Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004080.1 Hibiscus syriacus cultivar Beakdansim tig00008928_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: 81756
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Found at i:4525 original size:18 final size:17
Alignment explanation
Indices: 4471--4519 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
4461 TTGGACCCTT
* *
4471 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
4489 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
4507 AGTGCATTCGATG
1 AGTGCA-TCGATG
4520 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:13301 original size:65 final size:64
Alignment explanation
Indices: 13103--13312 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 64
13093 TACACTAAGA
* * * * *
13103 GTGCATCGATGCATCAAGTGTATTCGATGTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGGTTG
* * **
13167 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTTAGTGCATCGCTGCATGGTAA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGTTG
* ** * *
13232 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGG-TT
13296 G
64 G
13297 GTGCATC-AGTGCATCA
1 GTGCATCGA-TGCATCA
13313 CTCTGAAAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
63 3 0.02
64 50 0.41
65 66 0.54
66 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTTG
Found at i:19458 original size:20 final size:20
Alignment explanation
Indices: 19433--19477 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
19423 TTAGTTTGGC
*
19433 TTTTTTTTAAAAAAAGCTT-
1 TTTTTTTTTAAAAAAGCTTA
19452 TTTTTTTTTAAAAAAGCTTA
1 TTTTTTTTTAAAAAAGCTTA
19472 TTTTTT
1 TTTTTT
19478 ATGAAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTTTTTTAAAAAAGCTTA
Found at i:19484 original size:20 final size:18
Alignment explanation
Indices: 19431--19484 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
19421 TTTTAGTTTG
19431 GCTTTTTTTTA-AAAAAA
1 GCTTTTTTTTATAAAAAA
*
19448 GCTTTTTTTTTTTAAAAAA
1 GC-TTTTTTTTATAAAAAA
*
19467 GCTTATTTTTTATGAAAA
1 GCTT-TTTTTTATAAAAA
19485 TCAACTTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 2 0.06
18 10 0.32
19 19 0.61
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (18 bp):
GCTTTTTTTTATAAAAAA
Found at i:21786 original size:13 final size:13
Alignment explanation
Indices: 21770--21798 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21760 AAGTGCGTTT
21770 AAAAAGTCACGCC
1 AAAAAGTCACGCC
21783 AAAAAGTCACGCC
1 AAAAAGTCACGCC
21796 AAA
1 AAA
21799 CGAGCCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.28, G:0.14, T:0.07
Consensus pattern (13 bp):
AAAAAGTCACGCC
Found at i:22582 original size:12 final size:13
Alignment explanation
Indices: 22565--22638 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 13
22555 TGACGACCCA
22565 GAGGATGGA-GAT
1 GAGGATGGAGGAT
22577 GAGGAT-GAGGAT
1 GAGGATGGAGGAT
22589 GAGGAT-GAGGAT
1 GAGGATGGAGGAT
* *
22601 GACGAT-GACGAT
1 GAGGATGGAGGAT
* *
22613 GACGATGATGACGAT
1 GAGGATG--GAGGAT
*
22628 GATGATGGAGG
1 GAGGATGGAGG
22639 TGAAGAGGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
11 2 0.04
12 37 0.69
13 3 0.06
15 12 0.22
ACGTcount: A:0.32, C:0.05, G:0.45, T:0.18
Consensus pattern (13 bp):
GAGGATGGAGGAT
Found at i:22634 original size:6 final size:6
Alignment explanation
Indices: 22565--22620 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
22555 TGACGACCCA
* *
22565 GAGGAT G-GAGAT GAGGAT GAGGAT GAGGAT GAGGAT GACGAT GACGAT
1 GAGGAT GAG-GAT GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT
*
22613 GACGAT GA
1 GAGGAT GA
22621 TGACGATGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
5 1 0.02
6 45 0.96
7 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.45, T:0.16
Consensus pattern (6 bp):
GAGGAT
Found at i:36046 original size:21 final size:21
Alignment explanation
Indices: 36025--36117 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
36015 TTTTCCCAAT
*
36025 TCGCAATGCGAATAA-GTAAA
1 TCGCAATGCGAATAAGGAAAA
* * **
36045 TTGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGGAAAA
*
36066 TCGCAATGCGAATAA-GTAAA
1 TCGCAATGCGAATAAGGAAAA
* **
36086 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGGAAAA
36107 TCGCAATGCGA
1 TCGCAATGCGA
36118 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATAAGGAAAA
Found at i:36055 original size:20 final size:20
Alignment explanation
Indices: 36025--36098 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
36015 TTTTCCCAAT
*
36025 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
* ** *
36045 TTGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
36066 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
36086 TCGCAACGCGAAT
1 TCGCAACGCGAAT
36099 TGGGAAAATC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:36070 original size:41 final size:41
Alignment explanation
Indices: 36025--36117 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
36015 TTTTCCCAAT
*
36025 TCGCAATGCGAATAAGTAAATTGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
36066 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
36107 TCGCAATGCGA
1 TCGCAATGCGA
36118 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:36130 original size:41 final size:41
Alignment explanation
Indices: 36047--36240 Score: 137
Period size: 41 Copynumber: 4.8 Consensus size: 41
36037 TAAGTAAATT
* *
36047 GCAACGCGA-ATTGGGAAAATCGCAATGCGAATA-AGTA-AATC
1 GCAACGCGATATT-GGAAAATCGCAATGCG-ATACTG-ACTATC
36088 GCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACTATC
1 GCAACGCGATATT-GGAAAATCGCAATGCGATACTGACTATC
* * ** * * * *
36129 GCAATGCGATAATACAAAATCGCAACGAGATACTTACTTTC
1 GCAACGCGATATTGGAAAATCGCAATGCGATACTGACTATC
* *** * *
36170 GCAACGCGATACT-GACTTTCGCAATGCGATTCTGACTTTC
1 GCAACGCGATATTGGAAAATCGCAATGCGATACTGACTATC
* ** *
36210 GCAACGCGATAATACATAATCGCAATGCGAT
1 GCAACGCGATATTGGAAAATCGCAATGCGAT
36241 TTTCAAAGCG
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 35 0.28
41 87 0.70
42 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
GCAACGCGATATTGGAAAATCGCAATGCGATACTGACTATC
Found at i:36131 original size:20 final size:20
Alignment explanation
Indices: 36106--36240 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
36096 AATTGGGAAA
36106 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
36126 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
36147 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
36167 TTCGCAACGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
36187 TTCGCAATGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
36207 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
36227 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
36241 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 64 0.68
21 24 0.26
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:36436 original size:22 final size:22
Alignment explanation
Indices: 36408--36451 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36398 CACTCTCTCA
36408 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
36430 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
36452 TATCTCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:36740 original size:20 final size:20
Alignment explanation
Indices: 36715--36752 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36705 CGATTCTCTC
36715 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
36735 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
36753 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:36943 original size:25 final size:24
Alignment explanation
Indices: 36889--36943 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
36879 TGTTTATTAT
* *
36889 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
36913 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
36939 TGTTT
1 TGTTT
36944 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:38092 original size:18 final size:18
Alignment explanation
Indices: 38071--38115 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
38061 TCCACTTCGG
*
38071 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
38089 GAGCTATCACTTCACCCA
1 GAGCCATCACCTCACCCA
*
38107 GAGTCATCA
1 GAGCCATCA
38116 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.40, G:0.16, T:0.18
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:38651 original size:19 final size:20
Alignment explanation
Indices: 38597--38663 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
38587 TAGTTTACTT
* *
38597 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
38617 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
38637 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
38656 TCGCAACG
1 TCGCAACG
38664 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:38709 original size:19 final size:18
Alignment explanation
Indices: 38667--38711 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
38657 CGCAACGACA
**
38667 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAAAC
38685 AAATCGCAACGCGAAACAC
1 AAATCGCAACGCGAAA-AC
38704 AAATCGCA
1 AAATCGCA
38712 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAAAAC
Found at i:38748 original size:14 final size:14
Alignment explanation
Indices: 38729--38786 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
38719 TTTCATTTCG
38729 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
38743 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
38759 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
38775 CGTTGCGATTTT
1 CGTTGCGATTTT
38787 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:38793 original size:33 final size:33
Alignment explanation
Indices: 38712--38802 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
38702 ACAAATCGCA
38712 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
38745 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
38777 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
38803 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:38821 original size:20 final size:19
Alignment explanation
Indices: 38787--38842 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
38777 TTGCGATTTT
*
38787 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
38806 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
38826 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
38843 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:40732 original size:14 final size:14
Alignment explanation
Indices: 40713--40748 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
40703 ATTGTTTAAT
40713 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
40727 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
40741 TGATTTGT
1 TGATTTGT
40749 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:40887 original size:19 final size:19
Alignment explanation
Indices: 40865--40932 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
40855 ATCGCAACGA
40865 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
40884 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
40903 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
40917 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
40933 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:40976 original size:20 final size:20
Alignment explanation
Indices: 40951--40988 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
40941 TCGCATTGCG
40951 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
40971 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
40989 TCAAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:42050 original size:24 final size:24
Alignment explanation
Indices: 42023--42076 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
42013 GTATTCGAAA
* *
42023 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
42047 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
42071 TTTGAT
1 TTTGAT
42077 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:42268 original size:12 final size:12
Alignment explanation
Indices: 42251--42275 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42241 ATATAATCCT
42251 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42263 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42275 G
1 G
42276 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:44589 original size:19 final size:19
Alignment explanation
Indices: 44567--44697 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
44557 GGAAATTACT
44567 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44586 ATCGCAA--C--AA-GAGA
1 ATCGCAATGCGAAATGAAA
44600 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
44619 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
44633 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
44652 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
44666 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44685 ATCGCAACGCGAA
1 ATCGCAATGCGAA
44698 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 4 0.05
16 5 0.06
17 5 0.06
18 4 0.05
19 39 0.46
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:44674 original size:66 final size:66
Alignment explanation
Indices: 44568--44700 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
44558 GAAATTACTA
*
44568 TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
44633 T
66 T
* *
44634 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
44699 T
66 T
44700 T
1 T
44701 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:44693 original size:33 final size:33
Alignment explanation
Indices: 44567--44693 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
44557 GGAAATTACT
*
44567 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
44600 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
44632 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
44666 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
44694 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:44715 original size:19 final size:20
Alignment explanation
Indices: 44693--44737 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
44683 AAATCGCAAC
44693 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
44712 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
44732 GC-AATT
1 GCGAATT
44738 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:44893 original size:14 final size:14
Alignment explanation
Indices: 44874--44910 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
44864 CATCAATTAA
44874 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
44888 ACAAATCACCTTTT
1 ACAAATCAACTTTT
44902 ACAAATCAA
1 ACAAATCAA
44911 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:46333 original size:21 final size:21
Alignment explanation
Indices: 46267--46333 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46257 GTGAATCGGG
*
46267 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
46287 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
46309 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
46330 CTCT
1 CTCT
46334 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:46352 original size:42 final size:41
Alignment explanation
Indices: 46267--46389 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
46257 GTGAATCGGG
* * * *
46267 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
46309 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
46351 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
46390 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:48439 original size:20 final size:19
Alignment explanation
Indices: 48394--48578 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
48384 TCTTTTGGTT
*
48394 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
48413 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
48433 GGAAATGACTATCGTAA--C
1 -GAAATGAAAATCGCAACGC
*
48451 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
48467 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
* *
48485 ---A-GACAATCGCAGCGC
1 GAAATGAAAATCGCAACGC
48500 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
48520 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
48539 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
48558 AAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
48577 GA
1 GA
48579 TTTTTGTTTC
Statistics
Matches: 132, Mismatches: 21, Indels: 26
0.74 0.12 0.15
Matches are distributed among these distances:
14 17 0.13
15 3 0.02
16 2 0.02
17 1 0.01
18 4 0.03
19 59 0.45
20 44 0.33
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:48476 original size:33 final size:33
Alignment explanation
Indices: 48419--48517 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
48409 ACGAGATAAT
* *
48419 GAGAATCGCAACGCGGAAATGACTATCGTAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
48453 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* * **
48486 GACAATCGCAGCGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
48518 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 43 0.75
34 14 0.25
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:48532 original size:39 final size:38
Alignment explanation
Indices: 48489--48578 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 38
48479 GCGACCAGAC
* *
48489 AATCGCAGCGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCAAAATAAA
*
48528 AATCGCAACGCGAAATGAAAATCGCAACGCAAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCAAAATAAA
*
48566 AATCGCAATGCGA
1 AATCGCAACGCGA
48579 TTTTTGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.45
39 26 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCAAAATAAA
Found at i:48596 original size:19 final size:19
Alignment explanation
Indices: 48574--48640 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
48564 AAAATCGCAA
*
48574 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
48593 TGCG-TTTTTCATTTCGCGT
1 TGCGATTTTT-ATTTCGCGT
**
48612 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
48632 TGCGATTTT
1 TGCGATTTT
48641 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.12
19 20 0.50
20 15 0.38
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:49183 original size:20 final size:20
Alignment explanation
Indices: 49158--49210 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
49148 GCGCTATGTA
49158 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
49178 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
49198 TATCTCGTTGCGA
1 AATCGCGTTGCGA
49211 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:49229 original size:21 final size:21
Alignment explanation
Indices: 49196--49296 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 21
49186 TGCGAAAGTC
* *
49196 AGTATCTCGTTGCGATTTTGT
1 AGTATCGCATTGCGATTTTGT
* *
49217 ATTATCGCATTGCGATTTTGC
1 AGTATCGCATTGCGATTTTGT
* *
49238 ATTATCGCATTGCGA--TAGT
1 AGTATCGCATTGCGATTTTGT
**
49257 AAGTATCGCATTGCGATAGT-T
1 -AGTATCGCATTGCGATTTTGT
49278 AGTATCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
49297 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 31 0.47
21 33 0.50
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTGT
Found at i:49265 original size:20 final size:20
Alignment explanation
Indices: 49240--49293 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
49230 GATTTTGCAT
49240 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
49260 TATCGCATTGCGATAGTTAG
1 TATCGCATTGCGATAGTAAG
49280 TATCGCATTGCGAT
1 TATCGCATTGCGAT
49294 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:49312 original size:82 final size:80
Alignment explanation
Indices: 49159--49334 Score: 183
Period size: 82 Copynumber: 2.2 Consensus size: 80
49149 CGCTATGTAA
* * * * * ** *
49159 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
*
49224 CATTGCGATTTTGCATT
66 CATTGCGA-TTTAC-TT
* * * *
49241 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTTAGTATCGCATTGCGATTTTCCCAAT-TC
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATC
*
49305 GCGTTGCGATTTACTT
65 GCATTGCGATTTACTT
49321 ATTCGCATTGCGAA
1 A-TCGCATTGCGAA
49335 TTGGGAAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
80 3 0.04
81 15 0.19
82 57 0.74
83 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (80 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
CATTGCGATTTACTT
Found at i:49404 original size:21 final size:21
Alignment explanation
Indices: 49364--49404 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49354 ACTGTATACC
**
49364 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
49385 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
49405 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:49434 original size:20 final size:20
Alignment explanation
Indices: 49411--49456 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
49401 CAACGCGAAT
*
49411 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
49431 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
49450 TTGCGAT
1 TTGCGAT
49457 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:50390 original size:34 final size:34
Alignment explanation
Indices: 50352--50436 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
50342 CCCGACCCCG
*
50352 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
50386 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
50420 AAAATATTATATATATA
1 AAAATATTATATATATA
50437 TATATATAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:50392 original size:25 final size:25
Alignment explanation
Indices: 50364--50414 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
50354 AATATTTTAT
50364 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
50389 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
50414 A
1 A
50415 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:60018 original size:18 final size:18
Alignment explanation
Indices: 59995--60045 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
59985 AGTAGAACTT
59995 GATGTGGCTGATTTCTTC
1 GATGTGGCTGATTTCTTC
* *
60013 GATGTGGTTGACTTCTTC
1 GATGTGGCTGATTTCTTC
*
60031 GATTTGGCTGCATTT
1 GATGTGGCTG-ATTT
60046 GTATTCACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.12, C:0.16, G:0.27, T:0.45
Consensus pattern (18 bp):
GATGTGGCTGATTTCTTC
Found at i:63242 original size:82 final size:80
Alignment explanation
Indices: 63141--63292 Score: 225
Period size: 82 Copynumber: 1.9 Consensus size: 80
63131 TCCAACAGCG
* * *
63141 TTTACCTGTGAGAATAAAAAAAAAAGAGAAAGCTAAACAAAATAGTTCAAAAAGGTAAAAAAATT
1 TTTACATGTGAGAATAAAAAAAAAAGAGAAAGCTAAACAAAACAATTCAAAAAGGT-AAAAAATT
63206 GATTTCTTCCAACAATA
65 -ATTTCTTCCAACAATA
* *
63223 TTTACATGTGAG-ATCAAAAACAAAAGAGAAAGTTAAACAAAACAATTCAAAAAGGTAAAAAATT
1 TTTACATGTGAGAAT-AAAAAAAAAAGAGAAAGCTAAACAAAACAATTCAAAAAGGTAAAAAATT
63287 ATTTCT
65 ATTTCT
63293 CGAAACAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 6 0.09
81 10 0.16
82 48 0.75
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.24
Consensus pattern (80 bp):
TTTACATGTGAGAATAAAAAAAAAAGAGAAAGCTAAACAAAACAATTCAAAAAGGTAAAAAATTA
TTTCTTCCAACAATA
Found at i:66718 original size:2 final size:2
Alignment explanation
Indices: 66713--66746 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66703 ACACACACAC
66713 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
66747 TGTACTCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67264 original size:36 final size:36
Alignment explanation
Indices: 67206--67283 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
67196 TTAACTCGAT
* * * *
67206 GATCAATTGAATAAATTTAGCTCAAATATCAGAAAA
1 GATCGATTAAATAAATTCAGCTCAAAGATCAGAAAA
* *
67242 GATCGATTAAATAACTTCAGCTCAAAGATCAGAAAT
1 GATCGATTAAATAAATTCAGCTCAAAGATCAGAAAA
67278 GATCGA
1 GATCGA
67284 ACGTGATCGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (36 bp):
GATCGATTAAATAAATTCAGCTCAAAGATCAGAAAA
Found at i:72371 original size:24 final size:23
Alignment explanation
Indices: 72340--72392 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
72330 AGAACGACGA
*
72340 TTTAAA-TTCACATCTCTTAAAAT
1 TTTAAATTTCACAT-TCGTAAAAT
*
72363 TTTATAATTTGACATTCGTAAAA-
1 TTTA-AATTTCACATTCGTAAAAT
72386 TTTAAAT
1 TTTAAAT
72393 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.12
23 8 0.31
24 9 0.35
25 6 0.23
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (23 bp):
TTTAAATTTCACATTCGTAAAAT
Found at i:75624 original size:23 final size:24
Alignment explanation
Indices: 75578--75638 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
75568 ATGTTCACGA
* * *
75578 ATAAATTCATGTATCGACTCATTT
1 ATAAACTCATTTATCCACTCATTT
* *
75602 ATAAA-TCGTTTATCCACTTATTT
1 ATAAACTCATTTATCCACTCATTT
75625 ATAAACTCATTTAT
1 ATAAACTCATTTAT
75639 TAATAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.44
Consensus pattern (24 bp):
ATAAACTCATTTATCCACTCATTT
Done.