Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003075.1 Hibiscus syriacus cultivar Beakdansim tig00006409_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: 66941
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:2608 original size:36 final size:36
Alignment explanation
Indices: 2548--2637 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
2538 TATCATATCG
* * *
2548 CTTGAGACAATTTTCTCAAAAAACAAGTTTTGTCTCG
1 CTTGAGACAA-TTTCTCTAAAAACAAATTTTGTCTCA
* **
2585 TTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCA
1 CTTGAGACAATTTCTCTAAAAACAAATTTTGTCTCA
*
2621 CTTGAGATAATTTCTCT
1 CTTGAGACAATTTCTCT
2638 CGGAATACGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 36 0.80
37 9 0.20
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (36 bp):
CTTGAGACAATTTCTCTAAAAACAAATTTTGTCTCA
Found at i:2850 original size:65 final size:65
Alignment explanation
Indices: 2781--2968 Score: 258
Period size: 65 Copynumber: 2.9 Consensus size: 65
2771 ATTGACAAAA
2781 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAA-AC
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAGAC
2845 T
65 T
* *
2846 TTGAGATTGTTTCAT-TTGAAACAAAGTTTTGTCTCTCTTGAGATAATTT-TCTTGAAACAAATG
1 TTGAGATTGTTTC-TCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA-G
*
2909 TCT
63 ACT
* *
2912 TTGAG-TCTGTTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAGTTTCTCTTGAAA
1 TTGAGAT-TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
2969 TAATCCCTAA
Statistics
Matches: 109, Mismatches: 7, Indels: 13
0.84 0.05 0.10
Matches are distributed among these distances:
64 2 0.02
65 54 0.50
66 53 0.49
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (65 bp):
TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGACT
Found at i:13426 original size:13 final size:13
Alignment explanation
Indices: 13372--13429 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
13362 CTAGTCAAAT
13372 TCAATGAGTTGAC
1 TCAATGAGTTGAC
* * *
13385 TCTATTAAAGTTGTC
1 TC-AAT-GAGTTGAC
*
13400 TCAACTGGGTTGAC
1 TCAA-TGAGTTGAC
13414 TCAATGAGTTGAC
1 TCAATGAGTTGAC
13427 TCA
1 TCA
13430 GCTTGACACG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
13 13 0.38
14 12 0.35
15 9 0.26
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (13 bp):
TCAATGAGTTGAC
Found at i:19940 original size:14 final size:14
Alignment explanation
Indices: 19923--19953 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19913 GTCCGAATCA
*
19923 ACCCGTTGACTTTG
1 ACCCATTGACTTTG
19937 ACCCATTGACTTTG
1 ACCCATTGACTTTG
19951 ACC
1 ACC
19954 AAAAAGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.32
Consensus pattern (14 bp):
ACCCATTGACTTTG
Found at i:25888 original size:15 final size:16
Alignment explanation
Indices: 25868--25902 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25858 GTTAAAGTAT
25868 TAATATATGA-TTAAA
1 TAATATATGAGTTAAA
*
25883 TAATATATGAGTTTAA
1 TAATATATGAGTTAAA
25899 TAAT
1 TAAT
25903 TTTCCGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (16 bp):
TAATATATGAGTTAAA
Found at i:26190 original size:67 final size:66
Alignment explanation
Indices: 26004--26206 Score: 289
Period size: 66 Copynumber: 3.1 Consensus size: 66
25994 GTGATTACTA
** * *
26004 AATATTGTATTGATCACTCGATGTGACTCGTATACCTTTGTGGTGCATGAGGTGTAGTGATAATT
1 AATATTGTAAAGATCACTCGATGTGACTCGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
26069 G
66 G
* * * * * *
26070 AATATTGTACAGATTAATCGATGTAACTCATGTACCTCTGTGGTGCATGAGGTGGAGTGATAATT
1 AATATTGTAAAGATCACTCGATGTGACTCGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
26135 G
66 G
* *
26136 AATGTTGTATAAGATCACTCGATGTGACTCGTGTACCTTTGTGGTGCATTAGGTGGAGTGATAAT
1 AATATTGTA-AAGATCACTCGATGTGACTCGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
26201 TG
65 TG
26203 AATA
1 AATA
26207 CATACAGACC
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 65 0.55
67 53 0.45
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (66 bp):
AATATTGTAAAGATCACTCGATGTGACTCGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
G
Found at i:34432 original size:31 final size:30
Alignment explanation
Indices: 34374--34435 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
34364 ACAAGCCTTA
* * * *
34374 TAAAAAATTTGGGGGACCATTCGATAATTT
1 TAAAAAAGTTAGGGGACCAATCAATAATTT
34404 TAAAAAAGTTAGGGGACCAAATCAATAATTT
1 TAAAAAAGTTAGGGGACC-AATCAATAATTT
34435 T
1 T
34436 TAGAAATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (30 bp):
TAAAAAAGTTAGGGGACCAATCAATAATTT
Found at i:36068 original size:17 final size:17
Alignment explanation
Indices: 36023--36071 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
36013 AATGAAATTT
*
36023 AAGATATAATACAGTAA
1 AAGATATAATACAATAA
* *
36040 ATGAAATAATACAATAA
1 AAGATATAATACAATAA
*
36057 AAGATATTATACAAT
1 AAGATATAATACAAT
36072 GAACGATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (17 bp):
AAGATATAATACAATAA
Found at i:40279 original size:21 final size:21
Alignment explanation
Indices: 40253--40296 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
40243 AGCTGAAGTT
*
40253 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGATAC
40274 ACTGTAGCAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGATAC
40295 AC
1 AC
40297 AATTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATAC
Found at i:40345 original size:21 final size:21
Alignment explanation
Indices: 40319--40361 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
40309 TATGTTTTTG
*
40319 TGCATCGGTACACTGTAGCAA
1 TGCATCAGTACACTGTAGCAA
*
40340 TGCATCAGTATACTGTAGCAA
1 TGCATCAGTACACTGTAGCAA
40361 T
1 T
40362 ATTCATTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (21 bp):
TGCATCAGTACACTGTAGCAA
Found at i:42056 original size:16 final size:13
Alignment explanation
Indices: 42021--42055 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
42011 TTGCCTTATA
42021 CATGGTGGTTGTG
1 CATGGTGGTTGTG
42034 CATGGTGGTTGTG
1 CATGGTGGTTGTG
*
42047 CACGGTGGT
1 CATGGTGGT
42056 GTTATTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.11, G:0.46, T:0.34
Consensus pattern (13 bp):
CATGGTGGTTGTG
Found at i:43953 original size:19 final size:19
Alignment explanation
Indices: 43929--43968 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
43919 TTTCCACTTG
43929 TTTATTATT-TATATTATTA
1 TTTATTATTAT-TATTATTA
43948 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
43967 TT
1 TT
43969 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTATTATTATTATTA
Found at i:43985 original size:3 final size:3
Alignment explanation
Indices: 43930--43969 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
43920 TTCCACTTGT
43930 TTA TTA TT- TATA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
43970 ATAAAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.03
3 29 0.85
4 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46183 original size:28 final size:27
Alignment explanation
Indices: 46150--46208 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
46140 TAATTCTTTC
*
46150 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
* *
46178 TTTTCATAATATTTATATATATTATTT
1 TTTTCAAAATATTTATATATATTATTA
46205 TTTT
1 TTTT
46209 ATTTATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:46860 original size:36 final size:36
Alignment explanation
Indices: 46787--46860 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
46777 AGCAATGCAC
** * *
46787 ACAAAGATCCTGTTATATTAATACCAAAAGTACTCT
1 ACAAAGATCCTGCCAGATTAATACCAAAAGCACTCT
* *
46823 ACAAAGATCCTGCCAGATTGATACCAAAAGCAGTCT
1 ACAAAGATCCTGCCAGATTAATACCAAAAGCACTCT
46859 AC
1 AC
46861 GGTAAGAGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (36 bp):
ACAAAGATCCTGCCAGATTAATACCAAAAGCACTCT
Found at i:47451 original size:6 final size:7
Alignment explanation
Indices: 47410--47450 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
47400 TTTTTATACA
47410 TGCA-TT
1 TGCATTT
*
47416 TGGATTT
1 TGCATTT
47423 TGCATCTT
1 TGCAT-TT
47431 TGCATTT
1 TGCATTT
47438 T-CATTT
1 TGCATTT
47444 TGCATTT
1 TGCATTT
47451 GTTGTTTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 9 0.30
7 14 0.47
8 7 0.23
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:50750 original size:7 final size:8
Alignment explanation
Indices: 50733--50762 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50723 ATTATTTAAA
50733 AAAAAAGG
1 AAAAAAGG
*
50741 AAAAAAGA
1 AAAAAAGG
50749 AAAAAAGG
1 AAAAAAGG
50757 AAAAAA
1 AAAAAA
50763 ATTGAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:50753 original size:16 final size:16
Alignment explanation
Indices: 50732--50762 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50722 CATTATTTAA
50732 AAAAAAAGGAAAAAAG
1 AAAAAAAGGAAAAAAG
50748 AAAAAAAGGAAAAAA
1 AAAAAAAGGAAAAAA
50763 ATTGAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAGGAAAAAAG
Found at i:55114 original size:113 final size:112
Alignment explanation
Indices: 54779--55222 Score: 730
Period size: 112 Copynumber: 4.0 Consensus size: 112
54769 ATAAAGATTC
*
54779 GAATCCATCACTCAATGGATCAACATGCCATGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 GAATCCATCACTCAATGGATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
54844 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
54891 GAATCCATCACTCAATGGATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 GAATCCATCACTCAATGGATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
54956 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* ** *
55003 GAATTCATCACTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
1 GAATCCATCACTCAATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
55068 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * * *
55116 GAATTCATCACTCGATGGATCAACTTTTCCAGAGGA-AGTTCATAATGAGAAGAACTCATCTGAA
1 GAATCCATCACTCAATGGATCAAC-ATGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAA
*
55180 G-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTT
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
55223 GTTTGATTCT
Statistics
Matches: 314, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
112 171 0.54
113 141 0.45
114 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (112 bp):
GAATCCATCACTCAATGGATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
Found at i:55201 original size:225 final size:224
Alignment explanation
Indices: 54779--55222 Score: 730
Period size: 225 Copynumber: 2.0 Consensus size: 224
54769 ATAAAGATTC
*
54779 GAATCCATCACTCAATGGATCAACATGCCATGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 GAATCCATCACTCAATGGATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
*
54844 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCACTCAATGG
66 AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCACTCAATGG
*
54909 ATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
131 ATCAACATGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
54974 ATGAGAAGAACTTGTTCAACCTTTTGCTT
196 ATGAGAAGAACTTGTTCAACCTTTTGCTT
* ** *
55003 GAATTCATCACTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
1 GAATCCATCACTCAATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
55068 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCGATG
65 AAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCACTCAATG
* *
55133 GATCAACTTTTCCAGAGGA-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTC
130 GATCAAC-ATGCCAG-GGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
*
55196 ATAATGAGAAGAACTTGTTTAACCTTT
193 ATAATGAGAAGAACTTGTTCAACCTTT
55223 GTTTGATTCT
Statistics
Matches: 204, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
224 21 0.10
225 147 0.72
226 34 0.17
227 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (224 bp):
GAATCCATCACTCAATGGATCAACATGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCACTCAATGG
ATCAACATGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTT
Found at i:55289 original size:82 final size:83
Alignment explanation
Indices: 55185--55466 Score: 211
Period size: 82 Copynumber: 3.3 Consensus size: 83
55175 CTGAAGAGGA
*
55185 AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTGTTTGATTCTATCATAGAATGAGATAG
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCATAGAATGAGATAG
55250 ATCAGCATCAACATTTCC
66 ATCAGCATCAACATTTCC
* * ** **
55268 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAATTTGTTCAACATT-T-TGC-T
1 AGAAGAAGTTCATAATGAGAAGAA--C-T-T---G-TTCAA-CCTTTGTT--TGATTCTAT-CAT
* * * * *
55329 TGAATTCATCACTAGAT--GGATCAACTTTTCC
54 AGAA-TGA-GA-TAGATCAGCATCAACATTTCC
* *
55360 AG-AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACAGAAGGAGATAG
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCATAGAATGAGATAG
* * *
55424 AACAACATCAGCATTTCC
66 ATCAGCATCAACATTTCC
*
55442 AGAAG-AGTTAATAATGAGAAGAACT
1 AGAAGAAGTTCATAATGAGAAGAACT
55467 CATCTGAAGA
Statistics
Matches: 149, Mismatches: 28, Indels: 45
0.67 0.13 0.20
Matches are distributed among these distances:
80 4 0.03
81 4 0.03
82 52 0.35
83 17 0.11
84 4 0.03
85 2 0.01
86 1 0.01
88 1 0.01
89 2 0.01
90 4 0.03
91 13 0.09
92 36 0.24
93 4 0.03
94 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (83 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCATAGAATGAGATAG
ATCAGCATCAACATTTCC
Found at i:63018 original size:13 final size:13
Alignment explanation
Indices: 63000--63024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62990 TTTTTAGTAA
63000 TTAATATTTATTT
1 TTAATATTTATTT
63013 TTAATATTTATT
1 TTAATATTTATT
63025 ATATTTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAATATTTATTT
Found at i:63051 original size:25 final size:27
Alignment explanation
Indices: 63008--63065 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
62998 AATTAATATT
63008 TATTTTTAATATTTATTATATTT-AAA
1 TATTTTTAATATTTATTATATTTAAAA
63034 TATTTTTGAATA-TT-TTATATTTAAAA
1 TATTTTT-AATATTTATTATATTTAAAA
63060 TATTTT
1 TATTTT
63066 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.27
26 18 0.60
27 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTTTAATATTTATTATATTTAAAA
Done.