Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_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: 3924084
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 18
Found at i:454495 original size:18 final size:18
Alignment explanation
Indices: 454453--454508 Score: 85
Period size: 18 Copynumber: 3.0 Consensus size: 18
454443 GAGTGATTAT
454453 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGAC--A
454473 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
*
454491 CAGTGGTCCTTCGAGACA
1 CAGTGGTCCTTCGGGACA
454509 AATATTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 18 0.51
20 17 0.49
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.21
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:455560 original size:36 final size:35
Alignment explanation
Indices: 455454--455738 Score: 151
Period size: 36 Copynumber: 8.4 Consensus size: 35
455444 TTTGAGAATC
* * *
455454 TTTCTCTTGAAACAAAATTTTGCCTCGTTTGAGGCAG
1 TTTCTCTTGAAAC-AAATTTTGTCT-GCTTGAGACAG
** **
455491 TTTCTCTTGAAACATAA----CCCT--TTGAGATTG
1 TTTCTCTTGAAACA-AATTTTGTCTGCTTGAGACAG
455521 TTTCTCTTGAAACAAATTTTGTCTGACTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTG-CTTGAGACAG
* *
455557 TTTCTCTTGAAACGTAAA-----CCT--TTGAGATTA-
1 TTTCTCTTGAAAC--AAATTTTGTCTGCTTGAGA-CAG
* * *
455587 TTTATTTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCT-GCTTGAGACAG
** **
455623 TTTCTCTTGAAACATAA----ACCT--TTGAGATTG
1 TTTCTCTTGAAACA-AATTTTGTCTGCTTGAGACAG
* * *
455653 TTTCTCTTGAAATAAATTTTGTCTCGTTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCT-GCTTGAGACAG
*
455689 TTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAT
1 TTTCTCTTGAAACAAATTTTGTCT-GCTTGAGACAG
455725 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
455739 TAAAGCTTTG
Statistics
Matches: 191, Mismatches: 29, Indels: 57
0.69 0.10 0.21
Matches are distributed among these distances:
28 3 0.02
29 4 0.02
30 57 0.30
31 1 0.01
33 13 0.07
35 1 0.01
36 92 0.48
37 17 0.09
38 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (35 bp):
TTTCTCTTGAAACAAATTTTGTCTGCTTGAGACAG
Found at i:455579 original size:66 final size:66
Alignment explanation
Indices: 455406--455702 Score: 416
Period size: 66 Copynumber: 4.5 Consensus size: 66
455396 AGCAGACTTC
* * * * *
455406 TTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTTGAGAATCTTTCTCTTGAAACAAAA
1 TTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAAC-AAA
455471 TT
65 TT
* * * *
455473 TTGCCTCGTTTGAGGCAGTTTCTCTTGAAACATAACCCTTTGAGATTGTTTCTCTTGAAACAAAT
1 TTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAT
455538 T
66 T
* * * *
455539 TTGTCT-GACTTGAGACAGTTTCTCTTGAAACGTAAACCTTTGAGATTATTTATTTTGAAACAAA
1 TTGTCTCG-CTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAA
455603 TT
65 TT
* *
455605 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAATAAAT
1 TTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAT
455670 T
66 T
* *
455671 TTGTCTCGTTTGAGACAATTTCTCTTGAAACA
1 TTGTCTCGCTTGAGACAGTTTCTCTTGAAACA
455703 AATTTTGTCT
Statistics
Matches: 202, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.00
66 149 0.74
67 52 0.26
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (66 bp):
TTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAT
T
Found at i:455684 original size:102 final size:103
Alignment explanation
Indices: 455577--455790 Score: 313
Period size: 102 Copynumber: 2.1 Consensus size: 103
455567 AACGTAAACC
** * *
455577 TTTGAGATTATTTATTTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTTGAGACAATTTATCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
* * *
455642 CTTTGAGATTGTTTCTCTTGAAATAAA-TTTTGTCTCG
66 CTTTGAGATTGTTTCTCTCGAAACAAACTTTCGTCTCG
* * *
455679 TTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACATTTTCTCTTGAAACATAAAG
1 TTTGAGACAATTTATCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
*
455744 CTTTGAGATTGTTTCTCTCGAAACAAACTTTCGTCTCA
66 CTTTGAGATTGTTTCTCTCGAAACAAACTTTCGTCTCG
*
455782 CTTGAGACA
1 TTTGAGACA
455791 GTTTCCCCTA
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 83 0.84
103 16 0.16
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (103 bp):
TTTGAGACAATTTATCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
CTTTGAGATTGTTTCTCTCGAAACAAACTTTCGTCTCG
Found at i:455718 original size:21 final size:21
Alignment explanation
Indices: 455658--455719 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
455648 GATTGTTTCT
*
455658 CTTGAAATAAATTTTGTCTCG
1 CTTGAAACAAATTTTGTCTCG
* *
455679 TTTGAGAC-AA--TT-TCT--
1 CTTGAAACAAATTTTGTCTCG
455694 CTTGAAACAAATTTTGTCTCG
1 CTTGAAACAAATTTTGTCTCG
455715 CTTGA
1 CTTGA
455720 GACATTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 3 0.10
18 4 0.13
19 3 0.10
20 2 0.07
21 10 0.33
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCG
Found at i:455822 original size:67 final size:65
Alignment explanation
Indices: 455689--455852 Score: 170
Period size: 67 Copynumber: 2.5 Consensus size: 65
455679 TTTGAGACAA
* * * ** *
455689 TTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACATTTTCTCTTGAAACATAAAGCTTTGAGATT
1 TTTCTCTTGAAACAAA-TTTGTCTCACTTGAGACATTTCCCCTAAAAACATAAAGCTTTGAAATT
455754 G
65 G
* *
455755 TTTCTCTCGAAACAAACTTTCGTCTCACTTGAGACAGTTTCCCCTAAAAAC-TCAAA-TTTTGAA
1 TTTCTCTTGAAACAAA-TTT-GTCTCACTTGAGACA-TTTCCCCTAAAAACAT-AAAGCTTTGAA
455818 ATTG
62 ATTG
**
455822 TTTAACTTGAAACAAATTTGATCTCACTTGA
1 TTTCTCTTGAAACAAATTTG-TCTCACTTGA
455853 TATTGTTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
65 1 0.01
66 31 0.38
67 37 0.45
68 13 0.16
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (65 bp):
TTTCTCTTGAAACAAATTTGTCTCACTTGAGACATTTCCCCTAAAAACATAAAGCTTTGAAATTG
Found at i:455884 original size:169 final size:167
Alignment explanation
Indices: 455521--455942 Score: 413
Period size: 169 Copynumber: 2.5 Consensus size: 167
455511 TTTGAGATTG
**
455521 TTTCTCTTGAAACAAATTTTGTCT-GACTTGAGACAGTTTCTCTTGAAACGTAAACCTTTGAGAT
1 TTTCTCTAAAAACAAATTTTGTCTCG-CTTGAGACAGTTTCTCTTGAAACGTAAA-CTTTGAGAT
* * * * * * * ** *
455585 TATTTATTTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGA
64 TGTTTCTCTCGAAACAAATTTCGTCTCACTTGAGACAGTTTCCCTAAAAACATAAACCTTTGAAA
** * **
455650 TTGTTTCTCTTGAAATAAATTTTGTCTCGTTTGAGACAA
129 TTGTTTAACTTGAAACAAATTTTGTCTCACTTGAGACAA
** * *
455689 TTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACATTTTCTCTTGAAACATAAAGCTTTGAGATT
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACGTAAA-CTTTGAGATT
*
455754 GTTTCTCTCGAAACAAACTTTCGTCTCACTTGAGACAGTTTCCCCTAAAAAC-TCAAA-TTTTGA
65 GTTTCTCTCGAAACAAA-TTTCGTCTCACTTGAGACAGTTT-CCCTAAAAACAT-AAACCTTTGA
* ***
455817 AATTGTTTAACTTGAAACAAA-TTTGATCTCACTTGATATTG
127 AATTGTTTAACTTGAAACAAATTTTG-TCTCACTTGAGACAA
* * * * * * * *
455858 TTT-TCCTAAAAACAAATATCGTCTCGCTTGAGGCAGGTTTCCCATGAAACGCAAATTTTGAAAT
1 TTTCT-CTAAAAACAAATTTTGTCTCGCTTGAGACA-GTTTCTCTTGAAACGTAAACTTTGAGAT
*
455922 TGTTTCACTCGAAACAAATTT
64 TGTTTCTCTCGAAACAAATTT
455943 TTATCTCACC
Statistics
Matches: 211, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
168 81 0.38
169 106 0.50
170 24 0.11
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (167 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACGTAAACTTTGAGATTG
TTTCTCTCGAAACAAATTTCGTCTCACTTGAGACAGTTTCCCTAAAAACATAAACCTTTGAAATT
GTTTAACTTGAAACAAATTTTGTCTCACTTGAGACAA
Found at i:455916 original size:102 final size:104
Alignment explanation
Indices: 455764--455951 Score: 265
Period size: 102 Copynumber: 1.8 Consensus size: 104
455754 GTTTCTCTCG
* * *
455764 AAACAAACTTTCGTCTCACTTGAGACAGTTTCCCCTAAAAACTCAAATTTTGAAATTGTTTAACT
1 AAACAAACTATCGTCTCACTTGAGACAGTTTCCCATAAAAACGCAAATTTTGAAATTGTTTAACT
*
455829 TGAAACAAA-TTTGATCTCACTTGATATTGTTTTCCTAA
66 CGAAACAAATTTTGATCTCACTTGATATTGTTTTCCTAA
* * * *
455867 AAACAAA-TATCGTCTCGCTTGAGGCAGGTTTCCCAT-GAAACGCAAATTTTGAAATTGTTTCAC
1 AAACAAACTATCGTCTCACTTGAGACA-GTTTCCCATAAAAACGCAAATTTTGAAATTGTTTAAC
*
455930 TCGAAACAAATTTTTATCTCAC
65 TCGAAACAAATTTTGATCTCAC
455952 CTAAGATAGC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
102 49 0.66
103 25 0.34
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (104 bp):
AAACAAACTATCGTCTCACTTGAGACAGTTTCCCATAAAAACGCAAATTTTGAAATTGTTTAACT
CGAAACAAATTTTGATCTCACTTGATATTGTTTTCCTAA
Found at i:457799 original size:21 final size:21
Alignment explanation
Indices: 457773--457816 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
457763 GACGTGCATT
*
457773 GATTGCTAAAGTAAGTCCATA
1 GATTGCTAAAGGAAGTCCATA
457794 GATTGCTAAAGGAAGTCCATA
1 GATTGCTAAAGGAAGTCCATA
457815 GA
1 GA
457817 AAACAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (21 bp):
GATTGCTAAAGGAAGTCCATA
Found at i:459547 original size:22 final size:21
Alignment explanation
Indices: 459513--459555 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
459503 ATATTCTTTA
459513 TCATTCTTTACATTCTTTTATT
1 TCATTCTTTACATT-TTTTATT
459535 TCATT-TTTGACATTTTTTATT
1 TCATTCTTT-ACATTTTTTATT
459556 ATTTCATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.65
Consensus pattern (21 bp):
TCATTCTTTACATTTTTTATT
Found at i:460272 original size:22 final size:22
Alignment explanation
Indices: 460244--460292 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
460234 AAAATACGGT
*
460244 ATGAACAATAATGACCAGTACC
1 ATGAACAATAATGAACAGTACC
* * *
460266 ATGAACAGTAGTGAATAGTACC
1 ATGAACAATAATGAACAGTACC
460288 ATGAA
1 ATGAA
460293 TAGTACCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (22 bp):
ATGAACAATAATGAACAGTACC
Found at i:461092 original size:31 final size:31
Alignment explanation
Indices: 461054--461147 Score: 154
Period size: 31 Copynumber: 3.0 Consensus size: 31
461044 CCCGAAGAAC
* *
461054 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
461085 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
461116 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
461147 C
1 C
461148 CCTCAACTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 59 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:465481 original size:22 final size:22
Alignment explanation
Indices: 465438--465482 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
465428 AAAATACGGT
* *
465438 ATGAACAGTAATGAATAGTACC
1 ATGAACAGTAATGAACAATACC
*
465460 ATGAACAGTAGTGAACAATACC
1 ATGAACAGTAATGAACAATACC
465482 A
1 A
465483 AATGTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (22 bp):
ATGAACAGTAATGAACAATACC
Found at i:471129 original size:31 final size:31
Alignment explanation
Indices: 471086--471195 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
471076 TATAGATTCT
* * *
471086 GAAGAACCTAGGTAAATAGTCCATATGACCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
471117 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
471148 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
471179 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
471196 CCTCAACTCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:473751 original size:13 final size:14
Alignment explanation
Indices: 473733--473761 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
473723 TAAAGAAAAG
473733 AATAAAT-AAAATA
1 AATAAATAAAAATA
473746 AATAAATAAAAATA
1 AATAAATAAAAATA
473760 AA
1 AA
473762 AAAGAGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAATAAAAATA
Found at i:473775 original size:13 final size:13
Alignment explanation
Indices: 473759--473794 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
473749 AAATAAAAAT
473759 AAAAAAGAGAGAG
1 AAAAAAGAGAGAG
473772 AAAAAAGAGAGAG
1 AAAAAAGAGAGAG
473785 AAAAAAGAGA
1 AAAAAAGAGA
473795 AAAATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAGAG
Found at i:473780 original size:11 final size:11
Alignment explanation
Indices: 473760--473798 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
473750 AATAAAAATA
473760 AAAAAGAGAGAG
1 AAAAA-AGAGAG
473772 AAAAAAGAGAG
1 AAAAAAGAGAG
473783 AGAAAAA-AGAG
1 A-AAAAAGAGAG
473794 AAAAA
1 AAAAA
473799 TAAAGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.15
11 12 0.46
12 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:477977 original size:2 final size:2
Alignment explanation
Indices: 477970--478002 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
477960 ATTAATTTAA
477970 AT AT AT 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 AT AT AT A
478003 CATTTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:478042 original size:24 final size:28
Alignment explanation
Indices: 477992--478047 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 28
477982 ATATATATAT
*
477992 ATATATATATACATTTATAAAATAAATC
1 ATATATATATACATTTATAAAACAAATC
*
478020 ATATATAT-TA-ATTT-T-AAACAAATG
1 ATATATATATACATTTATAAAACAAATC
478044 ATAT
1 ATAT
478048 CGAAACAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 11 0.42
25 1 0.04
26 4 0.15
27 2 0.08
28 8 0.31
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
ATATATATATACATTTATAAAACAAATC
Found at i:480083 original size:31 final size:31
Alignment explanation
Indices: 480048--480127 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
480038 AGTTTTCGAG
* * * *
480048 TCGAGTCAAATCTAGCTCTATTTCAAAGTTT
1 TCGAGTCAAGTCAAGCTCCATGTCAAAGTTT
* *
480079 TCGAGTCGAGTCGAGCTCCATGTCAAAGTTT
1 TCGAGTCAAGTCAAGCTCCATGTCAAAGTTT
480110 TCGAGTCAAGTCAAGCTC
1 TCGAGTCAAGTCAAGCTC
480128 AACAATACTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (31 bp):
TCGAGTCAAGTCAAGCTCCATGTCAAAGTTT
Found at i:484856 original size:30 final size:30
Alignment explanation
Indices: 484822--484907 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
484812 GATGACGCAG
* *
484822 TAGATCCATGTGAATTAAATATTGACGTGA
1 TAGATCCATGTGAACTAAATACTGACGTGA
* * * *
484852 TAGATCTATGTGAACTAAATACTAATGTGG
1 TAGATCCATGTGAACTAAATACTGACGTGA
*
484882 TAAATCCATGTGAACTAAATACTGAC
1 TAGATCCATGTGAACTAAATACTGAC
484908 ACGGCATGTC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (30 bp):
TAGATCCATGTGAACTAAATACTGACGTGA
Found at i:485652 original size:28 final size:29
Alignment explanation
Indices: 485601--485701 Score: 159
Period size: 30 Copynumber: 3.4 Consensus size: 29
485591 AATTAATATT
485601 TTAATTTTGTCTTATGACTAAAATTATTTA
1 TTAATTTT-TCTTATGACTAAAATTATTTA
485631 TTAATTTTTCTTATGACT-AAATTATTTA
1 TTAATTTTTCTTATGACTAAAATTATTTA
*
485659 TTAATTTTTCTTATGATTAAAAATTATTTA
1 TTAATTTTTCTTATGACT-AAAATTATTTA
*
485689 TTTATTTTTCTTA
1 TTAATTTTTCTTA
485702 GTATTAATTC
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 27 0.40
29 10 0.15
30 30 0.45
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (29 bp):
TTAATTTTTCTTATGACTAAAATTATTTA
Found at i:485777 original size:47 final size:47
Alignment explanation
Indices: 485724--485813 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 47
485714 GTGGACATAA
* *
485724 GACTAAA-TAAAAAATATTATAAGA-AAAATTAATAAATAATATTAGTC
1 GACTAAATTAAAAAAGATTAAAAGATAAAATT-ATAAA-AATATTAGTC
* *
485771 GACTAAATTAAATAAGATTAAAAGATTAAATTATAAAAATATT
1 GACTAAATTAAAAAAGATTAAAAGATAAAATTATAAAAATATT
485814 TATAATTAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
47 13 0.35
48 19 0.51
49 5 0.14
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (47 bp):
GACTAAATTAAAAAAGATTAAAAGATAAAATTATAAAAATATTAGTC
Found at i:506827 original size:21 final size:21
Alignment explanation
Indices: 506803--506852 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
506793 AGTTGATTAG
506803 AATGTTTTTAAA-TTATTTAAA
1 AATGTTTTTAAAGTT-TTTAAA
506824 AATGTTTTTAAAGTTTTTAAA
1 AATGTTTTTAAAGTTTTTAAA
*
506845 AACGTTTT
1 AATGTTTT
506853 AACACTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (21 bp):
AATGTTTTTAAAGTTTTTAAA
Found at i:506861 original size:21 final size:20
Alignment explanation
Indices: 506806--506865 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
506796 TGATTAGAAT
* *
506806 GTTTTTAAATTATTTAAAAAT
1 GTTTTTAAACT-TTTAAAAAC
*
506827 GTTTTTAAAGTTTTTAAAAAC
1 GTTTTTAAA-CTTTTAAAAAC
506848 G-TTTTAACACTTTTAAAA
1 GTTTTTAA-ACTTTTAAAA
506866 CATGAAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (20 bp):
GTTTTTAAACTTTTAAAAAC
Found at i:516014 original size:24 final size:24
Alignment explanation
Indices: 515978--516025 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
515968 GATTTTTGAG
*
515978 ATATTTTGTAGGATGATAGAGGAA
1 ATATTTTGAAGGATGATAGAGGAA
516002 ATATTTTGAAGGATGATAGAGGAA
1 ATATTTTGAAGGATGATAGAGGAA
516026 GGTTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (24 bp):
ATATTTTGAAGGATGATAGAGGAA
Found at i:518262 original size:19 final size:18
Alignment explanation
Indices: 518213--518263 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
518203 ATTTTACGTG
518213 TTTATACATTATTATATGA
1 TTTATACA-TATTATATGA
*
518232 TGCT-TACAATATTATATGA
1 T-TTATAC-ATATTATATGA
518251 TTTATACTATATT
1 TTTATAC-ATATT
518264 TTATATTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 23 0.88
20 2 0.08
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTATACATATTATATGA
Found at i:528832 original size:20 final size:20
Alignment explanation
Indices: 528807--528855 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
528797 TTGACCGAAA
528807 GTATCGATATTGTTTATAAG
1 GTATCGATATTGTTTATAAG
*
528827 GTATCGATATTGTTTATAGG
1 GTATCGATATTGTTTATAAG
528847 GTATCGATA
1 GTATCGATA
528856 ATTAGAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (20 bp):
GTATCGATATTGTTTATAAG
Found at i:540272 original size:13 final size:13
Alignment explanation
Indices: 540251--540280 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
540241 AAGATAAAAG
*
540251 AAAGTTAAAGTAA
1 AAAGATAAAGTAA
540264 AAAGATAAAGTAA
1 AAAGATAAAGTAA
540277 AAAG
1 AAAG
540281 TGAAATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (13 bp):
AAAGATAAAGTAA
Found at i:551935 original size:35 final size:35
Alignment explanation
Indices: 551896--551978 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 35
551886 TGAAGTGATA
*
551896 GTATCGGTACCATGGGTA-CTGATACCAATATAGAG
1 GTATCAGTACCATGGGTATC-GATACCAATATAGAG
*
551931 GTATCAGTACCATGGGTATCGATACCAATATGGAG
1 GTATCAGTACCATGGGTATCGATACCAATATAGAG
**
551966 GTATTTGTACCAT
1 GTATCAGTACCAT
551979 TCTTGCGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (35 bp):
GTATCAGTACCATGGGTATCGATACCAATATAGAG
Found at i:552769 original size:21 final size:21
Alignment explanation
Indices: 552745--552803 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
552735 TTCTATGTGG
552745 TCCTTCGGGACATATATGTAA
1 TCCTTCGGGACATATATGTAA
** * *
552766 TCCTTTTGAACATATATGTGA
1 TCCTTCGGGACATATATGTAA
* *
552787 TTCTTCGGGACACATAT
1 TCCTTCGGGACATATAT
552804 TTAGTTCTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (21 bp):
TCCTTCGGGACATATATGTAA
Found at i:552797 original size:42 final size:42
Alignment explanation
Indices: 552738--552833 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
552728 TCGAGAGTTC
* * *
552738 TATGTGGTCCTTCGGGACATATATGTAATCCTTTTGAACATA
1 TATGTGATCCTTCGGGACACATATGTAATCCTTTAGAACATA
* * * * *
552780 TATGTGATTCTTCGGGACACATATTTAGTTCTTTAGAATATA
1 TATGTGATCCTTCGGGACACATATGTAATCCTTTAGAACATA
552822 TATGTGATCCTT
1 TATGTGATCCTT
552834 AAGGAATGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGTGATCCTTCGGGACACATATGTAATCCTTTAGAACATA
Found at i:554078 original size:95 final size:96
Alignment explanation
Indices: 553966--554164 Score: 265
Period size: 95 Copynumber: 2.1 Consensus size: 96
553956 TTCAAGTAGT
* * *
553966 AACCAGTAGATTTCATGATCCATAAATCAGGAACAATCATATTTTCCAGTG-AAACAGGAAACCA
1 AACCAGTAGATTCCATGATCCATAAATCAGGAACAATCATACTTTACAGTGAAAACAGGAAACCA
* * * * *
554030 TATAATACATTTTAGGTAACCATAGTTCATA
66 AAGAACACATTTCAAGTAACCATAGTTCATA
* * * *
554061 AACCAGTAGATTCCATGATCCATAAATCATGAACGATCATACTTTATAGTGAAAACAGGTAACCA
1 AACCAGTAGATTCCATGATCCATAAATCAGGAACAATCATACTTTACAGTGAAAACAGGAAACCA
* *
554126 AAGAACATATTTCAAGTAACCATTGTTCATA
66 AAGAACACATTTCAAGTAACCATAGTTCATA
554157 AACCAGTA
1 AACCAGTA
554165 AATCAATGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 45 0.51
96 44 0.49
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.27
Consensus pattern (96 bp):
AACCAGTAGATTCCATGATCCATAAATCAGGAACAATCATACTTTACAGTGAAAACAGGAAACCA
AAGAACACATTTCAAGTAACCATAGTTCATA
Found at i:558522 original size:24 final size:24
Alignment explanation
Indices: 558478--558527 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
558468 ATAAAGAACC
*
558478 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
558502 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
558526 AA
1 AA
558528 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:558749 original size:24 final size:25
Alignment explanation
Indices: 558701--558749 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
558691 CCGTGAACCA
* *
558701 CCTAGCTCGCTAGCTCCTTTCAGCT
1 CCTAGCTCGCCAGCTCCTTGCAGCT
*
558726 CCTAGCTCGCCA-CTCCTTGGAGCT
1 CCTAGCTCGCCAGCTCCTTGCAGCT
558750 TTATCAATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.12, C:0.41, G:0.18, T:0.29
Consensus pattern (25 bp):
CCTAGCTCGCCAGCTCCTTGCAGCT
Found at i:562171 original size:6 final size:6
Alignment explanation
Indices: 562160--562184 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
562150 TTACAAAATG
562160 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
562185 GAAAAACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:568421 original size:24 final size:24
Alignment explanation
Indices: 568377--568426 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
568367 ATAAAGAACC
568377 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAATATACCATTA
*
568401 AAAATAAAGTTCAAATA-ACCATTA
1 AAAATAAACTT-AAATATACCATTA
568425 AA
1 AA
568427 TCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAATATACCATTA
Found at i:569899 original size:77 final size:76
Alignment explanation
Indices: 569809--569966 Score: 226
Period size: 77 Copynumber: 2.1 Consensus size: 76
569799 TTGCGCCTAA
* * * * *
569809 AATGTCATGGTTCACTAAGAAATAAGTTGTGATCTGGAATGTTAATATTTTTATTAATAAAATAG
1 AATGTAATGGTTCACCAAGAAATAAGTTGTGATCTAGAATATTAATAATTTTATTAATAAAATAG
569874 GTTGTGCCCATG
66 GTTGTGCCCA-G
* * *
569886 AATGTAATGGTTCACCCAGAAATAGGTTGTGATCTAGAATATTAATAATTTTATTAATAAAATGG
1 AATGTAATGGTTCACCAAGAAATAAGTTGTGATCTAGAATATTAATAATTTTATTAATAAAATAG
*
569951 GTTGTGCCTAG
66 GTTGTGCCCAG
569962 AATGT
1 AATGT
569967 TATCAAAGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 6 0.08
77 66 0.92
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (76 bp):
AATGTAATGGTTCACCAAGAAATAAGTTGTGATCTAGAATATTAATAATTTTATTAATAAAATAG
GTTGTGCCCAG
Found at i:570154 original size:77 final size:76
Alignment explanation
Indices: 570062--570230 Score: 257
Period size: 77 Copynumber: 2.2 Consensus size: 76
570052 AGAAACACAA
* *
570062 TTGCGCCTAAAAATGTCATGGTTCACTAAGAAATAGGTTGCAATATGGAATGTTACTATTTTTTT
1 TTGCGCCT-AAAATGTCATGGTTCACTAAGAAATAGGTTGCAATATGGAATGTTAATATTTTTAT
570127 TAATAAAATGGG
65 TAATAAAATGGG
* ** *
570139 TTGCGCCTAAGAATGTCATGGTTCACTACGAAATAGGTTGTGATCTGGAATGTTAATATTTTTAT
1 TTGCGCCTAA-AATGTCATGGTTCACTAAGAAATAGGTTGCAATATGGAATGTTAATATTTTTAT
570204 TAATAAAATGGG
65 TAATAAAATGGG
*
570216 TTGCGTCTAAAATGT
1 TTGCGCCTAAAATGT
570231 TATTAGAGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
76 7 0.08
77 77 0.92
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (76 bp):
TTGCGCCTAAAATGTCATGGTTCACTAAGAAATAGGTTGCAATATGGAATGTTAATATTTTTATT
AATAAAATGGG
Found at i:570680 original size:73 final size:73
Alignment explanation
Indices: 570524--570685 Score: 177
Period size: 73 Copynumber: 2.2 Consensus size: 73
570514 ATAAGTGTTG
* * *
570524 ATACTTTTGAA-TT-AA-AAAAACATGAAAAATGATAAGGCTACAAAGTATCAATACTTTTAAAA
1 ATACTTTTGAATTTAAAGAAAAACATGAAAAATAAGAAGACTACAAAGTATCAATACTTTTAAAA
* *
570586 AATTATCG
66 AACTATCA
* *** * **
570594 ATACTTTCGAATTTAAAGAAAAACATGAAAAATAAGAAGACTACAAAGTATGGGTAGTTTTTCAA
1 ATACTTTTGAATTTAAAGAAAAACATGAAAAATAAGAAGACTACAAAGTATCAATACTTTTAAAA
570659 AACTATCA
66 AACTATCA
*
570667 ATACTTTTAAATTTGAAAG
1 ATACTTTTGAATTT-AAAG
570686 TTAAAATATA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
70 10 0.14
71 2 0.03
72 2 0.03
73 56 0.76
74 4 0.05
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (73 bp):
ATACTTTTGAATTTAAAGAAAAACATGAAAAATAAGAAGACTACAAAGTATCAATACTTTTAAAA
AACTATCA
Found at i:571661 original size:77 final size:77
Alignment explanation
Indices: 571511--571662 Score: 241
Period size: 77 Copynumber: 2.0 Consensus size: 77
571501 AGGCATAACC
*
571511 CATTTTATTAATAAAAATATTAACATTCCATATCACAACCTATTTCTTAGTTAACCATGACATTC
1 CATTTTATTAATAAAAATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATGACATTC
**
571576 TTGGGCGCAACA
66 TTACGCGCAACA
* * * *
571588 CATTTTATTAATAAAAATATTAATATTCCATATGACAACCTATTTCTTAGTGAACCATGATATTT
1 CATTTTATTAATAAAAATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATGACATTC
571653 TTACGCGCAA
66 TTACGCGCAA
571663 TCGTATTTCT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (77 bp):
CATTTTATTAATAAAAATATTAACATTCCATATCACAACCTATTTCTTAGTGAACCATGACATTC
TTACGCGCAACA
Found at i:571894 original size:186 final size:187
Alignment explanation
Indices: 571570--571960 Score: 556
Period size: 186 Copynumber: 2.1 Consensus size: 187
571560 GTTAACCATG
* * * * *
571570 ACATTCTTGGGCGCAACACATTTTATTAATAAAAATATTAATATTCCATATGACAACCTATTTCT
1 ACATT-TTAGGCGCAACCCATATTATTAATAAAAATATTAACATTCCATATGACAACCTATGTCT
* * *
571635 TAGTGAACCATGATATTTTTACGCGCAATCGTATTTCTTATATATGTTCATAATATTTTCAGCTT
65 TAGTGAACCATGACATTTTTACGCGCAATCGTATTTCTTATATATATTCATAACATTTTCAGCTT
* * *
571700 TTAAACTTATTTTCTTATTGTGCGAAAATCCAA-GTCTCTATCAGCTTAAACTTTGATA
130 TTAAACTTATTTTCTTATCGTGCGAAAATCCAATG-CTCCATCAGCTTAAACTCTGATA
*
571758 ACATTTTAGGCGCAACCCATATTATTAATAAAAATATTAACATTTCATATCG-CAACCTATGTCT
1 ACATTTTAGGCGCAACCCATATTATTAATAAAAATATTAACATTCCATAT-GACAACCTATGTCT
* * *
571822 TAGTGAA-CAT-AGCATTTTTAGGCGCTATCGTATTTCTTATATATATTCATAACATTTTTAGCT
65 TAGTGAACCATGA-CATTTTTACGCGCAATCGTATTTCTTATATATATTCATAACATTTTCAGCT
* * *
571885 TTTAAACTTATTTTCTTATCGTGGGAAAATTCAATGCTCCATCAGCTTAAACTCTGGTA
129 TTTAAACTTATTTTCTTATCGTGCGAAAATCCAATGCTCCATCAGCTTAAACTCTGATA
571944 ACATTTTAGGCGCAACC
1 ACATTTTAGGCGCAACC
571961 TAAAATGTTA
Statistics
Matches: 182, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
185 1 0.01
186 116 0.64
187 59 0.32
188 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (187 bp):
ACATTTTAGGCGCAACCCATATTATTAATAAAAATATTAACATTCCATATGACAACCTATGTCTT
AGTGAACCATGACATTTTTACGCGCAATCGTATTTCTTATATATATTCATAACATTTTCAGCTTT
TAAACTTATTTTCTTATCGTGCGAAAATCCAATGCTCCATCAGCTTAAACTCTGATA
Found at i:572097 original size:22 final size:22
Alignment explanation
Indices: 572055--572098 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
572045 TACTACATTG
*
572055 ATAACTTTTATGGTTCCGCTTT
1 ATAACTTTTATGGTTACGCTTT
*
572077 ATAACATTTTAT-GTTATGCTTT
1 ATAAC-TTTTATGGTTACGCTTT
572099 TACTTGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (22 bp):
ATAACTTTTATGGTTACGCTTT
Found at i:573935 original size:21 final size:22
Alignment explanation
Indices: 573909--573968 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
573899 GTCGAGGGTA
573909 TCATAGGTCCTTTGGGACA-AC
1 TCATAGGTCCTTTGGGACATAC
573930 TCATAGGT-CTTTCGGGACATAC
1 TCATAGGTCCTTT-GGGACATAC
* *
573952 TCACAGGTCCTTCGGGA
1 TCATAGGTCCTTTGGGA
573969 TAATTTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 4 0.12
21 14 0.41
22 13 0.38
23 3 0.09
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (22 bp):
TCATAGGTCCTTTGGGACATAC
Found at i:573959 original size:22 final size:21
Alignment explanation
Indices: 573913--573968 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
573903 AGGGTATCAT
*
573913 AGGTCCTTT-GGGACAACTCAT
1 AGGT-CTTTCGGGACAACTCAC
573934 AGGTCTTTCGGGACATACTCAC
1 AGGTCTTTCGGGACA-ACTCAC
*
573956 AGGTCCTTCGGGA
1 AGGTCTTTCGGGA
573969 TAATTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.13
21 10 0.32
22 17 0.55
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (21 bp):
AGGTCTTTCGGGACAACTCAC
Found at i:576422 original size:18 final size:18
Alignment explanation
Indices: 576401--576435 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
576391 AGAGAGATGT
*
576401 AATTCCAGATCGAGATAG
1 AATTCCAGATCAAGATAG
*
576419 AATTCTAGATCAAGATA
1 AATTCCAGATCAAGATA
576436 ACACCGGGAA
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:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (18 bp):
AATTCCAGATCAAGATAG
Found at i:581658 original size:22 final size:22
Alignment explanation
Indices: 581633--581696 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
581623 CCAAACAACC
*
581633 GAAAATATGCCATAAAGGTAGA
1 GAAAATATGACATAAAGGTAGA
* *
581655 GAAAATGTGATATAAAGGTAGA
1 GAAAATATGACATAAAGGTAGA
*
581677 -AAAATACGTGTCATAAAGGT
1 GAAAATA--TGACATAAAGGT
581697 GAAATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.15
22 19 0.56
23 10 0.29
ACGTcount: A:0.48, C:0.06, G:0.23, T:0.22
Consensus pattern (22 bp):
GAAAATATGACATAAAGGTAGA
Found at i:581696 original size:23 final size:22
Alignment explanation
Indices: 581643--581700 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
581633 GAAAATATGC
581643 CATAAAGGTAGAGAAAATGTGAT
1 CATAAAGGTAGA-AAAATGTGAT
581666 -ATAAAGGTAGAAAAATACGTG-T
1 CATAAAGGTAGAAAAAT--GTGAT
581688 CATAAAGGT-GAAA
1 CATAAAGGTAGAAA
581701 TTATTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
23 11 0.34
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (22 bp):
CATAAAGGTAGAAAAATGTGAT
Found at i:587224 original size:30 final size:30
Alignment explanation
Indices: 587188--587248 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
587178 TAAGAGTGTT
587188 GTGAAAAGAAAAGAAATTGAATGAGCTGAA
1 GTGAAAAGAAAAGAAATTGAATGAGCTGAA
*
587218 GTGAAAAGAAAATAAATTGAATGAGCTGAA
1 GTGAAAAGAAAAGAAATTGAATGAGCTGAA
587248 G
1 G
587249 AGGAAGATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.26, T:0.18
Consensus pattern (30 bp):
GTGAAAAGAAAAGAAATTGAATGAGCTGAA
Found at i:593448 original size:20 final size:20
Alignment explanation
Indices: 593425--593484 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
593415 ATTCGCAATG
*
593425 CGAATAAGTAAATCGCAACA
1 CGAATAAGAAAATCGCAACA
**
593445 CGAATTGGGAAAATCGCAACA
1 CGAA-TAAGAAAATCGCAACA
**
593466 CGAATTGGGAAAATCGCAA
1 CGAA-TAAGAAAATCGCAA
593485 TGCGATACTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (20 bp):
CGAATAAGAAAATCGCAACA
Found at i:593460 original size:21 final size:21
Alignment explanation
Indices: 593434--593484 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
593424 GCGAATAAGT
593434 AAATCGCAACACGAATTGGGA
1 AAATCGCAACACGAATTGGGA
593455 AAATCGCAACACGAATTGGGA
1 AAATCGCAACACGAATTGGGA
593476 AAATCGCAA
1 AAATCGCAA
593485 TGCGATACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.14
Consensus pattern (21 bp):
AAATCGCAACACGAATTGGGA
Found at i:593503 original size:20 final size:20
Alignment explanation
Indices: 593478--593591 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
593468 AATTGGGAAA
*
593478 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
593498 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
593518 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
593539 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
593559 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
593579 TTCGCAACGCGAT
1 ATCGCAACGCGAT
593592 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:593553 original size:61 final size:61
Alignment explanation
Indices: 593475--593591 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
593465 ACGAATTGGG
* * * * *
593475 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
593536 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
593592 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:594183 original size:19 final size:19
Alignment explanation
Indices: 594147--594188 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
594137 ACGAGATAAT
**
594147 CGCAACGCGAAATGAAAAA
1 CGCAACGCGAAACAAAAAA
*
594166 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
594185 CGCA
1 CGCA
594189 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.26, G:0.19, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:594230 original size:20 final size:19
Alignment explanation
Indices: 594184--594254 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
594174 GAAACAAAAA
*
594184 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
594203 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
*
594222 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTTATT
594242 TCGCGTTGCGATT
1 TCGCGTTGCGATT
594255 GTCTGGTTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 31 0.63
20 18 0.37
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:594274 original size:33 final size:33
Alignment explanation
Indices: 594226--594324 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
594216 TTTATTTCGC
** *
594226 GGTTGCGATTTTCATTTCGCGTTGCGATTGTCT
1 GGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
594259 GGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 GGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
* *
594292 CGTTGTGATAGTCATTTCCGCGTTGCGATTCTC
1 GGTTGCGATAGTCATTT-CGCGTTGCGATTCTC
594325 ATTATCTCGT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 45 0.75
34 15 0.25
ACGTcount: A:0.11, C:0.21, G:0.26, T:0.41
Consensus pattern (33 bp):
GGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:594326 original size:20 final size:20
Alignment explanation
Indices: 594303--594349 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
594293 GTTGTGATAG
594303 TCATTTCCGCGTTGCGATTC
1 TCATTTCCGCGTTGCGATTC
* *
594323 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCGATTC
594343 TCATTTC
1 TCATTTC
594350 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATTC
Found at i:596403 original size:42 final size:42
Alignment explanation
Indices: 596343--596435 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
596333 GCCCGACTCG
* * *
596343 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
596385 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
596427 ACTGTCATC
1 CCTATCATC
596436 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:597798 original size:14 final size:14
Alignment explanation
Indices: 597779--597814 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
597769 ATTGTTTAAT
597779 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
597793 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
597807 TGATTTGT
1 TGATTTGT
597815 TAATTGATGT
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:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:598084 original size:66 final size:64
Alignment explanation
Indices: 597987--598117 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 64
597977 ACGCGAAATT
* * *
597987 AAATTCGCGTTGTGATTTTCATTTCGTATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATT--CTCGTTGCGATTTTCATTTCGCATTGC
598052 G
64 G
598053 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCGTTGCGATTTTCATTTCGCATTGCG
598117 A
1 A
598118 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 29 0.47
66 33 0.53
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (64 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCGTTGCGATTTTCATTTCGCATTGCG
Found at i:598098 original size:31 final size:31
Alignment explanation
Indices: 597989--598118 Score: 179
Period size: 33 Copynumber: 4.1 Consensus size: 31
597979 GCGAAATTAA
* *
597989 ATTCGCGTTGTGATTTTCATTTCGTATTGCG
1 ATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
598020 ATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 ATT--CGCGTTGCGATTTTCATTTCGCATTGCG
*
598053 AAATTAGCGTTGCGATTTTCATTTCGCATTGCG
1 --ATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
598086 ATTCTCGTTGCGATTTTCATTTCGCATTGCG
1 ATTCGCGTTGCGATTTTCATTTCGCATTGCG
598117 AT
1 AT
598119 AGTAATTTCC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 34 0.39
33 51 0.58
35 3 0.03
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (31 bp):
ATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:600955 original size:41 final size:42
Alignment explanation
Indices: 600904--600984 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
600894 TTCAACGATG
* *
600904 ATAGTGGCCTCTTGAACG-GTGGGGGGGAATCTTGAGGGAGA
1 ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGAGA
* *
600945 ATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGA
1 ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGA
600985 TGACCGGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (42 bp):
ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGAGA
Found at i:601364 original size:185 final size:185
Alignment explanation
Indices: 601030--601399 Score: 724
Period size: 185 Copynumber: 2.0 Consensus size: 185
601020 CGCACCATTG
601030 GGGTGAACGGAGACGTAATAGCACATCCACGCCGTCTGATGCGTGAACTCCGTCGTGTAAGGAAA
1 GGGTGAACGGAGACGTAATAGCACATCCACGCCGTCTGATGCGTGAACTCCGTCGTGTAAGGAAA
601095 ACCCGACGTTAAAGCATCCACCTTATCGGGCCGCTAAAAAAAATTAATACATAAATCAGTAAATA
66 ACCCGACGTTAAAGCATCCACCTTATCGGGCCGCTAAAAAAAATTAATACATAAATCAGTAAATA
601160 AATAGACATGATATAAACAAAGACAAATATGTTTTAAACTAGCATTGTATTCACC
131 AATAGACATGATATAAACAAAGACAAATATGTTTTAAACTAGCATTGTATTCACC
601215 GGGTGAACGGAGACGTAATAGCACATCCACGCCGTCTGATGCGTGAACTCCGTCGTGTAAGGAAA
1 GGGTGAACGGAGACGTAATAGCACATCCACGCCGTCTGATGCGTGAACTCCGTCGTGTAAGGAAA
601280 ACCCGACG-TAAAGCATCCACCTTATCGGGCCGCTAAAAAAAATTAATACATAAATCAGTAAATA
66 ACCCGACGTTAAAGCATCCACCTTATCGGGCCGCTAAAAAAAATTAATACATAAATCAGTAAATA
601344 AATAGACATGATATTAAACAAAGACAAATATGTTTTAAACTAGCATTGTATTCACC
131 AATAGACATGATA-TAAACAAAGACAAATATGTTTTAAACTAGCATTGTATTCACC
601400 CAAATCATTA
Statistics
Matches: 184, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 69 0.38
185 115 0.62
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (185 bp):
GGGTGAACGGAGACGTAATAGCACATCCACGCCGTCTGATGCGTGAACTCCGTCGTGTAAGGAAA
ACCCGACGTTAAAGCATCCACCTTATCGGGCCGCTAAAAAAAATTAATACATAAATCAGTAAATA
AATAGACATGATATAAACAAAGACAAATATGTTTTAAACTAGCATTGTATTCACC
Found at i:601579 original size:20 final size:19
Alignment explanation
Indices: 601537--601603 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
601527 GAAACTTAAA
*
601537 ATCGCAACGCGAATTGACT
1 ATCGCAACGCGAAATGACT
*
601556 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
601576 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
601595 ATCGCAACG
1 ATCGCAACG
601604 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:601611 original size:14 final size:14
Alignment explanation
Indices: 601592--601649 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
601582 ATGCGAAATG
601592 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
601606 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
601622 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
601638 AAAATCGCAACG
1 AAAATCGCAACG
601650 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:601634 original size:32 final size:33
Alignment explanation
Indices: 601576--601654 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
601566 GGAAATGGCT
*
601576 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
601609 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
601641 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
601655 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:601688 original size:19 final size:19
Alignment explanation
Indices: 601661--601781 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
601651 GAAACACAAA
*
601661 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* * *
601680 TCACGTTGC-AATTT--TG
1 TCGCGTTGCGATTTTCATT
601696 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
601712 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
601731 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
601750 TCCGCGTTGCGATAGTCATTT
1 T-CGCGTTGCGATTTTCA-TT
*
601771 TCGTGTTGCGA
1 TCGCGTTGCGA
601782 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
14 9 0.11
15 1 0.01
16 4 0.05
18 12 0.15
19 30 0.37
20 23 0.28
21 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:601761 original size:20 final size:19
Alignment explanation
Indices: 601697--601781 Score: 91
Period size: 20 Copynumber: 4.4 Consensus size: 19
601687 GCAATTTTGT
*
601697 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
**
601715 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
601734 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
601754 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
601774 TGTTGCGA
1 CGTTGCGA
601782 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.16
19 22 0.39
20 23 0.40
21 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:602287 original size:18 final size:18
Alignment explanation
Indices: 602261--602305 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
602251 GTCGATCAGA
* *
602261 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTAGGCGAGG
*
602279 TGATAGCTCTAGGCGAGG
1 TGATGGCTCTAGGCGAGG
602297 TGATGGCTC
1 TGATGGCTC
602306 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:603640 original size:20 final size:20
Alignment explanation
Indices: 603615--603652 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
603605 ATAGTTTTCT
603615 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
603635 GAAAATGAAAATCGCAAC
1 GAAAATGAAAATCGCAAC
603653 GAATTCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.16, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:604182 original size:20 final size:20
Alignment explanation
Indices: 604157--604211 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
604147 TTATGGTATT
604157 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
604177 ATCGCGTTGCG-AAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
604196 ATCGCGTTGCGAAAGT
1 ATCGCGTTGCGAAAGT
604212 TCGCATTGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:605427 original size:13 final size:12
Alignment explanation
Indices: 605409--605444 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
605399 TTTTAATGTT
605409 ATAATAATATATC
1 ATAAT-ATATATC
605422 ATAATATATTATC
1 ATAATATA-TATC
605435 ATAATATATA
1 ATAATATATA
605445 ATATTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATATATATC
Found at i:605438 original size:23 final size:23
Alignment explanation
Indices: 605407--605453 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
605397 ATTTTTAATG
*
605407 TTATAATAATATATCATAATATA
1 TTATAATAATATATAATAATATA
* *
605430 TTATCATAATATATAATATTATA
1 TTATAATAATATATAATAATATA
605453 T
1 T
605454 GTTTATGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATAATAATATATAATAATATA
Found at i:605508 original size:26 final size:26
Alignment explanation
Indices: 605479--605562 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
605469 TTATAATAAA
605479 TAATAAATAAAATTAATATTATTTAT
1 TAATAAATAAAATTAATATTATTTAT
** *
605505 TAATTTCATAAAAATAATATTA-TTATT
1 TAA-TAAATAAAATTAATATTATTTA-T
* * *
605532 TATTAAAT--ATTTAAAATATATTTAT
1 TAATAAATAAAATTAATAT-TATTTAT
605557 TAATAA
1 TAATAA
605563 TTTTTAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
24 6 0.14
25 8 0.18
26 12 0.27
27 18 0.41
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATAAATAAAATTAATATTATTTAT
Found at i:605553 original size:22 final size:24
Alignment explanation
Indices: 605528--605575 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
605518 ATAATATTAT
605528 TATTTATT-A-AATATTTAAAATA
1 TATTTATTAATAATATTTAAAATA
*
605550 TATTTATTAATAATTTTTAAAATA
1 TATTTATTAATAATATTTAAAATA
605574 TA
1 TA
605576 ATATAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTTATTAATAATATTTAAAATA
Found at i:607787 original size:3 final size:3
Alignment explanation
Indices: 607779--607862 Score: 89
Period size: 3 Copynumber: 28.3 Consensus size: 3
607769 TTCATCCCGC
* *
607779 TAT TAT TAT TAT T-G TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
607826 TAG TAG TAT TAG TAT TAA TAT TTT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
607863 TCTGTAGGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
2 1 0.01
3 69 0.99
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:607912 original size:17 final size:17
Alignment explanation
Indices: 607890--607922 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
607880 GCCCCAATCT
607890 CACAAAATGAACCAAGC
1 CACAAAATGAACCAAGC
*
607907 CACAAAATGACCCAAG
1 CACAAAATGAACCAAG
607923 ACCCGAGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.30, G:0.12, T:0.06
Consensus pattern (17 bp):
CACAAAATGAACCAAGC
Found at i:609908 original size:20 final size:20
Alignment explanation
Indices: 609883--609954 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
609873 TTTAGGAATG
*
609883 TACCGATTCACTATAGTGTA
1 TACCGATACACTATAGTGTA
609903 TACCGATACACTATAGTGTA
1 TACCGATACACTATAGTGTA
609923 TACCGATACACTATAGTGTA
1 TACCGATACACTATAGTGTA
609943 TACCGATACACT
1 TACCGATACACT
609955 TTAGAAGGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (20 bp):
TACCGATACACTATAGTGTA
Found at i:610643 original size:2 final size:2
Alignment explanation
Indices: 610636--610677 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
610626 GTAGCACTTT
610636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
610678 ATAAGATGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:611256 original size:20 final size:20
Alignment explanation
Indices: 611233--611276 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
611223 GGTCCTTCAA
611233 GACATACAGAGGTCATTCGG
1 GACATACAGAGGTCATTCGG
* * *
611253 GACATATATAGGTCTTTCGG
1 GACATACAGAGGTCATTCGG
611273 GACA
1 GACA
611277 ATTTCACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (20 bp):
GACATACAGAGGTCATTCGG
Found at i:612273 original size:2 final size:2
Alignment explanation
Indices: 612268--612292 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
612258 TTATTCTTAT
612268 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
612293 TATCTTCATT
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:612344 original size:2 final size:2
Alignment explanation
Indices: 612337--612382 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
612327 ATTCTATTGT
612337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
612379 TA TA
1 TA TA
612383 CTTTTAATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:612436 original size:16 final size:15
Alignment explanation
Indices: 612399--612472 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
612389 ATTCTTTTTC
*
612399 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
612416 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
612431 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
612447 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
612463 TTATATATTT
1 ATATATATTT
612473 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:612495 original size:15 final size:15
Alignment explanation
Indices: 612475--612506 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
612465 ATATATTTCA
*
612475 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
612490 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
612505 TT
1 TT
612507 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:612523 original size:20 final size:20
Alignment explanation
Indices: 612476--612529 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
612466 TATATTTCAT
*
612476 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
612497 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
612517 TGTTATTGTTATT
1 T-TTATTTTTATT
612530 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:612573 original size:33 final size:29
Alignment explanation
Indices: 612519--612583 Score: 51
Period size: 32 Copynumber: 2.1 Consensus size: 29
612509 TTTTGTATTG
*
612519 TTATTGTTATTATCTTCTTTATTTTATGTATT
1 TTATT-TTATTATATT-TTTATTTT-TGTATT
*
612551 TTATTTATATATATATATTTTATATTTGT-TT
1 TTATTT-TAT-TATAT-TTTTATTTTTGTATT
612582 TT
1 TT
612584 GTACCTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
31 5 0.18
32 11 0.39
33 11 0.39
34 1 0.04
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (29 bp):
TTATTTTATTATATTTTTATTTTTGTATT
Found at i:612601 original size:5 final size:5
Alignment explanation
Indices: 612591--612617 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
612581 TTTGTACCTC
612591 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
612618 ATCTTGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:624248 original size:110 final size:110
Alignment explanation
Indices: 624050--624249 Score: 285
Period size: 110 Copynumber: 1.8 Consensus size: 110
624040 GCTTTCCAGT
** * * *
624050 TTCAGATCCAATTTCAACTTCACAACGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGATCCAATTTCAACTTCACAACGAAAGAGATTGAACACAAGACAACACAAGCTCAACTTCA
* *
624115 CAACGAAGGGACGACTGATTGTCAATGAACAACTTTTCAGTTTCA
66 CAACGAAGGGACAACTGACTGTCAATGAACAACTTTTCAGTTTCA
* *
624160 TTCAGAGT-CAATTTCAACTTCACAGCGAAAGAGATTGAACACGAGACAACACAAGCTCAACTTC
1 TTCAGA-TCCAATTTCAACTTCACAACGAAAGAGATTGAACACAAGACAACACAAGCTCAACTTC
* *
624224 ACAGCGAAGGGGCAACTGACTGTCAA
65 ACAACGAAGGGACAACTGACTGTCAA
624250 CAAACAATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 77 0.99
111 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (110 bp):
TTCAGATCCAATTTCAACTTCACAACGAAAGAGATTGAACACAAGACAACACAAGCTCAACTTCA
CAACGAAGGGACAACTGACTGTCAATGAACAACTTTTCAGTTTCA
Found at i:625735 original size:9 final size:10
Alignment explanation
Indices: 625706--625733 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
625696 TTCATTTGGC
625706 TATTTTTTTA
1 TATTTTTTTA
625716 TATTTTTTTA
1 TATTTTTTTA
625726 TATTTTTT
1 TATTTTTT
625734 ATTTTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:625830 original size:16 final size:15
Alignment explanation
Indices: 625793--625866 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
625783 ATTCTTTTTC
*
625793 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
625810 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
625825 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
625841 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
625857 TTATATATTT
1 ATATATATTT
625867 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:625889 original size:15 final size:15
Alignment explanation
Indices: 625869--625900 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
625859 ATATATTTCA
*
625869 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
625884 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
625899 TT
1 TT
625901 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:625917 original size:20 final size:20
Alignment explanation
Indices: 625870--625923 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
625860 TATATTTCAT
*
625870 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
625891 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
625911 TGTTATTGTTATT
1 T-TTATTTTTATT
625924 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:625952 original size:27 final size:27
Alignment explanation
Indices: 625914--626008 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 27
625904 TTTGTATTGT
*
625914 TATTGTTA-TTATCTTCTTTATTTTATG
1 TATT-TTATTTATCTTCTTTATTTTATA
*
625941 TATTTTATTTATATT-TTT-TTTTATA
1 TATTTTATTTATCTTCTTTATTTTATA
* * * * *
625966 TTTGTTTCTGTA-CCTCTTTATTTTATTT
1 TAT-TTTATTTATCTTCTTTATTTTA-TA
625994 TATTTTATTTATCTT
1 TATTTTATTTATCTT
626009 GCTTACATCT
Statistics
Matches: 50, Mismatches: 12, Indels: 11
0.68 0.16 0.15
Matches are distributed among these distances:
25 9 0.18
26 15 0.30
27 21 0.42
28 5 0.10
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (27 bp):
TATTTTATTTATCTTCTTTATTTTATA
Found at i:646473 original size:3 final size:3
Alignment explanation
Indices: 646465--646489 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
646455 TAATCTGTAA
646465 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
646490 TGACGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:649124 original size:23 final size:22
Alignment explanation
Indices: 649080--649124 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
649070 ATATGATGTG
*
649080 TAATAAATTATAGTAATTAGTA
1 TAATAAATTATAGTAATAAGTA
649102 TAATGAAATTATA-TGAATAAGTA
1 TAAT-AAATTATAGT-AATAAGTA
649125 AAAGAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (22 bp):
TAATAAATTATAGTAATAAGTA
Found at i:649536 original size:22 final size:22
Alignment explanation
Indices: 649508--649593 Score: 145
Period size: 22 Copynumber: 3.9 Consensus size: 22
649498 TGAGGGTATC
649508 ATAGGTCCTTCGGGACATATTT
1 ATAGGTCCTTCGGGACATATTT
* *
649530 ATAGGTCCTTCAGGATATATTT
1 ATAGGTCCTTCGGGACATATTT
*
649552 ATAGGTCCTTCGGGACATATTC
1 ATAGGTCCTTCGGGACATATTT
649574 ATAGGTCCTTCGGGACATAT
1 ATAGGTCCTTCGGGACATAT
649594 ATCACATGCC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (22 bp):
ATAGGTCCTTCGGGACATATTT
Found at i:656488 original size:21 final size:21
Alignment explanation
Indices: 656464--656503 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
656454 GAAGAGAGAA
656464 AATCAAGATA-AAATGAATAAG
1 AATCAAGA-ACAAATGAATAAG
*
656485 AATCAATAACAAATGAATA
1 AATCAAGAACAAATGAATA
656504 TAAAATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.20
Consensus pattern (21 bp):
AATCAAGAACAAATGAATAAG
Found at i:675831 original size:16 final size:18
Alignment explanation
Indices: 675807--675847 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
675797 AATGTGTAAA
*
675807 ATTTTATCA-AAACA-AT
1 ATTTAATCATAAACACAT
*
675823 ATTTAATCATCAACACAT
1 ATTTAATCATAAACACAT
675841 ATTTAAT
1 ATTTAAT
675848 ATTTATTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTAATCATAAACACAT
Found at i:683019 original size:32 final size:31
Alignment explanation
Indices: 682946--683022 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
682936 CTAATATGAC
* * *
682946 TCTTAGGTAGGCTCTGTGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** **
682977 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
683009 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
683023 CATGGCCCCA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:686823 original size:21 final size:21
Alignment explanation
Indices: 686781--686833 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
686771 ATACATGTCT
*
686781 CGAAGGACCACAAAGATGTCC
1 CGAAGGACCACAAAGATATCC
* **
686802 CGAAGGACCACATATTTATCC
1 CGAAGGACCACAAAGATATCC
*
686823 CGAATGACCAC
1 CGAAGGACCAC
686834 TCCTTAAGGA
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:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (21 bp):
CGAAGGACCACAAAGATATCC
Found at i:693570 original size:21 final size:21
Alignment explanation
Indices: 693538--693589 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
693528 TAGAATTTTA
*
693538 TCCCGAAAGACCACATAGATG
1 TCCCGAAGGACCACATAGATG
* *
693559 TCTCGAAGGACCACATATATG
1 TCCCGAAGGACCACATAGATG
693580 TCCCGAAGGA
1 TCCCGAAGGA
693590 TCATTCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (21 bp):
TCCCGAAGGACCACATAGATG
Found at i:704196 original size:36 final size:36
Alignment explanation
Indices: 704100--704200 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 36
704090 GTTTTTAAAA
* *
704100 AAAATATATATATTATATAGTTTCGAAAACATTTCG
1 AAAATATATATATTATATAGTTTTGAAAAAATTTCG
704136 AAAATATATATATTATATAGTTTTGAAAAAATTT-G
1 AAAATATATATATTATATAGTTTTGAAAAAATTTCG
* *
704171 AAAATATATATAATGTATAGTTTTTGAAAA
1 AAAATATATATATTATATAG-TTTTGAAAA
704201 TATATAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.32
36 41 0.68
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.41
Consensus pattern (36 bp):
AAAATATATATATTATATAGTTTTGAAAAAATTTCG
Found at i:704208 original size:24 final size:24
Alignment explanation
Indices: 704167--704223 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 24
704157 TTTGAAAAAA
*
704167 TTTGAAAATATATATAATGTATAGTT
1 TTTG-AAATATATATAATATATAG-T
704193 TTTGAAA-ATATATAATATATAGT
1 TTTGAAATATATATAATATATAGT
704216 TTTGAAAT
1 TTTGAAAT
704224 CATTTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 8 0.28
24 14 0.48
25 3 0.10
26 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.46
Consensus pattern (24 bp):
TTTGAAATATATATAATATATAGT
Found at i:704210 original size:33 final size:34
Alignment explanation
Indices: 704100--704261 Score: 119
Period size: 36 Copynumber: 4.9 Consensus size: 34
704090 GTTTTTAAAA
* * *
704100 AAAATATATATATTATATAGTTTCGAAAACATTTCG
1 AAAATATATATAATATATAGTTTTGAAAA-ATAT-G
* *
704136 AAAATATATATATTATATAGTTTTGAAAAAATTTG
1 AAAATATATATAATATATAGTTTTG-AAAAATATG
*
704171 AAAATATATATAATGTATAG-TTT------T-TG
1 AAAATATATATAATATATAGTTTTGAAAAATATG
* *
704197 -AAA-ATATATAATATATAGTTTTGAAATCATTTTG
1 AAAATATATATAATATATAGTTTTGAAA--AATATG
704231 AAAAAATATATATAATATATAGTTTTGAAAA
1 --AAAATATATATAATATATAGTTTTGAAAA
704262 CATTTTTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 30
0.76 0.03 0.21
Matches are distributed among these distances:
24 14 0.13
25 6 0.06
26 2 0.02
27 1 0.01
33 1 0.01
34 5 0.05
35 19 0.18
36 29 0.27
37 7 0.07
38 23 0.21
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (34 bp):
AAAATATATATAATATATAGTTTTGAAAAATATG
Found at i:704213 original size:35 final size:35
Alignment explanation
Indices: 704100--704213 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 35
704090 GTTTTTAAAA
* * * *
704100 AAAATATATATATTATATAGTTTCGAAAACATTTCG
1 AAAATATATATAATATATAGTTTTGAAAAAATAT-G
* *
704136 AAAATATATATATTATATAGTTTTGAAAAAATTTG
1 AAAATATATATAATATATAGTTTTGAAAAAATATG
* *
704171 AAAATATATATAATGTATAGTTTTTGAAAATATAT-
1 AAAATATATATAATATATAG-TTTTGAAAAAATATG
*
704206 AATATATA
1 AAAATATA
704214 GTTTTGAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
35 26 0.37
36 44 0.63
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (35 bp):
AAAATATATATAATATATAGTTTTGAAAAAATATG
Found at i:704230 original size:34 final size:34
Alignment explanation
Indices: 704192--704378 Score: 131
Period size: 32 Copynumber: 5.4 Consensus size: 34
704182 AATGTATAGT
704192 TTTTGAAAATATATAATATATAGTTTTGAAATCA
1 TTTTGAAAATATATAATATATAGTTTTGAAATCA
*
704226 TTTTGAAAAAATATATATAATATATAGTTTTGAAAACA
1 TTTTG---AAA-ATATATAATATATAGTTTTGAAATCA
* *
704264 TTTTTTG-AAATCT-T-ATATAATA-TTTTTAAATCA
1 --TTTTGAAAATATATAATAT-ATAGTTTTGAAATCA
*
704297 TTTTTGAAAA-CTATAATATATAGTTTTGTAAAT--
1 -TTTTGAAAATATATAATATATAGTTTTG-AAATCA
* * * *
704330 TTTTTAAGA-ATATAATATATAATTTTAAAAAAT-A
1 TTTTGAAAATATATAATATATAGTTTT--GAAATCA
*
704364 TTTTTAAAATATATA
1 TTTTGAAAATATATA
704379 TATTAAATAG
Statistics
Matches: 126, Mismatches: 11, Indels: 31
0.75 0.07 0.18
Matches are distributed among these distances:
32 30 0.24
33 24 0.19
34 25 0.20
35 12 0.10
36 2 0.02
37 3 0.02
38 25 0.20
40 5 0.04
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (34 bp):
TTTTGAAAATATATAATATATAGTTTTGAAATCA
Found at i:704249 original size:36 final size:34
Alignment explanation
Indices: 704191--704355 Score: 137
Period size: 38 Copynumber: 4.8 Consensus size: 34
704181 TAATGTATAG
704191 TTTTTGAAAATATATAATATATAGTTTTGAAATCA
1 TTTTTGAAAA-ATATAATATATAGTTTTGAAATCA
*
704226 -TTTTGAAAAAATATATATAATATATAGTTTTGAAAACA
1 TTTTTG---AAA-A-ATATAATATATAGTTTTGAAATCA
* * *
704264 TTTTTTG--AAATCTTATATAATA-TTTTTAAATCA
1 -TTTTTGAAAAATATAATAT-ATAGTTTTGAAATCA
*
704297 TTTTTGAAAACTATAATATATAGTTTTGTAAAT--
1 TTTTTGAAAAATATAATATATAGTTTTG-AAATCA
* *
704330 TTTTT-AAGAATATAATATATAATTTT
1 TTTTTGAAAAATATAATATATAGTTTT
704356 AAAAAATATT
Statistics
Matches: 107, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
32 24 0.22
33 24 0.22
34 21 0.20
35 5 0.05
37 3 0.03
38 25 0.23
40 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (34 bp):
TTTTTGAAAAATATAATATATAGTTTTGAAATCA
Found at i:704367 original size:67 final size:65
Alignment explanation
Indices: 704240--704381 Score: 150
Period size: 67 Copynumber: 2.2 Consensus size: 65
704230 GAAAAAATAT
** **
704240 ATATAATATATAGTTTTGAAAACATTTTTTGAAATCTTATATAATATTTTTAAATCATTTTTGAA
1 ATATAATATATAGTTTTGAAAACATTTTTTGAAATAATATATAATATTTAAAAATCATTTTT-AA
704305 A
65 A
*
704306 ACTATAATATATAGTTTTG-TAA-ATTTTTTAAGAATATAATATATAAT-TTTAAAAAAT-ATTT
1 A-TATAATATATAGTTTTGAAAACATTTTTT--GAA-ATAATATATAATATTT-AAAAATCATTT
704367 TTAAA
61 TTAAA
704372 ATAT-ATATAT
1 ATATAATATAT
704382 TAAATAGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
64 6 0.09
65 10 0.15
66 7 0.11
67 29 0.44
68 14 0.21
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (65 bp):
ATATAATATATAGTTTTGAAAACATTTTTTGAAATAATATATAATATTTAAAAATCATTTTTAAA
Found at i:707515 original size:2 final size:2
Alignment explanation
Indices: 707510--707568 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
707500 TACATGTGTG
707510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
707552 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
707569 TTACAGATTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:708774 original size:14 final size:13
Alignment explanation
Indices: 708755--708795 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
708745 TTTAGAAAAT
708755 GTATATATTATATA
1 GTATATA-TATATA
708769 GTATATATATTATA
1 GTATATATA-TATA
*
708783 GTATGTATATATA
1 GTATATATATATA
708796 TTTGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
GTATATATATATA
Found at i:708777 original size:16 final size:18
Alignment explanation
Indices: 708756--708797 Score: 70
Period size: 16 Copynumber: 2.4 Consensus size: 18
708746 TTAGAAAATG
708756 TATATATTATA-TA-GTA
1 TATATATTATAGTATGTA
708772 TATATATTATAGTATGTA
1 TATATATTATAGTATGTA
708790 TATATATT
1 TATATATT
708798 TGAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 2 0.08
18 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (18 bp):
TATATATTATAGTATGTA
Found at i:709011 original size:3 final size:3
Alignment explanation
Indices: 709005--709051 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
708995 ATTGTAAAAT
*
709005 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
709052 TTTATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:723050 original size:3 final size:3
Alignment explanation
Indices: 723038--723119 Score: 78
Period size: 3 Copynumber: 27.7 Consensus size: 3
723028 AATGGGGACC
* * *
723038 ATA A-A ATA ATA ATA ATT ATA ATA ATA ATA ATG TTA ATA ATA ATA ACTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * *
723086 ATT ATT ATA ATA ATG ATA ATA ACA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
723120 TTTAAGTCTC
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
2 4 0.06
3 57 0.89
4 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:723940 original size:57 final size:57
Alignment explanation
Indices: 723845--724023 Score: 313
Period size: 57 Copynumber: 3.1 Consensus size: 57
723835 ACACAGGTTC
* *
723845 CAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACTATTGCAACGCGATTTT
1 CAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTT
*
723902 CAAATTCGCAACGCTAATTACCGATATAGGTAAGCAGTACTATCGCAACGCGATTTT
1 CAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTT
*
723959 CAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGTAACGCGATTTT
1 CAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTT
*
724016 CATATTCG
1 CAAATTCG
724024 TAACAAGATT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 116 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (57 bp):
CAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTT
Found at i:724026 original size:20 final size:20
Alignment explanation
Indices: 724001--724049 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
723991 AACAGTACTA
*
724001 TCGTAACGCGATTTTCATAT
1 TCGTAACGCGATTTTCAAAT
**
724021 TCGTAACAAGATTTTCAAAT
1 TCGTAACGCGATTTTCAAAT
*
724041 TCGCAACGC
1 TCGTAACGC
724050 TAATTACTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (20 bp):
TCGTAACGCGATTTTCAAAT
Found at i:724075 original size:134 final size:134
Alignment explanation
Indices: 723896--724156 Score: 450
Period size: 134 Copynumber: 1.9 Consensus size: 134
723886 ATTGCAACGC
* * *
723896 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAGCAGTACTATCGCAACGCGATTTTCA
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCA
* * * *
723961 AATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGTAACGCGATTTTCATATTCGTA
66 AATTCGCAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTCGTA
724026 ACAA
131 ACAA
*
724030 GATTTTCAAATTCGCAACGCTAATTACTGATATAGGTAAACAGTACTATCACAACACGATTTTCA
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCA
724095 AATTCGCAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTC
66 AATTCGCAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTC
724157 ACAACGCTAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 119 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (134 bp):
GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCA
AATTCGCAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTCGTA
ACAA
Found at i:724090 original size:77 final size:77
Alignment explanation
Indices: 723953--724100 Score: 251
Period size: 77 Copynumber: 1.9 Consensus size: 77
723943 ATCGCAACGC
** *
723953 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGTAACGCGATTTTCA
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCA
*
724018 TATTCGTAACAA
66 AATTCGTAACAA
*
724030 GATTTTCAAATTCGCAACGCTAATTACTGATATAGGTAAACAGTACTATCACAACACGATTTTCA
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCA
724095 AATTCG
66 AATTCG
724101 CAAAGCTAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (77 bp):
GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCA
AATTCGTAACAA
Found at i:724174 original size:191 final size:191
Alignment explanation
Indices: 723845--724194 Score: 601
Period size: 191 Copynumber: 1.8 Consensus size: 191
723835 ACACAGGTTC
** *
723845 CAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACTATTGCAACGCGATTTTCAAATTCG
1 CAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCAAATTCG
* * * *
723910 CAACGCTAATTACCGATATAGGTAAGCAGTACTATCGCAACGCGATTTTCAAATTCGCAACGCTA
66 CAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTCACAACGCTA
**
723975 ATTACCGATATAGGTAAACAGTACTATCGTAACGCGATTTTCATATTCGTAACAAGATTTT
131 ATTACCGATATAGGTAAACACAACTATCGTAACGCGATTTTCATATTCGTAACAAGATTTT
* *
724036 CAAATTCGCAACGCTAATTACTGATATAGGTAAACAGTACTATCACAACACGATTTTCAAATTCG
1 CAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCAAATTCG
724101 CAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTCACAACGCTA
66 CAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTCACAACGCTA
724166 ATTACCGATATAGGTAAACACAACTATCG
131 ATTACCGATATAGGTAAACACAACTATCG
724195 CAAGGCGAAT
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
191 148 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (191 bp):
CAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCACAACACGATTTTCAAATTCG
CAAAGCTAATTACCGATATAGGTAAACAGTACTATCGCAACACGATTTTCAAATTCACAACGCTA
ATTACCGATATAGGTAAACACAACTATCGTAACGCGATTTTCATATTCGTAACAAGATTTT
Found at i:724192 original size:57 final size:57
Alignment explanation
Indices: 724025--724197 Score: 283
Period size: 57 Copynumber: 3.0 Consensus size: 57
724015 TCATATTCGT
* * *
724025 AACAAGATTTTCAAATTCGCAACGCTAATTACTGATATAGGTAAACAGTACTATCAC
1 AACACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGC
*
724082 AACACGATTTTCAAATTCGCAAAGCTAATTACCGATATAGGTAAACAGTACTATCGC
1 AACACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGC
* **
724139 AACACGATTTTCAAATTCACAACGCTAATTACCGATATAGGTAAACACAACTATCGC
1 AACACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGC
724196 AA
1 AA
724198 GGCGAATTTC
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 108 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (57 bp):
AACACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGC
Found at i:724227 original size:22 final size:22
Alignment explanation
Indices: 724202--724251 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
724192 TCGCAAGGCG
*
724202 AATTTCGCAAATCGAATTTGCC
1 AATTTCGCAAATCGAATTCGCC
724224 AATTTCGCAAATCGAATTCGCC
1 AATTTCGCAAATCGAATTCGCC
724246 AATTTC
1 AATTTC
724252 ACAACTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (22 bp):
AATTTCGCAAATCGAATTCGCC
Done.