Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003603.1 Hibiscus syriacus cultivar Beakdansim tig00007618_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: 38800
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1343 original size:215 final size:214
Alignment explanation
Indices: 972--1858 Score: 1277
Period size: 215 Copynumber: 4.2 Consensus size: 214
962 ATTTAAGAAT
* *
972 TAAATTGAACAAATATGAAATTACAAATAAAACTTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATAT-AATAAATTAAACAACACACATTGATGAG
*
1037 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATACC
65 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATACA
*
1102 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGAATGGGTCAATTTCAGAT
130 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
1167 GCAAATAAAATTTGGAGGAC
195 GCAAATAAAATTTGGAGGAC
*
1187 TAAATTGAACAAATATAAAATTACAAATAAAAATATAATAAATTAAACAACACACATTGATGAGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATATAATAAATTAAACAACACACATTGATGAGG
1252 GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACA
66 GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAGTACTAAATTATACA
*
1317 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCAGAT
130 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
*
1382 GCAAAAAAAATTTGGAGGAC
195 GCAAATAAAATTTGGAGGAC
* * * *
1402 TAAATTGAACAGATATGAAA-T-----TAAAAA-A-AAT---TT-AACAATATACATTGATAAGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATATAATAAATTAAACAACACACATTGATGAGG
** *
1455 GATCAAATTGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTAT--A
66 GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAGTACTAAATTATACA
* * * * *
1518 CATTTAAAAAGTTATGGGACAATT-AAAAGTAGAAATAAGGAATAAGTAT-GGTTAATTTCATAT
130 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
1581 GCAAATAAAATTTGGAGGAC
195 GCAAATAAAATTTGGAGGAC
1601 T-AATTGAACAAATATGAAATTA-AAATAAAAA-ATCAAATAAATTAAACAACACACATTGATGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATAT--AATAAATTAAACAACACACATTGATGA
* * *
1663 GGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGTTCTATA-T-TAC
64 GGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATAC
* * * ** *
1726 CCATTTAAAAATTTATGGGCCAATTAAAAAA-AGATATAAACAATAAGTATGGGTCAATTTTAGA
129 ACATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
1790 TGCAAATAAAATTTGGAGGAC
194 TGCAAATAAAATTTGGAGGAC
* *
1811 TAAATTGAACAAATAT-AAATTGC-AA-AAAATTA-AATAAATTAAACAACA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATATAATAAATTAAACAACA
1859 GAAAGGGATC
Statistics
Matches: 610, Mismatches: 42, Indels: 48
0.87 0.06 0.07
Matches are distributed among these distances:
198 17 0.03
199 32 0.05
200 23 0.04
201 24 0.04
203 83 0.14
204 2 0.00
206 3 0.00
207 20 0.03
208 2 0.00
209 61 0.10
210 103 0.17
211 14 0.02
214 74 0.12
215 152 0.25
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (214 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATATAATAAATTAAACAACACACATTGATGAGG
GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATACAC
ATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATG
CAAATAAAATTTGGAGGAC
Found at i:1984 original size:19 final size:19
Alignment explanation
Indices: 1946--2010 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
1936 CTAATATATA
1946 ATATA-AACTATATAGTTT
1 ATATATAACTATATAGTTT
*
1964 ATATATAAGTATAT-GTATT
1 ATATATAACTATATAGT-TT
1983 ATATAATGAACTATATAGTTT
1 ATAT-AT-AACTATATAGTTT
2004 ATATATA
1 ATATATA
2011 TATTATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 7 0.17
19 14 0.35
20 4 0.10
21 13 0.32
22 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (19 bp):
ATATATAACTATATAGTTT
Found at i:3421 original size:27 final size:29
Alignment explanation
Indices: 3354--3421 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
3344 ATCCTTTACA
* *
3354 TTTTTTATTTGTTTACTTTATATATATAT
1 TTTTTTATTTCTTTAATTTATATATATAT
*
3383 TTTTTCATTTTCTTCTAATTT-TA-ATAT-T
1 TTTTTTA-TTTCTT-TAATTTATATATATAT
3411 TTTTTTATTTC
1 TTTTTTATTTC
3422 ATTTTACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.12
28 7 0.21
29 10 0.30
30 7 0.21
31 5 0.15
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (29 bp):
TTTTTTATTTCTTTAATTTATATATATAT
Found at i:3488 original size:21 final size:21
Alignment explanation
Indices: 3462--3501 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3452 TTATTATCGT
3462 TTTTTGTTTTTAT-TTTTTACC
1 TTTTTGTTTTT-TGTTTTTACC
3483 TTTTTGTTTTTTGTTTTTA
1 TTTTTGTTTTTTGTTTTTA
3502 TTATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGTTTTTTGTTTTTACC
Found at i:3613 original size:27 final size:26
Alignment explanation
Indices: 3576--3649 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
3566 TTCTAAACAT
* *
3576 TTTTTAACTTTTTTAACTTTTTCCTT
1 TTTTCAACTTTTTTAACTTTTTCCTA
*
3602 TTTTCCAACTTTTTCAACCTTTTT-CTA
1 TTTT-CAACTTTTTTAA-CTTTTTCCTA
*
3629 TTTTCAAC-TATTT-ACTTTTTC
1 TTTTCAACTTTTTTAACTTTTTC
3650 AAACTTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 3 0.08
26 8 0.20
27 16 0.40
28 6 0.15
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTCAACTTTTTTAACTTTTTCCTA
Found at i:3632 original size:17 final size:15
Alignment explanation
Indices: 3610--3658 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
3600 TTTTTTCCAA
3610 CTTTTTCAACCTTTTT
1 CTTTTTCAA-CTTTTT
*
3626 CTATTTTCAACTATTTA
1 CT-TTTTCAACT-TTTT
3643 CTTTTTCAAACTTTTT
1 CTTTTTC-AACTTTTT
3659 GACATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.59
Consensus pattern (15 bp):
CTTTTTCAACTTTTT
Found at i:3650 original size:16 final size:16
Alignment explanation
Indices: 3609--3657 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3599 CTTTTTTCCA
3609 ACTTTTTCAACCTTTT
1 ACTTTTTCAACCTTTT
*
3625 TCTATTTTCAA-CTATTT
1 ACT-TTTTCAACCT-TTT
*
3642 ACTTTTTCAAACTTTT
1 ACTTTTTCAACCTTTT
3658 TGACATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.57
Consensus pattern (16 bp):
ACTTTTTCAACCTTTT
Found at i:3850 original size:13 final size:13
Alignment explanation
Indices: 3832--3856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3822 TTATAATTTT
3832 TTTCTTTTTTAAC
1 TTTCTTTTTTAAC
3845 TTTCTTTTTTAA
1 TTTCTTTTTTAA
3857 TTAGTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTTTTAAC
Found at i:4448 original size:13 final size:13
Alignment explanation
Indices: 4430--4461 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4420 TTTACATTTG
*
4430 AACTATATGTATA
1 AACTATATATATA
4443 AACTATATATATA
1 AACTATATATATA
4456 AACTAT
1 AACTAT
4462 GTAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (13 bp):
AACTATATATATA
Found at i:4590 original size:18 final size:19
Alignment explanation
Indices: 4549--4624 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 19
4539 ATTAGTGAAC
*
4549 TATATAAACTAT-TTAT-A
1 TATATAAACTATAGTATAA
*
4566 TAGTATATACTATA-TATAA
1 TA-TATAAACTATAGTATAA
* *
4585 TATATAAAGTATAGTTTATA
1 TATATAAACTATAGTATA-A
* * *
4605 TTTATATACTATATTATAA
1 TATATAAACTATAGTATAA
4624 T
1 T
4625 TTACATATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
17 2 0.04
18 21 0.47
19 8 0.18
20 14 0.31
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (19 bp):
TATATAAACTATAGTATAA
Found at i:4661 original size:33 final size:33
Alignment explanation
Indices: 4619--4845 Score: 169
Period size: 33 Copynumber: 6.6 Consensus size: 33
4609 TATACTATAT
4619 TATAATTTACATATGAACTATTTATATAAACTA
1 TATAATTTACATATGAACTATTTATATAAACTA
* *
4652 TATAATTTACATATGAACTATATATATATACTA
1 TATAATTTACATATGAACTATTTATATAAACTA
*
4685 TAGTTGATATTTATATATGAACTATAGATTACATATAAACTA
1 TA--T-A-ATTTACATATGAACTAT---TT--ATATAAACTA
* * * *
4727 TAT-ATATATATAT--A-TATTACATATGAAC--
1 TATAATTTACATATGAACTATT-TATATAAACTA
* *
4755 TATAGTTCACATATGAACTATTTATATAAACTA
1 TATAATTTACATATGAACTATTTATATAAACTA
* * *
4788 TATAGTTTACATATGAACTATATATATATACTA
1 TATAATTTACATATGAACTATTTATATAAACTA
*
4821 TAGTTGATATTTATATATGAACTAT
1 TA--T-A-ATTTACATATGAACTAT
4846 AGTTTACATA
Statistics
Matches: 155, Mismatches: 19, Indels: 36
0.74 0.09 0.17
Matches are distributed among these distances:
28 3 0.02
29 6 0.04
30 7 0.05
31 9 0.06
32 4 0.03
33 65 0.42
34 3 0.02
35 3 0.02
36 2 0.01
37 40 0.26
40 2 0.01
42 11 0.07
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (33 bp):
TATAATTTACATATGAACTATTTATATAAACTA
Found at i:4673 original size:18 final size:18
Alignment explanation
Indices: 4619--4944 Score: 97
Period size: 18 Copynumber: 18.2 Consensus size: 18
4609 TATACTATAT
4619 TATAATTTACATATGAAC
1 TATAATTTACATATGAAC
*
4637 --T-ATTT--ATATAAAC
1 TATAATTTACATATGAAC
4650 TATATAATTTACATATGAAC
1 --TATAATTTACATATGAAC
**
4670 TATATATATATAC-TAT-AGT
1 TATA-AT-T-TACATATGAAC
*
4689 TGAT-ATTTATATATGAAC
1 T-ATAATTTACATATGAAC
*
4707 TATAGA-TTACATATAAAC
1 TATA-ATTTACATATGAAC
* *
4725 TAT-ATATATATAT--A-
1 TATAATTTACATATGAAC
4739 TAT-A-TTACATATGAAC
1 TATAATTTACATATGAAC
* *
4755 TATAGTTCACATATGAAC
1 TATAATTTACATATGAAC
*
4773 --T-ATTT--ATATAAAC
1 TATAATTTACATATGAAC
4786 TATATAGTTTACATATGAAC
1 TATA-A-TTTACATATGAAC
**
4806 TATATATATATAC-TAT-AGT
1 TATA-AT-T-TACATATGAAC
*
4825 TGAT-ATTTATATATGAAC
1 T-ATAATTTACATATGAAC
* *
4843 TATAGTTTACATATAAAC
1 TATAATTTACATATGAAC
*
4861 TATATAGTTTATATACT-AAC
1 TATA-A-TTTACATA-TGAAC
* *
4881 TATAGTTTACATATAAAC
1 TATAATTTACATATGAAC
*
4899 TATAGTTGATATTTACGTATGAAC
1 --TA--T-A-ATTTACATATGAAC
**
4923 TATAGCTTACATATGAAC
1 TATAATTTACATATGAAC
4941 TATA
1 TATA
4945 TATATAACTA
Statistics
Matches: 227, Mismatches: 37, Indels: 88
0.64 0.11 0.25
Matches are distributed among these distances:
13 20 0.09
14 4 0.02
15 9 0.04
16 10 0.04
17 21 0.09
18 83 0.37
19 9 0.04
20 49 0.22
21 7 0.03
22 3 0.01
23 1 0.00
24 11 0.05
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.41
Consensus pattern (18 bp):
TATAATTTACATATGAAC
Found at i:4717 original size:55 final size:52
Alignment explanation
Indices: 4637--4809 Score: 173
Period size: 48 Copynumber: 3.4 Consensus size: 52
4627 ACATATGAAC
*
4637 TATTTATATA--AACTATATAATTTACATATGAACTATATATATATACTATAGTTGA
1 TATTTATATATGAACTATA-GA-TTACATATGAACTATATATATATACTATA--T-A
*
4692 TATTTATATATGAACTATAGATTACATATAAAC--TATATATATA-TATATA
1 TATTTATATATGAACTATAGATTACATATGAACTATATATATATACTATATA
* * *
4741 TA-TTACATATGAACTATAG-TTCACATATGAACTATTTATATAAACTATATA
1 TATTTATATATGAACTATAGATT-ACATATGAACTATATATATATACTATATA
* *
4792 -GTTTACATATGAACTATA
1 TATTTATATATGAACTATA
4810 TATATATACT
Statistics
Matches: 104, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
47 2 0.02
48 25 0.24
49 3 0.03
50 9 0.09
51 22 0.21
52 4 0.04
53 10 0.10
55 21 0.20
56 1 0.01
57 7 0.07
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (52 bp):
TATTTATATATGAACTATAGATTACATATGAACTATATATATATACTATATA
Found at i:4773 original size:136 final size:137
Alignment explanation
Indices: 4627--4875 Score: 464
Period size: 136 Copynumber: 1.8 Consensus size: 137
4617 ATTATAATTT
4627 ACATATGAACTATTTATATAAACTATATAATTTACATATGAACTATATATATATACTATAGTTGA
1 ACATATGAACTATTTATATAAACTATATAATTTACATATGAACTATATATATATACTATAGTTGA
4692 TATTTATATATGAACTATAGATTACATATAAACTATATA-TATATATATATATTACATATGAACT
66 TATTTATATATGAACTATAGATTACATATAAACTATATAGTATATATATATATTACATATGAACT
4756 ATAGTTC
131 ATAGTTC
*
4763 ACATATGAACTATTTATATAAACTATATAGTTTACATATGAACTATATATATATACTATAGTTGA
1 ACATATGAACTATTTATATAAACTATATAATTTACATATGAACTATATATATATACTATAGTTGA
* *
4828 TATTTATATATGAACTATAGTTTACATATAAACTATATAGTTTATATA
66 TATTTATATATGAACTATAGATTACATATAAACTATATAGTATATATA
4876 CTAACTATAG
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 102 0.94
137 7 0.06
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (137 bp):
ACATATGAACTATTTATATAAACTATATAATTTACATATGAACTATATATATATACTATAGTTGA
TATTTATATATGAACTATAGATTACATATAAACTATATAGTATATATATATATTACATATGAACT
ATAGTTC
Found at i:4882 original size:38 final size:38
Alignment explanation
Indices: 4778--4946 Score: 159
Period size: 38 Copynumber: 4.4 Consensus size: 38
4768 TGAACTATTT
* * *
4778 ATATAAACTATATAGTTTACATATGAACTATA-TATAT
1 ATATAAACTATATAGTTTATATATGAACTATAGTTTAC
* *
4815 ATACTATAGT-TGATA-TTTATATATGAACTATAGTTTAC
1 ATA-TAAACTAT-ATAGTTTATATATGAACTATAGTTTAC
4853 ATATAAACTATATAGTTTATATACT-AACTATAGTTTAC
1 ATATAAACTATATAGTTTATATA-TGAACTATAGTTTAC
* *
4891 ATATAAACTATAGTTGATATT-TACGTATGAACTATAGCTTAC
1 ATATAAACTATA-TAG-T-TTATA--TATGAACTATAGTTTAC
*
4933 ATATGAACTATATA
1 ATATAAACTATATA
4947 TATAACTATA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
37 27 0.25
38 47 0.43
39 3 0.03
40 3 0.03
41 4 0.04
42 25 0.23
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (38 bp):
ATATAAACTATATAGTTTATATATGAACTATAGTTTAC
Found at i:4920 original size:80 final size:75
Alignment explanation
Indices: 4778--4946 Score: 223
Period size: 80 Copynumber: 2.2 Consensus size: 75
4768 TGAACTATTT
* *
4778 ATATAAACTATATAGTTTACATATGAACTATATATATATACTATAGTTGATATTTATATATGAAC
1 ATATAAACTATATAGTTTACATATGAACTATATATATAAACTATAGTTGATATTTACATATGAAC
*
4843 TATAGTTTAC
66 TATAGCTTAC
* *
4853 ATATAAACTATATAGTTTATATACT-AACTATAGTTTACATATAAACTATAGTTGATATTTACGT
1 ATATAAACTATATAGTTTACATA-TGAACTATA---T--ATATAAACTATAGTTGATATTTACAT
4917 ATGAACTATAGCTTAC
60 ATGAACTATAGCTTAC
*
4933 ATATGAACTATATA
1 ATATAAACTATATA
4947 TATAACTATA
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
75 29 0.35
76 1 0.01
78 1 0.01
80 51 0.62
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (75 bp):
ATATAAACTATATAGTTTACATATGAACTATATATATAAACTATAGTTGATATTTACATATGAAC
TATAGCTTAC
Found at i:4956 original size:30 final size:31
Alignment explanation
Indices: 4920--4980 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
4910 TTTACGTATG
4920 AACTATA-GCTTACATATGAACTATATATAT
1 AACTATATGCTTACATATGAACTATATATAT
* *
4950 AACTATATTGTTTACATATGACCTATATATA
1 AACTATA-TGCTTACATATGAACTATATATA
4981 GTTTATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 7 0.26
32 20 0.74
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (31 bp):
AACTATATGCTTACATATGAACTATATATAT
Found at i:5020 original size:7 final size:6
Alignment explanation
Indices: 5008--5250 Score: 56
Period size: 7 Copynumber: 38.5 Consensus size: 6
4998 ATAAACTATT
* * *
5008 TATATA GTATATA CTATATA TATAAA CTATAGTT TATAT- TATATA CTACATA
1 TATATA -TATATA -TATATA TATATA -TATA-TA TATATA TATATA -TATATA
* * *
5060 CTATAGTT TATAT- TATATA TATATA T-TATA TATGTA AACTATA TACTATA
1 -TATA-TA TATATA TATATA TATATA TATATA TATATA TA-TATA TA-TATA
* * * * * * *
5110 TA-ATA CTATAGCA TA-ATT TACATA TGA-ACTA TATATA AAAACCA TATAAA
1 TATATA -TATA-TA TATATA TATATA T-ATA-TA TATATA TATA-TA TATATA
* * *
5160 CTATATA TATAGT- TGATATT TATATA CTATATA -AAATA -ATTTA TACTATA
1 -TATATA TATA-TA T-ATATA TATATA -TATATA TATATA TATATA TA-TATA
* *
5210 GTATATA TAAACTA TATA-A TATATA AACTATA TATATA TAT
1 -TATATA TATA-TA TATATA TATATA TA-TATA TATATA TAT
5251 TTTATTAGTA
Statistics
Matches: 178, Mismatches: 31, Indels: 55
0.67 0.12 0.21
Matches are distributed among these distances:
5 32 0.18
6 54 0.30
7 88 0.49
8 4 0.02
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (6 bp):
TATATA
Found at i:5020 original size:9 final size:8
Alignment explanation
Indices: 5008--5250 Score: 56
Period size: 9 Copynumber: 28.9 Consensus size: 8
4998 ATAAACTATT
5008 TATATAGTA
1 TATATA-TA
5017 TATACTATA
1 TATA-TATA
*
5026 TATATAAA
1 TATATATA
*
5034 CTATAGTTTA
1 -TATA-TATA
5044 TAT-TATA
1 TATATATA
*
5051 TACTACATA
1 TA-TATATA
*
5060 CTATAGTTTA
1 -TATA-TATA
5070 TAT-TATA
1 TATATATA
5077 TATATATA
1 TATATATA
5085 T-TATATA
1 TATATATA
* *
5092 TGTAAACTA
1 TATATA-TA
5101 TATACTATA
1 TATA-TATA
5110 TA-ATACTA
1 TATATA-TA
*
5118 TAGCATA-A
1 TA-TATATA
* *
5126 TTTACATA
1 TATATATA
5134 TGA-ACTATA
1 T-ATA-TATA
* *
5143 TATAAAAA
1 TATATATA
* *
5151 CCATATAAA
1 -TATATATA
5160 CTATATATA
1 -TATATATA
5169 TAGT-TGATA
1 TA-TAT-ATA
*
5178 TTTATATA
1 TATATATA
5186 CTATATA-A
1 -TATATATA
* *
5194 AATA-ATT
1 TATATATA
5201 TATACTATA
1 TATA-TATA
5210 GTATATATA
1 -TATATATA
*
5219 AACTATATA
1 TA-TATATA
5228 -ATATATA
1 TATATATA
*
5235 AACTATATA
1 TA-TATATA
5244 TATATAT
1 TATATAT
5251 TTTATTAGTA
Statistics
Matches: 174, Mismatches: 30, Indels: 61
0.66 0.11 0.23
Matches are distributed among these distances:
6 1 0.01
7 34 0.20
8 41 0.24
9 82 0.47
10 16 0.09
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (8 bp):
TATATATA
Found at i:5023 original size:18 final size:18
Alignment explanation
Indices: 4997--5031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4987 TAGTGAACTA
*
4997 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
5015 TATATACTATATATATA
1 TATAAACTATATATATA
5032 AACTATAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:5068 original size:26 final size:25
Alignment explanation
Indices: 5010--5080 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
5000 AAACTATTTA
* * *
5010 TATAGTATATACTATATATATAAAC
1 TATAGTTTATATTATATATACAAAC
*
5035 TATAGTTTATATTATATACTACATAC
1 TATAGTTTATATTATATA-TACAAAC
5061 TATAGTTTATATTATATATA
1 TATAGTTTATATTATATATA
5081 TATATTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (25 bp):
TATAGTTTATATTATATATACAAAC
Found at i:5091 original size:216 final size:211
Alignment explanation
Indices: 4675--5170 Score: 469
Period size: 216 Copynumber: 2.3 Consensus size: 211
4665 TGAACTATAT
* *
4675 ATATATACTATAGTTGATATTTATATATGAACTATAGATTACATATAAACTATATATATATATAT
1 ATATAAACTATAGTTGATATTTACATATGAACTATAGATTACATATAAACTATATATATATATAT
* *
4740 ATATTACATATGAACTATAGTTCACATATGAACTATTTATATAAACTATATAGTTTACATATGAA
66 ATATTACATATGAAATATAGTTCACATATGAAC---TTATATAAACTATATAGTATACATAT-AA
* *
4805 CTATATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATAAACTATATAGTT
127 CTATATATATAAACTATAGTTGATATTTATATATCAACTATAGTTTACATATAAACTATATAG-T
4870 TATATACTAACTATAGTTTAC
191 TATATACTAACTATAGTTTAC
* * *
4891 ATATAAACTATAGTTGATATTTACGTATGAACTATAGCTTACATATGAACTATATATATA-ACTA
1 ATATAAACTATAGTTGATATTTACATATGAACTATAGATTACATATAAACTATATATATATA-TA
* * * * *
4955 TATTGTTTACATATGACCTATATATAGTTTA-TTAGTGAAC-TATATAAACTATTTA-TATA-GT
65 TA-T-ATTACATATGA---A-ATATAGTTCACATA-TGAACTTATATAAACTATATAGTATACAT
* * *
5016 ATATACTATATATATAAACTATAGTTTATA-TTATATACTACATACTATAGTTTATATTATATA-
123 ATA-ACTATATATATAAACTATAGTTGATATTTATATA-T-CA-ACTATAGTTTACA-TATAAAC
*
5079 TATATA-TTATATATGTAAACTATA---TAC
183 TATATAGTTATATA-CT-AACTATAGTTTAC
* * *
5106 TATATAATACTATAG--CATAATTTACATATGAACTATATATAAAAACCATATAAACTATATATA
1 -ATATAA-ACTATAGTTGAT-ATTTACATATGAACTATAGAT---TA-CATATAAACTATATATA
5169 TA
59 TA
5171 GTTGATATTT
Statistics
Matches: 234, Mismatches: 24, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
215 14 0.06
216 118 0.50
217 13 0.06
218 49 0.21
219 6 0.03
220 18 0.08
221 3 0.01
222 13 0.06
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (211 bp):
ATATAAACTATAGTTGATATTTACATATGAACTATAGATTACATATAAACTATATATATATATAT
ATATTACATATGAAATATAGTTCACATATGAACTTATATAAACTATATAGTATACATATAACTAT
ATATATAAACTATAGTTGATATTTATATATCAACTATAGTTTACATATAAACTATATAGTTATAT
ACTAACTATAGTTTAC
Found at i:5232 original size:18 final size:18
Alignment explanation
Indices: 5206--5560 Score: 200
Period size: 18 Copynumber: 20.6 Consensus size: 18
5196 TAATTTATAC
5206 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
5224 TATA--ATATATAAACTA
1 TATAGTATATATAAACTA
**
5240 TATA-TATATAT--TTTA
1 TATAGTATATATAAACTA
5255 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
5272 TATGGTATATA-AAACTA
1 TATAGTATATATAAACTA
* *
5289 TACA-T-TATAGT---TTA
1 TATAGTATATA-TAAACTA
5303 T-TAG--TATATAAACTA
1 TATAGTATATATAAACTA
* *
5318 TATA-AACTATATAAAATA
1 TATAGTA-TATATAAACTA
*
5336 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
*
5354 TATGGTATATATAAAACTA
1 TATAGTATATAT-AAACTA
* ***
5373 TACA-T-TATATAGTTTA
1 TATAGTATATATAAACTA
5389 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
* * *
5406 TATAATATATAAAAATTA
1 TATAGTATATATAAACTA
*
5424 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
*
5442 TATAGTATATGTAAACTA
1 TATAGTATATATAAACTA
* ** *
5460 TATATTATATAGTTCATTA
1 TATAGTATATA-TAAACTA
* *
5479 GTATA-TATAGCCTATATAGTA
1 -TATAGTATA---TATAAACTA
* *
5500 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
**
5518 TATA-T-TATATAGTGC-A
1 TATAGTATATATA-AACTA
*
5534 T-TAGTATATATAACCTA
1 TATAGTATATATAAACTA
5551 TATAGTATAT
1 TATAGTATAT
5561 GGTATATACA
Statistics
Matches: 256, Mismatches: 50, Indels: 62
0.70 0.14 0.17
Matches are distributed among these distances:
12 1 0.00
13 5 0.02
14 5 0.02
15 20 0.08
16 33 0.13
17 41 0.16
18 117 0.46
19 17 0.07
20 7 0.03
21 8 0.03
22 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:5260 original size:48 final size:48
Alignment explanation
Indices: 5208--5347 Score: 169
Period size: 48 Copynumber: 2.9 Consensus size: 48
5198 ATTTATACTA
5208 TAGTATATATAAACTATATAATATATAAACTATATATATATATTTTAT
1 TAGTATATATAAACTATATAATATATAAACTATATATATATATTTTAT
** * *
5256 TAGTATATATAAACTATATGGTATATAAAACTATACAT-TATAGTTTAT
1 TAGTATATATAAACTATATAATATAT-AAACTATATATATATATTTTAT
* *
5304 TAG--TATATAAACTATATAAACTATATAAAATATATGGTATATAT
1 TAGTATATATAAACTATAT-AA-TATATAAACTATAT-ATATATAT
5348 AAACTATATG
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
46 14 0.18
47 7 0.09
48 42 0.55
49 14 0.18
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (48 bp):
TAGTATATATAAACTATATAATATATAAACTATATATATATATTTTAT
Found at i:5266 original size:2 final size:2
Alignment explanation
Indices: 5008--5250 Score: 56
Period size: 2 Copynumber: 115.5 Consensus size: 2
4998 ATAAACTATT
* *
5008 TA TA TA GTA TA TA CTA TA TA TA TA AA CTA TA GTT TA TA T- TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
* *
5051 TA CTA CA TA CTA TA GTT TA TA T- 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 TA
* * * * *
5092 TG TA AA CTA TA TA CTA TA TA -A TA CTA TA GCA TA -A TT TA CA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA
* * * *
5134 TGA -A CTA TA TA TA AA AA CCA TA TA AA CTA TA TA TA TA GT- TGA
1 T-A TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA T-A
* * *
5176 TA TT TA TA TA CTA TA TA -A AA TA -A TT TA TA CTA TA GTA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA
* *
5217 TA AA CTA TA TA -A TA TA TA AA CTA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T
5251 TTTATTAGTA
Statistics
Matches: 177, Mismatches: 32, Indels: 64
0.65 0.12 0.23
Matches are distributed among these distances:
1 10 0.06
2 136 0.77
3 31 0.18
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:5321 original size:9 final size:9
Alignment explanation
Indices: 5307--5356 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
5297 AGTTTATTAG
5307 TATATAAAC
1 TATATAAAC
5316 TATATAAAC
1 TATATAAAC
*
5325 TATATAAAA
1 TATATAAAC
**
5334 TATATGGTA-
1 TATAT-AAAC
5343 TATATAAAC
1 TATATAAAC
5352 TATAT
1 TATAT
5357 GGTATATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:5516 original size:58 final size:58
Alignment explanation
Indices: 5440--5616 Score: 277
Period size: 58 Copynumber: 3.1 Consensus size: 58
5430 ATATATAAAC
* ** *
5440 TATATAGTATATGTAAACTATATATTATATAGTTCATTAGTATATATAGCCTATATAG
1 TATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
*
5498 TATATGGTATATACAAACTATATATTATATAGTGCATTAGTATATATAACCTATATAG
1 TATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
* *
5556 TATATGGTATATACAAAC--TATATTATATAGTTCATTAGTATAAATAAACTATATAG
1 TATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
5612 TATAT
1 TATAT
5617 AAAAATATAT
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
56 40 0.36
58 71 0.64
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (58 bp):
TATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
Found at i:5637 original size:48 final size:49
Alignment explanation
Indices: 5556--5657 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 49
5546 ACCTATATAG
* * *
5556 TATATGGTATATACAAACTATATTATATAGTTCATTAGTATAAATAAAC
1 TATATAGTATATACAAAATATATTATAAAGTTCATTAGTATAAATAAAC
* *
5605 TATATAGTATATA-AAAATATATTGA-AAAGTTCATTAGTATATATAACC
1 TATATAGTATATACAAAATATATT-ATAAAGTTCATTAGTATAAATAAAC
5653 TATAT
1 TATAT
5658 TAATTTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
48 34 0.72
49 13 0.28
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (49 bp):
TATATAGTATATACAAAATATATTATAAAGTTCATTAGTATAAATAAAC
Found at i:5978 original size:18 final size:18
Alignment explanation
Indices: 5944--5977 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5934 TATATAAAAG
*
5944 GCATTTTTTTCATTTTTA
1 GCATTTTTCTCATTTTTA
5962 GCATTTTTCTC-TTTTT
1 GCATTTTTCTCATTTTT
5978 TCTTATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.68
Consensus pattern (18 bp):
GCATTTTTCTCATTTTTA
Found at i:6264 original size:113 final size:113
Alignment explanation
Indices: 6061--6413 Score: 341
Period size: 123 Copynumber: 3.1 Consensus size: 113
6051 AAATCATCCG
* * * * * *
6061 TGTTTTTCATTTGTTCATCCCAATTCTTCCCCAAAACCCTCCTTTGATCATCAAAAACAC----C
1 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACAAAAC
* *
6122 A-AAA-TATTTTC-T-TTTTTTCGATCAAACACCCAAATATTCATCCA-
66 ACAAACCA-TTTCATGGTTTTTCGATCAAACACCCAAATATTCATCCAT
*
6166 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCCT-CATTTGATCTTCAAAAACACCAAA
1 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATAC-TTTGATCTTCAAAAACA-CAAA
* *
6230 ACACAAACCATTTCATGGTTTTTCGATCAAACACCAAAATTTTCATCGGTGTTCATCT
64 ACACAAACCATTTCATGGTTTTTCGATCAAACACCCAAATATTCATC------CA--T
**
6288 GTGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACTGAA
1 -TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACAAAA
* * * * *
6353 CCCAAACCATTTCGTGTTTTTTCGATCAAACA-CCAACAAATTCATCTAT
65 CACAAACCATTTCATGGTTTTTCGATCAAACACCCAA-ATATTCATCCAT
*
6402 TGTTCATCATTT
1 TGTTCTTCATTT
6414 TCTTCCCCAA
Statistics
Matches: 207, Mismatches: 19, Indels: 36
0.79 0.07 0.14
Matches are distributed among these distances:
104 1 0.00
105 53 0.26
106 1 0.00
110 2 0.01
111 7 0.03
112 2 0.01
113 38 0.18
114 1 0.00
116 1 0.00
119 2 0.01
121 3 0.01
122 39 0.19
123 56 0.27
124 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (113 bp):
TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACAAAAC
ACAAACCATTTCATGGTTTTTCGATCAAACACCCAAATATTCATCCAT
Found at i:6306 original size:123 final size:122
Alignment explanation
Indices: 6166--6388 Score: 367
Period size: 123 Copynumber: 1.8 Consensus size: 122
6156 TATTCATCCA
*
6166 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCCT-CATTTGATCTTCAAAAACACCAAA
1 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATAC-TTTGATCTTCAAAAACA-CAAA
6230 ACACAAACCATTTCATGGTTTTTCGATCAAACACCAAAATTTTCATCGGTGTTCATCTG
64 ACACAAACCATTTCATGGTTTTTCGATCAAACACCAAAATTTTCATCGGTGTTCATCTG
**
6289 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACTGAAC
1 TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACAAAAC
* * *
6354 CCAAACCATTTCGTGTTTTTTCGATCAAACACCAA
66 ACAAACCATTTCATGGTTTTTCGATCAAACACCAA
6389 CAAATTCATC
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
122 36 0.39
123 56 0.60
124 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (122 bp):
TGTTCTTCATTTGTTCATCCTAGTTCTTCCCCAAAACCATACTTTGATCTTCAAAAACACAAAAC
ACAAACCATTTCATGGTTTTTCGATCAAACACCAAAATTTTCATCGGTGTTCATCTG
Found at i:6618 original size:10 final size:11
Alignment explanation
Indices: 6598--6752 Score: 73
Period size: 12 Copynumber: 13.0 Consensus size: 11
6588 AGCCCTAACT
6598 TAAACCTAAA-C
1 TAAA-CTAAACC
6609 TAAACTAAACCC
1 TAAACTAAA-CC
* *
6621 CAAACCCAAACC
1 TAAA-CTAAACC
* * *
6633 CAAATTGAACC
1 TAAACTAAACC
6644 TAAA-TAGAACC
1 TAAACTA-AACC
6655 TAAACCCTAAACC
1 TAAA--CTAAACC
*
6668 CAAACTTAAACCC
1 TAAAC-TAAA-CC
6681 TAAACCTAAACC
1 TAAA-CTAAACC
6693 TAAATCTAAACC
1 TAAA-CTAAACC
6705 TAAACCTGAAACC
1 TAAA-CT-AAACC
* *
6718 -AAAATCGAACC
1 TAAACT-AAACC
*
6729 TAAACCCAAACC
1 TAAA-CTAAACC
6741 TAAACTCAAACC
1 TAAACT-AAACC
6753 CTAACCCAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 27
0.71 0.11 0.17
Matches are distributed among these distances:
10 6 0.05
11 26 0.23
12 52 0.46
13 25 0.22
14 3 0.03
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.15
Consensus pattern (11 bp):
TAAACTAAACC
Found at i:6672 original size:6 final size:6
Alignment explanation
Indices: 6651--6775 Score: 54
Period size: 6 Copynumber: 20.5 Consensus size: 6
6641 ACCTAAATAG
* ** * * * *
6651 AACCTA AACCCTA AACCCA AACTTA AACCCTA AACCTA AACCTA AATCTA
1 AACCCA AACCC-A AACCCA AACCCA AACCC-A AACCCA AACCCA AACCCA
* * ** * * * *
6701 AACCTA AACCTGA AA-CCA AAATCG AACCTA AACCCA AACCTA AACTCA
1 AACCCA AACC-CA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* **
6749 AACCCT AACCCA AACCTG AACCCA AAC
1 AACCCA AACCCA AACCCA AACCCA AAC
6776 TATTCAAAAC
Statistics
Matches: 88, Mismatches: 27, Indels: 8
0.72 0.22 0.07
Matches are distributed among these distances:
5 3 0.03
6 71 0.81
7 14 0.16
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (6 bp):
AACCCA
Found at i:6679 original size:12 final size:13
Alignment explanation
Indices: 6651--6775 Score: 74
Period size: 12 Copynumber: 10.2 Consensus size: 13
6641 ACCTAAATAG
6651 AACCTAAACCCTA
1 AACCTAAACCCTA
* *
6664 AACCCAAA-CTTA
1 AACCTAAACCCTA
6676 AACCCTAAA-CCTA
1 AA-CCTAAACCCTA
*
6689 AACCTAAA-TCTA
1 AACCTAAACCCTA
6701 AACCTAAA-CCTGA
1 AACCTAAACCCT-A
** *
6714 AACC-AAAATC-G
1 AACCTAAACCCTA
6725 AACCTAAACCC-A
1 AACCTAAACCCTA
*
6737 AACCTAAACTC-A
1 AACCTAAACCCTA
6749 AACCCT-AACCC-A
1 AA-CCTAAACCCTA
*
6761 AACCTGAACCC-A
1 AACCTAAACCCTA
6773 AAC
1 AAC
6776 TATTCAAAAC
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
11 7 0.08
12 60 0.65
13 26 0.28
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (13 bp):
AACCTAAACCCTA
Found at i:6751 original size:18 final size:18
Alignment explanation
Indices: 6656--6763 Score: 67
Period size: 19 Copynumber: 5.9 Consensus size: 18
6646 AATAGAACCT
* *
6656 AAACCCTAAACCCAAACTT
1 AAACCC-AAACCTAAACTC
6675 AAACCCTAAACCTAAAC-C
1 AAACCC-AAACCTAAACTC
* * *
6693 TAAATCTAAACCTAAACCTG
1 -AAACCCAAACCTAAA-CTC
* * * *
6713 AAACCAAAATCGAACCT-
1 AAACCCAAACCTAAACTC
6730 AAACCCAAACCTAAACTC
1 AAACCCAAACCTAAACTC
* *
6748 AAACCCTAACCCAAAC
1 AAACCCAAACCTAAAC
6764 CTGAACCCAA
Statistics
Matches: 69, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 13 0.19
18 25 0.36
19 31 0.45
ACGTcount: A:0.49, C:0.35, G:0.02, T:0.14
Consensus pattern (18 bp):
AAACCCAAACCTAAACTC
Found at i:6770 original size:18 final size:19
Alignment explanation
Indices: 6651--6775 Score: 102
Period size: 18 Copynumber: 6.8 Consensus size: 19
6641 ACCTAAATAG
6651 AACCTAAACCCTAAACCCA
1 AACCTAAACCCTAAACCCA
* *
6670 AACTTAAACCCTAAACCTA
1 AACCTAAACCCTAAACCCA
* *
6689 AACCTAAA-TCTAAACCTA
1 AACCTAAACCCTAAACCCA
** *
6707 AACCTGAAA-CC-AAAATCG
1 AACCT-AAACCCTAAACCCA
*
6725 AACCTAAACCC-AAACCTA
1 AACCTAAACCCTAAACCCA
6743 AA-CTCAAACCCT-AACCCA
1 AACCT-AAACCCTAAACCCA
*
6761 AACCTGAACCC-AAAC
1 AACCTAAACCCTAAAC
6776 TATTCAAAAC
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
17 5 0.06
18 50 0.59
19 30 0.35
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (19 bp):
AACCTAAACCCTAAACCCA
Found at i:7045 original size:31 final size:31
Alignment explanation
Indices: 7010--7433 Score: 634
Period size: 31 Copynumber: 13.7 Consensus size: 31
7000 ATATATATAA
* *
7010 GGTTTATTATTGTTGATGTAAATGATATACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
*
7041 GGTTTATTGTTGTTGATGTAAATGATGTATT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
*
7072 GGTTTATTGTTGTTAATGTAAATGATGTACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
* *
7103 GGTTTATTTTTGTTGATGTAAATGATGTACC
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
*
7134 AGTTTATTGTTGTTGATGTAAATGATGTACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
* *
7165 GGTTTATTGCTGTTGATGTAAATGATGTACC
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
*
7196 GGTTTATTGCTGTTGATGTAAATGATGTACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
* * *
7227 GGTTTATTGCTATTGATGTAAATGATATACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
7258 GGTTTATTGTTGTTGATGTAAATGATGTACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
* *
7289 GGTTTATTGCTATTGATGTAAATGATGTACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
* *
7320 GGTTTATTGTTGTTGCTGTAAATGATATACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
** * *
7351 ATTTTATTGTTGTTGATGTAAATGATATATT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
*
7382 GGTTTATTGTTGTTGATGTAAATGATATACT
1 GGTTTATTGTTGTTGATGTAAATGATGTACT
*
7413 GGTTTATTGTTG-TAATGTAAA
1 GGTTTATTGTTGTTGATGTAAA
7434 CTAAACATGG
Statistics
Matches: 359, Mismatches: 34, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
30 8 0.02
31 351 0.98
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (31 bp):
GGTTTATTGTTGTTGATGTAAATGATGTACT
Found at i:9567 original size:13 final size:13
Alignment explanation
Indices: 9549--9578 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9539 CCCTGAATTC
9549 ATTCGAATTAGAG
1 ATTCGAATTAGAG
*
9562 ATTCGAATTGGAG
1 ATTCGAATTAGAG
9575 ATTC
1 ATTC
9579 TATCTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (13 bp):
ATTCGAATTAGAG
Found at i:9755 original size:20 final size:20
Alignment explanation
Indices: 9726--9776 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9716 TGCTTTATTA
* * *
9726 TGTTTTATATTGTTTGCTTC
1 TGTTTGATATTGCTTGCATC
9746 TGTTTGATATTGCTTGCATC
1 TGTTTGATATTGCTTGCATC
**
9766 TACTTGATATT
1 TGTTTGATATT
9777 TGTAAGGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.57
Consensus pattern (20 bp):
TGTTTGATATTGCTTGCATC
Found at i:9918 original size:23 final size:23
Alignment explanation
Indices: 9869--9925 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
9859 CTTAATGCAG
*
9869 GATGCTTGCTGAATCGATGCAAC
1 GATGCTTGCTGAATCGATACAAC
* * **
9892 GATGCTTGCTGAATTGGTACATT
1 GATGCTTGCTGAATCGATACAAC
9915 GATGCTTGCTG
1 GATGCTTGCTG
9926 GTTGTTGCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (23 bp):
GATGCTTGCTGAATCGATACAAC
Found at i:11477 original size:30 final size:29
Alignment explanation
Indices: 11428--11490 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
11418 TCTGTGACTA
11428 GTGGTCTGATTGAACAAATTAAATAGTTAG
1 GTGGTCTGATTGAACAAATTAAA-AGTTAG
* * *
11458 GTGGTTTGATTG-ACAAAATTGAAAGTTCG
1 GTGGTCTGATTGAAC-AAATTAAAAGTTAG
11487 GTGG
1 GTGG
11491 AAAACGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (29 bp):
GTGGTCTGATTGAACAAATTAAAAGTTAG
Found at i:12723 original size:18 final size:18
Alignment explanation
Indices: 12700--12734 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12690 TTTACCCGTT
12700 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
12718 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
12735 GGTATTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:12734 original size:13 final size:13
Alignment explanation
Indices: 12693--12723 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
12683 CGACCCGTTT
12693 ACCCGTTGACCCG
1 ACCCGTTGACCCG
12706 ACCCGTTGACCCG
1 ACCCGTTGACCCG
12719 ACCCG
1 ACCCG
12724 ACCCGTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.48, G:0.23, T:0.13
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:12794 original size:29 final size:29
Alignment explanation
Indices: 12740--12874 Score: 132
Period size: 29 Copynumber: 4.8 Consensus size: 29
12730 TGACCGGTAT
*** *
12740 TATTCTGGGAATTAATTTGGGTTTGGTGT
1 TATTCTGGGAATTAATTTGAAATTGGTGC
12769 TATTCTGGGAATTAATTTGAAATTGGTGC
1 TATTCTGGGAATTAATTTGAAATTGGTGC
* * * ** *
12798 TATTTTGGTAATT--TTTCAAA-AAGTGA
1 TATTCTGGGAATTAATTTGAAATTGGTGC
*
12824 TATTCTGGGAATTAATTCGAAATTGGTGC
1 TATTCTGGGAATTAATTTGAAATTGGTGC
* *
12853 TATTTTGGGAATTAATTCGAAA
1 TATTCTGGGAATTAATTTGAAA
12875 AGGGTGATAT
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
26 14 0.16
27 6 0.07
28 5 0.06
29 60 0.71
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (29 bp):
TATTCTGGGAATTAATTTGAAATTGGTGC
Found at i:12835 original size:55 final size:58
Alignment explanation
Indices: 12769--12913 Score: 183
Period size: 55 Copynumber: 2.6 Consensus size: 58
12759 GGTTTGGTGT
* *
12769 TATTCTGGGAATTAATTTGAAATTGGTGCTATTTTGGTAATT-TTTC-AAAA-AGTGA
1 TATTCTGGGAATTAATTTGAAATTGGTGCTATTTTGGGAATTAATTCGAAAAGAGTGA
* *
12824 TATTCTGGGAATTAATTCGAAATTGGTGCTATTTTGGGAATTAATTCGAAAAGGGTGA
1 TATTCTGGGAATTAATTTGAAATTGGTGCTATTTTGGGAATTAATTCGAAAAGAGTGA
* * * *
12882 TATTTTGGTAATT-ATTTTAAA-AGGTGCTATTT
1 TATTCTGGGAATTAATTTGAAATTGGTGCTATTT
12914 GTGTATAATG
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
55 40 0.51
56 13 0.17
57 10 0.13
58 15 0.19
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (58 bp):
TATTCTGGGAATTAATTTGAAATTGGTGCTATTTTGGGAATTAATTCGAAAAGAGTGA
Found at i:12880 original size:29 final size:28
Alignment explanation
Indices: 12764--12913 Score: 126
Period size: 29 Copynumber: 5.4 Consensus size: 28
12754 ATTTGGGTTT
* * * *
12764 GGTGTTATTCTGGGAATTAATTTGAAATT
1 GGTGCTATTTTGGGAATTAATTCGAAA-A
* *
12793 GGTGCTATTTTGGTAATT-TTTC-AAAA
1 GGTGCTATTTTGGGAATTAATTCGAAAA
* * * *
12819 AGTGATATTCTGGGAATTAATTCGAAATT
1 GGTGCTATTTTGGGAATTAATTCGAAA-A
12848 GGTGCTATTTTGGGAATTAATTCGAAAA
1 GGTGCTATTTTGGGAATTAATTCGAAAA
* * **
12876 GGGTGATATTTTGGTAATT-ATTTTAAAA
1 -GGTGCTATTTTGGGAATTAATTCGAAAA
12904 GGTGCTATTT
1 GGTGCTATTT
12914 GTGTATAATG
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
26 14 0.15
27 15 0.16
28 12 0.12
29 55 0.57
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (28 bp):
GGTGCTATTTTGGGAATTAATTCGAAAA
Found at i:12886 original size:84 final size:85
Alignment explanation
Indices: 12740--12912 Score: 222
Period size: 84 Copynumber: 2.0 Consensus size: 85
12730 TGACCGGTAT
* *** * * ** *
12740 TATTCTGGGAATTAATTTGGGTTTGGTGTTATTCTGGGAATTAATTTGAAATTGGTGCTATTTTG
1 TATTCTGGGAATTAATTCGAAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGATATTTTG
12805 GTAATT-TTTCAAAAAGTGA
66 GTAATTATTTCAAAAAGTGA
*
12824 TATTCTGGGAATTAATTCGAAATTGGTGCTATTTTGGGAATTAATTCGAAAAGGGTGATATTTTG
1 TATTCTGGGAATTAATTCGAAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGATATTTTG
* * *
12889 GTAATTATTTTAAAAGGTGC
66 GTAATTATTTCAAAAAGTGA
12909 TATT
1 TATT
12913 TGTGTATAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 61 0.81
85 14 0.19
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.43
Consensus pattern (85 bp):
TATTCTGGGAATTAATTCGAAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGATATTTTG
GTAATTATTTCAAAAAGTGA
Found at i:12968 original size:10 final size:12
Alignment explanation
Indices: 12944--12975 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
12934 TATTGACCTC
12944 CTTTGACCAGAA
1 CTTTGACCAGAA
12956 CTTTGACC-G-A
1 CTTTGACCAGAA
12966 CTTTGACCAG
1 CTTTGACCAG
12976 CTATTAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (12 bp):
CTTTGACCAGAA
Found at i:20130 original size:29 final size:29
Alignment explanation
Indices: 20069--20143 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
20059 CCGTTGACCT
* ***
20069 GTGCTATTCTGGGAATTAATTCAGTTTTA
1 GTGCTATTATGGGAATTAATTCAGAAATA
20098 GTGCTATTATGGGAATTAATTC-GAAATA
1 GTGCTATTATGGGAATTAATTCAGAAATA
* *
20126 GGTGCTATTTTGGTAATT
1 -GTGCTATTATGGGAATT
20144 TTTTCAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.43
Consensus pattern (29 bp):
GTGCTATTATGGGAATTAATTCAGAAATA
Found at i:20199 original size:29 final size:29
Alignment explanation
Indices: 20126--20193 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
20116 ATTCGAAATA
20126 GGTGCTATTTTGGTAATTTTTTCAAAAAG
1 GGTGCTATTTTGGTAATTTTTTCAAAAAG
20155 GGTGCTATTTTGGTAATTATTTT-AAAAAG
1 GGTGCTATTTTGGTAATT-TTTTCAAAAAG
20184 GGTGCTATTT
1 GGTGCTATTT
20194 GTGTAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTTTTTCAAAAAG
Found at i:27034 original size:72 final size:72
Alignment explanation
Indices: 26913--27061 Score: 271
Period size: 72 Copynumber: 2.1 Consensus size: 72
26903 CGGAGAGATT
*
26913 GTTGTGTGAAAGATCTAGGCTTTCTACAACTCTCAAGTTTCCCATCGATGAAGGTATTTGACCGA
1 GTTGTGTGAAAGATCTAGGCTTTCTACAACTCTCAAGTTTCCCAACGATGAAGGTATTTGACCGA
26978 TCAGAAG
66 TCAGAAG
*
26985 GTTGTGTGAAAGATCTAGGCTTTCTACACCTCTCAAGTTTCCCAACGATGAAGGTATTTGACCGA
1 GTTGTGTGAAAGATCTAGGCTTTCTACAACTCTCAAGTTTCCCAACGATGAAGGTATTTGACCGA
*
27050 TGAGAAG
66 TCAGAAG
27057 GTTGT
1 GTTGT
27062 TCGACATGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (72 bp):
GTTGTGTGAAAGATCTAGGCTTTCTACAACTCTCAAGTTTCCCAACGATGAAGGTATTTGACCGA
TCAGAAG
Found at i:31635 original size:24 final size:23
Alignment explanation
Indices: 31607--31686 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 23
31597 CTGTCCAAGG
31607 AGTATCGATACTACTTTGTATAGT
1 AGTATCGATACTACTTTGTA-AGT
* ***
31631 AGTATCGATA-T-CGTCCCAA-T
1 AGTATCGATACTACTTTGTAAGT
*
31651 GAGTATCGATACTACTGTGTAAAGT
1 -AGTATCGATACTACTTTGT-AAGT
31676 AGTATCGATAC
1 AGTATCGATAC
31687 CGATCATGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
20 1 0.02
21 11 0.26
22 4 0.10
23 2 0.05
24 23 0.55
25 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (23 bp):
AGTATCGATACTACTTTGTAAGT
Found at i:31658 original size:45 final size:44
Alignment explanation
Indices: 31589--31686 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
31579 ATTTCAACGA
* *
31589 TATCGATACTGTCCAAGGAGTATCGATACTACTTTGTATAGTAG
1 TATCGATACTGTCCAAGGAGTATCGATACTACTGTGTAAAGTAG
*
31633 TATCGATA-TCGTCCCAATGAGTATCGATACTACTGTGTAAAGTAG
1 TATCGATACT-GT-CCAAGGAGTATCGATACTACTGTGTAAAGTAG
31678 TATCGATAC
1 TATCGATAC
31687 CGATCATGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
43 1 0.02
44 10 0.21
45 37 0.77
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (44 bp):
TATCGATACTGTCCAAGGAGTATCGATACTACTGTGTAAAGTAG
Found at i:33965 original size:2 final size:2
Alignment explanation
Indices: 33958--33982 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33948 AAAACAAAAG
33958 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 T
33983 TAAAACAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34548 original size:20 final size:21
Alignment explanation
Indices: 34507--34556 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
34497 GTATGAACAA
*
34507 TATCGATACTCATTCAAGTAG
1 TATCGATACTCATGCAAGTAG
*
34528 TATCGATACT-ATGCTAGTAG
1 TATCGATACTCATGCAAGTAG
*
34548 TATTGATAC
1 TATCGATAC
34557 CTAACAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (21 bp):
TATCGATACTCATGCAAGTAG
Found at i:37623 original size:18 final size:17
Alignment explanation
Indices: 37569--37617 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
37559 TTGGATCCTT
* *
37569 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
37587 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
37605 AGTGCATTCGATG
1 AGTGCA-TCGATG
37618 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:37722 original size:65 final size:63
Alignment explanation
Indices: 37563--37748 Score: 205
Period size: 65 Copynumber: 2.9 Consensus size: 63
37553 TAACCGTTGG
* * *
37563 ATCCTTAGTGCATCGGTGCACTAAG-AGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT
1 ATCCTAAGTGCATCGGTGCA-T-GGTAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT
* * * * * *
37627 AGCCAAAGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATACATTCGATATTTTCATAAA
1 ATCCTAAGTGCATCGGTGCATGG-TAGTGCATCGATGCATCAAATGCATTCGAT-GTTTCA-AAA
37692 -
63 T
* *
37692 ATCCTCAGTGCATCGGTGCATGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 ATCCTAAGTGCATCGGTGCATGGTA-GTGCATCGATGCATCAAATGCATTCGATGTT
37749 CAATTTAATT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 45 0.45
65 50 0.50
66 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (63 bp):
ATCCTAAGTGCATCGGTGCATGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT
Found at i:37767 original size:129 final size:130
Alignment explanation
Indices: 37563--37798 Score: 302
Period size: 129 Copynumber: 1.8 Consensus size: 130
37553 TAACCGTTGG
* *
37563 ATCCTTAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATA
1 ATCCTCAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA
37628 GCCAAAGTGCATCGATGCATGG-CTGGTGCATC-GATGCATCAAATACATTCGATATTTTCATAA
66 GCCAAAGTGCATCGATGCATGGTCTGGTGCATCAG-TGCATCAAATACATTCGATATTTTCATAA
37691 A
130 A
* * **
37692 ATCCTCAGTGCATCGGTGCA-T-GGTATGTGCATCGATGCATGAAATGCATTCGATG-TTCAATT
1 ATCCTCAGTGCATCGGTGCACTAAG-A-GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAA
** ** *
37754 TAATTCATGGTGCATCGATGCATGGTTTGGTGCATCAGTGCATCA
64 T-AGCCAAAGTGCATCGATGCATGGTCTGGTGCATCAGTGCATCA
37799 CTCTAAAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
127 1 0.01
128 8 0.09
129 65 0.71
130 16 0.18
131 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (130 bp):
ATCCTCAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA
GCCAAAGTGCATCGATGCATGGTCTGGTGCATCAGTGCATCAAATACATTCGATATTTTCATAAA
Found at i:37787 original size:65 final size:63
Alignment explanation
Indices: 37589--37798 Score: 187
Period size: 65 Copynumber: 3.3 Consensus size: 63
37579 TGCACTAAGA
* * ** *
37589 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAAAGTGCATCGATGCATGG-CT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATATAATTC--AGTGCATCGATGCATGGTAT
37652 G
63 G
* * * *
37653 GTGCATCGATGCATCAAATACATTCGATATTTTC-ATAAAATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCG--ATGTTCAATATAAT--TCAGTGCATCGATGCATGGTA
37717 T-
62 TG
* * *
37718 GTGCATCGATGCATGAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATGGTTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAATATAATTCA--GTGCATCGATGCATGGTATG
37783 GTGCATC-AGTGCATCA
1 GTGCATCGA-TGCATCA
37799 CTCTAAAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
62 3 0.03
63 5 0.04
64 49 0.42
65 57 0.48
66 3 0.03
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCAATATAATTCAGTGCATCGATGCATGGTATG
Done.