:40200 original size:54 final size:54
Alignment explanation
Indices: 40142--40349 Score: 222
Period size: 54 Copynumber: 3.9 Consensus size: 54
40132 CAAACCATAG
* *
40142 AATTCATCAAATGTTGATGAACAACCGTATAGGCACCAAGTGTGCAACCCACCA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* * * * * * ** * * *
40196 AATTCACCATGTTTTGCTAAACCATAGTATATGCACTAAGTGTGCAACCCGCGA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* * *
40250 AATTCATCATATATTGATGAACAACGGTATAGCCACTAAGTGTGCAACCCA-CA
1 AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
* *
40303 GAATTCATCATATGTTGATGGAGAACCGTATAGGCACTACA-TGTGCA
1 -AATTCATCATATGTTGATGAACAACCGTATAGGCACTA-AGTGTGCA
40350 TCTCAATGAA
Statistics
Matches: 122, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAACCCACCA
Found at i:41017 original size:71 final size:70
Alignment explanation
Indices: 40879--41019 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 70
40869 GGCTTTGTGG
* *
40879 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGGTATGAGTCTTGTGATGTATGTATCATGG
1 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
40944 AGCAA
66 AGCAA
40949 TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTTGATATGAGCCTTGTGATGTATGTATCATG
1 TGTGAAACAATTTAAATGTTAGTCCATCTTC-TTTTGATATGAGCCTTGTGATGTATGTATCATG
41014 GAGCAA
65 GAGCAA
41020 GACTTGCTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 31 0.46
71 37 0.54
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (70 bp):
TGTGAAACAATTTAAATGTTAGTCCATCTTCTTTTGATATGAGCCTTGTGATGTATGTATCATGG
AGCAA
Found at i:41887 original size:68 final size:68
Alignment explanation
Indices: 41765--42225 Score: 651
Period size: 68 Copynumber: 6.8 Consensus size: 68
41755 GAAAGGCTAA
* * * * *
41765 GTGC-TTTGAAAGAAAGGTGCCAATTATGCC---TATATGAAATGCTAAGTGCATTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
41826 ACT
66 ACT
* * * * * *
41829 GTGCATTTGACATAATGGTTTCAATTATGCCAGTTAGATGAAAGCCTAAGTTCCTTTGAGGACTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
41894 ACT
66 ACT
* *
41897 GTGCATTTGACAGAAAGGTGTCAATTATACCCGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
41962 ACT
66 ACT
41965 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
42030 ACT
66 ACT
* *
42033 GTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
**
42098 GTT
66 ACT
* * * *
42101 GTGCATTTGACAAAAAGGTGTCAATTATGTCAGTTTGACGAAAGGCTAAGTGCCTTTGAGGCCTA
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
**
42166 GTT
66 ACT
* * * *
42169 GTGCATTTGAAAAAAAGGTGTCAATCATGTCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
42226 AAGTAAAAAC
Statistics
Matches: 358, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
64 4 0.01
65 21 0.06
68 333 0.93
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
ACT
Found at i:42320 original size:46 final size:45
Alignment explanation
Indices: 42265--42439 Score: 287
Period size: 46 Copynumber: 3.8 Consensus size: 45
42255 AATGTCATAT
*
42265 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTTTA
1 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
* *
42310 AAAAGGGGCATGGAAGGATGCCATAAATGAAATGTATAATAGTGAA
1 AAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
*
42356 AAAAGGGGCATGAAAGGATTCCATAAATGAAATGTATAATAGTGTA
1 AAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
*
42402 AAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAA
1 AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAA
42440 GGGGTGCATT
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 36 0.30
46 85 0.70
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.21
Consensus pattern (45 bp):
AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTA
Found at i:45168 original size:55 final size:55
Alignment explanation
Indices: 45082--45261 Score: 261
Period size: 55 Copynumber: 3.2 Consensus size: 55
45072 ATTACCAAAT
* *
45082 GGCACTAAATGTGTAAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
1 GGCACTATATGTGT--AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
*
45139 GGCACTATATGTGTAAACTTAAGAAATTCATACTAAGAGGATGAATTTCTGTATG
1 GGCACTATATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* * * *
45194 GGCACTATATGTGTAAACTTAATAAATCCATACTAAGTGTATGAATTTTTGTATG
1 GGCACTATATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* *
45249 GGAAATATATGTG
1 GGCACTATATGTG
45262 CAATTATCAG
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 100 0.88
57 13 0.12
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (55 bp):
GGCACTATATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
Found at i:45286 original size:110 final size:111
Alignment explanation
Indices: 45082--45295 Score: 256
Period size: 110 Copynumber: 1.9 Consensus size: 111
45072 ATTACCAAAT
* * *
45082 GGCACTAAATGTGTAAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTAT
1 GGCACTAAATGTGT-AAAACTTAAGAAATCCATACTAAGTGGATGAATTTCCGTATGGGAAATAT
*
45147 ATGTGTAAACTTAAGAAATTCATACTAAG-AGGATGAATTTCTGTATG
65 ATGTGTAAACTTAAGAAATTCATAATAAGAAGG-TGAATTTCTGTATG
* * * **
45194 GGCACTATATGTGT-AAACTTAATAAATCCATACTAAGTGTATGAATTTTTGTATGGGAAATATA
1 GGCACTAAATGTGTAAAACTTAAGAAATCCATACTAAGTGGATGAATTTCCGTATGGGAAATATA
* * *
45258 TGTG-CAA-TTATCAGAAGTTGATAATAAGAAGGTGAATT
66 TGTGTAAACTTA--AGAAATTCATAATAAGAAGGTGAATT
45296 ATCGTATTGG
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
108 3 0.03
109 2 0.02
110 66 0.76
111 3 0.03
112 13 0.15
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (111 bp):
GGCACTAAATGTGTAAAACTTAAGAAATCCATACTAAGTGGATGAATTTCCGTATGGGAAATATA
TGTGTAAACTTAAGAAATTCATAATAAGAAGGTGAATTTCTGTATG
Found at i:45543 original size:68 final size:68
Alignment explanation
Indices: 45460--46206 Score: 992
Period size: 68 Copynumber: 11.0 Consensus size: 68
45450 AGATTAATAA
* * * *
45460 CCTAACTGTGTATTTGACAAAAAGGTGTCAATTATGCAAATTAAATGAAAGGCTAAGTG-CTGTT
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT-TT
45524 GAGG
65 GAGG
* * *
45528 CCTAACTGTGCATTTGACAGAAAGGTGTCAATTAAGCCAGTTAGATGAAAGGATAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
45593 AGG
66 AGG
* *** * *
45596 CCTAACTGTGTATTTGATGGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAGAGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
45661 AGG
66 AGG
* * * *
45664 CTTAATTGCGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
45729 AGG
66 AGG
* ** * * * * *
45732 TCTAGTTATACATTTGACAGAAAGTTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
45797 AGG
66 AGG
* * * * *
45800 CCTAACTGTGCATTTGAAAAAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAATTGTCTTTT
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
45865 AGG
66 AGG
* *
45868 CCTAACTGTGCATTTTACAAAAGGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
45933 AGG
66 AGG
* * * *
45936 CCTAACTGTGCATTTGATAGAAATGTGTCAATTATCCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
46001 AGG
66 AGG
* * * * * *
46004 CCTAACTGTGCATTTGACATAAATGTGTGAATTAGGCCAATTAGATGAAAAGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
46069 AGG
66 AGG
* ** * * * *
46072 CCTAGCTGTGCATTTGACAAAAAGGTGGAAATTATGCCAATTAAATGAAAAGATAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
46137 AGG
66 AGG
* * * * *
46140 CTTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
46205 AG
66 AG
46207 TAAAAGACTA
Statistics
Matches: 596, Mismatches: 82, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
68 594 1.00
69 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:46353 original size:45 final size:45
Alignment explanation
Indices: 46237--46452 Score: 258
Period size: 46 Copynumber: 4.8 Consensus size: 45
46227 AATTCTCGTT
46237 TAAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
1 TAAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* * * *
46281 TAAGAAGAGGCATGAAAGAATGCCATAAATAAAATGTATAACAGTG
1 TAA-AAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* ** *
46327 TAAAAGGGGCATGAAAGGATGCCATAAATAAAATAAATAATAATG
1 TAAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* * *
46372 TAAAAAGGGGCATGATAGGATGCTATAAATGAAATGCATAATA-TCG
1 T-AAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGT-G
* *
46418 TATAAA-AGGCATGAAAGGGTGCCATAAATGAAATG
1 TA-AAAGGGGCATGAAAGGATGCCATAAATGAAATG
46453 CATAGGGGTG
Statistics
Matches: 148, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.02
45 66 0.45
46 79 0.53
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (45 bp):
TAAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
Found at i:46400 original size:91 final size:90
Alignment explanation
Indices: 46237--46451 Score: 270
Period size: 91 Copynumber: 2.4 Consensus size: 90
46227 AATTCTCGTT
** * *
46237 TAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTAAGAAGAGGCATGAAAGAAT
1 TAAAAGGGCATGAAAGGATGCCATAAATGAAATAAATAATAATGTAAAAAGAGGCATGAAAGAAT
*
46302 GCCATAAATAAAATGTATAACAGT-G
66 GCCATAAATAAAATGCATAACA-TCG
* * * *
46327 TAAAAGGGGCATGAAAGGATGCCATAAATAAAATAAATAATAATGTAAAAAGGGGCATGATAGGA
1 TAAAA-GGGCATGAAAGGATGCCATAAATGAAATAAATAATAATGTAAAAAGAGGCATGAAAGAA
* * *
46392 TGCTATAAATGAAATGCATAATATCG
65 TGCCATAAATAAAATGCATAACATCG
* *
46418 TATAAAAGGCATGAAAGGGTGCCATAAATGAAAT
1 TA-AAAGGGCATGAAAGGATGCCATAAATGAAAT
46452 GCATAGGGGT
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
90 6 0.06
91 98 0.92
92 3 0.03
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (90 bp):
TAAAAGGGCATGAAAGGATGCCATAAATGAAATAAATAATAATGTAAAAAGAGGCATGAAAGAAT
GCCATAAATAAAATGCATAACATCG
Found at i:46453 original size:45 final size:44
Alignment explanation
Indices: 46237--46456 Score: 244
Period size: 45 Copynumber: 4.9 Consensus size: 44
46227 AATTCTCGTT
* *
46237 TAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
1 TAAAAAGGCATGAAAGGATGCCATAAATGAAATGCATAATAGTG
* * * *
46281 TAAGAAGAGGCATGAAAGAATGCCATAAATAAAATGTATAACAGTG
1 TAA-AA-AGGCATGAAAGGATGCCATAAATGAAATGCATAATAGTG
* * ** *
46327 TAAAAGGGGCATGAAAGGATGCCATAAATAAAATAAATAATAATG
1 TAAAA-AGGCATGAAAGGATGCCATAAATGAAATGCATAATAGTG
* *
46372 TAAAAAGGGGCATGATAGGATGCTATAAATGAAATGCATAATA-TCG
1 TAAAAA--GGCATGAAAGGATGCCATAAATGAAATGCATAATAGT-G
*
46418 TATAAAAGGCATGAAAGGGTGCCATAAATGAAATGCATA
1 TA-AAAAGGCATGAAAGGATGCCATAAATGAAATGCATA
46457 GGGGTGAATT
Statistics
Matches: 151, Mismatches: 19, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
44 3 0.02
45 73 0.48
46 71 0.47
47 4 0.03
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (44 bp):
TAAAAAGGCATGAAAGGATGCCATAAATGAAATGCATAATAGTG
Found at i:49307 original size:45 final size:45
Alignment explanation
Indices: 49256--49480 Score: 321
Period size: 45 Copynumber: 5.0 Consensus size: 45
49246 TACAACTTTC
* * *
49256 TTACCAATATACATATCATTT-ATCGCATAAGCTCGTAAACTTATT
1 TTACCAATATACTTACCATTTAATC-CATAAGCTCGTAAGCTTATT
49301 TTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATT
* *
49346 TTACCAACATACTGACCATTTAATCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATT
* *
49391 TTACCAACATGCTTACCATTTAATCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATT
* * *
49436 TTACCAATATACTTGCCA-TT-ATACCATAAGCTCTTAAGTTTATT
1 TTACCAATATACTTACCATTTAAT-CCATAAGCTCGTAAGCTTATT
49480 T
1 T
49481 GCATGCTTAC
Statistics
Matches: 166, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
43 2 0.01
44 22 0.13
45 139 0.84
46 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (45 bp):
TTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATT
Found at i:49640 original size:40 final size:40
Alignment explanation
Indices: 49585--49745 Score: 252
Period size: 40 Copynumber: 4.0 Consensus size: 40
49575 ACCGTAGTGC
*
49585 TACACATAAGGTCGTGCCCACCATATACATCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
* *
49625 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
49665 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
* * *
49705 TACACATAAAGTCGTG-TCACCATATACACTAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
49744 TA
1 TA
49746 TAAACCTGCA
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 22 0.19
40 91 0.81
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:55636 original size:23 final size:25
Alignment explanation
Indices: 55595--55641 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
55585 ATGGTCGAGG
55595 AAATAAAAATATGTAAAGG-TAAAA
1 AAATAAAAATATGTAAAGGCTAAAA
* *
55619 AAATAAAAGT-TGTCAAGGCTAAA
1 AAATAAAAATATGTAAAGGCTAAA
55642 GTTATCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.21
Consensus pattern (25 bp):
AAATAAAAATATGTAAAGGCTAAAA
Found at i:60463 original size:44 final size:44
Alignment explanation
Indices: 60388--60563 Score: 250
Period size: 44 Copynumber: 4.0 Consensus size: 44
60378 CTGCTCTAAA
*
60388 ATAAATGAAAATGCA-AACGGTGCATTATTGGCAGAAAGGTTCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTTCC
* * *
60431 ATAAATAAAAATGCATAATGGTGCATTATTGGCAGTAAGGTACC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTTCC
*
60475 ATAAATGAAAATGCATAAAGGTGCATTATTGGCAGAAAGGTGT-C
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGT-TCC
* *
60519 ATAAATGAAAATGCATAACT-ATGCATTATTGGCAGACAGGTTCC
1 ATAAATGAAAATGCATAA-TGGTGCATTATTGGCAGAAAGGTTCC
60563 A
1 A
60564 CTCATGGTAT
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
43 15 0.13
44 103 0.87
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTTCC
Found at i:64150 original size:30 final size:31
Alignment explanation
Indices: 64116--64179 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
64106 TAGATCACCT
64116 TTTGATTTCACT-TTTTCTTTT-CTTTCTTGC
1 TTTGATTT-ACTATTTTCTTTTGCTTTCTTGC
** *
64146 TTTGATTTTGTATTTTCTTTTGCTTTCTTTC
1 TTTGATTTACTATTTTCTTTTGCTTTCTTGC
64177 TTT
1 TTT
64180 TTCCACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 17 0.59
31 11 0.38
ACGTcount: A:0.06, C:0.16, G:0.08, T:0.70
Consensus pattern (31 bp):
TTTGATTTACTATTTTCTTTTGCTTTCTTGC
Found at i:67519 original size:24 final size:24
Alignment explanation
Indices: 67492--67541 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
67482 CAAACATATA
67492 AACACATTGCAAATCAGATAAAAC
1 AACACATTGCAAATCAGATAAAAC
*
67516 AACACATTGCACATCAGATAAAAC
1 AACACATTGCAAATCAGATAAAAC
67540 AA
1 AA
67542 TCATGTGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.22, G:0.08, T:0.16
Consensus pattern (24 bp):
AACACATTGCAAATCAGATAAAAC
Found at i:74383 original size:105 final size:105
Alignment explanation
Indices: 74192--74391 Score: 258
Period size: 105 Copynumber: 1.9 Consensus size: 105
74182 TCCTCAGTTC
* * * *
74192 TACTATCTGAGGTTGCACCAACTACCTTTTTCTAAACTGCTACTTCTAGAGGAGTAACACCTACA
1 TACTATCTGAGGTTACACCAACTACCTCTTGCTAAACTGCTACTCCTAGAGGAGTAACACCTACA
**
74257 TCCAAAGTAGCATGATTCGTCTCACCAGAATCCCCAGCTG
66 TCCAAAGTAGCATGACCCGTCTCACCAGAATCCCCAGCTG
* * * * * *
74297 TACTATCTGAGGTTACATCAGCTACCTCTTGCTGAACTGTTACTCCTAGAGGAGTAACACTTGCA
1 TACTATCTGAGGTTACACCAACTACCTCTTGCTAAACTGCTACTCCTAGAGGAGTAACACCTACA
* *
74362 TTCACAA-TAGCCTGACCCGTCTCACCAGAA
66 TCCA-AAGTAGCATGACCCGTCTCACCAGAA
74392 AAATTAAAAG
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 78 0.98
106 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (105 bp):
TACTATCTGAGGTTACACCAACTACCTCTTGCTAAACTGCTACTCCTAGAGGAGTAACACCTACA
TCCAAAGTAGCATGACCCGTCTCACCAGAATCCCCAGCTG
Done.