Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002003.1 Hibiscus syriacus cultivar Beakdansim tig00004098_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: 70361
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:2902 original size:16 final size:17
Alignment explanation
Indices: 2874--2908 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
2864 ACCCCCTCTC
2874 TTTATATTTTTTTTCAA
1 TTTATATTTTTTTTCAA
2891 TTTATA-TTTTTTTCAA
1 TTTATATTTTTTTTCAA
2907 TT
1 TT
2909 AAGTCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTTTTTTTCAA
Found at i:6459 original size:31 final size:31
Alignment explanation
Indices: 6418--6477 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
6408 AAAATAGGTA
* * *
6418 TCTAATATTTTTTTCATTACATTTTTAGGCG
1 TCTAACATTTTCTCCATTACATTTTTAGGCG
* *
6449 TCTAACATTTTCTCCGTTATATTTTTAGG
1 TCTAACATTTTCTCCATTACATTTTTAGG
6478 TACCTACGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.53
Consensus pattern (31 bp):
TCTAACATTTTCTCCATTACATTTTTAGGCG
Found at i:8840 original size:2 final size:2
Alignment explanation
Indices: 8833--8860 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8823 AGCAACATAC
8833 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
8861 GTTGTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11833 original size:15 final size:15
Alignment explanation
Indices: 11813--11844 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11803 AAAAGCTTTC
*
11813 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTAGAT
11828 TTTCCCGTTCTAGAT
1 TTTCCCGTTCTAGAT
11843 TT
1 TT
11845 CGATCTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTAGAT
Found at i:21751 original size:12 final size:12
Alignment explanation
Indices: 21736--21781 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
21726 CGGTTTTTTT
*
21736 ACCGGATAAAAA
1 ACCGGTTAAAAA
21748 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
21763 ACCGGTTAAAAA
1 ACCGGTTAAAAA
21775 ACCGGTT
1 ACCGGTT
21782 TTTATTCGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:21763 original size:15 final size:13
Alignment explanation
Indices: 21742--21782 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
21732 TTTTACCGGA
21742 TAAAAAACCGGTT
1 TAAAAAACCGGTT
21755 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
21769 TAAAAAACCGGTT
1 TAAAAAACCGGTT
21782 T
1 T
21783 TTATTCGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:24107 original size:21 final size:21
Alignment explanation
Indices: 24083--24122 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24073 TTTATTTTAT
24083 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
24104 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
24123 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:24170 original size:33 final size:33
Alignment explanation
Indices: 24117--24215 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
24107 TTTGTTTCAA
24117 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
24149 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
24182 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
24215 T
1 T
24216 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:24244 original size:13 final size:13
Alignment explanation
Indices: 24201--24255 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
24191 TTGGAAGTAT
24201 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
24214 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
24228 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
24241 TTAAGTATTTGAA
1 TTAAGTATTTCAA
24254 TT
1 TT
24256 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:24503 original size:21 final size:21
Alignment explanation
Indices: 24451--24504 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
24441 TGGAGCGTGG
*
24451 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
24472 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
24493 GGGAATCGGTTC
1 GGGAATCGGTTC
24505 TCTAAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:24831 original size:15 final size:17
Alignment explanation
Indices: 24805--24836 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24795 TTCTATGAGA
24805 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
24821 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
24837 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:31450 original size:18 final size:18
Alignment explanation
Indices: 31403--31451 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
31393 AAGAAAAAAA
*
31403 TTAAAATATTTAAAAATCT
1 TTAAAA-ATTTTAAAATCT
31422 TTAAAAATTTTAAAA-CT
1 TTAAAAATTTTAAAATCT
*
31439 TTGAAAACTTTTA
1 TT-AAAAATTTTA
31452 TTTCAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 6 0.22
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAAAATTTTAAAATCT
Found at i:32722 original size:89 final size:89
Alignment explanation
Indices: 32557--32890 Score: 515
Period size: 89 Copynumber: 3.7 Consensus size: 89
32547 CCATAACTGC
* * *
32557 GTCCGTAGGGCTTACCTTAAGCACATAGCAAAAAGGGAGCCAACCTAAGGATATTCCTTGGGGCC
1 GTCCGTAGGG-TTACCTTAAGCACACAGC--AAAGGGAACCAACCTAAGGATATGCCTTGGGGCC
* *
32622 TATGGGTCTACCCAAGGGTATTCTTAG
63 TATGGGCCTACCCAAGGGTATCCTTAG
* * **
32649 GTCCATAGGGTTACCCTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTATGGCCTAT
1 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
* *
32714 GGGCCTACCCAATGGTATCCTTTG
66 GGGCCTACCCAAGGGTATCCTTAG
32738 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
1 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
*
32803 GGGCATACCCAAGGGTATCCTTAG
66 GGGCCTACCCAAGGGTATCCTTAG
* *
32827 GTCCGTAGGGTTACCATAAGCACACGGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
32891 CCCAAGGGTA
Statistics
Matches: 222, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
89 197 0.89
91 16 0.07
92 9 0.04
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (89 bp):
GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
GGGCCTACCCAAGGGTATCCTTAG
Found at i:34532 original size:2 final size:2
Alignment explanation
Indices: 34525--34608 Score: 61
Period size: 2 Copynumber: 43.5 Consensus size: 2
34515 CAACTAACTA
*
34525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT AG AT -T GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT
* * * * *
34567 GT TT A- AT AA AA AT A- AT AT AT AT AA AT -T 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
34606 AT A
1 AT A
34609 CGTAAATCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
1 5 0.08
2 59 0.89
3 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:34782 original size:24 final size:24
Alignment explanation
Indices: 34744--34804 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
34734 TACAACCTAT
34744 ATATATATATATATACACTTA-AATA
1 ATATA-ATATATATACACTTACAA-A
**
34769 ATATAATATATATATTCTTACAAA
1 ATATAATATATATACACTTACAAA
*
34793 ATATATTATATA
1 ATATAATATATA
34805 CCATATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAATATATATACACTTACAAA
Found at i:34933 original size:64 final size:64
Alignment explanation
Indices: 34864--34983 Score: 222
Period size: 64 Copynumber: 1.9 Consensus size: 64
34854 GAATTACCAT
**
34864 ACTTTTAATATATAATATAAAGGTAAAGTAATTATACATAAAATATATATAAGACAACCAACAC
1 ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACAACCAACAC
34928 ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACA
1 ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACA
34984 CCACAACCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (64 bp):
ACTTTTAATATATAATATAAAGGTAAAGTAAACATACATAAAATATATATAAGACAACCAACAC
Found at i:40328 original size:64 final size:63
Alignment explanation
Indices: 40243--40383 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
40233 TTGTTTAAGG
* * *
40243 TGCATCGATGCACATGCAGTGCATCAATGCAT-TAATTTAAAAATA-AAACATCGAATAGAATTT
1 TGCATCGATGCATAAGCAGTGCATCAATGCATCCAA-TT--AAATACAAACATCGAATAGAATTT
40306 A
63 A
* * * *
40307 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCAATGCAT-CCAATTAAATACAAACATCGAATAGAATTTA
40371 TGCATCGATGCAT
1 TGCATCGATGCAT
40384 GGTGTAGTGC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
63 5 0.07
64 59 0.88
65 2 0.03
66 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGCAGTGCATCAATGCATCCAATTAAATACAAACATCGAATAGAATTTA
Found at i:41679 original size:30 final size:30
Alignment explanation
Indices: 41627--41722 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
41617 CTAAGGAACA
*
41627 TATGGACAGTTTACCTAGGTTCTTTGTGACC
1 TATGGACAG-TTACCGAGGTTCTTTGTGACC
* *
41658 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTGTGACC
* * * *
41688 TCTAGATAGTTACCG-GGGTCTTTGTGACC
1 TATGGACAGTTACCGAGGTTCTTTGTGACC
*
41717 TCTGGA
1 TATGGA
41723 GAGGTCCTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.31
30 29 0.53
31 9 0.16
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTGTGACC
Found at i:48977 original size:24 final size:23
Alignment explanation
Indices: 48950--49017 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
48940 TTTATCTGGT
* *
48950 TTCTATTTTGATTTCTGATCTAGA
1 TTCTATTCTGATATCTGA-CTAGA
* * *
48974 TTCTGTTCTGATACCTGACATGGA
1 TTCTATTCTGATATCTGAC-TAGA
48998 TTCTATTCTGATATCTGACT
1 TTCTATTCTGATATCTGACT
49018 TGAATTCTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.06
24 34 0.94
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.47
Consensus pattern (23 bp):
TTCTATTCTGATATCTGACTAGA
Found at i:49024 original size:24 final size:23
Alignment explanation
Indices: 48950--49039 Score: 72
Period size: 24 Copynumber: 3.8 Consensus size: 23
48940 TTTATCTGGT
* * *
48950 TTCTATTTTGATTTCTGATCTAGA
1 TTCTATTCTGATATCTGA-CTTGA
* * *
48974 TTCTGTTCTGATACCTGACATGGA
1 TTCTATTCTGATATCTGAC-TTGA
48998 TTCTATTCTGATATCTGACTTGAA
1 TTCTATTCTGATATCTGACTTG-A
* * *
49022 TTCTGTTTTGATTTCTGA
1 TTCTATTCTGATATCTGA
49040 TATCTCCGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 3 0.06
24 50 0.94
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (23 bp):
TTCTATTCTGATATCTGACTTGA
Found at i:53001 original size:25 final size:25
Alignment explanation
Indices: 52972--53022 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
52962 TTAAAAAATG
52972 GTAATGAACT-TTGTA-AAATGGCAAA
1 GTAATGAACTATT-TATAAAT-GCAAA
*
52997 GTAATTAACTATTTATAAATGCAAA
1 GTAATGAACTATTTATAAATGCAAA
53022 G
1 G
53023 ACCAACTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (25 bp):
GTAATGAACTATTTATAAATGCAAA
Found at i:55094 original size:60 final size:60
Alignment explanation
Indices: 55019--55152 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 60
55009 ATATAAGGAT
* * * * * * *
55019 AAAG-TACACAAATGGTCTCCCGATTATAGGATGTTATTTTGTTGAGTCCCTTGGCTATTG
1 AAAGTTACA-AAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
*
55079 AAAGTTGCAAAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
1 AAAGTTACAAAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
55139 AAAGTTACAAAATG
1 AAAGTTACAAAATG
55153 ATCACTCGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 61 0.95
61 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
Found at i:64405 original size:18 final size:18
Alignment explanation
Indices: 64384--64421 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64374 CCTTACACAC
64384 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
* *
64402 TTTGCCACGACAACGCCA
1 TTTGCCACAACAACACCA
64420 TT
1 TT
64422 CATACTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:69330 original size:23 final size:23
Alignment explanation
Indices: 69304--69367 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
69294 CAGCTCATAT
*
69304 AATTGCACCTA-AGTGTCACGTAG
1 AATTGCACC-AGAGTGCCACGTAG
69327 AATTGCACCAGAGTGCCACGTAG
1 AATTGCACCAGAGTGCCACGTAG
69350 AATTGCACC-GTAGTGCCA
1 AATTGCACCAG-AGTGCCA
69368 TATAATAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
AATTGCACCAGAGTGCCACGTAG
Found at i:69609 original size:103 final size:103
Alignment explanation
Indices: 69383--69703 Score: 554
Period size: 103 Copynumber: 3.1 Consensus size: 103
69373 TAATGTTCAT
* *
69383 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
69448 GACTT-ACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
69485 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
69550 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
69588 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAAGAATCAATTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
69653 GACCTCACACATGTTCCAAAGAAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAG-AATACATATATGTCCCG
*
69692 AATGACCACATA
1 AAGGACCACATA
69704 GACCCTCTAC
Statistics
Matches: 208, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
102 68 0.33
103 113 0.54
104 27 0.13
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:70276 original size:21 final size:21
Alignment explanation
Indices: 70252--70294 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
70242 TTCATATTCG
* *
70252 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
70273 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
70294 T
1 T
70295 AGCCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Done.