Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006096.1 Hibiscus syriacus cultivar Beakdansim tig00014449_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: 110202
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:3662 original size:20 final size:19
Alignment explanation
Indices: 3631--3672 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
3621 GTACTATGAT
3631 TAATATTTTATAA-TATAAA
1 TAATATTTTATAAGT-TAAA
3650 TAATATATTTATAAGTTAAA
1 TAATAT-TTTATAAGTTAAA
3670 TAA
1 TAA
3673 GGAGTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 14 0.67
21 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATATTTTATAAGTTAAA
Found at i:14937 original size:190 final size:189
Alignment explanation
Indices: 14615--15021 Score: 577
Period size: 190 Copynumber: 2.1 Consensus size: 189
14605 ATTCATAGTC
*
14615 CTTTTGACTATTTCAAATTAAAAGATAATTTTTAATTTGAATATTAATAGGATAATTATTTTTAA
1 CTTTTGACTATTTCAAATT-AAAGATAATTTTTAATTTGAATATTAATAGGATAATTATTTTGAA
* *
14680 TAAGTCAATTTAAAAAGGTATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATATT
65 TAAGTCAACTTAAAAAGGTATTTGTTATCTTTTTAACTTTGAATATTAAAAGATAATTATATATT
* ** * *
14745 TTTGTATATTTCAAATTAAAATAATATATGCTGAAGTTTGAGTAGTAAAAGGAG-TTTAG
130 TTTGTATATTTCAAATTAAAATAATACATAATGAAGTTTGAATAGTAAAAAGAGTTTTAG
* * *
14804 CTTTTGACCATTACAAATTAAATAT-ATTATTTAATTTGAATATTAATAGGATAATTACTCTTTG
1 CTTTTGACTATTTCAAATTAAAGATAATT-TTTAATTTGAATATTAATAGGATAATTA-T-TTTG
* * *
14868 AATATGTCAACTTAAAAATGTATTTGTTACTTTTTTTAACTTTGAATATT-AAAGATAATTATAT
63 AATAAGTCAACTTAAAAAGGTATTTGTTA-TCTTTTTAACTTTGAATATTAAAAGATAATTATAT
* * *
14932 ATTTTTGTATATTTCAAATTAAAATAATACATAATTAAGTTTGAATGGTAAAAAGAGTTTTAT
127 ATTTTTGTATATTTCAAATTAAAATAATACATAATGAAGTTTGAATAGTAAAAAGAGTTTTAG
*
14995 CTTTTGAATATTTCAAATTAAAAGATA
1 CTTTTGACTATTTCAAATT-AAAGATA
15022 TTGTTATATG
Statistics
Matches: 190, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
187 3 0.02
188 33 0.17
189 18 0.09
190 93 0.49
191 38 0.20
192 5 0.03
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (189 bp):
CTTTTGACTATTTCAAATTAAAGATAATTTTTAATTTGAATATTAATAGGATAATTATTTTGAAT
AAGTCAACTTAAAAAGGTATTTGTTATCTTTTTAACTTTGAATATTAAAAGATAATTATATATTT
TTGTATATTTCAAATTAAAATAATACATAATGAAGTTTGAATAGTAAAAAGAGTTTTAG
Found at i:20875 original size:54 final size:54
Alignment explanation
Indices: 20766--20924 Score: 185
Period size: 60 Copynumber: 2.8 Consensus size: 54
20756 TATAATTTTT
* * *
20766 ATTTTAAATTAGTCCTTAAATTTTTTTAATATTTTAATTTCATCCTCAAACTATG
1 ATTTTAAATTAGTCCTTAAA-CTTTTGAATATTCTAATTTCATCCTCAAACTATG
*
20821 ATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCAT-CTCTAAATTATG
1 ATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCTC-AAACTATG
* *
20875 ATCCTCTTTCTAAATTAGTCCTCAAACTTTTGAATATTCCAATTTCATCC
1 A-----TTT-TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCC
20925 AAATGTGTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
53 3 0.03
54 27 0.30
55 20 0.22
59 3 0.03
60 36 0.40
61 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.47
Consensus pattern (54 bp):
ATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCTCAAACTATG
Found at i:22756 original size:31 final size:32
Alignment explanation
Indices: 22721--22781 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
22711 CTTTGTTATT
22721 GTTTGAT-AAATTTAATGATCATTTTATAATA
1 GTTTGATGAAATTTAATGATCATTTTATAATA
*
22752 GTTTGATGAAATTTAATTATCATTTTATAA
1 GTTTGATGAAATTTAATGATCATTTTATAA
22782 CCGCCTAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (32 bp):
GTTTGATGAAATTTAATGATCATTTTATAATA
Found at i:28347 original size:5 final size:5
Alignment explanation
Indices: 28259--28439 Score: 245
Period size: 5 Copynumber: 33.6 Consensus size: 5
28249 CGTATTACCA
28259 CGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 CGACC -CGACC -CGACC -CGACC -CGACC -CGACC -CGACC -CGACC -CGACC
28312 ACGACC ACGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC
1 -CGACC -CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC
28362 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC
1 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC
28412 CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC CGACC CGACC CGACC CGACC CGA
28440 GACGAGACGA
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 98 0.56
6 77 0.44
ACGTcount: A:0.26, C:0.55, G:0.19, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:29163 original size:30 final size:34
Alignment explanation
Indices: 29128--29256 Score: 161
Period size: 33 Copynumber: 4.0 Consensus size: 34
29118 CGTCTCGTCT
29128 CGGGTCGGGTCG-GGTCG-GGTCG-GGTCG-GGT
1 CGGGTCGGGTCGTGGTCGTGGTCGTGGTCGTGGT
29158 CGGGTCGGGTCG-GGTCG-GGTCG-GGTCG-GGT
1 CGGGTCGGGTCGTGGTCGTGGTCGTGGTCGTGGT
29188 CGTGGTCGTGGTCGTGGTCGTGGTCGTGGTCGTGGT
1 CG-GGTCG-GGTCGTGGTCGTGGTCGTGGTCGTGGT
29224 C--GTCGTGGTCGTGGTCGTGGTCGTGGTCGTGGT
1 CGGGTCG-GGTCGTGGTCGTGGTCGTGGTCGTGGT
29257 TGCGATTTTA
Statistics
Matches: 93, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
30 32 0.34
31 5 0.05
32 5 0.05
33 37 0.40
34 5 0.05
35 5 0.05
36 4 0.04
ACGTcount: A:0.00, C:0.19, G:0.54, T:0.27
Consensus pattern (34 bp):
CGGGTCGGGTCGTGGTCGTGGTCGTGGTCGTGGT
Found at i:29256 original size:6 final size:5
Alignment explanation
Indices: 29127--29252 Score: 148
Period size: 5 Copynumber: 23.6 Consensus size: 5
29117 CCGTCTCGTC
29127 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG
29177 TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TC--G
1 TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG-GG TCG-GG TCG-GG TCGGG
29226 TCGTGG TCGTGG TCGTGG TCGTGG TCG
1 TCG-GG TCG-GG TCG-GG TCG-GG TCG
29253 TGGTTGCGAT
Statistics
Matches: 117, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.03
5 58 0.50
6 56 0.48
ACGTcount: A:0.00, C:0.19, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:40330 original size:21 final size:20
Alignment explanation
Indices: 40245--40401 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
40235 AATGACCAAT
** *
40245 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
40264 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
40284 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
40304 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
40325 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
40346 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
40367 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
40387 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
40402 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:40430 original size:20 final size:20
Alignment explanation
Indices: 40368--40560 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
40358 CGATTTTCCA
* ** *
40368 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
40388 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
40408 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
40428 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
40448 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
40468 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
40488 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
40508 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
40528 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
40548 AAATCGCAACGCG
1 AAATCGCAACGCG
40561 ATATTTAAAG
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.97
21 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:41119 original size:19 final size:19
Alignment explanation
Indices: 41091--41127 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41081 CGCAACGAGA
*
41091 GAAATGAAAATCGCAACGC
1 GAAATAAAAATCGCAACGC
41110 GAAATAAAAATCGCAACG
1 GAAATAAAAATCGCAACG
41128 AGAGAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.11
Consensus pattern (19 bp):
GAAATAAAAATCGCAACGC
Found at i:41175 original size:19 final size:19
Alignment explanation
Indices: 41153--41250 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
41143 GAAACCAAAA
*
41153 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
41172 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
41186 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
41205 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
41219 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
41238 TCGCGTTGCGATT
1 TCGCGTTGCGATT
41251 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:41194 original size:14 final size:14
Alignment explanation
Indices: 41175--41264 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
41165 TTTCATTTCG
41175 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
41189 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
41208 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
41222 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
41241 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
41255 CGTTGCGATT
1 CGTTGCGATT
41265 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:41200 original size:33 final size:33
Alignment explanation
Indices: 41158--41272 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
41148 CAAAATCGCA
41158 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
41191 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
41224 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
41257 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
41273 AACCCAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:43126 original size:93 final size:93
Alignment explanation
Indices: 42967--43619 Score: 1249
Period size: 93 Copynumber: 7.1 Consensus size: 93
42957 TAGATTGCTT
*
42967 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43032 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43060 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43125 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
43153 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTATGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
43218 TTTGTCTTTGTTTTTTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43246 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43311 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43339 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43404 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43432 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43496 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43524 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
43589 TTTGTCTTTG-TTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43615 AGTAA
1 AGTAA
43620 TGCAATCCAT
Statistics
Matches: 553, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 6 0.01
92 106 0.19
93 441 0.80
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:43707 original size:19 final size:19
Alignment explanation
Indices: 43667--43795 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
43657 TAGTTTACTT
* *
43667 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
43687 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
43706 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
43725 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
43739 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
43758 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
43772 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
43791 TCGCA
1 TCGCA
43796 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:43746 original size:33 final size:32
Alignment explanation
Indices: 43703--43795 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
43693 CGCGAAACCA
**
43703 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
43735 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
43768 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
43796 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:43793 original size:52 final size:52
Alignment explanation
Indices: 43667--43795 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
43657 TAGTTTACTT
**
43667 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
43719 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
43772 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
43796 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:43813 original size:19 final size:19
Alignment explanation
Indices: 43791--43910 Score: 117
Period size: 19 Copynumber: 6.6 Consensus size: 19
43781 GAAACCAAAA
*
43791 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
43810 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
43829 TCGCGTTGCGATTTT-A--
1 TCGCGTTGCGATTTTCATT
*
43845 ---AGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
43861 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
43880 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
43900 TCGTGTTGCGA
1 TCGCGTTGCGA
43911 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.13
14 1 0.01
19 59 0.71
20 12 0.14
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:43855 original size:32 final size:32
Alignment explanation
Indices: 43814--43875 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
43804 TTCATTTCGC
**
43814 GTTGCGATTTTGGTTTCGCGTTGCGATTTTAA
1 GTTGCGATTTTCATTTCGCGTTGCGATTTTAA
43846 GTTGCGATTTTCATTTCGCGTTGCGATTTT
1 GTTGCGATTTTCATTTCGCGTTGCGATTTT
43876 GGTTTCGCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (32 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTTTAA
Found at i:43872 original size:51 final size:51
Alignment explanation
Indices: 43796--43899 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
43786 CAAAATCGCA
43796 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTAAG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTAAG
43847 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTAAG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTAAG
43898 TT
1 TT
43900 TCGTGTTGCG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (51 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTAAG
Found at i:45851 original size:14 final size:14
Alignment explanation
Indices: 45832--45867 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
45822 ATTGTTTAAT
45832 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
45846 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
45860 TGATTTGT
1 TGATTTGT
45868 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:45986 original size:19 final size:19
Alignment explanation
Indices: 45970--46067 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
45960 AAAAATGACT
45970 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
45989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
46008 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
46022 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
46041 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
46061 ATCGCAA
1 ATCGCAA
46068 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:46099 original size:53 final size:53
Alignment explanation
Indices: 45970--46086 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
45960 AAAAATGACT
45970 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
46022 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
46075 ATCGCAATGCGA
1 ATCGCAATGCGA
46087 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:46104 original size:19 final size:19
Alignment explanation
Indices: 46076--46297 Score: 250
Period size: 19 Copynumber: 12.7 Consensus size: 19
46066 AACGAGAGAA
*
46076 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
46095 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
46114 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
46130 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
46147 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
46166 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
46182 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
46199 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
46218 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
46234 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
46251 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
46269 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
46285 TCGCATTGCGATT
1 TCGCATTGCGATT
46298 CTCTCGTTGC
Statistics
Matches: 173, Mismatches: 9, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 33 0.19
16 19 0.11
17 16 0.09
18 3 0.02
19 91 0.53
20 11 0.06
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:46139 original size:52 final size:52
Alignment explanation
Indices: 46082--46269 Score: 340
Period size: 52 Copynumber: 3.6 Consensus size: 52
46072 AGAATCGCAA
46082 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
46134 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
46186 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
46238 TGCGATTTTTATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
46270 GTTGGGATTT
Statistics
Matches: 132, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 115 0.87
53 17 0.13
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
Found at i:46319 original size:33 final size:33
Alignment explanation
Indices: 46100--46311 Score: 207
Period size: 33 Copynumber: 6.2 Consensus size: 33
46090 TCATTTCGCA
*
46100 TTGCGATTTTCATTTCGCATTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
46133 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
46169 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
*
46204 TTGCGATTTTCATTTCGCATTGCGATTTTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
46237 TTGCGATTTTTATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
46271 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
46304 TTGCGATT
1 TTGCGATT
46312 GTAATTTCCG
Statistics
Matches: 147, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 72 0.49
34 29 0.20
35 5 0.03
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:48632 original size:12 final size:12
Alignment explanation
Indices: 48615--48639 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48605 TCTTCGGGGA
48615 CTTTTTCTTCTT
1 CTTTTTCTTCTT
48627 CTTTTTCTTCTT
1 CTTTTTCTTCTT
48639 C
1 C
48640 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:48848 original size:24 final size:24
Alignment explanation
Indices: 48814--48860 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
48804 CTGAAACATC
48814 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
48838 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
48861 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:49595 original size:20 final size:20
Alignment explanation
Indices: 49570--49794 Score: 236
Period size: 20 Copynumber: 11.2 Consensus size: 20
49560 TGCCCTACCG
* *
49570 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
49590 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
** *
49610 GATTTACGGATTATCGTTGT
1 GATTTACGGATTCGCGTTGC
*
49630 GATTTACGGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
*
49650 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
49670 GATATACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
** *
49690 GATTTACCCATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
49710 GATTTACGGATACACGTTGC
1 GATTTACGGATTCGCGTTGC
*
49730 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
*
49750 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
* **
49770 GATTTTCATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
49790 GATTT
1 GATTT
49795 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:49811 original size:21 final size:21
Alignment explanation
Indices: 49781--49863 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
49771 ATTTTCATAT
*
49781 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
49802 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
49823 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
49844 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
49864 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:49854 original size:42 final size:43
Alignment explanation
Indices: 49761--49859 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
49751 ATTTATGTGT
* *
49761 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
49802 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
49844 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
49860 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:50013 original size:64 final size:64
Alignment explanation
Indices: 49912--50039 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
49902 TTCGCGTTGC
49912 GATTTTATTGGTCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAACTTTTT
1 GATTTTATTGGTCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAACTTTTT
49976 GATTTTATTGGTCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAACTTTTT
1 GATTTTATTGGTCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAACTTTTT
50040 TTTGGTCACT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (64 bp):
GATTTTATTGGTCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAACTTTTT
Found at i:53685 original size:23 final size:23
Alignment explanation
Indices: 53658--53722 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
53648 TTATGTATTT
*
53658 AATATCTAAATTATTATTTTTAA
1 AATATTTAAATTATTATTTTTAA
* * *
53681 TATATTTTAATAATTAATTTTTAA
1 AATATTTAAATTATT-ATTTTTAA
*
53705 AAAATTTAAATTA-TATTT
1 AATATTTAAATTATTATTT
53723 AACGTTTAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
22 4 0.12
23 12 0.36
24 17 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAATTATTATTTTTAA
Found at i:63941 original size:29 final size:29
Alignment explanation
Indices: 63898--63959 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
63888 CGATATTTAC
* * * *
63898 TTTAGTGTTATAATTGACAAAATTATAAG
1 TTTACTGTTAAAATTAACAAAATTAAAAG
*
63927 TTTACTGTTAAAATTAATAAAATTAAAAG
1 TTTACTGTTAAAATTAACAAAATTAAAAG
63956 TTTA
1 TTTA
63960 ATTATAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (29 bp):
TTTACTGTTAAAATTAACAAAATTAAAAG
Found at i:73378 original size:2 final size:2
Alignment explanation
Indices: 73371--73432 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
73361 ACCATTCTGC
73371 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
73413 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
73433 TGACTTGTGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73730 original size:21 final size:21
Alignment explanation
Indices: 73690--73744 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
73680 GATTCTTGAC
73690 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
73710 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
73732 AATCGCAACGCGA
1 AATCGCAATGCGA
73745 ACACATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:73947 original size:20 final size:20
Alignment explanation
Indices: 73732--73960 Score: 246
Period size: 20 Copynumber: 11.4 Consensus size: 20
73722 GATTTTACAG
*
73732 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
73752 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
73772 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
73792 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
73812 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
73832 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
73852 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
** *
73872 AATCGCAACGATAATCAGTA
1 AATCGCAACGCGAATCCGTA
* *
73892 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
73912 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
73932 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
73952 AATCACAAC
1 AATCGCAAC
73961 ACTGAAATTT
Statistics
Matches: 189, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
20 188 0.99
21 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:74690 original size:24 final size:24
Alignment explanation
Indices: 74651--74697 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
74641 AAATTTGGTC
74651 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
74675 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
74698 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:77206 original size:33 final size:33
Alignment explanation
Indices: 77177--77427 Score: 165
Period size: 33 Copynumber: 7.2 Consensus size: 33
77167 CGGAAATTAC
*
77177 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
* *
77210 AATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAA
* *
77244 AATCGCAATGCGAAATGAAAATCGCAACT-AGAGAATCG-C
1 AATCGCAA--CG--A-GAAAATCGCAA-TGCGA-AAT-GAA
*
77283 AATGCGGAA--ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACGA-GAAAATCGCAATGCGAAATGAA
* *
77316 AATCGCAACTAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
* * *
77349 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--CG--A-GAAAATCGCAATGCGA-AAT-GAA
*
77388 AATGCGGAA--ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACGA-GAAAATCGCAATGCGAAATGAA
77421 AATCGCA
1 AATCGCA
77428 TTGCGATTCT
Statistics
Matches: 173, Mismatches: 22, Indels: 47
0.71 0.09 0.19
Matches are distributed among these distances:
32 9 0.05
33 64 0.37
34 47 0.27
35 1 0.01
36 1 0.01
37 1 0.01
38 16 0.09
39 23 0.13
40 11 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:77254 original size:53 final size:53
Alignment explanation
Indices: 77191--77427 Score: 431
Period size: 53 Copynumber: 4.5 Consensus size: 53
77181 GCAACGAGAG
* * *
77191 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
77244 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
77297 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
*
77349 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
77402 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
77428 TTGCGATTCT
Statistics
Matches: 179, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
52 51 0.28
53 128 0.72
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
Found at i:77260 original size:19 final size:19
Alignment explanation
Indices: 77191--77433 Score: 256
Period size: 19 Copynumber: 13.7 Consensus size: 19
77181 GCAACGAGAG
77191 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
77210 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
77224 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
77244 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
77263 AATCGCAA--C--TA-GAG
1 AATCGCAATGCGAAATGAA
77277 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
77297 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
77316 AATCGCAA--C--TA-GAG
1 AATCGCAATGCGAAATGAA
77330 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
77349 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
77368 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
77382 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
77402 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
77421 AATCGCATTGCGA
1 AATCGCAATGCGA
77434 TTCTCTCGTT
Statistics
Matches: 188, Mismatches: 13, Indels: 46
0.76 0.05 0.19
Matches are distributed among these distances:
14 40 0.21
15 5 0.03
16 4 0.02
17 6 0.03
18 1 0.01
19 92 0.49
20 40 0.21
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:77334 original size:86 final size:86
Alignment explanation
Indices: 77177--77356 Score: 231
Period size: 86 Copynumber: 2.1 Consensus size: 86
77167 CGGAAATTAC
* *
77177 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGAAATGCGCAAATG
77242 AAAATCGCAATGCGAAATGAA
66 AAAATCGCAATGCGAAATGAA
* * *** *
77263 AATCGCAACTAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG-AAAT-GAAAAT-CGCAAC
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAACAAGAAAATCG-AAATGCGCAAA
*
77325 TAGAGAATCGCAATGCGAAATGAA
64 T-GAAAATCGCAATGCGAAATGAA
77349 AATCGCAA
1 AATCGCAA
77357 TGCGAAATGA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
85 6 0.07
86 60 0.73
87 16 0.20
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (86 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGAAATGCGCAAATG
AAAATCGCAATGCGAAATGAA
Found at i:77382 original size:105 final size:106
Alignment explanation
Indices: 77191--77427 Score: 431
Period size: 105 Copynumber: 2.2 Consensus size: 106
77181 GCAACGAGAG
*
77191 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
*
77256 AAATGAAAATCGCAACTAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
* *
77297 AATCGCAATGCGAAATGAAAATCGCAACTAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
77361 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
77402 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
77428 TTGCGATTCT
Statistics
Matches: 127, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 86 0.68
106 41 0.32
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (106 bp):
AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:77467 original size:53 final size:52
Alignment explanation
Indices: 77404--77519 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
77394 GAAATGAAAA
*
77404 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
77456 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
77509 TCGCATTGCGA
1 TCGCATTGCGA
77520 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:77482 original size:19 final size:19
Alignment explanation
Indices: 77442--77529 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
77432 GATTCTCTCG
77442 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
77462 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
77481 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
77495 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
77514 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
77530 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:77639 original size:14 final size:14
Alignment explanation
Indices: 77620--77656 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
77610 CATCAATTAC
77620 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
77634 ACAAATCATCTTTT
1 ACAAATCAACTTTT
77648 ACAAATCAA
1 ACAAATCAA
77657 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:79626 original size:19 final size:19
Alignment explanation
Indices: 79584--79723 Score: 146
Period size: 19 Copynumber: 7.6 Consensus size: 19
79574 TAGTTTACTT
* *
79584 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
79604 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
79623 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
79642 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
79661 TCGCAA--AGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
79675 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
79694 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
79713 TCGCAATGCGA
1 TCGCAACGCGA
79724 TTTTGGTTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
14 8 0.08
16 4 0.04
17 4 0.04
19 71 0.72
20 12 0.12
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:79686 original size:33 final size:36
Alignment explanation
Indices: 79600--79700 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 36
79590 CACGAAACTT
*
79600 AAAATCGCAACGCGAAATGAGAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAATGAAAATCGCAAC-AG-AACC
79638 AAAATCGCAACGCGAAATGAAAATCGCAA-AG-A-C
1 AAAATCGCAACGCGAAATGAAAATCGCAACAGAACC
* *
79671 AGAATCGCAATGCGAAATGAAAATCGCAAC
1 AAAATCGCAACGCGAAATGAAAATCGCAAC
79701 GCGAAATGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
33 28 0.47
34 1 0.02
36 2 0.03
38 28 0.47
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.10
Consensus pattern (36 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACAGAACC
Found at i:79694 original size:52 final size:52
Alignment explanation
Indices: 79619--79718 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
79609 ACGCGAAATG
79619 AGAATCGCAACGAGAAACCAAAATCGCAACGCGAAATGAAAATCGCAAAGAC
1 AGAATCGCAACGAGAAACCAAAATCGCAACGCGAAATGAAAATCGCAAAGAC
* * **
79671 AGAATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 AGAATCGCAACGAGAAACCAAAATCGCAACGCGAAATGAAAATCGCAA
79719 TGCGATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.10
Consensus pattern (52 bp):
AGAATCGCAACGAGAAACCAAAATCGCAACGCGAAATGAAAATCGCAAAGAC
Found at i:79756 original size:14 final size:14
Alignment explanation
Indices: 79737--79793 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
79727 TGGTTTCGCA
79737 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
79751 TTGCGATTTTGGTTTCGCG
1 TTGCGATTTT-G--T--CG
*
79770 TTGCGATTCTGTCG
1 TTGCGATTTTGTCG
79784 TTGCGATTTT
1 TTGCGATTTT
79794 CATTTCGCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.07, C:0.16, G:0.28, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:79761 original size:33 final size:33
Alignment explanation
Indices: 79719--79842 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
79709 AAAATCGCAA
* *
79719 TGCGATTTTGGTTTCGCATTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
79752 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
79785 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
79818 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
79843 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:79773 original size:19 final size:18
Alignment explanation
Indices: 79719--79810 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
79709 AAAATCGCAA
*
79719 TGCGATTTTGGTTTCGCAT
1 TGCGATTTT-GTTTCGCGT
79738 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
79752 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
79771 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
79785 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
79804 TGCGATT
1 TGCGATT
79811 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 22 0.37
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.51
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:79820 original size:14 final size:14
Alignment explanation
Indices: 79768--79824 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
79758 TTTGGTTTCG
*
79768 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
79782 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
79801 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
79815 CGTTGCGATT
1 CGTTGCGATT
79825 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:80081 original size:93 final size:93
Alignment explanation
Indices: 79940--80198 Score: 500
Period size: 93 Copynumber: 2.8 Consensus size: 93
79930 TCAGGGTATT
*
79940 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACAAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
80005 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
80033 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
80098 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
80126 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
80191 GACTATTT
66 TACTATTT
80199 ATCATTACGA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:80244 original size:6 final size:6
Alignment explanation
Indices: 80233--80261 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
80223 TCGTTGAGTG
80233 AAAGAC AAAGAC AAAGAC AAAGAC AAAGA
1 AAAGAC AAAGAC AAAGAC AAAGAC AAAGA
80262 TAAATTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAC
Found at i:81987 original size:20 final size:20
Alignment explanation
Indices: 81956--82052 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
81946 CTTTGGTTGA
81956 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
81976 AATGACTGTCGCAACGAGAGG
1 AATGAAAATCGCAACGAGA-G
81997 AATGAAAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
82015 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
82030 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
82050 AAT
1 AAT
82053 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
18 1 0.02
19 14 0.23
20 19 0.31
21 13 0.21
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:82001 original size:21 final size:21
Alignment explanation
Indices: 81956--82016 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
81946 CTTTGGTTGA
81956 AATGAAAATCGCAACGAGA-G
1 AATGAAAATCGCAACGAGAGG
***
81976 AATGACTGTCGCAACGAGAGG
1 AATGAAAATCGCAACGAGAGG
81997 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
82017 AATCGCAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.11
Consensus pattern (21 bp):
AATGAAAATCGCAACGAGAGG
Found at i:82022 original size:14 final size:14
Alignment explanation
Indices: 82003--82059 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
81993 GAGGAATGAA
82003 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
82017 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
82036 AATCGCAACGAGAG
1 AATCGCAACGAGAG
82050 AATCGCAACG
1 AATCGCAACG
82060 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:82037 original size:33 final size:33
Alignment explanation
Indices: 81954--82076 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
81944 GTCTTTGGTT
*
81954 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
81993 GAGGAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GA--AATGAAAATCGCAACGAGAGAATCGCAACGC
82028 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
82061 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
82077 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 47 0.58
35 10 0.12
38 1 0.01
39 2 0.02
40 1 0.01
41 20 0.25
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:82129 original size:21 final size:21
Alignment explanation
Indices: 82104--82177 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
82094 GTTGCGATTC
82104 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
82125 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
82146 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
82167 TCTCGTTGCGA
1 TCTCGTTGCGA
82178 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:82299 original size:33 final size:33
Alignment explanation
Indices: 82257--82327 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
82247 AATACTAACT
82257 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
82290 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
82323 TGAAA
1 TGAAA
82328 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:82732 original size:20 final size:20
Alignment explanation
Indices: 82707--82878 Score: 204
Period size: 20 Copynumber: 8.6 Consensus size: 20
82697 CTTTAAAAAT
82707 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
82727 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
82748 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
82767 CGCGTTGTGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
82787 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
82807 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
82827 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
82847 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
82867 CGCGTTGCGATT
1 CGCGTTGCGATT
82879 CTTGAAAATC
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.02
20 125 0.96
21 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:83617 original size:2 final size:2
Alignment explanation
Indices: 83610--83639 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
83600 GGATTCTCTA
83610 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
83640 GAGTTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88911 original size:42 final size:42
Alignment explanation
Indices: 88864--88952 Score: 178
Period size: 42 Copynumber: 2.1 Consensus size: 42
88854 ACATCAAATC
88864 ATATTTTAAATTATAATTTAAATAATTAATACAAACCAAAAA
1 ATATTTTAAATTATAATTTAAATAATTAATACAAACCAAAAA
88906 ATATTTTAAATTATAATTTAAATAATTAATACAAACCAAAAA
1 ATATTTTAAATTATAATTTAAATAATTAATACAAACCAAAAA
88948 ATATT
1 ATATT
88953 ATATCAACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (42 bp):
ATATTTTAAATTATAATTTAAATAATTAATACAAACCAAAAA
Found at i:95319 original size:2 final size:2
Alignment explanation
Indices: 95314--95340 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95304 ACACACACAC
95314 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
95341 ACTGAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95984 original size:338 final size:338
Alignment explanation
Indices: 95368--96043 Score: 1318
Period size: 338 Copynumber: 2.0 Consensus size: 338
95358 AATGCATTTA
95368 TTCAATAAAATCGATAAATAAAATGTATCATTACAATCATCATATGATTGGTCTTTGGGCATATT
1 TTCAATAAAATCGATAAATAAAATGTATCATTACAATCATCATATGATTGGTCTTTGGGCATATT
95433 CTAACACTGTTTTTAAGAGAGGGGGGAGAGGAAATCCTCTCCACTTCCCATCGTCGGTGAAGACG
66 CTAACACTGTTTTTAAGAGAGGGGGGAGAGGAAATCCTCTCCACTTCCCATCGTCGGTGAAGACG
95498 ACAACCGCTTGTTGGTGGCGGTTCACGGTGGCCGGAGGGAGATCTACAATAATACCTCTCAAAAG
131 ACAACCGCTTGTTGGTGGCGGTTCACGGTGGCCGGAGGGAGATCTACAATAATACCTCTCAAAAG
95563 TTTCGAACTTCGACGACTTTTGGCTTTCTAGTGAACTCCGAACCAAGGTAAGAGTGTTTTCTTTT
196 TTTCGAACTTCGACGACTTTTGGCTTTCTAGTGAACTCCGAACCAAGGTAAGAGTGTTTTCTTTT
95628 CTCTCTTCCTTTTTCCTTTCGAATCTAATATTGTTTTTTTTTCAT-ATTTTTTTTCCGATTTTTT
261 CTCTCTTCCTTTTTCCTTTCGAATCTAATATTG-TTTTTTTTCATGATTTTTTTTCCGATTTTTT
95692 GAACTGAAAACCCC
325 GAACTGAAAACCCC
95706 TTCAATAAAATCGATAAATAAAATGTATCATTACAATCATCATATGATTGGTCTTTGGGCATATT
1 TTCAATAAAATCGATAAATAAAATGTATCATTACAATCATCATATGATTGGTCTTTGGGCATATT
95771 CTAACACTGTTTTTAAGAGAGGGGGGAGAGGAAATCCTCTCCACTTCCCATCGTCGGTGAAGACG
66 CTAACACTGTTTTTAAGAGAGGGGGGAGAGGAAATCCTCTCCACTTCCCATCGTCGGTGAAGACG
95836 ACAACCGCTTGTTGGTGGCGGTTCACGGTGGCCGGAGGGAGATCTACAATAATACCTCTCAAAAG
131 ACAACCGCTTGTTGGTGGCGGTTCACGGTGGCCGGAGGGAGATCTACAATAATACCTCTCAAAAG
95901 TTTCGAACTTCGACGACTTTTGGCTTTCTAGTGAACTCCGAACCAAGGTAAGAGTGTTTTCTTTT
196 TTTCGAACTTCGACGACTTTTGGCTTTCTAGTGAACTCCGAACCAAGGTAAGAGTGTTTTCTTTT
* *
95966 CTCTCTTCCTTTTTCCTTTCGAATCTAATATTGTTTTTTTTCATGTTTTTTTTTTCGATTTTTTG
261 CTCTCTTCCTTTTTCCTTTCGAATCTAATATTGTTTTTTTTCATGATTTTTTTTCCGATTTTTTG
96031 AACTGAAAACCCC
326 AACTGAAAACCCC
96044 CTCTCTTTTT
Statistics
Matches: 335, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
337 11 0.03
338 324 0.97
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (338 bp):
TTCAATAAAATCGATAAATAAAATGTATCATTACAATCATCATATGATTGGTCTTTGGGCATATT
CTAACACTGTTTTTAAGAGAGGGGGGAGAGGAAATCCTCTCCACTTCCCATCGTCGGTGAAGACG
ACAACCGCTTGTTGGTGGCGGTTCACGGTGGCCGGAGGGAGATCTACAATAATACCTCTCAAAAG
TTTCGAACTTCGACGACTTTTGGCTTTCTAGTGAACTCCGAACCAAGGTAAGAGTGTTTTCTTTT
CTCTCTTCCTTTTTCCTTTCGAATCTAATATTGTTTTTTTTCATGATTTTTTTTCCGATTTTTTG
AACTGAAAACCCC
Found at i:96664 original size:6 final size:6
Alignment explanation
Indices: 96655--96698 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
96645 TGTAAAAGAA
* * *
96655 AAAAAT AAAAAT AAAAAT AAAAAC AAATAAT AATAAT AATAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT A
96699 TTAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:96686 original size:19 final size:18
Alignment explanation
Indices: 96655--96693 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
96645 TGTAAAAGAA
*
96655 AAAAATAAAAATAAAAAT
1 AAAAACAAAAATAAAAAT
*
96673 AAAAACAAATAATAATAAT
1 AAAAACAAA-AATAAAAAT
96692 AA
1 AA
96694 TAATATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAACAAAAATAAAAAT
Found at i:96689 original size:22 final size:21
Alignment explanation
Indices: 96653--96696 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
96643 CATGTAAAAG
96653 AAAAAAATAAAAATAAAAATA
1 AAAAAAATAAAAATAAAAATA
* *
96674 AAAACAAATAATAATAATAATA
1 AAAA-AAATAAAAATAAAAATA
96696 A
1 A
96697 TATTAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAAAATAAAAATAAAAATA
Found at i:97211 original size:12 final size:10
Alignment explanation
Indices: 97175--97209 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
97165 TGTATATTAC
*
97175 ATATGAAATAC
1 ATATGAAA-AA
97186 ATATGAAAAA
1 ATATGAAAAA
97196 ATATGAAAAA
1 ATATGAAAAA
97206 ATAT
1 ATAT
97210 ATTTGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.26
Consensus pattern (10 bp):
ATATGAAAAA
Found at i:98387 original size:4 final size:4
Alignment explanation
Indices: 98378--98404 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
98368 CAGTCACCAT
98378 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
98405 CACTCTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:104110 original size:21 final size:21
Alignment explanation
Indices: 104081--104133 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
104071 ATTCTGACTA
104081 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
104102 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
* *
104123 TCACAATGCGA
1 TCGCATTGCGA
104134 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:104155 original size:20 final size:20
Alignment explanation
Indices: 104126--104236 Score: 159
Period size: 20 Copynumber: 5.5 Consensus size: 20
104116 TCCTAATTCA
104126 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
* ** *
104146 CAACGCGAATTTGAAAAATCG
1 CAATGCGAATACG-TAAATCG
*
104167 CAATGCGATTACGTAAATCG
1 CAATGCGAATACGTAAATCG
104187 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
104207 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
*
104227 CAACGCGAAT
1 CAATGCGAAT
104237 CTGACTATCG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 64 0.81
21 15 0.19
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (20 bp):
CAATGCGAATACGTAAATCG
Found at i:104246 original size:20 final size:20
Alignment explanation
Indices: 104223--104269 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
104213 GAATACGTAA
*
104223 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
* *
104243 ATCGCAATGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
104263 ATCGCAA
1 ATCGCAA
104270 TATTGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:104247 original size:40 final size:40
Alignment explanation
Indices: 104126--104251 Score: 173
Period size: 40 Copynumber: 3.1 Consensus size: 40
104116 TCCTAATTCA
*
104126 CAATGCGAATACGTAAATCGCAACGCGAATTTGAAAAATCG
1 CAATGCGAATACGTAAATCGCAACGCGAATCTG-AAAATCG
* * *
104167 CAATGCGATTACGTAAATCGCAATGCGAATAC-GTAAATCG
1 CAATGCGAATACGTAAATCGCAACGCGAAT-CTGAAAATCG
**
104207 CAATGCGAATACGTAAATCGCAACGCGAATCTGACTATCG
1 CAATGCGAATACGTAAATCGCAACGCGAATCTGAAAATCG
104247 CAATG
1 CAATG
104252 AGATTCTGAC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 44 0.59
41 29 0.39
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (40 bp):
CAATGCGAATACGTAAATCGCAACGCGAATCTGAAAATCG
Found at i:105140 original size:24 final size:24
Alignment explanation
Indices: 105113--105166 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
105103 GTATTCGAAA
105113 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
105137 TTTGATCTTGGTCAATTCTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
105161 TTTGAT
1 TTTGAT
105167 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:107602 original size:20 final size:20
Alignment explanation
Indices: 107577--107670 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
107567 GACATTCATT
*
107577 TGACTATCGCAATGC-GAATA
1 TGACTATCGCAACGCGGAA-A
*
107597 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* * *
107617 TGACTATTGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
107637 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
107657 TGACTATCACAACG
1 TGACTATCGCAACG
107671 AGAGAATCGC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 60 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:107632 original size:40 final size:40
Alignment explanation
Indices: 107577--107664 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
107567 GACATTCATT
107577 TGACTATCGCAATGC-GAATATGACTATCGCAACACGGAAA
1 TGACTATCGCAATGCGGAAT-TGACTATCGCAACACGGAAA
* *
107617 TGACTATTGCAATGCGGAATTGACTATCGCAACGCGGAAA
1 TGACTATCGCAATGCGGAATTGACTATCGCAACACGGAAA
107657 TGACTATC
1 TGACTATC
107665 ACAACGAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (40 bp):
TGACTATCGCAATGCGGAATTGACTATCGCAACACGGAAA
Found at i:107730 original size:34 final size:33
Alignment explanation
Indices: 107642--107737 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
107632 GGAATTGACT
* ** *
107642 ATCGCAACGCGGAAATGACTATCACAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
107676 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
107709 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
107738 CAAATTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:107797 original size:34 final size:34
Alignment explanation
Indices: 107752--107848 Score: 140
Period size: 34 Copynumber: 2.9 Consensus size: 34
107742 TTTAGTTTCG
*
107752 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCT
*
107786 CGTTGCTATTTTCATTTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCT
** **
107820 CGTTGCGATAGTCATTTTCGGGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
107849 ATTTTGTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCT
Found at i:107973 original size:14 final size:14
Alignment explanation
Indices: 107954--107990 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
107944 CATCAATTAA
107954 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
107968 ACAAATCATCTTTT
1 ACAAATCAACATTT
107982 ACAAATCAA
1 ACAAATCAA
107991 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:109471 original size:42 final size:42
Alignment explanation
Indices: 109364--109474 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 42
109354 TCTAGAATGT
* *
109364 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGTGGCCTCTTGAACGA
* * ** *
109406 TGGGAGGGGACTCTTGAGGGATGATAG-GAGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGTG-GCCTCTTGAACGA
109448 TAGGG-GAGGCCTCTTGAACGATGACAG
1 T-GGGAGAGGCCTCTTGAACGATGACAG
109475 GTGAGTCGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 49 0.89
43 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGTGGCCTCTTGAACGA
Found at i:109978 original size:20 final size:20
Alignment explanation
Indices: 109955--110043 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
109945 GAAACTTAAA
109955 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
109975 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
109995 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
110015 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
110035 ATCGCAACG
1 ATCGCAACG
110044 AGAGAATCGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:110078 original size:19 final size:19
Alignment explanation
Indices: 110050--110154 Score: 67
Period size: 20 Copynumber: 5.7 Consensus size: 19
110040 AACGAGAGAA
*
110050 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
** *
110069 TCGCATTGCGATAGTCAAAT
1 TCGCATTGCGATTTTC-ATT
* **
110089 TCACATTGCGATAGTCATTT
1 TCGCATTGCGATTTTCA-TT
* *
110109 TCGCGTTGCGATTTT--GT
1 TCGCATTGCGATTTTCATT
*
110126 T-G--TTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
110142 TCGCATTGCGATT
1 TCGCATTGCGATT
110155 CGCTCGTTGC
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
14 9 0.14
16 3 0.05
17 3 0.05
19 21 0.32
20 29 0.45
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:110117 original size:20 final size:20
Alignment explanation
Indices: 110066--110120 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
110056 TGCGATTTTC
110066 ATTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
* *
110086 AATTCACATTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
* *
110106 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
110121 TTTGTTGTTA
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:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTTCGCATTGCGATAGTCA
Found at i:110184 original size:20 final size:20
Alignment explanation
Indices: 110159--110199 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
110149 GCGATTCGCT
*
110159 CGTTGCGATAGTTATTTTCG
1 CGTTGCGATAGTCATTTTCG
110179 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
110199 C
1 C
110200 ATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:110185 original size:34 final size:33
Alignment explanation
Indices: 110094--110187 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
110084 CAAATTCACA
* * *
110094 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTTATTTTCGCGTTGCGA-TTCGTCG
* * *
110128 TTACGAT-TTTCA-TTTCGCATTGCGATTCGCTCG
1 TTGCGATAGTT-ATTTTCGCGTTGCGATTCG-TCG
110161 TTGCGATAGTTATTTTCGCGTTGCGAT
1 TTGCGATAGTTATTTTCGCGTTGCGAT
110188 AGTCATTTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
32 3 0.06
33 22 0.47
34 22 0.47
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (33 bp):
TTGCGATAGTTATTTTCGCGTTGCGATTCGTCG
Done.