Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 214 of 444
Found at i:59810651 original size:48 final size:48
Alignment explanation
Indices: 59810577--59810685 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
59810567 ACCAAACGTT
* **
59810577 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
59810625 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
59810673 GCACACATAGTGC
1 GCACACATAGTGC
59810686 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:59813369 original size:28 final size:29
Alignment explanation
Indices: 59813315--59813370 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
59813305 ACAGGAGTTT
59813315 TCACACGGCCGAGCACACGCCCGTGTCCC
1 TCACACGGCCGAGCACACGCCCGTGTCCC
** *
59813344 TCACACGGCTTAG-ACATGCCCGTGTCC
1 TCACACGGCCGAGCACACGCCCGTGTCC
59813371 AAAAACCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.18, C:0.43, G:0.23, T:0.16
Consensus pattern (29 bp):
TCACACGGCCGAGCACACGCCCGTGTCCC
Found at i:59814745 original size:51 final size:46
Alignment explanation
Indices: 59814669--59814800 Score: 153
Period size: 43 Copynumber: 2.8 Consensus size: 46
59814659 CATGTAGCAT
* *
59814669 ATCCATAATGAACTCGGATCTCTCAACAAGCTCGGATGTTAAGTGAATCGC
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATG---A-TG-ATCGC
* * *
59814720 ATCCATTATGAACTCAGACCTCTCAACGAGCTC-G--GATGCTCGC
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGATGATCGC
59814763 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATG
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATG
59814801 CCACATATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 35 0.49
44 3 0.04
45 1 0.01
46 1 0.01
48 1 0.01
50 1 0.01
51 29 0.41
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGATGATCGC
Found at i:59814777 original size:43 final size:43
Alignment explanation
Indices: 59814716--59814801 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
59814706 GTTAAGTGAA
* *
59814716 TCGCATCCATTATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
59814759 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
59814802 CACATATCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
Found at i:59816049 original size:12 final size:12
Alignment explanation
Indices: 59816029--59816064 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
59816019 CACTATAATG
*
59816029 TTTTCCTTTTTT
1 TTTTTCTTTTTT
59816041 TTTTTC-TTTTT
1 TTTTTCTTTTTT
59816052 TTTTTCTTTTTT
1 TTTTTCTTTTTT
59816064 T
1 T
59816065 GCCAAGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:59816050 original size:11 final size:11
Alignment explanation
Indices: 59816036--59816064 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
59816026 ATGTTTTCCT
59816036 TTTTTTTTTTC
1 TTTTTTTTTTC
59816047 TTTTTTTTTTC
1 TTTTTTTTTTC
59816058 TTTTTTT
1 TTTTTTT
59816065 GCCAAGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:59817028 original size:5 final size:5
Alignment explanation
Indices: 59817018--59817049 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
59817008 TAAATTTAAA
59817018 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT A
59817050 CTTTAGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:59817033 original size:11 final size:11
Alignment explanation
Indices: 59817017--59817049 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
59817007 ATAAATTTAA
59817017 AAAAATAAAAT
1 AAAAATAAAAT
59817028 AAAAATAAAAT
1 AAAAATAAAAT
59817039 -AAAATAAAAT
1 AAAAATAAAAT
59817049 A
1 A
59817050 CTTTAGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:59817226 original size:19 final size:20
Alignment explanation
Indices: 59817169--59817249 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
59817159 ATTATAATTT
*
59817169 TTTTTAAAATATAAATTTTGAAA
1 TTTTTAAAA-AT-TATTTTG-AA
* *
59817192 GTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
59817211 -TTTTAAAAGTTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
59817230 TTTTTAAAAATTGTTTTGAA
1 TTTTTAAAAATTATTTTGAA
59817250 CATTTTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.14
19 11 0.22
20 23 0.47
22 1 0.02
23 7 0.14
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:59819043 original size:37 final size:37
Alignment explanation
Indices: 59818989--59819061 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
59818979 AAGGATGACA
* * *
59818989 ATGAAGTAAGGCGAGGATGATTGTTACTAAATCTACT
1 ATGAAGCAAGGCAAGGATGATCGTTACTAAATCTACT
59819026 ATGAAGCAAGGCAAGGATGATCGTTACTAAATCTAC
1 ATGAAGCAAGGCAAGGATGATCGTTACTAAATCTAC
59819062 CATTACTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (37 bp):
ATGAAGCAAGGCAAGGATGATCGTTACTAAATCTACT
Found at i:59821701 original size:22 final size:22
Alignment explanation
Indices: 59821673--59821716 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
59821663 CATAAAAATT
59821673 TAAAATTTATTCATACATGTAA
1 TAAAATTTATTCATACATGTAA
*
59821695 TAAAATTTATTCATGCATGTAA
1 TAAAATTTATTCATACATGTAA
59821717 CACATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (22 bp):
TAAAATTTATTCATACATGTAA
Found at i:59825795 original size:12 final size:11
Alignment explanation
Indices: 59825767--59825796 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
59825757 CATGATTGAA
59825767 AATTTTTCACT
1 AATTTTTCACT
59825778 AATTTTTCACT
1 AATTTTTCACT
59825789 AATTTTTC
1 AATTTTTC
59825797 TCTTATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTTCACT
Found at i:59830787 original size:30 final size:29
Alignment explanation
Indices: 59830693--59830794 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
59830683 TATAGTGAAT
* * *
59830693 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
59830722 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
59830750 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
59830780 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59830795 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:59840525 original size:28 final size:28
Alignment explanation
Indices: 59840493--59840592 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
59840483 ATAGTGAATC
*** *
59840493 CGCACACTTAGTGCTAATATTTTC-AGCT
1 CGCACACTTAGTGCT-ATAGAATCAAACT
59840521 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATAGAATCAAACT
* * * *
59840549 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATAGAA--TCAAACT
59840579 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59840593 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.08
28 37 0.61
30 19 0.31
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGAATCAAACT
Found at i:59848475 original size:30 final size:29
Alignment explanation
Indices: 59848381--59848482 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
59848371 TATAGTGAAT
* * *
59848381 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
59848410 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
59848438 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
59848468 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59848483 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:59850731 original size:2 final size:2
Alignment explanation
Indices: 59850724--59850748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59850714 GAGACTAGTC
59850724 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 A
59850749 CACATGTCAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59851699 original size:35 final size:35
Alignment explanation
Indices: 59851659--59851729 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
59851649 CTTGTTTATA
59851659 ACCTTACCACATCCTGGTCACTTAATGAACACATC
1 ACCTTACCACATCCTGGTCACTTAATGAACACATC
59851694 ACCTTACCACATCCTGGTCACTTAATGAACACATC
1 ACCTTACCACATCCTGGTCACTTAATGAACACATC
59851729 A
1 A
59851730 TTCACATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.25
Consensus pattern (35 bp):
ACCTTACCACATCCTGGTCACTTAATGAACACATC
Found at i:59859162 original size:20 final size:18
Alignment explanation
Indices: 59859124--59859162 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
59859114 TTCAATTCTA
59859124 ATTTGACCCAAAATATTT
1 ATTTGACCCAAAATATTT
*
59859142 ATTTTACCCGAAAATTATTT
1 ATTTGACCC-AAAA-TATTT
59859162 A
1 A
59859163 AAACTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTTGACCCAAAATATTT
Found at i:59860539 original size:31 final size:31
Alignment explanation
Indices: 59860504--59860571 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
59860494 AAATTTTGTT
*
59860504 ATTTTAGTCACTCTCGTTTA-ATAAGTTGTCA
1 ATTTTAGTCACTCCCG-TTAGATAAGTTGTCA
*
59860535 ATTTTAGTTACTCCCGTTAGATAAGTTGTCA
1 ATTTTAGTCACTCCCGTTAGATAAGTTGTCA
59860566 ATTTTA
1 ATTTTA
59860572 ATCGCTCTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTTTAGTCACTCCCGTTAGATAAGTTGTCA
Found at i:59861115 original size:16 final size:16
Alignment explanation
Indices: 59861090--59861124 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59861080 TAAACAATAT
*
59861090 ATTATTAATTTTTAAA
1 ATTATGAATTTTTAAA
59861106 ATTATGAATTTTTAAA
1 ATTATGAATTTTTAAA
59861122 ATT
1 ATT
59861125 TAAACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATGAATTTTTAAA
Found at i:59861419 original size:25 final size:25
Alignment explanation
Indices: 59861387--59861438 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
59861377 GAATAAACTC
59861387 AAATGATTAAATAAATAAATAGATT
1 AAATGATTAAATAAATAAATAGATT
59861412 AAATGATTAAATAAATAAATAGATT
1 AAATGATTAAATAAATAAATAGATT
59861437 AA
1 AA
59861439 TCTAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (25 bp):
AAATGATTAAATAAATAAATAGATT
Found at i:59861422 original size:17 final size:17
Alignment explanation
Indices: 59861387--59861438 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
59861377 GAATAAACTC
*
59861387 AAATGATTAAATA-AAT
1 AAATGATTAAATAGATT
59861403 AAATAGATTAAAT-GATT
1 AAAT-GATTAAATAGATT
* *
59861420 AAATAAATAAATAGATT
1 AAATGATTAAATAGATT
59861437 AA
1 AA
59861439 TCTAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AAATGATTAAATAGATT
Found at i:59864208 original size:40 final size:40
Alignment explanation
Indices: 59864149--59864369 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
59864139 TATTCGGATG
* *
59864149 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59864189 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59864229 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
59864269 ATATCCGGGCTAAATCCCGAAGGCATTTATACTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59864309 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
59864349 ATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59864370 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 149 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:59867144 original size:18 final size:18
Alignment explanation
Indices: 59867121--59867160 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
59867111 CTGAGGCTCG
59867121 TGCTCCTGCCAGAGCTTA
1 TGCTCCTGCCAGAGCTTA
59867139 TGCTCCTGCCAGAGCTTA
1 TGCTCCTGCCAGAGCTTA
59867157 TGCT
1 TGCT
59867161 ATACGTGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.30
Consensus pattern (18 bp):
TGCTCCTGCCAGAGCTTA
Found at i:59872496 original size:40 final size:40
Alignment explanation
Indices: 59872436--59872656 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
59872426 TATTCGGATG
* * *
59872436 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59872476 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59872516 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59872556 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59872596 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
59872636 ATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59872657 ATACTTGGGC
Statistics
Matches: 166, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:59877817 original size:22 final size:22
Alignment explanation
Indices: 59877792--59877867 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
59877782 AAAGCATTGT
59877792 AGTGCTAAACAGAGAGCACAAG
1 AGTGCTAAACAGAGAGCACAAG
** *
59877814 AGTGCTAAGTAGAGAGCAC-CG
1 AGTGCTAAACAGAGAGCACAAG
* * *
59877835 AAGTGCTGAACAGAGAGGACAAA
1 -AGTGCTAAACAGAGAGCACAAG
*
59877858 AGTGTTAAAC
1 AGTGCTAAAC
59877868 CTGTACAAGC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (22 bp):
AGTGCTAAACAGAGAGCACAAG
Found at i:59878535 original size:22 final size:23
Alignment explanation
Indices: 59878508--59878550 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
59878498 CCTATGTTCA
59878508 AAATTAA-CAACTTTCACTTTAC
1 AAATTAATCAACTTTCACTTTAC
**
59878530 AAATTAATCATTTTTCACTTT
1 AAATTAATCAACTTTCACTTT
59878551 TAGGCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATTAATCAACTTTCACTTTAC
Found at i:59879425 original size:21 final size:22
Alignment explanation
Indices: 59879388--59879428 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59879378 ACATGCTTTC
59879388 AATTTTCAAAAATTAAAAAAAT
1 AATTTTCAAAAATTAAAAAAAT
*
59879410 AATTTTTAAAAA-TAAAAAA
1 AATTTTCAAAAATTAAAAAA
59879429 TAGCATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTTCAAAAATTAAAAAAAT
Found at i:59879887 original size:36 final size:36
Alignment explanation
Indices: 59879847--59879932 Score: 145
Period size: 36 Copynumber: 2.4 Consensus size: 36
59879837 GTCTTTGTAC
* *
59879847 TTTTAAAAATTTAAAATTTAATTCTTATACTATTAT
1 TTTTAAGAATTTAAAATTTAATTCTTATACCATTAT
*
59879883 TTTTAAGAATTTAAAATTTAGTTCTTATACCATTAT
1 TTTTAAGAATTTAAAATTTAATTCTTATACCATTAT
59879919 TTTTAAGAATTTAA
1 TTTTAAGAATTTAA
59879933 TTTTCTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (36 bp):
TTTTAAGAATTTAAAATTTAATTCTTATACCATTAT
Found at i:59879974 original size:22 final size:22
Alignment explanation
Indices: 59879916--59879968 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
59879906 CTTATACCAT
**
59879916 TATTTTTAAGAATTTAATTTTC
1 TATTTTTTTGAATTTAATTTTC
59879938 TATTTTTTTGAATTTAATTTTC
1 TATTTTTTTGAATTTAATTTTC
59879960 TATTTTTTT
1 TATTTTTTT
59879969 ATATTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (22 bp):
TATTTTTTTGAATTTAATTTTC
Found at i:59881931 original size:20 final size:20
Alignment explanation
Indices: 59881908--59881948 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59881898 ATAGAATTTT
*
59881908 TTAAAAATATCATAAAATTA
1 TTAAAAATATAATAAAATTA
* *
59881928 TTAAAATTTTAATAAAATTA
1 TTAAAAATATAATAAAATTA
59881948 T
1 T
59881949 AAGGTTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAATATAATAAAATTA
Found at i:59881968 original size:2 final size:2
Alignment explanation
Indices: 59881956--59882005 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
59881946 TATAAGGTTT
*
59881956 TA TA AA 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
59881998 TA TA TA TA
1 TA TA TA TA
59882006 GAAATAGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:59882042 original size:10 final size:10
Alignment explanation
Indices: 59882027--59882055 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
59882017 CTAAACCAAC
59882027 AATTTTTTAA
1 AATTTTTTAA
59882037 AA-TTTTTAA
1 AATTTTTTAA
59882046 AATTTTTTAA
1 AATTTTTTAA
59882056 TTGTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:59882325 original size:134 final size:134
Alignment explanation
Indices: 59882184--59882585 Score: 751
Period size: 134 Copynumber: 3.0 Consensus size: 134
59882174 TTTATTTTTT
59882184 AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTAAACTTTCATTGATACGTAGCAG
1 AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTAAACTTTCATTGATACGTAGCAG
59882249 TGTGTCATTGGAGGTTTTAATTTTAATTTTTAATGAAAATATATAGATGGGTAACGGGTATACAA
66 TGTGTCATTGGAGGTTTTAATTTTAATTTTTAATGAAAATATATAGATGGGTAACGGGTATACAA
59882314 AATG
131 AATG
59882318 AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTAAACTTTCATTGATACGTAGCAG
1 AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTAAACTTTCATTGATACGTAGCAG
59882383 TGTGTCATTGGAGGTTTTAATTTTAATTTTTAATGAAAATATATAGATGGGTAACGGGTATACAA
66 TGTGTCATTGGAGGTTTTAATTTTAATTTTTAATGAAAATATATAGATGGGTAACGGGTATACAA
59882448 AATG
131 AATG
*
59882452 AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTTAACTTTCATTGATACGTAGCAG
1 AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTAAACTTTCATTGATACGTAGCAG
59882517 TGTGTCATTGGAGGTTTTAATTTTAATTTTTAAT-----TCATATAGATGGGTAACGGGTATACA
66 TGTGTCATTGGAGGTTTTAATTTTAATTTTTAATGAAAAT-ATATAGATGGGTAACGGGTATACA
59882577 AAATG
130 AAATG
59882582 AAAA
1 AAAA
59882586 TATAATCATC
Statistics
Matches: 266, Mismatches: 1, Indels: 6
0.97 0.00 0.02
Matches are distributed among these distances:
129 1 0.00
130 33 0.12
134 232 0.87
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.44
Consensus pattern (134 bp):
AAAAATATTTTCTGATATTTTTTAATATTTAAGATTTTTTTTAAACTTTCATTGATACGTAGCAG
TGTGTCATTGGAGGTTTTAATTTTAATTTTTAATGAAAATATATAGATGGGTAACGGGTATACAA
AATG
Found at i:59883121 original size:21 final size:19
Alignment explanation
Indices: 59883082--59883123 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
59883072 AAGAATAAGG
*
59883082 TTATAAAAAATTTTAAAAA
1 TTATAAAAAAATTTAAAAA
59883101 TTATAAAAATAATTTATAAAA
1 TTATAAAAA-AATTTA-AAAA
59883122 TT
1 TT
59883124 TTAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTATAAAAAAATTTAAAAA
Found at i:59888988 original size:28 final size:28
Alignment explanation
Indices: 59888923--59889023 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59888913 ATAGTGAATC
*
59888923 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
59888952 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59888980 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
59889010 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59889024 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59900827 original size:74 final size:71
Alignment explanation
Indices: 59900749--59900906 Score: 176
Period size: 74 Copynumber: 2.2 Consensus size: 71
59900739 TAATTTAGAA
* * *
59900749 TTAGAATTTAAAATTTTAGGATTTAATATGTTTAATTAGATTTTAATTTAG-GTTAGATTCATTT
1 TTAGAATTTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTAGAGTTAGA--C--TT
*
59900813 TTTTTTAGTC
62 ATTTTTAGTC
** * *
59900823 TTAGAATATT-AAATTTTAAGATTTCTTAAGTTTCATTAGATTTTAACTTGGAGTTAGACTTATT
1 TTAGAAT-TTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTAGAGTTAGACTTATT
59900887 TTTAGTC
65 TTTAGTC
*
59900894 ATAGAATTTAAAA
1 TTAGAATTTAAAA
59900907 CTTAGACTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
70 2 0.03
71 20 0.28
73 1 0.01
74 41 0.57
75 8 0.11
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (71 bp):
TTAGAATTTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTAGAGTTAGACTTATTT
TTAGTC
Found at i:59901179 original size:30 final size:30
Alignment explanation
Indices: 59901145--59901241 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
59901135 AGCTCACTCC
59901145 TAGCTCATA-TTCAGCTCACGAGCTAAAGCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAAGCT
* * * * *
59901175 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
* *
59901205 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
59901235 TAGCTCA
1 TAGCTCA
59901242 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAAGCT
Found at i:59901743 original size:13 final size:13
Alignment explanation
Indices: 59901725--59901749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59901715 GTATTGATCA
59901725 TGTGTTCACACCT
1 TGTGTTCACACCT
59901738 TGTGTTCACACC
1 TGTGTTCACACC
59901750 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:59907673 original size:37 final size:37
Alignment explanation
Indices: 59907587--59907767 Score: 283
Period size: 37 Copynumber: 4.9 Consensus size: 37
59907577 GCTCAGACGA
* * *
59907587 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACA-
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
59907623 AATCTCCACACGTAGTCATCGGGTCTTACCTGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
59907660 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
59907697 AATCTCCACACGGAGTCATCGAGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
59907734 AATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59907768 ATATATTTCC
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 32 0.24
37 100 0.76
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:59907981 original size:46 final size:46
Alignment explanation
Indices: 59907913--59908003 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
59907903 TATATATACA
* * * *
59907913 CATCTCATACATATCTCACATTAGCCGTTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
59907959 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATAT
59908004 ATTCATGTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:59908041 original size:47 final size:47
Alignment explanation
Indices: 59907977--59908461 Score: 655
Period size: 47 Copynumber: 10.1 Consensus size: 47
59907967 ACACGTTTCG
* * * **
59907977 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
59908024 CATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
59908071 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
59908118 CGTTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
59908165 CATTGGTCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATACGCATGTTCACATTCATCA
***
59908216 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
***
59908267 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
59908318 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
59908365 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
59908412 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
59908459 CAT
1 CAT
59908462 AAAATCCTAA
Statistics
Matches: 404, Mismatches: 26, Indels: 16
0.91 0.06 0.04
Matches are distributed among these distances:
47 266 0.66
49 2 0.00
51 136 0.34
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:59914393 original size:30 final size:30
Alignment explanation
Indices: 59914357--59914413 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
59914347 CTCAGTCGTG
* * *
59914357 TGAGCCATATGGCCTAGCGACACAGCTGTA
1 TGAGCCACATGACCTAGCAACACAGCTGTA
59914387 TGAGCCACATGACCTAGCAACACAGCT
1 TGAGCCACATGACCTAGCAACACAGCT
59914414 ATGTGTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.18
Consensus pattern (30 bp):
TGAGCCACATGACCTAGCAACACAGCTGTA
Found at i:59916213 original size:105 final size:105
Alignment explanation
Indices: 59916026--59916218 Score: 235
Period size: 105 Copynumber: 1.8 Consensus size: 105
59916016 TGTCAGCTCG
* * * *
59916026 TGTGAAAACTTTACCTATACTATTTTGAAACACATTCAGGGTACACGCCCGTGTGGGTTGCCTGT
1 TGTGAAAACTTTACCTATACTATTTTGAAACACACTCAGGGCACACGCCCATGTGGGTTGCCAGT
* ***
59916091 GCGTATCACATGGCCGTGTGACAATCTATGTCTTAGGCCA
66 GCGCATCACACAACCGTGTGACAATCTATGTCTTAGGCCA
* * * * * *
59916131 TGTGAAAA-TTGTATCTATACTGTTTTGAAACACGCTCAGTGCACACGTCCATGTGTGTTGCCAG
1 TGTGAAAACTT-TACCTATACTATTTTGAAACACACTCAGGGCACACGCCCATGTGGGTTGCCAG
*
59916195 TGTGCATCACACAACCGTGTGACA
65 TGCGCATCACACAACCGTGTGACA
59916219 GCCCGTGTCC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
104 2 0.03
105 70 0.97
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (105 bp):
TGTGAAAACTTTACCTATACTATTTTGAAACACACTCAGGGCACACGCCCATGTGGGTTGCCAGT
GCGCATCACACAACCGTGTGACAATCTATGTCTTAGGCCA
Found at i:59917001 original size:39 final size:40
Alignment explanation
Indices: 59916939--59917048 Score: 172
Period size: 39 Copynumber: 2.8 Consensus size: 40
59916929 TTTGAGAAAC
*
59916939 TTTCAGTAGAA-CAAGTAGATATGGCTCGATAGAGCATA-T
1 TTTCAGTAGAATCAA-TAGGTATGGCTCGATAGAGCATACT
59916978 TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
*
59917018 TTT-AGTAGAATCAGTAGGTATGGCTCGATAG
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAG
59917049 TAGGTATCGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 60 0.90
40 7 0.10
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (40 bp):
TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
Found at i:59922897 original size:91 final size:91
Alignment explanation
Indices: 59922746--59922919 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 91
59922736 ACATTCATAT
* * * *
59922746 ATTATTTGGCAACTTTTATTTGCAAAAATGTTGTGTATTCACAATCATCTGGCAGCGTATTAACT
1 ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATCATCTAGCAGCGTATTAACC
59922811 TGCAACCTTTGGTGGTTTGCCCACCC
66 TGCAACCTTTGGTGGTTTGCCCACCC
** * *
59922837 ATTATTTGGCAACTTTGATATGCAATTATGTTGTGTATTCACAA-CTGTCTAGCAGTGTATTAAC
1 ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATC-ATCTAGCAGCGTATTAAC
* *
59922901 CTGCATCTTTTGGTGGTTT
65 CTGCAACCTTTGGTGGTTT
59922920 ATCCACAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 1 0.01
91 71 0.99
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (91 bp):
ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATCATCTAGCAGCGTATTAACC
TGCAACCTTTGGTGGTTTGCCCACCC
Found at i:59924718 original size:12 final size:12
Alignment explanation
Indices: 59924701--59924725 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59924691 GCTCAAAGGG
59924701 CAAATAGGGTTC
1 CAAATAGGGTTC
59924713 CAAATAGGGTTC
1 CAAATAGGGTTC
59924725 C
1 C
59924726 TAACCTGACA
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:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (12 bp):
CAAATAGGGTTC
Found at i:59929630 original size:34 final size:34
Alignment explanation
Indices: 59929589--59929738 Score: 239
Period size: 34 Copynumber: 4.4 Consensus size: 34
59929579 TATTATACTT
* *
59929589 GGTGTGCTGGATGGACTGGCTCATACGAGCATAC
1 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
59929623 GAG-GTGCTGGATGGATTGGCTCATACGAGCTTAC
1 G-GTGTGCTGGATGGATTGGCTCATACGAGCTTAC
59929657 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
1 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
* * *
59929691 TGTGTGCTGGATGGATTGGCTCATATGAGTTTAC
1 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
59929725 GGTGTGCTGGATGG
1 GGTGTGCTGGATGG
59929739 CTAATGGCAT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
33 1 0.01
34 106 0.98
35 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.37, T:0.29
Consensus pattern (34 bp):
GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
Found at i:59931120 original size:46 final size:45
Alignment explanation
Indices: 59931067--59931325 Score: 166
Period size: 48 Copynumber: 5.5 Consensus size: 45
59931057 TATGTGTGCT
*
59931067 AGTGTAAGATATGTCTGGGACATGCATCAGCCACATATTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATATTGAGAGCC
* * * * *
59931113 AGTGTAAGACATGTTTGGGACAAGCATTGGCCTCGATATAT-ACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGCCAC-ATAT-TGA-GAGCC
* * * * *
59931161 AGTGTAAGACATGTCTAGGACATGCATCGACATTCAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA--CATATTGAGAGCC
* ** *
59931207 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCC---ACATATTGAGAGCC
* * *
59931255 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGA-TGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGCCA-C-AT--ATTGAGAGCC
* *
59931304 AGTGTAAGACCTATCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
59931326 CAGCATCGGC
Statistics
Matches: 166, Mismatches: 29, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
45 1 0.01
46 57 0.34
47 14 0.08
48 61 0.37
49 32 0.19
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACATATTGAGAGCC
Found at i:59931228 original size:94 final size:93
Alignment explanation
Indices: 59931067--59931384 Score: 343
Period size: 94 Copynumber: 3.3 Consensus size: 93
59931057 TATGTGTGCT
* * * *
59931067 AGTGTAAGATATGTCTGGGACAT-GCATCAGCCACATATTGAGAGCCAGTGTAAGACATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGGCATC-GACACAGA-TGAGAGCCAGTGTAAGACATGTCTGG
* * *
59931131 GACAAGCATTGGCCTCGATATATACCAGCC
64 GACAAGCATCGGCCTTGATATATACAAGCC
* * *
59931161 AGTGTAAGACATGTCTAGGACAT-GCATCGACATTCAGACGAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGGCATCGACA--CAGATGAGAGCCAGTGTAAGACATGTCTGG
* * *
59931225 GACATGCATCGGCCTTGAGATATACAAGCT
64 GACAAGCATCGGCCTTGATATATACAAGCC
* * * *
59931255 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGATGAAAGCCAGTGTAAGACCTATCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACA-C-A--GATGAGAGCCAGTGTAAGACATGTCT
* ** *
59931320 GGGACACAGCATCGGCTTTGATATATGGAAGTC
62 GGGACA-AGCATCGGCCTTGATATATACAAGCC
*
59931353 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC
59931385 TTTGATGTGT
Statistics
Matches: 189, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
93 3 0.02
94 95 0.50
95 13 0.07
97 27 0.14
98 51 0.27
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACACAGATGAGAGCCAGTGTAAGACATGTCTGGGA
CAAGCATCGGCCTTGATATATACAAGCC
Found at i:59931388 original size:49 final size:48
Alignment explanation
Indices: 59931160--59931390 Score: 193
Period size: 49 Copynumber: 4.8 Consensus size: 48
59931150 ATATACCAGC
* * * * * * *
59931160 CAGTGTAAGACATGTCTAGGACAT-GCATCGACATT--CAGACGAGAG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATATATGAAAG
* * * *
59931205 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAG
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATATATGA-AAG
*** **
59931253 CTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGATGAAAG
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATATATGAAAG
* ** * *
59931302 CCAGTGTAAGACCTATCTGGGACACAGCATCGGCTTTGATATATGGAAG
1 -CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATATATGAAAG
59931351 TCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT
1 -CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT
59931391 GTGTTAGCCA
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
45 1 0.01
46 31 0.21
47 1 0.01
48 28 0.19
49 86 0.58
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATATATGAAAG
Found at i:59934268 original size:42 final size:42
Alignment explanation
Indices: 59934221--59934355 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 42
59934211 TCGGCAATAA
59934221 GCCTGCTAGACCTTTAAGTCTGATATCATTTACCGGTATTAC
1 GCCTGCTAGACCTTTAAGTCTGATATCATTTACCGGTATTAC
* ** * * * * * *
59934263 GCCTGCTAG-GCTCGAAGCCCGATAAT-ATTCACCAGCT-TAAA
1 GCCTGCTAGACCTTTAAGTCTGAT-ATCATTTACC-GGTATTAC
* * *
59934304 GCTTGCTAGACCTTTAAGTCTGATATCATTTCACTGGCATTAC
1 GCCTGCTAGACCTTTAAGTCTGATATCATTT-ACCGGTATTAC
59934347 GCCTGCTAG
1 GCCTGCTAG
59934356 GCTCAAAGCC
Statistics
Matches: 65, Mismatches: 22, Indels: 11
0.66 0.22 0.11
Matches are distributed among these distances:
41 27 0.42
42 26 0.40
43 12 0.18
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (42 bp):
GCCTGCTAGACCTTTAAGTCTGATATCATTTACCGGTATTAC
Found at i:59934395 original size:84 final size:83
Alignment explanation
Indices: 59934219--59934396 Score: 252
Period size: 84 Copynumber: 2.1 Consensus size: 83
59934209 CATCGGCAAT
* *
59934219 AAGCCTGCTAGACCTTTAAGTCTGATATCATTTACCGGTATTACGCCTGCTAGGCTCGAAGCCCG
1 AAGCCTGCTAGACCTTTAAGTCTGATATCATTTACCGGCATTACGCCTGCTAGGCTCAAAGCCCG
**
59934284 ATAATATTCACCAGCTTA
66 ATAATATTCACCAGCACA
* *
59934302 AAGCTTGCTAGACCTTTAAGTCTGATATCATTTCACTGGCATTACGCCTGCTAGGCTCAAAGCCC
1 AAGCCTGCTAGACCTTTAAGTCTGATATCATTT-ACCGGCATTACGCCTGCTAGGCTCAAAGCCC
59934367 GA-AAT-TCATCACCAGCACA
65 GATAATAT--TCACCAGCACA
*
59934386 AGGCCTGCTAG
1 AAGCCTGCTAG
59934397 GTTTGAACCC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
82 1 0.01
83 35 0.42
84 48 0.57
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (83 bp):
AAGCCTGCTAGACCTTTAAGTCTGATATCATTTACCGGCATTACGCCTGCTAGGCTCAAAGCCCG
ATAATATTCACCAGCACA
Found at i:59936274 original size:14 final size:15
Alignment explanation
Indices: 59936245--59936274 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59936235 CAAAGTTAAG
59936245 ACATGATACTTTCAC
1 ACATGATACTTTCAC
59936260 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
59936274 A
1 A
59936275 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:59939717 original size:40 final size:40
Alignment explanation
Indices: 59939680--59939865 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
59939670 GCTACTCGTT
* *
59939680 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59939720 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59939760 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
59939800 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
59939841 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59939866 CATCATTCGA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.89
41 11 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59942754 original size:41 final size:41
Alignment explanation
Indices: 59942698--59942789 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
59942688 GGGCTGCGAC
*
59942698 ACGGGCGTGTCATGGCCCTGTGAGGGACACGGGATATAGAT
1 ACGGGCGTGTCATGGCCATGTGAGGGACACGGGATATAGAT
* * *
59942739 ACGTGCGTGTTATGGCCATGTGAGGGACACGGGCTATAGAT
1 ACGGGCGTGTCATGGCCATGTGAGGGACACGGGATATAGAT
59942780 ACGGGCGTGT
1 ACGGGCGTGT
59942790 GCCCGGCTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (41 bp):
ACGGGCGTGTCATGGCCATGTGAGGGACACGGGATATAGAT
Found at i:59943827 original size:24 final size:24
Alignment explanation
Indices: 59943795--59943843 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
59943785 CTTGAATTTG
59943795 GTCATTGTTGGGCCCACACGGCTT
1 GTCATTGTTGGGCCCACACGGCTT
*
59943819 GTCATTGTTGGGCCCACATGGCTT
1 GTCATTGTTGGGCCCACACGGCTT
59943843 G
1 G
59943844 GGACACGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (24 bp):
GTCATTGTTGGGCCCACACGGCTT
Found at i:59946738 original size:40 final size:40
Alignment explanation
Indices: 59946647--59946757 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
59946637 ATAACCATGT
*
59946647 GCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTA
*
59946687 GCACGAATGCCTTCGGGTCTTAGCCCAGAT-GTAGCCG-CTA
1 GCACGAATGCCTTCGGGTCTTAGCCCAGATAG-A-ACGACTA
* *
59946727 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCAGATA
59946758 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
39 3 0.05
40 58 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTA
Found at i:59951034 original size:46 final size:45
Alignment explanation
Indices: 59950981--59951153 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
59950971 TGGTTGAGCA
59950981 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * *
59951027 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
59951073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
59951118 -CCGATCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59951154 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 28 0.27
45 9 0.09
46 59 0.56
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59954103 original size:15 final size:15
Alignment explanation
Indices: 59954064--59954143 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
59954054 ATATCTTGGG
*
59954064 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
59954079 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
59954094 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
59954109 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
59954124 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
59954138 TTTCTT
1 TTTCTT
59954144 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59954133 original size:30 final size:30
Alignment explanation
Indices: 59954055--59954142 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
59954045 CATAGTATCA
* * *
59954055 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
59954085 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
59954115 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
59954143 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:59956522 original size:39 final size:39
Alignment explanation
Indices: 59956472--59956655 Score: 233
Period size: 39 Copynumber: 4.7 Consensus size: 39
59956462 AATGTTCGAG
59956472 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
59956511 TGATATTCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
59956550 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
59956589 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
59956629 CCATAACCGGGCTATGTCCCGAAGGCA
1 TGATATCCGGGCTAAG-CCCGAAGGCA
59956656 TTTGAACGAG
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:59964257 original size:39 final size:39
Alignment explanation
Indices: 59964210--59964392 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
59964200 AATGTTCGAG
59964210 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
59964249 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
59964288 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
59964327 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
59964367 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
59964393 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:59966596 original size:68 final size:68
Alignment explanation
Indices: 59966512--59966668 Score: 201
Period size: 68 Copynumber: 2.3 Consensus size: 68
59966502 CTTAAAATTA
* * * *
59966512 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACT-ACCATATATGCTGTTTTATTTAGTAA
59966576 ATGT
65 ATGT
* * * * *
59966580 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
59966645 TGT
66 TGT
*
59966648 AGCTGTCCGAATCTGTT-GATT
1 AGCTGTCCGAATGTGTTAGATT
59966669 TCACAGTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 3 0.04
68 73 0.95
69 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (68 bp):
AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
TGT
Found at i:59971324 original size:46 final size:46
Alignment explanation
Indices: 59971274--59971449 Score: 137
Period size: 46 Copynumber: 3.8 Consensus size: 46
59971264 TGGTTGAGCA
59971274 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
59971320 TCCGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * * *
59971365 CATCTGAACTCGTTGAGTTGAGTCCTAGTTCACCTATGGATGCGAA-C
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59971412 ACTCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
59971450 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 56 0.57
47 26 0.27
48 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59971430 original size:93 final size:93
Alignment explanation
Indices: 59971271--59971442 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
59971261 GGATGGTTGA
* ** *
59971271 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAACTCCGAACTCATTAAGT
59971336 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * *
59971364 GCATCTGAACTCGTTGAGTTGAGTCCTAGTTCACCTATGGATGCGAACACT-CGAGCTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA-ACTCCGAACTCATTAAG
59971428 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
59971443 CTTATGGGCG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAACTCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59978189 original size:11 final size:11
Alignment explanation
Indices: 59978134--59978191 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
59978124 TTTTAATAGT
59978134 TTAATATTAA-A
1 TTAAT-TTAATA
59978145 TTAAATTTAATA
1 TT-AATTTAATA
*
59978157 TTTATCTTAATA
1 TTAAT-TTAATA
59978169 TT-ATTT--TA
1 TTAATTTAATA
59978177 TTAATTTAATA
1 TTAATTTAATA
59978188 TTAA
1 TTAA
59978192 AGTGATTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 2 0.05
11 16 0.40
12 14 0.35
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:59981991 original size:46 final size:46
Alignment explanation
Indices: 59981938--59982113 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59981928 TATTTGGGCA
59981938 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
59981984 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
59982031 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59982077 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59982114 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59982093 original size:93 final size:93
Alignment explanation
Indices: 59981934--59982105 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59981924 GGGATATTTG
* *
59981934 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59981999 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
59982027 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59982092 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59982106 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:59985085 original size:15 final size:15
Alignment explanation
Indices: 59985065--59985133 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
59985055 GTATCTTGGG
59985065 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
59985080 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
59985095 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
59985110 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
59985125 TTTCTTTAT
1 TTTCTTTAT
59985134 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:59985134 original size:30 final size:30
Alignment explanation
Indices: 59985056--59985143 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
59985046 CATAGTATCG
* * * *
59985056 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
59985086 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
59985116 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
59985144 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:59987582 original size:46 final size:46
Alignment explanation
Indices: 59987529--59987704 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59987519 TATTTGGGCA
59987529 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
59987575 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
59987622 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59987668 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59987705 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59987684 original size:93 final size:93
Alignment explanation
Indices: 59987525--59987696 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59987515 GGGATATTTG
* *
59987525 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59987590 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
59987618 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59987683 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59987697 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:59990971 original size:21 final size:21
Alignment explanation
Indices: 59990945--59990989 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
59990935 CATAGAAGCG
*
59990945 ATTCACCCTTTTGCCTGTTTA
1 ATTCACCCTTTTGCATGTTTA
59990966 ATTCACCCTTTTGCATGTTTA
1 ATTCACCCTTTTGCATGTTTA
59990987 ATT
1 ATT
59990990 GATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTCACCCTTTTGCATGTTTA
Found at i:59992948 original size:2 final size:2
Alignment explanation
Indices: 59992941--59992976 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
59992931 AAATAAGAAC
*
59992941 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
59992977 TTCATCCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:60004038 original size:22 final size:22
Alignment explanation
Indices: 60004010--60004054 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
60004000 AGGGGGAGTG
60004010 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
60004032 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
60004054 T
1 T
60004055 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:60005845 original size:31 final size:30
Alignment explanation
Indices: 60005799--60005857 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
60005789 CTATGTTCAA
60005799 AAAAATAATAATTTAAATTAATAAGATTTC
1 AAAAATAATAATTTAAATTAATAAGATTTC
* *
60005829 AAAAATAAATAGTTTAAATTAATCAGATT
1 AAAAAT-AATAATTTAAATTAATAAGATT
60005858 AAAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAATAATAATTTAAATTAATAAGATTTC
Found at i:60007471 original size:21 final size:22
Alignment explanation
Indices: 60007423--60007472 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
60007413 ACAATGTAAA
60007423 AGCAAAATGACAACAAAACAAC
1 AGCAAAATGACAACAAAACAAC
* *
60007445 ATCAAAATGACAAC-AAACAAT
1 AGCAAAATGACAACAAAACAAC
60007466 AGCAAAA
1 AGCAAAA
60007473 CAATAGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (22 bp):
AGCAAAATGACAACAAAACAAC
Found at i:60007489 original size:11 final size:11
Alignment explanation
Indices: 60007459--60007489 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
60007449 AAATGACAAC
60007459 AAACAATAGCA
1 AAACAATAGCA
60007470 AAACAATAGCA
1 AAACAATAGCA
*
60007481 AAATAATAG
1 AAACAATAG
60007490 TAATCAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.13, G:0.10, T:0.13
Consensus pattern (11 bp):
AAACAATAGCA
Found at i:60011918 original size:27 final size:26
Alignment explanation
Indices: 60011870--60011929 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60011860 GCGAGGCTGC
*
60011870 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60011897 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
60011923 CAGATAT
1 CAGATAT
60011930 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60019954 original size:28 final size:28
Alignment explanation
Indices: 60019889--60019989 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
60019879 ATAGTGAATC
*
60019889 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
60019918 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60019946 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
60019976 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60019990 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60026025 original size:40 final size:39
Alignment explanation
Indices: 60025930--60026057 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
60025920 TGCTGGAAAT
* * * *
60025930 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
60025969 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
60026009 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
60026049 TATATCCGG
1 TATATCCGG
60026058 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60031115 original size:28 final size:28
Alignment explanation
Indices: 60031050--60031150 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
60031040 ATAGTGAATC
*
60031050 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
60031079 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60031107 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
60031137 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60031151 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60034738 original size:42 final size:42
Alignment explanation
Indices: 60034679--60034762 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
60034669 TCCTACTGAA
60034679 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
1 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
60034721 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
1 AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
60034763 TTCAAGCTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (42 bp):
AGTAAGAAAATTATTTCTAGTTCTATATTTGATTTGTAATTG
Found at i:60036870 original size:40 final size:40
Alignment explanation
Indices: 60036815--60036894 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
60036805 GTTGTCATGA
60036815 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
1 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
60036855 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
1 TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
60036895 ATTTTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (40 bp):
TAGGATTAGATAATTGTTGTACTCTTTTTTCACTTTAATG
Found at i:60037132 original size:23 final size:22
Alignment explanation
Indices: 60037095--60037150 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
60037085 CACATTTATC
* *
60037095 TCTTTA-TTATTCTTTTTTTTT
1 TCTTTATTTATACTTTCTTTTT
*
60037116 TCTATTTTTTATACTTTCTTTTT
1 TCT-TTATTTATACTTTCTTTTT
60037139 TCTTTATTTATA
1 TCTTTATTTATA
60037151 ATAAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 10 0.34
23 16 0.55
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (22 bp):
TCTTTATTTATACTTTCTTTTT
Found at i:60037983 original size:13 final size:15
Alignment explanation
Indices: 60037960--60037991 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
60037950 TTTAAGTGGA
60037960 AATATGTTAATT-AT
1 AATATGTTAATTAAT
60037974 AATA-GTTAATTAAT
1 AATATGTTAATTAAT
60037988 AATA
1 AATA
60037992 AAATAGGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
AATATGTTAATTAAT
Found at i:60039371 original size:47 final size:47
Alignment explanation
Indices: 60039314--60039410 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
60039304 TTAAGTTAAT
*
60039314 TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGCA
1 TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGAA
*
60039361 TTAATGTCAAGGCAAGCTATGTAAATTTCATAGGGAATTACTAAGAA
1 TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGAA
60039408 TTA
1 TTA
60039411 GTAATGCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (47 bp):
TTAATGTCAAGGCAAGCTATGTAAATTTCACAGGGAATTACTAAGAA
Found at i:60045300 original size:46 final size:46
Alignment explanation
Indices: 60045235--60045346 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
60045225 TTATCTTTGA
* * * * * *
60045235 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACCCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCCATTTCATGC
***
60045281 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCCATTTCATGC
*
60045327 CACGTTGCCATGGTATCTTT
1 CATGTTGCCATGGTATCTTT
60045347 TGTAACATCT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCCATTTCATGC
Found at i:60053704 original size:46 final size:46
Alignment explanation
Indices: 60053634--60053801 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
60053624 GGGCTATTAC
**
60053634 ATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCAATGGT
1 ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCAATGGT
* * * * *
60053680 ATCTTTTAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATCGT
1 ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCAATGGT
** *
60053726 ATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCAATGGT
1 ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCAATGGT
* **
60053772 ATCTTTCAACCATGGTTTTACACATTTCAT
1 ATCTTTCAACCATGGTCTTATTCATTTCAT
60053802 TTCAGAAAGC
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 106 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
ATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCAATGGT
Found at i:60053798 original size:92 final size:92
Alignment explanation
Indices: 60053634--60053801 Score: 246
Period size: 92 Copynumber: 1.8 Consensus size: 92
60053624 GGGCTATTAC
** * * *
60053634 ATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCAATGGTATCTTTTAACCATGGTCTT
1 ATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGCAATGGTATCTTTCAACCATGGTCTT
***
60053699 GTTCATTTCATGTCACGTTGCCATCGT
66 ACACATTTCATGTCACGTTGCCATCGT
* *
60053726 ATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCAATGGTATCTTTCAACCATGGTTTT
1 ATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGCAATGGTATCTTTCAACCATGGTCTT
60053791 ACACATTTCAT
66 ACACATTTCAT
60053802 TTCAGAAAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 66 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (92 bp):
ATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGCAATGGTATCTTTCAACCATGGTCTT
ACACATTTCATGTCACGTTGCCATCGT
Found at i:60055605 original size:49 final size:49
Alignment explanation
Indices: 60055533--60055630 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
60055523 TGCTTTTTCA
60055533 ATAATATCAAACTTAAAAATATATTGAAATCATGATGTTCTTACCTTGT
1 ATAATATCAAACTTAAAAATATATTGAAATCATGATGTTCTTACCTTGT
60055582 ATAATATCAAACTTAAAAATATATTGAAATCATGATGTTCTTACCTTGT
1 ATAATATCAAACTTAAAAATATATTGAAATCATGATGTTCTTACCTTGT
60055631 TCTATTGATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (49 bp):
ATAATATCAAACTTAAAAATATATTGAAATCATGATGTTCTTACCTTGT
Found at i:60055923 original size:8 final size:8
Alignment explanation
Indices: 60055912--60055941 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
60055902 TAAATAAATA
60055912 AAAATAAT
1 AAAATAAT
60055920 AAAATAAT
1 AAAATAAT
60055928 AAAATAAT
1 AAAATAAT
60055936 AAAATA
1 AAAATA
60055942 TCTCATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:60058067 original size:33 final size:34
Alignment explanation
Indices: 60058017--60058104 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
60058007 TTTCTGATTG
* * *
60058017 CATACT-ATACTGATACTGTAATGGGCTTAGGGC
1 CATACTGATACTGTTACTGAAATGGGCTCAGGGC
*
60058050 C-TACTGATACTGTTACTGAAATGGGCTCAGGTC
1 CATACTGATACTGTTACTGAAATGGGCTCAGGGC
* *
60058083 CAGACTGCTACTGTTACTGAAA
1 CATACTGATACTGTTACTGAAA
60058105 AGGGTTAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 4 0.09
33 25 0.53
34 18 0.38
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (34 bp):
CATACTGATACTGTTACTGAAATGGGCTCAGGGC
Found at i:60058130 original size:34 final size:34
Alignment explanation
Indices: 60058052--60058130 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
60058042 CTTAGGGCCT
* * *
60058052 ACTGATACTGTTACTGAAATGGGCTCAGGTCCAG
1 ACTGATACTGTTACTGAAAAGGGCTAAGGCCCAG
* *
60058086 ACTGCTACTGTTACTGAAAAGGGTTAAGGCCCTA-
1 ACTGATACTGTTACTGAAAAGGGCTAAGGCCC-AG
*
60058120 ACTGAGACTGT
1 ACTGATACTGT
60058131 AAGGGCTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (34 bp):
ACTGATACTGTTACTGAAAAGGGCTAAGGCCCAG
Found at i:60061844 original size:947 final size:947
Alignment explanation
Indices: 60060010--60061905 Score: 3533
Period size: 947 Copynumber: 2.0 Consensus size: 947
60060000 AATCTAATAG
* *
60060010 ATATATTTATGAATCATGTCTTTTTTTTTAGAATATGAATTCTTCATTCAGACTGTCCATCTATT
1 ATATATTTATGAATCATGTCTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCCATCTATT
60060075 TACCCGTGAATACAAAAAATTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAATT
66 TACCCGTGAATACAAAAAATTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAATT
60060140 TATTTTTCAACTGAATAACCCGTTTTGATTAAAACAGAGTCTATCTTAGCTATCAAATAATAACA
131 TATTTTTCAACTGAATAACCCGTTTTGATTAAAACAGAGTCTATCTTAGCTATCAAATAATAACA
*
60060205 TTTCAAAGTATTCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCTT
196 TTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCTT
*
60060270 CAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCTGAATTTGGGGCTAGAAGTATT
261 CAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTATT
60060335 GGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAAGGAAATGACAC
326 GGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAAGGAAATGACAC
*
60060400 AATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTGTTAGAGAAATCTCGGGTTCAAACC
391 AATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTATTAGAGAAATCTCGGGTTCAAACC
60060465 TGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTTT
456 TGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTTT
*
60060530 AAATTGTTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAAT
521 AAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAAT
* *
60060595 TTGCAAGGGAGCCTGGGTTCAAGTCTTGGCTCTTGCAATTTATTTTGGTTTTTCTTTTAAAGGAA
586 TTGCAAGGGAGCCTGGGTTCAAGTCTTCGCTCTTACAATTTATTTTGGTTTTTCTTTTAAAGGAA
60060660 CCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTGT
651 CCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTGT
* *
60060725 GGTGGAGTGGCAAGGTGGCGTGTTGTGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGTGCA
716 GGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGCGCA
60060790 ATGGAGTATTTATTTTGCTAATTTAGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTTG
781 ATGGAGTATTTATTTTGCTAATTTAGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTTG
*
60060855 AGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCGGCTTGGCCAGTTAC
846 AGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCAGCTTGGCCAGTTAC
*
60060920 TCGAGATTCGCGATTATTTCATTTCCTGATGCTAGCA
911 TCGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
60060957 ATATATTTATGAATCATGTCTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCCATCTATT
1 ATATATTTATGAATCATGTCTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCCATCTATT
* *
60061022 TACCCGTGAATACAAAAAATTTATTTCCAAACTTGAGGGTAAAATTAAATGGATATAACTCGATT
66 TACCCGTGAATACAAAAAATTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAATT
60061087 TATTTTTCAACTGAATAACCCGTTTTGATTAAAACAGAGTCTATCTTAGCTATCAAATAATAACA
131 TATTTTTCAACTGAATAACCCGTTTTGATTAAAACAGAGTCTATCTTAGCTATCAAATAATAACA
60061152 TTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCTT
196 TTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCTT
60061217 CAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTATT
261 CAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTATT
60061282 GGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAAGGAAATGACAC
326 GGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAAGGAAATGACAC
* *
60061347 AATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTATTGGAGAAATCTTGGGTTCAAACC
391 AATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTATTAGAGAAATCTCGGGTTCAAACC
*
60061412 TGGGCTTTAGCAAAAGTTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTTT
456 TGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTTT
* * *
60061477 AAATTATTGTTGTAAATAAGTGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTACAT
521 AAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAAT
60061542 TTGCAAGGGAGCCTGGGTTCAAGTCTTCGCTCTTACAATTTATTTTGGTTTTTCTTTTAAAGGAA
586 TTGCAAGGGAGCCTGGGTTCAAGTCTTCGCTCTTACAATTTATTTTGGTTTTTCTTTTAAAGGAA
60061607 CCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTGT
651 CCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTGT
* * *
60061672 GGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAGGTCTAAGGTTCAATTCTTGGGATGCGCA
716 GGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGCGCA
* *
60061737 ATGGAGTATTTATTTTGCT-GTTTGAGCTGTGTAGGAGGTGGAGTTGGACTGGAACTCTGTGGTT
781 ATGGAGTATTTATTTTGCTAATTT-AGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTT
60061801 GAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCAGCTTGGCCAGTTA
845 GAGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCAGCTTGGCCAGTTA
* *
60061866 CTTGAGATTCGCGATTATTTCATTTCTTGATGCTAACA
910 CTCGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
60061904 AT
1 AT
60061906 GTACAGTGGT
Statistics
Matches: 921, Mismatches: 27, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
946 3 0.00
947 918 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (947 bp):
ATATATTTATGAATCATGTCTCTCTTTTTAGAATATGAATTCTTCATTCAGACTGTCCATCTATT
TACCCGTGAATACAAAAAATTTATTTCCAAACTTGAGGGTAAAAATAAATGGATATAACTCAATT
TATTTTTCAACTGAATAACCCGTTTTGATTAAAACAGAGTCTATCTTAGCTATCAAATAATAACA
TTTCAAAGTAATCACTTCATCTTGTTGTTAGGACAACTCAAACATACAATCTTTCATAATTCCTT
CAACATGCTAGTCAAAGATCTTTACAAACTGTATGTAACGCCCCGAATTTGGGGCTAGAAGTATT
GGGCCTTTAGCATGGGTCCGTAAGGAGGTTGTATATAAGCATTTAATTGTACAAGGAAATGACAC
AATTAAATGTCTGCTTTAGTGGTTAATGGCCCTGAGAACTATTAGAGAAATCTCGGGTTCAAACC
TGGGCTTTAGCAAAAATTTTGGTAATAAGTGAATAAAACCCTGGGTGCTTGGATGAAGGCCTTTT
AAATTATTGTGGTAAATAAATGACACAAGGAAGCTTGTGGTCTAGTGGTTGTGGTGTCATTAAAT
TTGCAAGGGAGCCTGGGTTCAAGTCTTCGCTCTTACAATTTATTTTGGTTTTTCTTTTAAAGGAA
CCTGGACTTTGGCCTATAGACCTTATATTTAATTGAGGATAAAATATGACATAGAAAGAGCCTGT
GGTGGAGTGGCAAGGTGGCGTGTTATGTAACTGTGAAGTCTAAGGTTCAAGTATTGGGATGCGCA
ATGGAGTATTTATTTTGCTAATTTAGCTGTGTAGGAGGTAGAGTTGGACTGGAACTCTGTGGTTG
AGGTGGTAATAAGAAAATAAGGAATTTATCACCACTTTAGCGACTTTGGCAGCTTGGCCAGTTAC
TCGAGATTCGCGATTATTTCATTTCCTGATGCTAACA
Found at i:60064692 original size:21 final size:21
Alignment explanation
Indices: 60064668--60064711 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60064658 GAATCTTTAG
*
60064668 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
60064689 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
60064710 TA
1 TA
60064712 ATTAGGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:60065519 original size:28 final size:28
Alignment explanation
Indices: 60065434--60065525 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
60065424 TGGCAAGTAG
*
60065434 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
60065462 TTAGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
60065490 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
60065518 TTGGGCCT
1 TTGGGCCT
60065526 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:60065870 original size:27 final size:27
Alignment explanation
Indices: 60065849--60066261 Score: 492
Period size: 27 Copynumber: 15.4 Consensus size: 27
60065839 AGAAATTATT
*
60065849 GAAATACCC-CTGATTTGTGAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
*
60065876 GAAACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
60065903 GAAACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* ** *
60065930 AAAACCCCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
60065957 AAAATACCCTTGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
60065984 AAAATACCCTCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
60066011 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
60066037 GAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
60066064 GAAATACCCCCGATTTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
60066091 GAAACACCCTCGATTTTTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* ** * **
60066118 TAAGCACCCTTGATTTGTAAAATTATT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
60066145 GAAACACCCTCGATTTGTAAAAATACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
60066172 AAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
60066199 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
60066226 GAAATATCCC-CGATTTGT-AAATTATC
1 GAAATA-CCCTCGATTTGTAAAATTACC
60066252 GAAATACCCT
1 GAAATACCCT
60066262 TGTAGTGTAA
Statistics
Matches: 340, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
25 3 0.01
26 36 0.11
27 297 0.87
28 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:60066219 original size:215 final size:215
Alignment explanation
Indices: 60065841--60066286 Score: 648
Period size: 215 Copynumber: 2.1 Consensus size: 215
60065831 TAATAAAGAG
* *
60065841 AAATTATTGAAATACCCCTGATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCCCGATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
* * *
60065906 ACACCCTCGATTTGTAAAATTACCAAAACCCCCTCGATTTGTAAAATTACTAAAATACCCTTGAT
66 ACACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAAATACTAAAATACCCTCGAT
*
60065971 TTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAAATA-CCCTCGA-TTGTGAAATT
131 TTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATATCCC-CGATTTGT-AAATT
*
60066034 A-CTGAAATACCCTCG-ATTTGTA
194 ATC-GAAATACCCTCGTA-GTGTA
* * * *
60066056 AAATTACTGAAATACCCCCGATTTGTGAAATTACTGAAACACCCTCGATTTTTGAAATTACCTAA
1 AAATTACTGAAATACCCCCGATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
* * ***
60066121 GCACCCTTGATTTGTAAAATTATTGAAACACCCTCGATTTGTAAAAATACTAAAATACCCTCGAT
66 ACACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAAATACTAAAATACCCTCGAT
* *
60066186 TTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATATCCCCGATTTGTAAATTAT
131 TTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATATCCCCGATTTGTAAATTAT
*
60066251 CGAAATACCCTTGTAGTGTA
196 CGAAATACCCTCGTAGTGTA
*
60066271 AAATTACTAAAATACC
1 AAATTACTGAAATACC
60066287 TTAGTAGTGT
Statistics
Matches: 207, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
215 198 0.96
216 9 0.04
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (215 bp):
AAATTACTGAAATACCCCCGATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
ACACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAAATACTAAAATACCCTCGAT
TTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAATATCCCCGATTTGTAAATTAT
CGAAATACCCTCGTAGTGTA
Found at i:60067894 original size:30 final size:30
Alignment explanation
Indices: 60067860--60067953 Score: 163
Period size: 30 Copynumber: 3.2 Consensus size: 30
60067850 ATGAATCGGA
*
60067860 AGCTTTGGCACTAAGTGTGCTATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
60067890 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
*
60067920 AGCTTTGGCACTAAGTGCGCGATTT-AACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
60067949 AGCTT
1 AGCTT
60067954 CGGTTACTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
29 9 0.15
30 53 0.85
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAAACT
Found at i:60099043 original size:42 final size:42
Alignment explanation
Indices: 60098971--60099076 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
60098961 TTAGGGTTAT
* * *
60098971 TGAGACTAT-GTGTAAGATCATGTCTGGGATATGGCATTAG-TA
1 TGAGACT-TCGTGTAAGACCATATCTGGGATATGACA-TAGATA
*
60099013 TGAGACTTCGTGTAAGACCATATC-GTGGATATGACATCGATA
1 TGAGACTTCGTGTAAGACCATATCTG-GGATATGACATAGATA
*
60099055 TGAGATTTCGTGTAAGACCATA
1 TGAGACTTCGTGTAAGACCATA
60099077 GTTGAGCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 4 0.07
42 52 0.93
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGACATAGATA
Found at i:60100918 original size:48 final size:46
Alignment explanation
Indices: 60100792--60100962 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
60100782 ATTTTGTAGT
* * * **
60100792 GATGCATGTCCCAGACATGTCTTACGCT-GGTTTACATCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCC
* *
60100838 GATGCATGTCCCAGACATATCTTACACTAGCTCTCATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
* * ** *
60100884 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAAT-GTGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCC
*
60100932 GATGCATGTCCCAAACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
60100963 ACACAATTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 52 0.49
47 30 0.28
48 23 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
Found at i:60108575 original size:40 final size:39
Alignment explanation
Indices: 60108518--60108702 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 39
60108508 ATTAAATGAT
* * *
60108518 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
60108558 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
* **
60108598 ATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
60108638 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
60108678 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
60108703 CGTGCATGTG
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 120 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:60108655 original size:80 final size:80
Alignment explanation
Indices: 60108517--60108723 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
60108507 AATTAAATGA
* * ** * *
60108517 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
60108582 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* * *
60108595 TAAATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
60108660 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
60108677 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
60108724 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:60108708 original size:40 final size:39
Alignment explanation
Indices: 60108516--60108723 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
60108506 CAATTAAATG
* * ** *
60108516 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
60108556 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
* *
60108596 AAATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
60108636 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
60108676 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
60108716 ATATCCGG
1 ATATCCGG
60108724 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
39 5 0.03
40 133 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:60111763 original size:46 final size:47
Alignment explanation
Indices: 60111564--60111833 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 47
60111554 TATAATGCTA
* * * ** *
60111564 ATGCCATGTCGCAGACTTGGTCTTACACTGGCTC-ATC-TATCAAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTA-CATGTCGTGCCG
* *
60111611 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATGTCCGTGCCT
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATGT-CGTGCCG
* * * * *
60111661 ATGCCAAGTCCCAGACATGGTCTTACACT-G-AC-ACATTTTGTAGCCT
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTACATGTCGT-GCCG
60111707 ATG-CATGTCCC-GAACATGTCTTACACTGGCT-TACATGTCGATGCCG
1 ATGCCATGTCCCAG-ACATGTCTTACACTGGCTCTACATGTCG-TGCCG
* * *
60111753 ATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATGTC-GTGCCG
*
60111799 ATGACATGTCCCAGACATGTTCTTACACTGGCTCT
1 ATGCCATGTCCCAGACATG-TCTTACACTGGCTCT
60111834 CGTAATGTGG
Statistics
Matches: 186, Mismatches: 22, Indels: 29
0.78 0.09 0.12
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 62 0.33
47 49 0.26
48 16 0.09
49 3 0.02
50 31 0.17
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATGTCGTGCCG
Found at i:60111854 original size:47 final size:48
Alignment explanation
Indices: 60111707--60111876 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 48
60111697 TTTGTAGCCT
* * *
60111707 ATGCATGTCCC-GAACATGTCTTACACTGGCT-TACATGTCGATGCC---G
1 ATGCATGTCCCAG-ACATGTCTTACACTAGCTCT-CA-CTCAATGCCGATG
60111753 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-CTCAATGCCGATG
* * ** *
60111802 A--CATGTCCCAGACATGTTCTTACACTGGCTCTC-GT-AATGTGGTTG
1 ATGCATGTCCCAGACATG-TCTTACACTAGCTCTCACTCAATGCCGATG
*
60111847 ATGCATGTCCCAAACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
60111877 ACACAATTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
45 8 0.08
46 50 0.47
47 31 0.29
48 15 0.14
49 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCACTCAATGCCGATG
Found at i:60112583 original size:13 final size:13
Alignment explanation
Indices: 60112565--60112589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60112555 CTAAAAATGC
60112565 AAAAATCATCAAG
1 AAAAATCATCAAG
60112578 AAAAATCATCAA
1 AAAAATCATCAA
60112590 AATCACTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:60117650 original size:28 final size:28
Alignment explanation
Indices: 60117617--60117672 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
60117607 TAATGCTTAG
60117617 TAAGTTCGTAAAACATGAAACATAACTT
1 TAAGTTCGTAAAACATGAAACATAACTT
*
60117645 TAAGTTTGTAAAACATGAAACATAACTT
1 TAAGTTCGTAAAACATGAAACATAACTT
60117673 ACATTTCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.30
Consensus pattern (28 bp):
TAAGTTCGTAAAACATGAAACATAACTT
Found at i:60122106 original size:29 final size:29
Alignment explanation
Indices: 60122046--60122157 Score: 165
Period size: 29 Copynumber: 3.9 Consensus size: 29
60122036 TTTGGGCCGG
* * *
60122046 ATGGGCCATAT-AA-ATGAGATTGGGCCTA
1 ATGGGCCATATGAACGTGA-ATTGGGCTTT
*
60122074 ATGGGCCATATGAATGTGAATTGGGCTTT
1 ATGGGCCATATGAACGTGAATTGGGCTTT
60122103 ATGGGCCATATGAACGTGAATTGGGCTTT
1 ATGGGCCATATGAACGTGAATTGGGCTTT
60122132 ATGGGCCATATGAACGTGAATTGGGC
1 ATGGGCCATATGAACGTGAATTGGGC
60122158 CAGATGGGCC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
28 11 0.14
29 64 0.82
30 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
ATGGGCCATATGAACGTGAATTGGGCTTT
Found at i:60122151 original size:58 final size:57
Alignment explanation
Indices: 60122046--60122200 Score: 197
Period size: 58 Copynumber: 2.7 Consensus size: 57
60122036 TTTGGGCCGG
*
60122046 ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAATGTGAATTGGGCTTT
1 ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAACGTGAATTGGGCTTT
* * * ***
60122103 ATGGGCCATATGAACGTGA-ATTGGGCTTTATGGGCCATATGAACGTGAATTGGGCCAG
1 ATGGGCCATAT-AA-ATGAGATTGGGCCTAATGGGCCATATGAACGTGAATTGGGCTTT
*
60122161 ATGGGCCATCTAAATGAGATTGGGCCTAGA-GGGCCATATG
1 ATGGGCCATATAAATGAGATTGGGCCTA-ATGGGCCATATG
60122201 CATGTATGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
56 3 0.04
57 31 0.37
58 46 0.55
59 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (57 bp):
ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAACGTGAATTGGGCTTT
Found at i:60122164 original size:29 final size:28
Alignment explanation
Indices: 60122032--60122200 Score: 148
Period size: 29 Copynumber: 5.9 Consensus size: 28
60122022 TGAATATAAT
* *
60122032 GTGATTTGGGCCGGATGGGCCATAT-AA
1 GTGAATTGGGCCAGATGGGCCATATGAA
*
60122059 ATGAGATTGGGCCTA-ATGGGCCATATGAA
1 GTGA-ATTGGGCC-AGATGGGCCATATGAA
***
60122088 TGTGAATTGGGCTTTATGGGCCATATGAA
1 -GTGAATTGGGCCAGATGGGCCATATGAA
***
60122117 CGTGAATTGGGCTTTATGGGCCATATGAA
1 -GTGAATTGGGCCAGATGGGCCATATGAA
*
60122146 CGTGAATTGGGCCAGATGGGCCATCT-AA
1 -GTGAATTGGGCCAGATGGGCCATATGAA
*
60122174 ATGAGATTGGGCCTAGA-GGGCCATATG
1 GTGA-ATTGGGCC-AGATGGGCCATATG
60122201 CATGTATGTG
Statistics
Matches: 121, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.05
28 36 0.30
29 76 0.63
30 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GTGAATTGGGCCAGATGGGCCATATGAA
Found at i:60132825 original size:40 final size:39
Alignment explanation
Indices: 60132714--60132827 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
60132704 TTAATCACGT
* * *
60132714 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
60132754 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
*
60132794 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
60132828 TTTCCAGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:60138918 original size:40 final size:39
Alignment explanation
Indices: 60138807--60138920 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
60138797 TTAATCACGT
* * *
60138807 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
60138847 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
*
60138887 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
60138921 TTTCCAGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:60144448 original size:42 final size:43
Alignment explanation
Indices: 60144338--60144449 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
60144328 TCTCGTACAT
* * *
60144338 TGCCAATGTCCTAGACGTGGTCTTCCATGTAATCATATATCGA
1 TGCCAATGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
* *
60144381 TGCCATTGTCCTAGATAG-GGTCTTACATGAAATCAAATAT-GA
1 TGCCAATGTCCTAGA-CGTGGTCTTACATGAAATCAAATATCGA
* *
60144423 TGCCAATGTCCCAGACGTGGCCTTACA
1 TGCCAATGTCCTAGACGTGGTCTTACA
60144450 CGATAACACA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.40
43 33 0.57
44 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
TGCCAATGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
Found at i:60152006 original size:43 final size:43
Alignment explanation
Indices: 60151886--60152043 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
60151876 ATCTTGTACA
* **
60151886 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCAAATAT-G
* * *
60151929 ATGCC-ACTGTCCCAGAGAGGGTCCT--ACATGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACAT-AAATCAAATATG
* * *
60151971 ATGCAAACGTCCCAGACATTGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCA-AA-TATG
**
60152015 ATGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
60152044 GATGACACAT
Statistics
Matches: 91, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 20 0.22
43 36 0.40
44 32 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATCAAATATG
Found at i:60152039 original size:44 final size:42
Alignment explanation
Indices: 60151886--60152043 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 42
60151876 ATCTTGTACA
**
60151886 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATC-AA-ATCG
* * *
60151929 ATGCC-ACTGTCCCAGA-GAGGGTCCT--ACATGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACG-TGGTCTTACACAT-AAATCAAAT-CG
* * *
60151971 ATGCAAACGTCCCAGACATTGTCTTACACATAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCA-AA-TCG
*
60152015 ATGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
60152044 GATGACACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
41 4 0.04
42 22 0.25
43 30 0.34
44 32 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCAAATCG
Found at i:60152702 original size:29 final size:29
Alignment explanation
Indices: 60152669--60152728 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
60152659 ATCAAACTTC
60152669 ACAAAGCTCACATTATCAATAATGGCATA
1 ACAAAGCTCACATTATCAATAATGGCATA
60152698 ACAAAGCTCACATTATCAATAATGGCATA
1 ACAAAGCTCACATTATCAATAATGGCATA
60152727 AC
1 AC
60152729 TCAAAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (29 bp):
ACAAAGCTCACATTATCAATAATGGCATA
Found at i:60154107 original size:13 final size:13
Alignment explanation
Indices: 60154089--60154123 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
60154079 ATGTTATAAT
60154089 AAAACATAATATA
1 AAAACATAATATA
60154102 AAAACATAATATA
1 AAAACATAATATA
*
60154115 AAAATATAA
1 AAAACATAA
60154124 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAACATAATATA
Done.