Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002347.1 Hibiscus syriacus cultivar Beakdansim tig00004789_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: 51412
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:1055 original size:4 final size:4
Alignment explanation
Indices: 1046--1082 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
1036 TGTTTAACAT
*
1046 CTCC CTCC CTCT CTCC CT-C CTCC CTCC CTCC CTCC CT
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CT
1083 GGTATCTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (4 bp):
CTCC
Found at i:1069 original size:15 final size:15
Alignment explanation
Indices: 1049--1080 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1039 TTAACATCTC
*
1049 CCTCCCTCTCTCCCT
1 CCTCCCTCCCTCCCT
1064 CCTCCCTCCCTCCCT
1 CCTCCCTCCCTCCCT
1079 CC
1 CC
1081 CTGGTATCTC
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:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (15 bp):
CCTCCCTCCCTCCCT
Found at i:1070 original size:19 final size:19
Alignment explanation
Indices: 1046--1082 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1036 TGTTTAACAT
*
1046 CTCCCTCCCTCTCTCCCTC
1 CTCCCTCCCTCCCTCCCTC
1065 CTCCCTCCCTCCCTCCCT
1 CTCCCTCCCTCCCTCCCT
1083 GGTATCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (19 bp):
CTCCCTCCCTCCCTCCCTC
Found at i:2190 original size:21 final size:21
Alignment explanation
Indices: 2166--2212 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
2156 ATTTTAGGAG
*
2166 ATTTTCGGGTTGAAAATAGCC
1 ATTTTCGGGTTGAAAATAACC
2187 ATTTTCGGGTTGAAAATAACC
1 ATTTTCGGGTTGAAAATAACC
2208 ATTTT
1 ATTTT
2213 GGGCTTAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (21 bp):
ATTTTCGGGTTGAAAATAACC
Found at i:3045 original size:21 final size:22
Alignment explanation
Indices: 2975--3046 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
2965 ACAAATGTGT
**
2975 ACTTCGGTGCAACCCTATGTGGC
1 ACTTCGGTGCAA-ATTATGTGGC
* *
2998 ACTTCGGTGCAATTTATATGGTC
1 ACTTCGGTGCAAATTATGTGG-C
3021 -CTTCGG-G-ATAATTATGTGGC
1 ACTTCGGTGCA-AATTATGTGGC
3041 ACTTCG
1 ACTTCG
3047 CAAATTACGA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.05
21 14 0.34
22 12 0.29
23 13 0.32
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (22 bp):
ACTTCGGTGCAAATTATGTGGC
Found at i:12527 original size:23 final size:23
Alignment explanation
Indices: 12491--12559 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
12481 CACCACAGCT
* * *
12491 CGTATAAATACACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
12514 CGTA-AAATTGCACCGTAGTGCCG
1 CGTAGAAA-TGCACCGAAGTGCCA
12537 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
12560 TATAAGGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 3 0.08
23 32 0.84
24 3 0.08
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:14274 original size:64 final size:63
Alignment explanation
Indices: 14165--14326 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
14155 TTCCCTTGAA
* * *
14165 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTGCATTTTAAGGGG
* * *** * **
14229 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGTATTCGATGTTTGCATTTTTATTGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTGCATTTTAAGGGG
*
14293 GTGCATCGATGTACTTCCTATGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
14327 CTGAACAATT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
63 2 0.02
64 77 0.94
65 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTGCATTTTAAGGGG
Found at i:15791 original size:19 final size:19
Alignment explanation
Indices: 15767--15815 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
15757 GTTTCTGATA
15767 GAGATTCTAGATTCACATC
1 GAGATTCTAGATTCACATC
15786 GAGATTCTAGATTCACATC
1 GAGATTCTAGATTCACATC
15805 GAGATTCTAGA
1 GAGATTCTAGA
15816 AATCTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (19 bp):
GAGATTCTAGATTCACATC
Found at i:17877 original size:13 final size:13
Alignment explanation
Indices: 17868--17893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17858 ATTTATTTTT
17868 ATGTTTTATTTAA
1 ATGTTTTATTTAA
17881 ATGTTTTATTTAA
1 ATGTTTTATTTAA
17894 TTTTCAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTTTTATTTAA
Found at i:18171 original size:23 final size:23
Alignment explanation
Indices: 18136--18231 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
18126 GTCTTTCAGG
*
18136 ACAAATATGTGGCACTTCGGTGC
1 ACAATTATGTGGCACTTCGGTGC
** *
18159 ACCCTTATGTGGCACTTCGGGTGT
1 ACAATTATGTGGCACTTC-GGTGC
*
18183 A-ATTTATGTGGTC-CTTCGG-G-
1 ACAATTATGTGG-CACTTCGGTGC
18203 ACAATTATGTGGCACTTCGGTGC
1 ACAATTATGTGGCACTTCGGTGC
18226 A-AATTA
1 ACAATTA
18232 CGAGCTGTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.03
21 16 0.27
22 8 0.13
23 28 0.47
24 6 0.10
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (23 bp):
ACAATTATGTGGCACTTCGGTGC
Found at i:23884 original size:59 final size:59
Alignment explanation
Indices: 23788--23908 Score: 206
Period size: 59 Copynumber: 2.1 Consensus size: 59
23778 AATAGATGGA
* * * *
23788 TAAGTGTCGTATCGAACCCTCCTAGTCGCAATGAAAAGGTAAACTCGATAATATGGCTC
1 TAAGTGTCCTATCGAACCCTCCTAGTAGCAATAAAAAGGTAAACTCGATAATATGACTC
23847 TAAGTGTCCTATCGAACCCTCCTAGTAGCAATAAAAAGGTAAACTCGATAATATGACTC
1 TAAGTGTCCTATCGAACCCTCCTAGTAGCAATAAAAAGGTAAACTCGATAATATGACTC
23906 TAA
1 TAA
23909 CCAACCTTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (59 bp):
TAAGTGTCCTATCGAACCCTCCTAGTAGCAATAAAAAGGTAAACTCGATAATATGACTC
Found at i:28136 original size:59 final size:58
Alignment explanation
Indices: 28030--28143 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
28020 TGGATAACTA
* * * * *
28030 TCCTATCGAACCTTCCTAGTCGCAATAAAAGGCAAACTCGATAATATGGCTCTAAGTG
1 TCCTATCAAACCCTCCTAGTCGCAATAAAAGGAAAACTCAATAATATGACTCTAAGTG
28088 TCCTATCAAACCCTCCTAGTCGCAATGAAAAGGAAAACTCAATAATATGACTCTAA
1 TCCTATCAAACCCTCCTAGTCGCAAT-AAAAGGAAAACTCAATAATATGACTCTAA
28144 CCAACCCTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 24 0.48
59 26 0.52
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (58 bp):
TCCTATCAAACCCTCCTAGTCGCAATAAAAGGAAAACTCAATAATATGACTCTAAGTG
Found at i:31882 original size:57 final size:57
Alignment explanation
Indices: 31815--31928 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
31805 GGTCGTTTAC
* *
31815 ACATTGTCGTTGTGGTGGAAATTATGAGTTCGAGTCTTTAGTAAACCTATGACCCTT
1 ACATTATCGTTGTGGTGGAAATTATGAGCTCGAGTCTTTAGTAAACCTATGACCCTT
31872 ACATTATCGTTGTGGTGGAAATTATGAGCTCGAGTCTTTAGTAAACCTATGACCCTT
1 ACATTATCGTTGTGGTGGAAATTATGAGCTCGAGTCTTTAGTAAACCTATGACCCTT
31929 TTATTGAAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (57 bp):
ACATTATCGTTGTGGTGGAAATTATGAGCTCGAGTCTTTAGTAAACCTATGACCCTT
Found at i:37100 original size:66 final size:65
Alignment explanation
Indices: 36940--37163 Score: 272
Period size: 65 Copynumber: 3.4 Consensus size: 65
36930 AATTGACAAA
* * *
36940 CTTTGAGATTGTTTCTCTTGAAATAAATTTGGTCTCCCTTGAA-ACAGTTTCTCTTGAAA-ATCC
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTT-AAGACAGTTTCTCTTGAAACA-CC
37003 AT
64 AT
*
37005 CTTTGAGATTGTTTCCCTTGAAACGAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACACCCA
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACA-CCA
37070 T
65 T
* * * * * * * *
37071 CTTTGAGATCGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGATAGCTTCTCTTGAAGCATCAT
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACACCAT
* * *
37136 CTTTGAGTTTGTTTCTCTTGAAATAAAT
1 CTTTGAGATTGTTTCCCTTGAAACAAAT
37164 CCCTAAAGAT
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
64 2 0.01
65 79 0.57
66 58 0.42
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (65 bp):
CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACACCAT
Found at i:37402 original size:132 final size:132
Alignment explanation
Indices: 37163--37521 Score: 407
Period size: 132 Copynumber: 2.7 Consensus size: 132
37153 TTGAAATAAA
* * * * * * * *
37163 TCCCTAAAGATGGCCAGCCGTCCTTATCACTTAGGAACCGTGTCATCCCCCAACCATACTTCCTC
1 TCCCTAAAGATGGTCAGTCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTC
* * * * * * * *
37228 ATCACGTAAGAGCCGTGTCACTCTTAGATAACCAGCCGTCCTCATCATGTAGGAATCGTGTTATT
66 ATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATT
37293 A-
131 AC
* *
37294 TCCCTAAAGATGGTTTA-TCATCCTCATCATGTAGGAACCGTGGTCATCCCCCGACCAGACCTCC
1 TCCCTAAAGATGG-TCAGTCATCCTCATCACGTAGGAACCGT-GTCATCCCCCGACCAGACCTCC
* * * * *
37358 TCATCATGTAGGAGTCGTGTCACCCCTGGATAACCAGCTATCCTCATCGCGTATGAACCATGTTA
64 TCATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTA
37423 TTACCC
129 TTA--C
* ** *
37429 TCTCTAAAGATGGTCAGTCATCCTCATCACGTAGGAACCGTGTCATCCATCGACCAGATCTCCTC
1 TCCCTAAAGATGGTCAGTCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTC
* *
37494 ATCACGTAGGAGTTGTGTCACCCTTAGA
66 ATCACGTAGGAGTCGTGTCACCCCTAGA
37522 CGACTAGAAC
Statistics
Matches: 189, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
131 32 0.17
132 75 0.40
134 47 0.25
135 35 0.19
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (132 bp):
TCCCTAAAGATGGTCAGTCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTC
ATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATT
AC
Found at i:37717 original size:3 final size:3
Alignment explanation
Indices: 37709--37751 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
37699 GTCTTAAAAA
37709 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37752 TAATTTACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38199 original size:20 final size:21
Alignment explanation
Indices: 38174--38213 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
38164 AGCAAAGAGG
38174 TATTCTAGACTT-TTTATTAT
1 TATTCTAGACTTATTTATTAT
* *
38194 TATTCTCGATTTATTTATTA
1 TATTCTAGACTTATTTATTA
38214 AATTTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
TATTCTAGACTTATTTATTAT
Found at i:42881 original size:198 final size:197
Alignment explanation
Indices: 42257--43059 Score: 801
Period size: 199 Copynumber: 4.1 Consensus size: 197
42247 TTTTACTATA
* * *
42257 ACTAAATAATTTTTTTACAATTTG-TTATTGTGAAATAATATTATTTGTCACAATTTTTTTATAA
1 ACTAAATAAATTTGTTACAA-TTGATTATTGTGAAAGAATATTATTTGTCACAA-TTTTTTATAA
** * * * * *
42321 TGAGAAATTAATATTTGTTATAGTTTGTTATTTTGATTAAATAAATGTGTCACAAATTT-TCATT
64 TGAGAAATTAATATTTGTTATAAATTATTATTATGACTAAATAAATTTGT--CAAATTTGTTATT
* ** * * * **
42385 TTGATAAAATATTAGGACGAAATAAATTTGACATAACTTTTTA-CTATGA-TAAAACTTAACGTG
127 TTGAGAAAATATTTTGACGAAATAAATTTGACATAAATTTTTATCT-TAACT-AAATTTAATATG
42448 TTATTGTG
190 TTATTGTG
* * * * * **
42456 ACTAAATCATTTTGTTACAATTTATTACTGTGAAAGAATATTAATTGTCACGTTTTTTTATAATG
1 ACTAAATAAATTTGTTACAATTGATTATTGTGAAAGAATATTATTTGTCACAATTTTTTATAATG
* * * * * * * *
42521 AGAAATTATTATTTTTTATAAATTATTATTTTGATTAAATAAATTTGTTACATTTTTTATTTCGA
66 AGAAATTAATATTTGTTATAAATTATTATTATGACTAAATAAATTTGTCAAATTTGTTATTTTGA
* * * * * *
42586 TAAATTATTGTGACAAAATAAATTTGACA-AAA-TTTTATTTTAACTAAATTTACTATGTTATTG
131 GAAAATATTTTGACGAAATAAATTTGACATAAATTTTTATCTTAACTAAATTTAATATGTTATTG
*
42649 TA
196 TG
* * * * **
42651 ACTAAATAAATTTGTTACACTTTG-TTATTGTGAAAGAATAGTATTTTTCATAATTTTTTATTTT
1 ACTAAATAAATTTGTTACA-ATTGATTATTGTGAAAGAATATTATTTGTCACAATTTTTTATAAT
* * *
42715 GAGGAATTAAAATTTGTTATAAATTATTATTATGACTAAATAAATTTGTCAAAGGTTGTTATTTT
65 GAGAAATTAATATTTGTTATAAATTATTATTATGACTAAATAAATTTGTCAAA-TTTGTTATTTT
* * *
42780 GAGAAAATATTTTGATGAAATAAATTTAACATAAATTTTTATCTTGACTAAATTTAATATGTTAT
129 GAGAAAATATTTTGACGAAATAAATTTGACATAAATTTTTATCTTAACTAAATTTAATATGTTAT
42845 TGTG
194 TGTG
* * * * * * *
42849 ACTAAATAAACTTGTTATAATTGATTATTGTGAAAAACATATTGTTTGTCATAAATTTTTATATT
1 ACTAAATAAATTTGTTACAATTGATTATTGTGAAAGA-ATATTATTTGTCACAATTTTTTATAAT
* * * * * ** * *
42914 GTGAAATTAATATTTATTATAATTTGTTATTATAACTATTTAAATTAGTCCTAATTTGTTATTTT
65 GAGAAATTAATATTTGTTATAAATTATTATTATGACTAAATAAATTTGT-CAAATTTGTTATTTT
* * * *
42979 GAGAAAATATTTTGACTAAATAAATTTGACATAATTTTTTATTTTAACTAAATTTAATTTGTTAT
129 GAGAAAATATTTTGACGAAATAAATTTGACATAAATTTTTATCTTAACTAAATTTAATATGTTAT
*
43044 TTTG
194 TGTG
*
43048 TCTAAATAAATT
1 ACTAAATAAATT
43060 ATCATAATTT
Statistics
Matches: 498, Mismatches: 95, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
195 115 0.23
196 44 0.09
197 38 0.08
198 114 0.23
199 184 0.37
200 3 0.01
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (197 bp):
ACTAAATAAATTTGTTACAATTGATTATTGTGAAAGAATATTATTTGTCACAATTTTTTATAATG
AGAAATTAATATTTGTTATAAATTATTATTATGACTAAATAAATTTGTCAAATTTGTTATTTTGA
GAAAATATTTTGACGAAATAAATTTGACATAAATTTTTATCTTAACTAAATTTAATATGTTATTG
TG
Found at i:43118 original size:18 final size:19
Alignment explanation
Indices: 43097--43143 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
43087 GAATTTTATT
*
43097 TAAAAATT-TTATTATAAC
1 TAAAAATTGTTATGATAAC
43115 TAAAATAATTGGTTATGATAAC
1 T-AAA-AATT-GTTATGATAAC
43137 TAAAAAT
1 TAAAAAT
43144 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 7 0.29
21 3 0.12
22 10 0.42
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (19 bp):
TAAAAATTGTTATGATAAC
Found at i:43492 original size:21 final size:21
Alignment explanation
Indices: 43466--43533 Score: 136
Period size: 21 Copynumber: 3.2 Consensus size: 21
43456 ATTGATTGTT
43466 GCATTCTGATCAAGAATTTTG
1 GCATTCTGATCAAGAATTTTG
43487 GCATTCTGATCAAGAATTTTG
1 GCATTCTGATCAAGAATTTTG
43508 GCATTCTGATCAAGAATTTTG
1 GCATTCTGATCAAGAATTTTG
43529 GCATT
1 GCATT
43534 TTGGCTTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (21 bp):
GCATTCTGATCAAGAATTTTG
Found at i:50816 original size:23 final size:22
Alignment explanation
Indices: 50768--50817 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
50758 CAACTCATAT
* *
50768 AATTGCACCGAATGCCGTATAG
1 AATTGCACCGAATGCCATATAA
* *
50790 AATTGCACCGTAGTGCCATTTAA
1 AATTGCACCG-AATGCCATATAA
50813 AATTG
1 AATTG
50818 TCCATAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (22 bp):
AATTGCACCGAATGCCATATAA
Done.