Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000440.1 Hibiscus syriacus cultivar Beakdansim tig00000804_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: 62044
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:9218 original size:12 final size:12
Alignment explanation
Indices: 9173--9219 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
9163 TCATGTTTAA
9173 TTATATACT-TAC
1 TTATATA-TATAC
* *
9185 ATATATATACAC
1 TTATATATATAC
*
9197 TTATGTATATAC
1 TTATATATATAC
9209 TTATATATATA
1 TTATATATATA
9220 TAAGTATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 1 0.04
12 27 0.96
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (12 bp):
TTATATATATAC
Found at i:9406 original size:36 final size:36
Alignment explanation
Indices: 9360--9430 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
9350 CATATAATTA
* *
9360 CATAAGTATATTATATATATATTATATTA-ATATATG
1 CATAAGTATATTATATACATA-AATATTATATATATG
9396 CATAAGTATATTATATACATAAATATTATATATAT
1 CATAAGTATATTATATACATAAATATTATATATAT
9431 ATTATAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (36 bp):
CATAAGTATATTATATACATAAATATTATATATATG
Found at i:9442 original size:11 final size:12
Alignment explanation
Indices: 9364--9442 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 12
9354 TAATTACATA
9364 AGTATATTATAT
1 AGTATATTATAT
9376 A-TATATTATATT
1 AGTATATTATA-T
* *
9388 AATATATGCATA-
1 AGTATAT-TATAT
9400 AGTATATTATAT
1 AGTATATTATAT
*
9412 ACATAAATATTATAT
1 A-GT--ATATTATAT
9427 A-TATATTATA-
1 AGTATATTATAT
9437 AGTATA
1 AGTATA
9443 ACAGATGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
10 1 0.02
11 24 0.44
12 10 0.18
13 7 0.13
14 3 0.05
15 10 0.18
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (12 bp):
AGTATATTATAT
Found at i:9589 original size:2 final size:2
Alignment explanation
Indices: 9582--9617 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9572 GTTTATAATT
9582 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9618 ATGTTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9593 original size:13 final size:13
Alignment explanation
Indices: 9575--9619 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
9565 CTATAAAGTT
*
9575 TATAATTTATATA
1 TATAATATATATA
9588 TATAATATATATA
1 TATAATATATATA
9601 TAT-ATATATATTA
1 TATAATATATA-TA
9614 TATAAT
1 TATAAT
9620 GTTTCAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 7 0.24
13 20 0.69
14 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATAATATATATA
Found at i:10573 original size:3 final size:3
Alignment explanation
Indices: 10567--10708 Score: 229
Period size: 3 Copynumber: 48.3 Consensus size: 3
10557 AGCTGCTGCG
10567 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
10614 AAT -AT AAT AAT AAT AAAT CAT AAT CAT -AT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10658 AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10705 AAT A
1 AAT A
10709 CAAAGAGTAC
Statistics
Matches: 131, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
2 8 0.06
3 120 0.92
4 3 0.02
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18802 original size:60 final size:60
Alignment explanation
Indices: 18709--18830 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
18699 GCTATCCATC
18709 CTCAATTCATTCATGTCAGGATCGCTACTAGTTCTGTCTCGACATCTTTCTTATTCACTG
1 CTCAATTCATTCATGTCAGGATCGCTACTAGTTCTGTCTCGACATCTTTCTTATTCACTG
18769 CTCAATTCATTCATGTCAGGATCGCTACTAGTTCTGTCTCGACATCTTTCTTATTCACTG
1 CTCAATTCATTCATGTCAGGATCGCTACTAGTTCTGTCTCGACATCTTTCTTATTCACTG
18829 CT
1 CT
18831 ATCTATGGTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (60 bp):
CTCAATTCATTCATGTCAGGATCGCTACTAGTTCTGTCTCGACATCTTTCTTATTCACTG
Found at i:20605 original size:4 final size:4
Alignment explanation
Indices: 20596--20628 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
20586 GGATTTTGAT
20596 AATA AATAA AATA AATA AATA AATA AATA AATA
1 AATA AAT-A AATA AATA AATA AATA AATA AATA
20629 TTATTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:21604 original size:27 final size:27
Alignment explanation
Indices: 21569--21624 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
21559 GCTTCGATGA
21569 TCGCATATTCCTATCGGTAAGCTTCTC
1 TCGCATATTCCTATCGGTAAGCTTCTC
*
21596 TCGCGTATTCCTATCGGTAAGCTTCTC
1 TCGCATATTCCTATCGGTAAGCTTCTC
21623 TC
1 TC
21625 CTTTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.38
Consensus pattern (27 bp):
TCGCATATTCCTATCGGTAAGCTTCTC
Found at i:22149 original size:3 final size:3
Alignment explanation
Indices: 22143--22193 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
22133 TTATTTATTA
* *
22143 AAT AAT AAT AAT AAT ATT AAT AAT AAT -AT AAT AAT AA- AAT AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22189 AAT AA
1 AAT AA
22194 ATCAAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:22150 original size:18 final size:18
Alignment explanation
Indices: 22138--22192 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
22128 AATAATTATT
22138 TATTAAATAATAATAATAA
1 TATT-AATAATAATAATAA
22157 TATTAATAATAAT-ATAA
1 TATTAATAATAATAATAA
* *
22174 TAATAA-AATAATTATAA
1 TATTAATAATAATAATAA
22191 TA
1 TA
22193 AATCAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.18
17 15 0.44
18 9 0.26
19 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAATAATAATAATAA
Found at i:22176 original size:11 final size:11
Alignment explanation
Indices: 22147--22192 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
22137 TTATTAAATA
22147 ATAATAATAAT
1 ATAATAATAAT
22158 ATTAATAATAAT
1 A-TAATAATAAT
*
22170 ATAATAATAAA
1 ATAATAATAAT
*
22181 ATAATTATAAT
1 ATAATAATAAT
22192 A
1 A
22193 AATCAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:22560 original size:122 final size:122
Alignment explanation
Indices: 22410--22970 Score: 444
Period size: 122 Copynumber: 4.8 Consensus size: 122
22400 GATGTAATGT
* * *
22410 AACAAAAGATTGAACAAG-TTCTTTTCATTTTGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCT
1 AACAAAAGGTTGAACAAGCTT-TTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCT
* * * * * *
22474 CATTATGAACACTTCTGGAAATGTTGATGTTGATCTATCTCCTTTTGTGATAGAGTCA
65 CATTATGAACTCTTCTGGAAATGTTGATGCTGATCTATCTCATTCTATGATAGAATCA
** * * * *
22532 TGCAAAAGGTTGAACAAGCTTTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTT
1 AACAAAAGGTTGAACAAGCTTTTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCTC
* * *
22597 ATTATGAACTTTTTCTGGAAAAGTTGCTGCTGATCTATCTCATTCTATGATAGAATCA
66 ATTATGAAC-TCTTCTGGAAATGTTGATGCTGATCTATCTCATTCTATGATAGAATCA
* *
22655 AAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC-TTCTTTTTCAGATGAGTTCTTCT
1 AACAAAAGGTTGAACAAGCTTTTCTCATTATGAACTTCTTCTTTC-TCTTCAGATGAGTTCTTCT
* * *
22718 CATTATGAACTCTACTTGAAAATGTTGAT-C----C-AT-TGA----ATGAT-GAATTCA
65 CATTATGAACTCTTC-TGGAAATGTTGATGCTGATCTATCTCATTCTATGATAGAA-TCA
*** ** * * *
22766 AGTGAAAGGTTGAA-AAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTC
1 AACAAAAGGTTGAACAAGCTT-TTCTCATTATGAACTTCTTCTTTC-TCTTCAGATGAGTTCTTC
* * * * *
22830 TCATCATGAATTCTACCTGG-CA-----ATGCTG----ATC-CA-TCAAGTGAT-GAATTCA
64 TCATTATGAACTCT-TCTGGAAATGTTGATGCTGATCTATCTCATTCTA-TGATAGAA-TCA
* * * *
22879 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTC-TTCTTTTTCAGATGAGTTCTTCT
1 AACAAAAGGTTGAACAAGCTTTTCTCATTATGAACTTCTTCTTTC-TCTTCAGATGAGTTCTTCT
*
22943 CATTATGAACTCTTCCGGAAATGTTGAT
65 CATTATGAACTCTTCTGGAAATGTTGAT
22971 TCATCGAGTG
Statistics
Matches: 355, Mismatches: 60, Indels: 53
0.76 0.13 0.11
Matches are distributed among these distances:
107 2 0.01
108 1 0.00
109 3 0.01
110 3 0.01
111 15 0.04
112 63 0.18
113 76 0.21
114 4 0.01
115 2 0.01
116 2 0.01
117 3 0.01
121 6 0.02
122 133 0.37
123 42 0.12
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (122 bp):
AACAAAAGGTTGAACAAGCTTTTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTTCTGGAAATGTTGATGCTGATCTATCTCATTCTATGATAGAATCA
Found at i:22860 original size:113 final size:112
Alignment explanation
Indices: 22658--22983 Score: 440
Period size: 113 Copynumber: 2.9 Consensus size: 112
22648 AGAATCAAAC
*
22658 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTA
1 AAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTA
* * * **
22723 TGAACTCTACTTGAAAATGTTGATCCATTGAA-TGATGAATTCAAGTG
66 TGAACTCTACCTGAAAATGCTGATCCA-TCAAGTGATGAATTCAAGCA
* ** * * *
22770 AAAGGTTGAAAAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATC
1 AAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTT-CTTTTTCAGATGAGTTCTTCTCATT
* **
22835 ATGAATTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGCA
65 ATGAACTCTACCTGAAAATGCTGATCCATCAAGTGATGAATTCAAGCA
22883 AAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTA
1 AAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTA
* * * * *
22948 TGAACTCTTCC-GGAAATGTTGATTCATCGAGTGATG
66 TGAACTCTACCTGAAAATGCTGATCCATCAAGTGATG
22984 GGTTAAAATC
Statistics
Matches: 185, Mismatches: 27, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
111 21 0.11
112 70 0.38
113 94 0.51
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (112 bp):
AAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTA
TGAACTCTACCTGAAAATGCTGATCCATCAAGTGATGAATTCAAGCA
Found at i:24559 original size:5 final size:5
Alignment explanation
Indices: 24551--24590 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
24541 TTCATTTGAT
*
24551 TTTTC TTTTC TTTTC -TTTC TTTTC ATTT- TTTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
24591 CTTCAAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
4 11 0.37
5 19 0.63
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:24571 original size:9 final size:10
Alignment explanation
Indices: 24551--24590 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
24541 TTCATTTGAT
*
24551 TTTTCTTTTC
1 TTTTCATTTC
24561 TTTTC-TTTC
1 TTTTCATTTC
24570 TTTTCATTT-
1 TTTTCATTTC
24579 TTTTC-TTTC
1 TTTTCATTTC
24588 TTT
1 TTT
24591 CTTCAAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.11
9 17 0.61
10 8 0.29
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCATTTC
Found at i:24571 original size:14 final size:13
Alignment explanation
Indices: 24550--24590 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
24540 TTTCATTTGA
24550 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
24563 TTCTTTCTTTTCATT
1 TT-TTTCTTTTC-TT
24578 TTTTTC-TTTCTT
1 TTTTTCTTTTCTT
24590 T
1 T
24591 CTTCAAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.12
13 6 0.23
14 13 0.50
15 4 0.15
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:29539 original size:23 final size:22
Alignment explanation
Indices: 29507--29566 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
29497 TTAGTGCATA
29507 GGGAATCGATACCCCCCTTGAAG
1 GGGAATCGATACCCCCC-TGAAG
* * *
29530 GGGAACCGAT-TCCCCCTGTAG
1 GGGAATCGATACCCCCCTGAAG
29551 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
29567 TGAGGGTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 13 0.42
22 9 0.29
23 9 0.29
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (22 bp):
GGGAATCGATACCCCCCTGAAG
Found at i:31174 original size:18 final size:18
Alignment explanation
Indices: 31153--31190 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31143 ACAGCACGTA
*
31153 GAACAAGCACCACCAGAG
1 GAACAAGCACCAACAGAG
*
31171 GAACAAGCACGAACAGAG
1 GAACAAGCACCAACAGAG
31189 GA
1 GA
31191 TCAAATGCCT
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:0.47, C:0.26, G:0.26, T:0.00
Consensus pattern (18 bp):
GAACAAGCACCAACAGAG
Found at i:31319 original size:18 final size:18
Alignment explanation
Indices: 31296--31333 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31286 AATGGGAGCT
31296 CAACAATTGGAAATTCTC
1 CAACAATTGGAAATTCTC
31314 CAACAATTGGAAATTCTC
1 CAACAATTGGAAATTCTC
31332 CA
1 CA
31334 GGAGATGCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (18 bp):
CAACAATTGGAAATTCTC
Found at i:40271 original size:137 final size:136
Alignment explanation
Indices: 39896--40450 Score: 527
Period size: 137 Copynumber: 4.0 Consensus size: 136
39886 TGGTTAATCT
* * * * *
39896 GATAATTTAAAGATAACATGTTTCATTCGCGTTGAGGAATTCTGATTGTCTGAGGATGACACTGC
1 GATAATTTAGAGACAACATTTTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACTGC
* * * * * * * * * *
39961 TCTTTCGTATTTAAGATATATGGTTGGTGAAAAACATTATTTCTTCGTATTGAGGACGTCTAGAC
66 TCTTT-GCATTGAGGAGATCTAGTTGGTGGACAACATTGTTTCTTCGCATTGAGGACGTCTAGAC
40026 GTATTTG
130 GTATTTG
* * * * *
40033 GATAATTTAGAGACATCACAATTTCTTTGCTTTTGCTTTGAGGAAGTCTGATTATCTCAGGATGA
1 GATAATTTAGAGACA--AC-A-TT-TTT-CCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGA
** ** * * * * * *
40098 CACTGCTCATTTGTGTTGATAAGATCTAGTCGGTGGACGATATTGTTTCTTCACATTAAGGACAT
60 CACTGCTC-TTTGCATTGAGGAGATCTAGTTGGTGGACAACATTGTTTCTTCGCATTGAGGACGT
*
40163 TTAGACGTATTTG
124 CTAGACGTATTTG
* * * *
40176 GATAATTTGGAGACAACATTTTTCCTTCGCATTGAGGAAGTTTGATTGTCTGAGGATGACACTAC
1 GATAATTTAGAGACAACATTTTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACTGC
* * *
40241 TACTTTGCATTGAGGAGATCTAGTTAGTGGACAACATTGTTTCATCGCATTGAGGATGTCTAGAC
66 T-CTTTGCATTGAGGAGATCTAGTTGGTGGACAACATTGTTTCTTCGCATTGAGGACGTCTAGAC
40306 GTATTTG
130 GTATTTG
* * ** * * *
40313 GCTAATTTGGAGATGACATTATTCCTTCACGTTGAGGAAGTCTGATTGTCTGAGGATTACACTGC
1 GATAATTTAGAGACAACATTTTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACTGC
* * * ** * *
40378 TCCTTTGCTTTGAGGAGATCTGGTTGGTGGACGAA-ATTGTTCCTTCGTGTTGAGGATGTCTAGC
66 T-CTTTGCATTGAGGAGATCTAGTTGGTGGAC-AACATTGTTTCTTCGCATTGAGGACGTCTAGA
40442 CGTACTTTG
129 CGTA-TTTG
40451 ACGGTTTAAT
Statistics
Matches: 341, Mismatches: 67, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
137 216 0.63
138 10 0.03
139 4 0.01
140 2 0.01
141 3 0.01
142 3 0.01
143 100 0.29
144 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (136 bp):
GATAATTTAGAGACAACATTTTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACTGC
TCTTTGCATTGAGGAGATCTAGTTGGTGGACAACATTGTTTCTTCGCATTGAGGACGTCTAGACG
TATTTG
Found at i:41013 original size:102 final size:104
Alignment explanation
Indices: 40801--41020 Score: 247
Period size: 102 Copynumber: 2.1 Consensus size: 104
40791 TTTGTTTCAA
* * * * * *
40801 GAGAAACTATCTCAGGTGAGATAAAATTTTGTTTCGAGTGAAAAATTTTTAAAATTTGTGTTTCA
1 GAGAAACAATCTCAAGTGAGATAAAATTTTGTTTCGAGTGAAAAATCTCTAAAATTTGGGCTTCA
** *
40866 AGGGAAAACTATCTCAAGCGAGATGAAATTTATTTTTAG
66 AGGGAAAACTATCTCAAGCGAGACAAAATTTACTTTTAG
*
40905 GA-AAACAATCTCAAGTGAGAT-CAATTTTGTTTC-AGGTGAAACAA-CTCTAAAATTTGGGCTT
1 GAGAAACAATCTCAAGTGAGATAAAATTTTGTTTCGA-GTGAAA-AATCTCTAAAATTTGGGCTT
* *
40966 CAA-GGTAAATTATCTCAAGCGAGACAAAACTTT-CTTTT-G
64 CAAGGGAAAACTATCTCAAGCGAGACAAAA-TTTACTTTTAG
41005 CGAGAAACAATCTCAA
1 -GAGAAACAATCTCAA
41021 AGGTGACAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
100 1 0.01
101 29 0.29
102 48 0.48
103 19 0.19
104 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (104 bp):
GAGAAACAATCTCAAGTGAGATAAAATTTTGTTTCGAGTGAAAAATCTCTAAAATTTGGGCTTCA
AGGGAAAACTATCTCAAGCGAGACAAAATTTACTTTTAG
Found at i:43010 original size:37 final size:36
Alignment explanation
Indices: 42969--43045 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
42959 AATTGATATG
*
42969 TTTTCT-TTCATTTCCCTTTTTTTTCTTCTTTCTTCTC
1 TTTTCTCTTC-TTTCCCTTCTTTTTCTTCTTT-TTCTC
* *
43006 TTTTCTCTTCTTTCTCTTCTTTTTCTTCTTTTTTTC
1 TTTTCTCTTCTTTCCCTTCTTTTTCTTCTTTTTCTC
43042 TTTT
1 TTTT
43046 TTCCCCGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 8 0.22
37 25 0.69
38 3 0.08
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (36 bp):
TTTTCTCTTCTTTCCCTTCTTTTTCTTCTTTTTCTC
Found at i:43019 original size:9 final size:9
Alignment explanation
Indices: 42970--43036 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
42960 ATTGATATGT
42970 TTTCT-TTC
1 TTTCTCTTC
* *
42978 ATTTCCCTTT
1 -TTTCTCTTC
*
42988 TTTTTCTTC
1 TTTCTCTTC
42997 TTTCT-TCTC
1 TTTCTCT-TC
43006 TTTTCTCTTC
1 -TTTCTCTTC
43016 TTTCTCTTC
1 TTTCTCTTC
*
43025 TTTTTCTTC
1 TTTCTCTTC
43034 TTT
1 TTT
43037 TTTTCTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.02
9 36 0.77
10 9 0.19
11 1 0.02
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTCTCTTC
Found at i:43037 original size:9 final size:9
Alignment explanation
Indices: 42988--43046 Score: 77
Period size: 9 Copynumber: 6.6 Consensus size: 9
42978 ATTTCCCTTT
42988 TTTTTCTTC
1 TTTTTCTTC
42997 TTTCTTC-TC
1 TTT-TTCTTC
43006 TTTTCTCTTC
1 TTTT-TCTTC
*
43016 TTTCTCTTC
1 TTTTTCTTC
43025 TTTTTCTTC
1 TTTTTCTTC
43034 TTTTT-TTC
1 TTTTTCTTC
43042 TTTTT
1 TTTTT
43047 TCCCCGCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
8 9 0.20
9 28 0.62
10 8 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:46050 original size:28 final size:27
Alignment explanation
Indices: 46019--46074 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
46009 AAATTTTGAA
46019 TTTATGACTTATTTTAGA-AAAATTGATT
1 TTTATG-CTTATTTT-GATAAAATTGATT
* *
46047 TTTATGTTTATTTTGATTAAATTGATT
1 TTTATGCTTATTTTGATAAAATTGATT
46074 T
1 T
46075 GGAGTCTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.08
27 17 0.68
28 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (27 bp):
TTTATGCTTATTTTGATAAAATTGATT
Found at i:48679 original size:21 final size:21
Alignment explanation
Indices: 48653--48709 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
48643 AGGGCGTCAA
48653 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
48674 AGTGCATCTATGTACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
48695 ACTGCATCCATGCAC
1 AGTGCATCCATGCAC
48710 TCTATTTCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:48783 original size:20 final size:20
Alignment explanation
Indices: 48729--48821 Score: 114
Period size: 20 Copynumber: 4.7 Consensus size: 20
48719 AATACACTTA
*
48729 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGTT
* * * *
48749 GTGTATTGATACATCCTGAT
1 GTGCATCGATGCATCCTGTT
* *
48769 ATGCATCGATGCATCATGTT
1 GTGCATCGATGCATCCTGTT
48789 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGTT
*
48809 GTGCATCCATGCA
1 GTGCATCGATGCA
48822 CGAAGGCTGC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGTT
Found at i:48957 original size:21 final size:21
Alignment explanation
Indices: 48924--48963 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
48914 TTTGAGTAGA
*
48924 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
48946 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
48964 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:49491 original size:3 final size:3
Alignment explanation
Indices: 49483--49519 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49473 AATCCCAACA
49483 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49520 TGACTTGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:53827 original size:28 final size:27
Alignment explanation
Indices: 53796--53879 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
53786 CTAAAGCATA
53796 AATACATGTGAACTTTCAATAAACATTT
1 AATACA-GTGAACTTTCAATAAACATTT
*** **
53824 AATACAAAAAACTTAT-TTTAAAC---T
1 AATACAGTGAACTT-TCAATAAACATTT
53848 AATACACGTGAACTTTCAATAAACATTT
1 AATACA-GTGAACTTTCAATAAACATTT
53876 AATA
1 AATA
53880 TAAAAGCTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
24 8 0.20
25 10 0.25
27 10 0.25
28 12 0.30
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (27 bp):
AATACAGTGAACTTTCAATAAACATTT
Found at i:55232 original size:55 final size:55
Alignment explanation
Indices: 55148--55777 Score: 637
Period size: 55 Copynumber: 11.4 Consensus size: 55
55138 TCGAATGACG
* *
55148 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAATGTGTCTA
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
** * * *
55203 CTCCCTATTTTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACATATCCA
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
* *
55258 CTCCCTATTCATTCAGGGAGAATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
* * **
55313 CTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAAACGTGTCCG
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGC-AAACGTGTCTA
* *
55369 CTCCCTATTCCTTCAGGGAGTATAGGACTCGAACAATCTTCGGCAAACGTGTCTA
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
* * *
55424 CTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATC-TCTAGCAAATGGGT-TCA
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTC-AGCAAACGTGTCT-A
* * ** * *
55479 CTCCCTATTCGTTCAGGGAGTAT-AGTACTCGAACAATTTTCATAAAACGGGT-TCG
1 CTCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAAACGTGTCT-A
* * * * **
55534 CTCCTTATTCATTCAGGGAGTAT-AGAACTCGAACAATCTTTAACAAACGTGTCCG
1 CTCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAAACGTGTCTA
* * * * * * * *
55589 CTCCCTTTTCCTTCAGAGAGTATAGGACTCGAAAAATCTTCAACAATCATGTCTG
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
* * * * * * *
55644 CTCCCTATTCCTTCAGAGAGTTTAGGACTCAAACAATCTTCCA-AAAACGGGT-TCG
1 CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTT-CAGCAAACGTGTCT-A
* * * * * * *
55699 CTTCTTATTCATTCAAGGAGTAT-AGAACTCGAACAATCTTCTGAAAACGTGTCTT
1 CTCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAAACGTGTCTA
* *
55754 CTCCTTATTCCTTCAGAGAGTATA
1 CTCCCTATTCCTTCAGGGAGTATA
55778 GGAATAGATC
Statistics
Matches: 485, Mismatches: 77, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
54 8 0.02
55 422 0.87
56 55 0.11
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (55 bp):
CTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTA
Found at i:55905 original size:38 final size:37
Alignment explanation
Indices: 55803--55912 Score: 141
Period size: 37 Copynumber: 2.9 Consensus size: 37
55793 AAAATGAGTA
** *
55803 TGCTTCACTACTCTTCCATGAAGGCTTATAGA-TGATT
1 TGCTTCACTACTCTTCTGTGAAGGCTTA-AGATTGAAT
55840 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATTGAAT
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATTGAAT
* * *
55877 TGCTTCACTATTTTTTTCGTGAAGGCTTAAGATTGA
1 TGCTTCACTACTCTTCT-GTGAAGGCTTAAGATTGA
55913 CTTGTTTCGA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
36 3 0.05
37 44 0.68
38 18 0.28
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (37 bp):
TGCTTCACTACTCTTCTGTGAAGGCTTAAGATTGAAT
Found at i:57201 original size:6 final size:6
Alignment explanation
Indices: 57185--57303 Score: 55
Period size: 6 Copynumber: 18.7 Consensus size: 6
57175 CCCCCTTTTA
* * *
57185 TTTTCT ATTTCT TTTTC- TCTTCAT TTTTCT CTTTCT TCTTT-T TTTTCATTT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT T-TTTCT TTTTC---T
* * * * *
57236 TTTTCA TTTTCT CTTTTCA TTTTCAT TTTTCT CATTT-T TTTTAT TTTTAT
1 TTTTCT TTTTCT -TTTTCT TTTTC-T TTTTCT -TTTTCT TTTTCT TTTTCT
57286 TTTTCT CATTTTCT TTTT
1 TTTTCT --TTTTCT TTTT
57304 ATTTGTTTTC
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
5 10 0.11
6 45 0.52
7 20 0.23
8 6 0.07
9 6 0.07
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:57213 original size:24 final size:25
Alignment explanation
Indices: 57185--57303 Score: 127
Period size: 24 Copynumber: 4.7 Consensus size: 25
57175 CCCCCTTTTA
*
57185 TTTTCT-ATTTCTTTTTCTCTTCAT
1 TTTTCTCATTTCTTTTTCTTTTCAT
*
57209 TTTTCTC-TTTCTTCTTTTTTTTCAT
1 TTTTCTCATTTCTT-TTTCTTTTCAT
*
57234 TTTTTTCATTTTCTCTTTTCATTTTCAT
1 TTTTCTCA-TTTCT-TTTTC-TTTTCAT
* *
57262 TTTTCTCATTT-TTTTTATTTTTAT
1 TTTTCTCATTTCTTTTTCTTTTCAT
57286 TTTTCTCATTTTCTTTTT
1 TTTTCTCA-TTTCTTTTT
57304 ATTTGTTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
24 26 0.32
25 22 0.28
26 6 0.08
27 11 0.14
28 15 0.19
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCTCATTTCTTTTTCTTTTCAT
Found at i:57219 original size:18 final size:20
Alignment explanation
Indices: 57198--57272 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 20
57188 TCTATTTCTT
57198 TTTC-TCTTCATTTTTCTC-
1 TTTCATCTTCATTTTTCTCA
*
57216 TTTCTTCTT--TTTTT-TCA
1 TTTCATCTTCATTTTTCTCA
* *
57233 TTT--TTTTCA-TTTTCTCT
1 TTTCATCTTCATTTTTCTCA
*
57250 TTTCATTTTCATTTTTCTCA
1 TTTCATCTTCATTTTTCTCA
57270 TTT
1 TTT
57273 TTTTTATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
15 3 0.07
16 6 0.13
17 13 0.28
18 4 0.09
19 10 0.22
20 10 0.22
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCATCTTCATTTTTCTCA
Found at i:57236 original size:9 final size:9
Alignment explanation
Indices: 57224--57283 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
57214 TCTTTCTTCT
57224 TTTTTTTCA
1 TTTTTTTCA
57233 TTTTTTTCA
1 TTTTTTTCA
* *
57242 -TTTTCTCT
1 TTTTTTTCA
57250 TTTCATTTTCA
1 TTT--TTTTCA
*
57261 TTTTTCTCA
1 TTTTTTTCA
*
57270 TTTTTTTTA
1 TTTTTTTCA
57279 TTTTT
1 TTTTT
57284 ATTTTTCTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 6 0.15
9 28 0.68
11 7 0.17
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:57252 original size:13 final size:14
Alignment explanation
Indices: 57236--57273 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
57226 TTTTTCATTT
57236 TTTTCATTTTC-TC
1 TTTTCATTTTCATC
*
57249 TTTTCATTTTCATT
1 TTTTCATTTTCATC
57263 TTTCTCATTTT
1 TTT-TCATTTT
57274 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 4 0.18
15 7 0.32
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCATTTTCATC
Found at i:57290 original size:37 final size:38
Alignment explanation
Indices: 57210--57303 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 38
57200 TCTCTTCATT
* *
57210 TTTCTCTTTCTTCTTTTTTTTCATTTTTTTCATTTTC-TC
1 TTTCTCATT-TTC-TTTTTCTCATTTTTTTCATTTTCTTC
* *
57249 TTT-TCATTTTCATTTTTCTCATTTTTTTTATTTT-TATT
1 TTTCTCATTTTC-TTTTTCTCATTTTTTTCATTTTCT-TC
57287 TTTCTCATTTTCTTTTT
1 TTTCTCATTTTCTTTTT
57304 ATTTGTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 23 0.49
38 13 0.28
39 11 0.23
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (38 bp):
TTTCTCATTTTCTTTTTCTCATTTTTTTCATTTTCTTC
Found at i:57296 original size:9 final size:9
Alignment explanation
Indices: 57205--57297 Score: 56
Period size: 9 Copynumber: 10.8 Consensus size: 9
57195 CTTTTTCTCT
57205 TCATTTTTC
1 TCATTTTTC
57214 TC-TTTCTTC
1 TCATTT-TTC
*
57223 T--TTTTTT
1 TCATTTTTC
*
57230 TCATTTTTT
1 TCATTTTTC
57239 TCA-TTTTC
1 TCATTTTTC
* *
57247 TCTTTTCATTT
1 TCATTT--TTC
57258 TCATTTTTC
1 TCATTTTTC
*
57267 TCATTTTTT
1 TCATTTTTC
*
57276 TTA-TTTT-
1 TCATTTTTC
57283 T-ATTTTTC
1 TCATTTTTC
57291 TCATTTT
1 TCATTTT
57298 CTTTTTATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
6 1 0.01
7 8 0.12
8 17 0.25
9 34 0.51
11 7 0.10
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (9 bp):
TCATTTTTC
Found at i:57312 original size:24 final size:25
Alignment explanation
Indices: 57185--57307 Score: 121
Period size: 25 Copynumber: 4.9 Consensus size: 25
57175 CCCCCTTTTA
*
57185 TTTTCT-A-TTTCTTTTTCTCTTCAT
1 TTTTCTCATTTTCTTTTTAT-TTCAT
*
57209 TTTTCTCTTTCTTCTTTTT-TTTCAT
1 TTTTCTCATT-TTCTTTTTATTTCAT
*
57234 TTTTTTCATTTTCTCTTTTCATTTTCAT
1 TTTTCTCATTTTCT-TTTT-A-TTTCAT
*
57262 TTTTCTCA-TTT-TTTTTATTTTTAT
1 TTTTCTCATTTTCTTTTTA-TTTCAT
57286 TTTTCTCATTTTCTTTTTATTT
1 TTTTCTCATTTTCTTTTTATTT
57308 GTTTTCTCTT
Statistics
Matches: 85, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
24 25 0.29
25 27 0.32
26 9 0.11
27 11 0.13
28 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCTCATTTTCTTTTTATTTCAT
Found at i:57313 original size:23 final size:24
Alignment explanation
Indices: 57262--57315 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
57252 TCATTTTCAT
* *
57262 TTTTCTCATTTTTTTTATTTTTAT
1 TTTTCTCATTTTTTTTATATTTAG
57286 TTTTCTCATTTTCTTTT-TATTT-G
1 TTTTCTCATTTT-TTTTATATTTAG
57309 TTTTCTC
1 TTTTCTC
57316 TTTAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 16 0.59
25 4 0.15
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTCTCATTTTTTTTATATTTAG
Done.