Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008909.1 Hibiscus syriacus cultivar Beakdansim tig00112206_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: 2327114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:739251 original size:31 final size:31
Alignment explanation
Indices: 739206--739285 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
739196 TTTAATTTTA
* * *
739206 TCAATTATAACACTGAACTTTGCTTTTTGTT
1 TCAATTATACCACTGAACTTTGATTTTCGTT
*
739237 TTAATTATACCACTGAACTTTGATTTTCGTT
1 TCAATTATACCACTGAACTTTGATTTTCGTT
739268 TCAATTATACCACTGAAC
1 TCAATTATACCACTGAAC
739286 CATTAAATCG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.44
Consensus pattern (31 bp):
TCAATTATACCACTGAACTTTGATTTTCGTT
Found at i:742807 original size:4 final size:4
Alignment explanation
Indices: 742789--742836 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
742779 ATCAATGGTA
* * *
742789 ATAC ATGC ATGC ATAC ATAC ATAC A-AC ATGC ATAC ATAC ATAC A-AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
742835 AT
1 AT
742837 GCACAAGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 6 0.16
4 32 0.84
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:742820 original size:19 final size:19
Alignment explanation
Indices: 742796--742839 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
742786 GTAATACATG
742796 CATGCATACATACATACAA
1 CATGCATACATACATACAA
742815 CATGCATACATACATACAA
1 CATGCATACATACATACAA
742834 CATGCA
1 CATGCA
742840 CAAGGATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.20
Consensus pattern (19 bp):
CATGCATACATACATACAA
Found at i:748741 original size:16 final size:16
Alignment explanation
Indices: 748720--748758 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
748710 TGTGGGTCAT
748720 ATAATAATGA-TATTAA
1 ATAATAAT-ATTATTAA
*
748736 ATAATAATATTATTAT
1 ATAATAATATTATTAA
748752 ATAATAA
1 ATAATAA
748759 ATTTTATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATAATAATATTATTAA
Found at i:749113 original size:11 final size:11
Alignment explanation
Indices: 749087--749141 Score: 67
Period size: 11 Copynumber: 4.8 Consensus size: 11
749077 TACTACTTTA
*
749087 TTAAATAT-TA
1 TTAAATATATT
749097 TTAAATATATT
1 TTAAATATATT
749108 TTAAATATATATT
1 TT-AA-ATATATT
749121 ATTAAATATATT
1 -TTAAATATATT
749133 TTAAATATA
1 TTAAATATA
749142 AACATAGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 8 0.20
11 12 0.30
12 9 0.22
13 9 0.22
14 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAAATATATT
Found at i:749119 original size:25 final size:25
Alignment explanation
Indices: 749091--749141 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
749081 ACTTTATTAA
749091 ATATTATTAAATATATTTTAAATAT
1 ATATTATTAAATATATTTTAAATAT
749116 ATATTATTAAATATATTTTAAATAT
1 ATATTATTAAATATATTTTAAATAT
749141 A
1 A
749142 AACATAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATATTATTAAATATATTTTAAATAT
Found at i:749127 original size:14 final size:14
Alignment explanation
Indices: 749091--749131 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
749081 ACTTTATTAA
749091 ATATTATT-AA-AT
1 ATATTATTAAATAT
749103 ATATT-TTAAATAT
1 ATATTATTAAATAT
749116 ATATTATTAAATAT
1 ATATTATTAAATAT
749130 AT
1 AT
749132 TTTAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.08
12 7 0.27
13 7 0.27
14 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTATTAAATAT
Found at i:750209 original size:344 final size:335
Alignment explanation
Indices: 749576--750307 Score: 1153
Period size: 344 Copynumber: 2.2 Consensus size: 335
749566 ATTTTTTATA
* * * * **
749576 ATAAT-AATTTTTTATAATTTTGAAATTTATAAATTTCATATATTTTGAAAAAAATATTTTCTTT
1 ATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATATTACCTTT
749640 TAAAATTAATTGTTTAAAAATATAAAAATATTAAAATAAACTTTTAATTATAATTAAGGGATCAA
66 TAAAATTAATTGTTTAAAAATATAAAAATATTAAAATAAACTTTTAATTATAATTAAGGGATCAA
* *
749705 ATGAATTATTATTCATTAATTTTTAGCTTTTAACAACAGTTAATATTGTTTATTCATTTTTAATA
131 ATGAATTATTATTCATTAATTTTTAACTTTTAACAACAGTTAATAATGTTTATTCATTTTTAATA
** * * * *
749770 AAACTATTTTGATTTTTGTATTAAAATTACGCAATACGTATAATCTAGTATAGGAAAACTTTGAG
196 AAACTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTAGTATAGAAAAACTTTGAA
*
749835 GGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTACAAAAT
261 GGTAAGCATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTAC-AAA-
749900 GATGATGATGATG
324 -ATGATGATGATG
749913 ATGATGATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATTATTAC
1 AT-A--ATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAA-TATTAC
*
749978 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACT-ATTGAG
62 CTTTTAAAATTAATTGTTTAAAAATAT--AAAAATATTAAAATAAACTTTTAATTA-TAATTAAG
*
750042 GGATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGTTAATAATGTTTATTCATT
124 GGATCAAATGAATTATTATTCATTAATTTTTAACTTTTAACAACAGTTAATAATGTTTATTCATT
* * *
750107 TTTAATAAAATTATTTAAATTTTTGTATTAAAATTACATAATACATATAATCTAGTATATAAAAA
189 TTTAATAAAACTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTAGTATAGAAAAA
750172 CTTTGAAGGTAAGCATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTT
254 CTTTGAAGGTAAGCATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTT
750237 ACAAAATGATGATGATG
319 ACAAAATGATGATGATG
* * *
750254 ATAATAAATATTTTATAATTTAAAAAATCATAAATTTCATATATTTTTTAAAAA
1 ATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAA
750308 TATAAAAAAT
Statistics
Matches: 364, Mismatches: 23, Indels: 15
0.91 0.06 0.04
Matches are distributed among these distances:
337 2 0.01
338 49 0.13
340 3 0.01
341 59 0.16
342 31 0.09
343 3 0.01
344 216 0.59
345 1 0.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (335 bp):
ATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATATTACCTTT
TAAAATTAATTGTTTAAAAATATAAAAATATTAAAATAAACTTTTAATTATAATTAAGGGATCAA
ATGAATTATTATTCATTAATTTTTAACTTTTAACAACAGTTAATAATGTTTATTCATTTTTAATA
AAACTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTAGTATAGAAAAACTTTGAA
GGTAAGCATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTACAAAAT
GATGATGATG
Found at i:750414 original size:26 final size:26
Alignment explanation
Indices: 750375--750424 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
750365 TTCAATATTT
**
750375 TTTTTCAAAATATATGAAATTTATAA
1 TTTTTCAAAATATAAAAAATTTATAA
750401 TTTTT-AAAATTATAAAAAATTTAT
1 TTTTTCAAAA-TATAAAAAATTTAT
750425 TATTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTTCAAAATATAAAAAATTTATAA
Found at i:752642 original size:120 final size:120
Alignment explanation
Indices: 752502--752741 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 120
752492 TAGTCGAATT
*
752502 AGATTTTTGATCAACACTAATTTGATTTAAGTATTCTACCTCTTACATCGTAATTGAACTCGACT
1 AGATTTTTGATCAACACTAATTTAATTTAAGTATTCTACCTCTTACATCGTAATTGAACTCGACT
* * *
752567 CAAATTTAAGGATGTTTAAACTGAATCAAAATCTAACCTGATTTTTTAAGTTAAA
66 CAAATTTAAGGAGGCTTAAACTGAATCAAAATCTAACCTGATTTTTTAAGATAAA
* * * *
752622 AGATTTTTTATCAACCCTAATTTAATTTAAGTATTCTACCTCTTCCATCGTTATTGAACTCGACT
1 AGATTTTTGATCAACACTAATTTAATTTAAGTATTCTACCTCTTACATCGTAATTGAACTCGACT
* **
752687 CAGATTTAAGGAGGCTTAAACTGAATTGAAATCTAACCTGATTTTTTAAGATAAA
66 CAAATTTAAGGAGGCTTAAACTGAATCAAAATCTAACCTGATTTTTTAAGATAAA
752742 GTATGGACTT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (120 bp):
AGATTTTTGATCAACACTAATTTAATTTAAGTATTCTACCTCTTACATCGTAATTGAACTCGACT
CAAATTTAAGGAGGCTTAAACTGAATCAAAATCTAACCTGATTTTTTAAGATAAA
Found at i:756221 original size:24 final size:24
Alignment explanation
Indices: 756175--756226 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
756165 ATTTATGTAC
* *
756175 TTAACCCTAAAAATTATTTATCTT
1 TTAACCCTAAAAATTATTGATCTA
*
756199 TTAACCCTAAATA-TATATGATCTA
1 TTAACCCTAAAAATTAT-TGATCTA
756223 TTAA
1 TTAA
756227 TAGTATATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (24 bp):
TTAACCCTAAAAATTATTGATCTA
Found at i:760228 original size:29 final size:29
Alignment explanation
Indices: 760133--760221 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
760123 CTACAGTGAG
760133 CTTGGAGGTCGCCATGGCATCCGAGCGAC
1 CTTGGAGGTCGCCATGGCATCCGAGCGAC
*
760162 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGAGCGAC
760191 CTTGGAGGTCGCCATGGCATCCGAGCGAC
1 CTTGGAGGTCGCCATGGCATCCGAGCGAC
760220 CT
1 CT
760222 GTGAGGTGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGAGCGAC
Found at i:760538 original size:14 final size:14
Alignment explanation
Indices: 760519--760546 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
760509 TGCTGGGCAT
760519 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
760533 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
760547 AAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:760561 original size:20 final size:20
Alignment explanation
Indices: 760533--760587 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
760523 GGCCATCCGA
*
760533 CCGAGGCCATCCGAAAGCAT
1 CCGATGCCATCCGAAAGCAT
*
760553 CCGATGCCATCCGAGAGCAT
1 CCGATGCCATCCGAAAGCAT
760573 CCGATGCCATCCGAA
1 CCGATGCCATCCGAA
760588 CGAGCTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.36, G:0.24, T:0.13
Consensus pattern (20 bp):
CCGATGCCATCCGAAAGCAT
Found at i:760606 original size:23 final size:23
Alignment explanation
Indices: 760580--760632 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
760570 CATCCGATGC
*
760580 CATCCGAACGAGCTATGTGAGGG
1 CATCCGAACGAGCTATGCGAGGG
*
760603 CATCCGAACGAGCTATGCGATGG
1 CATCCGAACGAGCTATGCGAGGG
760626 CATCCGA
1 CATCCGA
760633 GGGCAACCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.17
Consensus pattern (23 bp):
CATCCGAACGAGCTATGCGAGGG
Found at i:760635 original size:33 final size:33
Alignment explanation
Indices: 760598--760678 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
760588 CGAGCTATGT
* * *
760598 GAGGGCATCCGAACGAGCTATGCGATGGCATCC
1 GAGGGCAACCGAACGAGCTATGCGAGGGAATCC
*
760631 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
1 GAGGGCAACCGAACGAGCTATGCGAGGGAATCC
*
760664 GA--GCAACCGAGCGAG
1 GAGGGCAACCGAACGAG
760679 GGTAGGTCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 13 0.30
33 31 0.70
ACGTcount: A:0.27, C:0.26, G:0.37, T:0.10
Consensus pattern (33 bp):
GAGGGCAACCGAACGAGCTATGCGAGGGAATCC
Found at i:760759 original size:23 final size:23
Alignment explanation
Indices: 760725--760777 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
760715 CTTGGTTGCC
760725 CTCGGATTCCCTCGCATAGCTCG
1 CTCGGATTCCCTCGCATAGCTCG
760748 CTCGG-TTGCCCTCGCATAGCTCG
1 CTCGGATT-CCCTCGCATAGCTCG
*
760771 TTCGGAT
1 CTCGGAT
760778 AGCCTCAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.11, C:0.36, G:0.25, T:0.28
Consensus pattern (23 bp):
CTCGGATTCCCTCGCATAGCTCG
Found at i:761039 original size:2 final size:2
Alignment explanation
Indices: 761032--761137 Score: 212
Period size: 2 Copynumber: 53.0 Consensus size: 2
761022 AGATACATAC
761032 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
761074 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
761116 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
761138 CTTAATTCCT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 104 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:762735 original size:31 final size:31
Alignment explanation
Indices: 762700--762764 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
762690 TCAAAAATCA
762700 TAATATATGATCACATTCATTTTTATTTAAT
1 TAATATATGATCACATTCATTTTTATTTAAT
* *
762731 TAATATATGATCACTTTTATTTTTATTTAAT
1 TAATATATGATCACATTCATTTTTATTTAAT
762762 TAA
1 TAA
762765 AATGTGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (31 bp):
TAATATATGATCACATTCATTTTTATTTAAT
Found at i:765634 original size:6 final size:6
Alignment explanation
Indices: 765623--765690 Score: 129
Period size: 6 Copynumber: 11.5 Consensus size: 6
765613 GACACGTATT
765623 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
765671 ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
765691 CGAGACGGCG
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.08
6 57 0.92
ACGTcount: A:0.32, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:765758 original size:12 final size:12
Alignment explanation
Indices: 765741--765765 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
765731 TCTCTTTCAC
765741 TCAACAAGGAAA
1 TCAACAAGGAAA
765753 TCAACAAGGAAA
1 TCAACAAGGAAA
765765 T
1 T
765766 GGGAAATCCA
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:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (12 bp):
TCAACAAGGAAA
Found at i:766241 original size:6 final size:5
Alignment explanation
Indices: 766192--766237 Score: 65
Period size: 5 Copynumber: 8.6 Consensus size: 5
766182 TCGTCTCGTC
766192 TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG
766238 TGGTAATACG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 23 0.57
6 17 0.43
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.26
Consensus pattern (5 bp):
TCGGG
Found at i:766362 original size:20 final size:20
Alignment explanation
Indices: 766337--766443 Score: 96
Period size: 20 Copynumber: 5.2 Consensus size: 20
766327 GAATTTACTC
*
766337 ATTTTCTGAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
766357 ATTTTCTGAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
766377 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
766399 ATTTTCTTTTG-A-C-CGTTGCG
1 ATTTTC---TGAATCGCGTTGCG
*
766419 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
766439 ATTTT
1 ATTTT
766444 GTTGGTCATT
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 1 0.01
20 49 0.67
21 6 0.08
22 14 0.19
25 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:766555 original size:19 final size:21
Alignment explanation
Indices: 766518--766562 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
766508 CACTGACGCT
*
766518 TTTTTCTCAAAATAGTTTTTC
1 TTTTTCTCAAAATAGTTTTTA
*
766539 TTTTTCT-AAATTA-TTTTTA
1 TTTTTCTCAAAATAGTTTTTA
766558 TTTTT
1 TTTTT
766563 TTCCTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 5 0.23
21 7 0.32
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTCTCAAAATAGTTTTTA
Found at i:766563 original size:21 final size:21
Alignment explanation
Indices: 766517--766565 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
766507 TCACTGACGC
766517 TTTTTTCTCAAAATAGTTTTT
1 TTTTTTCTCAAAATAGTTTTT
* * *
766538 CTTTTTCT-AAATTATTTTTAT
1 TTTTTTCTCAAAATAGTTTT-T
766559 TTTTTTC
1 TTTTTTC
766566 CTTTTTCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTCTCAAAATAGTTTTT
Found at i:771551 original size:20 final size:20
Alignment explanation
Indices: 771526--771565 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
771516 AGGAATTTTA
771526 TTTTTATATTATT-AAAATAT
1 TTTTTA-ATTATTGAAAATAT
771546 TTTTTAATTATTGAAAATAT
1 TTTTTAATTATTGAAAATAT
771566 AAAACTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTAATTATTGAAAATAT
Found at i:771592 original size:41 final size:43
Alignment explanation
Indices: 771542--771632 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 43
771532 TATTATTAAA
*
771542 ATATT-TTTTAATTATTGAAAATATAA-AACTA-CTATAAAAT
1 ATATTATTTTAATTATTGAAAATATAATAAATAGCTATAAAAT
* * * *
771582 ATATTATTTTAATTATTTAAACTATAATAAATAGTTATACAAT
1 ATATTATTTTAATTATTGAAAATATAATAAATAGCTATAAAAT
771625 ATATTATT
1 ATATTATT
771633 ATAAAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 5 0.12
41 19 0.44
42 4 0.09
43 15 0.35
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (43 bp):
ATATTATTTTAATTATTGAAAATATAATAAATAGCTATAAAAT
Found at i:771607 original size:30 final size:29
Alignment explanation
Indices: 771572--771656 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 29
771562 ATATAAAACT
771572 ACTATAAAATATATTATTTTAATTATTTAA
1 ACTATAAAA-ATATTATTTTAATTATTTAA
**
771602 ACTATAATAAATAGTTA-TACAA-TATATT--
1 ACTATAA-AAATA-TTATTTTAATTAT-TTAA
*
771630 ATTATAAAAATATTATTTTAATTATTT
1 ACTATAAAAATATTATTTTAATTATTT
771657 TAAAATATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
26 3 0.07
27 10 0.22
28 9 0.20
29 3 0.07
30 15 0.33
31 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (29 bp):
ACTATAAAAATATTATTTTAATTATTTAA
Found at i:772645 original size:24 final size:23
Alignment explanation
Indices: 772618--772670 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
772608 ACATGTTCAT
772618 GAACACGTTCATGAACATATAAAC
1 GAACACGTTCATGAACAT-TAAAC
* * *
772642 GAACACGTTCGTGAGCATTAAGC
1 GAACACGTTCATGAACATTAAAC
772665 GAACAC
1 GAACAC
772671 TAAACGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (23 bp):
GAACACGTTCATGAACATTAAAC
Found at i:774254 original size:21 final size:21
Alignment explanation
Indices: 774216--774255 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
774206 TTGCTTTGAA
*
774216 ATAAAATATATTATACTAAGT
1 ATAAAATACATTATACTAAGT
774237 ATAAAATCACATTA-ACTAA
1 ATAAAAT-ACATTATACTAA
774256 AATAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
ATAAAATACATTATACTAAGT
Found at i:774273 original size:4 final size:4
Alignment explanation
Indices: 774255--774295 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
774245 ACATTAACTA
774255 AAAT AAA- AGAAT AAAT AAAT ATAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT
774296 TAGTATGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 28 0.82
5 5 0.15
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:774282 original size:21 final size:21
Alignment explanation
Indices: 774256--774295 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
774246 CATTAACTAA
774256 AATAAA-AGAATAAATAAATAT
1 AATAAATA-AATAAATAAATAT
774277 AATAAATAAATAAATAAAT
1 AATAAATAAATAAATAAAT
774296 TAGTATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AATAAATAAATAAATAAATAT
Found at i:774431 original size:2 final size:2
Alignment explanation
Indices: 774424--774471 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
774414 TCCGATCAAA
774424 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
774466 AT AT AT
1 AT AT AT
774472 TTTATCTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:778350 original size:16 final size:15
Alignment explanation
Indices: 778329--778358 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
778319 AATATGATAA
778329 ATAATTTTATATTTTG
1 ATAATTTTAT-TTTTG
778345 ATAATTTTATTTTT
1 ATAATTTTATTTTT
778359 AAAGATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATAATTTTATTTTTG
Found at i:778489 original size:18 final size:18
Alignment explanation
Indices: 778468--778502 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
778458 GAACAAATAA
*
778468 AATTTAAAAATTAAATTG
1 AATTTAAAAACTAAATTG
*
778486 AATTTTAAAACTAAATT
1 AATTTAAAAACTAAATT
778503 CATATATCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AATTTAAAAACTAAATTG
Found at i:787026 original size:121 final size:121
Alignment explanation
Indices: 786888--787122 Score: 416
Period size: 121 Copynumber: 1.9 Consensus size: 121
786878 AAACTTTGGG
* * * * *
786888 GGTCAAATGCTCCAAAAAAATAGAATAGGGGTAAAATAATCATTTTAGTAAATGTTGGGGGTTAA
1 GGTCAAATGCTCAAAAAAAATAGAATAGGAGCAAAATAATCATTTTAGTAAACGTTGGGGGCTAA
786953 TTTTGAAATTATGCTTTATTATTATATGATTTATTAATATTTCACACTTAGCCCAT
66 TTTTGAAATTATGCTTTATTATTATATGATTTATTAATATTTCACACTTAGCCCAT
787009 GGTCAAATGCTCAAAAAAAATAGAATAGGAGCAAAATAATCATTTTAGTAAACGTTGGGGGCTAA
1 GGTCAAATGCTCAAAAAAAATAGAATAGGAGCAAAATAATCATTTTAGTAAACGTTGGGGGCTAA
*
787074 TTTTGAAATTATGCTTTATTATTATATGATTTATTAATGTTTCACACTT
66 TTTTGAAATTATGCTTTATTATTATATGATTTATTAATATTTCACACTT
787123 GGCCTATCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 108 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (121 bp):
GGTCAAATGCTCAAAAAAAATAGAATAGGAGCAAAATAATCATTTTAGTAAACGTTGGGGGCTAA
TTTTGAAATTATGCTTTATTATTATATGATTTATTAATATTTCACACTTAGCCCAT
Found at i:790312 original size:6 final size:6
Alignment explanation
Indices: 790301--790586 Score: 558
Period size: 6 Copynumber: 48.0 Consensus size: 6
790291 TATATATGTA
790301 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
790349 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
790397 TGTATG TGTATG TGTATG TGTATG TGTA-- TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
790443 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
790491 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
790539 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
790587 CTTGGAGAGG
Statistics
Matches: 278, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.01
6 274 0.99
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:791831 original size:13 final size:13
Alignment explanation
Indices: 791808--791841 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
791798 GGAATCTTAA
791808 ATTATTTATTTATT
1 ATTA-TTATTTATT
791822 ATTATTATTTATT
1 ATTATTATTTATT
791835 ATTATTA
1 ATTATTA
791842 AAAGAGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATTTATT
Found at i:802680 original size:13 final size:13
Alignment explanation
Indices: 802662--802701 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
802652 ATACAGACGC
*
802662 GCATATGAAGACT
1 GCATATGGAGACT
802675 GCATATGGAGACT
1 GCATATGGAGACT
802688 GCATATGGAGACT
1 GCATATGGAGACT
802701 G
1 G
802702 TTCAACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (13 bp):
GCATATGGAGACT
Found at i:803110 original size:25 final size:25
Alignment explanation
Indices: 803076--803131 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
803066 TTGACACATT
803076 TTAATATAACTTGTCGATATCTTTC
1 TTAATATAACTTGTCGATATCTTTC
803101 TTAATATAACTTGTCGATATCTTTC
1 TTAATATAACTTGTCGATATCTTTC
803126 TTAATA
1 TTAATA
803132 ATATTGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.48
Consensus pattern (25 bp):
TTAATATAACTTGTCGATATCTTTC
Found at i:804050 original size:43 final size:43
Alignment explanation
Indices: 803998--804126 Score: 240
Period size: 43 Copynumber: 3.0 Consensus size: 43
803988 AGAGCAGCAT
*
803998 TATGGGTTTCATAAACATAAGCATGCTAAAGACATGGTACTAA
1 TATGAGTTTCATAAACATAAGCATGCTAAAGACATGGTACTAA
804041 TATGAGTTTCATAAACATAAGCATGCTAAAGACATGGTACTAA
1 TATGAGTTTCATAAACATAAGCATGCTAAAGACATGGTACTAA
*
804084 TATGAGTTTCATAAACATGAGCATGCTAAAGACATGGTACTAA
1 TATGAGTTTCATAAACATAAGCATGCTAAAGACATGGTACTAA
804127 GTAGTAGATA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (43 bp):
TATGAGTTTCATAAACATAAGCATGCTAAAGACATGGTACTAA
Found at i:819190 original size:2 final size:2
Alignment explanation
Indices: 819183--819209 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
819173 CCGATTAATT
819183 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
819210 TAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:819234 original size:24 final size:23
Alignment explanation
Indices: 819203--819249 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
819193 TATATATATA
*
819203 TATATATTAATAAT-TTTTATTTT
1 TATATATTAA-AATATATTATTTT
819226 TATACTATTAAAATATATTATTTT
1 TATA-TATTAAAATATATTATTTT
819250 AATTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATATTAAAATATATTATTTT
Found at i:819667 original size:25 final size:24
Alignment explanation
Indices: 819634--819686 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
819624 TTTAGAATAT
* *
819634 TTATCATTTTTATAGATTTTATAAA
1 TTATAATTTTTATAGAATTT-TAAA
* *
819659 TTATAATTTTTTTATAATTTTAAA
1 TTATAATTTTTATAGAATTTTAAA
819683 TTAT
1 TTAT
819687 TTGTTATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTATAATTTTTATAGAATTTTAAA
Found at i:826181 original size:14 final size:13
Alignment explanation
Indices: 826142--826183 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
826132 TTAATTTGAC
826142 TATTTTATCACAT
1 TATTTTATCACAT
*
826155 TATTAT-TCACAT
1 TATTTTATCACAT
*
826167 TGTTTTATCATCAT
1 TATTTTATCA-CAT
826181 TAT
1 TAT
826184 GATAGGTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 8 0.35
14 5 0.22
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (13 bp):
TATTTTATCACAT
Found at i:826936 original size:60 final size:60
Alignment explanation
Indices: 826792--826944 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 60
826782 TAATTTGGAT
* ** * ** *
826792 TATTCAAAAGTTTAGGGCCTAATTTAGAAAGAGGGTCATAGTTTAGGGATAAAATTAAAA
1 TATTCAAAAGTTTAAGAACTAATTTAGAATGAAAGTCATAGTTTAGAGATAAAATTAAAA
* *
826852 TGTTCAAAAGTTTAA-AGACTAATTTAGAATGAAAGTCATAGTTT-GAAGATGAAAA-TAGAA
1 TATTCAAAAGTTTAAGA-ACTAATTTAGAATGAAAGTCATAGTTTAG-AGAT-AAAATTAAAA
* *
826912 TATTCAAAAGTTTAAGAACAAATTTAAAATGAA
1 TATTCAAAAGTTTAAGAACTAATTTAGAATGAA
826945 GGTTATAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
59 1 0.01
60 71 0.92
61 5 0.06
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (60 bp):
TATTCAAAAGTTTAAGAACTAATTTAGAATGAAAGTCATAGTTTAGAGATAAAATTAAAA
Found at i:827369 original size:50 final size:49
Alignment explanation
Indices: 827286--827447 Score: 182
Period size: 50 Copynumber: 3.2 Consensus size: 49
827276 CATCGGTGTA
* * * *
827286 ACCGTGTAAATGAATAAAATAAACAAGTGTAACACATAAGACATACTATAC
1 ACCGTGTAAGTGAATAAAATAAA-AAATATAACACATAACACATACT-TAC
*
827337 -CCGTGTAAGTGAATAAAATAAAATAATATAACACTTAACACATACTTAC
1 ACCGTGTAAGTGAATAAAATAAAA-AATATAACACATAACACATACTTAC
* * **
827386 ATCGGTGTAAGTAAATAAAATAAAAAATATAACATTTAACACATACTTAC
1 A-CCGTGTAAGTGAATAAAATAAAAAATATAACACATAACACATACTTAC
*
827436 ACTAGTGTAAGT
1 AC-CGTGTAAGT
827448 ATATACATCG
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
49 5 0.05
50 72 0.73
51 21 0.21
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.26
Consensus pattern (49 bp):
ACCGTGTAAGTGAATAAAATAAAAAATATAACACATAACACATACTTAC
Found at i:831070 original size:22 final size:22
Alignment explanation
Indices: 831005--831093 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 22
830995 AATTTATTAT
*
831005 TTTTTAAATAAATAAAATAATATA
1 TTTTT-AATAATTAAAA-AATATA
* *
831029 TTTTATAATAATT---TATTATA
1 TTTT-TAATAATTAAAAAATATA
831049 TTTTTAATAATTAAAAAATATA
1 TTTTTAATAATTAAAAAATATA
* *
831071 -TTTTAACATTATAAAAAATATA
1 TTTTTAATAAT-TAAAAAATATA
831093 T
1 T
831094 ATATTATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
19 8 0.15
20 9 0.17
21 8 0.15
22 16 0.31
24 10 0.19
25 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTTAATAATTAAAAAATATA
Found at i:831070 original size:42 final size:43
Alignment explanation
Indices: 830986--831075 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 43
830976 GTTAGGTATG
830986 ATTTT-TAATAATTTATTATTTTTTAAATAAATAAAATAATAT
1 ATTTTATAATAATTTATTATTTTTTAAATAAATAAAATAATAT
*
831028 ATTTTATAATAATTTATTATATTTTT-AATAATTAAAA-AATAT
1 ATTTTATAATAATTTATTAT-TTTTTAAATAAATAAAATAATAT
831070 ATTTTA
1 ATTTTA
831076 ACATTATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
42 16 0.36
43 24 0.53
44 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (43 bp):
ATTTTATAATAATTTATTATTTTTTAAATAAATAAAATAATAT
Found at i:831936 original size:14 final size:13
Alignment explanation
Indices: 831912--831945 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
831902 TATTTTTATT
831912 TTATTTTTAAAAA
1 TTATTTTTAAAAA
831925 TTATTATTTAAAAA
1 TTATT-TTTAAAAA
831939 -TATTTTT
1 TTATTTTT
831946 TTAAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 9 0.45
14 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATTTTTAAAAA
Found at i:835394 original size:31 final size:31
Alignment explanation
Indices: 835358--835428 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
835348 TAAACTCACG
* *
835358 AGTTTTCGGATCGAATCGAGCTTCATTTCAA
1 AGTTTTCGAATCGAATCGAGATTCATTTCAA
*
835389 AGTTTTCGAATCGAATCGAGATTTATTTCAA
1 AGTTTTCGAATCGAATCGAGATTCATTTCAA
*
835420 AATTTTCGA
1 AGTTTTCGA
835429 GTAGAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (31 bp):
AGTTTTCGAATCGAATCGAGATTCATTTCAA
Found at i:841594 original size:2 final size:2
Alignment explanation
Indices: 841587--841611 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
841577 GGCTACGGTT
841587 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
841612 ATCGCCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:842562 original size:40 final size:40
Alignment explanation
Indices: 842503--842579 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
842493 ATTTTTTTTT
* *
842503 TTGTTCACATCGACTTCATTGACCTTTGAGATTGAGGTTC
1 TTGTTCACATCGACCTCATTGACCGTTGAGATTGAGGTTC
*
842543 TTGTTGACATCGACCTCATTGACCGTTGAGATTGAGG
1 TTGTTCACATCGACCTCATTGACCGTTGAGATTGAGG
842580 AAATTTCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
TTGTTCACATCGACCTCATTGACCGTTGAGATTGAGGTTC
Found at i:843869 original size:61 final size:60
Alignment explanation
Indices: 843799--843914 Score: 133
Period size: 61 Copynumber: 1.9 Consensus size: 60
843789 AATAAGTCTT
** * * * *
843799 TTGACTATAGGGTGATGGTTTGTTGAGTTTATCGATTATTAAAAAGTTACAAAATGACTCA
1 TTGACTATAGAATGATGCTTTGTTGAGTCTACCGATTATT-AAAAGATACAAAATGACTCA
* * * *
843860 TTGATTATAGAATGTTGCTTTGTTTAGTCTCCCGATTATTAAAAGATACAAAATG
1 TTGACTATAGAATGATGCTTTGTTGAGTCTACCGATTATTAAAAGATACAAAATG
843915 GTCATCAGAG
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
60 14 0.31
61 31 0.69
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (60 bp):
TTGACTATAGAATGATGCTTTGTTGAGTCTACCGATTATTAAAAGATACAAAATGACTCA
Found at i:849029 original size:34 final size:33
Alignment explanation
Indices: 848982--849065 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
848972 CCCGAACCCG
*
848982 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATAT-AAAAATAT
*
849016 AAAATATTATATATACAATTAATATAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAATAT
849049 AAAATATTATATATATA
1 AAAATATTATATATATA
849066 TAATCGGGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 24 0.51
34 23 0.49
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAATATTATATATATAATTAATATAAAAATAT
Found at i:851744 original size:25 final size:26
Alignment explanation
Indices: 851694--851744 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
851684 AGAGCAACTC
*
851694 AAAAATATAATATATTAATATTTTAA
1 AAAAATATAATATATTAATATATTAA
851720 AAAAATA-AAT-TATTAATGATATTAA
1 AAAAATATAATATATTAAT-ATATTAA
851745 CACTTATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 9 0.39
26 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAAATATAATATATTAATATATTAA
Found at i:853140 original size:20 final size:20
Alignment explanation
Indices: 853117--853176 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
853107 GTAATCACCT
853117 GATTAGGTTGCTAATGAGTG
1 GATTAGGTTGCTAATGAGTG
853137 GATTAGGTTGCTAATGAGTG
1 GATTAGGTTGCTAATGAGTG
* *
853157 GATTAGATTGTTAATGAGTG
1 GATTAGGTTGCTAATGAGTG
853177 ATTCTCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.27, C:0.03, G:0.33, T:0.37
Consensus pattern (20 bp):
GATTAGGTTGCTAATGAGTG
Found at i:854227 original size:28 final size:28
Alignment explanation
Indices: 854194--854248 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
854184 TATTAAAAGA
* **
854194 GACGAATTTAAATTTATAAAATTTTAAG
1 GACGAAGTTAAAGCTATAAAATTTTAAG
854222 GACGAAGTTAAAGCTATAAAATTTTAA
1 GACGAAGTTAAAGCTATAAAATTTTAA
854249 AAGATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (28 bp):
GACGAAGTTAAAGCTATAAAATTTTAAG
Found at i:854292 original size:25 final size:27
Alignment explanation
Indices: 854247--854297 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
854237 ATAAAATTTT
*
854247 AAAAGATATAAAAACATATTTTAATAA
1 AAAAGATATAAAAACATATTTAAATAA
*
854274 AAAATATATAAAAA-A-ATTTAAATA
1 AAAAGATATAAAAACATATTTAAATA
854298 TATTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 1 0.05
27 13 0.59
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAGATATAAAAACATATTTAAATAA
Found at i:855754 original size:21 final size:21
Alignment explanation
Indices: 855728--855773 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
855718 GATTCGCAAC
855728 GCGAACTTGGACTATCGTAAT
1 GCGAACTTGGACTATCGTAAT
855749 GCGAACTTGGACTATCGTAAT
1 GCGAACTTGGACTATCGTAAT
855770 GCGA
1 GCGA
855774 TAGTCCAAGT
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:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (21 bp):
GCGAACTTGGACTATCGTAAT
Found at i:855793 original size:21 final size:21
Alignment explanation
Indices: 855769--855816 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
855759 ACTATCGTAA
855769 TGCGATAGTCCAAGTTCACAT
1 TGCGATAGTCCAAGTTCACAT
* * *
855790 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCACAT
855811 TGCGAT
1 TGCGAT
855817 TTTCCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (21 bp):
TGCGATAGTCCAAGTTCACAT
Found at i:855947 original size:43 final size:42
Alignment explanation
Indices: 855900--855995 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
855890 CAAGTTCGCA
* *
855900 TTGCGATAGTCGAATTTGGAAAATGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCG-AAATGCGATTTATTCCAAATTCG
***
855943 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGAAATGCGATTTATTCCAAATTCG
*
855985 TTGCTATAGTC
1 TTGCGATAGTC
855996 CAAAATCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGAAATGCGATTTATTCCAAATTCG
Found at i:855949 original size:21 final size:21
Alignment explanation
Indices: 855923--855988 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
855913 ATTTGGAAAA
855923 TGCGATTTATTCCAAATTCGT
1 TGCGATTTATTCCAAATTCGT
* * *
855944 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATT--CGT
855965 TGCGATTTATTCCAAATTCGT
1 TGCGATTTATTCCAAATTCGT
855986 TGC
1 TGC
855989 TATAGTCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 8 0.23
21 19 0.54
23 8 0.23
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (21 bp):
TGCGATTTATTCCAAATTCGT
Found at i:855999 original size:19 final size:19
Alignment explanation
Indices: 855933--855999 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
855923 TGCGATTTAT
*
855933 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCTATAG
* * * *
855952 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATT--CGTTGC--TATAG
855975 TCCAAATTCGTTGCTATAG
1 TCCAAATTCGTTGCTATAG
855994 TCCAAA
1 TCCAAA
856000 ATCACAACGA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
19 15 0.43
21 12 0.34
23 8 0.23
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (19 bp):
TCCAAATTCGTTGCTATAG
Found at i:856674 original size:21 final size:21
Alignment explanation
Indices: 856650--856719 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
856640 TTTGGAATAA
856650 ATCGCAACGCGAACTTCGATT
1 ATCGCAACGCGAACTTCGATT
* * *
856671 ATCGCAA--CGAATTTAGAATAA
1 ATCGCAACGCGAACTTCG-AT-T
*
856692 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGATT
856713 ATCGCAA
1 ATCGCAA
856720 TGAACTTGGA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 7 0.18
20 2 0.05
21 21 0.55
22 1 0.03
23 7 0.18
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGATT
Found at i:856690 original size:42 final size:42
Alignment explanation
Indices: 856626--856719 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
856616 CAAATGCAAT
*
856626 ACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCG
1 ACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTCG
* *
856668 ATTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTCG
1 ACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTCG
856710 ACTATCGCAA
1 ACTATCGCAA
856720 TGAACTTGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (42 bp):
ACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTCG
Found at i:856781 original size:21 final size:21
Alignment explanation
Indices: 856752--856840 Score: 151
Period size: 21 Copynumber: 4.2 Consensus size: 21
856742 AATTTACATA
856752 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
856773 TTTGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
856794 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
856815 TTCGTATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
856836 TTCGC
1 TTCGC
856841 GTTACGAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:870196 original size:29 final size:29
Alignment explanation
Indices: 870163--870223 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
870153 TTTTGTCCCT
* * *
870163 TAAAACTTTATAAGTTTAAGTTTATCCTC
1 TAAAACTTTATAAGTTCAAATTCATCCTC
*
870192 TAAAATTTTATAAGTTCAAATTCATCCTC
1 TAAAACTTTATAAGTTCAAATTCATCCTC
870221 TAA
1 TAA
870224 CATAAAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.43
Consensus pattern (29 bp):
TAAAACTTTATAAGTTCAAATTCATCCTC
Found at i:872261 original size:22 final size:22
Alignment explanation
Indices: 872220--872301 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 22
872210 GTGATAGTAA
*
872220 AAATTAT-A-ATT-TTTTTAAT
1 AAATTATAAGATTCTTTTAAAT
*
872239 AAATGATAAGATTCTTTTAAAT
1 AAATTATAAGATTCTTTTAAAT
*
872261 --ATTATAAGA-T-ATTTAAA-
1 AAATTATAAGATTCTTTTAAAT
872278 AAATTTATAAGATTCTTTTAAAT
1 AAA-TTATAAGATTCTTTTAAAT
872301 A
1 A
872302 TTATAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
18 6 0.12
19 8 0.16
20 17 0.35
21 4 0.08
22 13 0.27
23 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
AAATTATAAGATTCTTTTAAAT
Found at i:872265 original size:39 final size:40
Alignment explanation
Indices: 872217--872308 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
872207 GATGTGATAG
* * * *
872217 TAAAAATTATAATTTTTTTAATAAA-TGATAAGATTCTTT
1 TAAATATTATAATATATTTAAAAAATTGATAAGATTCTTT
* *
872256 TAAATATTATAAGATATTTAAAAAATTTATAAGATTCTTT
1 TAAATATTATAATATATTTAAAAAATTGATAAGATTCTTT
872296 TAAATATTATAAT
1 TAAATATTATAAT
872309 GAAAATAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 20 0.44
40 25 0.56
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (40 bp):
TAAATATTATAATATATTTAAAAAATTGATAAGATTCTTT
Found at i:872269 original size:20 final size:20
Alignment explanation
Indices: 872244--872307 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
872234 TTAATAAATG
872244 ATAAGATTCTTTTAAATATT
1 ATAAGATTCTTTTAAATATT
* * *
872264 ATAAGA-TATTTAAAAAATTT
1 ATAAGATTCTTTTAAATA-TT
872284 ATAAGATTCTTTTAAATATT
1 ATAAGATTCTTTTAAATATT
872304 ATAA
1 ATAA
872308 TGAAAATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 8 0.22
20 20 0.56
21 8 0.22
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
ATAAGATTCTTTTAAATATT
Found at i:874398 original size:3 final size:3
Alignment explanation
Indices: 874390--874428 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
874380 TATTTGGATT
874390 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
874429 TAGGTTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:881906 original size:15 final size:16
Alignment explanation
Indices: 881886--881915 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
881876 TTTCAGTTTT
881886 ATATAAT-ATAAATTA
1 ATATAATAATAAATTA
881901 ATATAATAATAAATT
1 ATATAATAATAAATT
881916 TAGTTTCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATAATAAATTA
Found at i:882243 original size:49 final size:49
Alignment explanation
Indices: 882169--882264 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
882159 TGAGTTCGAA
**
882169 CCAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCGGGCAACCCCTCAT
1 CCAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCAT
* *
882218 CCAGGGGTGGACCTCCATGGTGCCCGGGGTATCCCAAGCAACCCCTC
1 CCAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTC
882265 CACAAGTACC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.17, C:0.39, G:0.31, T:0.14
Consensus pattern (49 bp):
CCAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCAT
Found at i:884037 original size:18 final size:19
Alignment explanation
Indices: 884014--884055 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
884004 CAGTAATCCT
*
884014 ATTCT-CTGGTAATCTTAC
1 ATTCTACTGATAATCTTAC
884032 ATTCTCACTGATAATCTTAC
1 ATTCT-ACTGATAATCTTAC
884052 ATTC
1 ATTC
884056 CGTGAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (19 bp):
ATTCTACTGATAATCTTAC
Found at i:884920 original size:11 final size:12
Alignment explanation
Indices: 884890--884942 Score: 65
Period size: 11 Copynumber: 4.6 Consensus size: 12
884880 ATTATTTAAA
884890 CGGGTATTGGGC
1 CGGGTATTGGGC
*
884902 CGGGTATTGGGT
1 CGGGTATTGGGC
884914 C-GGTATTGGGC
1 CGGGTATTGGGC
* *
884925 C-GGAATCGGGC
1 CGGGTATTGGGC
884936 CGGGTAT
1 CGGGTAT
884943 ATATATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 19 0.54
12 16 0.46
ACGTcount: A:0.11, C:0.17, G:0.47, T:0.25
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:884941 original size:23 final size:24
Alignment explanation
Indices: 884890--884942 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
884880 ATTATTTAAA
* * *
884890 CGGGTATTGGGCCGGGTATTGGGT
1 CGGGTATTGGGCCGGGAATCGGGC
884914 C-GGTATTGGGCC-GGAATCGGGC
1 CGGGTATTGGGCCGGGAATCGGGC
884936 CGGGTAT
1 CGGGTAT
884943 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 16 0.64
24 1 0.04
ACGTcount: A:0.11, C:0.17, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCGGGAATCGGGC
Found at i:885022 original size:32 final size:31
Alignment explanation
Indices: 884940--885022 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
884930 TCGGGCCGGG
884940 TATATATATATATTTAAATTAAATATATAAA
1 TATATATATATATTTAAATTAAATATATAAA
* * *
884971 TATATATTGTTTATTTAAATTAAATTTA-ATAA
1 TATATA-TATATATTTAAATTAAATATATA-AA
*
885003 TATTATATATATATATAAAT
1 TA-TATATATATATTTAAAT
885023 AATTATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 7 0.16
32 32 0.74
33 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
TATATATATATATTTAAATTAAATATATAAA
Found at i:888960 original size:26 final size:26
Alignment explanation
Indices: 888923--888976 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
888913 ATAGTCTTTT
*
888923 AGAAGATGTTTTAAACTTTTATGATC
1 AGAAGATATTTTAAACTTTTATGATC
888949 AGAAGATATTTTAAACTTTTATGATC
1 AGAAGATATTTTAAACTTTTATGATC
888975 AG
1 AG
888977 TGTAAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (26 bp):
AGAAGATATTTTAAACTTTTATGATC
Found at i:889443 original size:24 final size:24
Alignment explanation
Indices: 889416--889490 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
889406 ATAGCTTTCA
889416 CCTTATGAGGATCCACTCGTATCC
1 CCTTATGAGGATCCACTCGTATCC
* * *
889440 CCTT-TGCA--A-ACACTACATGTCC
1 CCTTATG-AGGATCCACT-CGTATCC
*
889462 AACTTATGAGGATCCACTCGTATCC
1 -CCTTATGAGGATCCACTCGTATCC
889487 CCTT
1 CCTT
889491 TGCAAACACT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 6 0.17
24 10 0.28
25 6 0.17
26 4 0.11
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.29
Consensus pattern (24 bp):
CCTTATGAGGATCCACTCGTATCC
Found at i:889486 original size:47 final size:47
Alignment explanation
Indices: 889417--889510 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
889407 TAGCTTTCAC
889417 CTTATGAGGATCCACTCGTATCCCCTTTGCAAACACTACATGTCCAA
1 CTTATGAGGATCCACTCGTATCCCCTTTGCAAACACTACATGTCCAA
889464 CTTATGAGGATCCACTCGTATCCCCTTTGCAAACACTACATGTCCAA
1 CTTATGAGGATCCACTCGTATCCCCTTTGCAAACACTACATGTCCAA
889511 GGAATGCAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (47 bp):
CTTATGAGGATCCACTCGTATCCCCTTTGCAAACACTACATGTCCAA
Found at i:890454 original size:21 final size:22
Alignment explanation
Indices: 890411--890457 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
890401 TTTTTTTAAA
890411 TTTGACACCCAAAAATAATTTT
1 TTTGACACCCAAAAATAATTTT
*
890433 TTTGACA-CCATAAAATATTTTT
1 TTTGACACCCA-AAAATAATTTT
890455 TTT
1 TTT
890458 AAAAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTGACACCCAAAAATAATTTT
Found at i:890876 original size:30 final size:31
Alignment explanation
Indices: 890816--890885 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
890806 ATATAATTAA
* *
890816 AAAATAATTTTGAAAGTTAGAGTTATTAAATT
1 AAAATAA-TTTGAAAATTAGAGTAATTAAATT
*
890848 AAAATAATTTGAAAATTA-TGTAATTAAATT
1 AAAATAATTTGAAAATTAGAGTAATTAAATT
890878 AAAA-AATT
1 AAAATAATT
890886 AAACTTTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 4 0.11
30 14 0.40
31 10 0.29
32 7 0.20
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.39
Consensus pattern (31 bp):
AAAATAATTTGAAAATTAGAGTAATTAAATT
Found at i:894661 original size:6 final size:6
Alignment explanation
Indices: 894650--894690 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
894640 GGACTGAAAC
894650 ATGTGG ATGTGG ATGTGG ATGTGG ATGTGG ATGTGG ATGTG
1 ATGTGG ATGTGG ATGTGG ATGTGG ATGTGG ATGTGG ATGTG
894691 ACTACTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (6 bp):
ATGTGG
Found at i:895951 original size:4 final size:4
Alignment explanation
Indices: 895942--896005 Score: 74
Period size: 4 Copynumber: 16.0 Consensus size: 4
895932 TTTGTCCTAC
* * * * *
895942 ATGT ATGT ATGT ACGT ATGT ACGT ATGT ACGT ATGT ACGT ATGT ACGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
895990 ATGT ATGT ATGA ATGT
1 ATGT ATGT ATGT ATGT
896006 GTCATAGGCA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (4 bp):
ATGT
Found at i:895953 original size:8 final size:8
Alignment explanation
Indices: 895942--896000 Score: 100
Period size: 8 Copynumber: 7.4 Consensus size: 8
895932 TTTGTCCTAC
*
895942 ATGTATGT
1 ATGTACGT
895950 ATGTACGT
1 ATGTACGT
895958 ATGTACGT
1 ATGTACGT
895966 ATGTACGT
1 ATGTACGT
895974 ATGTACGT
1 ATGTACGT
895982 ATGTACGT
1 ATGTACGT
*
895990 ATGTATGT
1 ATGTACGT
895998 ATG
1 ATG
896001 AATGTGTCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 49 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (8 bp):
ATGTACGT
Found at i:896234 original size:19 final size:20
Alignment explanation
Indices: 896212--896253 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
896202 TTTAATAATT
896212 TAAAAACAATTTAACTG-TA
1 TAAAAACAATTTAACTGATA
* * *
896231 TAAATAGATTTTAACTGATA
1 TAAAAACAATTTAACTGATA
896251 TAA
1 TAA
896254 CGATCTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAAAACAATTTAACTGATA
Found at i:896726 original size:35 final size:36
Alignment explanation
Indices: 896687--896763 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
896677 TTTTCAATTT
*
896687 TTTTAAAATC-CTATTTAAAC-TTAGTTTTTATTTCA
1 TTTTAAAA-CACTATTAAAACTTTAGTTTTTATTTCA
* * * *
896722 TTTTAATACAGTCTTAAAACTTTAGTTTTTGTTTCA
1 TTTTAAAACACTATTAAAACTTTAGTTTTTATTTCA
896758 TTTTAA
1 TTTTAA
896764 TATTCTCATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 1 0.03
35 14 0.40
36 20 0.57
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (36 bp):
TTTTAAAACACTATTAAAACTTTAGTTTTTATTTCA
Found at i:899099 original size:29 final size:29
Alignment explanation
Indices: 899067--899158 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
899057 AAAGTCCGAT
899067 ATTATTATTAAATTTTTTTATTATTAAAA
1 ATTATTATTAAATTTTTTTATTATTAAAA
** *
899096 ATTA-TAAAACAATTTTTTAATTA-TAAAA
1 ATTATTATTA-AATTTTTTTATTATTAAAA
* * * *
899124 TATTATTTTGTTGAGTTATTTTATTATTAAAA
1 -ATTA--TTATTAAATTTTTTTATTATTAAAA
899156 ATT
1 ATT
899159 TTAAAATAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
28 8 0.17
29 20 0.43
31 13 0.28
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
ATTATTATTAAATTTTTTTATTATTAAAA
Found at i:911552 original size:39 final size:39
Alignment explanation
Indices: 911451--911554 Score: 122
Period size: 38 Copynumber: 2.7 Consensus size: 39
911441 ATAATTTCAG
* * * *
911451 ATTTCACAATTTATTTTCTAAA-TCAAAACTTATTTTTAG
1 ATTTCATAGTTTATTTTC-AAATTCATAACTTATTTTTAA
* * *
911490 A-TTCGTAGCTTATTTTCAGATTCATAACTTATTTTTAA
1 ATTTCATAGTTTATTTTCAAATTCATAACTTATTTTTAA
911528 ATTTCATAGTTTATTTTCAAATTCATA
1 ATTTCATAGTTTATTTTCAAATTCATA
911555 GTCCAATGCA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 2 0.04
38 28 0.53
39 23 0.43
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (39 bp):
ATTTCATAGTTTATTTTCAAATTCATAACTTATTTTTAA
Found at i:911556 original size:19 final size:19
Alignment explanation
Indices: 911461--911555 Score: 84
Period size: 19 Copynumber: 4.9 Consensus size: 19
911451 ATTTCACAAT
* *
911461 TTATTTTCTAAA-TCAAAAC
1 TTATTTTC-AAATTCATAGC
* * *
911480 TTATTTTTAGATTCGTAGC
1 TTATTTTCAAATTCATAGC
* *
911499 TTATTTTCAGATTCATAAC
1 TTATTTTCAAATTCATAGC
* *
911518 TTATTTTTAAATTTCATAGT
1 TTATTTTCAAA-TTCATAGC
911538 TTATTTTCAAATTCATAG
1 TTATTTTCAAATTCATAG
911556 TCCAATGCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
18 2 0.03
19 43 0.70
20 16 0.26
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (19 bp):
TTATTTTCAAATTCATAGC
Found at i:915982 original size:60 final size:59
Alignment explanation
Indices: 915868--915984 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 59
915858 ATTGTTTAGG
* * * * *
915868 GATGAAATTAGAGTGTTCAAAAGTTAAGGACTAATTTAGAATGAGAATCCTAATTTGAA
1 GATGAAATTAAAATATTCAAAAGTTAAGGACTAATTTAAAATGAGAATCATAATTTGAA
* * * *
915927 GATGAAATTAAAATATTTAAAAGTTTAAGGATTAATTTAAAATGAGTATTATAATTTG
1 GATGAAATTAAAATATTCAAAAG-TTAAGGACTAATTTAAAATGAGAATCATAATTTG
915985 GATATGAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
59 19 0.40
60 29 0.60
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.35
Consensus pattern (59 bp):
GATGAAATTAAAATATTCAAAAGTTAAGGACTAATTTAAAATGAGAATCATAATTTGAA
Found at i:920259 original size:66 final size:66
Alignment explanation
Indices: 920153--920285 Score: 189
Period size: 66 Copynumber: 2.0 Consensus size: 66
920143 AGGGCATCTC
* *
920153 CACCTAGGGGTGAAAGTCCCGATAGACGGAGCCGCAGTGGA-AGGTCTCGAAGTCCTCGAAA-TG
1 CACCTAGGGGTGAAAGTCCCGATAGACAGAGCCGCAGTGGACA-GTCTCCAAGTCCTC-AAAGTG
920216 TTT
64 TTT
* * *
920219 CACCTAGGGGTGAAAGTCCTGTTAGACAGAGCCGCGGTGGACAGTCTCCAAGTCCTCAAAGTGTT
1 CACCTAGGGGTGAAAGTCCCGATAGACAGAGCCGCAGTGGACAGTCTCCAAGTCCTCAAAGTGTT
920284 T
66 T
920285 C
1 C
920286 CCCGCGAGGC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 3 0.05
66 56 0.93
67 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (66 bp):
CACCTAGGGGTGAAAGTCCCGATAGACAGAGCCGCAGTGGACAGTCTCCAAGTCCTCAAAGTGTT
T
Found at i:922491 original size:32 final size:32
Alignment explanation
Indices: 922414--922501 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 32
922404 TATTGAATGG
* * *
922414 AATGATTATT-AAATTTATTATATTGTTATAA
1 AATGATCATTAAAATTTATTAAATTGTTACAA
922445 AATGATCATTAAAATTTATTAAATTG-TACAA
1 AATGATCATTAAAATTTATTAAATTGTTACAA
* * *
922476 AGTGGTCATTGAAAA-TTATTGAATTG
1 AATGATCATT-AAAATTTATTAAATTG
922502 AGGTTTTAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 31 0.63
32 18 0.37
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.43
Consensus pattern (32 bp):
AATGATCATTAAAATTTATTAAATTGTTACAA
Found at i:922890 original size:2 final size:2
Alignment explanation
Indices: 922883--922907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
922873 GAAGAGGCAT
922883 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 T
922908 CTATCCAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:929692 original size:85 final size:87
Alignment explanation
Indices: 929594--929752 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 87
929584 CACAAAGTAA
**
929594 TAATAAATAAAGATAAAGCGCACATAGA-TT-TGTGTAAAAACCCTAAAAATGAAAAATCACAGC
1 TAATAAATAAAGATAAAGAACACATAGATTTATGTGTAAAAACCCTAAAAATGAAAAATCACAGC
929657 CACAACCAACACAAAGTAATAG
66 CACAACCAACACAAAGTAATAG
* * * * *
929679 TAATAGATAAAGATAAAGAATACATAGATTTATGTGTAAAATCCCTAAAGATGAAAAATCACATC
1 TAATAAATAAAGATAAAGAACACATAGATTTATGTGTAAAAACCCTAAAAATGAAAAATCACAGC
*
929744 TACAACCAA
66 CACAACCAA
929753 GGGAGTAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 24 0.38
86 2 0.03
87 38 0.59
ACGTcount: A:0.52, C:0.16, G:0.11, T:0.21
Consensus pattern (87 bp):
TAATAAATAAAGATAAAGAACACATAGATTTATGTGTAAAAACCCTAAAAATGAAAAATCACAGC
CACAACCAACACAAAGTAATAG
Found at i:934933 original size:23 final size:24
Alignment explanation
Indices: 934867--934933 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 24
934857 TACAAACGTG
*
934867 TAAATTTTTAAAA-AGTTATA-T-
1 TAAATTTTTAAAAGACTTATATTA
* *
934888 TAAA-TTTTAAGAGTACGTA-ATTA
1 TAAATTTTTAAAAG-ACTTATATTA
934911 TAAATTTTTAAAAGA-TTATATTA
1 TAAATTTTTAAAAGACTTATATTA
934934 ATTTATCATT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
20 7 0.20
21 5 0.14
22 6 0.17
23 9 0.26
24 8 0.23
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (24 bp):
TAAATTTTTAAAAGACTTATATTA
Found at i:935271 original size:34 final size:33
Alignment explanation
Indices: 935232--935301 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 33
935222 ATTAATTTAA
*
935232 TAATTTATATTGAAGTAAATATCTCACCAACTTT
1 TAATTTATATTGAAGCAAATATCTCACCAA-TTT
935266 TAATTTATATTGAAGCAAATATCTCACCAATTT
1 TAATTTATATTGAAGCAAATATCTCACCAATTT
935299 TAA
1 TAA
935302 AAAGAGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (33 bp):
TAATTTATATTGAAGCAAATATCTCACCAATTT
Found at i:935476 original size:21 final size:21
Alignment explanation
Indices: 935450--935524 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
935440 GTTTCCAGAT
*
935450 TCGCAATGCGAACTTTGACTA
1 TCGCAATGCGAACTTGGACTA
935471 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
935492 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
935513 TGGCAATGCGAA
1 TCGCAATGCGAA
935525 TATGTAAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:935563 original size:21 final size:21
Alignment explanation
Indices: 935533--935586 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
935523 AATATGTAAA
*
935533 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
935554 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
**
935575 TCGTGTTGCGAT
1 TCGCATTGCGAT
935587 TTATTCAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:935718 original size:42 final size:42
Alignment explanation
Indices: 935651--935787 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
935641 CATATTCGCA
* * *
935651 TTGCAATAGTCCAAGTTCGCATTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * *
935693 TTGTGATAGTCGAAGTTCGTGTTGCGATTTATTCTAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
935735 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
935777 TTGCGATAGTC
1 TTGCGATAGTC
935788 CAAAATCATA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:935738 original size:21 final size:21
Alignment explanation
Indices: 935672--935783 Score: 88
Period size: 21 Copynumber: 5.3 Consensus size: 21
935662 CAAGTTCGCA
935672 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
* * * *
935693 TTGTGA--TAGTCGAAGTTCGTG
1 TTGCGATTTATTCCAAATTC--G
*
935714 TTGCGATTTATTCTAAATTCG
1 TTGCGATTTATTCCAAATTCG
* * *
935735 TTGCGA--TAGTCGAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
935756 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
935777 TTGCGAT
1 TTGCGAT
935784 AGTCCAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
19 17 0.25
21 35 0.51
23 17 0.25
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (21 bp):
TTGCGATTTATTCCAAATTCG
Found at i:940732 original size:6 final size:6
Alignment explanation
Indices: 940716--940745 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
940706 AACGAAACAC
940716 TAAAA- TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
940746 TTTAATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:940821 original size:21 final size:21
Alignment explanation
Indices: 940797--940843 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
940787 AGATATAATT
940797 TTAAAAATAAAAGTATAGATA
1 TTAAAAATAAAAGTATAGATA
* * * *
940818 TTAAAATTAAGAGTTTATATA
1 TTAAAAATAAAAGTATAGATA
940839 TTAAA
1 TTAAA
940844 CGTAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
TTAAAAATAAAAGTATAGATA
Found at i:946580 original size:216 final size:213
Alignment explanation
Indices: 946203--946950 Score: 831
Period size: 216 Copynumber: 3.5 Consensus size: 213
946193 CTGCTACTGA
* * * * * * **
946203 AACTGAATTAGCTTCTTTAGAGTCCAGTTTCAAAAGTGATGTTCCCCGCAGGGTTAAGTTGGAAA
1 AACTGAATTAGCTTCTTTAGAGTCTAGTTCCAAAAGTGAAGTTCCCCACAGTGTTAAGCTGGAGG
* * *
946268 AGGAAGAAAATACTGGTGCTGATA-AAAATGGCGAGAGGATTGGCAAAATTGAGGGTACTACTTC
66 AGGAAGAAAATACTGGTGCTGA-AGAAAATGGGGAGAGGATAGGTAAAATTGAGGGTACTACTTC
* ** ** * * *
946332 AAGA-ATGGAAACCCAGATGAATTTAGTTCCTGATATAGAAAAGGCTTCTCCTCCATTGGCAGTT
130 AA-ATACGGAGTCTAAGATG-A-TTAGTTCCTGATCTAGAAAA-GCTTCTCCTCCAATGGCAGCT
* *
946396 CCCGGTATTGAAAGTGAAATTAG
191 CCTGCTATTGAAAGTGAAATTAG
* *
946419 AACTGAATTAGCTT-TCCTAGAGTCTAGTTCCAAAAGTGAAGTTTCCCACAGTGTTAAGCTGGAG
1 AACTGAATTAGCTTCT-TTAGAGTCTAGTTCCAAAAGTGAAGTTCCCCACAGTGTTAAGCTGGAG
* * * *
946483 GAGGACGAAAATACTGGTGCTGAAGAAAATGGGGAGAGGATAGGTGAAATTGAGGGTACCAATTC
65 GAGGAAGAAAATACTGGTGCTGAAGAAAATGGGGAGAGGATAGGTAAAATTGAGGGTACTACTTC
* * * * *
946548 AAATACGGAGTTTAAGATAGATTCAATTCCTGATCTAGAACATGCTTCTCCTGCAAGGGCAGCTC
130 AAATACGGAGTCTAAGAT-GATT-AGTTCCTGATCTAGAA-AAGCTTCTCCTCCAATGGCAGCTC
* * *
946613 CTGCCATTGAAACTGCAATTAG
192 CTGCTATTGAAAGTGAAATTAG
* * * * * * *
946635 AACTGAATTAACTTCTGTGGAGGCTAGTTCCAAAAGTGAACTTCCCCACAATGTTAAGCTGAAGG
1 AACTGAATTAGCTTCTTTAGAGTCTAGTTCCAAAAGTGAAGTTCCCCACAGTGTTAAGCTGGAGG
* * * * * * * * **
946700 AGAAAGCAAATACTAGTGCTGAGGAAAATCGGGAGAGAATGGGTAAAATTGAGGGTACTGCTTTG
66 AGGAAGAAAATACTGGTGCTGAAGAAAATGGGGAGAGGATAGGTAAAATTGAGGGTACTACTTCA
* *
946765 ATTACGGAGTCTAAGAT--TTAGTTCCTGATCTAGAACAATCTTCTCCTCCAATGGCAGCTCCTG
131 AATACGGAGTCTAAGATGATTAGTTCCTGATCTAGAA-AAGCTTCTCCTCCAATGGCAGCTCCTG
*
946828 CTATCGAAAGTGAAATTAG
195 CTATTGAAAGTGAAATTAG
* *
946847 AACTGAATTAGCTTCTTTAGAGTCTAGTTCCAAAAGCGAAGTTCCCCACGGTGTTAAGCTGGAGG
1 AACTGAATTAGCTTCTTTAGAGTCTAGTTCCAAAAGTGAAGTTCCCCACAGTGTTAAGCTGGAGG
* * *
946912 AGGAAGAAAATACTGGTGCTGAGGAAAAAGGTGAGAGGA
66 AGGAAGAAAATACTGGTGCTGAAGAAAATGGGGAGAGGA
946951 CTGCTAAAAT
Statistics
Matches: 441, Mismatches: 84, Indels: 18
0.81 0.15 0.03
Matches are distributed among these distances:
212 142 0.32
213 2 0.00
215 5 0.01
216 289 0.66
217 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (213 bp):
AACTGAATTAGCTTCTTTAGAGTCTAGTTCCAAAAGTGAAGTTCCCCACAGTGTTAAGCTGGAGG
AGGAAGAAAATACTGGTGCTGAAGAAAATGGGGAGAGGATAGGTAAAATTGAGGGTACTACTTCA
AATACGGAGTCTAAGATGATTAGTTCCTGATCTAGAAAAGCTTCTCCTCCAATGGCAGCTCCTGC
TATTGAAAGTGAAATTAG
Found at i:951928 original size:48 final size:48
Alignment explanation
Indices: 951876--951971 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
951866 AGTTTGTAAA
951876 TTTAAATTTTAACGTGTAAGTAAAATAAATTAAATTAAAATAATCATT
1 TTTAAATTTTAACGTGTAAGTAAAATAAATTAAATTAAAATAATCATT
951924 TTTAAATTTTAACGTGTAAGTAAAATAAATTAAATTAAAATAATCATT
1 TTTAAATTTTAACGTGTAAGTAAAATAAATTAAATTAAAATAATCATT
951972 CTTATCGTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (48 bp):
TTTAAATTTTAACGTGTAAGTAAAATAAATTAAATTAAAATAATCATT
Found at i:955927 original size:19 final size:19
Alignment explanation
Indices: 955903--955941 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
955893 TTATATTATA
955903 TTTATACAACTTTAATTTC
1 TTTATACAACTTTAATTTC
* *
955922 TTTATATAATTTTAATTTC
1 TTTATACAACTTTAATTTC
955941 T
1 T
955942 ATTTTACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATACAACTTTAATTTC
Found at i:955983 original size:13 final size:13
Alignment explanation
Indices: 955967--956024 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
955957 TTTTCAATTT
955967 TTATTTCTTTGAA
1 TTATTTCTTTGAA
955980 TTATTT-TATT--A
1 TTATTTCT-TTGAA
* *
955991 TTATTTTCATATGAT
1 TTA-TTTC-TTTGAA
956006 TTATTTCTTTGAA
1 TTATTTCTTTGAA
956019 TTATTT
1 TTATTT
956025 TATTATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
11 4 0.11
12 4 0.11
13 19 0.54
14 5 0.14
15 3 0.09
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (13 bp):
TTATTTCTTTGAA
Found at i:955988 original size:18 final size:18
Alignment explanation
Indices: 955965--956028 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
955955 TATTTTCAAT
955965 TTTTATTTCTTTGAATTA
1 TTTTATTTCTTTGAATTA
* **
955983 TTTTATTATTATTTTCA-TA
1 TTTTA-T-TTCTTTGAATTA
956002 TGATTTATTTCTTTGAATTA
1 T--TTTATTTCTTTGAATTA
956022 TTTTATT
1 TTTTATT
956029 ATTTTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 11 0.31
19 10 0.29
20 10 0.29
21 4 0.11
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTATTTCTTTGAATTA
Found at i:956062 original size:39 final size:39
Alignment explanation
Indices: 955966--956042 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
955956 ATTTTCAATT
955966 TTTATTTCTTTGAATTATTTTATTATTATTTTCATATGA
1 TTTATTTCTTTGAATTATTTTATTATTATTTTCATATGA
956005 TTTATTTCTTTGAATTATTTTATTATT-TTTT-ATATGA
1 TTTATTTCTTTGAATTATTTTATTATTATTTTCATATGA
956042 T
1 T
956043 GTGTTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 7 0.18
38 4 0.11
39 27 0.71
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (39 bp):
TTTATTTCTTTGAATTATTTTATTATTATTTTCATATGA
Found at i:958757 original size:2 final size:2
Alignment explanation
Indices: 958750--958811 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
958740 ATTTATTTTC
958750 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
958792 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
958812 TATTATTCAT
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:960387 original size:2 final size:2
Alignment explanation
Indices: 960380--960417 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
960370 ATACACTTAA
960380 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
960418 GGATTATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:967644 original size:18 final size:18
Alignment explanation
Indices: 967621--967658 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
967611 TAAAATGACT
*
967621 TAGTTTCACGTGTAGTGA
1 TAGTTTCACATGTAGTGA
967639 TAGTTTCACATGTAGTGA
1 TAGTTTCACATGTAGTGA
967657 TA
1 TA
967659 TTTTTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (18 bp):
TAGTTTCACATGTAGTGA
Found at i:990622 original size:29 final size:30
Alignment explanation
Indices: 990577--990643 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
990567 GTATCCAATT
*
990577 CTAAAATAAATTAACGTTTTAGATACCTTTA
1 CTAAAATAAATTAACGTTTTAGATACC-TAA
990608 CTAAAA-AAA-TAACGTTTTAGATACCTAA
1 CTAAAATAAATTAACGTTTTAGATACCTAA
990636 CTAAAATA
1 CTAAAATA
990644 TGTGATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.24
29 17 0.50
30 3 0.09
31 6 0.18
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (30 bp):
CTAAAATAAATTAACGTTTTAGATACCTAA
Found at i:993155 original size:14 final size:15
Alignment explanation
Indices: 993044--993161 Score: 130
Period size: 15 Copynumber: 7.5 Consensus size: 15
993034 TAATAAGGTT
993044 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
993059 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
993074 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
993089 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* * *
993104 AATTACTATAAAATATGGA
1 ATTTA-TTTTAAA-AT--A
993123 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
993141 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
993155 ATTTATT
1 ATTTATT
993162 AATATGGATT
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.14
15 56 0.64
16 5 0.06
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 5 0.06
22 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:993179 original size:32 final size:32
Alignment explanation
Indices: 993141--993270 Score: 154
Period size: 32 Copynumber: 4.4 Consensus size: 32
993131 TTTTAAAATA
993141 ATTTATTTTAAATAATTTATTAATATGGATTG
1 ATTTATTTTAAATAATTTATTAATATGGATTG
*
993173 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAATATGGATTG
993205 ATTTATTTT--A-AA---A-T-ATA--GATTG
1 ATTTATTTTAAATAATTTATTAATATGGATTG
** *
993227 ATTTATTTTAAATAATTTATTTGTATTGATTG
1 ATTTATTTTAAATAATTTATTAATATGGATTG
993259 ATTTATTTTAAA
1 ATTTATTTTAAA
993271 ATATGAATTG
Statistics
Matches: 85, Mismatches: 3, Indels: 20
0.79 0.03 0.19
Matches are distributed among these distances:
22 14 0.16
24 3 0.04
25 3 0.04
26 1 0.01
28 1 0.01
29 3 0.04
30 3 0.04
32 57 0.67
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAATATGGATTG
Found at i:993233 original size:54 final size:54
Alignment explanation
Indices: 993162--993688 Score: 610
Period size: 54 Copynumber: 9.6 Consensus size: 54
993152 ATAATTTATT
993162 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
* * *
993216 AATATAGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
* *
993270 AATATGAATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAA
1 AATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA
*
993322 TTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
1 ---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
993382 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
*
993436 AATATGGATTGATTTATTTTAAATAATTTATTAGTCTGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
* *
993490 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGCTTTCTTTT-A
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
* * * * * * * **
993543 AATA---ATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
1 AATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATT-TTAA
* *
993599 AGT-TGTAAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTGTTTTAA
1 AATATG---G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
993656 AATATGGATTGATTTATTTTAAATAATTTATTA
1 AATATGGATTGATTTATTTTAAATAATTTATTA
993689 TTGTAGTTGT
Statistics
Matches: 404, Mismatches: 37, Indels: 64
0.80 0.07 0.13
Matches are distributed among these distances:
48 17 0.04
49 5 0.01
50 19 0.05
52 7 0.02
53 5 0.01
54 259 0.64
55 5 0.01
56 2 0.00
57 6 0.01
58 31 0.08
60 7 0.02
62 19 0.05
63 5 0.01
64 17 0.04
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (54 bp):
AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
Found at i:993313 original size:166 final size:167
Alignment explanation
Indices: 993141--993544 Score: 585
Period size: 166 Copynumber: 2.5 Consensus size: 167
993131 TTTTAAAATA
993141 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
* *
993206 TTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAA
66 TTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
* *
993271 ATATGAATTGATTTATTATT-GTAGTTGTATG-GAT-T-G
131 ATATGAATTGATTTATT-TTAATAATT-TATGAG-TCTGG
* *
993307 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
1 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
*
993372 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
66 TTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
* *
993437 ATATGGATTGATTTATTTTAAATAATTTATTAGTCTGG
131 ATATGAATTGATTTATTTT-AATAATTTATGAGTCTGG
* * *
993475 ATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGC
1 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
*
993534 TTTCTTTTAAA
66 TTTATTTTAAA
993545 TAATTTATTT
Statistics
Matches: 218, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
162 51 0.23
163 4 0.02
165 4 0.02
166 145 0.67
167 9 0.04
168 5 0.02
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (167 bp):
ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
TTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
ATATGAATTGATTTATTTTAATAATTTATGAGTCTGG
Found at i:993338 original size:32 final size:32
Alignment explanation
Indices: 993297--993576 Score: 296
Period size: 32 Copynumber: 9.7 Consensus size: 32
993287 TATTGTAGTT
993297 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
993329 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
993361 GTATGAATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
993384 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
993415 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
993438 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
993469 GTCTGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
993492 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* * *
993523 GTATGGATTGCTTTCTTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
993555 GTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
993577 ATATGGATTG
Statistics
Matches: 208, Mismatches: 10, Indels: 60
0.75 0.04 0.22
Matches are distributed among these distances:
22 40 0.19
23 12 0.06
25 3 0.01
26 9 0.04
28 9 0.04
29 3 0.01
31 12 0.06
32 120 0.58
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:993387 original size:22 final size:22
Alignment explanation
Indices: 993362--993404 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
993352 AATTTATTAG
993362 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
993384 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
993405 TAATTTATTA
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:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Done.