Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007861.1 Hibiscus syriacus cultivar Beakdansim tig00110226_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: 673920
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:4735 original size:18 final size:16
Alignment explanation
Indices: 4712--4747 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
4702 TTTTAGAGGG
4712 AAAAATGAATGAATGAAA
1 AAAAATGAA-GAAT-AAA
4730 AAAAATGAAGAATAAA
1 AAAAATGAAGAATAAA
4746 AA
1 AA
4748 TAAGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAAATGAAGAATAAA
Found at i:4755 original size:10 final size:10
Alignment explanation
Indices: 4740--4787 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
4730 AAAAATGAAG
4740 AATAAAAATA
1 AATAAAAATA
*
4750 AGTAAAAATA
1 AATAAAAATA
4760 AATAAAAATAA
1 AATAAAAAT-A
*
4771 AAGGAAAAATA
1 AA-TAAAAATA
4782 AATAAA
1 AATAAA
4788 TAAATGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (10 bp):
AATAAAAATA
Found at i:4771 original size:16 final size:15
Alignment explanation
Indices: 4727--4787 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 15
4717 TGAATGAATG
*
4727 AAAAAAAATGAAGAAT
1 AAAAAAAAT-AAAAAT
*
4743 AAAAATAAGTAAAAAT
1 AAAAA-AAATAAAAAT
**
4759 AAATAAAAATAAAAGG
1 AAA-AAAAATAAAAAT
4775 AAAAATAAATAAA
1 AAAAA-AAATAAA
4788 TAAATGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 2 0.05
16 30 0.81
17 5 0.14
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:4781 original size:22 final size:20
Alignment explanation
Indices: 4740--4787 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
4730 AAAAATGAAG
*
4740 AATAAAAATAAGTAAAAATA
1 AATAAAAATAAGGAAAAATA
4760 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
4782 AATAAA
1 AATAAA
4788 TAAATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:4920 original size:29 final size:29
Alignment explanation
Indices: 4882--4939 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4872 ATAATATAAT
4882 ATAAACAAATAAAAAAACCAAAAATAAAA
1 ATAAACAAATAAAAAAACCAAAAATAAAA
* * * * *
4911 ATAAATAAATATATAAATCAAATATAAAA
1 ATAAACAAATAAAAAAACCAAAAATAAAA
4940 GTATACATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (29 bp):
ATAAACAAATAAAAAAACCAAAAATAAAA
Found at i:5699 original size:37 final size:36
Alignment explanation
Indices: 5658--5761 Score: 127
Period size: 36 Copynumber: 2.8 Consensus size: 36
5648 GTGCTTGTGG
* * *
5658 ATCCTATCTTTAAGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGTAGAACTCT
** * *
5695 ATCCTATTTTAGGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
5731 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGTAG
5762 GACGAAAAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 28 0.50
37 28 0.50
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:6646 original size:106 final size:106
Alignment explanation
Indices: 6460--8263 Score: 2878
Period size: 106 Copynumber: 17.0 Consensus size: 106
6450 GCATTGTTCC
* * *** *
6460 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCCGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * *
6524 ACCAGCCGTCCCTTCGTTGTGAACTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6566 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6631 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6672 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6737 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6778 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6843 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6884 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
6949 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6990 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
7055 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
7096 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
7161 CCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7202 GAGCCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTCTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
7267 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7308 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
7373 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
7414 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGCTCTAAAATTGAGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
7479 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* **
7520 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGATAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
7585 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
7626 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
7690 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
7731 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
7796 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGAGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7837 GAGTACAATATCCTTCGCTGTGAAGTTGAAATTTGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
7902 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
7943 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
8008 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
8049 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAGTTGTTTGTTTACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
8114 TCAGTC-GCCCCTTCG-CTGTGAAGTTGAGCTTGTGTTGTCTT
66 CCAG-CGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTG
8155 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
8220 CCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
8261 GAG
1 GAG
8264 AGAAACTGTC
Statistics
Matches: 1580, Mismatches: 112, Indels: 12
0.93 0.07 0.01
Matches are distributed among these distances:
105 97 0.06
106 1481 0.94
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:8315 original size:36 final size:36
Alignment explanation
Indices: 8264--8401 Score: 163
Period size: 36 Copynumber: 3.8 Consensus size: 36
8254 TTGTCTGGAG
8264 AGAA-ACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGGGAGACAAAATTTGTTTCAA
* *
8299 GGAAGACTGTCTCAAGGGAGACGAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGGGAGACAAAATTTGTTTCAA
* * * * *
8335 AGAAAAGCTATCTCAAGTGAGATAAAATCTTGTTTTAA
1 AGAAGA-CTGTCTCAAGGGAGACAAAAT-TTGTTTCAA
*
8373 ATG-AGACTGTCTCAAGCGAGACAAAATTT
1 A-GAAGACTGTCTCAAGGGAGACAAAATTT
8402 ATATTGGAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
35 3 0.03
36 36 0.42
37 35 0.41
38 11 0.13
39 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (36 bp):
AGAAGACTGTCTCAAGGGAGACAAAATTTGTTTCAA
Found at i:9168 original size:22 final size:22
Alignment explanation
Indices: 9142--9218 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
9132 TTGTGTTTGG
9142 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* * *
9164 TCAAATGTTTGGTATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
*
9186 TCAAAGGTTTGTCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
9208 TCAAAGGTTTG
1 TCAAAGGTTTG
9219 ATGGGGTAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:11036 original size:25 final size:25
Alignment explanation
Indices: 10999--11047 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10989 CATGTTTATG
*
10999 AAAATGCTTAAAATGAATGTAGATGC
1 AAAATGCTAAAAATGAATG-AGATGC
*
11025 AAAATGC-AAAAATGCATGAGATG
1 AAAATGCTAAAAATGAATGAGATG
11048 TTCGAGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.22
Consensus pattern (25 bp):
AAAATGCTAAAAATGAATGAGATGC
Found at i:11763 original size:5 final size:5
Alignment explanation
Indices: 11753--11790 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
11743 GAAAGTGATG
* *
11753 AAAAT AAAAT AAAAT ATAAT ATAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11791 GATGAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:12902 original size:16 final size:17
Alignment explanation
Indices: 12867--12950 Score: 52
Period size: 16 Copynumber: 5.1 Consensus size: 17
12857 TGTTAGAGGG
*
12867 AAAAAATGAATAAATGA
1 AAAAAATGAATAAATAA
*
12884 AAAAAATGAA-GAATAA
1 AAAAAATGAATAAATAA
*
12900 AAATAA-GTAA-AAATAA
1 AAAAAATG-AATAAATAA
**
12916 ATAAAAAT-AA-AAGGAA
1 A-AAAAATGAATAAATAA
*
12932 AAATAAATAAATAAATAA
1 AAA-AAATGAATAAATAA
12950 A
1 A
12951 TGAAATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
15 3 0.06
16 28 0.54
17 16 0.31
18 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (17 bp):
AAAAAATGAATAAATAA
Found at i:12904 original size:26 final size:26
Alignment explanation
Indices: 12875--12946 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
12865 GGAAAAAATG
* *
12875 AATAAATGAAAA-AAATGAAGAATAAA
1 AATAAATAAAAATAAAT-AAAAATAAA
*
12901 AATAAGTAAAAATAAATAAAAATAAA
1 AATAAATAAAAATAAATAAAAATAAA
**
12927 AGGAAA-AATAAATAAATAAA
1 AATAAATAA-AAATAAATAAA
12947 TAAATGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
25 2 0.05
26 32 0.84
27 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (26 bp):
AATAAATAAAAATAAATAAAAATAAA
Found at i:12912 original size:10 final size:10
Alignment explanation
Indices: 12895--12950 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
12885 AAAAATGAAG
12895 AATAAAAATA
1 AATAAAAATA
*
12905 AGTAAAAATA
1 AATAAAAATA
12915 AATAAAAATAA
1 AATAAAAAT-A
*
12926 AAGGAAAAATA
1 AA-TAAAAATA
12937 AAT--AAATA
1 AATAAAAATA
12945 AATAAA
1 AATAAA
12951 TGAAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.21
10 18 0.47
11 6 0.16
12 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AATAAAAATA
Found at i:12936 original size:22 final size:20
Alignment explanation
Indices: 12895--12942 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
12885 AAAAATGAAG
*
12895 AATAAAAATAAGTAAAAATA
1 AATAAAAATAAGGAAAAATA
12915 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
12937 AATAAA
1 AATAAA
12943 TAAATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:13097 original size:13 final size:12
Alignment explanation
Indices: 13065--13340 Score: 67
Period size: 12 Copynumber: 21.8 Consensus size: 12
13055 AAAAAACCAA
13065 AAATAAA-A-AT
1 AAATAAATATAT
13075 AAATAAATATAT
1 AAATAAATATAT
13087 AAATCAAATATA-
1 AAAT-AAATATAT
* *
13099 AAAGTATACATAT
1 AAA-TAAATATAT
*
13112 AATGATAATTATCTTAT
1 AA--ATAA--AT-ATAT
*
13129 AAATAAACTATTAA
1 AAATAAA-TA-TAT
*
13143 AACATACATATAT
1 AA-ATAAATATAT
* *
13156 ATATATATATAT
1 AAATAAATATAT
*
13168 AATATAAAGATAAT
1 AA-ATAAATAT-AT
* *
13182 TAATATATATAT
1 AAATAAATATAT
* *
13194 ATATATATATAT
1 AAATAAATATAT
* *
13206 ATATATATATAT
1 AAATAAATATAT
* *
13218 ATATATATATAT
1 AAATAAATATAT
* *
13230 ATAATATATGCTTAT
1 A-AATAAAT--ATAT
* *
13245 AAGTAAAATATTT
1 AAAT-AAATATAT
*
13258 AAA-AAAAAGTAT
1 AAATAAATA-TAT
* *
13270 ATATATATATAT
1 AAATAAATATAT
* *
13282 ATATATATATAT
1 AAATAAATATAT
* *
13294 ATATATATATAT
1 AAATAAATATAT
*
13306 AATATAAA-AAAT
1 AA-ATAAATATAT
**
13318 AACCAAATGAATAT
1 AAATAAAT--ATAT
13332 AAATAAATA
1 AAATAAATA
13341 AAAAATATAT
Statistics
Matches: 202, Mismatches: 39, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
10 7 0.03
11 8 0.04
12 99 0.49
13 43 0.21
14 23 0.11
15 16 0.08
16 1 0.00
17 5 0.02
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (12 bp):
AAATAAATATAT
Found at i:13157 original size:2 final size:2
Alignment explanation
Indices: 13150--13311 Score: 155
Period size: 2 Copynumber: 84.5 Consensus size: 2
13140 TAAAACATAC
* *
13150 AT AT AT AT AT AT AT AT AT A- AT AT AA AG AT A- AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
13230 AT A- AT AT AT GCT -T AT A- AGT A- AA AT AT TT A- AA AA AA AGT
1 AT AT AT AT AT -AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
13268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13309 AT A
1 AT A
13312 AAAAATAACC
Statistics
Matches: 139, Mismatches: 8, Indels: 26
0.80 0.05 0.15
Matches are distributed among these distances:
1 10 0.07
2 126 0.91
3 3 0.02
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:13346 original size:21 final size:21
Alignment explanation
Indices: 13306--13346 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13296 ATATATATAT
*
13306 AATATAAAAAATAACCAAATG
1 AATATAAAAAATAACAAAATG
13327 AATATAAATAAATAA-AAAAT
1 AATATAAA-AAATAACAAAAT
13347 ATATGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (21 bp):
AATATAAAAAATAACAAAATG
Found at i:13494 original size:21 final size:21
Alignment explanation
Indices: 13448--13496 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
13438 ATAATGTAAA
* *
13448 TAATA-AATAAATAAAAATAT
1 TAATATAATAAATAAAAAGAC
* *
13468 TCATATAATAAATAAAAGGAC
1 TAATATAATAAATAAAAAGAC
13489 TAATATAA
1 TAATATAA
13497 AGAAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
TAATATAATAAATAAAAAGAC
Found at i:13887 original size:37 final size:36
Alignment explanation
Indices: 13846--13949 Score: 127
Period size: 36 Copynumber: 2.8 Consensus size: 36
13836 GTGCTTGTGG
* * *
13846 ATCCTATCTTTAAGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGTAGAACTCT
** * *
13883 ATCCTATTTTAGGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
13919 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGTAG
13950 GACGAAAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 28 0.50
37 28 0.50
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:14034 original size:27 final size:25
Alignment explanation
Indices: 13979--14034 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
13969 AGATTGTTAC
*
13979 ATATAAAATATAAAAAATTCTAAAC
1 ATATAAAATATAAAAAATTCTAAAA
*
14004 ATATAAAACTA-AGAAAATATCATAAAA
1 ATATAAAA-TATAAAAAAT-TC-TAAAA
14031 ATAT
1 ATAT
14035 TTATAATCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 14 0.54
26 4 0.15
27 8 0.31
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (25 bp):
ATATAAAATATAAAAAATTCTAAAA
Found at i:14639 original size:7 final size:7
Alignment explanation
Indices: 14627--14651 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14617 CAACAATATG
14627 AATTTTA
1 AATTTTA
14634 AATTTTA
1 AATTTTA
14641 AATTTTA
1 AATTTTA
14648 AATT
1 AATT
14652 ATAGACCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:14937 original size:41 final size:40
Alignment explanation
Indices: 14887--14991 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
14877 ACAGATAAGT
* * * *
14887 ACTTCAGTGGTGTTTTTAAATAAACACCGCCACAGAATCTA
1 ACTTTAGTGGTGTTTTTAAACAAACACC-ACAAAGAATCTA
* * * *
14928 ACTTTAGTGGCGTTTCTAAACAAACACCACAAATAATCTT
1 ACTTTAGTGGTGTTTTTAAACAAACACCACAAAGAATCTA
*
14968 TCTTTAGTGGTGTTTTTAAACAAA
1 ACTTTAGTGGTGTTTTTAAACAAA
14992 TGTTGCAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 29 0.55
41 24 0.45
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.33
Consensus pattern (40 bp):
ACTTTAGTGGTGTTTTTAAACAAACACCACAAAGAATCTA
Found at i:15668 original size:307 final size:309
Alignment explanation
Indices: 15112--15730 Score: 1215
Period size: 307 Copynumber: 2.0 Consensus size: 309
15102 ATTTTTGAAT
15112 CAAATACCGCAATAGTTCAGAACATTTGTGGGCTTTTTAAAAAAAACACCTCAATATGTTGAAAC
1 CAAATACCGCAATAGTTCAGAACATTTGTGGGCTTTTTAAAAAAAACACCTCAATATGTTGAAAC
15177 ATTAGTGGCATTTTATTTAAAAAAACACCACGATAATTTGTTCTATAGTGACGTTTGATTTTAAA
66 ATTAGTGGCATTTTATTTAAAAAAACACCACGATAATTTGTTCTATAGTGACGTTTGATTTTAAA
15242 AAAACCGCAAAGTTTTACAAAAAAAAAAACTCCAATCTCGATAATGTTGTCTCTTTCTCTCTCAA
131 AAAACCGCAAAGTTTTACAAAAAAAAAAACTCCAATCTCGATAATGTTGTCTCTTTCTCTCTCAA
15307 ATGTTTAAAGTGCTGTAAACCCTAACTGTGCTGTCAAATCCCTCCTCCTGGAACAGCCCTTCAAC
196 ATGTTTAAAGTGCTGTAAACCCTAACTGTGCTGTCAAATCCCTCCTCCTGGAACAGCCCTTCAAC
15372 GAATGGGATTCTTTTCAACTTTCCTTTGGATTCGTACTAAATTTCTCGG
261 GAATGGGATTCTTTTCAACTTTCCTTTGGATTCGTACTAAATTTCTCGG
15421 CAAATACCGCAATAGTTCAGAACATTTGTGGGCTTTTT-AAAAAAACACCTCAATATGTTGAAAC
1 CAAATACCGCAATAGTTCAGAACATTTGTGGGCTTTTTAAAAAAAACACCTCAATATGTTGAAAC
15485 ATTAGTGGCATTTTATTT-AAAAAACACCACGATAATTTGTTCTATAGTGACGTTTGATTTTAAA
66 ATTAGTGGCATTTTATTTAAAAAAACACCACGATAATTTGTTCTATAGTGACGTTTGATTTTAAA
*
15549 AAAACCGCAAAGTTTTACAAAAAAAAAATCTCCAATCTCGATAATGTTGTCTCTTTCTCTCTCAA
131 AAAACCGCAAAGTTTTACAAAAAAAAAAACTCCAATCTCGATAATGTTGTCTCTTTCTCTCTCAA
15614 ATGTTTAAAGTGCTGTAAACCCTAACTGTGCTGTCAAATCCCTCCTCCTGGAACAGCCCTTCAAC
196 ATGTTTAAAGTGCTGTAAACCCTAACTGTGCTGTCAAATCCCTCCTCCTGGAACAGCCCTTCAAC
15679 GAATGGGATTCTTTTCAACTTTCCTTTGGATTCGTACTAAATTTCTCGG
261 GAATGGGATTCTTTTCAACTTTCCTTTGGATTCGTACTAAATTTCTCGG
15728 CAA
1 CAA
15731 CCAAACATCT
Statistics
Matches: 309, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
307 227 0.73
308 44 0.14
309 38 0.12
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (309 bp):
CAAATACCGCAATAGTTCAGAACATTTGTGGGCTTTTTAAAAAAAACACCTCAATATGTTGAAAC
ATTAGTGGCATTTTATTTAAAAAAACACCACGATAATTTGTTCTATAGTGACGTTTGATTTTAAA
AAAACCGCAAAGTTTTACAAAAAAAAAAACTCCAATCTCGATAATGTTGTCTCTTTCTCTCTCAA
ATGTTTAAAGTGCTGTAAACCCTAACTGTGCTGTCAAATCCCTCCTCCTGGAACAGCCCTTCAAC
GAATGGGATTCTTTTCAACTTTCCTTTGGATTCGTACTAAATTTCTCGG
Found at i:16537 original size:71 final size:71
Alignment explanation
Indices: 16449--16588 Score: 183
Period size: 71 Copynumber: 2.0 Consensus size: 71
16439 TGCATGCTAC
* * *
16449 TCTAAGTTGTTTTATTTGACTATCAAATT-TTAATCTTGCTTTCTATATTTATGAAATATCAATG
1 TCTAAATTGTTTTATTTGACTATCAAATTATT-ATCTTGCGTTCTATATTCATGAAATATCAATG
16513 GACTGAT
65 GACTGAT
** * * * *
16520 TCTAAATTGTTTTATTTGACTATTTAGTTATTATTTTGCGTTCTATATTCATGATATATCGATGG
1 TCTAAATTGTTTTATTTGACTATCAAATTATTATCTTGCGTTCTATATTCATGAAATATCAATGG
16585 ACTG
66 ACTG
16589 TTACAATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 57 0.97
72 2 0.03
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (71 bp):
TCTAAATTGTTTTATTTGACTATCAAATTATTATCTTGCGTTCTATATTCATGAAATATCAATGG
ACTGAT
Found at i:18143 original size:26 final size:26
Alignment explanation
Indices: 18114--18204 Score: 182
Period size: 26 Copynumber: 3.5 Consensus size: 26
18104 AAAACGCAGC
18114 TATATTAATTATATAATTTAGAAAAG
1 TATATTAATTATATAATTTAGAAAAG
18140 TATATTAATTATATAATTTAGAAAAG
1 TATATTAATTATATAATTTAGAAAAG
18166 TATATTAATTATATAATTTAGAAAAG
1 TATATTAATTATATAATTTAGAAAAG
18192 TATATTAATTATA
1 TATATTAATTATA
18205 ACCTAATTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TATATTAATTATATAATTTAGAAAAG
Found at i:18251 original size:12 final size:11
Alignment explanation
Indices: 18200--18258 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 11
18190 AGTATATTAA
*
18200 TTATAACCTAAT
1 TTATAACAT-AT
*
18212 TTATAAAATAT
1 TTATAACATAT
18223 TATAATAACATAT
1 T-T-ATAACATAT
18236 TTATAACATCAT
1 TTATAACAT-AT
18248 TTATAA-ATAT
1 TTATAACATAT
18258 T
1 T
18259 GACTCTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.07
11 12 0.29
12 17 0.41
13 9 0.22
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TTATAACATAT
Found at i:27620 original size:33 final size:33
Alignment explanation
Indices: 27583--27647 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
27573 ACAAAATAAT
* *
27583 ATTAAAATTACATTTTATTTTATTTTAAAAAAC
1 ATTAAAATTACATATTATTTTATTTAAAAAAAC
*
27616 ATTAAAATTGCATATTATTTTATTTAAAAAAA
1 ATTAAAATTACATATTATTTTATTTAAAAAAA
27648 GAACATGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (33 bp):
ATTAAAATTACATATTATTTTATTTAAAAAAAC
Found at i:27660 original size:36 final size:33
Alignment explanation
Indices: 27586--27663 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
27576 AAATAATATT
* * * *
27586 AAAATTACATTTTATTTTATTTTAAAAAACATT
1 AAAATTGCATATTATTTTATTTAAAAAAACATG
27619 AAAATTGCATATTATTTTATTTAAAAAAAGAACATG
1 AAAATTGCATATTATTTTATTT--AAAAA-AACATG
27655 AAAATTGCA
1 AAAATTGCA
27664 AACTCATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 20 0.53
35 4 0.11
36 14 0.37
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (33 bp):
AAAATTGCATATTATTTTATTTAAAAAAACATG
Found at i:30282 original size:18 final size:18
Alignment explanation
Indices: 30261--30298 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30251 TTCTCTCAAC
30261 TTTC-TTCTCTCGAATCTA
1 TTTCTTTCTCTC-AATCTA
30279 TTTCTTTTCTCTCAATCTA
1 TTTC-TTTCTCTCAATCTA
30298 T
1 T
30299 AATAATTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTCTTTCTCTCAATCTA
Found at i:35560 original size:21 final size:21
Alignment explanation
Indices: 35531--35593 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
35521 GGAACAGAGA
35531 GTTTAGAAACTAGGCTAAGGG
1 GTTTAGAAACTAGGCTAAGGG
* *
35552 GTTTCGAAACCAGG-TACAGGGG
1 GTTTAGAAACTAGGCTA-A-GGG
* * *
35574 GTTTTGAAATTAGGCAAAGG
1 GTTTAGAAACTAGGCTAAGG
35594 AATTTCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 15 0.45
22 15 0.45
23 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.33, T:0.24
Consensus pattern (21 bp):
GTTTAGAAACTAGGCTAAGGG
Found at i:36056 original size:3 final size:3
Alignment explanation
Indices: 36050--36121 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
36040 TTTTTACCCA
36050 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
*
36096 TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
36122 AATATATATT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:36148 original size:14 final size:15
Alignment explanation
Indices: 36120--36154 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
36110 TTATCATTAT
36120 TAAATATATATTAAA
1 TAAATATATATTAAA
36135 TAAATATATA-TAAA
1 TAAATATATATTAAA
36149 TAAATA
1 TAAATA
36155 ATTACAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:43229 original size:10 final size:10
Alignment explanation
Indices: 43197--43233 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
43187 ACAAAATTGA
43197 CGGTTTTTCC
1 CGGTTTTTCC
*
43207 CAGTTTTTCC
1 CGGTTTTTCC
*
43217 CGGTTTTTTC
1 CGGTTTTTCC
43227 CGGTTTT
1 CGGTTTT
43234 CAACCGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.03, C:0.24, G:0.19, T:0.54
Consensus pattern (10 bp):
CGGTTTTTCC
Found at i:43275 original size:18 final size:17
Alignment explanation
Indices: 43243--43276 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43233 TCAACCGGTC
43243 CGGTTTGAACGGTTCAG
1 CGGTTTGAACGGTTCAG
*
43260 CGGTTCTGACCGGTTCA
1 CGGTT-TGAACGGTTCA
43277 CTAATAGGGG
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:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (17 bp):
CGGTTTGAACGGTTCAG
Found at i:44351 original size:37 final size:39
Alignment explanation
Indices: 44272--44358 Score: 144
Period size: 38 Copynumber: 2.3 Consensus size: 39
44262 TTCACCCTAA
44272 ACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCG
*
44311 ACCCGAA-TCGACCCGAATATCACACTT-AAAAAACCCG
1 ACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCG
44348 ACCCG-ACCCGA
1 ACCCGAACCCGA
44359 ACAAAATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 1 0.02
37 18 0.40
38 19 0.42
39 7 0.16
ACGTcount: A:0.39, C:0.39, G:0.11, T:0.10
Consensus pattern (39 bp):
ACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCG
Found at i:45815 original size:16 final size:16
Alignment explanation
Indices: 45794--45834 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
45784 TTTTATATCA
45794 CAAGTCATATTCAAAG
1 CAAGTCATATTCAAAG
45810 CAAGTCATATTCAAAG
1 CAAGTCATATTCAAAG
45826 CAAGTCATA
1 CAAGTCATA
45835 ACATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (16 bp):
CAAGTCATATTCAAAG
Found at i:48349 original size:2 final size:2
Alignment explanation
Indices: 48342--48367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48332 AACAGAGTGA
48342 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
48368 GGGGAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49074 original size:229 final size:228
Alignment explanation
Indices: 48669--49155 Score: 884
Period size: 229 Copynumber: 2.1 Consensus size: 228
48659 GTAAATTATC
* * *
48669 TATCTTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
48734 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
48799 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
48864 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTCAAAAAAGTATA
*
48897 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
48962 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* *
49027 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
*
49092 GAAACATAAATTACATAACTTTCAAAGAAGTATA
195 GAAACATAAATTACATAACTTTCAAAAAAGTATA
49126 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
49156 AAAAGTAGGT
Statistics
Matches: 249, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
228 36 0.14
229 213 0.86
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:49567 original size:180 final size:181
Alignment explanation
Indices: 49222--49693 Score: 660
Period size: 181 Copynumber: 2.6 Consensus size: 181
49212 GATCCAAATT
* * * *
49222 AAAAATGTGTCTATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAA-TATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
49286 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
64 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
49351 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
*
49404 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAATATGATAAAACCGGTAACAAAATGATAA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAATATGATAAAACCGGTAACAAAATGATAA
* * * *
49469 AATCGGTAAAACGTTACCGGATATATTAAAAGTATCGATACTTT-ATATAAGGATCGACACTTTG
66 AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
** *
49533 TGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * *
49584 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGT-AAAATATGATAAAACCGGTAACAAAATGATA
* * *
49649 AAACCGGTAAAATGATACCGAATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
49694 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 95 0.37
181 129 0.50
182 34 0.13
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAATATGATAAAACCGGTAACAAAATGATAA
AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:49637 original size:20 final size:19
Alignment explanation
Indices: 49614--49660 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
49604 CGATATAACA
49614 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
49634 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
49654 GGTAAAA
1 GGTAAAA
49661 TGATACCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:49662 original size:17 final size:19
Alignment explanation
Indices: 49623--49665 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
49613 AGGTAAAAAT
49623 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
49643 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
49660 ATGATA
1 ATGATA
49666 CCGAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:51915 original size:21 final size:21
Alignment explanation
Indices: 51888--51952 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
51878 AAGACAATCA
*
51888 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
51909 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
51930 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
51951 AG
1 AG
51953 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:52028 original size:33 final size:33
Alignment explanation
Indices: 51986--52051 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
51976 AAATAGATGG
*
51986 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
52019 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
52052 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:52640 original size:20 final size:20
Alignment explanation
Indices: 52617--52790 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
52607 GCAAATATGA
* *
52617 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
52637 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52657 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
52677 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
52697 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52717 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
52737 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
52757 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
52778 AAATCGCAACGCG
1 AAATCGCAACGCG
52791 ATATTTAAAG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 113 0.86
21 17 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:52681 original size:60 final size:60
Alignment explanation
Indices: 52617--52790 Score: 249
Period size: 60 Copynumber: 2.9 Consensus size: 60
52607 GCAAATATGA
* *
52617 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *** * *
52677 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
**
52737 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
52791 ATATTTAAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 66 0.68
61 31 0.32
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:53212 original size:33 final size:33
Alignment explanation
Indices: 53173--53243 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
53163 TTCACTTAGA
*
53173 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
53206 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
53239 TTTCA
1 TTTCA
53244 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:53373 original size:20 final size:20
Alignment explanation
Indices: 53342--53471 Score: 108
Period size: 19 Copynumber: 7.2 Consensus size: 20
53332 CAACAAGATA
53342 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
53362 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
53382 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
53401 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
53416 AATGAAAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
53434 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
53449 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
53469 AAT
1 AAT
53472 CGCAACGCGA
Statistics
Matches: 88, Mismatches: 7, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
14 18 0.20
16 8 0.09
17 6 0.07
19 24 0.27
20 20 0.23
21 12 0.14
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:53394 original size:21 final size:21
Alignment explanation
Indices: 53332--53404 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
53322 AGAAGAGTCA
* *
53332 CAACAAGATAAATGAAAATCG
1 CAACGAGAGAAATGAAAATCG
***
53353 CAACGAGAG-AATGACTGTCG
1 CAACGAGAGAAATGAAAATCG
53373 CAACGAGAGAAATGAAAATCG
1 CAACGAGAGAAATGAAAATCG
53394 CAACGAGAGAA
1 CAACGAGAGAA
53405 TCGCAACGCG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.11
Consensus pattern (21 bp):
CAACGAGAGAAATGAAAATCG
Found at i:53398 original size:41 final size:33
Alignment explanation
Indices: 53341--53494 Score: 191
Period size: 33 Copynumber: 4.4 Consensus size: 33
53331 ACAACAAGAT
53341 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GAG
*
53382 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGAG
*
53415 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGAG
*
53448 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGAG
**
53481 AAACCAAAATCGCA
1 AAATGAAAATCGCA
53495 TTGCGATTTT
Statistics
Matches: 110, Mismatches: 3, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
33 80 0.73
35 7 0.06
38 1 0.01
40 1 0.01
41 21 0.19
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGAG
Found at i:53408 original size:14 final size:14
Alignment explanation
Indices: 53389--53478 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
53379 GAGAAATGAA
53389 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
53403 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
53422 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
53436 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
53455 AATCGCAACGAGAG
1 AATCGCAACGAGAG
53469 AATCGCAACG
1 AATCGCAACG
53479 CGAAACCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:53421 original size:33 final size:33
Alignment explanation
Indices: 53381--53494 Score: 210
Period size: 33 Copynumber: 3.5 Consensus size: 33
53371 CGCAACGAGA
53381 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
53414 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
53447 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
53480 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
53495 TTGCGATTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:53531 original size:14 final size:14
Alignment explanation
Indices: 53512--53567 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
53502 TTTCATTTCG
53512 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
53526 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
*
53544 CGTTACGATTCTCT
1 CGTTGCGATTCTCT
53558 CGTTGCGATT
1 CGTTGCGATT
53568 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.56
15 3 0.09
17 3 0.09
18 9 0.26
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:53542 original size:32 final size:33
Alignment explanation
Indices: 53495--53616 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 33
53485 CAAAATCGCA
*
53495 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTACGATTCTCTCG
53528 TTGCGA-TTTCATTTCGCGTTACGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTACGATTCTCTCG
*
53560 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT---AC-G--ATTCTCTCG
53601 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
53617 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
32 31 0.40
33 11 0.14
34 2 0.03
35 6 0.08
38 2 0.03
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTACGATTCTCTCG
Found at i:53578 original size:21 final size:21
Alignment explanation
Indices: 53552--53616 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
53542 CGCGTTACGA
53552 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
53573 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
53593 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
53614 TTC
1 TTC
53617 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:53613 original size:20 final size:20
Alignment explanation
Indices: 53551--53614 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
53541 TCGCGTTACG
53551 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
53571 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
53592 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
53612 ATT
1 ATT
53615 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:55542 original size:92 final size:93
Alignment explanation
Indices: 55302--55582 Score: 514
Period size: 92 Copynumber: 3.1 Consensus size: 93
55292 TAGATTGCTT
* *
55302 AGTAAATTTATTCGATTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55367 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
55395 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55460 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
55487 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAATA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55552 TTTGTCTTTG-TTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
55578 AGTAA
1 AGTAA
55583 TGCAATCCAT
Statistics
Matches: 184, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
91 12 0.07
92 92 0.50
93 80 0.43
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:55670 original size:19 final size:19
Alignment explanation
Indices: 55630--55758 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
55620 TAGTTTACTT
* *
55630 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
55650 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
55669 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
55688 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
55702 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
55721 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
55735 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
55754 TCGCA
1 TCGCA
55759 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:55709 original size:33 final size:32
Alignment explanation
Indices: 55666--55758 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
55656 CGCGAAACCA
**
55666 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
55698 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
55731 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
55759 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:55756 original size:52 final size:52
Alignment explanation
Indices: 55630--55758 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
55620 TAGTTTACTT
**
55630 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
55682 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
55735 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
55759 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:55776 original size:19 final size:19
Alignment explanation
Indices: 55754--55926 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
55744 GAAACCAAAA
*
55754 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
55773 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
55789 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
55806 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
55822 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
55839 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* **
55858 TCGCATTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
55877 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
55896 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
55916 TCGTGTTGCGA
1 TCGCGTTGCGA
55927 AAGTAAATTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 77 0.61
20 12 0.10
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:55795 original size:14 final size:14
Alignment explanation
Indices: 55776--55832 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
55766 TTTCATTTCG
55776 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
55790 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
55807 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
55823 CGTTGCGATT
1 CGTTGCGATT
55833 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:55884 original size:38 final size:38
Alignment explanation
Indices: 55754--55926 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
55744 GAAACCAAAA
55754 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
55789 TCG--TTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
55822 TCG--TTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
55858 TCGCATTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTATCATT
* * *
55896 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCATTGCGATTTTCA-TTTCGCGTTGCGA
55927 AAGTAAATTA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
33 55 0.47
34 1 0.01
35 4 0.03
36 4 0.03
38 41 0.35
39 11 0.09
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (38 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:57761 original size:12 final size:12
Alignment explanation
Indices: 57746--57781 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
57736 TGATTCAATA
57746 GTTTAATTGATT
1 GTTTAATTGATT
**
57758 GTTTTTTTGATT
1 GTTTAATTGATT
57770 GTTTAATTGATT
1 GTTTAATTGATT
57782 TGTAAAAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (12 bp):
GTTTAATTGATT
Found at i:57868 original size:14 final size:14
Alignment explanation
Indices: 57849--57884 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
57839 ATTGTTTAAT
57849 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
57863 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
57877 TGATTTGT
1 TGATTTGT
57885 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:58007 original size:19 final size:19
Alignment explanation
Indices: 57991--58084 Score: 126
Period size: 19 Copynumber: 5.2 Consensus size: 19
57981 AAAAATGACT
57991 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
58010 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
58029 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
58043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
58062 ATCGCAATGCGGAAATAAAA
1 ATCGCAATGC-GAAATGAAA
58082 ATC
1 ATC
58085 TCAACGAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 39 0.59
20 11 0.17
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:58120 original size:53 final size:53
Alignment explanation
Indices: 57991--58107 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
57981 AAAAATGACT
*
57991 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGA
*
58043 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATAAAAATCTCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGA
58096 ATCGCAATGCGA
1 ATCGCAATGCGA
58108 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGA
Found at i:58125 original size:19 final size:19
Alignment explanation
Indices: 58097--58247 Score: 143
Period size: 19 Copynumber: 8.7 Consensus size: 19
58087 AACGAGAGAA
* *
58097 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
58116 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
58132 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
58149 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
58168 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
58184 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
58201 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
58219 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
58235 TCGCATTGCGATT
1 TCGCATTGCGATT
58248 CTCTCGTTGC
Statistics
Matches: 109, Mismatches: 7, Indels: 32
0.74 0.05 0.22
Matches are distributed among these distances:
14 23 0.21
16 16 0.15
17 13 0.12
18 3 0.03
19 42 0.39
20 12 0.11
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:58160 original size:52 final size:52
Alignment explanation
Indices: 58097--58216 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
58087 AACGAGAGAA
*
58097 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* *
58149 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
58201 TCCGCATTGCGATTTT
1 T-CGCATTGCGATTTT
58217 CATGTTGGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
52 50 0.78
53 14 0.22
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:58269 original size:33 final size:33
Alignment explanation
Indices: 58154--58261 Score: 173
Period size: 33 Copynumber: 3.2 Consensus size: 33
58144 TCATTTCGCA
58154 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
58187 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
58221 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
58254 TTGCGATT
1 TTGCGATT
58262 GTAATTTCCG
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.01
33 37 0.54
34 29 0.43
35 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:60560 original size:12 final size:12
Alignment explanation
Indices: 60543--60567 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60533 TCTTCGGGGA
60543 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60555 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60567 C
1 C
60568 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:60776 original size:24 final size:24
Alignment explanation
Indices: 60742--60788 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
60732 CTGAAACATC
60742 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
60766 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
60789 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:61499 original size:20 final size:20
Alignment explanation
Indices: 61471--61700 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
61461 AAATTTCAGT
* * *
61471 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
61491 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
61511 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
61531 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
61551 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
61571 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
61591 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
61611 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
61631 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
61651 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
61671 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
61691 GTTGCGATTT
1 GTTGCGATTT
61701 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:61717 original size:21 final size:21
Alignment explanation
Indices: 61687--61769 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
61677 ATTTTCATAT
*
61687 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
61708 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
61729 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
61750 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
61770 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:61760 original size:42 final size:43
Alignment explanation
Indices: 61667--61765 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
61657 ATTTATGTGT
* *
61667 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
61708 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
61750 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
61766 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:63390 original size:19 final size:19
Alignment explanation
Indices: 63366--63414 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
63356 AATGTAGGGT
63366 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
63385 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
63404 TATTTTTGTAT
1 TAATTTTGTAT
63415 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:64093 original size:199 final size:199
Alignment explanation
Indices: 63523--64678 Score: 2124
Period size: 199 Copynumber: 5.8 Consensus size: 199
63513 GGCAAATTTA
* * *
63523 CCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAA
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTATAA
* *
63588 TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAGAATATGTCTAA
65 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
63653 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
130 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
63718 TGCAC
195 TGCAC
* *
63723 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAA
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTATAA
63788 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
65 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
63853 ATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGG
130 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
63917 TGCAC
195 TGCAC
63922 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
63987 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
64052 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
64117 GCAC
196 GCAC
64121 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
64185 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
64250 -AATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
64313 GCAC
196 GCAC
64317 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
64381 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
64446 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
*
64511 GCGC
196 GCAC
*
64515 TCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
64580 GTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
64645 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
64679 CTAATTTAAA
Statistics
Matches: 939, Mismatches: 13, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
196 161 0.17
197 66 0.07
198 273 0.29
199 277 0.29
200 162 0.17
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
GCAC
Found at i:66159 original size:18 final size:18
Alignment explanation
Indices: 66138--66199 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
66128 AGCGGTCGCA
66138 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
66156 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
66174 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
66192 GAAGATGA
1 GAAGATGA
66200 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:66162 original size:6 final size:6
Alignment explanation
Indices: 66138--66229 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
66128 AGCGGTCGCA
* * * * * *
66138 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
66186 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
66230 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:66173 original size:3 final size:3
Alignment explanation
Indices: 66153--66233 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
66143 TGAAGCTGAC
* * * * * ** *
66153 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
66201 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
66234 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:66192 original size:36 final size:36
Alignment explanation
Indices: 66141--66217 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
66131 GGTCGCAGAA
*
66141 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
66177 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
66213 GATGA
1 GATGA
66218 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:66233 original size:12 final size:12
Alignment explanation
Indices: 66141--66229 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
66131 GGTCGCAGAA
*
66141 GATGAAGCTGAC
1 GATGAAGATGAC
66153 GATGAAGATGAC
1 GATGAAGATGAC
*
66165 GATGATGATGAC
1 GATGAAGATGAC
* *
66177 GATGAAGCTGGC
1 GATGAAGATGAC
*
66189 GATGAAGATGAT
1 GATGAAGATGAC
* * *
66201 GACGATGATGAT
1 GATGAAGATGAC
* *
66213 GATGATGATGAA
1 GATGAAGATGAC
66225 GATGA
1 GATGA
66230 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:66233 original size:18 final size:18
Alignment explanation
Indices: 66138--66229 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
66128 AGCGGTCGCA
*
66138 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
66156 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
66174 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
66192 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
66210 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
66228 GA
1 GA
66230 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:68012 original size:183 final size:182
Alignment explanation
Indices: 67702--68187 Score: 864
Period size: 183 Copynumber: 2.7 Consensus size: 182
67692 TTCAACATAT
* *
67702 TATAAATATACCGGTTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
* *
67767 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCGACATTT
*
67832 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
67885 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
67950 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCGACATTT
*
68015 ACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
* *
68068 TATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
68133 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGT
68188 GTCGGTAATT
Statistics
Matches: 291, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
183 287 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTATCGACATTTA
CACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:69254 original size:116 final size:116
Alignment explanation
Indices: 69050--69276 Score: 409
Period size: 116 Copynumber: 2.0 Consensus size: 116
69040 AAATTAATAG
*
69050 AATCATTTTAAAATAAAATTTTACAGTATTTATTATGAATTAATCAATAAATAAATTAAAAAAAG
1 AATCATTTTAAAATAAAACTTTACAGTATTTATTATGAATTAATCAATAAATAAATTAAAAAAAG
* * *
69115 AGTAAAGTTTATATAGAGAATTATCTTTGAATATATATTGTTTTATGAATT
66 AGTAAAGTTTATATAAAAAATTATCTTTGAATATATATTATTTTATGAATT
*
69166 AATCATTTTAAAATAAAACTTTACAGTATTTATTATGAATTAATTAATAAATAAATTAAAAAAAG
1 AATCATTTTAAAATAAAACTTTACAGTATTTATTATGAATTAATCAATAAATAAATTAAAAAAAG
69231 AGTAAAGTTTATATAAAAAATTATCTTTGAATATATATTATTTTAT
66 AGTAAAGTTTATATAAAAAATTATCTTTGAATATATATTATTTTAT
69277 ACTTACCTGA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 106 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (116 bp):
AATCATTTTAAAATAAAACTTTACAGTATTTATTATGAATTAATCAATAAATAAATTAAAAAAAG
AGTAAAGTTTATATAAAAAATTATCTTTGAATATATATTATTTTATGAATT
Found at i:70137 original size:13 final size:13
Alignment explanation
Indices: 70119--70143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70109 ACCATATAAT
70119 TTGAACTCATATA
1 TTGAACTCATATA
70132 TTGAACTCATAT
1 TTGAACTCATAT
70144 TTGCATAATT
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTGAACTCATATA
Found at i:77383 original size:24 final size:24
Alignment explanation
Indices: 77351--77430 Score: 151
Period size: 24 Copynumber: 3.3 Consensus size: 24
77341 CTATTCTTTC
*
77351 GCTTCAATTGAGCTCAAATTTTAA
1 GCTTCAATTGAGCTCAAATTTTAG
77375 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
77399 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
77423 GCTTCAAT
1 GCTTCAAT
77431 CGAACTTCTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:84968 original size:2 final size:2
Alignment explanation
Indices: 84961--84994 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
84951 TTTGAATCTA
84961 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84995 TTAAGCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85861 original size:27 final size:29
Alignment explanation
Indices: 85819--85877 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
85809 TTTATTTTTA
*
85819 TTTTATTTTTTGGTTGTTTTCTTAA-TAT
1 TTTTATTATTTGGTTGTTTTCTTAATTAT
*
85847 TTTTATTATTT-GTTGTTTTTTTAATTAT
1 TTTTATTATTTGGTTGTTTTCTTAATTAT
85875 TTT
1 TTT
85878 AATTTAGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (29 bp):
TTTTATTATTTGGTTGTTTTCTTAATTAT
Found at i:85878 original size:27 final size:28
Alignment explanation
Indices: 85816--85878 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
85806 TTATTTATTT
*
85816 TTATTTTATTTTTTGGTTGTTTTCTTAA
1 TTATTTTATTATTTGGTTGTTTTCTTAA
*
85844 -TATTTTTATTATTT-GTTGTTTTTTTAA
1 TTA-TTTTATTATTTGGTTGTTTTCTTAA
85871 TTATTTTA
1 TTATTTTA
85879 ATTTAGTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (28 bp):
TTATTTTATTATTTGGTTGTTTTCTTAA
Found at i:87968 original size:14 final size:14
Alignment explanation
Indices: 87949--87982 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
87939 CCTTGTTGCA
87949 TTTGCATCACGCAT
1 TTTGCATCACGCAT
*
87963 TTTGCA-CACTCAT
1 TTTGCATCACGCAT
87976 TTTGCAT
1 TTTGCAT
87983 TTGCATGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (14 bp):
TTTGCATCACGCAT
Found at i:89204 original size:9 final size:8
Alignment explanation
Indices: 89189--89256 Score: 68
Period size: 8 Copynumber: 8.4 Consensus size: 8
89179 TAACACAGAG
89189 AGAAAAAA
1 AGAAAAAA
*
89197 AG-GAAAA
1 AGAAAAAA
89204 AGATAAAAA
1 AGA-AAAAA
89213 AGAAAAAA
1 AGAAAAAA
89221 AGAAAAAA
1 AGAAAAAA
*
89229 TAGAAATAA
1 -AGAAAAAA
89238 AGAAATAAA
1 AGAAA-AAA
*
89247 A-AAGAAA
1 AGAAAAAA
89254 AGA
1 AGA
89257 GAGACGGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
7 10 0.20
8 23 0.46
9 17 0.34
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (8 bp):
AGAAAAAA
Found at i:89220 original size:17 final size:17
Alignment explanation
Indices: 89200--89254 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
89190 GAAAAAAAGG
89200 AAAAAGATAAAAAAGAA
1 AAAAAGATAAAAAAGAA
89217 AAAAAGA-AAAAATAGAA
1 AAAAAGATAAAAA-AGAA
*
89234 ATAAAGAAATAAAAAAGAA
1 A-AAA-AGATAAAAAAGAA
89253 AA
1 AA
89255 GAGAGACGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 5 0.15
17 12 0.36
18 4 0.12
19 7 0.21
20 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (17 bp):
AAAAAGATAAAAAAGAA
Found at i:91445 original size:90 final size:90
Alignment explanation
Indices: 91231--91491 Score: 425
Period size: 90 Copynumber: 2.9 Consensus size: 90
91221 AGTCTTTGAA
* *
91231 GGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGAATGTTTTCAAATG
1 GGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
91296 AGATTTTAGAAA-TAAGCCTTCGGG
66 AGATTTTAGAAACTAAGCCTTCGGG
* * *
91320 GGTTTCTTGATTTGTAAGTCCTTCGGGCAATCCATAATACCTTCAGTGCTGGATGTTTTCAAATG
1 GGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
* *
91385 ACATTTTAGAAACTGAGCCTTCGGG
66 AGATTTTAGAAACTAAGCCTTCGGG
* *
91410 GGTTTCTTGATTTGTACGTCCTTCGGTCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
1 GGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
*
91475 AGTTTTTAGAAACTAAG
66 AGATTTTAGAAACTAAG
91492 GATGATTTTT
Statistics
Matches: 156, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
89 71 0.46
90 85 0.54
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (90 bp):
GGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
AGATTTTAGAAACTAAGCCTTCGGG
Found at i:91730 original size:67 final size:67
Alignment explanation
Indices: 91621--91800 Score: 244
Period size: 67 Copynumber: 2.7 Consensus size: 67
91611 AGTTTGAGAC
* **
91621 AGTTTCCTTTGAAACAAATTTTG--TCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCG
1 AGTTTCCCTTGAAACATGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCG
91684 AT
66 AT
*
91686 AGTTT-CCTTTAAA-ATTGTTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTG
1 AGTTTCCCTTGAAACA-TG-TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTG
*
91749 TGAT
64 CGAT
* *
91753 AGTTTCCCTTGAAACATGTTTTGTCTCTCCTGAGACAG-TTCTCTTGAA
1 AGTTTCCCTTGAAACATGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAA
91801 GCACCAACCT
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 6 0.06
65 10 0.10
66 10 0.10
67 64 0.63
68 9 0.09
69 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (67 bp):
AGTTTCCCTTGAAACATGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCG
AT
Found at i:91826 original size:65 final size:65
Alignment explanation
Indices: 91621--91828 Score: 228
Period size: 67 Copynumber: 3.2 Consensus size: 65
91611 AGTTTGAGAC
* ** *
91621 AGTTTCCTTTGAAACAAATTTTGTCTCT-TGAGATAGTTTCTCTTGAAACACAAAATCTTTGCGA
1 AGTTTCCCTTGAAACATGTTTTGTCTCTCTGAGATAGTTTCTCTTGAAACACAAAATCTTTG-TA
91685 T
65 T
*
91686 AGTTT-CCTTTAAA-ATTGTTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTG
1 AGTTTCCCTTGAAACA-TG-TTTTGTCTCTC-TGAGATAGTTTCTCTTGAAACACAAAATCTTTG
91749 TGAT
63 T-AT
* * * *
91753 AGTTTCCCTTGAAACATGTTTTGTCTCTCCTGAGACAG-TTCTCTTGAAGCAC-CAACCTTTGAT
1 AGTTTCCCTTGAAACATGTTTTGTCTCT-CTGAGATAGTTTCTCTTGAAACACAAAATCTTTG-T
91816 AT
64 AT
*
91818 TGTTTCCCTTG
1 AGTTTCCCTTG
91829 GAAGACAGTT
Statistics
Matches: 123, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
63 1 0.01
64 6 0.05
65 34 0.28
66 14 0.11
67 57 0.46
68 10 0.08
69 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (65 bp):
AGTTTCCCTTGAAACATGTTTTGTCTCTCTGAGATAGTTTCTCTTGAAACACAAAATCTTTGTAT
Found at i:92744 original size:129 final size:130
Alignment explanation
Indices: 92196--92866 Score: 739
Period size: 129 Copynumber: 5.1 Consensus size: 130
92186 CAACAGTTTG
* * * * *
92196 CTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCACAGAATGA
1 CTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCGTTCGATTCCATCATAGAAAGA
* * * * **
92261 GGTGGATTGACA-TT-TGTTCGCTCAAATCTATCGCAGAAGGAGTTAGATCATTGTCAACTTTTA
66 GGTGGATCGACATTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTT-
*
92324 G
130 T
* * * * *
92325 CTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGATATCTCGTTTGATACCATCACAGAAAGA
1 CTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCGTTCGATTCCATCATAGAAAGA
* * *
92390 GGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGATTAGCGACAACTTT
66 GGTGGATCGACA--TTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAAC-TT
92455 TTT
128 TTT
* * **
92458 GCTC-ATTTCTTTCACAGAAGGAAGTAGA-CTAGCACCAATATTTCACTCGATTCCATCATAGAA
1 -CTCGA-TTCTATCACAGAAGGAGGTAGATC-AGCACCAATATTTCGTTCGATTCCATCATAGAA
* * *
92521 TGACGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTAGATCAGCGTCAAC
63 AGAGGTGGATCGACA--TTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAAC
92586 TTTTT
126 TTTTT
* * **
92591 GCTC-ATTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTTTATCATAGAAA
1 -CTCGA-TTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCGTTCGATTCCATCATAGAAA
* * * *
92655 GAGGTGGATCGACA-TT-TGTTCGCTCAAATCTATTGCAAAAGGAGTTGGATCAGCGTCAACTTT
64 GAGGTGGATCGACATTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTT
92718 TAT
129 T-T
* * * * * *
92721 CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGATATATCATTCGATTTCATCCTAG-AAGA
1 CTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCGTTCGATTCCATCATAGAAAGA
* * *
92785 GGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCATCTTC
66 GGTGGATCGACA--TTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTT-
*
92850 TTG
128 TTT
92853 CTCGATTC-ATCACA
1 CTCGATTCTATCACA
92867 TATGGAGTTG
Statistics
Matches: 464, Mismatches: 62, Indels: 30
0.83 0.11 0.05
Matches are distributed among these distances:
128 15 0.03
129 163 0.35
130 4 0.01
131 8 0.02
132 50 0.11
133 111 0.24
134 113 0.24
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (130 bp):
CTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCGTTCGATTCCATCATAGAAAGA
GGTGGATCGACATTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTT
Found at i:93481 original size:2 final size:2
Alignment explanation
Indices: 93474--93501 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
93464 TTCGAATCTA
93474 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93502 TTGAGCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94362 original size:28 final size:27
Alignment explanation
Indices: 94307--94369 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
94297 TTTATTTTAA
94307 TTTTATTTTTGGTTGTTTTCTTAATAT
1 TTTTATTTTTGGTTGTTTTCTTAATAT
94334 TTTTATTATTT-GTTGTTTT-TTCAATTAT
1 TTTTATT-TTTGGTTGTTTTCTT-AA-TAT
*
94362 TTTCATTT
1 TTTTATTT
94370 AGTTCATCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.06
27 18 0.56
28 12 0.38
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (27 bp):
TTTTATTTTTGGTTGTTTTCTTAATAT
Found at i:118770 original size:17 final size:18
Alignment explanation
Indices: 118733--118773 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
118723 ATATTATGTA
*
118733 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
118751 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
118768 TTTACT
1 TTTACT
118774 AATATAATTT
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:119787 original size:31 final size:31
Alignment explanation
Indices: 119689--119779 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
119679 CAATTTAAGG
119689 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
119720 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
119751 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
119780 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:119985 original size:21 final size:21
Alignment explanation
Indices: 119959--120000 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
119949 ATTTGAATAT
*
119959 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
119980 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
120001 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:120067 original size:20 final size:22
Alignment explanation
Indices: 120029--120068 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
120019 TTTGAGTATA
120029 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
120051 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
120069 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:120322 original size:34 final size:32
Alignment explanation
Indices: 120283--120352 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
120273 TTTTGTAAAG
* *
120283 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
120317 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
120349 GGGA
1 GGGA
120353 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:126897 original size:21 final size:21
Alignment explanation
Indices: 126871--126926 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
126861 ACGAATAAGT
* *
126871 AAATCGCAATGCGAATTTTGA
1 AAATCGCAACGCGAATTTGGA
126892 AAATCGCAACGCGAATTTGGA
1 AAATCGCAACGCGAATTTGGA
*
126913 AAATTGCAACGCGA
1 AAATCGCAACGCGA
126927 TACTGACTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (21 bp):
AAATCGCAACGCGAATTTGGA
Found at i:127163 original size:22 final size:22
Alignment explanation
Indices: 127135--127178 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
127125 CACTCTCTCA
* *
127135 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
*
127157 CCCATCTCCGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
127179 TATCTCCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:127407 original size:19 final size:19
Alignment explanation
Indices: 127383--127433 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
127373 ATCAACCGAG
127383 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
127402 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
127421 AATCGCAACGCGA
1 AATCGCAACGCGA
127434 TTTTATTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.45, C:0.24, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:127494 original size:20 final size:20
Alignment explanation
Indices: 127445--127503 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
127435 TTTATTCTCT
* **
127445 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
127465 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
127485 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
127504 AGAAACTATT
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:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:127693 original size:26 final size:25
Alignment explanation
Indices: 127637--127693 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
127627 TGTTTATTAT
* *
127637 TGTTTTTTGGTATATCTTCACAGTG
1 TGTTTTTTGGTATATCTTAACAGTA
127662 TAGTTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTTGGTATATCTTAAC--AGTA
127689 TGTTT
1 TGTTT
127694 ATTGTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 4 0.15
26 19 0.70
27 4 0.15
ACGTcount: A:0.19, C:0.09, G:0.18, T:0.54
Consensus pattern (25 bp):
TGTTTTTTGGTATATCTTAACAGTA
Found at i:128839 original size:18 final size:18
Alignment explanation
Indices: 128818--128865 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
128808 TCCACTTCGG
128818 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
128836 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
128854 GAGCCATCACCT
1 GAGCCATCACCT
128866 GATCGACCCA
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:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:129459 original size:19 final size:20
Alignment explanation
Indices: 129405--129471 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
129395 TAGTTTACTT
* *
129405 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
129425 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
129445 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
129464 TCGCAACG
1 TCGCAACG
129472 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:129479 original size:14 final size:14
Alignment explanation
Indices: 129460--129551 Score: 76
Period size: 14 Copynumber: 5.9 Consensus size: 14
129450 ATGCGAAATG
129460 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
129474 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
129493 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
129507 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
129526 AAAATCGCAACGAC
1 AAAATCGCAACGAC
129540 AAAATCGCAACG
1 AAAATCGCAACG
129552 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 32 0.50
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.31
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:129486 original size:33 final size:33
Alignment explanation
Indices: 129444--129568 Score: 241
Period size: 33 Copynumber: 3.8 Consensus size: 33
129434 GGAAATGGCT
129444 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
129477 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
129510 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
129543 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
129569 TGCGATTTGT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:129498 original size:19 final size:19
Alignment explanation
Indices: 129444--129573 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
129434 GGAAATGGCT
129444 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
129463 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
129477 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
129496 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
129510 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
129529 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
129543 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
129562 ATCGCAATGCGA
1 ATCGCAATGCGA
129574 TTTGTGTTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 30
0.71 0.06 0.24
Matches are distributed among these distances:
14 30 0.34
15 3 0.03
16 6 0.07
17 6 0.07
18 3 0.03
19 41 0.46
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:129617 original size:33 final size:33
Alignment explanation
Indices: 129580--129659 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
129570 GCGATTTGTG
* *
129580 TTTCGCGTTGCGCTTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
*
129613 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
129646 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
129660 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
Found at i:129623 original size:19 final size:19
Alignment explanation
Indices: 129599--129659 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
129589 GCGCTTTTGT
129599 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
129618 CATTGCGA-TTT--TGTCG
1 CATTGCGATTTTCATTTCG
129634 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
129651 CATTGCGAT
1 CATTGCGAT
129660 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 6 0.17
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 15 0.43
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:129678 original size:20 final size:20
Alignment explanation
Indices: 129632--129738 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 20
129622 GCGATTTTGT
**
129632 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
129651 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTTCG
129671 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
129691 TGTTGTGAAAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
129711 CGTTGCGAAAGTAAGTTTCG
1 CGTTGCGATAGTCATTTTCG
*
129731 TGTTGCGA
1 CGTTGCGA
129739 AAGTAAACTA
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
19 10 0.14
20 61 0.86
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:129707 original size:40 final size:40
Alignment explanation
Indices: 129653--129742 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
129643 TCATTTCGCA
* * * * *
129653 TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCGTG
1 TTGCGAAAGTCATTTCCGCGTTGCGAAAGTAAGTTTCGTG
* *
129693 TTGTGAAAGTCATTTTCGCGTTGCGAAAGTAAGTTTCGTG
1 TTGCGAAAGTCATTTCCGCGTTGCGAAAGTAAGTTTCGTG
129733 TTGCGAAAGT
1 TTGCGAAAGT
129743 AAACTATTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (40 bp):
TTGCGAAAGTCATTTCCGCGTTGCGAAAGTAAGTTTCGTG
Found at i:130139 original size:21 final size:20
Alignment explanation
Indices: 130087--130147 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
130077 GACTCACCTG
130087 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGTCCCCT
* ** *
130107 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
130128 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
130148 CACCGTTCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:130172 original size:39 final size:42
Alignment explanation
Indices: 130084--130172 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 42
130074 CCCGACTCAC
* *
130084 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
*
130126 CTATCATCCCTCAAGAGT-CCC-CC-ACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
130165 CTGTCATC
1 CTGTCATC
130173 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 21 0.49
40 2 0.05
41 3 0.07
42 17 0.40
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Done.