Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003147.1 Hibiscus syriacus cultivar Beakdansim tig00006621_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: 118292
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4718 original size:18 final size:18
Alignment explanation
Indices: 4661--4719 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
4651 TGGTCCTTTA
*
4661 GGACATAGTGGTCTTTCG
1 GGACATAGTGGTCATTCG
** * * *
4679 AAACATAGTGATCCTTCT
1 GGACATAGTGGTCATTCG
4697 GGACATAGTGGTCATTCG
1 GGACATAGTGGTCATTCG
4715 GGACA
1 GGACA
4720 AATATTCAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (18 bp):
GGACATAGTGGTCATTCG
Found at i:7439 original size:15 final size:15
Alignment explanation
Indices: 7419--7450 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7409 TCAAATAAGA
7419 CATTGTATCCTTTAT
1 CATTGTATCCTTTAT
7434 CATTGTATCCTTTAT
1 CATTGTATCCTTTAT
7449 CA
1 CA
7451 CAAAATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (15 bp):
CATTGTATCCTTTAT
Found at i:8042 original size:20 final size:21
Alignment explanation
Indices: 8003--8042 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7993 GAATCTTTAA
* *
8003 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
8024 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
8043 AATTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:10237 original size:65 final size:65
Alignment explanation
Indices: 10124--10279 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 65
10114 ACACTAGGGG
* * * * ** ** *
10124 TGCATCGATACACTAATTACATTCGATGTTTCAAATGATCCTGTAGTGCATCGATGCAT-GGTCT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAATCAAGTAGTGCATCGATGCATAGCT-T
10188 A
65 A
10189 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAATTCAAG-AGTGCATCGATGCATAGCTT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAA-TCAAGTAGTGCATCGATGCATAGCTT
*
10253 G
65 A
*
10254 TGCATCGGTACACAAAATGCACTCGA
1 TGCATCGGTACACAAAATGCATTCGA
10280 AATGGGTGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 73 0.94
66 5 0.06
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (65 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAATCAAGTAGTGCATCGATGCATAGCTTA
Found at i:12256 original size:21 final size:20
Alignment explanation
Indices: 12219--12257 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12209 CATCTTTTAA
*
12219 ATTTTAAAATTGACCTTTTG
1 ATTTTAAAATAGACCTTTTG
*
12239 ATTTTAAAACTAGCCCTTT
1 ATTTTAAAA-TAGACCTTT
12258 AGTTTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (20 bp):
ATTTTAAAATAGACCTTTTG
Found at i:13196 original size:2 final size:2
Alignment explanation
Indices: 13189--13251 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
13179 TCTACTATGT
* *
13189 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
13231 TA TA TA CA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
13252 TTAGTTACTC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14300 original size:17 final size:18
Alignment explanation
Indices: 14278--14319 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
14268 TATCAGTACT
14278 CAAGG-GAGTATCGATAC
1 CAAGGAGAGTATCGATAC
14295 CAAGGGTAGAGTATCGATAC
1 CAA-GG-AGAGTATCGATAC
*
14315 TAAGG
1 CAAGG
14320 TATTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 2 0.10
19 2 0.10
20 14 0.67
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (18 bp):
CAAGGAGAGTATCGATAC
Found at i:15290 original size:2 final size:2
Alignment explanation
Indices: 15283--15311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15273 GTAAACTTTG
15283 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 T
15312 TTGAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15997 original size:18 final size:19
Alignment explanation
Indices: 15957--16003 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
15947 GAATAAATGA
15957 AAATAAATATACATACAAC
1 AAATAAATATACATACAAC
15976 -AATAAATAATA-ATA-AAC
1 AAATAAAT-ATACATACAAC
*
15993 AAATATATATA
1 AAATAAATATA
16004 TGCGTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATATACATACAAC
Found at i:16052 original size:2 final size:2
Alignment explanation
Indices: 16047--16079 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
16037 GAAAAAATAC
16047 AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16080 AAAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16196 original size:18 final size:19
Alignment explanation
Indices: 16156--16196 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16146 GAATAAATGA
16156 AAATAAATATACATACAAC
1 AAATAAATATACATACAAC
16175 -AATAAATAATA-ATA-AAC
1 AAATAAAT-ATACATACAAC
16192 AAATA
1 AAATA
16197 TACATGCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.15
18 14 0.70
19 3 0.15
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAATATACATACAAC
Found at i:23245 original size:10 final size:10
Alignment explanation
Indices: 23230--23280 Score: 75
Period size: 10 Copynumber: 5.1 Consensus size: 10
23220 GTGATTGTGT
23230 TGTTCGTTTA
1 TGTTCGTTTA
23240 TGTTCGTTTA
1 TGTTCGTTTA
* **
23250 TATTCGTTCG
1 TGTTCGTTTA
23260 TGTTCGTTTA
1 TGTTCGTTTA
23270 TGTTCGTTTA
1 TGTTCGTTTA
23280 T
1 T
23281 TATTTAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.59
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:25933 original size:16 final size:16
Alignment explanation
Indices: 25921--25968 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
25911 ATTATTCAGT
25921 ATTTGAATCATTCAAC
1 ATTTGAATCATTCAAC
25937 ATTTGAATCATTCAAC
1 ATTTGAATCATTCAAC
*
25953 ATTTGAATAATTCAAC
1 ATTTGAATCATTCAAC
25969 GCTTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTTGAATCATTCAAC
Found at i:29044 original size:18 final size:18
Alignment explanation
Indices: 28995--29046 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
28985 CTCAGTTTAA
*
28995 TATGAATTACTATTTAAT
1 TATGAATTACTATATAAT
* * *
29013 AAT-AA-AAATATATAAT
1 TATGAATTACTATATAAT
29029 TATGAATTACTATATAAT
1 TATGAATTACTATATAAT
29047 ATGTTTTTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
TATGAATTACTATATAAT
Found at i:33527 original size:41 final size:41
Alignment explanation
Indices: 33482--33777 Score: 155
Period size: 41 Copynumber: 7.2 Consensus size: 41
33472 CAGTTTCCAG
*
33482 ATTCGCAACGCGAACTTCGACTATCGCATTGCGATTTACAT
1 ATTCGCAACGCGAACTTCGAGTATCGCATTGCGATTTACAT
** * * * * *
33523 ATTCGCATTGCGATAGTCCAAGT-TCGCGTTGCGATAGT-CGAT
1 ATTCGCAACGCGA-ACTTCGAGTATCGCATTGCGAT-TTAC-AT
* * * * *
33565 AATTCGCAACGCGATC-TCCAGTATCGCAAAT-C-AGTTTCCAG
1 -ATTCGCAACGCGAACTTCGAGTATCGC-ATTGCGA-TTTACAT
*
33606 ATTCGCAACGCGAACTTCGACTATCGCATTGCGATTTACAT
1 ATTCGCAACGCGAACTTCGAGTATCGCATTGCGATTTACAT
** * * *
33647 ATTCGCATTGCGATAGTT-GAAGT-TCGCGTTGCGATAGT-CGAT
1 ATTCGCAACGCGA-ACTTCG-AGTATCGCATTGCGAT-TTAC-AT
* * * * *
33689 AATTCGCAACGCGATCTCCG-GTATCGCAAAT-C-AGTTTCCAG
1 -ATTCGCAACGCGAACTTCGAGTATCGC-ATTGCGA-TTTACAT
* * *
33730 ATTCGCAATGCGAACTTCGACTATCGCATTACGATTTACAT
1 ATTCGCAACGCGAACTTCGAGTATCGCATTGCGATTTACAT
33771 ATTCGCA
1 ATTCGCA
33778 TTGCGATAGT
Statistics
Matches: 185, Mismatches: 46, Indels: 48
0.66 0.16 0.17
Matches are distributed among these distances:
40 34 0.18
41 93 0.50
42 33 0.18
43 25 0.14
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCGCAACGCGAACTTCGAGTATCGCATTGCGATTTACAT
Found at i:33656 original size:124 final size:124
Alignment explanation
Indices: 33436--33806 Score: 688
Period size: 124 Copynumber: 3.0 Consensus size: 124
33426 CGCAATGCGA
*
33436 TCGATAATTCGCAACGCGATCTCTGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCG
1 TCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCG
*
33501 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAG
66 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAG
*
33560 TCGATAATTCGCAACGCGATCTCCAGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCG
1 TCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCG
*
33625 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTTGAAGTTCGCGTTGCGATAG
66 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAG
*
33684 TCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTCGCAATGCGAACTTCG
1 TCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCG
*
33749 ACTATCGCATTACGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATA
66 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATA
33807 AATCGCATTG
Statistics
Matches: 239, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 239 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (124 bp):
TCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCG
ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAG
Found at i:33802 original size:21 final size:21
Alignment explanation
Indices: 33772--33971 Score: 129
Period size: 21 Copynumber: 9.8 Consensus size: 21
33762 GATTTACATA
*
33772 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
33793 TTCGCGTTGCGATA----AA-
1 TTCGCGTTGCGATAGTCGAAG
*
33809 -TCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
33829 TTCGCGTTGCGATTTATTAC-AAA
1 TTCGCGTTGCGA--TAGT-CGAAG
*
33852 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
33871 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
*
33894 TT--CATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
33913 TTCGCGTTGCGATTTATTCTAAG
1 TTCGCGTTGCGA--TAGTCGAAG
*
33936 TT--CGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCGAAG
*
33955 TTCGTGTTGCGATAGTC
1 TTCGCGTTGCGATAGTC
33972 CAAAATCGCA
Statistics
Matches: 138, Mismatches: 21, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
15 12 0.09
17 2 0.01
18 1 0.01
19 25 0.18
21 72 0.52
23 25 0.18
24 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:33820 original size:36 final size:36
Alignment explanation
Indices: 33773--33841 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
33763 ATTTACATAT
33773 TCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAAA
1 TCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAAA
33809 TCGCATTGCGATAGTCGAAGTTCGCGTTGCGAT
1 TCGCATTGCGATAGTCGAAGTTCGCGTTGCGAT
33842 TTATTACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (36 bp):
TCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAAA
Found at i:33873 original size:42 final size:41
Alignment explanation
Indices: 33778--33967 Score: 241
Period size: 42 Copynumber: 4.7 Consensus size: 41
33768 CATATTCGCA
33778 TTGCGATAGTCGAAGTTCGCGTTGCG----A-T-AAA-TCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAATTCG
33812 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
1 --TTGCGATAGTCGAAGTTCGCGTTGCGATTTATT-CAAATTCG
* *
33856 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATT-CAAATTCG
*
33898 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTC-AAATTCG
* *
33940 TTGCGATAGTTGAAGTTCGTGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGAT
33968 AGTCCAAAAT
Statistics
Matches: 137, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
36 26 0.19
40 1 0.01
41 2 0.01
42 102 0.74
43 3 0.02
44 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAATTCG
Found at i:34095 original size:10 final size:11
Alignment explanation
Indices: 34065--34097 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
34055 ACACGTATTT
34065 CCACGACCACGA
1 CCACGACC-CGA
34077 CCACGACCCGA
1 CCACGACCCGA
34088 CC-CGACCCGA
1 CCACGACCCGA
34098 GACGAGACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.27, C:0.55, G:0.18, T:0.00
Consensus pattern (11 bp):
CCACGACCCGA
Found at i:34764 original size:6 final size:6
Alignment explanation
Indices: 34737--34778 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
34727 TCTCGTCTCG
34737 GGTCG- GGTCG- GGTCGT -GTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
34779 AATACGTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:34901 original size:21 final size:20
Alignment explanation
Indices: 34869--35005 Score: 100
Period size: 19 Copynumber: 6.7 Consensus size: 20
34859 CGTTGCGATT
*
34869 TTGGACTATCGCAA-CGAAC
1 TTGGAATATCGCAACCGAAC
34888 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAAC-CGAAC
* * *
34911 TTCGACTATCTCAA-CGAAC
1 TTGGAATATCGCAACCGAAC
** *
34930 TTGGGCTATCGCAACGCGAAT
1 TTGGAATATCGCAAC-CGAAC
34951 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAAC-CGAAC
* *
34974 TTGGACTATCGCAA-CGAAT
1 TTGGAATATCGCAACCGAAC
*
34993 TTGGAAAATCGCA
1 TTGGAATATCGCA
35006 TTGCGATAGT
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
19 37 0.39
21 29 0.31
23 29 0.31
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (20 bp):
TTGGAATATCGCAACCGAAC
Found at i:34930 original size:19 final size:19
Alignment explanation
Indices: 34872--34991 Score: 69
Period size: 21 Copynumber: 5.8 Consensus size: 19
34862 TGCGATTTTG
*
34872 GACTATCGCAACGAACTTG
1 GACTATCGCAACGAACTTC
*
34891 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAA--CGAACTTC
* *
34914 GACTATCTCAACGAACTTG
1 GACTATCGCAACGAACTTC
* * *
34933 GGCTATCGCAACGCGAATTTG
1 GACTATCGCAA--CGAACTTC
* *
34954 GAATAAATCGCAACGCGAACTTG
1 GACT--ATCGCAA--CGAACTTC
34977 GACTATCGCAACGAA
1 GACTATCGCAACGAA
34992 TTTGGAAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
19 23 0.28
21 29 0.36
23 29 0.36
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (19 bp):
GACTATCGCAACGAACTTC
Found at i:34931 original size:42 final size:40
Alignment explanation
Indices: 34872--34989 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 40
34862 TGCGATTTTG
34872 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAAT--ATCGCAACGCGAACTTC
* ** * *
34914 GACTATCTCAACGAACTTGGGCTATCGCAACGCGAATTTG
1 GACTATCGCAACGAACTTGGAATATCGCAACGCGAACTTC
* *
34954 GAATAAATCGCAACGCGAACTTGGACTATCGCAACG
1 GACT--ATCGCAA--CGAACTTGGAATATCGCAACG
34990 AATTTGGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 18 0.28
42 26 0.41
44 20 0.31
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (40 bp):
GACTATCGCAACGAACTTGGAATATCGCAACGCGAACTTC
Found at i:34967 original size:23 final size:23
Alignment explanation
Indices: 34937--35005 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
34927 AACTTGGGCT
34937 ATCGCAACGCGAATTTGGAATAA
1 ATCGCAACGCGAATTTGGAATAA
* *
34960 ATCGCAACGCGAACTTGGACT--
1 ATCGCAACGCGAATTTGGAATAA
34981 ATCGCAA--CGAATTTGG-A-AA
1 ATCGCAACGCGAATTTGGAATAA
35000 ATCGCA
1 ATCGCA
35006 TTGCGATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 14 0.35
21 7 0.17
23 19 0.47
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (23 bp):
ATCGCAACGCGAATTTGGAATAA
Found at i:34971 original size:63 final size:61
Alignment explanation
Indices: 34869--34997 Score: 195
Period size: 63 Copynumber: 2.1 Consensus size: 61
34859 CGTTGCGATT
*
34869 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCTCAACGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
* * * *
34930 TTGGGCTATCGCAACGCGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAAT
1 TTGGACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
34993 TTGGA
1 TTGGA
34998 AAATCGCATT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 13 0.22
63 47 0.78
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (61 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
Found at i:34983 original size:44 final size:40
Alignment explanation
Indices: 34925--35005 Score: 117
Period size: 44 Copynumber: 1.9 Consensus size: 40
34915 ACTATCTCAA
*
34925 CGAACTTGGGCTATCGCAACGCGAATTTGGAATAAATCGCAACG
1 CGAACTTGGACTATCGCAA--CGAATTTGG-A-AAATCGCAACG
34969 CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCA
1 CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCA
35006 TTGCGATAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 8 0.22
41 1 0.03
42 9 0.25
44 18 0.50
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (40 bp):
CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACG
Found at i:35030 original size:21 final size:21
Alignment explanation
Indices: 35001--35053 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
34991 ATTTGGAAAA
*
35001 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
35022 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
35043 TCGCGTTGCGA
1 TCGCGTTGCGA
35054 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:37875 original size:31 final size:31
Alignment explanation
Indices: 37840--37907 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
37830 TAATAAATTG
* * *
37840 ATCATTTATATTATCGATTTATAACAAAATA
1 ATCATTGACATTATCAATTTATAACAAAATA
* *
37871 ATCATTGACATTATCAATTTGTAATAAAATA
1 ATCATTGACATTATCAATTTATAACAAAATA
37902 ATCATT
1 ATCATT
37908 CAATCGTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (31 bp):
ATCATTGACATTATCAATTTATAACAAAATA
Found at i:38265 original size:2 final size:2
Alignment explanation
Indices: 38258--38303 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
38248 TGTTGCTCTA
38258 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
38300 AT AT
1 AT AT
38304 TAAAACTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44878 original size:4 final size:4
Alignment explanation
Indices: 44869--44903 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
44859 AGATGAAACT
44869 TATC TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TAT
44904 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:44908 original size:2 final size:2
Alignment explanation
Indices: 44901--44939 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44891 TCTATCTATC
44901 TA TA 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 T
44940 TAAAAAAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:54098 original size:22 final size:22
Alignment explanation
Indices: 54068--54147 Score: 94
Period size: 23 Copynumber: 3.7 Consensus size: 22
54058 TAGGGCAGAA
*
54068 GGAATCGATACCCCCTTGAAGG
1 GGAACCGATACCCCCTTGAAGG
*
54090 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATACCCCC-TTGAAGG
*
54113 GGAACCGATTCCCCC-T--AGG
1 GGAACCGATACCCCCTTGAAGG
*
54132 GGAATCGATACCCCCT
1 GGAACCGATACCCCCT
54148 GGGGTTCTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.31
21 1 0.02
22 13 0.25
23 22 0.42
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.19
Consensus pattern (22 bp):
GGAACCGATACCCCCTTGAAGG
Found at i:54109 original size:23 final size:23
Alignment explanation
Indices: 54068--54128 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
54058 TAGGGCAGAA
* *
54068 GGAATCGATACCCCC-TTGAAGG
1 GGAACCGATTCCCCCTTTGAAGG
54090 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCTTTGAAGG
54113 GGAACCGATTCCCCCT
1 GGAACCGATTCCCCCT
54129 AGGGGAATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 13 0.36
23 23 0.64
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.20
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTTGAAGG
Found at i:67137 original size:21 final size:20
Alignment explanation
Indices: 67113--67152 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
67103 AAAAATTTCA
*
67113 AGTTATTCGAGTTACTATTTG
1 AGTTATTCGAATTA-TATTTG
67134 AGTTATTCGAATTATATTT
1 AGTTATTCGAATTATATTT
67153 TACAACTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (20 bp):
AGTTATTCGAATTATATTTG
Found at i:67765 original size:37 final size:36
Alignment explanation
Indices: 67684--67765 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
67674 AATCCATTTA
* * *
67684 AAACTCATTTAAAACCCAAATCAATAATAATTAATT
1 AAACTAATTTAAAAACCAAATCAATAATAATTAATC
* *
67720 AAACTAATTTAAAAACTAAATACAA-AATATTTGAATC
1 AAACTAATTTAAAAACCAAAT-CAATAATAATT-AATC
*
67757 AAATTAATT
1 AAACTAATT
67766 AGATATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 24 0.63
37 14 0.37
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (36 bp):
AAACTAATTTAAAAACCAAATCAATAATAATTAATC
Found at i:67783 original size:17 final size:17
Alignment explanation
Indices: 67761--67799 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
67751 TGAATCAAAT
*
67761 TAATTAGATATTATTTA
1 TAATTACATATTATTTA
67778 TAATTACATATTATTTA
1 TAATTACATATTATTTA
67795 -AATTA
1 TAATTA
67800 ATTATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATTACATATTATTTA
Found at i:71518 original size:19 final size:19
Alignment explanation
Indices: 71485--71523 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71475 TCAACTCTTT
71485 TATAATTATATATTTATAA
1 TATAATTATATATTTATAA
*
71504 TATATATTATA-ATTTTTAA
1 TATA-ATTATATATTTATAA
71523 T
1 T
71524 TTTACGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAATTATATATTTATAA
Found at i:72772 original size:3 final size:3
Alignment explanation
Indices: 72764--72816 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
72754 TCTGAGAATA
72764 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
72812 TAT TA
1 TAT TA
72817 CAAATATTAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:82537 original size:21 final size:21
Alignment explanation
Indices: 82513--82629 Score: 164
Period size: 21 Copynumber: 5.6 Consensus size: 21
82503 TCGTACCAAG
* *
82513 GACGAGAAGGCCATTCATCAA
1 GACGAGAAGACCATTCATAAA
* *
82534 GACGAGAAGGCCATTCATCAA
1 GACGAGAAGACCATTCATAAA
* *
82555 GACGAGAAGACCTTTTATAAA
1 GACGAGAAGACCATTCATAAA
*
82576 GACGAGAAGACCTTTCATAAA
1 GACGAGAAGACCATTCATAAA
82597 GACGAGAAGACC-TTCATAAA
1 GACGAGAAGACCATTCATAAA
82617 GACGAGAAGACCA
1 GACGAGAAGACCA
82630 CTTCGCATGG
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
20 20 0.22
21 70 0.78
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (21 bp):
GACGAGAAGACCATTCATAAA
Found at i:82881 original size:6 final size:6
Alignment explanation
Indices: 82870--82910 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
82860 TAACACCTTG
82870 TGCATT TGCATT TGCATT TGCATT TGCATTT TGCA-T TGCAT
1 TGCATT TGCATT TGCATT TGCATT TGCA-TT TGCATT TGCAT
82911 GCATTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 22 0.67
7 6 0.18
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGCATT
Found at i:85580 original size:23 final size:23
Alignment explanation
Indices: 85549--85652 Score: 108
Period size: 22 Copynumber: 4.6 Consensus size: 23
85539 AAAAAGGAAA
85549 AAAATGAAAAAAAATGAAAAAAAG
1 AAAA-GAAAAAAAATGAAAAAAAG
85573 AAAAGAAAAAAAATGAAAAAAAG
1 AAAAGAAAAAAAATGAAAAAAAG
* *
85596 --AAGAAGAAGAAATG-AATAAAG
1 AAAAGAA-AAAAAATGAAAAAAAG
* * *
85617 AAAAGGAGAAAAA-GAGAAAAAG
1 AAAAGAAAAAAAATGAAAAAAAG
*
85639 AAATGAAAAAAAAT
1 AAAAGAAAAAAAAT
85653 AATAAGGAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
21 12 0.18
22 26 0.40
23 23 0.35
24 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (23 bp):
AAAAGAAAAAAAATGAAAAAAAG
Found at i:85585 original size:9 final size:9
Alignment explanation
Indices: 85529--85585 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
85519 ACTACACTCG
*
85529 AAAAACGAA
1 AAAAAAGAA
85538 AAAAAAGGAA
1 AAAAAA-GAA
*
85548 AAAAATGAA
1 AAAAAAGAA
85557 AAAAAATG-A
1 AAAAAA-GAA
85566 AAAAAAGAA
1 AAAAAAGAA
85575 AAGAAAA-AA
1 AA-AAAAGAA
85584 AA
1 AA
85586 TGAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 1 0.02
9 27 0.66
10 13 0.32
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:85591 original size:9 final size:9
Alignment explanation
Indices: 85537--85594 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
85527 CGAAAAACGA
*
85537 AAAAAAAGG
1 AAAAAAATG
85546 AAAAAAATG
1 AAAAAAATG
85555 AAAAAAAATG
1 -AAAAAAATG
85565 AAAAAAA-G
1 AAAAAAATG
*
85573 -AAAAGA--
1 AAAAAAATG
85579 AAAAAAATG
1 AAAAAAATG
85588 AAAAAAA
1 AAAAAAA
85595 GAAGAAGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 10 0.24
8 1 0.02
9 22 0.52
10 9 0.21
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (9 bp):
AAAAAAATG
Found at i:85652 original size:10 final size:10
Alignment explanation
Indices: 85529--85652 Score: 81
Period size: 10 Copynumber: 11.6 Consensus size: 10
85519 ACTACACTCG
*
85529 AAAAACGAAA
1 AAAAATGAAA
*
85539 AAAAA-GGAA
1 AAAAATGAAA
85548 AAAAATGAAA
1 AAAAATGAAA
85558 AAAAATGAAAAA
1 AAAAATG--AAA
*
85570 AAGAAAAGAAA
1 AA-AAATGAAA
85581 AAAAATGAAA
1 AAAAATGAAA
*
85591 AAAAGAAGAAGA
1 AAAA-ATGAA-A
*
85603 AGAAATGAATAA
1 AAAAATG-A-AA
*
85615 AGAAAAGGAGAA
1 A-AAAATGA-AA
*
85627 AAAGA-GAAA
1 AAAAATGAAA
85636 AAGAAATGAAA
1 AA-AAATGAAA
85647 AAAAAT
1 AAAAAT
85653 AATAAGGAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
9 12 0.13
10 34 0.37
11 20 0.22
12 16 0.18
13 9 0.10
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.06
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:87923 original size:23 final size:22
Alignment explanation
Indices: 87891--87968 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 22
87881 GAAGATGAAC
87891 AAAAAAAATAAAAGAAAAGAAA
1 AAAAAAAATAAAAGAAAAGAAA
87913 AATAAAAAATAAAA-AAAGAGAACA
1 AA-AAAAAATAAAAGAAA-AGAA-A
*
87937 AAAAAAGAACAAAAG-AAAGAAA
1 AAAAAA-AATAAAAGAAAAGAAA
87959 AGAAAGAAAA
1 A-AAA-AAAA
87969 AGGAGGGTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
22 7 0.15
23 28 0.58
24 13 0.27
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.04
Consensus pattern (22 bp):
AAAAAAAATAAAAGAAAAGAAA
Found at i:87929 original size:21 final size:20
Alignment explanation
Indices: 87891--87969 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 20
87881 GAAGATGAAC
87891 AAAAAAAATAAAAGAAAAGAAA
1 AAAAAAAAT-AAA-AAAAGAAA
87913 AATAAAAAATAAAAAAAGAGAA
1 AA-AAAAAATAAAAAAAGA-AA
* * *
87935 CAAAAAAAGAACAAAAGAAA
1 AAAAAAAATAAAAAAAGAAA
* *
87955 GAAAAGAAAGAAAAA
1 -AAAAAAAATAAAAA
87970 GGAGGGTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 2 0.04
21 31 0.65
22 8 0.17
23 7 0.15
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.04
Consensus pattern (20 bp):
AAAAAAAATAAAAAAAGAAA
Found at i:87959 original size:9 final size:9
Alignment explanation
Indices: 87901--87968 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
87891 AAAAAAAATA
87901 AAAGAAAAG
1 AAAGAAAAG
*
87910 AAA-AATAAA
1 AAAGAA-AAG
*
87919 AAATAAAA-
1 AAAGAAAAG
* *
87927 AAAGAGAAC
1 AAAGAAAAG
87936 AAA-AAAAG
1 AAAGAAAAG
*
87944 -AACAAAAG
1 AAAGAAAAG
87952 AAAGAAAAG
1 AAAGAAAAG
87961 AAAGAAAA
1 AAAGAAAA
87969 AGGAGGGTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
7 2 0.04
8 16 0.33
9 28 0.58
10 2 0.04
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:87966 original size:13 final size:13
Alignment explanation
Indices: 87900--87968 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
87890 CAAAAAAAAT
87900 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
*
87913 AATAA-AAAATAAA
1 AA-AAGAAAAGAAA
* *
87926 AAAAGAGAACAAA
1 AAAAGAAAAGAAA
*
87939 AAAAGAACA-AAA
1 AAAAGAAAAGAAA
*
87951 GAAAGAAAAGAAA
1 AAAAGAAAAGAAA
87964 GAAAA
1 -AAAA
87969 AGGAGGGTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
12 12 0.27
13 27 0.61
14 5 0.11
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:89765 original size:54 final size:53
Alignment explanation
Indices: 89703--90957 Score: 1458
Period size: 54 Copynumber: 23.7 Consensus size: 53
89693 ATCGCGTTTA
* * *
89703 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACTCGTAATAAGAAGATGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGT-TTAAGAAGATGTTC
** *
89757 GAGTTCCATACT-CTCTAAAGAAAGAGGGAGCGAACCCGTTCGCAGAAGATTTTC
1 GAGTTCCATACTCCT-TAAAGAAAGAGGGAGCGAACCCGTT-TAAGAAGATGTTC
* *
89811 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCAAACCCGTTTGAAGAAGATGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
*
89865 GAGTTCCATACTCCTTGAAG--AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* * ** *
89917 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATTCGCAGAAGATTTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTT-TAAGAAGATGTTC
* *
89971 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTTT
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* * *
90024 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTGGAAGAAGATTTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTT-TAAGAAGATGTTC
* * * *
90078 GAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCGTTTGAA-AAGATGTCC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* ** * *
90131 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCAGAAGGTTTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTT-TAAGAAGATGTTC
*
90185 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
** ** *
90238 GAGTTCCATACTCCTTAAAGAAAGAAAGAGCGAACCCGTAAGAAGAAGATTTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGT-TTAAGAAGATGTTC
* * * *
90292 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAAAGATGTCC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTTC
* *
90345 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT--GAAGATTGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGA-TGTTC
*
90397 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTCAAGAAGATGTCC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* * * * * *
90451 GAGTTACATACTCCCTAGAGAAAGAGGGAACGAACCCGTTTGAA-AA-TTATTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
*
90503 GAGTTCCATACTCCATAGAA-AAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TC
1 GAGTTCCATACTCCTTA-AAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* * * * *
90556 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGT--GAAGATATCC
1 -GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTTC
* * *
90608 GAGTTTCATACTCCCTAGAA-AAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAGTTCCATACTCCTTA-AAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* * *
90662 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAAGATATCC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* * * *
90716 GAGATCCATACTCCTTAAAGAAAGAAGAAGCAAACCCG--TAAGAAGATGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTTC
* * * * *
90767 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGAAGAAGATATTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATGTTC
* *
90821 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT--GAAGTTGTTC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTTC
* * * *
90872 GAGTTCTATACTTCCTGAAA-AAAGAGGGAGCGAACCCGTTT--GAAGATTTTT
1 GAGTTCCATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTTC
* *
90923 GAGTTCCATACTCCCTGAA-AAAGAGGGAGCGAACC
1 GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACC
90958 TATAAGAAGA
Statistics
Matches: 1040, Mismatches: 126, Indels: 74
0.84 0.10 0.06
Matches are distributed among these distances:
50 21 0.02
51 141 0.14
52 142 0.14
53 205 0.20
54 524 0.50
55 7 0.01
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (53 bp):
GAGTTCCATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATGTTC
Found at i:90054 original size:107 final size:108
Alignment explanation
Indices: 89703--90957 Score: 1582
Period size: 107 Copynumber: 11.8 Consensus size: 108
89693 ATCGCGTTTA
* * * * *
89703 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACTCGTAAT-AAGAAGATGTTCGAGTTCCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGT-TTGAAGAAGATTTTCGAGTTCCATA
* * *
89767 CT-CTCTAAAGAAAGAGGGAGCGAACCCGTTCGCAGAAGATTTTC
65 CTCCT-TAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
89811 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCAAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
*
89876 TCCTTGAAG--AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
89917 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATTCGCAGAAGATTTTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
* *
89982 TCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTTT
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
90024 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTGGAAGAAGATTTTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
* * * *
90089 TCCCTAGAGAAAGAGGGAGTGAACCCGTTTGAA-AAGATGTCC
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
90131 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTCGCAGAAGGTTTTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
*
90196 TCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTTC
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* ** **
90238 GAGTTCCATACTCCTTAAAGAAAGAAAGAGCGAACCCGTAAGAAGAAGATTTTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
* * * *
90303 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT-AAAAAGATGTCC
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
90345 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATTGTTCGAGTTCCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATT-TTCGAGTTCCATA
* *
90407 CTCCTTAAAGAAAGAGGGAGCGAACCCGTTTCAAGAAGATGTCC
65 CTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
90451 GAGTTACATACTCCCTAGAGAAAGAGGGAACGAACCCGTTTG-A-AA-ATTATTCGAGTTCCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATT-TTCGAGTTCCATA
*
90513 CTCCATAGAA-AAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TC
65 CTCCTTA-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
90556 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TG-TGAAGATATCCGAGTTTCATA
1 -GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATA
* *
90618 CTCCCTAGAA-AAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
65 CTCCTTA-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
90662 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAAGATATCCGAGATCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
* * *
90727 TCCTTAAAGAAAGAAGAAGCAAACCCG--T-AAGAAGATGTTC
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
90767 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGAAGAAGATATTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
* *
90832 TCCTTAAAGAAAGAAGGAGCGAACCCGTTT---GAAGTTGTTC
66 TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
90872 GAGTTCTATACTTCCTGAAA-AAAGAGGGAGCGAACCCGTTT---GAAGATTTTTGAGTTCCATA
1 GAGTTCCATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATA
* *
90933 CTCCCTGAA-AAAGAGGGAGCGAACC
65 CTCCTTAAAGAAAGAGGGAGCGAACC
90958 TATAAGAAGA
Statistics
Matches: 1022, Mismatches: 102, Indels: 53
0.87 0.09 0.05
Matches are distributed among these distances:
101 15 0.01
102 25 0.02
104 9 0.01
105 269 0.26
106 241 0.24
107 335 0.33
108 126 0.12
109 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (108 bp):
GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATAC
TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:91136 original size:55 final size:55
Alignment explanation
Indices: 90978--91121 Score: 261
Period size: 55 Copynumber: 2.6 Consensus size: 55
90968 ATATGTCCGA
*
90978 GTCTTATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTTCGT
1 GTCTCATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTTCGT
91033 GTCTCATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTTCGT
1 GTCTCATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTTCGT
**
91088 GTCTCATACTCTCTGAATAAATAGAGAGCAGACA
1 GTCTCATACTCTCTGAACGAATAGAGAGCAGACA
91122 CAATTCTTAG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 86 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (55 bp):
GTCTCATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTTCGT
Found at i:91159 original size:55 final size:55
Alignment explanation
Indices: 90975--91159 Score: 196
Period size: 55 Copynumber: 3.4 Consensus size: 55
90965 AGAATATGTC
* * ** *
90975 CGAGTCTTATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTT
1 CGAGTCTCATACTCCCTGAATAAATAGAGAGCAGACAAGATTATTGAAGATTATT
* * ** *
91030 CGTGTCTCATACTCTCTGAACGAATAGAGAGCAGACAAGATTATTGAAGATTGTT
1 CGAGTCTCATACTCCCTGAATAAATAGAGAGCAGACAAGATTATTGAAGATTATT
* * *
91085 CGTGTCTCATACTCTCTGAATAAATAGAGAGCAGACACA-ATTCTT-AGAGATTATT
1 CGAGTCTCATACTCCCTGAATAAATAGAGAGCAGACA-AGATTATTGA-AGATTATT
*
91140 CGAGT-TCCATATTCCCTGAA
1 CGAGTCT-CATACTCCCTGAA
91160 AGCAATAGGG
Statistics
Matches: 118, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
54 2 0.02
55 115 0.97
56 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (55 bp):
CGAGTCTCATACTCCCTGAATAAATAGAGAGCAGACAAGATTATTGAAGATTATT
Found at i:94967 original size:22 final size:22
Alignment explanation
Indices: 94939--94990 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
94929 CAAGGTAGGT
94939 CAAATACAAAGTTCTTGAAGAA
1 CAAATACAAAGTTCTTGAAGAA
*
94961 CAAATACAAAGTTCTTGAAGAT
1 CAAATACAAAGTTCTTGAAGAA
94983 CAAATACA
1 CAAATACA
94991 GTCAAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (22 bp):
CAAATACAAAGTTCTTGAAGAA
Found at i:95089 original size:5 final size:5
Alignment explanation
Indices: 95076--95234 Score: 156
Period size: 5 Copynumber: 32.4 Consensus size: 5
95066 TCCATCAGGA
* *
95076 AAAAA AAAAG AAAA- AAATGAG AAAAG AAAAG AAAATT AAAAG AAAATG
1 AAAAG AAAAG AAAAG AAA--AG AAAAG AAAAG AAAA-G AAAAG AAAA-G
* *
95124 AAAAG AAAAG -AAAG AAAAG AAAAG AGAA- AAGAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
*
95172 AAAAG AAAAG AAAAG AAAA- AAGAA- AAAA- AAAAG AAAA- AAGAAA AAAAG
1 AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AAAAG AA-AAG AAAAG
95220 AAAAG --AAG AAAAG AA
1 AAAAG AAAAG AAAAG AA
95235 GAAAAAAATT
Statistics
Matches: 133, Mismatches: 8, Indels: 26
0.80 0.05 0.16
Matches are distributed among these distances:
3 3 0.02
4 19 0.14
5 96 0.72
6 12 0.09
7 3 0.02
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:95152 original size:43 final size:42
Alignment explanation
Indices: 95076--95234 Score: 117
Period size: 39 Copynumber: 3.9 Consensus size: 42
95066 TCCATCAGGA
* *
95076 AAAAAAAAAGAAAA-AAATGAGAAAAGAAAAGAAAATTAAAAGAAA
1 AAAAAAAAAGAAAAGAAA--AGAAAAG-AAAGAAAA-GAAAAGAGA
95121 ATGAAAAGAAAAG-AAAGAAAAGAAAAG--AGAAAAGAGAAA-AG-
1 A--AAAA-AAAAGAAAAGAAAAGAAAAGAAAGAAAAGA-AAAGAGA
* *
95162 AAAAGAAAAGAAAAGAAAAGAAAAG-AA-AAAAGAAAA-AAA
1 AAAAAAAAAGAAAAGAAAAGAAAAGAAAGAAAAGAAAAGAGA
95201 AAAGAAAAAAG-AAA-AAAAGAAAAG-AAGAAAAGAA
1 AAA-AAAAAAGAAAAGAAAAGAAAAGAAAGAAAAGAA
95235 GAAAAAAATT
Statistics
Matches: 99, Mismatches: 5, Indels: 26
0.76 0.04 0.20
Matches are distributed among these distances:
38 21 0.21
39 36 0.36
40 7 0.07
41 1 0.01
42 2 0.02
43 9 0.09
45 1 0.01
46 7 0.07
47 7 0.07
48 8 0.08
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (42 bp):
AAAAAAAAAGAAAAGAAAAGAAAAGAAAGAAAAGAAAAGAGA
Found at i:95153 original size:48 final size:45
Alignment explanation
Indices: 95076--95242 Score: 159
Period size: 48 Copynumber: 3.6 Consensus size: 45
95066 TCCATCAGGA
* *
95076 AAAAAAAAAGAAA-AAAATGAGAAAAGAAAAGAAAATTAAAAGAAAATG
1 AAAAGAAAAGAAAGAAAA-GA-AAAAGAAAAGAAAA-GAAAAGAAAA-G
95124 AAAAGAAAAGAAAGAAAAGAAAAGAGAAAAG---AGAAAAGAAAAG
1 AAAAGAAAAGAAAGAAAAGAAAA-AGAAAAGAAAAGAAAAGAAAAG
* *
95167 AAAAGAAAAGAAAAGAAAAGAAAAAAGAAAAAAAAAAGAAAA-AAGAAA
1 AAAAGAAAAG-AAAGAAAAG-AAAAAG-AAAAGAAAAGAAAAGAA-AAG
95215 AAAAGAAAAG-AAGAAAAGAAGAAA-AAAA
1 AAAAGAAAAGAAAGAAAAGAA-AAAGAAAA
95243 TTGAATCAAG
Statistics
Matches: 105, Mismatches: 4, Indels: 24
0.79 0.03 0.18
Matches are distributed among these distances:
43 11 0.10
44 24 0.23
45 11 0.10
46 11 0.10
47 5 0.05
48 39 0.37
49 4 0.04
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (45 bp):
AAAAGAAAAGAAAGAAAAGAAAAAGAAAAGAAAAGAAAAGAAAAG
Found at i:95241 original size:43 final size:42
Alignment explanation
Indices: 95075--95242 Score: 133
Period size: 43 Copynumber: 4.0 Consensus size: 42
95065 ATCCATCAGG
*
95075 AAAA-AAAAAAGAAAAAAATGAGAAAAGAAAAGAA-AATTAAAAGA
1 AAAAGAAAAAAGAAAAAAA-GAAAAAAGAAAAGAAGAA--AAAA-A
*
95119 AAATG--AAAAGAAAAGAAAG--AAAAGAAAAG-AGAAAAGAGAA
1 AAAAGAAAAAAGAAAA-AAAGAAAAAAGAAAAGAAGAAAA-A-AA
*
95159 AAGAA-AAGAAAAGAAAAGAAA-AGAAAAGAAAA-AAG-AAAAAA
1 AA-AAGAA-AAAAGAAAA-AAAGAAAAAAGAAAAGAAGAAAAAAA
95200 AAAAGAAAAAAGAAAAAAAGAAAAGAAGAAAAGAAGAAAAAAA
1 AAAAGAAAAAAGAAAAAAAGAAAA-AAGAAAAGAAGAAAAAAA
95243 TTGAATCAAG
Statistics
Matches: 104, Mismatches: 3, Indels: 35
0.73 0.02 0.25
Matches are distributed among these distances:
39 5 0.05
40 19 0.18
41 27 0.26
42 4 0.04
43 32 0.31
44 17 0.16
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (42 bp):
AAAAGAAAAAAGAAAAAAAGAAAAAAGAAAAGAAGAAAAAAA
Found at i:96802 original size:51 final size:52
Alignment explanation
Indices: 96740--96870 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 52
96730 CTATCTAGGC
* * * ** *
96740 ATCTTGAAGGCTCATATCACCATAAAAAAGACATAAGTTATCCATGTG-GGT
1 ATCTTGAAGGCTCACATCACCATAAAAAAGACAGAAGTAATCCACATGAGGA
* * *
96791 ATCTTAAAGGCTCACATCAGCATGAAAAAGACAGAAGTAATCCACATGAGGA
1 ATCTTGAAGGCTCACATCACCATAAAAAAGACAGAAGTAATCCACATGAGGA
* *
96843 ATCTTGAAGGCTCACACCATCATAAAAA
1 ATCTTGAAGGCTCACATCACCATAAAAA
96871 GGTTGGGATA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
51 40 0.61
52 26 0.39
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (52 bp):
ATCTTGAAGGCTCACATCACCATAAAAAAGACAGAAGTAATCCACATGAGGA
Found at i:98291 original size:20 final size:20
Alignment explanation
Indices: 98238--98292 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
98228 TCTAGAAAAT
* *
98238 TAAAACCTCGGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* *
98258 TAAATCCT-ACGGGTCATCTG
1 TAAAACCTCA-GGGTAATCTG
98278 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
98293 GGATGTTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:98364 original size:119 final size:119
Alignment explanation
Indices: 98153--98658 Score: 780
Period size: 119 Copynumber: 4.3 Consensus size: 119
98143 TCCTTAGGGC
* * *
98153 CATCTGTAAAACCTAAGGGTAGGATGTTTTCGCATGAAAATAAGAAAGCGATTTCCAAAGTTTCT
1 CATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCT
* *
98218 CATTTAATGTTCTAGAAAATTAAAACCTCGGGGTAATTTGTAAATCCTACGGGT
66 CATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGT
*
98272 CATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAATGAGAAAGCGATTACCAAAGTTTCT
1 CATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCT
* * *
98337 CATTTAATGTTCAAGAAAATTAAAACCTCCAGGTAATTTGTAAAACCTCCGGGT
66 CATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGT
* * * * *
98391 CATTTATAAAACCTCAGGGTAAGATGTTTTCGTATAAAAATGAGAAAGCGATTACCAAAGTTTCT
1 CATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCT
98456 CATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGT
66 CATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGT
* * *
98510 CATTTATAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGAAAGCGATTACCAAAGTTTCT
1 CATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCT
* * * * *
98575 CATTTAATGTTCTAGAAAATTAAATCCTCCTGTTGATTTATAAAAT-CTCCGGGT
66 CATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGT-AAATCCTCCGGGT
* *
98629 CATCTGTAAAACCTCCGGGTATGATGTTTT
1 CATCTGTAAAACCTCAGGGTAGGATGTTTT
98659 TACTTTAATT
Statistics
Matches: 357, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
119 353 0.99
120 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (119 bp):
CATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCT
CATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGT
Found at i:98382 original size:20 final size:20
Alignment explanation
Indices: 98357--98405 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
98347 TCAAGAAAAT
*
98357 TAAAACCTCCAGGTAATTTG
1 TAAAACCTCCAGGTAATTTA
* *
98377 TAAAACCTCCGGGTCATTTA
1 TAAAACCTCCAGGTAATTTA
98397 TAAAACCTC
1 TAAAACCTC
98406 AGGGTAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (20 bp):
TAAAACCTCCAGGTAATTTA
Found at i:98410 original size:20 final size:20
Alignment explanation
Indices: 98357--98412 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
98347 TCAAGAAAAT
*
98357 TAAAACCTCCA-GGTAATTTG
1 TAAAACCT-CAGGGTAATTTA
* *
98377 TAAAACCTCCGGGTCATTTA
1 TAAAACCTCAGGGTAATTTA
98397 TAAAACCTCAGGGTAA
1 TAAAACCTCAGGGTAA
98413 GATGTTTTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATTTA
Found at i:98504 original size:20 final size:20
Alignment explanation
Indices: 98476--98530 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
98466 TCTAGAAAAT
*
98476 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATTTA
* *
98496 TAAATCCTCCGGGTCATTTA
1 TAAAACCTCCGGGTAATTTA
*
98516 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
98531 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATTTA
Found at i:98799 original size:3 final size:3
Alignment explanation
Indices: 98791--98854 Score: 87
Period size: 3 Copynumber: 22.0 Consensus size: 3
98781 TCCGAGAATA
* * *
98791 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
98837 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
98855 AAATGTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 3 0.06
3 50 0.94
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:98824 original size:20 final size:20
Alignment explanation
Indices: 98801--98855 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
98791 TATTATTATT
98801 ATTATTATTATTATATTACA
1 ATTATTATTATTATATTACA
* **
98821 ATTATTATTATCATATTATT
1 ATTATTATTATTATATTACA
98841 ATTATTATTATTATA
1 ATTATTATTATTATA
98856 AATGTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTATTATTATATTACA
Found at i:102706 original size:29 final size:31
Alignment explanation
Indices: 102638--102707 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 31
102628 TTATATGTTT
102638 AATTTATATT-TATAAAAATGATTACATAATA
1 AATTT-TATTATATAAAAATGATTACATAATA
* * * *
102669 AAGTATATTATA-AAAAAT-ATTATATAATG
1 AATTTTATTATATAAAAATGATTACATAATA
102698 AATTTTATTA
1 AATTTTATTA
102708 CATTTAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 17 0.53
30 10 0.31
31 5 0.16
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (31 bp):
AATTTTATTATATAAAAATGATTACATAATA
Found at i:103827 original size:21 final size:21
Alignment explanation
Indices: 103803--103846 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
103793 ATCATCGTCC
*
103803 ATCATGTACTATCACAACAAT
1 ATCATGAACTATCACAACAAT
* *
103824 ATCATGAACTATTACATCAAT
1 ATCATGAACTATCACAACAAT
103845 AT
1 AT
103847 TGTAGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (21 bp):
ATCATGAACTATCACAACAAT
Found at i:104123 original size:24 final size:24
Alignment explanation
Indices: 104095--104143 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
104085 CAATATGCAT
*
104095 TAAAATTATATTAT-TGTTATAAAC
1 TAAAATAAT-TTATGTGTTATAAAC
*
104119 TAAAATAATTTATGTTTTATAAAC
1 TAAAATAATTTATGTGTTATAAAC
104143 T
1 T
104144 TTCTTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
TAAAATAATTTATGTGTTATAAAC
Found at i:104383 original size:22 final size:22
Alignment explanation
Indices: 104358--104399 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
104348 CAAGAAACTG
104358 AAAAT-GAAAATCATTTTCTAAA
1 AAAATAGAAAAT-ATTTTCTAAA
104380 AAAATAGAAAATATTTTCTA
1 AAAATAGAAAATATTTTCTA
104400 TAATGAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAATAGAAAATATTTTCTAAA
Found at i:105533 original size:21 final size:21
Alignment explanation
Indices: 105506--105594 Score: 115
Period size: 21 Copynumber: 4.1 Consensus size: 21
105496 TTTCCAAATT
*
105506 CGTTGCGATAGTCTAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* * *
105527 TGTTGCGATTTATTCCAAATTCG
1 CGTTGCGA--TAGTCCAAGTTCG
105550 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
105571 CGTTGCGATTGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
105592 CGT
1 CGT
105595 GGACGTGGTC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 41 0.71
23 17 0.29
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:105586 original size:42 final size:42
Alignment explanation
Indices: 105492--105594 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 42
105482 CGAACATCGA
* *
105492 CGATTTTCCAAATT--CGTTGCGATAGTCTAAGTTCGTGTTG
1 CGATTTTCCAAATTCGCGTTGCGATAGTCCAAGTTCGCGTTG
105532 CGATTTATTCCAAATTCGCGTTGCGATAGTCCAAGTTCGCGTTG
1 CGA-TT-TTCCAAATTCGCGTTGCGATAGTCCAAGTTCGCGTTG
* *
105576 CGATTGTCCAAGTTCGCGT
1 CGATTTTCCAAATTCGCGT
105595 GGACGTGGTC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 3 0.05
41 2 0.04
42 21 0.38
43 2 0.04
44 27 0.49
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (42 bp):
CGATTTTCCAAATTCGCGTTGCGATAGTCCAAGTTCGCGTTG
Found at i:105761 original size:42 final size:42
Alignment explanation
Indices: 105702--106048 Score: 586
Period size: 42 Copynumber: 8.3 Consensus size: 42
105692 TGCGATTTAG
105702 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
105744 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
105786 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
105828 GACTATCGCAACGAATTTGGAATAAATCGCAAAGAGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
**
105870 GACTATCGCAATAAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
105912 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
105954 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
105996 GACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
106038 GACTATCGCAA
1 GACTATCGCAA
106049 ATCAGTTTCC
Statistics
Matches: 289, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 289 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:106116 original size:21 final size:21
Alignment explanation
Indices: 105702--106116 Score: 109
Period size: 21 Copynumber: 19.8 Consensus size: 21
105692 TGCGATTTAG
*
105702 GACTATCGC-A-ACGAACTTG
1 GACTATCGCAACACGAACTTA
* * *
105721 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACACGAACTTA
*
105744 GACTATCGC-A-ACGAACTTG
1 GACTATCGCAACACGAACTTA
* * *
105763 GAATAAATCGCAACGCGAACTTG
1 GACT--ATCGCAACACGAACTTA
* *
105786 GACTATCGC-A-ACGAATTTG
1 GACTATCGCAACACGAACTTA
* * *
105805 GAATAAATCGCAACGCGAACTTG
1 GACT--ATCGCAACACGAACTTA
* *
105828 GACTATCGC-A-ACGAATTTG
1 GACTATCGCAACACGAACTTA
* * *
105847 GAATAAATCGCAA-AGAGAACTTC
1 GACT--ATCGCAACA-CGAACTTA
* *
105870 GACTATCGCAATA--AACTTG
1 GACTATCGCAACACGAACTTA
* * *
105889 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACACGAACTTA
*
105912 GACTATCGC-A-ACGAACTTG
1 GACTATCGCAACACGAACTTA
* * *
105931 GAATAAATCGCAACGCGAACTTG
1 GACT--ATCGCAACACGAACTTA
* *
105954 GACTATCGC-A-ACGAATTTG
1 GACTATCGCAACACGAACTTA
* * *
105973 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACACGAACTTA
*
105996 GACTATCGC-A-ACGAA-TTT
1 GACTATCGCAACACGAACTTA
* * *
106014 GTAATAAATCGCAACGCGAACTTC
1 G-ACT--ATCGCAACACGAACTTA
**
106038 GACTATCGCAA-ATC-AGTTTCCA
1 GACTATCGCAACA-CGAACTT--A
* *
106060 GA-T-TCGCAACGCGAACTTC
1 GACTATCGCAACACGAACTTA
*
106079 GACTATCGCAACGCGAACTTA
1 GACTATCGCAACACGAACTTA
*
106100 GACTATCGCAATACGAA
1 GACTATCGCAACACGAA
106117 TATGTAAATC
Statistics
Matches: 297, Mismatches: 57, Indels: 82
0.68 0.13 0.19
Matches are distributed among these distances:
18 3 0.01
19 69 0.23
20 17 0.06
21 121 0.41
22 11 0.04
23 73 0.25
24 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACACGAACTTA
Found at i:106808 original size:14 final size:15
Alignment explanation
Indices: 106788--106830 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
106778 TTGATAATCC
106788 GTTCATTTATGTTCT
1 GTTCATTTATGTTCT
106803 -TTCATTTATGTT-T
1 GTTCATTTATGTTCT
*
106816 GTTCGTTTATGTTCT
1 GTTCATTTATGTTCT
106831 CTAGACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.63
Consensus pattern (15 bp):
GTTCATTTATGTTCT
Found at i:107036 original size:19 final size:20
Alignment explanation
Indices: 107012--107052 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
107002 TAATTTTATG
107012 TACGTTCGTTTATGTTT-TT
1 TACGTTCGTTTATGTTTGTT
*
107031 TACGTTTGTTTATGTTTGTT
1 TACGTTCGTTTATGTTTGTT
107051 TA
1 TA
107053 TCTTTGTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.12, C:0.07, G:0.17, T:0.63
Consensus pattern (20 bp):
TACGTTCGTTTATGTTTGTT
Found at i:107047 original size:10 final size:10
Alignment explanation
Indices: 107019--107060 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
107009 ATGTACGTTC
107019 GTTTATGTTT
1 GTTTATGTTT
*
107029 -TTTACGTTT
1 GTTTATGTTT
107038 GTTTATGTTT
1 GTTTATGTTT
*
107048 GTTTATCTTT
1 GTTTATGTTT
107058 GTT
1 GTT
107061 CGTTTGCGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.10, C:0.05, G:0.17, T:0.69
Consensus pattern (10 bp):
GTTTATGTTT
Found at i:115630 original size:36 final size:36
Alignment explanation
Indices: 115556--115630 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
115546 TTTTTATATT
*
115556 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* * *
115592 TTTAATTTTTTAAAGAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTAT-CAA
115628 TTT
1 TTT
115631 GTAATATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:117006 original size:91 final size:89
Alignment explanation
Indices: 116867--117045 Score: 288
Period size: 91 Copynumber: 2.0 Consensus size: 89
116857 TACTTTATTA
*
116867 TCATTTAAATACTTAAAGTTATTTGATCAAAATAATACCTAAAATCATCTTTTTAGTCAAAATA-
1 TCATTTAAATAATTAAAGTTATTTGATCAAAATAATACCTAAAATCATCTTTTTAGTCAAAATAG
116931 GAACCTAAACTATTCAATTTTTTT
66 GAACCTAAACTATTCAATTTTTTT
* *
116955 TCATTTAAGTAATTAAAGTATTATTTGGTCAAAATAAATACCTAAAATCATCTTTTTAGTCAAAA
1 TCATTTAAATAATTAAAG--TTATTTGATCAAAAT-AATACCTAAAATCATCTTTTTAGTCAAAA
*
117020 TAGGTACCTAAACTATTCAATTTTTT
63 TAGGAACCTAAACTATTCAATTTTTT
117046 CCATCGAAGA
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
88 16 0.19
90 14 0.17
91 31 0.37
92 22 0.27
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (89 bp):
TCATTTAAATAATTAAAGTTATTTGATCAAAATAATACCTAAAATCATCTTTTTAGTCAAAATAG
GAACCTAAACTATTCAATTTTTTT
Found at i:117017 original size:31 final size:30
Alignment explanation
Indices: 116893--117031 Score: 81
Period size: 31 Copynumber: 4.6 Consensus size: 30
116883 AGTTATTTGA
116893 TCAAAAT-AATACCTAAAATCATCTTTTTAG
1 TCAAAATAAATACCTAAAATCAT-TTTTTAG
* *
116923 TCAAAATAGA-ACCTAAACTATTCAATTTTTT-T
1 TCAAAATAAATACCTAAA--A-TC-ATTTTTTAG
** * ** * * *
116955 TC-ATTTAAGTAATTAAAGT-ATTATTTGG
1 TCAAAATAAATACCTAAAATCATTTTTTAG
116983 TCAAAATAAATACCTAAAATCATCTTTTTAG
1 TCAAAATAAATACCTAAAATCAT-TTTTTAG
**
117014 TCAAAATAGGTACCTAAA
1 TCAAAATAAATACCTAAA
117032 CTATTCAATT
Statistics
Matches: 78, Mismatches: 21, Indels: 19
0.66 0.18 0.16
Matches are distributed among these distances:
27 6 0.08
28 2 0.03
29 12 0.15
30 16 0.21
31 25 0.32
32 8 0.10
33 7 0.09
34 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.37
Consensus pattern (30 bp):
TCAAAATAAATACCTAAAATCATTTTTTAG
Found at i:117203 original size:33 final size:31
Alignment explanation
Indices: 117121--117206 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
117111 AAAAAATTGG
* * *
117121 ATACTTTAAGTAGTTGTTTTGACCAAAAAAA
1 ATACTTTAAGTACTTATTTTGACAAAAAAAA
* *
117152 ATACTTTACGTACCTATTTTGACAAAAAAAA
1 ATACTTTAAGTACTTATTTTGACAAAAAAAA
*
117183 TATAACTTGAAGTACTTATTTTGA
1 -AT-ACTTTAAGTACTTATTTTGA
117207 TTAAAAATAC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 26 0.58
32 2 0.04
33 17 0.38
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (31 bp):
ATACTTTAAGTACTTATTTTGACAAAAAAAA
Found at i:117213 original size:33 final size:31
Alignment explanation
Indices: 117137--117206 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 31
117127 TAAGTAGTTG
* * *
117137 TTTTGACCAAAAAAAATACTTTACGTACCTA
1 TTTTGACAAAAAAAAATACTTGAAGTACCTA
*
117168 TTTTGACAAAAAAAATATAACTTGAAGTACTTA
1 TTTTGACAAAAAAAA-AT-ACTTGAAGTACCTA
117201 TTTTGA
1 TTTTGA
117207 TTAAAAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 14 0.42
32 2 0.06
33 17 0.52
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (31 bp):
TTTTGACAAAAAAAAATACTTGAAGTACCTA
Done.