Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001058.1 Hibiscus syriacus cultivar Beakdansim tig00002093_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: 100167
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Found at i:3359 original size:21 final size:21
Alignment explanation
Indices: 3334--3390 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
3324 TACCAAGGAA
*
3334 GAGAATACCATTCATAAAGAC
1 GAGAAGACCATTCATAAAGAC
3355 GAGAAGACCATTCATAAAGAC
1 GAGAAGACCATTCATAAAGAC
3376 GAGAAGACCACTTCA
1 GAGAAGACCA-TTCA
3391 CATGGGGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 30 0.88
22 4 0.12
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.16
Consensus pattern (21 bp):
GAGAAGACCATTCATAAAGAC
Found at i:8397 original size:36 final size:36
Alignment explanation
Indices: 8357--8474 Score: 175
Period size: 36 Copynumber: 3.2 Consensus size: 36
8347 AAAGTCAATT
*
8357 TTAAGCCTTCACCAAAGAGTAGTGAAGCAAA-CTATC
1 TTAAGCCTTCACCGAAGAGTAGTGAAGCAAATC-ATC
*
8393 TTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATC
1 TTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCATC
* *
8429 TTAAGCCTTTACCGAAGAGGAGTGAAGCAAATCATC
1 TTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCATC
8465 TATAAGCCTT
1 T-TAAGCCTT
8475 TAGAGAAAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
36 66 0.88
37 9 0.12
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (36 bp):
TTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCATC
Found at i:8686 original size:42 final size:41
Alignment explanation
Indices: 8620--8721 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
8610 TTCACAATTT
* * * * *
8620 ATAAGTCCTTCGTGCCAT-TAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCT-GTAAGCCTTTAGAGCAAGATG
* *
8661 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
*
8703 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
8722 CATAAGACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 16 0.33
42 32 0.65
43 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
Found at i:8907 original size:201 final size:207
Alignment explanation
Indices: 8460--9562 Score: 1479
Period size: 213 Copynumber: 5.2 Consensus size: 207
8450 GTGAAGCAAA
* * *
8460 TCATCTATAAGCCTTTAGAGAAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
8525 ATGTTTTCACATGAATTTGAAAGTGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
66 ATGTTTTCACATGAATTT---A-T---AGAAA-GA-GTTTTAAGAAGATGAAATTTTTGAAAACT
* * * *
8590 AATAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGTGCCATTAGTAAGTCTTTCGAGC
122 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
8655 ATGATGCTTAAATCCTTCGGG
187 ATGATGCTTAAATCCTTCGGG
*
8676 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
* *
8741 ATGTTTTCATATGAA-TT-T-G-AA-A-TTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCA
66 ATGTTTTCACATGAATTTATAGAAAGAGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCG
* * *
8800 ATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATTAGTAAGACTTTTGAGCATGATGCTT
131 ATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTT
8865 AAATCCTTCGGG
196 AAATCCTTCGGG
* * *
8877 TCATTTGTAAGCCTTTAGAGTAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
8942 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTT----AT-AGAAA-GA-GTTTTAAGAAGATGAAATTTTTGAAAACTAA
*
9007 GAATGCGA-TTTCAAAATTTCACAA-TTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
124 GAATGCGATTTTCAAAATTTCACAATTTA-TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
9070 TGATGCTTAAATCATTCGGG
188 TGATGCTTAAATCCTTCGGG
* * *
9090 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCAGGTCATCCATAAGATCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
9155 ATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTT----AT-AG-AAA-GA-GTTTTAAGAAGATGAAATTTTTGAAAACTA
* ** *
9220 AGAATGCGATTTTCAAAA--TCACAATTTATAAGTCCTTCGGGCCACCAGTAAGTCTTTTAACCA
123 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
9283 TGATGTTTAAATCCTTCGGG
188 TGATGCTTAAATCCTTCGGG
* * * *
9303 TCATCCGTAAACCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCAGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
9368 ATGTTTTCACATGAATTTGAAAATAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAGCTAA
66 ATGTTTTCACATGAATTT----ATAG-AAA-GA-GTTTTAAGAAGATGAAATTTTTGAAAACTAA
* ** * *
9433 GAATGTGATTTTCAAAATTTTGCAATTTATAAGTCATTCGGGCCATCAATAAGTCTTTCGAGCAT
124 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
9498 GATGCTTAAATCCTTCGGG
189 GATGCTTAAATCCTTCGGG
* *
9517 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGACCATC
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
9563 AGTAAGTCTT
Statistics
Matches: 806, Mismatches: 62, Indels: 40
0.89 0.07 0.04
Matches are distributed among these distances:
201 183 0.23
202 2 0.00
203 1 0.00
205 2 0.00
207 1 0.00
210 3 0.00
212 60 0.07
213 285 0.35
214 184 0.23
215 10 0.01
216 75 0.09
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (207 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
ATGTTTTCACATGAATTTATAGAAAGAGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCG
ATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTT
AAATCCTTCGGG
Found at i:9538 original size:42 final size:41
Alignment explanation
Indices: 9482--9614 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 41
9472 GGGCCATCAA
* *
9482 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTG
1 TAAGCCTTTCGAGCATGATG-TTAAATCCTTTGGGTCATCTG
* * * * ** *
9524 TAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGACCATCAG
1 TAAGCCTTTCGAGCATGATGTTAAATCCTTTGGGTCATCTG
* * * *
9565 TAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTA
1 TAAGCCTTTCGAGCATGATG-TTAAATCCTTTGGGTCATCTG
9607 TAAGCCTT
1 TAAGCCTT
9615 CACAGAAGAG
Statistics
Matches: 69, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
41 32 0.46
42 37 0.54
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (41 bp):
TAAGCCTTTCGAGCATGATGTTAAATCCTTTGGGTCATCTG
Found at i:9568 original size:41 final size:42
Alignment explanation
Indices: 9475--9598 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 42
9465 GTCATTCGGG
* * * * * * *
9475 CCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
1 CCATCAGTAAGCCTTTAGAGCAAGATGATTAAATCCTTTGGA
* * *
9517 TCATCTGTAAGCCTTTAGAGCAAGATGA-TAAGTCCTTTGGA
1 CCATCAGTAAGCCTTTAGAGCAAGATGATTAAATCCTTTGGA
* * *
9558 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGG
1 CCATCAGTAAGCCTTTAGAGCAAGATGATTAAATCCTTTGG
9599 GTAATTTATA
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
41 33 0.51
42 32 0.49
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
CCATCAGTAAGCCTTTAGAGCAAGATGATTAAATCCTTTGGA
Found at i:9611 original size:83 final size:83
Alignment explanation
Indices: 9461--9614 Score: 227
Period size: 83 Copynumber: 1.9 Consensus size: 83
9451 TTTGCAATTT
* * * *
9461 ATAAGTCATTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCATTCGGACCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATA
9526 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* * * * *
9544 ATAAGTCCTTTGGACCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTATA
1 ATAAGTCATTCGGACCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATA
9609 AGCCTT
66 AGCCTT
9615 CACAGAAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (83 bp):
ATAAGTCATTCGGACCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATA
AGCCTTTAGAGCAAGATG
Found at i:10753 original size:21 final size:21
Alignment explanation
Indices: 10723--10964 Score: 216
Period size: 21 Copynumber: 11.6 Consensus size: 21
10713 GATTTACATA
*
10723 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10744 CTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10765 TTCGCGTTGCGATTTAATCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
10788 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10807 TT--CATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10826 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
10849 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10868 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
10891 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
10910 TTCGCGTTGCGATTTATTTCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
10933 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
10952 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
10965 TTATTCCAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
19 52 0.29
21 93 0.52
23 33 0.19
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:10775 original size:42 final size:41
Alignment explanation
Indices: 10729--10992 Score: 320
Period size: 42 Copynumber: 6.3 Consensus size: 41
10719 CATATTCGCA
* * * *
10729 TTGCGATAGTCCAAGCTCGCGTTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATT--CG
* * * * *
10771 TTGCGATTTAATCCAAATT--CGTTGCGA-TAGTCCAAGTTCA
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTATTCCAAATTCG
*
10811 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
10853 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
*
10895 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
10937 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
*
10979 TTGTGATAGTCCAA
1 TTGCGATAGTCCAA
10993 AATCGCAACG
Statistics
Matches: 201, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 8 0.04
40 15 0.07
42 170 0.85
44 8 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (41 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATTCG
Found at i:10980 original size:21 final size:19
Alignment explanation
Indices: 10729--10993 Score: 170
Period size: 21 Copynumber: 12.8 Consensus size: 19
10719 CATATTCGCA
* *
10729 TTGCGATAGTCCAAGCTCGCG
1 TTGCGATAGTCCAA-AT-TCG
* *
10750 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
*
10771 TTGCGATTTAATCCAAATTCG
1 TTGCGA--TAGTCCAAATTCG
* *
10792 TTGCGATAGTCCAAGTTCA
1 TTGCGATAGTCCAAATTCG
* *
10811 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
*
10832 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAATTCG
*
10853 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
*
10874 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAATTCG
*
10895 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
* *
10916 TTGCGATTTATTTCAAATTCG
1 TTGCGA--TAGTCCAAATTCG
*
10937 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
*
10958 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAATTCG
*
10979 TTGTGATAGTCCAAA
1 TTGCGATAGTCCAAA
10994 ATCGCAACGA
Statistics
Matches: 194, Mismatches: 30, Indels: 42
0.73 0.11 0.16
Matches are distributed among these distances:
19 60 0.31
20 1 0.01
21 91 0.47
23 42 0.22
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (19 bp):
TTGCGATAGTCCAAATTCG
Found at i:16982 original size:17 final size:17
Alignment explanation
Indices: 16960--16993 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16950 GGCTGAGAGG
*
16960 TCATCTTTAGGTATTTA
1 TCATCTTTAGGGATTTA
16977 TCATCTTTAGGGATTTA
1 TCATCTTTAGGGATTTA
16994 AGTTACTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (17 bp):
TCATCTTTAGGGATTTA
Found at i:18741 original size:182 final size:181
Alignment explanation
Indices: 18434--18925 Score: 738
Period size: 182 Copynumber: 2.7 Consensus size: 181
18424 TGTCGGTTTA
* *
18434 TGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAACATGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
*
18499 GTCTCGAAAATACAAAACCGGTAA-AGCAGTACCAGATATATTGAAAGTGTCGATACTTTAATAT
66 GTCTCGAAAAGACAAAACCGGTAAGAGC-G-ACCAGATATATTGAAAGTGTCGATACTTTAATAT
*
18563 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
129 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
* *
18616 TGTCGATACTTTATAACAATGTATCAATCCACAACGATATAACATGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
* * * *
18681 GTCTCTAAAGGACAAAACCAGTATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAAGACAAAACCGGTA-AGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
18746 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCTTATACAG
130 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
* * *
18798 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACA-GATAAAAATATAACAAAACT
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATG-TAAAAATATGACAAAACC
* * * *
18862 GGTCTCGAAATGACAAAACCGGTAA-AGCACTACCGGATATATTGAAAGTGTAGATACTTTAATA
65 GGTCTCGAAAAGACAAAACCGGTAAGAG--CGACCAGATATATTGAAAGTGTCGATACTTTAATA
18926 AGTATGCGTA
Statistics
Matches: 281, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
180 2 0.01
181 2 0.01
182 272 0.97
183 2 0.01
184 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (181 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
GTCTCGAAAAGACAAAACCGGTAAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATAA
GTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
Found at i:20934 original size:19 final size:22
Alignment explanation
Indices: 20886--20940 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
20876 GTTTTTGTTT
20886 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
20909 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
20929 TTTTATTATAAA
1 TTTTA-TATAAA
20941 TACAGGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:21237 original size:15 final size:15
Alignment explanation
Indices: 21217--21247 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21207 TGGTTGTATT
21217 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
*
21232 GGGGGATGATGGTGA
1 GGGGGATGACGGTGA
21247 G
1 G
21248 AGAAAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.61, T:0.16
Consensus pattern (15 bp):
GGGGGATGACGGTGA
Found at i:21434 original size:33 final size:33
Alignment explanation
Indices: 21392--21454 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
21382 AGATGGATTT
*
21392 GTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGTG
1 GTGAAAGAAGTTGAGGTGATGAGGGGTGAAGTG
21425 GTGAAAGAAGTTGAGGTGATGAGGGGTGAA
1 GTGAAAGAAGTTGAGGTGATGAGGGGTGAA
21455 CTTAAGATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (33 bp):
GTGAAAGAAGTTGAGGTGATGAGGGGTGAAGTG
Found at i:21622 original size:18 final size:18
Alignment explanation
Indices: 21597--21653 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
21587 AAAAAAATAT
21597 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
21615 GGAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
21633 GAAGAAGAAAAGATAGAG
1 GAAGAAGAAAAGATGGAG
21651 GAA
1 GAA
21654 ATGATGAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:22524 original size:19 final size:19
Alignment explanation
Indices: 22500--22545 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
22490 AATGTAGGGT
22500 TAATTTTGTT-TAAGATTTA
1 TAATTTT-TTATAAGATTTA
*
22519 TAATTTTTTATACGATTTA
1 TAATTTTTTATAAGATTTA
22538 TAATTTTT
1 TAATTTTT
22546 GTATGTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (19 bp):
TAATTTTTTATAAGATTTA
Found at i:23255 original size:200 final size:200
Alignment explanation
Indices: 22900--23304 Score: 578
Period size: 200 Copynumber: 2.0 Consensus size: 200
22890 GTAAGCAGAT
22900 GTGTCGAAACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
1 GTGTCGAAACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
** ** * * * * *
22965 GGTACTTTTGTAATATAACCAGTATAAATATACTGGTTTTATGTGAGAATATGTCTATATAATGT
66 GGTAAATTTACAATATAAACAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
23030 ATCGAAACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGA-ACG
131 ATCGAAACTTATGAAATTGGTGTCGATACTGTTTGTCCAGAAAGAATGCCCAAAAGGGT-ACACC
23094 CATAAA
195 CATAAA
* * *
23100 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGAAACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
* ** *
23165 GGTAAATTTACAATGTAAATGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
66 GGTAAATTTACAATATAAACAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
23230 ATCGACACTTATGGAATTTGTGTCGATACTGTTTGTCCAGAAAGAATGCCCAAAAGGGTACACCC
131 ATCGAAACTTATGAAATTGGTGTCGATACTGTTTGTCCAGAAAGAATGCCCAAAAGGGTACACCC
23295 ATAAA
196 ATAAA
23300 GTGTC
1 GTGTC
23305 AATCCCAGAG
Statistics
Matches: 180, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
199 1 0.01
200 179 0.99
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
GTGTCGAAACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
GGTAAATTTACAATATAAACAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGAAACTTATGAAATTGGTGTCGATACTGTTTGTCCAGAAAGAATGCCCAAAAGGGTACACCC
ATAAA
Found at i:24954 original size:6 final size:6
Alignment explanation
Indices: 24914--24963 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
24904 CAAGAGGTCA
* * * * *
24914 ATGAAG ATGAAG ATGACG ATGAAG ATGATG ATGATG ATGATT ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
24962 AT
1 AT
24964 TCAAACAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (6 bp):
ATGATG
Found at i:25678 original size:44 final size:44
Alignment explanation
Indices: 25629--25716 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
25619 TAAACAGGTG
25629 TTCATACATTGATTGATTAACAATTTATATGTTTATATAGAAAT
1 TTCATACATTGATTGATTAACAATTTATATGTTTATATAGAAAT
25673 TTCATACATTGATTGATTAACAATTTATATGTTTATATAGAAAT
1 TTCATACATTGATTGATTAACAATTTATATGTTTATATAGAAAT
25717 ACAATTACGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (44 bp):
TTCATACATTGATTGATTAACAATTTATATGTTTATATAGAAAT
Found at i:26291 original size:24 final size:24
Alignment explanation
Indices: 26264--26311 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
26254 TTTCATATGT
* *
26264 AATTGGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTCAATATAAATTTC
*
26288 AATTTGAGTTTCAATATAAATTTC
1 AATTGGAGTTTCAATATAAATTTC
26312 GGCTCCACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (24 bp):
AATTGGAGTTTCAATATAAATTTC
Found at i:27948 original size:200 final size:199
Alignment explanation
Indices: 27605--28572 Score: 1182
Period size: 200 Copynumber: 4.8 Consensus size: 199
27595 TAAAGTTTCC
* * * *
27605 CATAAAGTGTCGATACATTTTTAAAAAGTATCAATCCCAAAAATATCGAAACCAAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * * * * * *
27670 ATAGTAGGTAAATTTACAATGT-ATCCGGTATAAATATACCGGTTTTTTGAGAAAATAGATATAC
66 GTAATAGGTAAATTTACAATGTAAT-CGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTAC
* *
27734 ATAATGTATCGACACTTGTGGAATTTGTGCCGATACTTTTTGTCACA-AATGAATGACAAACGTG
130 ATAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTC-CAGAATGAATGCCAAACGTG
*
27798 GTGGACG
193 GTGCACG
27805 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * ** * * * *
27870 GTAATATGTAATTTTGTAATATAATTGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATGTAATCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACA
* * *
27935 TAATGTGTCGACACTTTTGAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA-ATGG
131 TAATGTATCGACACTTTGGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAACGTGG
*
27999 TGAACG
194 TGCACG
* ** * *
28005 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCATAGAAACATCGAAACTCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
28070 GTAATAGGTAAATTTACAATGTAACCGGTA-AAACTATACCGGTTTTATGAGAGAATAGGTCTAC
66 GTAATAGGTAAATTTACAATGTAATCGGTATAAA-TATACTGGTTTTATGAGAGAATAGGTCTAC
* * * *
28134 ATAATGTATCGACACTTGTGGAATTCGTGTCGATATTTTTTGTCCAAAATGAATGCCAAAAG-GG
130 ATAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGG
28198 TTGCACG
194 -TGCACG
**
28205 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * * * **
28270 GTAATAAGTAAATTTACAATGTAACCGGTATAAATATA-TCGGTTTTATGAGAAAATAAGTGAAC
66 GTAATAGGTAAATTTACAATGTAATCGGTATAAATATACT-GGTTTTATGAGAGAATAGGTCTAC
* * * * *
28334 ATAATGTATCGACACGTTT-TAGATTTTTGTCGGTA-TATTTTGTCCAGAATGAATGCGAAACGG
130 ATAATGTATCGACAC-TTTGGA-ATTTGTGTCGATACT-TTTTGTCCAGAATGAATGCCAAACGT
*
28397 GGTGCAGG
192 GGTGCACG
* * ** * * *
28405 CATAAAGTTTCGATACA-TTTGAAATTGTATTGATCCCAAAAACATCGAAACCGATAATTATAAC
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
28469 GTAATAGGTAAATTTACAATGTAATCGGTATAAATATA-TCAGTTTTATGAGAGAATAGGTCAAC
66 GTAATAGGTAAATTTACAATGTAATCGGTATAAATATACT-GGTTTTATGAGAGAATAGGTCTAC
* **
28533 ATAATGTATCAACACTTTTAAATTTGTGTCGATACTTTTT
130 ATAATGTATCGACACTTTGGAATTTGTGTCGATACTTTTT
28573 AAATAACACG
Statistics
Matches: 669, Mismatches: 83, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
198 18 0.03
199 133 0.20
200 501 0.75
201 17 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
GTAATAGGTAAATTTACAATGTAATCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACA
TAATGTATCGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGGTG
CACG
Found at i:30197 original size:19 final size:19
Alignment explanation
Indices: 30173--30221 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
30163 AATGTAGGGT
30173 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
** *
30192 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
30211 TAATTTTGTAT
1 TAATTTTGTAT
30222 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:33043 original size:201 final size:200
Alignment explanation
Indices: 32688--33388 Score: 847
Period size: 199 Copynumber: 3.5 Consensus size: 200
32678 ACCTAAAAAT
* *
32688 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAAACATCGAAATCGATAATTATAATGTAA
* * * * * * * * *
32751 GAGGTAAATTAACAATGTAACCGGTATAAATATGCCAG-TTAATTAGAAAACATGTCAACATTAT
65 TAGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTC-ACATAAT
* ** *
32815 GTATCGACACCTGTGGAATTGTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGC
129 GTATCGACACTTGTTAAATT-TGTGTCGATACTT-TTGTCCAAAATGAATGCCCAAACGAGGTGC
32880 ACGCATAAA
192 ACGCATAAA
* *
32889 GTGTCGATACATTTATTAAACGTATCGATCCCAATAAA-ATCGAAA-CTGATAATTATAATGTAA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAATC-GATAATTATAATGTAA
* *
32952 TATGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTCAGCATAAA
65 TAGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTCA-CATAAT
*
33017 GTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATG-CCAAACG-GGTGCA
129 GTATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCCAAACGAGGTGCA
*
33080 TGCATAAA
193 CGCATAAA
* * *
33088 ATGTCGATACATTTATTAAAAGTATCGATCCC-AAAAACATCGAAATCGATAATTACAATGTGAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAATCGATAATTATAATGTAAT
* *
33152 AGGTAAATTTACAATGT-ACCTGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTAAATAAT
66 AGGTAAATTTACAATGTAACC-GATATAAATATACCAGTTTTATGAGAAAATAGGTC-ACATAAT
* * * * * *
33216 GTATCAACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAAAATGAATGCCC-AACGATGAGCAC
129 GTATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCCAAACGAGGTGCAC
33280 GCATAAA
194 GCATAAA
** *
33287 GTGTCGATACATTTCA--AATTGTATCGAT-CCAAAAAA-ATTGAAATCGATAATTATAATGTAA
1 GTGTCGATACATTT-ATTAAAAGTATCGATCCCAAAAAACATCGAAATCGATAATTATAATGTAA
* * * *
33348 TAGCTAAATTTGCAATGTTAA-CGGTATAAATATACCGGTTT
65 TAGGTAAATTTACAATG-TAACCGATATAAATATACCAGTTT
33389 ACTTATAAAA
Statistics
Matches: 437, Mismatches: 47, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
197 55 0.13
198 44 0.10
199 174 0.40
200 11 0.03
201 107 0.24
202 46 0.11
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAATCGATAATTATAATGTAAT
AGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTCACATAATGT
ATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCCAAACGAGGTGCACGC
ATAAA
Found at i:33432 original size:23 final size:23
Alignment explanation
Indices: 33406--33467 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
33396 AAATATGTCA
* *
33406 ATATAAGCGTTATCTATTACATT
1 ATATAAGCGCTACCTATTACATT
33429 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
33452 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
33468 ATATGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:33518 original size:87 final size:87
Alignment explanation
Indices: 33426--33591 Score: 323
Period size: 87 Copynumber: 1.9 Consensus size: 87
33416 TATCTATTAC
33426 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
33491 TTTCCAGTTAAATGCCTATTTT
66 TTTCCAGTTAAATGCCTATTTT
33513 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
*
33578 TTTCCGGTTAAATG
66 TTTCCAGTTAAATG
33592 ATATAACATA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (87 bp):
ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
TTTCCAGTTAAATGCCTATTTT
Found at i:33563 original size:23 final size:23
Alignment explanation
Indices: 33513--33557 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
33503 TGCCTATTTT
*
33513 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
33536 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
33558 TGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:36710 original size:33 final size:33
Alignment explanation
Indices: 36673--36737 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
36663 GATTCCTTTA
36673 TTGAAATTCAGTGCTGTAAATACTATTGTCTTG
1 TTGAAATTCAGTGCTGTAAATACTATTGTCTTG
36706 TTGAAATTCAGTGCTGTAAATACTATTGTCTT
1 TTGAAATTCAGTGCTGTAAATACTATTGTCTT
36738 CTTATGGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (33 bp):
TTGAAATTCAGTGCTGTAAATACTATTGTCTTG
Found at i:42398 original size:64 final size:63
Alignment explanation
Indices: 42295--42427 Score: 187
Period size: 64 Copynumber: 2.1 Consensus size: 63
42285 CTTGAAATTT
* * * *
42295 TAAGCTTGTGAGATTTCAAGTCGGATATCAAGTAGCTTGTGGGCCTTTTTTTAGAAAAAAAATA
1 TAAGCTTGTGAGATTTCAAGTCAGATATCAAGTAACTTGTGCGCATTTTTTTAG-AAAAAAATA
* *
42359 TAAGCTTGTGAGCTTTCGAA-TCATATATCAAGTAACTTGTGCGCATTTTTTTAGAAAAAAATA
1 TAAGCTTGTGAGATTTC-AAGTCAGATATCAAGTAACTTGTGCGCATTTTTTTAGAAAAAAATA
42422 TAAGCT
1 TAAGCT
42428 CATGAGGTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
63 15 0.24
64 45 0.73
65 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (63 bp):
TAAGCTTGTGAGATTTCAAGTCAGATATCAAGTAACTTGTGCGCATTTTTTTAGAAAAAAATA
Found at i:42661 original size:21 final size:21
Alignment explanation
Indices: 42635--42679 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
42625 AAAGTATGTA
42635 TTTAGTACATAAACTATCAAT
1 TTTAGTACATAAACTATCAAT
* * *
42656 TTTAGTACCTAAAGTTTCAAT
1 TTTAGTACATAAACTATCAAT
42677 TTT
1 TTT
42680 TTTAGAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTAGTACATAAACTATCAAT
Found at i:57865 original size:21 final size:22
Alignment explanation
Indices: 57839--57885 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
57829 ATACATGTGG
57839 TATGTGA-CAGAAGAG-AATAAA
1 TATGTGATCAGAAGAGCAAT-AA
*
57860 TATGTGATCATAAGAGCAATAA
1 TATGTGATCAGAAGAGCAATAA
57882 TATG
1 TATG
57886 ACTCACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (22 bp):
TATGTGATCAGAAGAGCAATAA
Found at i:57999 original size:32 final size:31
Alignment explanation
Indices: 57958--58105 Score: 179
Period size: 32 Copynumber: 4.9 Consensus size: 31
57948 TAGTCGAGGG
57958 TTACCTATG-TCTTTCGGGACATATGGACAGGA
1 TTACCTATGTTC-TTCGGGACATATGGACA-GA
57990 TTACCTATGTTCTTCGGGAC--AT-----GA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
58014 TTACCTATGTTCTTCGGGACATATAGACAGGA
1 TTACCTATGTTCTTCGGGACATATGGACA-GA
58046 TTACCTATGTTCTTCGGGACATATGGACA-A
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
58076 TTTACCTATGTTCTTTGGGACATATGGACA
1 -TTACCTATGTTCTTCGGGACATATGGACA
58106 ATTTATTAAA
Statistics
Matches: 104, Mismatches: 2, Indels: 21
0.82 0.02 0.17
Matches are distributed among these distances:
24 22 0.21
26 2 0.02
30 3 0.03
31 28 0.27
32 47 0.45
33 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:58015 original size:24 final size:24
Alignment explanation
Indices: 57982--58035 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
57972 CGGGACATAT
*
57982 GGACAGGATTACCTATGTTCTTCG
1 GGACATGATTACCTATGTTCTTCG
58006 GGACATGATTACCTATGTTCTTCG
1 GGACATGATTACCTATGTTCTTCG
58030 GGACAT
1 GGACAT
58036 ATAGACAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (24 bp):
GGACATGATTACCTATGTTCTTCG
Found at i:58020 original size:56 final size:56
Alignment explanation
Indices: 57958--58067 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
57948 TAGTCGAGGG
*
57958 TTACCTATG-TCTTTCGGGACATATGGACAGGATTACCTATGTTCTTCGGGACATGA
1 TTACCTATGTTC-TTCGGGACATATAGACAGGATTACCTATGTTCTTCGGGACATGA
58014 TTACCTATGTTCTTCGGGACATATAGACAGGATTACCTATGTTCTTCGGGACAT
1 TTACCTATGTTCTTCGGGACATATAGACAGGATTACCTATGTTCTTCGGGACAT
58068 ATGGACAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
56 50 0.96
57 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (56 bp):
TTACCTATGTTCTTCGGGACATATAGACAGGATTACCTATGTTCTTCGGGACATGA
Found at i:58084 original size:31 final size:31
Alignment explanation
Indices: 58014--58110 Score: 151
Period size: 31 Copynumber: 3.1 Consensus size: 31
58004 CGGGACATGA
*
58014 TTACCTATGTTCTTCGGGACATATAGACAGGA-
1 TTACCTATGTTCTTCGGGACATATGGACA--AT
58046 TTACCTATGTTCTTCGGGACATATGGACAAT
1 TTACCTATGTTCTTCGGGACATATGGACAAT
*
58077 TTACCTATGTTCTTTGGGACATATGGACAAT
1 TTACCTATGTTCTTCGGGACATATGGACAAT
58108 TTA
1 TTA
58111 TTAAACGAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
30 1 0.02
31 33 0.53
32 28 0.45
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAAT
Found at i:58898 original size:21 final size:21
Alignment explanation
Indices: 58872--58923 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
58862 CTGTAGTAGA
58872 GTATCGATACACCATAGCAGG
1 GTATCGATACACCATAGCAGG
58893 GTATCGATACACCATAGCAGG
1 GTATCGATACACCATAGCAGG
58914 GTATCGATAC
1 GTATCGATAC
58924 CCCTGTAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (21 bp):
GTATCGATACACCATAGCAGG
Found at i:61116 original size:14 final size:15
Alignment explanation
Indices: 61082--61118 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
61072 TGGTTTCAGT
61082 AAAGC-GTACCCTAA
1 AAAGCGGTACCCTAA
61096 AAAGCGGTA-CCTAA
1 AAAGCGGTACCCTAA
61110 AAAGCGGTA
1 AAAGCGGTA
61119 AAATAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (15 bp):
AAAGCGGTACCCTAA
Found at i:61468 original size:14 final size:14
Alignment explanation
Indices: 61449--61478 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61439 TTAGATTTTT
*
61449 TTAAAATTACATTA
1 TTAAAAATACATTA
61463 TTAAAAATACATTA
1 TTAAAAATACATTA
61477 TT
1 TT
61479 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:61632 original size:7 final size:7
Alignment explanation
Indices: 61620--61649 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
61610 ATTTGTAATG
61620 AACCTTA
1 AACCTTA
61627 AACCTTA
1 AACCTTA
61634 AACCTTA
1 AACCTTA
61641 AACCTTA
1 AACCTTA
61648 AA
1 AA
61650 TCCTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
AACCTTA
Found at i:65411 original size:2 final size:2
Alignment explanation
Indices: 65404--65430 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65394 CCATTAAAAT
65404 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
65431 TTAATCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68330 original size:13 final size:13
Alignment explanation
Indices: 68312--68347 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
68302 TGACCCATTC
68312 TATTTTTATTTTA
1 TATTTTTATTTTA
*
68325 TATTTTTATATTA
1 TATTTTTATTTTA
*
68338 TATTTATATT
1 TATTTTTATT
68348 GAATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTTATTTTA
Found at i:69223 original size:61 final size:60
Alignment explanation
Indices: 69126--69274 Score: 172
Period size: 61 Copynumber: 2.5 Consensus size: 60
69116 TGAATTTGAG
* ** * ** * *
69126 GATGAAATTAAAATCTTCAAAAGTTTGGGGACTAATTTAGAAAGAGGTTTATAGTTTATG
1 GATGAAATTAAAATATTCAAAAGTTTAAGAACTAATTTAGAAAGAGAATCATAGTTTATA
* * * *
69186 GGTGAAATTAGAATATTCAAAAAGTTTAAGAACTAATTTAGAATGAGAATCATAGTTTGTA
1 GATGAAATTAAAATATTC-AAAAGTTTAAGAACTAATTTAGAAAGAGAATCATAGTTTATA
*
69247 GATGAATTTAAAATATTCAAAAGTTTAA
1 GATGAAATTAAAATATTCAAAAGTTTAA
69275 TGACCATTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 25 0.34
61 48 0.66
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (60 bp):
GATGAAATTAAAATATTCAAAAGTTTAAGAACTAATTTAGAAAGAGAATCATAGTTTATA
Found at i:71662 original size:2 final size:2
Alignment explanation
Indices: 71655--71687 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
71645 TAGCCCTTAT
71655 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71688 TTAATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71713 original size:23 final size:23
Alignment explanation
Indices: 71685--71731 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
71675 TATATATATA
71685 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
71708 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
71731 T
1 T
71732 TTCTTTACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:71986 original size:18 final size:18
Alignment explanation
Indices: 71965--72009 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
71955 TAGTATTTTA
71965 TTATATTATACATACATT
1 TTATATTATACATACATT
* * *
71983 TTATATTTTATATATATT
1 TTATATTATACATACATT
*
72001 TTTTATTAT
1 TTATATTAT
72010 TTTATTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATATTATACATACATT
Found at i:72005 original size:41 final size:43
Alignment explanation
Indices: 71960--72046 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 43
71950 CTATTTAGTA
71960 TTTTATTATATTATACATAC-ATTT-TATATTTT-ATATATATT
1 TTTTATTATATTATACATACTATTTATATATTTTCAT-TATATT
* ** *
72001 TTTTATTATTTTATTTATACTATTTATTTATTTTCATTATATT
1 TTTTATTATATTATACATACTATTTATATATTTTCATTATATT
72044 TTT
1 TTT
72047 AGTTTCTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 17 0.44
42 4 0.10
43 16 0.41
44 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (43 bp):
TTTTATTATATTATACATACTATTTATATATTTTCATTATATT
Found at i:72026 original size:21 final size:21
Alignment explanation
Indices: 71986--72034 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
71976 ATACATTTTA
* *
71986 TATTTTATATATATTTTTTAT
1 TATTTTATATATACTATTTAT
*
72007 TATTTTATTTATACTATTTATT
1 TATTTTATATATACTATTTA-T
72029 TATTTT
1 TATTTT
72035 CATTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTTATATATACTATTTAT
Found at i:72043 original size:28 final size:26
Alignment explanation
Indices: 71983--72045 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
71973 TACATACATT
*
71983 TTATATTTTATATATATTTTTTATTA
1 TTATATTTTATATATATTTTTTATCA
* *
72009 TTTTATTTATACTATTTATTTATTT-TCA
1 TTATATTT-TA-TATATATTT-TTTATCA
72037 TTATATTTT
1 TTATATTTT
72046 TAGTTTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
26 7 0.23
27 3 0.10
28 17 0.57
29 3 0.10
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (26 bp):
TTATATTTTATATATATTTTTTATCA
Found at i:72047 original size:21 final size:21
Alignment explanation
Indices: 71986--72047 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
71976 ATACATTTTA
71986 TATTTTATATATATTTTT-TAT
1 TATTTTAT-TATATTTTTATAT
*
72007 TATTTTATTTATACTATTTAT-T
1 TATTTTA-TTATA-TTTTTATAT
72029 TATTTTCATTATATTTTTA
1 TATTTT-ATTATATTTTTA
72048 GTTTCTTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 16 0.46
22 17 0.49
23 2 0.06
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTTATTATATTTTTATAT
Found at i:76499 original size:31 final size:28
Alignment explanation
Indices: 76459--76527 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
76449 AGATTCAATC
*
76459 AGAACAAAAAGGGAA-AAAACAAAAAAGAAA
1 AGAACAAAAA-AGAAGAAAAC-AAAAA-AAA
76489 AGAAACAAAAAAGAAGAAAACAAAAAAAA
1 AG-AACAAAAAAGAAGAAAACAAAAAAAA
76518 AGAACAAAAA
1 AGAACAAAAA
76528 TCAAAAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 8 0.22
29 5 0.14
30 10 0.28
31 13 0.36
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (28 bp):
AGAACAAAAAAGAAGAAAACAAAAAAAA
Found at i:76502 original size:11 final size:11
Alignment explanation
Indices: 76472--76540 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
76462 ACAAAAAGGG
*
76472 AAAAAACAAAA
1 AAAAAAGAAAA
*
76483 AAGAAAAGAAAC
1 AA-AAAAGAAAA
*
76495 AAAAAAGAAGA
1 AAAAAAGAAAA
*
76506 AAACAA-AAAA
1 AAAAAAGAAAA
* *
76516 AAAGAACAAAA
1 AAAAAAGAAAA
76527 ATCAAAAAGAAAA
1 A--AAAAAGAAAA
76540 A
1 A
76541 GGGACAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 8 0.18
11 19 0.42
12 9 0.20
13 9 0.20
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.01
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:76505 original size:19 final size:18
Alignment explanation
Indices: 76472--76526 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
76462 ACAAAAAGGG
* *
76472 AAAAAACAAAAAAGAAAAG
1 AAAAAA-AAAGAAGAAAAC
76491 AAACAAAAAAGAAGAAAAC
1 AAA-AAAAAAGAAGAAAAC
*
76510 AAAAAAAAAGAACAAAA
1 AAAAAAAAAGAAGAAAA
76527 ATCAAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.41
19 16 0.50
20 3 0.09
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAGAAAAC
Found at i:76533 original size:15 final size:14
Alignment explanation
Indices: 76461--76527 Score: 73
Period size: 15 Copynumber: 4.6 Consensus size: 14
76451 ATTCAATCAG
*
76461 AACAAAAAGGGAAAA
1 AACAAAAA-AGAAAA
76476 AACAAAAAAGAAAAGA
1 AACAAAAAAG-AAA-A
76492 AACAAAAAAGAAGAA
1 AACAAAAAAGAA-AA
*
76507 AACAAAAAA-AAAG
1 AACAAAAAAGAAAA
76520 AACAAAAA
1 AACAAAAA
76528 TCAAAAAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
13 9 0.19
14 3 0.06
15 23 0.49
16 12 0.26
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (14 bp):
AACAAAAAAGAAAA
Found at i:76534 original size:18 final size:16
Alignment explanation
Indices: 76472--76516 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
76462 ACAAAAAGGG
76472 AAAAAAC-AAAAAAGA
1 AAAAAACAAAAAAAGA
76487 AAAGAAAC-AAAAAAGA
1 AAA-AAACAAAAAAAGA
*
76503 AGAAAACAAAAAAA
1 AAAAAACAAAAAAA
76517 AAGAACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAAAAAGA
Found at i:77169 original size:22 final size:22
Alignment explanation
Indices: 77141--77196 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
77131 AGCTACCCCA
*
77141 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAAAG
**
77163 TCAAACCAATGAGCATCAAAAG
1 TCAAACCTTTGAGCATCAAAAG
*
77185 CCAAACCTTTGA
1 TCAAACCTTTGA
77197 CCAAACACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAAAG
Found at i:78231 original size:106 final size:106
Alignment explanation
Indices: 78022--79502 Score: 2165
Period size: 106 Copynumber: 14.0 Consensus size: 106
78012 ATATCGTGCC
* * * * * * *
78022 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGACAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
78086 AATTTCGGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
78127 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
78192 AATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
78233 ACTCCATATAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
78298 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
78339 ACTCCAGACAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
78404 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
78445 ACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
78510 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
78551 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
78616 AATTTCAGAGGCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
78657 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
78722 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * *
78763 ACTCTGGACAACGCAAGTTCAACTTCAGGACGAAGGGACCGCTAGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
78828 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
78869 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
78934 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
78975 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
79040 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
79081 ACTCCAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
79146 AATTTCATAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
79187 ACTCAAGACAACGCAAGTTCAGCTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
79252 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
79293 AC-CCAAGACAACACAA-TCTCAACTTCACGACGAAAGGG-CGGCTGATTGTCAAC-AA-AA-TT
1 ACTCC-AGACAACGCAAGT-TCAACTTCACGACG-AAGGGACCGCTGGTTGTCAACAAACAACTT
* * *
79352 -TC-A-TTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTGG
63 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
79393 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
79458 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
79499 ACTC
1 ACTC
79503 AGAACAATGC
Statistics
Matches: 1252, Mismatches: 110, Indels: 27
0.90 0.08 0.02
Matches are distributed among these distances:
99 5 0.00
100 74 0.06
101 5 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 51 0.04
106 1102 0.88
107 5 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:80306 original size:37 final size:37
Alignment explanation
Indices: 80252--80356 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
80242 CATTTTCGTC
80252 CTACTAGGATTCAAACTCCTAAAGATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAGATAGGATAGAATT
* ** * *
80289 TTGTTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAGATAGGATAGAATT
** *
80326 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAGATAGGAT
80357 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAGATAGGATAGAATT
Found at i:80768 original size:2 final size:2
Alignment explanation
Indices: 80755--80896 Score: 93
Period size: 2 Copynumber: 74.5 Consensus size: 2
80745 CCTTATTATT
*
80755 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * * * *
80796 TA TT TA TT TA TT TA T- TA TA -A T- TT TT TT TCA TT TT TC TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
** *
80836 CG T- TA AA TA TA T- TA T- TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80874 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
80897 TATTTTTTAT
Statistics
Matches: 113, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
1 8 0.07
2 104 0.92
3 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (2 bp):
TA
Found at i:81008 original size:29 final size:30
Alignment explanation
Indices: 80952--81125 Score: 107
Period size: 29 Copynumber: 5.8 Consensus size: 30
80942 TTTCCTAACA
* *
80952 TTATATATATATATTCTTACT-TCATTTTATT
1 TTATATAT-TATATTATTACTAT-TTTTTATT
*
80983 TTATAT-TTATATTATTACTATTTTTTA-G
1 TTATATATTATATTATTACTATTTTTTATT
* *
81011 TTA-ATATTATATGTA-TATTTATTTTTCA-T
1 TTATATATTATAT-TATTA-CTATTTTTTATT
* **
81040 TTATTTATTATTATTATTACTATTTAGTATT
1 TTATATATTA-TATTATTACTATTTTTTATT
*
81071 TTATTATATTATA-CA-TAC-ATTTTTATATT
1 TTA-TATATTATATTATTACTATTTTT-TATT
*
81100 TATATATATATATATT-TTATTATTTT
1 T-TATATAT-TATATTATTACTATTTT
81126 ATGTATACTA
Statistics
Matches: 111, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
27 2 0.02
28 15 0.14
29 42 0.38
30 22 0.20
31 19 0.17
32 11 0.10
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (30 bp):
TTATATATTATATTATTACTATTTTTTATT
Found at i:83882 original size:65 final size:67
Alignment explanation
Indices: 83768--83893 Score: 159
Period size: 65 Copynumber: 1.9 Consensus size: 67
83758 CTGGGTAAAG
* *
83768 GGTATCGGTACCCTATGAAGGAGTATCGATACCCCCTTTTAACAAAAAATTAT-AGAATGTCAGT
1 GGTATCGATACCCTATGAAGGAGTATCGATACCCCCTTTGAACAAAAAATTATCAGAATGTCAGT
83832 TT
66 TT
* * * * *
83834 GGTATCGATACCCTAT-AGGGGGTATCGATACCCCC-TTGAAGATGAAAATTTTCAGAATGT
1 GGTATCGATACCCTATGAAGGAGTATCGATACCCCCTTTGAACA-AAAAATTATCAGAATGT
83894 TATCAGGGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
64 5 0.10
65 24 0.47
66 22 0.43
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (67 bp):
GGTATCGATACCCTATGAAGGAGTATCGATACCCCCTTTGAACAAAAAATTATCAGAATGTCAGT
TT
Found at i:83923 original size:20 final size:20
Alignment explanation
Indices: 83897--83950 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
83887 AGAATGTTAT
83897 CAGGGTATCTATACCATAGA
1 CAGGGTATCTATACCATAGA
* *
83917 TAGGGTATCTATACCATAGG
1 CAGGGTATCTATACCATAGA
*
83937 CAGGGTATCCATAC
1 CAGGGTATCTATAC
83951 TTCAGTTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (20 bp):
CAGGGTATCTATACCATAGA
Found at i:85513 original size:93 final size:93
Alignment explanation
Indices: 85352--85538 Score: 304
Period size: 93 Copynumber: 2.0 Consensus size: 93
85342 AGGGTCGAGG
*
85352 GTTTACCTATGTTCTTTGGGACATATGGACTGTTAACCTATGTTCTTCGGGACATATGGACTGTT
1 GTTTACCTATGTTCTTTGGGACATATGGACTGTTAACCTATGTTCTTCGGGACATATGGACTGAT
**
85417 TACCTATTTTCTTCAGGA-CATATGGACT
66 TACCTAAATTCTTCAGGATC-TATGGACT
* * *
85445 GTTTACCTATGTTCTTTGGGATATATGGACTGTTTACCTATGTTCTTCTGGACATATGGACTGAT
1 GTTTACCTATGTTCTTTGGGACATATGGACTGTTAACCTATGTTCTTCGGGACATATGGACTGAT
85510 TACCTAAATTCTTCAGGATCTATGGACT
66 TACCTAAATTCTTCAGGATCTATGGACT
85538 G
1 G
85539 GTCCTTAGAG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 86 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (93 bp):
GTTTACCTATGTTCTTTGGGACATATGGACTGTTAACCTATGTTCTTCGGGACATATGGACTGAT
TACCTAAATTCTTCAGGATCTATGGACT
Found at i:85522 original size:31 final size:31
Alignment explanation
Indices: 85352--85538 Score: 250
Period size: 31 Copynumber: 6.0 Consensus size: 31
85342 AGGGTCGAGG
**
85352 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
* *
85383 GTTAACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
*
85414 GTTTACCTATTTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
** *
85445 GTTTACCTATGTTCTTTGGGATATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
*
85476 GTTTACCTATGTTCTTCTGGACATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
* **
85507 GATTACCTAAATTCTTCAGGATC-TATGGACT
1 GTTTACCTATGTTCTTCAGGA-CATATGGACT
85538 G
1 G
85539 GTCCTTAGAG
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
31 138 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCAGGACATATGGACT
Found at i:85800 original size:18 final size:18
Alignment explanation
Indices: 85777--85917 Score: 97
Period size: 18 Copynumber: 7.5 Consensus size: 18
85767 AATATTAATA
*
85777 CATGATAGTGATAGAGAT
1 CATGATAATGATAGAGAT
**
85795 CATGATAATGATATCGAT
1 CATGATAATGATAGAGAT
* *
85813 GATAATAATGATAGAGAT
1 CATGATAATGATAGAGAT
*
85831 CATGATAATGATATTA-AT
1 CATGATAATGATA-GAGAT
**
85849 GTTGATAGAGATAGAGATAGAGAT
1 CATGAT--A-AT---GATAGAGAT
**
85873 CATGATAATGATATTGAT
1 CATGATAATGATAGAGAT
85891 -ATGGATAATGATAGAGAT
1 CAT-GATAATGATAGAGAT
*
85909 TATGATAAT
1 CATGATAAT
85918 ATAATTGACA
Statistics
Matches: 94, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
17 2 0.02
18 72 0.77
19 3 0.03
20 1 0.01
21 4 0.04
22 1 0.01
23 1 0.01
24 10 0.11
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (18 bp):
CATGATAATGATAGAGAT
Found at i:85826 original size:36 final size:37
Alignment explanation
Indices: 85785--85925 Score: 155
Period size: 36 Copynumber: 3.7 Consensus size: 37
85775 TACATGATAG
*
85785 TGATAGAGATCATGATAATGATATCGATGAT-AATAA
1 TGATAGAGATCATGATAATGATATTGATGATGAATAA
*
85821 TGATAGAGATCATGATAATGATATTAATGTTGATAGAGATAGA
1 TGATAGAGATCATGATAATGATA-T--TGATGAT-GA-ATA-A
*
85864 -GATAGAGATCATGATAATGATATTGAT-ATGGATAA
1 TGATAGAGATCATGATAATGATATTGATGATGAATAA
*
85899 TGATAGAGATTATGATAAT-ATAATTGA
1 TGATAGAGATCATGATAATGAT-ATTGA
85926 CATTGTTAAT
Statistics
Matches: 91, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
35 3 0.03
36 48 0.53
37 2 0.02
38 2 0.02
39 8 0.09
41 2 0.02
42 25 0.27
43 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (37 bp):
TGATAGAGATCATGATAATGATATTGATGATGAATAA
Found at i:85936 original size:36 final size:36
Alignment explanation
Indices: 85776--85938 Score: 129
Period size: 36 Copynumber: 4.4 Consensus size: 36
85766 GAATATTAAT
* *
85776 ACAT-GATAGTGATAGAGATCATGATAATGATATCG
1 ACATGGATAATGATAGAGATCATGATAATGATATTG
* *
85811 ATGAT-AATAATGATAGAGATCATGATAATGATATT-
1 A-CATGGATAATGATAGAGATCATGATAATGATATTG
85846 A-ATGTTGATAGAGATAGAGATAGAGATCATGATAATGATATTG
1 ACATG--GAT--A-AT---GATAGAGATCATGATAATGATATTG
* *
85889 ATATGGATAATGATAGAGATTATGATAAT-ATAATTG
1 ACATGGATAATGATAGAGATCATGATAATGAT-ATTG
* *
85925 ACATTGTTAATGAT
1 ACATGGATAATGAT
85939 GGTATACGTG
Statistics
Matches: 106, Mismatches: 9, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
33 2 0.02
35 4 0.04
36 63 0.59
38 1 0.01
39 4 0.04
40 1 0.01
42 27 0.25
43 1 0.01
44 3 0.03
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (36 bp):
ACATGGATAATGATAGAGATCATGATAATGATATTG
Found at i:88247 original size:20 final size:20
Alignment explanation
Indices: 88187--88237 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
88177 TGTTATCAGA
* * *
88187 GTATCTATACCATAAACATG
1 GTATCTATACCATAGATAGG
88207 GTATCTATACCATAGATAGG
1 GTATCTATACCATAGATAGG
88227 GTATCTATACC
1 GTATCTATACC
88238 TCAGTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCTATACCATAGATAGG
Found at i:89718 original size:31 final size:31
Alignment explanation
Indices: 89676--89831 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
89666 TGAGTCGAGG
* *
89676 GTTTACCTATGTTCTTCGGGATATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
**
89707 GTTTATTTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
89738 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
89769 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* **
89800 GATTACCTAAATTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
89831 G
1 G
89832 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:90092 original size:18 final size:18
Alignment explanation
Indices: 90069--90203 Score: 105
Period size: 18 Copynumber: 7.5 Consensus size: 18
90059 AATATTAATA
*
90069 CATGATAGTGATAGAGAT
1 CATGATAATGATAGAGAT
**
90087 CATGATAATGATATCGAT
1 CATGATAATGATAGAGAT
* * *
90105 GATAATAGTGATAGAGAT
1 CATGATAATGATAGAGAT
*
90123 CATGATAATGATATTA-AT
1 CATGATAATGATA-GAGAT
**
90141 GTTGATAGA-GATAGAGAT
1 CATGATA-ATGATAGAGAT
**
90159 CATGATAATGATATTGAT
1 CATGATAATGATAGAGAT
*
90177 -GTGGATAATGATAGAGAT
1 CAT-GATAATGATAGAGAT
*
90195 TATGATAAT
1 CATGATAAT
90204 ATTATTGACG
Statistics
Matches: 88, Mismatches: 23, Indels: 12
0.72 0.19 0.10
Matches are distributed among these distances:
17 3 0.03
18 82 0.93
19 3 0.03
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.33
Consensus pattern (18 bp):
CATGATAATGATAGAGAT
Found at i:90222 original size:36 final size:36
Alignment explanation
Indices: 90071--90224 Score: 186
Period size: 36 Copynumber: 4.3 Consensus size: 36
90061 TATTAATACA
* * *
90071 TGATAGTGATAGAGATCATGATAATGATATCGATGA
1 TGATAATGATAGAGATCATGATAATGATATTGATGT
* * *
90107 TAATAGTGATAGAGATCATGATAATGATATTAATGT
1 TGATAATGATAGAGATCATGATAATGATATTGATGT
90143 TGATAGA-GATAGAGATCATGATAATGATATTGATGT
1 TGATA-ATGATAGAGATCATGATAATGATATTGATGT
* * *
90179 GGATAATGATAGAGATTATGATAAT-ATTATTGACGT
1 TGATAATGATAGAGATCATGATAATGA-TATTGATGT
*
90215 TGTTAATGAT
1 TGATAATGAT
90225 GGCATACATG
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.02
36 101 0.98
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (36 bp):
TGATAATGATAGAGATCATGATAATGATATTGATGT
Found at i:92507 original size:20 final size:20
Alignment explanation
Indices: 92478--92522 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
92468 ATGTTATCAT
92478 GGTATCTATACCATAGACAG
1 GGTATCTATACCATAGACAG
* *
92498 GGTATTTATACCATAGGCAG
1 GGTATCTATACCATAGACAG
92518 GGTAT
1 GGTAT
92523 ATACCTCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (20 bp):
GGTATCTATACCATAGACAG
Found at i:93993 original size:31 final size:31
Alignment explanation
Indices: 93950--94074 Score: 173
Period size: 31 Copynumber: 4.0 Consensus size: 31
93940 AGGGTCGAGG
*
93950 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
93981 GTTTGCCTATGTTCTTCGGGACATATGTACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
94012 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
94043 GATTACCTA-GATTCTTCAGGATC-TATGGACT
1 GTTTACCTATG-TTCTTCGGGA-CATATGGACT
94074 G
1 G
94075 GTCTTTCGGG
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 1 0.01
31 83 0.98
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:94335 original size:18 final size:18
Alignment explanation
Indices: 94312--94446 Score: 87
Period size: 18 Copynumber: 7.5 Consensus size: 18
94302 AATATTAATA
*
94312 CATGATAGTGATAGAGAT
1 CATGATAATGATAGAGAT
* **
94330 CATGATAATGAAATCGAT
1 CATGATAATGATAGAGAT
* * *
94348 GATAATAGTGATAGAGAT
1 CATGATAATGATAGAGAT
*
94366 CATGATAATGATATTA-AT
1 CATGATAATGATA-GAGAT
**
94384 GTTGATAGA-GATAGAGAT
1 CATGATA-ATGATAGAGAT
**
94402 CATGATAATGATATTGAT
1 CATGATAATGATAGAGAT
* *
94420 -GTGGATAATGATATAGAT
1 CAT-GATAATGATAGAGAT
*
94438 TATGATAAT
1 CATGATAAT
94447 ATTGTTGACA
Statistics
Matches: 87, Mismatches: 24, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
17 3 0.03
18 81 0.93
19 3 0.03
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (18 bp):
CATGATAATGATAGAGAT
Found at i:94413 original size:36 final size:36
Alignment explanation
Indices: 94314--94446 Score: 160
Period size: 36 Copynumber: 3.7 Consensus size: 36
94304 TATTAATACA
* * * *
94314 TGATAGTGATAGAGATCATGATAATGAAATCGATGA
1 TGATAGAGATAGAGATCATGATAATGATATTGATGT
* * *
94350 TAATAGTGATAGAGATCATGATAATGATATTAATGT
1 TGATAGAGATAGAGATCATGATAATGATATTGATGT
94386 TGATAGAGATAGAGATCATGATAATGATATTGATGT
1 TGATAGAGATAGAGATCATGATAATGATATTGATGT
* * *
94422 GGATA-ATGATATAGATTATGATAAT
1 TGATAGA-GATAGAGATCATGATAAT
94447 ATTGTTGACA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
35 1 0.01
36 84 0.99
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (36 bp):
TGATAGAGATAGAGATCATGATAATGATATTGATGT
Found at i:96670 original size:18 final size:18
Alignment explanation
Indices: 96647--96706 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
96637 ACAACTTAAA
96647 GAAATACAAAATCACTTG
1 GAAATACAAAATCACTTG
** * *
96665 GAAAT--AGTATAACTTAAA
1 GAAATACAAAATCACTT--G
96683 GAAATACAAAATCACTTG
1 GAAATACAAAATCACTTG
96701 GAAATA
1 GAAATA
96707 GTATAGTAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
16 7 0.23
18 16 0.53
20 7 0.23
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (18 bp):
GAAATACAAAATCACTTG
Found at i:96679 original size:36 final size:36
Alignment explanation
Indices: 96639--96711 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
96629 ATTTATATAC
96639 AACTTAAAGAAATACAAAATCACTTGGAAATAGTAT
1 AACTTAAAGAAATACAAAATCACTTGGAAATAGTAT
96675 AACTTAAAGAAATACAAAATCACTTGGAAATAGTAT
1 AACTTAAAGAAATACAAAATCACTTGGAAATAGTAT
96711 A
1 A
96712 GTAGTTGTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (36 bp):
AACTTAAAGAAATACAAAATCACTTGGAAATAGTAT
Done.