Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008657.1 Hibiscus syriacus cultivar Beakdansim tig00111651_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: 148917
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:11260 original size:21 final size:21
Alignment explanation
Indices: 11234--11279 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
11224 CACCTTTTAG
11234 TTCTTTAAAATCAAAGAACCA
1 TTCTTTAAAATCAAAGAACCA
11255 TTCTTTAAAATCAAAGAACCA
1 TTCTTTAAAATCAAAGAACCA
11276 TTCT
1 TTCT
11280 CTATTGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
TTCTTTAAAATCAAAGAACCA
Found at i:14931 original size:181 final size:182
Alignment explanation
Indices: 14617--15091 Score: 710
Period size: 181 Copynumber: 2.6 Consensus size: 182
14607 CGATCCAAAT
* * *
14617 TAAAAATGTATCGATCCATATCAATATAACAGGTAAAAATATCGATAAAACCGGTCA-CGAAA-A
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATAT-GATAAAACCGGT-ATCGAAATA
* * ** * * *
14680 GACAATACCGGTAAA-TCCTTACCGGATATATTGAACGTGTCGATACTTTAATATAATGATCGAT
64 -ATAAAACCGGTAAAGAGC-TACCGGATATATTTAAAGTGTCGATACTTTAATATAATGATCGAC
14744 ACTTTGTGAATTTAAAAGAGAAGCA-TTTTTAACGCCTATAAAGTGTCGATACTTTA
127 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTT-ACGCCTATAAAGTGTCGATACTTTA
*
14800 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGA-CAAACCGGTATCGAAATAAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCGAAATAAT
*
14864 AAAACCGGTAAAGAGCTACCGAATATATTTAAAGTGTCGATACTTTAATATAA-GTATCGACACT
66 AAAACCGGTAAAGAGCTACCGGATATATTTAAAGTGTCGATACTTTAATATAATG-ATCGACACT
*
14928 TTGTGAATTTAAAATAGAAGCAGTTTTTACGCCTATAAAGTGTCGATACTTTA
130 TTGTGAATTTAAAAGAGAAGCAGTTTTTACGCCTATAAAGTGTCGATACTTTA
* *
14981 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCGAAATAAT
*
15046 AAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTT
66 AAAACCGGTAAAGAGCTACCGGATATATTTAAAGTGTCGATACTTT
15092 CATAAGTACG
Statistics
Matches: 268, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
180 2 0.01
181 157 0.59
182 70 0.26
183 39 0.15
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCGAAATAAT
AAAACCGGTAAAGAGCTACCGGATATATTTAAAGTGTCGATACTTTAATATAATGATCGACACTT
TGTGAATTTAAAAGAGAAGCAGTTTTTACGCCTATAAAGTGTCGATACTTTA
Found at i:15035 original size:20 final size:19
Alignment explanation
Indices: 15012--15057 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
15002 CGATATAACA
15012 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
15032 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
15052 GGTAAA
1 GGTAAA
15058 GCGCTACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:17200 original size:15 final size:15
Alignment explanation
Indices: 17180--17227 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
17170 TGGTTGTATT
17180 GGGGGATGATGGTGA
1 GGGGGATGATGGTGA
17195 GGGGGATGATGGTGA
1 GGGGGATGATGGTGA
*
17210 GGGGGATGACGGTGA
1 GGGGGATGATGGTGA
17225 GGG
1 GGG
17228 AAAACAGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.02, G:0.62, T:0.17
Consensus pattern (15 bp):
GGGGGATGATGGTGA
Found at i:17338 original size:21 final size:21
Alignment explanation
Indices: 17314--17353 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17304 CAATCAAGAG
*
17314 TCGAATAGAAACTTGAGAGAA
1 TCGAAGAGAAACTTGAGAGAA
* *
17335 TCGAAGATACACTTGAGAG
1 TCGAAGAGAAACTTGAGAG
17354 GCATAAGGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.20
Consensus pattern (21 bp):
TCGAAGAGAAACTTGAGAGAA
Found at i:17429 original size:33 final size:33
Alignment explanation
Indices: 17387--17452 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
17377 AAATAGATGG
*
17387 AGTGGTGAAAAAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAAAAGTAGAGGTGTTAAGGGGTGA
* *
17420 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAAAAGTAGAGGTGTTAAGGGGTGA
17453 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAAAAGTAGAGGTGTTAAGGGGTGA
Found at i:19301 original size:19 final size:19
Alignment explanation
Indices: 19274--19319 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
19264 AAGGTTAATT
*
19274 TTTTTTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
19293 TTTTGTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
*
19312 ATTTGTAT
1 TTTTGTAT
19320 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
TTTTGTATAAGATTTATAA
Found at i:20209 original size:201 final size:201
Alignment explanation
Indices: 19850--20310 Score: 687
Period size: 201 Copynumber: 2.3 Consensus size: 201
19840 AACCGGTATA
*
19850 TTTATGAGAGAATAGGTCTACAACATGTATCGATACTTTTTTAATTTTATGTCGATACTTTTGGT
1 TTTATGAGAGAATAGGTCTACAACATGTATCGATACTTTTTTAATTTTGTGTCGATACTTTTGGT
* * *
19915 CCAGAATTGATGCCAAAAAGGGTGAACGCATAAAGTGTCGTTACATTTCCAAAAAGTGTCGATCC
66 CCAGAATTGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTACAAAAAGTATCGATCC
* * *
19980 CAAAAACATCGAAACCCGTAATTATAATGTAATAGGTAAATTTTCAATGTAACTGGGATAAATAT
131 CAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGGATAAATAT
20045 ACCGGT
196 ACCGGT
* *
20051 TTTATGAGAGAATAGGTCTACAACATGTATCAATACTTTTTTAATTTTGTTTCGATACTTTTGGT
1 TTTATGAGAGAATAGGTCTACAACATGTATCGATACTTTTTTAATTTTGTGTCGATACTTTTGGT
** *
20116 CTTGAA-TGAATGCCAAAAAGGGTGCAAC-CATAAAGTGTCGATACATTTATAAAAAGTATCGAT
66 CCAGAATTG-ATGCCAAAAAGGGTG-AACGCATAAAGTGTCGATACATTTACAAAAAGTATCGAT
* * * * *
20179 CCCAGAAACATATG-CATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGTATAAA
129 CCCAAAAACAT-CGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGGATAAA
*
20243 TATATCGGT
193 TATACCGGT
*
20252 TTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTT-ATTTTGTGTCGATACT
1 TTTATGAGAGAATAGGTCTACAACATGTATCGATAC-TTTTTTAATTTTGTGTCGATACT
20311 AATTTAAATA
Statistics
Matches: 235, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
200 2 0.01
201 223 0.95
202 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (201 bp):
TTTATGAGAGAATAGGTCTACAACATGTATCGATACTTTTTTAATTTTGTGTCGATACTTTTGGT
CCAGAATTGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTACAAAAAGTATCGATCC
CAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGGATAAATAT
ACCGGT
Found at i:21820 original size:12 final size:12
Alignment explanation
Indices: 21786--21820 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21776 CAAGCGGCCA
*
21786 ATGACGATGAAG
1 ATGACGATGATG
21798 ATGACGATGATG
1 ATGACGATGATG
*
21810 ATGATGATGAT
1 ATGACGATGAT
21821 CCAAACAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (12 bp):
ATGACGATGATG
Found at i:22545 original size:20 final size:20
Alignment explanation
Indices: 22497--22545 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22487 ACAGATGTTC
22497 ATAATTATAATGTAATAGGT
1 ATAATTATAATGTAATAGGT
*
22517 A-AATTTATAATGTAATCGGT
1 ATAA-TTATAATGTAATAGGT
*
22537 ATAAATATA
1 ATAATTATA
22546 CCGATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (20 bp):
ATAATTATAATGTAATAGGT
Found at i:25519 original size:200 final size:197
Alignment explanation
Indices: 25119--25820 Score: 736
Period size: 200 Copynumber: 3.5 Consensus size: 197
25109 ACCTAAATAT
* * *
25119 GTGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
** * * * * *
25182 TAGAAAAATTAACAATGTAACCGATATAAATATACCGG-TTAATTAGAAAACATGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAAT
* * ** *
25246 GTATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGGATGAATGCACAAACGAGGT-GC
128 GTATCGACACTTGT-TAATTTGTGTCGATACTT-TTGTCCAGAATGAATAC-CAAAAAAGGTGGA
25310 ACACATAAA
190 AC-CATAAA
*
25319 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTATTA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
25384 GGTAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGATAAAATAGGTCAGCATCAA-G
66 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCA-CAT-AATG
*
25448 TATCGACACTTGCTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATACCAAAAAAGGTGGAAC
129 TATCGACACTTG-TTAATTTGTGTCGATACTTTT-GTCCAGAATGAATACCAAAAAAGGTGGAAC
25513 CATAAA
192 CATAAA
* * * * * *
25519 GTGTCGATACATTTATAAAAAATATCGATTCCGAAAATATCGAAAGCC-ATAAGTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAATGTAAT
* * * * *
25583 AGGTAAATTTTCAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAAATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAATG
* * * ** *
25648 TATCGACACGTTGTTAGTTTGTTTCGATACTTTTTTCCAGAATGAAATATGAATGTCCAACCAGG
129 TATCGACAC-TTGTTAATTTGTGTCGATACTTTTGTCCAGAATG-AATACCAA-----AA-AAGG
* *
25713 TGCAAGCATAAA
186 TGGAACCATAAA
* ** * *
25725 GTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGTAACCGATAATAATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
25788 AGGTAAATTTGCAATGTTACCGGTATAAATATA
65 AGGTAAATTTACAATGTAACCGATATAAATATA
25821 TCGATTTACT
Statistics
Matches: 426, Mismatches: 55, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
199 11 0.03
200 244 0.57
201 72 0.17
202 3 0.01
204 5 0.01
205 63 0.15
206 28 0.07
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCACATAATGTA
TCGACACTTGTTAATTTGTGTCGATACTTTTGTCCAGAATGAATACCAAAAAAGGTGGAACCATA
AA
Found at i:26198 original size:20 final size:20
Alignment explanation
Indices: 26175--26212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26165 GATCGATTTT
26175 TATTTA-AATTTAATAATAAA
1 TATTTATAATTT-ATAATAAA
26195 TATTTATAATTTATAATA
1 TATTTATAATTTATAATA
26213 CTATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTATAATTTATAATAAA
Found at i:26301 original size:31 final size:31
Alignment explanation
Indices: 26238--26297 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
26228 ATATTATACA
*
26238 TATTTGATAGACTTGACTCAAACATTAAAAC
1 TATTTGATAGACTTGACTAAAACATTAAAAC
*
26269 TATTTGATGGACTTGACTAAAAC-TTAAAA
1 TATTTGATAGACTTGACTAAAACATTAAAA
26298 ACTAATCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (31 bp):
TATTTGATAGACTTGACTAAAACATTAAAAC
Found at i:30372 original size:13 final size:14
Alignment explanation
Indices: 30315--30372 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
30305 TAAATGAGAA
30315 ATAA-TAAAAAAAT
1 ATAATTAAAAAAAT
*
30328 ATAATTTAACAAAAT
1 ATAA-TTAAAAAAAT
*
30343 A-AAGTAAATACAAAT
1 ATAATTAAA-A-AAAT
30358 ATAA-TAAAAAAAT
1 ATAATTAAAAAAAT
30371 AT
1 AT
30373 CTATCGATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
13 13 0.35
14 4 0.11
15 18 0.49
16 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (14 bp):
ATAATTAAAAAAAT
Found at i:30866 original size:18 final size:18
Alignment explanation
Indices: 30843--30878 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30833 GCGATGACGA
*
30843 CATCATATATGGATGCGG
1 CATCATAAATGGATGCGG
*
30861 CATCATAAATGGCTGCGG
1 CATCATAAATGGATGCGG
30879 TGGCTGCTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (18 bp):
CATCATAAATGGATGCGG
Found at i:32582 original size:17 final size:18
Alignment explanation
Indices: 32539--32579 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
32529 CAATTATATT
32539 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
32556 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
32574 ATTAAA
1 AGTAAA
32580 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:35072 original size:13 final size:14
Alignment explanation
Indices: 35054--35087 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
35044 TTTTTATTTA
35054 TTTAATTTTAG-CT
1 TTTAATTTTAGTCT
35067 TTTAATTTTAGTCT
1 TTTAATTTTAGTCT
*
35081 CTTAATT
1 TTTAATT
35088 ATTACGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTAATTTTAGTCT
Found at i:35875 original size:19 final size:19
Alignment explanation
Indices: 35851--35909 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
35841 TTAATTTTTC
35851 TTATTTTGGTTGAATCAAA
1 TTATTTTGGTTGAATCAAA
** *
35870 TTA-TTT-AAT--CTCAAA
1 TTATTTTGGTTGAATCAAA
35885 TTATTTTGGTTGAATCAAA
1 TTATTTTGGTTGAATCAAA
35904 TTATTT
1 TTATTT
35910 AATCTCAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 2 0.07
18 3 0.10
19 14 0.47
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (19 bp):
TTATTTTGGTTGAATCAAA
Found at i:35889 original size:34 final size:34
Alignment explanation
Indices: 35851--35921 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
35841 TTAATTTTTC
35851 TTATTTTGGTTGAATCAAATTATTTAATCTCAAA
1 TTATTTTGGTTGAATCAAATTATTTAATCTCAAA
35885 TTATTTTGGTTGAATCAAATTATTTAATCTCAAA
1 TTATTTTGGTTGAATCAAATTATTTAATCTCAAA
35919 TTA
1 TTA
35922 ATTGGATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (34 bp):
TTATTTTGGTTGAATCAAATTATTTAATCTCAAA
Found at i:36837 original size:14 final size:14
Alignment explanation
Indices: 36814--36840 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36804 AATTTCAATC
36814 CTTTAATTTTATTA
1 CTTTAATTTTATTA
36828 CTTTAATTTTATT
1 CTTTAATTTTATT
36841 TTTTATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTAATTTTATTA
Found at i:36939 original size:2 final size:2
Alignment explanation
Indices: 36932--36962 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36922 ATTCCATGAG
36932 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 T
36963 GCATGTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39347 original size:28 final size:28
Alignment explanation
Indices: 39314--39371 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
39304 GCATTTATAT
**
39314 TTTGTATTCCCATATTTGCATCTTTGCA
1 TTTGTATGACCATATTTGCATCTTTGCA
* * *
39342 TTTGTATGAGCATCTTTGTATCTTTGCA
1 TTTGTATGACCATATTTGCATCTTTGCA
39370 TT
1 TT
39372 AGCATTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (28 bp):
TTTGTATGACCATATTTGCATCTTTGCA
Found at i:41303 original size:12 final size:11
Alignment explanation
Indices: 41275--41308 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
41265 TGCTCACACA
41275 AACACATACAT
1 AACACATACAT
41286 AA-ACATACAT
1 AACACATACAT
41296 CAACACATACAT
1 -AACACATACAT
41308 A
1 A
41309 CATGACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (11 bp):
AACACATACAT
Found at i:41777 original size:38 final size:37
Alignment explanation
Indices: 41705--42077 Score: 229
Period size: 37 Copynumber: 10.5 Consensus size: 37
41695 TTGGGTGCTG
** * * *
41705 TTTCTCTCGAAACAAAATGTCGTCTCGCTAGAGACATT
1 TTTCTCTAAAAAC-AAATTTCGTCTCACTTGAGACATT
*
41743 ATGTTCT-TAAAAACAAATTTTGTCTCACTTGAGACATT
1 -T-TTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
* * * * * *
41781 TTTCTCTTAAAACAAATGTCATCTCGCTAGAGAAATT
1 TTTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
* * *
41818 GTTT-TCTTAAAAATAAATTTTGTCTCACTTTAGACATT
1 -TTTCTC-TAAAAACAAATTTCGTCTCACTTGAGACATT
*
41856 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACATT
1 TTTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
* * * *
41893 TTCCT-TAGGAACACAAATTTC--C-AAGTT--G---TT
1 TTTCTCTA--AAAACAAATTTCGTCTCACTTGAGACATT
41923 TTTCT-T-AAAACAAA-TT-GTCTCACTTGAGACATT
1 TTTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
* *
41956 TTTCTCTTAAAACAAACTTCGTCTCACTTGAGACATT
1 TTTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
* * * ** *
41993 TTCCTTCGAAACACAAATTT--T-AAAGTT--G---TT
1 TTTC-TCTAAAAACAAATTTCGTCTCACTTGAGACATT
*
42023 TTTCT-TAAAAACAAATTTTGTCTCACTTGAGACATT
1 TTTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
*
42059 TTTCTCTTAAAAC-AATTTC
1 TTTCTCTAAAAACAAATTTC
42078 TCTTGAAACA
Statistics
Matches: 254, Mismatches: 51, Indels: 61
0.69 0.14 0.17
Matches are distributed among these distances:
26 2 0.01
27 8 0.03
28 14 0.06
29 1 0.00
30 14 0.06
31 3 0.01
33 10 0.04
34 1 0.00
35 14 0.06
36 21 0.08
37 87 0.34
38 69 0.27
39 6 0.02
40 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (37 bp):
TTTCTCTAAAAACAAATTTCGTCTCACTTGAGACATT
Found at i:41811 original size:75 final size:75
Alignment explanation
Indices: 41705--41892 Score: 268
Period size: 75 Copynumber: 2.5 Consensus size: 75
41695 TTGGGTGCTG
**
41705 TTTCTCTCGAAACAAAATGTCGTCTCGCTAGAGACATTATGTTCTTAAAAACAAATTTTGTCTCA
1 TTTCTCTTAAAAC-AAATGTCGTCTCGCTAGAGACATTATGTTCTTAAAAACAAATTTTGTCTCA
41770 CTTGAGACATT
65 CTTGAGACATT
* * * * *
41781 TTTCTCTTAAAACAAATGTCATCTCGCTAGAGAAATTGTTTTCTTAAAAATAAATTTTGTCTCAC
1 TTTCTCTTAAAACAAATGTCGTCTCGCTAGAGACATTATGTTCTTAAAAACAAATTTTGTCTCAC
*
41846 TTTAGACATT
66 TTGAGACATT
* * *
41856 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACATT
1 TTTCTCTTAAAACAAATGTCGTCTCGCTAGAGACATT
41893 TTCCTTAGGA
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
75 88 0.89
76 11 0.11
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (75 bp):
TTTCTCTTAAAACAAATGTCGTCTCGCTAGAGACATTATGTTCTTAAAAACAAATTTTGTCTCAC
TTGAGACATT
Found at i:41911 original size:75 final size:75
Alignment explanation
Indices: 41705--42073 Score: 233
Period size: 75 Copynumber: 5.2 Consensus size: 75
41695 TTGGGTGCTG
** * * * *
41705 TTTCTCTCGAAACAAAATGTCGTCTCGCTAGAGACATTATGTT-CTTAAAAACAAATTTTGTCTC
1 TTTCTCTTAAAAC-AAATGTCATCTCACTAGAGAAATTGT-TTCCTTAAAAACAAATTTTGTCTC
41769 ACTTGAGACATT
64 ACTTGAGACATT
* * *
41781 TTTCTCTTAAAACAAATGTCATCTCGCTAGAGAAATTGTTTTCTTAAAAATAAATTTTGTCTCAC
1 TTTCTCTTAAAACAAATGTCATCTCACTAGAGAAATTGTTTCCTTAAAAACAAATTTTGTCTCAC
*
41846 TTTAGACATT
66 TTGAGACATT
* * * * *
41856 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACA-T-TTTCCTTAGGAACACAAA--TT-TC-C
1 TTTCTCTTAAAACAAATGTCATCTCACTAGAGAAATTGTTTCCTTA--AAAACAAATTTTGTCTC
41915 A----AG---TT
64 ACTTGAGACATT
* * * * * *
41920 GTTTTTCTTAAAACAAAT-T-GTCTCACTTGAGACATT-TTTCTCTT-AAAACAAACTTCGTCTC
1 -TTTCTCTTAAAACAAATGTCATCTCACTAGAGAAATTGTTTC-CTTAAAAACAAATTTTGTCTC
41981 ACTTGAGACA-T
64 ACTTGAGACATT
*
41992 TTTC-CTTCGAAACACAAAT-T--T-T-A--A-AG---TTGTTTTTCTTAAAAACAAATTTTGTC
1 TTTCTCTT--AAA-ACAAATGTCATCTCACTAGAGAAATTG-TTTCCTTAAAAACAAATTTTGTC
42045 TCACTTGAGACATT
62 TCACTTGAGACATT
42059 TTTCTCTTAAAACAA
1 TTTCTCTTAAAACAA
42074 TTTCTCTTGA
Statistics
Matches: 245, Mismatches: 23, Indels: 61
0.74 0.07 0.19
Matches are distributed among these distances:
62 7 0.03
63 15 0.06
64 11 0.04
65 28 0.11
66 33 0.13
67 9 0.04
68 3 0.01
70 6 0.02
71 6 0.02
72 7 0.03
73 16 0.07
74 3 0.01
75 90 0.37
76 11 0.04
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (75 bp):
TTTCTCTTAAAACAAATGTCATCTCACTAGAGAAATTGTTTCCTTAAAAACAAATTTTGTCTCAC
TTGAGACATT
Found at i:42010 original size:100 final size:102
Alignment explanation
Indices: 41819--42073 Score: 415
Period size: 100 Copynumber: 2.5 Consensus size: 102
41809 AGAGAAATTG
* * *
41819 TTTTCTTAAAAATAAATTTTGTCTCACTTTAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
1 TTTTCTTAAAAACAAA-TTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAACTTCGTCTCACT
* *
41884 TGAGACATTTTCCTTAGGAACACAAATTTCCAAGTTGT
65 TGAGACATTTTCCTTAGAAACACAAATTTCAAAGTTGT
41922 TTTTCTT-AAAACAAA-TTGTCTCACTTGAGACATTTTTCTCTTAAAACAAACTTCGTCTCACTT
1 TTTTCTTAAAAACAAATTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAACTTCGTCTCACTT
* *
41985 GAGACATTTTCCTTCGAAACACAAATTTTAAAGTTGT
66 GAGACATTTTCCTTAGAAACACAAATTTCAAAGTTGT
42022 TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAA
1 TTTTCTTAAAAACAAA-TTTGTCTCACTTGAGACATTTTTCTCTTAAAACAA
42074 TTTCTCTTGA
Statistics
Matches: 142, Mismatches: 7, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
100 86 0.61
101 8 0.06
102 7 0.05
103 41 0.29
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (102 bp):
TTTTCTTAAAAACAAATTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAACTTCGTCTCACTT
GAGACATTTTCCTTAGAAACACAAATTTCAAAGTTGT
Found at i:42079 original size:15 final size:15
Alignment explanation
Indices: 42059--42088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42049 TTGAGACATT
42059 TTTCTCTTAAAACAA
1 TTTCTCTTAAAACAA
*
42074 TTTCTCTTGAAACAA
1 TTTCTCTTAAAACAA
42089 AATCTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (15 bp):
TTTCTCTTAAAACAA
Found at i:42136 original size:66 final size:65
Alignment explanation
Indices: 42061--42258 Score: 265
Period size: 66 Copynumber: 3.0 Consensus size: 65
42051 GAGACATTTT
* * *
42061 TCTCTTAAAACAATTTCTCTTGAAACAAAATCTTTAAATATGTTTCCCTTGAAACAAAATTTTGT
1 TCTCTTAAAACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTAAAACAAAA-TTTGT
42126 C
65 C
*
42127 TCTCTTAAAACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTT-CCTTTAAA-AAAATTTGTC
1 TCTCTTAAAACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTAAAACAAAATTTGTC
* * * * * *
42190 TCCCTTGAGACAGTCTCTCTTGAAACACAAAATCTTTGAATATGTTTCCATTAAAACAAGATTTG
1 TCTCTTAAAACAGTTTCTCTTG-AA-ACAAAATCTTTGAATATGTTTCCCTTAAAACAAAATTTG
42255 TC
64 TC
42257 TC
1 TC
42259 GATTGAGACA
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
63 24 0.20
64 6 0.05
65 28 0.24
66 49 0.42
67 11 0.09
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (65 bp):
TCTCTTAAAACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTAAAACAAAATTTGTC
Found at i:42331 original size:36 final size:36
Alignment explanation
Indices: 42291--42398 Score: 85
Period size: 40 Copynumber: 2.9 Consensus size: 36
42281 AAGAATACAT
42291 TTCATTTCACTACAGATTATTTTTCTTAAAACAAG-A
1 TTCATTTCACT-CAGATTATTTTTCTTAAAACAAGAA
* * ***
42327 TTCATCTCACTTGAGA-TAGTTTTTCCCCGAAACAAGAATA
1 TTCATTTCAC-TCAGATTA-TTTTT-CTTAAAACAAG-A-A
*
42367 TTCATTTCACTCAAGATTGTTTTTCTTAAAAC
1 TTCATTTCACTC-AGATTATTTTTCTTAAAAC
42399 CAAATTTTAT
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
35 2 0.04
36 17 0.32
37 9 0.17
39 6 0.11
40 18 0.34
41 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.40
Consensus pattern (36 bp):
TTCATTTCACTCAGATTATTTTTCTTAAAACAAGAA
Found at i:42434 original size:76 final size:75
Alignment explanation
Indices: 42291--42434 Score: 186
Period size: 76 Copynumber: 1.9 Consensus size: 75
42281 AAGAATACAT
42291 TTCATTTCACTACAGATTATTTTTCTTAAAACAAGATTCATCTCACTTGAGATAGTTTTTCCCCG
1 TTCATTTCACTACAGATTATTTTTCTTAAAACAAGATTCATCTCACTTGAGATAG-TTTTCCCCG
42356 AAACAAGAATA
65 AAACAAGAATA
* * * *
42367 TTCATTTCACT-CAAGATTGTTTTTCTTAAAACCAA-ATTTTATCTCGCTTGATATAG-TTTCCC
1 TTCATTTCACTAC-AGATTATTTTTCTTAAAA-CAAGA-TTCATCTCACTTGAGATAGTTTTCCC
42429 ACGAAA
63 -CGAAA
42435 TAGAAGATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
75 7 0.12
76 34 0.57
77 19 0.32
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (75 bp):
TTCATTTCACTACAGATTATTTTTCTTAAAACAAGATTCATCTCACTTGAGATAGTTTTCCCCGA
AACAAGAATA
Found at i:42456 original size:39 final size:39
Alignment explanation
Indices: 42402--42524 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 39
42392 TTAAAACCAA
* * *
42402 ATTTTATCTCGCTTGATATAGTTTCCCACGAAATAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAAAGAAG
* *
42441 ATTTTATCTCGCTTGAGATAGTTTCTCTTGAAACAA-AAG
1 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA-AAGAAG
**
42480 ATTTTATCTCGCTAT-AGATAGTTTCGGTCGAAAAAGAAG
1 ATTTTATCTCGCT-TGAGATAGTTTCCCTCGAAAAAGAAG
42519 ATTTTA
1 ATTTTA
42525 ATAAACTAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.03
39 69 0.95
40 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAAAGAAG
Found at i:42673 original size:53 final size:52
Alignment explanation
Indices: 42531--42716 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 52
42521 TTTAATAAAC
* * *
42531 TAAGCCTAATTTTTAGGGGTTTCTCGATGTTTTTAAATGAATTTGAAAGAAGT
1 TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTT-AAAGAAAT
* * *
42584 TAAGCCT-AGTTTTAAGGGTTTCTTAATGTTTTCAAATGAATTTCAAAGAAAT
1 TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTT-AAAGAAAT
* * ** *
42636 TAAGCCTAATTTTTAGGGATTTCTTGATGTTTTCAAATGAGTTTTTAGAAAC
1 TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTAAAGAAAT
* *
42688 TAAGCCTGATTTTCAGGGGTTTCTTGATG
1 TAAGCCTAATTTTTAGGGGTTTCTTGATG
42717 ATAATTTTCA
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
52 76 0.67
53 38 0.33
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (52 bp):
TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTAAAGAAAT
Found at i:42870 original size:42 final size:42
Alignment explanation
Indices: 42823--42941 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 42
42813 GAGTAAGTCC
* *
42823 TTCGGGCCATCAATAAGTCTTTCGAGCATGATGTTTAAATCT
1 TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGTTTAAATCT
* * * * *
42865 TTCGGGTCATCTATAAGTTTTTCAAGCAAGATG-ATAAGTCT
1 TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGTTTAAATCT
* * * *
42906 TTCGGGCCATCTATAAGACATTCGGGCAGGATGTTT
1 TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGTTT
42942 TCAACATTTC
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 32 0.52
42 29 0.48
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGTTTAAATCT
Found at i:42917 original size:41 final size:41
Alignment explanation
Indices: 42810--42922 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 41
42800 AGGGTTTCTT
* * * *
42810 GATGAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAT
1 GATGA-TAAGTCTTTCGGGCCATCTATAAGTCTTTCAAGCAA
* * * *
42852 GATGTTTAAATCTTTCGGGTCATCTATAAGTTTTTCAAGCAA
1 GATG-ATAAGTCTTTCGGGCCATCTATAAGTCTTTCAAGCAA
42894 GATGATAAGTCTTTCGGGCCATCTATAAG
1 GATGATAAGTCTTTCGGGCCATCTATAAG
42923 ACATTCGGGC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 22 0.37
42 37 0.63
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (41 bp):
GATGATAAGTCTTTCGGGCCATCTATAAGTCTTTCAAGCAA
Found at i:43160 original size:144 final size:144
Alignment explanation
Indices: 42898--43204 Score: 492
Period size: 144 Copynumber: 2.1 Consensus size: 144
42888 AAGCAAGATG
* * *
42898 ATAAGTCTTTCGGGCCATCTATAAGACATTCGGGCAGGATGTTTTCAACATTTCCTTTGCTCGAT
1 ATAAGTCCTTCGGGCCATCCATAAGACATTCGGGCAAGATGTTTTCAACATTTCCTTTGCTCGAT
* *
42963 TCACAACACTTCGAATCAGCAACGCCCTACTAGAGGGGTTAACATTTCATATTGCTCGATTCATA
66 TCACAACACTTCGAATCAACAACGCCCTACTAGAGGGGTTAACATTTCATATTGCTCGATTCACA
43028 CACTTCGAAACAGC
131 CACTTCGAAACAGC
* * * *
43042 TTAAGTTCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCAACATTTTCTTTGCTCGAT
1 ATAAGTCCTTCGGGCCATCCATAAGACATTCGGGCAAGATGTTTTCAACATTTCCTTTGCTCGAT
43107 TCACAACACTTCGAATCAACAACGCCCTAAC-AGAGGGGTTAACATTTTC-TATTGCTCGATTCA
66 TCACAACACTTCGAATCAACAACGCCCT-ACTAGAGGGGTTAACA-TTTCATATTGCTCGATTCA
*
43170 CACACTTCGAATCAGC
129 CACACTTCGAAACAGC
43186 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
43205 AGTAAGTCTT
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
144 143 0.96
145 6 0.04
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (144 bp):
ATAAGTCCTTCGGGCCATCCATAAGACATTCGGGCAAGATGTTTTCAACATTTCCTTTGCTCGAT
TCACAACACTTCGAATCAACAACGCCCTACTAGAGGGGTTAACATTTCATATTGCTCGATTCACA
CACTTCGAAACAGC
Found at i:43234 original size:42 final size:42
Alignment explanation
Indices: 43187--43329 Score: 177
Period size: 42 Copynumber: 3.4 Consensus size: 42
43177 CGAATCAGCA
*
43187 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAG
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAC
* *
43229 TAAGTCTTTCGGGCCATCAGTAAGCCTTTCGAGCATGATG-C
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAC
* *
43270 TTAAATCCTTCGGGTCATCTA-TAAGTCTTTCGAGCAAT-AT-AC
1 -TAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGC-ATGATGAC
*
43312 TAAGTCATTCGGGCCATC
1 TAAGTCCTTCGGGCCATC
43330 CATAAGACCT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
41 15 0.17
42 69 0.79
43 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAC
Found at i:43257 original size:20 final size:20
Alignment explanation
Indices: 43187--43259 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
43177 CGAATCAGCA
*
43187 TAAGTCCTTCGGGCCATCAG
1 TAAGTCTTTCGGGCCATCAG
* * *
43207 TAAGTCTTTCGAGCATGATGAG
1 TAAGTCTTTCGGGC--CATCAG
43229 TAAGTCTTTCGGGCCATCAG
1 TAAGTCTTTCGGGCCATCAG
*
43249 TAAGCCTTTCG
1 TAAGTCTTTCG
43260 AGCATGATGC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 26 0.60
22 17 0.40
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (20 bp):
TAAGTCTTTCGGGCCATCAG
Found at i:44656 original size:140 final size:139
Alignment explanation
Indices: 44438--44807 Score: 409
Period size: 139 Copynumber: 2.7 Consensus size: 139
44428 ATCAGTGACG
* * * * * * *
44438 CCTCGCTTGAGGAATAAACATTTCAATTGGAGAGTTCATAATGAAAAGAACTCATCCAATGAATG
1 CCTCGCTTAAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAATG
* * * *
44503 AGAAGAAGTTCATAATGAGAAA-AGCTTGTTC-GACATATCGCTCGATTCATCGCATATGGAGCT
66 AGAAAAAGCTCATAATGA-AAAGAACTTGTTCAAACATATC-CT-GATTCATCGCATATGGAGCT
44566 AAATCAACAACA
128 AAATCAACAACA
* ** * *
44578 CCTTGCTTAAGGGATCAATGTTTTC-GATGGAGAGTTCATAATGAGAAGAACTCATCCGATGATT
1 CCTCGCTTAAGGGATCAACATTTCCAG-TGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAT
* * * * *
44642 GATAAAAAGCTCATAATGAAAAGAACTTGTTCAAACTTCTCCTGATTCATCGCATATGGAGTTGA
65 GAGAAAAAGCTCATAATGAAAAGAACTTGTTCAAACATATCCTGATTCATCGCATATGGAGCTAA
*
44707 ATCAGCAACA
130 ATCAACAACA
* *
44717 CCTCGCTTGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAATTCATCCGAT--A--
1 CCTCGCTTAAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAATG
*
44778 AG---AAGTTCATAATGAAAAGAACTTGTTCAA
66 AGAAAAAGCTCATAATGAAAAGAACTTGTTCAA
44808 CCGTGGCTCG
Statistics
Matches: 195, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
132 27 0.14
135 1 0.01
139 84 0.43
140 78 0.40
141 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (139 bp):
CCTCGCTTAAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAATG
AGAAAAAGCTCATAATGAAAAGAACTTGTTCAAACATATCCTGATTCATCGCATATGGAGCTAAA
TCAACAACA
Found at i:44748 original size:139 final size:140
Alignment explanation
Indices: 44315--44776 Score: 442
Period size: 140 Copynumber: 3.3 Consensus size: 140
44305 AAGATGAACT
* * * ** * * *
44315 GATCAACATTTCAAATGGAGAGTTCATAATGAGAA-AACTCATTCGACAAAGGGAGAAGAAGTTC
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAA-TGAGAAAAAGCTC
* * ** * * ** *
44379 ATAATGAGAAGAGCTTGTTGGACCTATCACTCGATTCA-CGACAT-T----TTGAATCAGTGACG
65 ATAATGAGAAAAACTTGTTCAACATATCGCTCGATTCATCG-CATATGGAGTTGAATCAGCAACA
44438 CCTCGCTTGAGG
129 CCTCGCTTGAGG
* * * * * * * *
44450 AATAAACATTTCAATTGGAGAGTTCATAATGAAAAGAACTCATCCAATGAATGAGAAGAAGTTCA
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAATGAGAAAAAGCTCA
* * * * *
44515 TAATGAGAAAAGCTTGTTCGACATATCGCTCGATTCATCGCATATGGAGCTAAATCAACAACACC
66 TAATGAGAAAAACTTGTTCAACATATCGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACC
* *
44580 TTGCTTAAGG
131 TCGCTTGAGG
** * * *
44590 GATCAATGTTTTC-GATGGAGAGTTCATAATGAGAAGAACTCATCCGATGATTGATAAAAAGCTC
1 GATCAACATTTCCAG-TGGAGAGTTCATAATGAGAAGAACTCATCCGATGAATGAGAAAAAGCTC
* *
44654 ATAATGA-AAAGAACTTGTTCAAACTTCTC-CT-GATTCATCGCATATGGAGTTGAATCAGCAAC
65 ATAATGAGAAA-AACTTGTTC-AACATATCGCTCGATTCATCGCATATGGAGTTGAATCAGCAAC
44716 ACCTCGCTTGAGG
128 ACCTCGCTTGAGG
*
44729 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAATTCATCCGAT
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAT
44777 AAGAAGTTCA
Statistics
Matches: 269, Mismatches: 47, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
135 80 0.30
136 14 0.05
139 84 0.31
140 86 0.32
141 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (140 bp):
GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAATGAGAAAAAGCTCA
TAATGAGAAAAACTTGTTCAACATATCGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACC
TCGCTTGAGG
Found at i:46287 original size:27 final size:27
Alignment explanation
Indices: 46223--46287 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
46213 ATTTTACTTA
*
46223 GTTTTAATTTAGTCATTAAACTGCCAT
1 GTTTTAATTTGGTCATTAAACTGCCAT
46250 GTTTTAATTTGGTCATTAAACTGCCAT
1 GTTTTAATTTGGTCATTAAACTGCCAT
46277 GTTTTAATTTG
1 GTTTTAATTTG
46288 AATTTAGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (27 bp):
GTTTTAATTTGGTCATTAAACTGCCAT
Found at i:48787 original size:6 final size:6
Alignment explanation
Indices: 48776--48813 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
48766 TCGTCTCGTC
48776 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TC
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TC
48814 CGCGTGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.18, G:0.47, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:50624 original size:27 final size:27
Alignment explanation
Indices: 50586--50637 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
50576 TTATAACTGA
50586 CGTTATTTTAAGTTAATGAATAGATTC
1 CGTTATTTTAAGTTAATGAATAGATTC
50613 CGTTATTTTAAGTTAATGAATAGAT
1 CGTTATTTTAAGTTAATGAATAGAT
50638 GATTATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (27 bp):
CGTTATTTTAAGTTAATGAATAGATTC
Found at i:51745 original size:21 final size:20
Alignment explanation
Indices: 51672--51739 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 20
51662 GTTTCCAGAT
51672 TCGCAACGCGAACTTGAACTA
1 TCGCAACGCGAACTTG-ACTA
51693 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTT-GACTA
51714 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTT-GACTA
51735 TCGCA
1 TCGCA
51740 TTGCGATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAACTTGACTA
Found at i:51784 original size:21 final size:22
Alignment explanation
Indices: 51754--51807 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
51744 GATTTACATA
*
51754 TTCGCATTGCGAA-AGTCCAAG
1 TTCGCGTTGCGAATAGTCCAAG
*
51775 TTCGCGTTGC-AATAGTCGAAG
1 TTCGCGTTGCGAATAGTCCAAG
51796 TTCGCGTTGCGA
1 TTCGCGTTGCGA
51808 TTTATTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (22 bp):
TTCGCGTTGCGAATAGTCCAAG
Found at i:51993 original size:21 final size:21
Alignment explanation
Indices: 51968--52039 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
51958 TTTGGAATAA
51968 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* *
51989 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
52008 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
52031 ATCGCAACG
1 ATCGCAACG
52040 AATTTGGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 10 0.23
21 23 0.53
23 10 0.23
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:52004 original size:19 final size:19
Alignment explanation
Indices: 51977--52047 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
51967 AATCGCAACG
51977 CGAACTTGGACTATCGCAA
1 CGAACTTGGACTATCGCAA
* *
51996 CGAATTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
52017 CGCGAACTTGGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
52038 CGAATTTGGA
1 CGAACTTGGA
52048 AAATCGCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 19 0.44
21 14 0.33
23 10 0.23
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (19 bp):
CGAACTTGGACTATCGCAA
Found at i:52016 original size:42 final size:42
Alignment explanation
Indices: 51957--52055 Score: 184
Period size: 42 Copynumber: 2.4 Consensus size: 42
51947 GACGAGACGG
51957 ATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGA
1 ATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGA
51999 ATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGA
1 ATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGA
52041 ATTTGG-A-AAATCGCA
1 ATTTGGAATAAATCGCA
52056 TTGCGATAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
40 8 0.14
41 1 0.02
42 48 0.84
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (42 bp):
ATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGA
Found at i:52027 original size:23 final size:23
Alignment explanation
Indices: 51959--52028 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
51949 CGAGACGGAT
51959 TTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAAC
* *
51982 TTGGACT--ATCGCAA--CGAAT
1 TTGGAATAAATCGCAACGCGAAC
52001 TTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAAC
52024 TTGGA
1 TTGGA
52029 CTATCGCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.26
21 14 0.36
23 15 0.38
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (23 bp):
TTGGAATAAATCGCAACGCGAAC
Found at i:52053 original size:19 final size:20
Alignment explanation
Indices: 51966--52055 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 20
51956 GATTTGGAAT
51966 AAATCGCAACGCGAACTTGGA
1 AAATCGCAAC-CGAACTTGGA
** *
51987 CTATCGCAA-CGAATTTGGAA
1 AAATCGCAACCGAACTTGG-A
52007 TAAATCGCAACGCGAACTTGGA
1 -AAATCGCAAC-CGAACTTGGA
** *
52029 CTATCGCAA-CGAATTTGGA
1 AAATCGCAACCGAACTTGGA
52048 AAATCGCA
1 AAATCGCA
52056 TTGCGATAGT
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
19 23 0.43
20 1 0.02
21 21 0.39
22 1 0.02
23 8 0.15
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (20 bp):
AAATCGCAACCGAACTTGGA
Found at i:52085 original size:21 final size:21
Alignment explanation
Indices: 52059--52099 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52049 AATCGCATTG
*
52059 CGATAGTCGAAGTTTGCGTTA
1 CGATAGTCGAAGTTCGCGTTA
*
52080 CGATAGTCGATGTTCGCGTT
1 CGATAGTCGAAGTTCGCGTT
52100 GCGAATCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (21 bp):
CGATAGTCGAAGTTCGCGTTA
Found at i:56820 original size:20 final size:20
Alignment explanation
Indices: 56790--56977 Score: 137
Period size: 20 Copynumber: 9.3 Consensus size: 20
56780 GTTTCCAGAT
* *
56790 TCGCAACGCGATTTTGACTA
1 TCGCAATGCGATTATGACTA
* * *
56810 TCGCATTGCGATTTTCCAACTA
1 TCGCAATGCGATTAT--GACTA
* *
56832 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
* * *
56852 TCGTAATGCGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
*
56872 TCGCAATGTGATTATGACTA
1 TCGCAATGCGATTATGACTA
*
56892 TCGCAATGCGATTCTGACTA
1 TCGCAATGCGATTATGACTA
* *
56912 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTATGACTA
* * *
56932 TCGCAACGAGATTTTGACTA
1 TCGCAATGCGATTATGACTA
* * * *
56952 TCGTAACGCGATTCTGACTG
1 TCGCAATGCGATTATGACTA
56972 TCGCAA
1 TCGCAA
56978 CACTGAATTT
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 123 0.87
21 1 0.01
22 16 0.11
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (20 bp):
TCGCAATGCGATTATGACTA
Found at i:57849 original size:24 final size:24
Alignment explanation
Indices: 57798--57851 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
57788 ATATTCGAAA
*
57798 TTTGATCTTGGCCAATACCCGGAC
1 TTTGATCTTGGCCAATACCCAGAC
* * * *
57822 TTTGATCTTGGTCAATGCTCAGAT
1 TTTGATCTTGGCCAATACCCAGAC
57846 TTTGAT
1 TTTGAT
57852 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGCCAATACCCAGAC
Found at i:58069 original size:14 final size:14
Alignment explanation
Indices: 58040--58076 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
58030 AGAAAAAGAA
58040 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
58055 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
58069 GAAGAAAA
1 GAAGAAAA
58077 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:60135 original size:18 final size:18
Alignment explanation
Indices: 60112--60146 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60102 ATAAAAAGGC
*
60112 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
60130 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
60147 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:60439 original size:140 final size:140
Alignment explanation
Indices: 60206--60469 Score: 501
Period size: 140 Copynumber: 1.9 Consensus size: 140
60196 AAACGTTGTA
*
60206 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGCATTAGTAACTTGAGTTTGAATATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGCATTAGTAACTTGAGTTTGAACATTGCTA
60271 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCAAATTTAACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCAAATTTAACTAT
60336 TATGTGTATT
131 TATGTGTATT
*
60346 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGCATTAGTAACTTGAGTTTGAACATTGCTA
*
60411 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCAAATTT
60470 GATTATCGCA
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 121 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGCATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCAAATTTAACTAT
TATGTGTATT
Found at i:60471 original size:20 final size:20
Alignment explanation
Indices: 60446--60703 Score: 201
Period size: 20 Copynumber: 13.8 Consensus size: 20
60436 TTACACATTC
*
60446 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
60466 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
60485 A----A-AATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
60500 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
60520 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
60539 A----A-AATCGCAACGCGG
1 ATTTGACTATCGCAACGCGA
*
60554 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
60574 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
60594 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
60614 ATTTGACTATCACAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
60634 A----A--ATCGCAATGTGA
1 ATTTGACTATCGCAACGCGA
60648 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
60668 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
60688 ATTTGACTATCGCAAC
1 ATTTGACTATCGCAAC
60704 AAGAAAATCG
Statistics
Matches: 187, Mismatches: 33, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
14 28 0.15
15 5 0.03
16 1 0.01
18 1 0.01
19 5 0.03
20 147 0.79
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:60531 original size:54 final size:54
Alignment explanation
Indices: 60446--60590 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
60436 TTACACATTC
* * * *
60446 ATTTGAATATCGCAACGCGAATTTGATTATCGCAACTCAAAAATTGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
* * *
60500 ATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAAATCGCAACGCGG
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
*
60554 ATTTGTCTATCGCAACGCGAATTTGACTATCGCAACG
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
60591 TGAATTTGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (54 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
Found at i:60621 original size:94 final size:94
Alignment explanation
Indices: 60491--60704 Score: 286
Period size: 94 Copynumber: 2.3 Consensus size: 94
60481 CTCAAAAATT
* *
60491 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCA-AAAATCGCAACGCGGA
1 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACG-AGAAAATCGCAACGCGAA
*
60555 TTTGTCTATCGCAACGCGAATTTGACTATC
65 TTTGACTATCGCAACGCGAATTTGACTATC
* * ** * * * *
60585 GCAACGTGAATTTGATTATCGCAACGGGTATTTGACTATCACAACGAGAAAATCGCAATGTGAAT
1 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGAGAAAATCGCAACGCGAAT
*
60650 TTGACTATCGCAACGCGAATTTGATTATC
66 TTGACTATCGCAACGCGAATTTGACTATC
* *
60679 GCAACGGGTATTTGACTATCGCAACA
1 GCAACGCGAATTTGACTATCGCAACA
60705 AGAAAATCGC
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 102 0.99
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (94 bp):
GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGAGAAAATCGCAACGCGAAT
TTGACTATCGCAACGCGAATTTGACTATC
Found at i:60640 original size:54 final size:54
Alignment explanation
Indices: 60582--60684 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
60572 GAATTTGACT
* * *
60582 ATCGCAACGTGAATTTGATTATCGCAACGGGTATTTGACTATCACAACGAGAAA
1 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGACTATCACAACGAGAAA
* * *
60636 ATCGCAATGTGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGACTATCACAACG
60685 GGTATTTGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (54 bp):
ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGACTATCACAACGAGAAA
Found at i:60640 original size:74 final size:74
Alignment explanation
Indices: 60562--60744 Score: 285
Period size: 74 Copynumber: 2.5 Consensus size: 74
60552 GGATTTGTCT
* *
60562 ATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGATTATCGCAACGGGTATTTGACTATCAC
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCAC
*
60627 AACGAGAAA
66 AACAAGAAA
* * *
60636 ATCGCAATGTGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCAC
60701 AACAAGAAA
66 AACAAGAAA
* * *
60710 ATCGCAAAGCGTATTAGACTATCGCAACACGAATT
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATT
60745 GACTTTGCGT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 99 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (74 bp):
ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCAC
AACAAGAAA
Found at i:60724 original size:34 final size:34
Alignment explanation
Indices: 60602--60738 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
60592 GAATTTGATT
* *
60602 ATCGCAACGGGTATTTGACTATCACAACGAGAAA
1 ATCGCAACGGGTATTTGACTATCGCAACAAGAAA
* * * **
60636 ATCGCAATGTGAATTTGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGGGTATTTGACTATCGCAA--C-AA---GAAA
60676 ATCGCAACGGGTATTTGACTATCGCAACAAGAAA
1 ATCGCAACGGGTATTTGACTATCGCAACAAGAAA
* * *
60710 ATCGCAAAGCGTATTAGACTATCGCAACA
1 ATCGCAACGGGTATTTGACTATCGCAACA
60739 CGAATTGACT
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
34 51 0.62
36 1 0.01
37 3 0.04
38 1 0.01
40 26 0.32
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (34 bp):
ATCGCAACGGGTATTTGACTATCGCAACAAGAAA
Found at i:60797 original size:20 final size:20
Alignment explanation
Indices: 60747--60799 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
60737 CACGAATTGA
60747 CTTT-GCGTTGCGATTTTGG
1 CTTTAGCGTTGCGATTTTGG
* *
60766 CTTTTGCATTGCGATTTTGAG
1 CTTTAGCGTTGCGATTTTG-G
60787 -TTTAGCGTTGCGA
1 CTTTAGCGTTGCGA
60800 AAGTGTACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.83
21 1 0.03
ACGTcount: A:0.11, C:0.15, G:0.28, T:0.45
Consensus pattern (20 bp):
CTTTAGCGTTGCGATTTTGG
Found at i:60937 original size:29 final size:28
Alignment explanation
Indices: 60903--60957 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
60893 ATAAGAATTA
*
60903 TTTACACATCAATATTAAATAAATCAACT
1 TTTACAAATCAAT-TTAAATAAATCAACT
**
60932 TTTACAAATCAATTTTTATAAATCAA
1 TTTACAAATCAATTTAAATAAATCAA
60958 TTAAATAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (28 bp):
TTTACAAATCAATTTAAATAAATCAACT
Found at i:60958 original size:14 final size:14
Alignment explanation
Indices: 60921--60959 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
60911 TCAATATTAA
*
60921 ATAAATCAACTTTT
1 ATAAATCAATTTTT
*
60935 ACAAATCAATTTTT
1 ATAAATCAATTTTT
60949 ATAAATCAATT
1 ATAAATCAATT
60960 AAATAAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATCAATTTTT
Found at i:62458 original size:42 final size:42
Alignment explanation
Indices: 62351--62462 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
62341 TCTAGAATAT
* * *
62351 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGGA-CTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** *
62393 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGA
* *
62435 TAGGG-GAGGCCTTTTGAACGATGACAGG
1 T-GGGAGAGGACTCTTGAACGATGACAGG
62463 TGAGTCGGGC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
42 50 0.89
43 6 0.11
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:62977 original size:18 final size:18
Alignment explanation
Indices: 62950--63013 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 18
62940 ACATAAAATA
*
62950 GCAACACGAATGACTATC
1 GCAACGCGAATGACTATC
62968 GCAACGCGAAAATGACTATC
1 GCAACGCG--AATGACTATC
*
62988 GCAACGCAAATTTGACTATC
1 GCAACGCGAA--TGACTATC
63008 GCAACG
1 GCAACG
63014 AAAGAATCGC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.22
20 31 0.77
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (18 bp):
GCAACGCGAATGACTATC
Found at i:62983 original size:20 final size:19
Alignment explanation
Indices: 62958--63013 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
62948 TAGCAACACG
62958 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGC-AA
62978 AATGACTATCGCAACGCAA
1 AATGACTATCGCAACGCAA
*
62997 ATTTGACTATCGCAACG
1 A-ATGACTATCGCAACG
63014 AAAGAATCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (19 bp):
AATGACTATCGCAACGCAA
Found at i:63084 original size:20 final size:20
Alignment explanation
Indices: 63055--63099 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
63045 GCGATTCTTT
*
63055 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
63075 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
63095 CGTTG
1 CGTTG
63100 AGAAAGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:63273 original size:18 final size:18
Alignment explanation
Indices: 63250--63299 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
63240 TTTACTAAGC
63250 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
63268 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
63286 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
63300 TATGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:65045 original size:20 final size:20
Alignment explanation
Indices: 65022--65089 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
65012 TATGAAACTT
65022 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
65042 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
65062 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
65081 AAAATCGCA
1 AAAATCGCA
65090 TTGCGATTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.50, C:0.24, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:65720 original size:20 final size:20
Alignment explanation
Indices: 65694--65747 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
65684 ACGCTTTGAA
65694 AATCGCGTTGCGATAATCAG
1 AATCGCGTTGCGATAATCAG
* * *
65714 CATCGCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAATCAG
*
65734 AATCGCATTGCGAT
1 AATCGCGTTGCGAT
65748 TTACATATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (20 bp):
AATCGCGTTGCGATAATCAG
Found at i:65788 original size:22 final size:22
Alignment explanation
Indices: 65763--65813 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
65753 TATTCGCGTT
65763 GCGATAGTTGGAAAATCGCAAC
1 GCGATAGTTGGAAAATCGCAAC
* *
65785 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTTGGAAAATCGCAAC
65806 GCGATAGT
1 GCGATAGT
65814 CAGAATTGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (22 bp):
GCGATAGTTGGAAAATCGCAAC
Found at i:66113 original size:17 final size:18
Alignment explanation
Indices: 66080--66115 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
66070 TAATAGTGAG
66080 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
66098 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
66115 T
1 T
66116 AAATTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:70056 original size:116 final size:114
Alignment explanation
Indices: 69850--70190 Score: 354
Period size: 116 Copynumber: 2.9 Consensus size: 114
69840 AGGTCATACA
* * *
69850 TTCGAATCCTGAAATTATAAATGGAAAAAAATGGGTT-AGAGGAT--TCCTCATAGA-AGGCCTT
1 TTCGAATCCTGACATT-TAACTGG-AAAAATTGGGTTGAGAGGATCGTCC-CATA-ATAGGCCTT
*
69911 TGCAGTACCTGATTTGATTTCTCAAGCATGGCTTACCAAGTTATGATTTAGGGG
62 TGCAGTACC-GATTTGATTTTTCAAGCATGGCTTACCAAGTTATGATTTAGGGG
* *
69965 TTCGAATCCTGACATTGTAACTGGAAAAATTGGGTTGGGAGGATCGTCCCATAATAGGTCTTTGC
1 TTCGAATCCTGACATT-TAACTGGAAAAATTGGGTTGAGAGGATCGTCCCATAATAGGCCTTTGC
* * *
70030 AATATCCGATTTGATTTTTCAAGCATGGGTTACCAAGTTACGATTTAGGGG
65 AGTA-CCGATTTGATTTTTCAAGCATGGCTTACCAAGTTATGATTTAGGGG
* * * * * * *
70081 TTCAAATCCTAACATCTTAAAC-GAAAAAAGTTAGGTTAGATAGG-TCGCCCCATAATACGCCTT
1 TTCGAATCCTGACAT-TT-AACTGGAAAAA-TTGGGTT-GAGAGGATCGTCCCATAATAGGCCTT
* * *
70144 TGTAGTACCGATTTGAATTTTT-AAACATGGCTTACCAGGTTATGATT
62 TGCAGTACCGATTTG-ATTTTTCAAGCATGGCTTACCAAGTTATGATT
70191 CTATATTCTT
Statistics
Matches: 191, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
114 11 0.06
115 28 0.15
116 106 0.55
117 42 0.22
118 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (114 bp):
TTCGAATCCTGACATTTAACTGGAAAAATTGGGTTGAGAGGATCGTCCCATAATAGGCCTTTGCA
GTACCGATTTGATTTTTCAAGCATGGCTTACCAAGTTATGATTTAGGGG
Found at i:73961 original size:20 final size:20
Alignment explanation
Indices: 73938--74051 Score: 165
Period size: 20 Copynumber: 5.7 Consensus size: 20
73928 GAATATGTAA
* *
73938 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
73958 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
73978 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
73998 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
74018 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
*
74038 ATCGCAATGCGATT
1 ATCGCAACGCGATT
74052 TTCAAAGCGC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:74253 original size:22 final size:22
Alignment explanation
Indices: 74228--74270 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
74218 GGCGACATTC
74228 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
74250 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
74271 CGTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:74745 original size:20 final size:20
Alignment explanation
Indices: 74656--74762 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 20
74646 AGAATCGCAA
* *
74656 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGTGT
*
74675 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGTGT
** ** **
74694 TGCGATAGTCAAATTCGCAT
1 TGCGATTTTCATTTTCGTGT
* **
74714 TACGATAATCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
*
74734 TGTGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
74754 TGCGATTTT
1 TGCGATTTT
74763 AAGTTTCAGA
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
19 26 0.37
20 45 0.63
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.47
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGTGT
Found at i:74769 original size:20 final size:20
Alignment explanation
Indices: 74726--74769 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
74716 CGATAATCAT
* * *
74726 TTTCGTGTTGTGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
74746 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
74766 TTTC
1 TTTC
74770 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:76697 original size:20 final size:20
Alignment explanation
Indices: 76672--76717 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
76662 GTTTACTTTT
*
76672 GCAACGCAAAAATGACTCTC
1 GCAACGCAAAAATGACTATC
*
76692 GCAACGCAAAAATTACTATC
1 GCAACGCAAAAATGACTATC
76712 GCAACG
1 GCAACG
76718 AAAGAATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.15
Consensus pattern (20 bp):
GCAACGCAAAAATGACTATC
Found at i:76802 original size:18 final size:19
Alignment explanation
Indices: 76760--76806 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
76750 ACGATTCTCT
*
76760 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
76780 CGTTGCGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
*
76798 TGTTGCGAT
1 CGTTGCGAT
76807 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
20 13 0.52
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:77393 original size:42 final size:42
Alignment explanation
Indices: 77323--77414 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
77313 TCCCCTATTG
* *
77323 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAACA
* ** *
77365 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAACA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAACA
*
77407 TTCTAGAG
1 TTCAAGAG
77415 CCCGATTCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAACA
Found at i:78845 original size:14 final size:14
Alignment explanation
Indices: 78808--78869 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
78798 TTGCTTGTTT
*
78808 AATTGATTTATAAA
1 AATTGATTTGTAAA
78822 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
78836 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
78851 TATTGATGTGTAAA
1 AATTGATTTGTAAA
78865 TAATT
1 -AATT
78870 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:79108 original size:20 final size:20
Alignment explanation
Indices: 79064--79322 Score: 225
Period size: 20 Copynumber: 13.8 Consensus size: 20
79054 GCGATTTTCT
*
79064 CGTTGCGATAGTCAAATAC-
1 CGTTGCGATAGTCAAATTCG
*
79083 CTGTTGCGATAATCAAATTCG
1 C-GTTGCGATAGTCAAATTCG
*
79104 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
79118 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
79138 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
79152 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
* *
79171 CCGTTGCGATAATTAAATTCG
1 -CGTTGCGATAGTCAAATTCG
*
79192 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
79212 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
79232 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
79252 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
79272 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
79286 AGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
79306 CGATGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
79323 GAATGTGTAA
Statistics
Matches: 192, Mismatches: 26, Indels: 43
0.74 0.10 0.16
Matches are distributed among these distances:
14 35 0.18
16 3 0.02
18 3 0.02
19 2 0.01
20 146 0.76
21 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:79123 original size:14 final size:14
Alignment explanation
Indices: 79104--79160 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 14
79094 ATCAAATTCG
79104 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
*
79118 CGTTGCGATAGTCAAATTCG
1 CGTTGCGAT--T----TTCT
79138 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
79152 CGTTGCGAT
1 CGTTGCGAT
79161 AGTCAAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 21 0.60
16 1 0.03
18 1 0.03
20 12 0.34
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTTTCT
Found at i:79123 original size:34 final size:34
Alignment explanation
Indices: 79085--79220 Score: 168
Period size: 34 Copynumber: 3.8 Consensus size: 34
79075 TCAAATACCT
*
79085 GTTGCGATAATCAAATTCGCGTTGCGATTTTCTC
1 GTTGCGATAGTCAAATTCGCGTTGCGATTTTCTC
79119 GTTGCGATAGTCAAATTCGCGTTGCGATTTTCTC
1 GTTGCGATAGTCAAATTCGCGTTGCGATTTTCTC
*
79153 GTTGCGATAGTCAAA-TAGCCGTTGCGATAATTAAAT-TC
1 GTTGCGATAGTCAAATTCG-CGTTGCGAT--TT---TCTC
79191 GTGTTGCGATAGTCAAATTCGCGTTGCGAT
1 --GTTGCGATAGTCAAATTCGCGTTGCGAT
79221 AGACAAATTC
Statistics
Matches: 90, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
33 2 0.02
34 57 0.63
36 2 0.02
38 2 0.02
39 1 0.01
40 24 0.27
41 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (34 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATTTTCTC
Found at i:79143 original size:54 final size:54
Alignment explanation
Indices: 79015--79322 Score: 248
Period size: 54 Copynumber: 5.6 Consensus size: 54
79005 AAATCACAAC
* * * * *
79015 GCGAAAGTC-AATTCGCGTTGCGATAGTCTAATACTCTTTGCGATTTTCTCGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTT
* *
79068 GCGATAGTCAAATAC-CTGTTGCGATAATCAAATTCGCGTTGCGATTTTCTCGTT
1 GCGATAGTCAAATTCGC-GTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTT
** *** * * * **
79122 GCGATAGTCAAATTCGCGTTGCGATTTTCTCGTT-GCGATAGTCAAATAGC-CGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCG-TTG-CGATTTTCTCGTT
* * * * *
79176 GCGATAATTAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT------TTTCTCGTT
* * *
79236 GCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGAGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTT
* *
79290 GCGATAGTCAAATTCGCGATGCGATATTCAAAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
79323 GAATGTGTAA
Statistics
Matches: 199, Mismatches: 42, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
53 14 0.07
54 130 0.65
55 8 0.04
59 1 0.01
60 46 0.23
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (54 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTT
Found at i:79545 original size:140 final size:140
Alignment explanation
Indices: 79293--79562 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
79283 TTGAGTTGCG
* *
79293 ATAGTCAAATTCGCGATGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGATGCGATATTCAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
*
79358 TAGCAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
79423 AATACACATA
131 AATACACATA
*
79433 ATAGTCAAATTCGCGTTGCGATATTCAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
1 ATAGTCAAATTCGCGATGCGATATTCAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
*
79498 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
79563 TACAATGTTT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGATGCGATATTCAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
TAACAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:79644 original size:12 final size:12
Alignment explanation
Indices: 79629--79658 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
79619 TTGTGATTGG
79629 GATTGCGATTTT
1 GATTGCGATTTT
*
79641 GATTGTGATTTT
1 GATTGCGATTTT
79653 GATTGC
1 GATTGC
79659 CTTTTTCTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.27, T:0.50
Consensus pattern (12 bp):
GATTGCGATTTT
Found at i:81711 original size:14 final size:14
Alignment explanation
Indices: 81692--81728 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
81682 TCCCGTGACA
81692 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
81706 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
81720 TTCTTCTTC
1 TT-TTCTTC
81729 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:82796 original size:20 final size:20
Alignment explanation
Indices: 82768--82834 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
82758 GAAATTCAGT
*
82768 GTTGTGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
82788 GTTGCGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
* *
82808 GTTGCGATAGTCATAATCGC
1 GTTGCGACAGTCAGAATCGC
*
82828 ATTGCGA
1 GTTGCGA
82835 TTTATATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
GTTGCGACAGTCAGAATCGC
Found at i:83660 original size:24 final size:23
Alignment explanation
Indices: 83628--83675 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
83618 CTCTCAATTT
83628 TTTTAAATTTTGATATT-TTATAA
1 TTTTAAATTTT-ATATTATTATAA
*
83651 TTTTATAATTTTATTTTATTATAA
1 TTTTA-AATTTTATATTATTATAA
83675 T
1 T
83676 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAAATTTTATATTATTATAA
Found at i:83672 original size:8 final size:8
Alignment explanation
Indices: 83628--83664 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
83618 CTCTCAATTT
83628 TTTTA-AA
1 TTTTATAA
83635 TTTTGAT-A
1 TTTT-ATAA
83643 TTTTATAA
1 TTTTATAA
83651 TTTTATAA
1 TTTTATAA
83659 TTTTAT
1 TTTTAT
83665 TTTATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTTTATAA
Found at i:83952 original size:13 final size:13
Alignment explanation
Indices: 83928--83963 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
83918 TAGAAACAGT
83928 TATTTATTTATTTC
1 TATTT-TTTATTTC
83942 TATTTTTTATTTC
1 TATTTTTTATTTC
83955 TATTTTTTA
1 TATTTTTTA
83964 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTTTATTTC
Found at i:88107 original size:16 final size:16
Alignment explanation
Indices: 88071--88114 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
88061 TAACAGACTT
88071 GTCTGTTTTCT--ACA
1 GTCTGTTTTCTACACA
*
88085 GTATGTTTTCTACACA
1 GTCTGTTTTCTACACA
88101 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
88115 TGGTATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
16 16 0.62
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (16 bp):
GTCTGTTTTCTACACA
Found at i:97689 original size:108 final size:109
Alignment explanation
Indices: 97456--97672 Score: 420
Period size: 108 Copynumber: 2.0 Consensus size: 109
97446 CTACATATAA
97456 CAAGCAATAGAATGAAGCAGCAAGAAGATAAAAATAGAACTGAAAGAACCTTTGAGGTTGGGGAT
1 CAAGCAATAGAATGAAGCAGCAAGAAGATAAAAATAGAACTGAAAGAACCTTTGAGGTTGGGGAT
97521 TTAGTTTACCTGAAATTGCAGCCCTACAGACAAACATCAATTGC
66 TTAGTTTACCTGAAATTGCAGCCCTACAGACAAACATCAATTGC
97565 CAAGCAATAGAATGAAGCAGCAAG-AGATAAAAATAGAACTGAAAGAACCTTTGAGGTTGGGGAT
1 CAAGCAATAGAATGAAGCAGCAAGAAGATAAAAATAGAACTGAAAGAACCTTTGAGGTTGGGGAT
97629 TTAGTTTACCTGAAATTGCAGCCCTACA-ACAAACATCAATTGC
66 TTAGTTTACCTGAAATTGCAGCCCTACAGACAAACATCAATTGC
97672 C
1 C
97673 CTGCGGAAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
107 16 0.15
108 68 0.63
109 24 0.22
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (109 bp):
CAAGCAATAGAATGAAGCAGCAAGAAGATAAAAATAGAACTGAAAGAACCTTTGAGGTTGGGGAT
TTAGTTTACCTGAAATTGCAGCCCTACAGACAAACATCAATTGC
Found at i:100500 original size:21 final size:21
Alignment explanation
Indices: 100474--100526 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
100464 TGTGGCTGTA
100474 AAAAGGCTATTGCAGATGTTG
1 AAAAGGCTATTGCAGATGTTG
100495 AAAAGGCTATTGCAGATGTTG
1 AAAAGGCTATTGCAGATGTTG
100516 AAAAGGCTATT
1 AAAAGGCTATT
100527 ATTAAAGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (21 bp):
AAAAGGCTATTGCAGATGTTG
Found at i:102797 original size:17 final size:16
Alignment explanation
Indices: 102775--102808 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
102765 TTACAAAATT
102775 TTATTAATAAAAGTATA
1 TTATTAATAAAA-TATA
102792 TTATTAATAAAATATA
1 TTATTAATAAAATATA
102808 T
1 T
102809 ATAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTATTAATAAAATATA
Found at i:103352 original size:20 final size:20
Alignment explanation
Indices: 103327--103383 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
103317 ATAAAAACAA
*
103327 GACTCGATCCATCCTTGCTC
1 GACTCGACCCATCCTTGCTC
103347 GACTCGACCCATCCTTGCTC
1 GACTCGACCCATCCTTGCTC
103367 GACTCGACCCATCCTTG
1 GACTCGACCCATCCTTG
103384 GCTCAATCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.26
Consensus pattern (20 bp):
GACTCGACCCATCCTTGCTC
Found at i:103566 original size:16 final size:17
Alignment explanation
Indices: 103535--103572 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
103525 TCCGTATCCG
103535 ATCCGAAAAATTCGGAT
1 ATCCGAAAAATTCGGAT
*
103552 ATCCG-AAATTTCGGAT
1 ATCCGAAAAATTCGGAT
103568 ATCCG
1 ATCCG
103573 TATTTTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (17 bp):
ATCCGAAAAATTCGGAT
Found at i:103605 original size:21 final size:21
Alignment explanation
Indices: 103562--103614 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
103552 ATCCGAAATT
* * *
103562 TCGGATATCCGTATTTTCAGA
1 TCGGATATCCGAATATCCAGA
*
103583 TCGGATATCCGAATATCCGGA
1 TCGGATATCCGAATATCCAGA
*
103604 TCCGA-ATCCGA
1 TCGGATATCCGA
103615 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (21 bp):
TCGGATATCCGAATATCCAGA
Found at i:105056 original size:15 final size:15
Alignment explanation
Indices: 105026--105059 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
105016 TTAAAGTCTG
105026 AAATTTAAATATTAT
1 AAATTTAAATATTAT
105041 AAATGTTAAATA-TAT
1 AAAT-TTAAATATTAT
105056 AAAT
1 AAAT
105060 ATTTAACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATTTAAATATTAT
Found at i:105065 original size:16 final size:17
Alignment explanation
Indices: 105028--105065 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
105018 AAAGTCTGAA
105028 ATTTAAATATTATAAAT
1 ATTTAAATATTATAAAT
*
105045 -GTTAAATA-TATAAAT
1 ATTTAAATATTATAAAT
105060 ATTTAA
1 ATTTAA
105066 CATCAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTAAATATTATAAAT
Found at i:119134 original size:6 final size:6
Alignment explanation
Indices: 119123--119176 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
119113 CAGAGAAATG
119123 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
119171 GGGAGA
1 GGGAGA
119177 TTATTTGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:122673 original size:9 final size:8
Alignment explanation
Indices: 122653--122708 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 8
122643 TCAAAACAAT
122653 TAATAAACA
1 TAATAAA-A
122662 TAATTAAAA
1 TAA-TAAAA
122671 TAATAAAA
1 TAATAAAA
*
122679 TAACAATAA
1 TAATAA-AA
122688 TAA-AAAA
1 TAATAAAA
122695 TAA-AAAA
1 TAATAAAA
122702 TAA-AAAA
1 TAATAAAA
122709 CAGTGAAAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 16 0.36
8 12 0.27
9 12 0.27
10 4 0.09
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (8 bp):
TAATAAAA
Found at i:122680 original size:23 final size:24
Alignment explanation
Indices: 122654--122705 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
122644 CAAAACAATT
*
122654 AATAAAC-ATAAT-TAAAATAATAA
1 AATAAACAATAATAAAAAATAA-AA
122677 AAT-AACAATAATAAAAAATAAAA
1 AATAAACAATAATAAAAAATAAAA
122700 AATAAA
1 AATAAA
122706 AAACAGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 3 0.12
23 13 0.52
24 9 0.36
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (24 bp):
AATAAACAATAATAAAAAATAAAA
Found at i:122699 original size:6 final size:7
Alignment explanation
Indices: 122667--122708 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
122657 AAACATAATT
122667 AAAATAA
1 AAAATAA
122674 TAAAATAA
1 -AAAATAA
122682 CAATAATAA
1 -AA-AATAA
122691 AAAATAA
1 AAAATAA
122698 AAAATAA
1 AAAATAA
122705 AAAA
1 AAAA
122709 CAGTGAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 16 0.50
8 11 0.34
9 5 0.16
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:124301 original size:23 final size:22
Alignment explanation
Indices: 124272--124330 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
124262 CTTGGTTAGA
*
124272 TTTGGGTTATTTTATAAGGGGGT
1 TTTGGGTTATTTTATAA-AGGGT
*
124295 TTTGGGTT-TTTTGTAAAGGGT
1 TTTGGGTTATTTTATAAAGGGT
*
124316 TTTAGGTTATGTTTA
1 TTTGGGTTAT-TTTA
124331 GCTGAGTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.37
22 8 0.27
23 11 0.37
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (22 bp):
TTTGGGTTATTTTATAAAGGGT
Found at i:124593 original size:59 final size:59
Alignment explanation
Indices: 124516--125365 Score: 1186
Period size: 59 Copynumber: 14.4 Consensus size: 59
124506 GTGATATGTC
* * * *
124516 GCTGATTCGAAGCGTTGTGAATCGAACAAAGGAAATATTAACCCCTCTGGTGGGGTGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * *
124575 GTTGATTCGAAGTATTGTGAATCGAGCAAAGGAAATGTTAATCCCTCTGGTGGGGCGTC
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* ** * *
124634 GCTGATTCGAAGTGTTATGAATTTAGCAAAAGAAATCTTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * *
124693 GCTGATTCGAAGTATTATGAATCGAGCAATAGGAAATGTTAACCCC-CTTGGTGGGGCATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAA-AGGAAATGTTAACCCCTC-TGGTGGGGCGTT
* * *
124753 GTTGATTCAAAGTGTTTTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
*
124812 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATATTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAA-AGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * ** *
124872 GTTGATTCAAAGTGTTGTGAATCAAGCAAAGGAAATGTTAACCCCTCTGGTGAAGCATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * *
124931 GTTGATTCGAAGTGTTGTGAATCGAGCGAAGGAAATGTTAACTCCTCTGGTGGGGCATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * * * * *
124990 GCTGATTCGAAGTGTTATGAATCGAGCGAAGGAAATGTTAATCTCTTTGGTTGGGTGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * **
125049 GCTGATTCGAAGCGTTGTGAATTGAGCAAAGGAAATGTTAACCCCTCTGGTGGCGTATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* *
125108 CCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGCTAACCCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* *
125167 GCTGATTCGAAGTGTTATGAATCGAGTAAAGGAAATGTTAA-CCCTCTGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
*
125225 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGG-AATGTTAACCCCTCTAGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
* * * *
125283 GCTGATTCGAAGTGTTGTGAATAGAGAAAAGGAAATGTTAACCCCTCTGGTGGGAC-AT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
125341 GCTGATTCGAAGTGTTGTGAATCGA
1 GCTGATTCGAAGTGTTGTGAATCGA
125366 TCAATAGGTC
Statistics
Matches: 701, Mismatches: 84, Indels: 13
0.88 0.11 0.02
Matches are distributed among these distances:
57 8 0.01
58 118 0.17
59 469 0.67
60 106 0.15
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (59 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTAACCCCTCTGGTGGGGCGTT
Found at i:126409 original size:10 final size:10
Alignment explanation
Indices: 126389--126432 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
126379 GAACCTCTCC
126389 TTTTC-TTTT
1 TTTTCTTTTT
126398 TTTTCTTTTTT
1 TTTTC-TTTTT
*
126409 TTTTCTCTTT
1 TTTTCTTTTT
126419 TTTTCTCTTTT
1 TTTTCT-TTTT
126430 TTT
1 TTT
126433 ATTTCTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 5 0.17
10 10 0.33
11 15 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:126409 original size:12 final size:12
Alignment explanation
Indices: 126394--126439 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
126384 TCTCCTTTTC
126394 TTTTTTTTC-TT
1 TTTTTTTTCTTT
*
126405 TTTTTTTTCTCT
1 TTTTTTTTCTTT
*
126417 TTTTTTCTCTTT
1 TTTTTTTTCTTT
*
126429 TTTTATTTCTT
1 TTTTTTTTCTT
126440 AAGAGTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:126410 original size:11 final size:11
Alignment explanation
Indices: 126394--126439 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
126384 TCTCCTTTTC
126394 TTTTTTTTCTT
1 TTTTTTTTCTT
126405 TTTTTTTTCTCT
1 TTTTTTTTCT-T
*
126417 TTTTTTCTCTT
1 TTTTTTTTCTT
126428 TTTTTATTTCTT
1 TTTTT-TTTCTT
126440 AAGAGTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 16 0.52
12 15 0.48
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:126412 original size:13 final size:13
Alignment explanation
Indices: 126388--126438 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
126378 TGAACCTCTC
*
126388 CTTTTCTTTTTTTT
1 CTTTT-TTTTTTCT
126402 CTTTTTTTTTTCT
1 CTTTTTTTTTTCT
126415 C---TTTTTTTCT
1 CTTTTTTTTTTCT
126425 CTTTTTTTATTTCT
1 CTTTTTTT-TTTCT
126439 TAAGAGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 10 0.31
13 12 0.38
14 10 0.31
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTTTTTTCT
Found at i:126420 original size:22 final size:24
Alignment explanation
Indices: 126392--126438 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
126382 CCTCTCCTTT
126392 TCTTTTTTT-TCTTTTTTT-TTTC
1 TCTTTTTTTCTCTTTTTTTATTTC
126414 TCTTTTTTTCTCTTTTTTTATTTC
1 TCTTTTTTTCTCTTTTTTTATTTC
126438 T
1 T
126439 TAAGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.39
23 9 0.39
24 5 0.22
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (24 bp):
TCTTTTTTTCTCTTTTTTTATTTC
Found at i:126421 original size:21 final size:20
Alignment explanation
Indices: 126389--126432 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
126379 GAACCTCTCC
*
126389 TTTTCTTTTTTTTCTTTTTT
1 TTTTCTTTTTTTTCTCTTTT
126409 TTTTCTCTTTTTTTCTCTTTT
1 TTTTCT-TTTTTTTCTCTTTT
126430 TTT
1 TTT
126433 ATTTCTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTCTTTT
Found at i:130838 original size:19 final size:19
Alignment explanation
Indices: 130814--130850 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
130804 TTGTGAACCA
130814 TTTAGGTCGGATTGCCTTC
1 TTTAGGTCGGATTGCCTTC
130833 TTTAGGTCGGATTGCCTT
1 TTTAGGTCGGATTGCCTT
130851 GGTGTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.19, G:0.27, T:0.43
Consensus pattern (19 bp):
TTTAGGTCGGATTGCCTTC
Found at i:134364 original size:31 final size:31
Alignment explanation
Indices: 134329--134391 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
134319 CTTTGACTTA
134329 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
1 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
134360 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
1 TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
134391 T
1 T
134392 AATGGTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.03, G:0.38, T:0.37
Consensus pattern (31 bp):
TGGAAGATGATAAGGGTTAGGTGTCTTGGTT
Found at i:141332 original size:31 final size:31
Alignment explanation
Indices: 141297--141419 Score: 219
Period size: 31 Copynumber: 4.0 Consensus size: 31
141287 CTTTGACTTA
141297 TGGAAGATGATAACGGTTATGTGTCTTGGTT
1 TGGAAGATGATAACGGTTATGTGTCTTGGTT
141328 TGGAAGATGATAACGGTTATGTGTCTTGGTT
1 TGGAAGATGATAACGGTTATGTGTCTTGGTT
*
141359 TGGAAGATGATAACGGCTATGTGTCTTGGTT
1 TGGAAGATGATAACGGTTATGTGTCTTGGTT
* *
141390 TGGAAGATGATAAGGGTTAGGTGTCTTGGT
1 TGGAAGATGATAACGGTTATGTGTCTTGGT
141420 AAATGGTAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.23, C:0.07, G:0.34, T:0.37
Consensus pattern (31 bp):
TGGAAGATGATAACGGTTATGTGTCTTGGTT
Found at i:144599 original size:22 final size:23
Alignment explanation
Indices: 144555--144603 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
144545 CTTGGTCGGG
144555 TTTGGGTTATTTTGTAAGAGGGT
1 TTTGGGTTATTTTGTAAGAGGGT
144578 TTTGGGTTATTTTGTAAG-GGGT
1 TTTGGGTTATTTTGTAAGAGGGT
144600 TTTG
1 TTTG
144604 TGTAATACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (23 bp):
TTTGGGTTATTTTGTAAGAGGGT
Found at i:145227 original size:12 final size:12
Alignment explanation
Indices: 145212--145255 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
145202 AATTATGGGA
*
145212 TTGATGATGGTC
1 TTGATGATGGTG
*
145224 TTGATGAAGGATG
1 TTGATGATGG-TG
*
145237 TTGATGATGTTG
1 TTGATGATGGTG
145249 TTGATGA
1 TTGATGA
145256 AATGAAGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.41
Consensus pattern (12 bp):
TTGATGATGGTG
Done.