Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005206.1 Hibiscus syriacus cultivar Beakdansim tig00011774_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: 227869
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:185 original size:107 final size:105
Alignment explanation
Indices: 1--192 Score: 314
Period size: 107 Copynumber: 1.8 Consensus size: 105
* *
1 CATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAAGAGCTTATTTAACCTTT
1 CATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAAGAACTTATTCAACCTTT
66 TGCTCAAATCCATCACTTGATGGAAGAAGGAAGAAGAAGT
66 TGCTCAAATCCATCACTTGATGGAAGAAGGAAGAAGAAGT
*
106 CATAATGAGAATAA-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACC
1 CATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAAT--GAAGAACTTATTCAACC
*
170 TTTTGCTCAAATCCATTACTTGA
63 TTTTGCTCAAATCCATCACTTGA
193 GATCAACATT
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
104 14 0.17
105 29 0.36
107 37 0.46
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (105 bp):
CATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAAGAACTTATTCAACCTTT
TGCTCAAATCCATCACTTGATGGAAGAAGGAAGAAGAAGT
Found at i:317 original size:103 final size:102
Alignment explanation
Indices: 193--380 Score: 306
Period size: 103 Copynumber: 1.8 Consensus size: 102
183 CATTACTTGA
*
193 GATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAAAAGAAGTTCA
1 GATCAACATTTCCAGAGAAAGTTCATAATAAAAAGAACTCATCTG-AG-AAGAAAAAGAAGTTCA
258 TAATGAG-AGAACCTGTTCAACTTTTCGCTTACTGGATG
64 TAATGAGAAGAACCTGTTCAACTTTTCGCTTACTGGATG
* * *
296 GATCAACTTTTCCAGAGAAAGTTCATAATAAAAAGAACTCATCTGAGAGGAAGAAGAAGTTCATA
1 GATCAACATTTCCAGAGAAAGTTCATAATAAAAAGAACTCATCTGAGAAGAAAAAGAAGTTCATA
*
361 ATGAGAAGAACTTGTTCAAC
66 ATGAGAAGAACCTGTTCAAC
381 CTTTGCATGA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 21 0.27
102 15 0.19
103 43 0.54
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (102 bp):
GATCAACATTTCCAGAGAAAGTTCATAATAAAAAGAACTCATCTGAGAAGAAAAAGAAGTTCATA
ATGAGAAGAACCTGTTCAACTTTTCGCTTACTGGATG
Found at i:494 original size:83 final size:82
Alignment explanation
Indices: 355--514 Score: 248
Period size: 83 Copynumber: 1.9 Consensus size: 82
345 GAAGAAGAAG
* * * **
355 TTCATAATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATTAGCAT
1 TTCATAATAAGAAGAACTTGTTCAACCTTTGCAAGACTCTATCACAGAAGAAGATAGACCAGCAT
*
420 ACACTTTTCCAGAGAAAA
66 -CACATTTCCAGAGAAAA
*
438 TTCATAATAAGAAGAACTTGTTCAACCTTTGCAAGATTCTATCACAGAAGAAGATAGACCAGCAT
1 TTCATAATAAGAAGAACTTGTTCAACCTTTGCAAGACTCTATCACAGAAGAAGATAGACCAGCAT
503 CACATTTCCAGA
66 CACATTTCCAGA
515 AGTGTTCATA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 11 0.16
83 59 0.84
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (82 bp):
TTCATAATAAGAAGAACTTGTTCAACCTTTGCAAGACTCTATCACAGAAGAAGATAGACCAGCAT
CACATTTCCAGAGAAAA
Found at i:534 original size:83 final size:84
Alignment explanation
Indices: 355--538 Score: 232
Period size: 83 Copynumber: 2.2 Consensus size: 84
345 GAAGAAGAAG
* * * **
355 TTCATAA-TGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATTAGCA
1 TTCATAAGAGAGAAGAACTTGTTCAACCTTTGCAAGACTCTATCACAGAAGAAGATAGACCAGCA
*
419 TACACTTTTCCAGAGAAAA
66 TACACATTTCCAGAGAAAA
* *
438 TTCATAATA-AGAAGAACTTGTTCAACCTTTGCAAGATTCTATCACAGAAGAAGATAGACCAGCA
1 TTCATAAGAGAGAAGAACTTGTTCAACCTTTGCAAGACTCTATCACAGAAGAAGATAGACCAGCA
***
502 T-CACATTTCCAGA-AGTG
66 TACACATTTCCAGAGAAAA
519 TTCATAACGAGAGAAGAACT
1 TTCATAA-GAGAGAAGAACT
539 CATCTGAGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
81 8 0.09
82 12 0.14
83 67 0.77
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (84 bp):
TTCATAAGAGAGAAGAACTTGTTCAACCTTTGCAAGACTCTATCACAGAAGAAGATAGACCAGCA
TACACATTTCCAGAGAAAA
Found at i:816 original size:3 final size:3
Alignment explanation
Indices: 810--865 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
800 ATATTTATAC
* * *
810 TAT TAT TAT TAT TTT TAT TAT TAT ATAT TTT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
856 TAT T-T TAT TA
1 TAT TAT TAT TA
866 CAGATACAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:853 original size:25 final size:26
Alignment explanation
Indices: 804--858 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
794 TTTTTTATAT
**
804 TTATACTATTATTATTATTTTTATTA
1 TTATACTATTATTATTATTAATATTA
*
830 TTATA-TATTTTTATTATTAATATTA
1 TTATACTATTATTATTATTAATATTA
855 TTAT
1 TTAT
859 TTTATTACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATACTATTATTATTATTAATATTA
Found at i:3802 original size:28 final size:30
Alignment explanation
Indices: 3759--3820 Score: 94
Period size: 28 Copynumber: 2.1 Consensus size: 30
3749 ACATAAATTC
3759 ATTTTTTAATCAAATTTTGAAAAATT-TAA
1 ATTTTTTAATCAAATTTTGAAAAATTATAA
3788 TATTTTTT-AT-AAATTTTGAAAAATTATAA
1 -ATTTTTTAATCAAATTTTGAAAAATTATAA
3817 ATTT
1 ATTT
3821 AAAATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 19 0.61
29 5 0.16
30 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTTTAATCAAATTTTGAAAAATTATAA
Found at i:3831 original size:30 final size:28
Alignment explanation
Indices: 3770--3838 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
3760 TTTTTTAATC
**
3770 AAATTTTGAAAAATTTAATATTTTTTAT
1 AAATTTTGAAAAATTTAATATTTAATAT
3798 AAATTTTGAAAAATTATAA-ATTTAAAATAT
1 AAATTTTGAAAAATT-TAATATTT--AATAT
*
3828 AAATTCTGAAA
1 AAATTTTGAAA
3839 GCTAAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 19 0.54
29 3 0.09
30 13 0.37
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTTTGAAAAATTTAATATTTAATAT
Found at i:4344 original size:21 final size:21
Alignment explanation
Indices: 4293--4345 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
4283 ATTATGACTA
4293 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
4314 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
4335 TCGCAATGCGA
1 TCGCAATGCGA
4346 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:4365 original size:41 final size:41
Alignment explanation
Indices: 4320--4551 Score: 132
Period size: 41 Copynumber: 5.7 Consensus size: 41
4310 AATTTCGCGT
*
4320 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * * *
4361 TGCGAATTTGGAAAATCGCAATACG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * **
4402 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATAAGTAAATCGCAA
* *
4443 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
4484 CGCGA-TTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAA-TAAGTAAATCGCAA
* * * *
4525 TGCGA-ATACGTAAATCGCAATGCGAAT
1 TGCGATTTTCCTAATTCGCAATGCGAAT
4552 CTTACTATCG
Statistics
Matches: 144, Mismatches: 40, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
39 2 0.01
40 26 0.18
41 114 0.79
43 1 0.01
44 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:4378 original size:21 final size:20
Alignment explanation
Indices: 4335--4382 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4325 TTTTCCCAAT
*
4335 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
4355 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
4376 TCGCAAT
1 TCGCAAT
4383 ACGATACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:4430 original size:21 final size:21
Alignment explanation
Indices: 4396--4468 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
4386 ATACTGACTA
* *
4396 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
4417 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
4437 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
4458 TCGCAATGCGA
1 TCGCAATGCGA
4469 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:4483 original size:20 final size:20
Alignment explanation
Indices: 4458--4569 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
4448 TTTTCATAAT
4458 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
4478 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
4498 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
4519 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
4539 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
4559 TCGCAATGCGA
1 TCGCAATGCGA
4570 TTTACATAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5148 original size:19 final size:19
Alignment explanation
Indices: 5124--5168 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
5114 GCAACGAGAG
**
5124 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
5143 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
5162 AATCGCA
1 AATCGCA
5169 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:5222 original size:24 final size:19
Alignment explanation
Indices: 5164--5309 Score: 112
Period size: 19 Copynumber: 7.1 Consensus size: 19
5154 GAAACCAAAA
*
5164 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5183 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
5202 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
5221 TCGCGTTACGATTCTCTCATTGCGATT
1 TCGCGTTGCGA---T-T--TT-C-ATT
* **
5248 CTCTCGTTGCGATAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
5268 TCCGTGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
5288 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
5308 TC
1 TC
5310 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
19 48 0.48
20 33 0.33
21 2 0.02
22 2 0.02
25 2 0.02
26 1 0.01
27 3 0.03
28 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5248 original size:14 final size:14
Alignment explanation
Indices: 5229--5260 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5219 TTTCGCGTTA
5229 CGATTCTCTCATTG
1 CGATTCTCTCATTG
*
5243 CGATTCTCTCGTTG
1 CGATTCTCTCATTG
5257 CGAT
1 CGAT
5261 AGTCATTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (14 bp):
CGATTCTCTCATTG
Found at i:5286 original size:20 final size:20
Alignment explanation
Indices: 5250--5309 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
5240 TTGCGATTCT
**
5250 CTCGTTGCGATAGTCATTTC
1 CTCGTTGCGATTTTCATTTC
5270 CGT-GTTGCGATTTTCATTAT-
1 C-TCGTTGCGATTTTCATT-TC
5290 CTCGTTGCGATTTTCATTTC
1 CTCGTTGCGATTTTCATTTC
5310 AACCAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (20 bp):
CTCGTTGCGATTTTCATTTC
Found at i:7150 original size:95 final size:90
Alignment explanation
Indices: 6990--7175 Score: 266
Period size: 95 Copynumber: 2.0 Consensus size: 90
6980 TAGATTGCTT
* *
6990 AGTAAATTTATTCGGTTGTTTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATT
1 AGTAAATTTATTCAGTTGTCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATT
*
7055 TGTCTTTTTGTTTTGTCTTTTGGTTGA
66 TGTC--TTTATTTTGTCTTTTGGTTGA
* *
7082 AGTAAATTTATTCAGTTG-CTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCAGTTGTCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAG
7146 TATTTGTCTTTATTTTGTCTTTTGGTTGA
62 TATTTGTCTTTATTTTGTCTTTTGGTTGA
7175 A
1 A
7176 AGTTTGAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
91 16 0.19
92 17 0.20
93 24 0.28
94 2 0.02
95 26 0.31
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.48
Consensus pattern (90 bp):
AGTAAATTTATTCAGTTGTCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATT
TGTCTTTATTTTGTCTTTTGGTTGA
Found at i:7473 original size:21 final size:21
Alignment explanation
Indices: 7449--7515 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7439 TCATTCCTCG
7449 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
7470 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
7491 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
7512 AGAG
1 AGAG
7516 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:7473 original size:42 final size:42
Alignment explanation
Indices: 7397--7515 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
7387 GACTCGCCTG
* * * * * * *
7397 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
7439 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
7481 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
7516 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:8881 original size:14 final size:14
Alignment explanation
Indices: 8861--8911 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
8851 GATTGTTTAA
8861 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
8874 TGTGATTTGTAAAAG
1 T-TGATTTGTAAAAG
8889 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
8903 TTGATTTGT
1 TTGATTTGT
8912 TTAATTGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
13 1 0.03
14 34 0.94
15 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:9040 original size:19 final size:19
Alignment explanation
Indices: 9018--9076 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
9008 AAAAATTACT
9018 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9037 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
9051 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9070 ATCGCAA
1 ATCGCAA
9077 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9060 original size:33 final size:33
Alignment explanation
Indices: 9018--9111 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
9008 AAAAATTACT
* *
9018 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
9051 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
9084 ATCGCAACGTGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
9112 CGAAACTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:9105 original size:19 final size:19
Alignment explanation
Indices: 9050--9126 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
9040 GCAACGAGAT
*
9050 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
9069 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
9083 AATCGCAACGTGAAACTAA
1 AATCGCAACGCGAAACTAA
9102 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
9121 ATTCGC
1 AATCGC
9127 GTTACGATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 1 0.02
17 2 0.04
18 2 0.04
19 33 0.67
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:9153 original size:19 final size:18
Alignment explanation
Indices: 9131--9252 Score: 88
Period size: 19 Copynumber: 7.2 Consensus size: 18
9121 ATTCGCGTTA
9131 CGATTTTCATTTCGCTTTG
1 CGATTTTCATTTCGC-TTG
**
9150 CGA--TTC-CCTCG-TTG
1 CGATTTTCATTTCGCTTG
9164 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGC-TTG
*
9183 CGA--TTC-TCTCG-TTG
1 CGATTTTCATTTCGCTTG
9197 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGC-TTG
*
9216 CGA--TT-ATCTCG-TTG
1 CGATTTTCATTTCGCTTG
9230 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGC-TTG
9249 CGAT
1 CGAT
9253 AGTAATTTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
14 18 0.22
16 20 0.25
17 20 0.25
19 22 0.28
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (18 bp):
CGATTTTCATTTCGCTTG
Found at i:9173 original size:33 final size:33
Alignment explanation
Indices: 9126--9252 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
9116 ACTAAATTCG
* * *
9126 CGTTACGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
9159 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
9192 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
9225 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
9253 AGTAATTTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:9199 original size:14 final size:14
Alignment explanation
Indices: 9147--9234 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
9137 TCATTTCGCT
*
9147 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
9161 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
9178 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
9194 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
*
9211 CATTGCGATTATCTCG
1 --TTGCGATTCTCTCG
9227 TTGCGATT
1 TTGCGATT
9235 TTCATTTCGC
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 12 0.21
19 12 0.21
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:9318 original size:20 final size:20
Alignment explanation
Indices: 9246--9318 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
9236 TCATTTCGCA
* *
9246 TTGCGATAGTAATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* **
9266 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
9286 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
9307 TTGCGATAGTCA
1 TTGCGATAGTCA
9319 AATGATTGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:11810 original size:24 final size:24
Alignment explanation
Indices: 11776--11829 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11766 CTGAAACATC
* *
11776 ATCAAAATCCGATTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
11800 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
11824 ATCAAA
1 ATCAAA
11830 TTTTGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:12697 original size:20 final size:20
Alignment explanation
Indices: 12672--12728 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
12662 TAATACAAAA
*
12672 TCGCAACGTGATTCTGACTT
1 TCGCAACGAGATTCTGACTT
12692 TCGCAACGAGATTCTGACTT
1 TCGCAACGAGATTCTGACTT
*
12712 TCGCAAAGAGATTCTGA
1 TCGCAACGAGATTCTGA
12729 AAATCGCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (20 bp):
TCGCAACGAGATTCTGACTT
Found at i:12735 original size:20 final size:20
Alignment explanation
Indices: 12668--12737 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
12658 GAGATAATAC
*
12668 AAAATCGCAACGTGATTCTG
1 AAAATCGCAACGAGATTCTG
***
12688 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
*** *
12708 ACTTTCGCAAAGAGATTCTG
1 AAAATCGCAACGAGATTCTG
12728 AAAATCGCAA
1 AAAATCGCAA
12738 TCATCTTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:13040 original size:21 final size:20
Alignment explanation
Indices: 13016--13060 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13006 TGCATTGCGA
13016 TTTTCTCGTTGCGATAGTCAG
1 TTTTCT-GTTGCGATAGTCAG
* *
13037 TTTTGTGTTGCGATAGTCTG
1 TTTTCTGTTGCGATAGTCAG
13057 TTTT
1 TTTT
13061 GCCTTCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.11, C:0.13, G:0.24, T:0.51
Consensus pattern (20 bp):
TTTTCTGTTGCGATAGTCAG
Found at i:13048 original size:20 final size:20
Alignment explanation
Indices: 13023--13061 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13013 CGATTTTCTC
13023 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
13043 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
13062 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:14650 original size:41 final size:42
Alignment explanation
Indices: 14605--14696 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
14595 CCTCTTCAAC
* *
14605 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* * *
14646 GATGATAGGGGCCTCTTGAATGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
14688 GATGACAGG
1 GATGACAGG
14697 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 19 0.43
42 25 0.57
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.23
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:14661 original size:21 final size:21
Alignment explanation
Indices: 14632--14692 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
14622 GAACGGTGGG
*
14632 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
14653 GGGGCCTCTTGAATGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
14674 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
14693 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.43, T:0.25
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:15058 original size:20 final size:20
Alignment explanation
Indices: 15033--15071 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15023 GAAGAATAGT
15033 TTACTTTCACAACACGAAAC
1 TTACTTTCACAACACGAAAC
* *
15053 TTACTTTCGCAACGCGAAA
1 TTACTTTCACAACACGAAA
15072 ATGACTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (20 bp):
TTACTTTCACAACACGAAAC
Found at i:15082 original size:20 final size:20
Alignment explanation
Indices: 15059--15145 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
15049 AAACTTACTT
*
15059 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
15079 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
15099 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
15119 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
15138 TCGCAACG
1 TCGCAACG
15146 ACAAAATCGC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 14 0.23
20 46 0.77
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:15114 original size:40 final size:39
Alignment explanation
Indices: 15059--15178 Score: 126
Period size: 33 Copynumber: 3.2 Consensus size: 39
15049 AAACTTACTT
**
15059 TCGCAACGCGAAAATGACTATCGCAACGCGGAAATGACTA
1 TCGCAACGCGAAAATGACTATCGCAACGC-GAAATGAAAA
* * *
15099 TCGCAACGCGGAAATGGCTATCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAAATGAAAA
* *
15138 TCGCAA--CGACAA--A--ATCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAAATGAAAA
15171 TCGCAACG
1 TCGCAACG
15179 ACAAAATCGC
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
33 26 0.37
37 4 0.06
39 14 0.20
40 26 0.37
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (39 bp):
TCGCAACGCGAAAATGACTATCGCAACGCGAAATGAAAA
Found at i:15153 original size:14 final size:14
Alignment explanation
Indices: 15134--15192 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
15124 ATGCGAAATG
15134 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
15148 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
15167 AAAATCGCAACGAC
1 AAAATCGCAACGAC
15181 AAAATCGCAACG
1 AAAATCGCAACG
15193 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:15208 original size:33 final size:33
Alignment explanation
Indices: 15118--15197 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
15108 GGAAATGGCT
15118 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
15151 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
15184 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
15198 CACAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:15226 original size:19 final size:19
Alignment explanation
Indices: 15204--15320 Score: 101
Period size: 19 Copynumber: 6.6 Consensus size: 19
15194 GAAACACAAA
15204 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
15223 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
15239 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
15256 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
15272 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* ***
15289 TTGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
15308 TCCGCATTGCGAT
1 T-CGCATTGCGAT
15321 AGTCATTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
14 12 0.15
15 6 0.08
16 8 0.10
17 7 0.09
18 6 0.08
19 29 0.37
20 10 0.13
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:15247 original size:14 final size:14
Alignment explanation
Indices: 15228--15284 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
15218 TCATTTCGCA
15228 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
15242 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
15259 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
15275 TTGCGATTTT
1 TTGCGATTTT
15285 CATTTTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:15251 original size:33 final size:33
Alignment explanation
Indices: 15209--15300 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
15199 ACAAATCGCA
15209 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
15242 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
15275 TTGCGATTTTCATTTTGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
15301 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:15339 original size:20 final size:20
Alignment explanation
Indices: 15291--15328 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15281 TTTTCATTTT
15291 GCATTGCGATAGCCATTTCC
1 GCATTGCGATAGCCATTTCC
*
15311 GCATTGCGATAGTCATTT
1 GCATTGCGATAGCCATTT
15329 TCGTGTTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (20 bp):
GCATTGCGATAGCCATTTCC
Found at i:15903 original size:18 final size:18
Alignment explanation
Indices: 15880--15927 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
15870 CGGGTCGATC
15880 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
15898 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
15916 AGGTGATGGCTC
1 AGGTGATGGCTC
15928 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:17296 original size:20 final size:20
Alignment explanation
Indices: 17248--17306 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
17238 AATAGTTTCT
* *
17248 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
17268 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
17288 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
17307 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:17595 original size:22 final size:22
Alignment explanation
Indices: 17569--17611 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17559 GATGGAGATA
17569 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
17591 GACGGATTTCGTCGGAGATGG
1 GACGGATTTCGCCAGAGATGG
17612 TTGAGAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:17811 original size:21 final size:22
Alignment explanation
Indices: 17779--17874 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 22
17769 CGCTTTGAAA
*
17779 ATCGCATTGCGATTATGT-ATT
1 ATCGCGTTGCGATTATGTCATT
* * *
17800 ATCTCGTTGCGA--AAGTCAAT
1 ATCGCGTTGCGATTATGTCATT
*
17820 ATCGCGTTGCGATTCTGT-ATT
1 ATCGCGTTGCGATTATGTCATT
*
17841 ATCGCGTTGCGA-TA-GTCAGT
1 ATCGCGTTGCGATTATGTCATT
17861 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
17875 TTCCAAATTC
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
19 5 0.08
20 28 0.47
21 25 0.42
22 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (22 bp):
ATCGCGTTGCGATTATGTCATT
Found at i:17839 original size:41 final size:41
Alignment explanation
Indices: 17779--17874 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
17769 CGCTTTGAAA
* *
17779 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAAT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAAT
* * *
17820 ATCGCGTTGCGATTCTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAAT
17861 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
17875 TTCCAAATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAAT
Found at i:17891 original size:21 final size:21
Alignment explanation
Indices: 17862--17917 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
17852 ATAGTCAGTA
* *
17862 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCAAAAT
17883 TCGCATTGCGATTTTCAAAAT
1 TCGCATTGCGATTTTCAAAAT
17904 TCGCATTGCGATTT
1 TCGCATTGCGATTT
17918 ACTTATTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCAAAAT
Found at i:17892 original size:41 final size:41
Alignment explanation
Indices: 17806--17894 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
17796 TATTATCTCG
* ** * *
17806 TTGCGAAAGTCAATATCGCGTTGCGATTCTGTATTATCGCG
1 TTGCGATAGTCAATATCGCGTTGCGATTCTCAAATATCGCA
* *
17847 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAATATCGCGTTGCGATTCT-CAAATATCGCA
17888 TTGCGAT
1 TTGCGAT
17895 TTTCAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAATATCGCGTTGCGATTCTCAAATATCGCA
Found at i:26111 original size:29 final size:28
Alignment explanation
Indices: 26079--26136 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
26069 TAATTTATAG
*
26079 TAATTAAATTTTGATATAAT-GATTTTAAA
1 TAATTAAACTTT-ATA-AATAGATTTTAAA
*
26108 TAATTAAACTTTATAAATATATTTTAAA
1 TAATTAAACTTTATAAATAGATTTTAAA
26136 T
1 T
26137 GGTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 3 0.12
28 12 0.46
29 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TAATTAAACTTTATAAATAGATTTTAAA
Found at i:27036 original size:36 final size:36
Alignment explanation
Indices: 26989--27062 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
26979 AGCTGTCACA
*
26989 GAGTGAATGGACATGGTAAGAACCGCACTAATCAAG
1 GAGTGAATGGACATGGTAAGAACCACACTAATCAAG
*
27025 GAGTGAATGGACATGGTAAGAACCACACTAATCGAG
1 GAGTGAATGGACATGGTAAGAACCACACTAATCAAG
27061 GA
1 GA
27063 ACGATTTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.16
Consensus pattern (36 bp):
GAGTGAATGGACATGGTAAGAACCACACTAATCAAG
Found at i:29743 original size:25 final size:26
Alignment explanation
Indices: 29710--29758 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
29700 TATATTACAG
*
29710 AAAATTAAGAGAAA-ATTG-TAAAATA
1 AAAAATAAGA-AAATATTGATAAAATA
29735 AAAAATAAGAAAATATTGATAAAA
1 AAAAATAAGAAAATATTGATAAAA
29759 AATATTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.62
26 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (26 bp):
AAAAATAAGAAAATATTGATAAAATA
Found at i:29878 original size:2 final size:2
Alignment explanation
Indices: 29871--29900 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29861 GGATTAAGTT
29871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29901 AAATGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30702 original size:60 final size:60
Alignment explanation
Indices: 30634--30755 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
30624 ACAAGGATAA
30634 ACGGTCACCAATATCACCTCCCTAATCAACATAAGAAAATGCTCTTATATTTAGCATTGC
1 ACGGTCACCAATATCACCTCCCTAATCAACATAAGAAAATGCTCTTATATTTAGCATTGC
30694 ACGGTCACCAATATCACCTCCCTAATCAACATAAGAAAATGCTCTTATATTTAGCATTGC
1 ACGGTCACCAATATCACCTCCCTAATCAACATAAGAAAATGCTCTTATATTTAGCATTGC
30754 AC
1 AC
30756 CCGTCATAAA
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:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (60 bp):
ACGGTCACCAATATCACCTCCCTAATCAACATAAGAAAATGCTCTTATATTTAGCATTGC
Found at i:37246 original size:33 final size:33
Alignment explanation
Indices: 37208--37274 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
37198 CCTAGTACAG
37208 ATGGTGGACACGACCTTATGTGTCATACGAATT
1 ATGGTGGACACGACCTTATGTGTCATACGAATT
* *
37241 ATGGTGGACACGACCTTATGTGTTATACGTATT
1 ATGGTGGACACGACCTTATGTGTCATACGAATT
37274 A
1 A
37275 GCACTACGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (33 bp):
ATGGTGGACACGACCTTATGTGTCATACGAATT
Found at i:37402 original size:44 final size:44
Alignment explanation
Indices: 37353--37544 Score: 296
Period size: 44 Copynumber: 4.3 Consensus size: 44
37343 TGGTATATGG
* * *
37353 TTATGGA-ATAATGGAAAATGTATTGGTAAAATAAGCTTACAAGC
1 TTATGGATA-AATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
37397 TTATGGATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
37441 TTATGGATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* * *
37485 TTATGGATAAATGGTAAGTATATTGGTAAAATAATCTTACGAGT
1 TTATGGATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
37529 TTATGGTATTAAATGG
1 TTATGG-A-TAAATGG
37545 AAAAATATTG
Statistics
Matches: 139, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
44 130 0.94
45 2 0.01
46 7 0.05
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
Found at i:37452 original size:24 final size:24
Alignment explanation
Indices: 37425--37496 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
37415 TGTATTGGTA
37425 AAATAAGCTTACGAGCTTATGGAT
1 AAATAAGCTTACGAGCTTATGGAT
*
37449 AAAT--G-GTA--AG-TGTATTGG-T
1 AAATAAGCTTACGAGCT-TA-TGGAT
37468 AAAATAAGCTTACGAGCTTATGGAT
1 -AAATAAGCTTACGAGCTTATGGAT
37493 AAAT
1 AAAT
37497 GGTAAGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 7 0.19
21 2 0.06
22 2 0.06
23 2 0.06
24 11 0.31
25 5 0.14
26 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (24 bp):
AAATAAGCTTACGAGCTTATGGAT
Found at i:37898 original size:12 final size:12
Alignment explanation
Indices: 37881--37905 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37871 AATGTTGAAA
37881 TTACTGTAGCAG
1 TTACTGTAGCAG
37893 TTACTGTAGCAG
1 TTACTGTAGCAG
37905 T
1 T
37906 GCATCGATGC
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:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TTACTGTAGCAG
Found at i:42562 original size:2 final size:2
Alignment explanation
Indices: 42555--42579 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42545 GATTGTTGCA
42555 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
42580 GAAAATACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46493 original size:17 final size:18
Alignment explanation
Indices: 46462--46496 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46452 AAAGCTTTTA
46462 TCTCTTTCATCTCCTTCT
1 TCTCTTTCATCTCCTTCT
*
46480 TCTC-TTCATTTCCTTCT
1 TCTCTTTCATCTCCTTCT
46497 CGTTTCCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.57
Consensus pattern (18 bp):
TCTCTTTCATCTCCTTCT
Found at i:47132 original size:17 final size:17
Alignment explanation
Indices: 47110--47142 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47100 TTTTTTACCG
47110 ATTTTATTATTTAAAAA
1 ATTTTATTATTTAAAAA
47127 ATTTTATTATTTAAAA
1 ATTTTATTATTTAAAA
47143 TAATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTATTATTTAAAAA
Found at i:49103 original size:9 final size:10
Alignment explanation
Indices: 49085--49148 Score: 68
Period size: 9 Copynumber: 6.8 Consensus size: 10
49075 GTCTTTTTTA
49085 TATTATTTAAT
1 TATTA-TTAAT
49096 T-TTATTAAT
1 TATTATTAAT
49105 TATTATT-AT
1 TATTATTAAT
49114 TATTATT-AT
1 TATTATTAAT
49123 TATTATT-AT
1 TATTATTAAT
49132 TATTA--AAT
1 TATTATTAAT
49140 TATATATTA
1 TAT-TATTA
49149 CAAATTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.10
9 33 0.69
10 8 0.17
11 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTAAT
Found at i:49109 original size:3 final size:3
Alignment explanation
Indices: 49085--49136 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
49075 GTCTTTTTTA
*
49085 TAT TAT T-T AAT T-T TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
49129 TAT TAT TA
1 TAT TAT TA
49137 AATTATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:49147 original size:12 final size:12
Alignment explanation
Indices: 49085--49148 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 12
49075 GTCTTTTTTA
49085 TATTATT-TAAT
1 TATTATTATAAT
49096 T-TTA-T-TAAT
1 TATTATTATAAT
*
49105 TATTATTATTAT
1 TATTATTATAAT
*
49117 TATTATTATTAT
1 TATTATTATAAT
49129 TATTATTA-AAT
1 TATTATTATAAT
49140 TATATATTA
1 TAT-TATTA
49149 CAAATTTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
9 6 0.13
10 6 0.13
11 7 0.15
12 28 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATAAT
Found at i:52880 original size:31 final size:32
Alignment explanation
Indices: 52844--52905 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
52834 ATTTTACATG
*
52844 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTCGTTTGTGTA
52875 TACTAACTTATTTCTTCTCTTTCGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTCGTTTGTGT
52906 CATTTGCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.15, C:0.16, G:0.10, T:0.60
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTCGTTTGTGTA
Found at i:55787 original size:12 final size:12
Alignment explanation
Indices: 55763--55811 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
55753 GAGCAAAGAG
55763 CAAAGAGAAAAAT
1 CAAAGA-AAAAAT
*
55776 CAAAGCAAAAAT
1 CAAAGAAAAAAT
*
55788 CAAAGAAAAAAG
1 CAAAGAAAAAAT
55800 CAAAGAACAAAA
1 CAAAGAA-AAAA
55812 AGAGGACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 23 0.72
13 9 0.28
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.04
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:55803 original size:24 final size:24
Alignment explanation
Indices: 55735--55813 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
55725 AGATCATATT
* *
55735 AAAGCGAAGAGAAAAG-AAGAGCAA
1 AAAGCAAAGAAAAAAGCAA-AGCAA
* *
55759 AGAGCAAAGAGAAAAATCAAAGCAA
1 AAAGCAAAGA-AAAAAGCAAAGCAA
*
55784 AAATCAAAGAAAAAAGCAAAGAACAA
1 AAAGCAAAGAAAAAAGCAAAG--CAA
55810 AAAG
1 AAAG
55814 AGGACAAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
24 18 0.42
25 17 0.40
26 8 0.19
ACGTcount: A:0.67, C:0.10, G:0.20, T:0.03
Consensus pattern (24 bp):
AAAGCAAAGAAAAAAGCAAAGCAA
Found at i:57002 original size:4 final size:4
Alignment explanation
Indices: 56993--57038 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
56983 GATCGAGAAA
*
56993 ACAT ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
57038 A
1 A
57039 AAATTTGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:57024 original size:18 final size:17
Alignment explanation
Indices: 57001--57036 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
56991 AAACATACAT
57001 ACATACATACATATATAC
1 ACATACATACATA-ATAC
57019 ACATACATACATAATAC
1 ACATACATACATAATAC
57036 A
1 A
57037 TAAAATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
ACATACATACATAATAC
Found at i:57529 original size:104 final size:102
Alignment explanation
Indices: 57421--57653 Score: 296
Period size: 104 Copynumber: 2.3 Consensus size: 102
57411 AAATTCTCTT
* * *
57421 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATAC-AAATTTTGAATTTGATTCAC
1 AAAACAAACTTTGTCTCGCTTGAGACATTTTCCCTTTGAGAT-CTAAATTTCGAATTTGATTCAC
57485 -TTAAAACAAAATTAATCTCACCTT-AGATTGCTGTTCTT-TC-
65 ATT-AAACAAAATTAATCTCA-CTTGAGA-T-C-GTT-TTCTCA
* * *
57525 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCTAAATTTCGAATTTGTTTCACA
1 AAAACAAACTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATCTAAATTTCGAATTTGATTCACA
* *
57590 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
57627 AAAACAAACTTTGTCTCGCTTGAGACA
1 AAAACAAACTTTGTCTCGCTTGAGACA
57654 ATTGCTCTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
100 2 0.02
101 5 0.04
102 26 0.23
103 5 0.04
104 74 0.65
105 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAACTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATCTAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:57632 original size:36 final size:36
Alignment explanation
Indices: 57592--57688 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
57582 GTTTCACATT
* ** *
57592 AAACAAAGTTGATCTCACTTGAGATCGTTTTCTC-AA
1 AAACAAATTTGATCTCACTTGAGA-CAATTGCTCTAA
*
57628 AAACAAACTTTG-TCTCGCTTGAGACAATTGCTCTAA
1 AAACAAA-TTTGATCTCACTTGAGACAATTGCTCTAA
* *
57664 AAACAAATTTTATCTCATTTGAGAC
1 AAACAAATTTGATCTCACTTGAGAC
57689 TATATCTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
35 9 0.18
36 38 0.76
37 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (36 bp):
AAACAAATTTGATCTCACTTGAGACAATTGCTCTAA
Found at i:58034 original size:55 final size:53
Alignment explanation
Indices: 57973--58098 Score: 166
Period size: 55 Copynumber: 2.3 Consensus size: 53
57963 TTCTTTTGAG
57973 GAAAAAATCTTTGAGTTTGTTCCTCTTG-AAAAATCTTTGAGTT-TGTTCTTTTT
1 GAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTGT-TTC-TTTT
* *
58026 GAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAAAATCTTTGAGTTGTTTCTTTT
1 G-A-AAAAATCTTTGAGTTTGTTCCTCTTG-A-AAAAATCTTTGAGTTGTTTCTTTT
58083 GAAAAAATCTTTGAGT
1 GAAAAAATCTTTGAGT
58099 CTATTTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
53 1 0.02
54 1 0.02
55 37 0.58
56 1 0.02
57 5 0.08
58 18 0.28
59 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.46
Consensus pattern (53 bp):
GAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTGTTTCTTTT
Found at i:58043 original size:29 final size:27
Alignment explanation
Indices: 57973--58098 Score: 166
Period size: 29 Copynumber: 4.6 Consensus size: 27
57963 TTCTTTTGAG
*
57973 GAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAATCTTTGAGTTTGTTCCTTTT
*
58000 G-AAAAATCTTTGAGTTTGTTCTTTTT
1 GAAAAAATCTTTGAGTTTGTTCCTTTT
*
58026 GAATAAAAATCTTGGAGTTTGTTCCTTTT
1 G-A-AAAAATCTTTGAGTTTGTTCCTTTT
*
58055 GAATAAAAATCTTTGAG-TTGTTTCTTTT
1 G-A-AAAAATCTTTGAGTTTGTTCCTTTT
58083 GAAAAAATCTTTGAGT
1 GAAAAAATCTTTGAGT
58099 CTATTTATTT
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
26 37 0.42
27 2 0.02
28 11 0.12
29 39 0.44
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.46
Consensus pattern (27 bp):
GAAAAAATCTTTGAGTTTGTTCCTTTT
Found at i:58237 original size:30 final size:30
Alignment explanation
Indices: 58201--58264 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
58191 TTTTGCGGAA
*
58201 AAAAATCTTTGAGAT-TGTTTCTTTTGAAAC
1 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
58231 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
58261 AAAA
1 AAAA
58265 TTTTGTCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (30 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
Found at i:58265 original size:29 final size:29
Alignment explanation
Indices: 58197--58269 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
58187 ACAATTTTGC
58197 GGAAA-AAAATCTTTGAGATTGTTTCTTT
1 GGAAACAAAATCTTTGAGATTGTTTCTTT
*
58225 TGAAACAAAAATCTTTGAG-TCTGTTTCTTT
1 GGAAAC-AAAATCTTTGAGAT-TGTTTCTTT
58255 GGAAACAAAAT-TTTG
1 GGAAACAAAATCTTTG
58270 TCTCTCTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 8 0.20
29 6 0.15
30 26 0.65
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (29 bp):
GGAAACAAAATCTTTGAGATTGTTTCTTT
Found at i:58643 original size:63 final size:62
Alignment explanation
Indices: 58541--58899 Score: 212
Period size: 63 Copynumber: 5.6 Consensus size: 62
58531 GATGTGATCC
*
58541 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAA
1 ATCTTTGAGTTTGTTTC-TTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAA
* ** *
58604 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC-TCGAGACAACTTCTTTTGAAAAAAA
1 ATCTTTGAGTTTGTTT-CTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTG----AAA
58668 AA
61 AA
* * * * ** * * * * **
58670 ATCTTTGAGATCGTTTCTATTAAAAC-AAATTCTATCTCACATGAGACAGTTTCCTTTCAATATC
1 ATCTTTGAGTTTGTTTCT-TTGAAACAAAATTTTATCTCTTA-AAGACAATTTCTTTTGAA-AAA
* * * * * **
58734 CTATTTGAG-TCGTTTCCTTTGAAAC-AAATTTTGTCTCTTAAA-ACATTTTCTCTTAAAACAAG
1 ATCTTTGAGTTTGTTT-CTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCT-TTTGAA-AA-
58796 A
62 A
* ** * *
58797 TCATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAA-ACAGTTTCTTTTGAAGAA
1 --ATCTTTGAGTTTGTTTCT-TTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTG-A-AA
58861 AA
61 AA
* *
58863 ATC--TGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
1 ATCTTTGAGTTTGTTTCTTT-GAAACAAAATTTTATCTC
58900 ACTAAGATAC
Statistics
Matches: 226, Mismatches: 50, Indels: 41
0.71 0.16 0.13
Matches are distributed among these distances:
61 8 0.04
62 47 0.21
63 60 0.27
64 14 0.06
65 21 0.09
66 39 0.17
67 36 0.16
68 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (62 bp):
ATCTTTGAGTTTGTTTCTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAA
Found at i:59306 original size:28 final size:28
Alignment explanation
Indices: 59235--59316 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
59225 TAAAAATATC
* * *
59235 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
**
59263 ATCTTTGGGTTTGTTTCT-TTCGAAACAA
1 ATCTTTGAATTTGTTTCTCTT-GAAACAA
59291 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
59317 CATAACTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 5 0.11
28 39 0.85
29 2 0.04
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.49
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:59435 original size:43 final size:43
Alignment explanation
Indices: 59342--59576 Score: 146
Period size: 40 Copynumber: 5.5 Consensus size: 43
59332 TGGCCAGCTG
* * * * *
59342 TCCTCATCATGTAGGAACCGTGTCATCCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCTAGATAACCAGAAC
* *
59382 TCCTTATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATACC-TAGATAACCAGAAC
* * **
59424 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACC--TAGATAACCAGAAC
* * * ** *
59471 TCTTCATCACGTATGAGCCGTGTCATTCCCCG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCTAGATAACCAGAAC
* * * **
59511 TCTTCACCACGTAGGAGCCGTATCACCCCTAGATAACCAG-AC
1 TCCTCATCACGTAGGAGCCGTGTCATACCTAGATAACCAGAAC
*
59553 GTCCTCATCACGTAGGAACCGTGT
1 -TCCTCATCACGTAGGAGCCGTGT
59577 TATCGCCCTT
Statistics
Matches: 148, Mismatches: 34, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 55 0.37
42 2 0.01
43 52 0.35
45 5 0.03
46 31 0.21
47 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCTCATCACGTAGGAGCCGTGTCATACCTAGATAACCAGAAC
Found at i:59658 original size:134 final size:134
Alignment explanation
Indices: 59323--59802 Score: 632
Period size: 134 Copynumber: 3.6 Consensus size: 134
59313 AAACCATAAC
*** * * * * * *
59323 TCCTAAAGATGGCCAGCTGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTTA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCAGACCAGATCTCCTCA
*
59388 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC-
66 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGACGTCCTCATCACGTAGGAACCGTGTTATCG
*
59452 ACCT
131 CCCT
* *
59456 T--T--AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCTTC
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCA-TCCCCAGACCAGATCTCCTC
* * * *
59516 ACCACGTAGGAGCCGTATCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGTGTTATC
65 ATCACGTAGGAGCCGTGTCAACCATAGATAACCAGACGTCCTCATCACGTAGGAACCGTGTTATC
59581 GCCCT
130 GCCCT
* * *
59586 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTAATGTCATCCCTC-GACCCGATCTCCTC
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCC-CAGACCAGATCTCCTC
* * *
59650 ATCACGTAGGAACTGTGTCAACCATAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATC
65 ATCACGTAGGAGCCGTGTCAACCATAGATAACCAGACGTCCTCATCACGTAGGAACCGTGTTATC
59715 GCCCT
130 GCCCT
* * *
59720 ACCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCTGACCAGATCTCTTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCAGACCAGATCTCCTCA
* * *
59785 TCGCGTATGAGCAGTGTC
66 TCACGTAGGAGCCGTGTC
59803 GTCCCCAACA
Statistics
Matches: 303, Mismatches: 36, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
129 103 0.34
130 9 0.03
131 1 0.00
132 1 0.00
133 6 0.02
134 183 0.60
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (134 bp):
TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCAGACCAGATCTCCTCA
TCACGTAGGAGCCGTGTCAACCATAGATAACCAGACGTCCTCATCACGTAGGAACCGTGTTATCG
CCCT
Found at i:59792 original size:40 final size:40
Alignment explanation
Indices: 59732--59808 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
59722 CTAAAGATGG
59732 CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCTGA
1 CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCTGA
* * *
59772 CCAGATCTCTTCATCGCGTATGAGCAGTGTCGTCCCC
1 CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCC
59809 AACAACCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCTGA
Found at i:59976 original size:9 final size:10
Alignment explanation
Indices: 59958--60021 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 10
59948 GTCTTTTTTA
59958 TATTATTTAAT
1 TATTA-TTAAT
59969 T-TTATTAAT
1 TATTATTAAT
59978 TATTATT-AT
1 TATTATTAAT
59987 TATTATT-AT
1 TATTATTAAT
*
59996 TATT-TTTAT
1 TATTATTAAT
60005 TATTA--AAT
1 TATTATTAAT
60013 TATATATTA
1 TAT-TATTA
60022 CAAATTTTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
8 7 0.15
9 29 0.63
10 8 0.17
11 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATTATTAAT
Found at i:59982 original size:3 final size:3
Alignment explanation
Indices: 59958--60009 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
59948 GTCTTTTTTA
* *
59958 TAT TAT T-T AAT T-T TAT TAAT TAT TAT TAT TAT TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
60002 TAT TAT TA
1 TAT TAT TA
60010 AATTATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 3 0.07
3 36 0.86
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:64142 original size:14 final size:15
Alignment explanation
Indices: 64108--64145 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
64098 CTGTCTATAT
* *
64108 GCAGAGATTTTTTAC
1 GCAGGGATTTATTAC
64123 GCAGGGATTTATTA-
1 GCAGGGATTTATTAC
64137 GCAGGGATT
1 GCAGGGATT
64146 ACTTTCCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (15 bp):
GCAGGGATTTATTAC
Found at i:67620 original size:15 final size:15
Alignment explanation
Indices: 67596--67633 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
67586 AGAATTTATT
67596 TAAA-AAATTAAAAA
1 TAAACAAATTAAAAA
**
67610 TAAACAAATTATTAA
1 TAAACAAATTAAAAA
67625 TAAACAAAT
1 TAAACAAAT
67634 ATATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAACAAATTAAAAA
Found at i:68031 original size:21 final size:21
Alignment explanation
Indices: 67988--68031 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
67978 TTAAGTTTTT
* *
67988 TATTTTTCTTTTAAAAGACAA
1 TATTTTTATTTTAAAAGAAAA
68009 TATTTTTATTTATAAAA-AAAA
1 TATTTTTATTT-TAAAAGAAAA
68030 TA
1 TA
68032 AAAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTTTTATTTTAAAAGAAAA
Found at i:71722 original size:12 final size:12
Alignment explanation
Indices: 71705--71729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71695 GTACATACAT
71705 ATATATAGATAA
1 ATATATAGATAA
71717 ATATATAGATAA
1 ATATATAGATAA
71729 A
1 A
71730 GTGCTACAAG
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATATATAGATAA
Found at i:73196 original size:11 final size:11
Alignment explanation
Indices: 73180--73204 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73170 GTTTAAAGGT
73180 AATTATTTTTA
1 AATTATTTTTA
73191 AATTATTTTTA
1 AATTATTTTTA
73202 AAT
1 AAT
73205 GATAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTATTTTTA
Found at i:73237 original size:87 final size:85
Alignment explanation
Indices: 73146--73438 Score: 359
Period size: 87 Copynumber: 3.4 Consensus size: 85
73136 ATTTATCATT
*
73146 AAAAATAATATATAATTTAAATTTGTTTAAAGGTAATTATTTTTA-AATTATTTTTAAATGATAA
1 AAAAATAATATATAATTTAAATTTGTTTAAA-ATAATTA-TTTTACAATTATTTTTAAATGATAA
*
73210 ATGAATAATAAACATCGTAAGAA
64 ATGAATAA-AAACATTGTAAGAA
* *
73233 AAAAATAATATATAATTTGAATTTGTTTTAAAATAATTATTTTATAATTATTTTTAAATG---AA
1 AAAAATAATATATAATTTAAATTTG-TTTAAAATAATTATTTTACAATTATTTTTAAATGATAAA
73295 TGAATAACAAACATTGTAAGAAAGA
65 TGAATAA-AAACATTGTAAG--A-A
73320 AAAAATAATATATAATTTAAAATTT-TTTAAAAATAATTATTTTACAATTATTTTTAAATGATAA
1 AAAAATAATATATAATTT-AAATTTGTTT-AAAATAATTATTTTACAATTATTTTTAAATGATAA
* *
73384 ATGAATAAAAACGTTGTAATAA
64 ATGAATAAAAACATTGTAAGAA
*
73406 ATAATATATATATATAATTT-AA-TT-TTTAAAATA
1 A-AAAATA-ATATATAATTTAAATTTGTTTAAAATA
73439 TAAAAAATTT
Statistics
Matches: 185, Mismatches: 9, Indels: 27
0.84 0.04 0.12
Matches are distributed among these distances:
84 26 0.14
85 5 0.03
86 13 0.07
87 100 0.54
88 22 0.12
89 10 0.05
90 9 0.05
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (85 bp):
AAAAATAATATATAATTTAAATTTGTTTAAAATAATTATTTTACAATTATTTTTAAATGATAAAT
GAATAAAAACATTGTAAGAA
Found at i:73363 original size:25 final size:28
Alignment explanation
Indices: 73320--73373 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
73310 GTAAGAAAGA
73320 AAAAATAATATATAATTTAAAATT-TTTT
1 AAAAATAATATAT-ATTTAAAATTATTTT
*
73348 AAAAATAAT-TAT-TTTACAATTATTTT
1 AAAAATAATATATATTTAAAATTATTTT
73374 TAAATGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.33
26 4 0.17
27 3 0.12
28 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
AAAAATAATATATATTTAAAATTATTTT
Found at i:73439 original size:23 final size:22
Alignment explanation
Indices: 73421--73478 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 22
73411 ATATATATAT
73421 AATTTAATTTTTAAAATATAAAA
1 AATTTAATTTTTAAAATAT-AAA
73444 AATTTAATTTTTAAAATATAAA
1 AATTTAATTTTTAAAATATAAA
73466 AATTTTAATTTTT
1 AA-TTTAATTTTT
73479 TTAACCTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTAATTTTTAAAATATAAA
Found at i:73857 original size:17 final size:18
Alignment explanation
Indices: 73825--73864 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
73815 CCTGATTAGA
*
73825 AAATTAATATTTAGAATT
1 AAATTAATAATTAGAATT
73843 AAATTAA-AATTAGAATT
1 AAATTAATAATTAGAATT
73860 AAATT
1 AAATT
73865 GATAGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
AAATTAATAATTAGAATT
Found at i:75406 original size:27 final size:26
Alignment explanation
Indices: 75376--75428 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
75366 TACTGTAACT
*
75376 TTCAACACTATTT-TTTTTTTATCATTA
1 TTCAA-ACTATTTATATTTTT-TCATTA
*
75403 TTCAAATTATTTATATTTTTTCATTA
1 TTCAAACTATTTATATTTTTTCATTA
75429 CAGTAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (26 bp):
TTCAAACTATTTATATTTTTTCATTA
Found at i:81077 original size:21 final size:22
Alignment explanation
Indices: 81038--81079 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
81028 ATAAACTTGC
81038 TTATTTAAGTTTTTTTATATTA
1 TTATTTAAGTTTTTTTATATTA
81060 TTATTT-A-TTTTTTATATATT
1 TTATTTAAGTTTTTT-TATATT
81080 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTATTTAAGTTTTTTTATATTA
Found at i:81780 original size:2 final size:2
Alignment explanation
Indices: 81773--81805 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
81763 AGATTAACAG
81773 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81806 TAATTAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82193 original size:29 final size:29
Alignment explanation
Indices: 82161--82279 Score: 96
Period size: 29 Copynumber: 4.1 Consensus size: 29
82151 ATAAGATTTG
* *
82161 ATCCTTGTCCTCATTCTGCAAGAAATTAT
1 ATCCATGTCCTCATTCTGCAAGAGATTAT
* ** *
82190 ATCCATATATTGATTCTGCATAG-GATTAT
1 ATCCATGTCCTCATTCTGCA-AGAGATTAT
** * * *
82219 ATCCCCGTCCTAATTCTGTATGAGATTAT
1 ATCCATGTCCTCATTCTGCAAGAGATTAT
* * *
82248 ATCCATGTCATCATTATGCATGAGATTAT
1 ATCCATGTCCTCATTCTGCAAGAGATTAT
82277 ATC
1 ATC
82280 TTCGTCTTGA
Statistics
Matches: 68, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
28 1 0.01
29 65 0.96
30 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCATGTCCTCATTCTGCAAGAGATTAT
Found at i:82316 original size:29 final size:29
Alignment explanation
Indices: 82173--82323 Score: 115
Period size: 29 Copynumber: 5.2 Consensus size: 29
82163 CCTTGTCCTC
* * ** *
82173 ATTCTGCAAGAAATTATATCCATATATTG
1 ATTCTGCATGAGATTATATCCACGTCTTG
* * *
82202 ATTCTGCAT-AGGATTATATCCCCGTCCTA
1 ATTCTGCATGA-GATTATATCCACGTCTTG
* * * *
82231 ATTCTGTATGAGATTATATCCATGTCATC
1 ATTCTGCATGAGATTATATCCACGTCTTG
* **
82260 ATTATGCATGAGATTATATCTTCGTCTTG
1 ATTCTGCATGAGATTATATCCACGTCTTG
* * *
82289 ATTCTGCATGGGATTATATCCCCATCTTG
1 ATTCTGCATGAGATTATATCCACGTCTTG
*
82318 TTTCTG
1 ATTCTG
82324 TTTGAGATCT
Statistics
Matches: 94, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
28 1 0.01
29 92 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (29 bp):
ATTCTGCATGAGATTATATCCACGTCTTG
Found at i:83201 original size:20 final size:20
Alignment explanation
Indices: 83176--83231 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
83166 TTCTGCACAC
83176 AAAGTTTTGAAACTCTAGGG
1 AAAGTTTTGAAACTCTAGGG
*
83196 AAAGTTTTGAAACTCTGGGG
1 AAAGTTTTGAAACTCTAGGG
*
83216 AAAGTTTCGAAACTCT
1 AAAGTTTTGAAACTCT
83232 TCGAAAGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
AAAGTTTTGAAACTCTAGGG
Found at i:83341 original size:19 final size:20
Alignment explanation
Indices: 83298--83341 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
83288 TAAAGTTTTG
*
83298 AAACTCTTGAGATAGTTTCA
1 AAACTCTTGAGAAAGTTTCA
83318 AAACTCTTGA-AAAGTATT-A
1 AAACTCTTGAGAAAGT-TTCA
83337 AAACT
1 AAACT
83342 TTTTGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (20 bp):
AAACTCTTGAGAAAGTTTCA
Found at i:85583 original size:15 final size:15
Alignment explanation
Indices: 85559--85592 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
85549 CCATAGGACC
85559 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
85574 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
85589 ACTA
1 ACTA
85593 TTATACCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:86183 original size:64 final size:63
Alignment explanation
Indices: 86114--86270 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
86104 TAATGAAGGT
* **
86114 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
86177 G
63 G
* * * * *
86178 ATGCATCGATGCA-TGCCTTATGCATCGATGTACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
*
86241 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
86271 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 65 0.84
65 9 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:92576 original size:29 final size:29
Alignment explanation
Indices: 92533--92642 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
92523 TTTCATATGT
92533 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
92561 TCATGTACCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
92590 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
92619 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
92643 ATATCACATA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
28 7 0.09
29 67 0.85
30 5 0.06
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:105195 original size:101 final size:99
Alignment explanation
Indices: 104774--105282 Score: 727
Period size: 101 Copynumber: 5.0 Consensus size: 99
104764 GCGCGGCACT
* * * * *
104774 TTTTAATGGAACCCAGTTCTGATAATTAAGTTGTATGTGCGTTCCCGATGATCTCCAATCTCTAG
1 TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCCCTAG
104839 TTTTTCCAATTTCCCTTTCTTTCCCGTCAACCCACGTA
66 TTTTTCCAATTTCCCTTTC-TTCCCGTCAA--C-CGTA
* * *
104877 TTTTAATGAAACCCTGTCCTGATAATTAAGTTGTATGTACATTCCCAACGATCTCCAA-CCACTA
1 TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCC-CTA
*
104941 CTTTTTCCAA-TTCCCTTTCTTTCCCGTCAACCGTA
65 GTTTTTCCAATTTCCCTTTC-TTCCCGTCAACCGTA
*
104976 TTTTAATGGAACCCTATCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCCCTAG
1 TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCCCTAG
105041 TTTTTCCAATTTCCCTTTCTTCCCCGTCAACCGTA
66 TTTTTCCAATTTCCCTTTCTT-CCCGTCAACCGTA
* *
105076 TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGCGCGTTCCCAATGATCTCCAATCCCTA-
1 TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCCCTAG
*
105140 TTTTCCCCCAATTTCCCTTTCTTCACCGTCAACCGTA
66 TTTT--TCCAATTTCCCTTTCTTC-CCGTCAACCGTA
* *
105177 TTTTAATGGAACCTTGTCCTGATAATTAAGTTGTATGTGCGCTCCCAACGATCTCCAATCCCTAT
1 TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCCCTA-
*
105242 TTTTTTTCCAATTTCCCTTTCTTCCCCGTCAACCGTGA
65 -GTTTTTCCAATTTCCCTTTCTT-CCCGTCAACCGT-A
105280 TTT
1 TTT
105283 CGCTTCCAAT
Statistics
Matches: 371, Mismatches: 23, Indels: 24
0.89 0.06 0.06
Matches are distributed among these distances:
99 76 0.20
100 87 0.23
101 88 0.24
102 48 0.13
103 68 0.18
104 4 0.01
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (99 bp):
TTTTAATGGAACCCTGTCCTGATAATTAAGTTGTATGTGCGTTCCCAACGATCTCCAATCCCTAG
TTTTTCCAATTTCCCTTTCTTCCCGTCAACCGTA
Found at i:108704 original size:3 final size:3
Alignment explanation
Indices: 108696--108727 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
108686 ACTCTAAGAG
108696 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
108728 ATTAGGGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:109931 original size:23 final size:23
Alignment explanation
Indices: 109899--109965 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
109889 ATATTATATG
109899 GCACTTCGGTGCATTTCTACGCA
1 GCACTTCGGTGCATTTCTACGCA
* * **
109922 GCACTACGGTGCAATTCTACGTG
1 GCACTTCGGTGCATTTCTACGCA
*
109945 GCACTTCGGTGCATTTATACG
1 GCACTTCGGTGCATTTCTACG
109966 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGCA
Found at i:113894 original size:23 final size:23
Alignment explanation
Indices: 113863--113928 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
113853 TATTATATGA
113863 CACTTCGGTGCATTTCTACGCGG
1 CACTTCGGTGCATTTCTACGCGG
* * **
113886 CACTACGGTGCAATTCTACATGG
1 CACTTCGGTGCATTTCTACGCGG
* *
113909 CACTTCAGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
113929 AGCTGTGGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGG
Found at i:114996 original size:42 final size:42
Alignment explanation
Indices: 114912--114996 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
114902 TCAGCGGCTG
* ****
114912 TCTTCTACTCTTCTCTTCTTCCCAAGTTTATTCCTGGGACTA
1 TCTTATACTCTTCTCTTCTTCCCAAGTTTATTCCAACAACTA
*
114954 TCTTATACTCTTCTCTTCTTCCCAAGTTTCTTCCAACAACTA
1 TCTTATACTCTTCTCTTCTTCCCAAGTTTATTCCAACAACTA
114996 T
1 T
114997 TATTTTTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.18, C:0.32, G:0.06, T:0.45
Consensus pattern (42 bp):
TCTTATACTCTTCTCTTCTTCCCAAGTTTATTCCAACAACTA
Found at i:115225 original size:15 final size:15
Alignment explanation
Indices: 115207--115238 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
115197 ATTATTTATA
115207 TTGTTTTTATTAAAT
1 TTGTTTTTATTAAAT
115222 TTGTTTTTATTAAAT
1 TTGTTTTTATTAAAT
115237 TT
1 TT
115239 AAAAAATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTGTTTTTATTAAAT
Found at i:130101 original size:58 final size:58
Alignment explanation
Indices: 130028--130145 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
130018 ATCCATAATC
130028 GTATCGACTTCTCTCAACTGTAAATCAATGTTGCATGAAAGCTCATGATCGATCACCA
1 GTATCGACTTCTCTCAACTGTAAATCAATGTTGCATGAAAGCTCATGATCGATCACCA
* *
130086 GTATCGACTTCTCTCAAGTGTCAATCAATGTTGCATGAAAGCTCATGATCGATCACCA
1 GTATCGACTTCTCTCAACTGTAAATCAATGTTGCATGAAAGCTCATGATCGATCACCA
130144 GT
1 GT
130146 TCCAGCTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (58 bp):
GTATCGACTTCTCTCAACTGTAAATCAATGTTGCATGAAAGCTCATGATCGATCACCA
Found at i:131331 original size:14 final size:15
Alignment explanation
Indices: 131307--131335 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
131297 TTTATTTTTC
131307 AAATGTTTAAATATA
1 AAATGTTTAAATATA
131322 AAAT-TTTAAATATA
1 AAATGTTTAAATATA
131336 CAATAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATGTTTAAATATA
Found at i:131706 original size:29 final size:29
Alignment explanation
Indices: 131674--131737 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
131664 ATATTTATCG
*
131674 ATCTAATACTGGTCAGATTATATTTCCCA
1 ATCTAATACCGGTCAGATTATATTTCCCA
*
131703 ATCTAATACCGGTCAGATTATATTTCCCG
1 ATCTAATACCGGTCAGATTATATTTCCCA
131732 ATCTAA
1 ATCTAA
131738 CACCTGTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (29 bp):
ATCTAATACCGGTCAGATTATATTTCCCA
Found at i:131819 original size:51 final size:51
Alignment explanation
Indices: 131753--131860 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 51
131743 GTAGCAGTAA
* ** *
131753 AGCGCGCCTCCTGCCCCGCACTATATGCTGATTTGGA-GCCACGTGGGGTAT
1 AGCGCGCCTCCTGCCCCGCACTATACGCTGACATGGATGACACGT-GGGTAT
* *
131804 AGCGCGCC-CCATGCCCCGCGCTATACGCTGACATGGATTACACGTGGGTAT
1 AGCGCGCCTCC-TGCCCCGCACTATACGCTGACATGGATGACACGTGGGTAT
131855 AGCGCG
1 AGCGCG
131861 GTCCCTGATC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.04
51 42 0.86
52 5 0.10
ACGTcount: A:0.18, C:0.32, G:0.30, T:0.20
Consensus pattern (51 bp):
AGCGCGCCTCCTGCCCCGCACTATACGCTGACATGGATGACACGTGGGTAT
Found at i:132102 original size:17 final size:18
Alignment explanation
Indices: 132065--132105 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
132055 ATATTATGTA
*
132065 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
132083 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
132100 TTTACT
1 TTTACT
132106 AATATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:133727 original size:64 final size:64
Alignment explanation
Indices: 133659--133879 Score: 268
Period size: 64 Copynumber: 3.5 Consensus size: 64
133649 TTGAAGGTGT
** **
133659 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTTGTG
133722 C
64 C
** *
133723 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* * * * *
133787 ATCGATGCATAAGTCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAAGT-AGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* *
133851 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
133880 ACCTTCATTA
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
63 1 0.01
64 129 0.95
65 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
Found at i:134856 original size:103 final size:103
Alignment explanation
Indices: 134631--134848 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
134621 GTCGAGGGTC
134631 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
134696 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
134734 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
134799 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
134837 TATGTGGTCCTT
1 TATGTGGTCCTT
134849 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:134898 original size:23 final size:23
Alignment explanation
Indices: 134865--134927 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
134855 ATTATTATAT
134865 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
134888 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
134911 GGCACTTCGGTACAATT
1 GGCACTACGGTGCAATT
134928 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:136763 original size:18 final size:18
Alignment explanation
Indices: 136736--136770 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
136726 ACAGCAGCCA
*
136736 CCGCAGCCATTTATGATT
1 CCGCAACCATTTATGATT
136754 CCGCAACCATTTATGAT
1 CCGCAACCATTTATGAT
136771 GCCATAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (18 bp):
CCGCAACCATTTATGATT
Found at i:136781 original size:18 final size:18
Alignment explanation
Indices: 136739--136789 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
136729 GCAGCCACCG
* *
136739 CAGCCATTTATGATTCCG
1 CAGCCATTTATGATGCCA
*
136757 CAACCATTTATGATGCCA
1 CAGCCATTTATGATGCCA
* *
136775 TAGCCATATATGATG
1 CAGCCATTTATGATG
136790 TCGCCATCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (18 bp):
CAGCCATTTATGATGCCA
Found at i:137134 original size:3 final size:3
Alignment explanation
Indices: 137126--137175 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
137116 ACCTGCTCAG
* * *
137126 GAC GAC GAC GAC GAC GAC GAT GAT GAT GAC GAC GAC GAC GAC GAC GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
137174 GA
1 GA
137176 TGACAGCGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.26, G:0.34, T:0.06
Consensus pattern (3 bp):
GAC
Done.