Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 26 of 202
Found at i:7584927 original size:43 final size:43
Alignment explanation
Indices: 7584880--7585099 Score: 302
Period size: 43 Copynumber: 5.1 Consensus size: 43
7584870 ACTATTTGCT
* * * * *
7584880 GCATTTGTGAAAAAAACACCACTAAAGGTCATGTTCTTTAGCG
1 GCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
* *
7584923 GCATTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCG
1 GCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
* *
7584966 GCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAACA
1 GCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
7585009 GCGA-TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
1 GC-ATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
* *
7585052 GCGA-TTATGATAAAAGCGCCGCTAAAGATCATGTTC-TTAGCA
1 GC-ATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
7585094 GCATTT
1 GCATTT
7585100 ATATGAAAAA
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 10 0.06
43 151 0.93
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
GCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCA
Found at i:7592852 original size:180 final size:180
Alignment explanation
Indices: 7592550--7592891 Score: 542
Period size: 180 Copynumber: 1.9 Consensus size: 180
7592540 CCTTATGTCA
* * *
7592550 TTCAACAAATGCTCAAGGCATCTCTCAAGTATTCATATCTTTTAGCACCCTCAACCTTTTTTGGT
1 TTCAACAAATGCTAAAGGCACCTCTCAAGTATTCATATCTTTTAGCACCCTCAACCTCTTTTGGT
* *
7592615 TCAATAGTAGATTTGTAGCAAAAATAATATTACTAAGAGGATGACTCTTTTGAATCCTCAATGAA
66 TCAATAGTAGACTTGTAGCAAAAATAACATTACTAAGAGGATGACTCTTTTGAATCCTCAATGAA
7592680 GGTCTCATGGTAATCGATACATCT-TCAATCTAAGAGGATGGTAAAAGGTC
131 GGTCTCATGGTAATCGATACATCTGT-AATCTAAGAGGATGGTAAAAGGTC
* * * * *
7592730 TTCAACAAATGTTAAAGGCACCTCTCAGGTATTCATATCTTTTAGCATCCTTAACCTCTTTTGTT
1 TTCAACAAATGCTAAAGGCACCTCTCAAGTATTCATATCTTTTAGCACCCTCAACCTCTTTTGGT
*
7592795 TCAATAGTAGACTTGTAGCACAAATAACATTACTAAGAGGATGACTCTTTTGAATCCTCAATGAA
66 TCAATAGTAGACTTGTAGCAAAAATAACATTACTAAGAGGATGACTCTTTTGAATCCTCAATGAA
* * *
7592860 GGTTTCATGGTAGTTGATACATCTGTAATCTA
131 GGTCTCATGGTAATCGATACATCTGTAATCTA
7592892 GTGTTCAAGT
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 146 0.99
181 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (180 bp):
TTCAACAAATGCTAAAGGCACCTCTCAAGTATTCATATCTTTTAGCACCCTCAACCTCTTTTGGT
TCAATAGTAGACTTGTAGCAAAAATAACATTACTAAGAGGATGACTCTTTTGAATCCTCAATGAA
GGTCTCATGGTAATCGATACATCTGTAATCTAAGAGGATGGTAAAAGGTC
Found at i:7594751 original size:23 final size:23
Alignment explanation
Indices: 7594719--7594793 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 23
7594709 CGAACTGAAT
*
7594719 TAGGCAGTGTGGGATTTTTGGGC
1 TAGGCCGTGTGGGATTTTTGGGC
* * *
7594742 TAGGTCGTGTGGGA-TTAT--AC
1 TAGGCCGTGTGGGATTTTTGGGC
*
7594762 --GGGCGTGTGGGATTTTTGGGC
1 TAGGCCGTGTGGGATTTTTGGGC
7594783 TAGGCCGTGTG
1 TAGGCCGTGTG
7594794 AGCTACACGA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
18 11 0.28
19 3 0.08
20 1 0.03
21 1 0.03
22 3 0.08
23 20 0.51
ACGTcount: A:0.12, C:0.11, G:0.44, T:0.33
Consensus pattern (23 bp):
TAGGCCGTGTGGGATTTTTGGGC
Found at i:7596840 original size:19 final size:19
Alignment explanation
Indices: 7596816--7596854 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7596806 CAAACATTCG
7596816 TGGATTTCAAATCAAAATC
1 TGGATTTCAAATCAAAATC
7596835 TGGATTTCAAATCAAAATC
1 TGGATTTCAAATCAAAATC
7596854 T
1 T
7596855 ATCCATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TGGATTTCAAATCAAAATC
Found at i:7605714 original size:22 final size:22
Alignment explanation
Indices: 7605689--7605732 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7605679 TTTTTCCCTA
7605689 AATTTATTTT-CAGCTACGTTTT
1 AATTTATTTTCCA-CTACGTTTT
7605711 AATTTATTTTCCACTACGTTTT
1 AATTTATTTTCCACTACGTTTT
7605733 CCAAACCCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.55
Consensus pattern (22 bp):
AATTTATTTTCCACTACGTTTT
Found at i:7606031 original size:40 final size:40
Alignment explanation
Indices: 7605976--7606059 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
7605966 GAAGCAGCAG
* *
7605976 TAGGAGTCGTAACACCCCTAACCCGTCTCCGTCGCCAGAT
1 TAGGAGTCGTAACACCCCTAACCAGTCTCCGCCGCCAGAT
* *
7606016 TAGGAGTTGTAACACCCCTAACCAGTCTCCGCCGTCAGAT
1 TAGGAGTCGTAACACCCCTAACCAGTCTCCGCCGCCAGAT
7606056 TAGG
1 TAGG
7606060 GTTATAGAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (40 bp):
TAGGAGTCGTAACACCCCTAACCAGTCTCCGCCGCCAGAT
Found at i:7607674 original size:45 final size:44
Alignment explanation
Indices: 7607625--7607771 Score: 156
Period size: 45 Copynumber: 3.3 Consensus size: 44
7607615 CCAACCACGA
*
7607625 TCTTACACATTTCCGAAGTGATGCCATAGTATCTTTCAACTATGG
1 TCTTACACATTTCCG-AGTAATGCCATAGTATCTTTCAACTATGG
* *
7607670 TCTTATACATTTCCG-GTATAATGTCATAGTATCTTTCAACTATGG
1 TCTTACACATTTCCGAG--TAATGCCATAGTATCTTTCAACTATGG
* **
7607715 TTTTATTCA-TTCC-AGTTTAATGCCATAGTATCTTTCAACTATGG
1 TCTTACACATTTCCGAG--TAATGCCATAGTATCTTTCAACTATGG
* *
7607759 TCTTTCTCATTTC
1 TCTTACACATTTC
7607772 GGGTATACTA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.01
44 38 0.43
45 49 0.56
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (44 bp):
TCTTACACATTTCCGAGTAATGCCATAGTATCTTTCAACTATGG
Found at i:7607751 original size:44 final size:45
Alignment explanation
Indices: 7607645--7607762 Score: 184
Period size: 44 Copynumber: 2.6 Consensus size: 45
7607635 TTCCGAAGTG
*
7607645 ATGCCATAGTATCTTTCAACTATGGTCTTATACATTTCCGGTATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATACATTTCCAGTATA
* * * *
7607690 ATGTCATAGTATCTTTCAACTATGGTTTTATTCA-TTCCAGTTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATACATTTCCAGTATA
7607734 ATGCCATAGTATCTTTCAACTATGGTCTT
1 ATGCCATAGTATCTTTCAACTATGGTCTT
7607763 TCTCATTTCG
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
44 35 0.53
45 31 0.47
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (45 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTATACATTTCCAGTATA
Found at i:7608633 original size:27 final size:26
Alignment explanation
Indices: 7608591--7608642 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
7608581 GCTTTGTTTA
7608591 TTTTATTTTAACTTAACTTAACTTAAC
1 TTTTATTTTAACTTAACTTAA-TTAAC
* *
7608618 TTTTATTTTAATTTAATTTAATTAA
1 TTTTATTTTAACTTAACTTAATTAA
7608643 AACACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTATTTTAACTTAACTTAATTAAC
Found at i:7611349 original size:15 final size:15
Alignment explanation
Indices: 7611329--7611367 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
7611319 TACCAAGACC
7611329 CTCAAGACTCCCAAT
1 CTCAAGACTCCCAAT
7611344 CTCAAGACTCCCAAT
1 CTCAAGACTCCCAAT
7611359 CTCAAGACT
1 CTCAAGACT
7611368 GTTGTGGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (15 bp):
CTCAAGACTCCCAAT
Found at i:7611574 original size:47 final size:47
Alignment explanation
Indices: 7611505--7611595 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
7611495 CAATGTTAAG
7611505 TTAAATGTTAGTAGGCTATAAATATAACTTTATAAGCCTTTCATAGT
1 TTAAATGTTAGTAGGCTATAAATATAACTTTATAAGCCTTTCATAGT
7611552 TTAAATGTTAGTAGGCTATAAATATAACTTTATAAGCCTTTCAT
1 TTAAATGTTAGTAGGCTATAAATATAACTTTATAAGCCTTTCAT
7611596 TTCAGATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (47 bp):
TTAAATGTTAGTAGGCTATAAATATAACTTTATAAGCCTTTCATAGT
Found at i:7615150 original size:6 final size:6
Alignment explanation
Indices: 7615096--7615143 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
7615086 TGCAAATGAA
*
7615096 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TTATTT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
7615144 CAATTTCCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:7628398 original size:20 final size:19
Alignment explanation
Indices: 7628368--7628425 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
7628358 TAAATAAAAA
7628368 TCAATAGTATCGATACTTCAC
1 TCAA-AGTATCGATACTT-AC
* *
7628389 AT-AAAGTATCAATACCTTTC
1 -TCAAAGTATCGATA-CTTAC
7628409 TCAAAGTATCGATACTT
1 TCAAAGTATCGATACTT
7628426 TATTATGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.13
20 21 0.68
21 5 0.16
22 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (19 bp):
TCAAAGTATCGATACTTAC
Found at i:7629130 original size:15 final size:15
Alignment explanation
Indices: 7629110--7629140 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7629100 AACATAGTTT
7629110 GTACCAAAATGACTC
1 GTACCAAAATGACTC
7629125 GTACCAAAATGACTC
1 GTACCAAAATGACTC
7629140 G
1 G
7629141 ACCTAGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (15 bp):
GTACCAAAATGACTC
Found at i:7630908 original size:23 final size:23
Alignment explanation
Indices: 7630869--7630912 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7630859 TTGGACTAAA
*
7630869 TTTTAATATATTTCTATATTAACC
1 TTTTAATATATTACTAT-TTAACC
7630893 TTTTAA-ATATTACTATTTAA
1 TTTTAATATATTACTATTTAA
7630913 TATTTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTAATATATTACTATTTAACC
Found at i:7631152 original size:13 final size:13
Alignment explanation
Indices: 7631130--7631161 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7631120 TTTAATATAT
7631130 AAAAAATTTAAAC
1 AAAAAATTTAAAC
*
7631143 AAAAATTTTAAAC
1 AAAAAATTTAAAC
7631156 AAAAAA
1 AAAAAA
7631162 ACATGGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAATTTAAAC
Found at i:7635085 original size:49 final size:49
Alignment explanation
Indices: 7635008--7635121 Score: 156
Period size: 49 Copynumber: 2.3 Consensus size: 49
7634998 AACTTGAACA
* * * * *
7635008 CGTGACCACATAACCACTGTCAACTGGGCTCTTGAGTTATACTCTAACC
1 CGTGACCGCATAACCACTGCCAAATGGGCACTCGAGTTATACTCTAACC
* *
7635057 CGTGACTGCATAACCACTGCCAAATGGGCACTCGAGTTATACTCTAATC
1 CGTGACCGCATAACCACTGCCAAATGGGCACTCGAGTTATACTCTAACC
*
7635106 TGTGACCGCATAACCA
1 CGTGACCGCATAACCA
7635122 TCGTCAACTA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (49 bp):
CGTGACCGCATAACCACTGCCAAATGGGCACTCGAGTTATACTCTAACC
Found at i:7648696 original size:60 final size:60
Alignment explanation
Indices: 7648589--7648747 Score: 181
Period size: 60 Copynumber: 2.7 Consensus size: 60
7648579 ACTACACTAG
7648589 TAGTCACTCAACTATTAGT--ATTT-TTTTTT-GTCACCCAACTATAAAAAGTTACAAAA
1 TAGTCACTCAACTATTAGTAAATTTCTTTTTTGGTCACCCAACTATAAAAAGTTACAAAA
* * * *
7648645 TGGTCACTCAACTATTAGTAAATTTCTTTTTTGGTCACCCAAGTATGAAAAGTTATAAAA
1 TAGTCACTCAACTATTAGTAAATTTCTTTTTTGGTCACCCAACTATAAAAAGTTACAAAA
* *
7648705 TAATCAGC-CAACTATT--TAATTTTGTCTTTTTTGGTCA-CCAACT
1 TAGTCA-CTCAACTATTAGTAA-ATT-TCTTTTTTGGTCACCCAACT
7648748 GGCTAACTGT
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
56 18 0.20
58 7 0.08
59 13 0.15
60 49 0.56
61 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (60 bp):
TAGTCACTCAACTATTAGTAAATTTCTTTTTTGGTCACCCAACTATAAAAAGTTACAAAA
Found at i:7654038 original size:20 final size:20
Alignment explanation
Indices: 7654009--7654081 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
7653999 ACCTTAAAAG
*
7654009 TTGAACCTTAAACACAAACC
1 TTGAATCTTAAACACAAACC
*
7654029 TTGAATCTTAAACTCAAAACC
1 TTGAATCTTAAACAC-AAACC
* * *
7654050 TT-AAACTTGAACCCAAACC
1 TTGAATCTTAAACACAAACC
* *
7654069 CTGATTCTTAAAC
1 TTGAATCTTAAAC
7654082 CTTGAACCCT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
19 6 0.14
20 29 0.69
21 7 0.17
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.26
Consensus pattern (20 bp):
TTGAATCTTAAACACAAACC
Found at i:7655068 original size:141 final size:142
Alignment explanation
Indices: 7654811--7655091 Score: 451
Period size: 141 Copynumber: 2.0 Consensus size: 142
7654801 TCCCTTTTCC
* *
7654811 AATAGTTTAATGCCATATCAACATTTTCATCCTGAATTTCAGGATTTTCTTCCTGAATAAAATTA
1 AATAGTTTAATGCCATATCAACATTTTCATCCTGAATTTCAGGATTTTCTTCCTGAAAAAAATCA
* ** * *
7654876 AATCTAAATAAAAATCTTGAAATTTAGGATGAAATTGTTGAGGTGGCATTAAACTATTGGAAAGG
66 AATCTAAATAAAAATCCTGAAATTTAGGATGAAATTACTGAGGTGGCATTAAACTATTAGAAAGA
7654941 GATAATATCCAT
131 GATAATATCCAT
7654953 AATAGTTTAATGCCATATCAACATTTTCATCCTGAATTTCAGGATTTT-TGTCCT-AAAAAAATC
1 AATAGTTTAATGCCATATCAACATTTTCATCCTGAATTTCAGGATTTTCT-TCCTGAAAAAAATC
*
7655016 AAATCTAAATAAAACTCCTGAAATTTAGGATGAAATTACTG-GTGTGGCATTAAACTATTAGAAA
65 AAATCTAAATAAAAATCCTGAAATTTAGGATGAAATTACTGAG-GTGGCATTAAACTATTAGAAA
7655080 GAGATAATATCC
129 GAGATAATATCC
7655092 CTATTTCATA
Statistics
Matches: 129, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
140 1 0.01
141 76 0.59
142 52 0.40
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (142 bp):
AATAGTTTAATGCCATATCAACATTTTCATCCTGAATTTCAGGATTTTCTTCCTGAAAAAAATCA
AATCTAAATAAAAATCCTGAAATTTAGGATGAAATTACTGAGGTGGCATTAAACTATTAGAAAGA
GATAATATCCAT
Found at i:7661223 original size:9 final size:9
Alignment explanation
Indices: 7661207--7661240 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7661197 GTTTTCGAAT
7661207 TCGAATAAC
1 TCGAATAAC
*
7661216 TTGAATAAC
1 TCGAATAAC
*
7661225 TCGAATAAT
1 TCGAATAAC
7661234 TCGAATA
1 TCGAATA
7661241 TTAAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7661488 original size:30 final size:31
Alignment explanation
Indices: 7661454--7661513 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
7661444 AAACCTTTTA
7661454 TTTTCCCCCAAAAATTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
** * *
7661484 TTTTCCCTTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCA
7661514 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
Found at i:7665040 original size:14 final size:14
Alignment explanation
Indices: 7665021--7665051 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7665011 TTTTAAGGTT
7665021 AAAAATAGATTTGG
1 AAAAATAGATTTGG
7665035 AAAAATAGATTTGG
1 AAAAATAGATTTGG
7665049 AAA
1 AAA
7665052 GTTCTCTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (14 bp):
AAAAATAGATTTGG
Found at i:7665312 original size:41 final size:40
Alignment explanation
Indices: 7665225--7665423 Score: 200
Period size: 41 Copynumber: 4.9 Consensus size: 40
7665215 CGAAAACGCC
* * * * * *
7665225 GCAAAAGGTAAAACATTAGCAGTGTTTTTGCATAAACGCC
1 GCAAAAGGTAAAGCAATAGCAGCGTTTTTTCATAAACACA
* *
7665265 GCAAAAGGTATAGCAATAGCAACGTTTTTCTCATAAACACA
1 GCAAAAGGTAAAGCAATAGCAGCGTTTTT-TCATAAACACA
* * * *
7665306 GCAAAAGATAAAGAAATAGCAGCGTTTTTCTCATAAACGCC
1 GCAAAAGGTAAAGCAATAGCAGCGTTTTT-TCATAAACACA
* * * *
7665347 GCTAAAGGTAAAGTAATAGCGGCGTTTTTTCATAAACATA
1 GCAAAAGGTAAAGCAATAGCAGCGTTTTTTCATAAACACA
* * *
7665387 ACTAAATGTAAAGCAATAGCAGCGTTTTTTCCATAAA
1 GCAAAAGGTAAAGCAATAGCAGCGTTTTTT-CATAAA
7665424 TGCCGCAAAT
Statistics
Matches: 132, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
40 58 0.44
41 74 0.56
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (40 bp):
GCAAAAGGTAAAGCAATAGCAGCGTTTTTTCATAAACACA
Found at i:7665405 original size:81 final size:80
Alignment explanation
Indices: 7665226--7665432 Score: 236
Period size: 81 Copynumber: 2.5 Consensus size: 80
7665216 GAAAACGCCG
* * * * *
7665226 CAAAAGGTAAAACATTAGCAGTGTTTTTGCATAAACGCCGCAAAAGGTATAGCAATAGCAACGTT
1 CAAAA-GTAAAGCAATAGCAGCGTTTTTTCATAAACGCCGCAAAAGGTAAAGCAATAGCAACGTT
*
7665291 TTTCTCATAAACACAG
65 TTTCTCATAAACACAA
* * * **
7665307 CAAAAGATAAAGAAATAGCAGCGTTTTTCTCATAAACGCCGCTAAAGGTAAAGTAATAGCGGCGT
1 CAAAAG-TAAAGCAATAGCAGCGTTTTT-TCATAAACGCCGCAAAAGGTAAAGCAATAGCAACGT
*
7665372 TTTT-TCATAAACATAA
64 TTTTCTCATAAACACAA
* *
7665388 CTAAATGTAAAGCAATAGCAGCGTTTTTTCCATAAATGCCGCAAA
1 C-AAAAGTAAAGCAATAGCAGCGTTTTTT-CATAAACGCCGCAAA
7665433 TATATTTTTG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.02
81 66 0.62
82 38 0.36
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (80 bp):
CAAAAGTAAAGCAATAGCAGCGTTTTTTCATAAACGCCGCAAAAGGTAAAGCAATAGCAACGTTT
TTCTCATAAACACAA
Found at i:7666433 original size:127 final size:128
Alignment explanation
Indices: 7666206--7666466 Score: 470
Period size: 127 Copynumber: 2.0 Consensus size: 128
7666196 CAAAGAATAA
* *
7666206 TTTATTCTCTTGAGAAATTTTGTAAGTTTTTACAGTTTTATCATTTTTAAGTGTATTTTTAAGAA
1 TTTATTCTCTTGAGAAATTTTATAAGTTTTTACAGTTTTATCACTTTTAAGTGTATTTTTAAGAA
* *
7666271 TCTGAACTACAATATTAAAGATTGTATTTGGTAAAACGGATCCGTTTTACTTCTAATTTGTGG
66 TCCGAACTACAATATTAAAGATTCTATTTGGTAAAACGGATCCGTTTTACTTCTAATTTGTGG
7666334 TTTATTCTCTTGAGAAA-TTTATAAGTTTTTACAGTTTTATCACTTTTAAGTGTATTTTTAAGAA
1 TTTATTCTCTTGAGAAATTTTATAAGTTTTTACAGTTTTATCACTTTTAAGTGTATTTTTAAGAA
*
7666398 TCCGAACTACAATCTTAAAGATTCTATTTGGTAAAACGGATCCGTTTTACTTCTAATTTGTGG
66 TCCGAACTACAATATTAAAGATTCTATTTGGTAAAACGGATCCGTTTTACTTCTAATTTGTGG
7666461 TTTATT
1 TTTATT
7666467 GTTAATCCTA
Statistics
Matches: 128, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
127 111 0.87
128 17 0.13
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.47
Consensus pattern (128 bp):
TTTATTCTCTTGAGAAATTTTATAAGTTTTTACAGTTTTATCACTTTTAAGTGTATTTTTAAGAA
TCCGAACTACAATATTAAAGATTCTATTTGGTAAAACGGATCCGTTTTACTTCTAATTTGTGG
Found at i:7666514 original size:40 final size:40
Alignment explanation
Indices: 7666454--7666531 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
7666444 TTACTTCTAA
* *
7666454 TTTGTGGTTTATTGTTAATCCTATTTTGTGGTAGTCCTAT
1 TTTGTGGTTTATTCTCAATCCTATTTTGTGGTAGTCCTAT
7666494 TTTGTGGTTTATTCTCAATCCTATTTTGTGGTAGTCCT
1 TTTGTGGTTTATTCTCAATCCTATTTTGTGGTAGTCCT
7666532 GTTATTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.14, C:0.13, G:0.19, T:0.54
Consensus pattern (40 bp):
TTTGTGGTTTATTCTCAATCCTATTTTGTGGTAGTCCTAT
Found at i:7667368 original size:22 final size:22
Alignment explanation
Indices: 7667340--7667385 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
7667330 ACTTTTTGAC
7667340 TTCCTACGTGTATGCTATTATG
1 TTCCTACGTGTATGCTATTATG
7667362 TTCCTACGTGTATGCTATTATG
1 TTCCTACGTGTATGCTATTATG
7667384 TT
1 TT
7667386 TCTTTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (22 bp):
TTCCTACGTGTATGCTATTATG
Found at i:7669906 original size:28 final size:28
Alignment explanation
Indices: 7669875--7669933 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
7669865 CACTGGAACT
7669875 ACAAATTATGAGGAACATCAAATGTGAA
1 ACAAATTATGAGGAACATCAAATGTGAA
7669903 ACAAATTATGAGGAACATCAAATGTGAA
1 ACAAATTATGAGGAACATCAAATGTGAA
7669931 ACA
1 ACA
7669934 TGAAAGAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (28 bp):
ACAAATTATGAGGAACATCAAATGTGAA
Found at i:7673006 original size:23 final size:22
Alignment explanation
Indices: 7672978--7673038 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
7672968 AAATTGTAAT
*
7672978 AATATAAGAATATATGTATGTG
1 AATATAAGAATATATGTATGAG
* * * *
7673000 AATTATAAAAAAATATTTTTGAG
1 AA-TATAAGAATATATGTATGAG
7673023 AATATAAAGAATATAT
1 AATAT-AAGAATATAT
7673039 ATAAGTATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
AATATAAGAATATATGTATGAG
Found at i:7673205 original size:7 final size:7
Alignment explanation
Indices: 7673188--7673217 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
7673178 ATCTATGTAT
7673188 ATATGAAA
1 ATAT-AAA
7673196 ATATAAA
1 ATATAAA
7673203 ATATAAA
1 ATATAAA
7673210 ATATAAA
1 ATATAAA
7673217 A
1 A
7673218 AGTATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
ATATAAA
Found at i:7673338 original size:15 final size:15
Alignment explanation
Indices: 7673315--7673345 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7673305 ATTTTAACAT
7673315 AGATAATAATATATA
1 AGATAATAATATATA
*
7673330 AGATGATAATATATA
1 AGATAATAATATATA
7673345 A
1 A
7673346 ATTTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAATAATATATA
Found at i:7675243 original size:50 final size:50
Alignment explanation
Indices: 7675176--7676454 Score: 728
Period size: 50 Copynumber: 25.7 Consensus size: 50
7675166 ACTGCAACCT
* * *
7675176 CAGGGAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * * ** *** * **
7675226 CGGGGAAGCAAGATTCGCCATCGTAGCTTCAATCTGCTCCGCTGTACCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * *
7675276 CAGGGAAAGTAAGATTCGCCATTGTGGCTTCGATCTCTTT-AATTGCAATGT
1 CAGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAATTGCAATGC
* * ** * *
7675327 CAGGGAA-CAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGC-ATCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAAT-GC
** * *
7675376 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * * *** * * ** *
7675426 CAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCCGCTCCACTATACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* ** *
7675476 CAGGGAAGTGAGATTCGCCGTTGCGGCTTCAATCTCTTT-AATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAATTGCAATGC
* * ** * * *
7675526 CGGGGAA-TAAGATTCGCCGTT-TAGCTTTAATCTGCTCTACTGCATTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
** * *
7675574 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * * ** * * * *
7675624 CAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCTACTGTACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * *
7675674 CAGGGAAATGAGATTCGCCGTTGTGGCTTCAATCTCTTT-AATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAATTGCAATGC
* * * ** * *
7675724 CGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGC-ATCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAAT-GC
* * ** * * *
7675773 CAGGAAAGTAAGATTAGCCGTTGCGGCTTCAATCTTTTTAATTACAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * ** * * * *
7675823 CAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * *
7675873 CAGGGAAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTT-AATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAATTGCAATGC
* * * ** ** * * *
7675923 CGGGGAA-CAAGATTCACTATTGTAGCTTCAATCTAATCCACTGC-ATCTC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAAT-GC
* ** * **
7675972 CA-GGACAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATAT
1 CAGGGA-AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * * ** * * * *
7676022 CAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * * *
7676072 CAAGGAAATGAGATTCGCCGTTGTGGCTTCAATCTCTTT-AATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAATTGCAATGC
* * * ** * *
7676122 CGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC-ATCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAAT-GC
* * * * * *
7676171 CAGGAAAGTAAGATTTGTCGTTGCAGCTTCAATCTTTTTAATTGCAATAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* ** * * * * * *
7676221 CAGGGAAGCAAGATTCGCCGTCATAGCTTTAATCTGTTCCACTGTACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * * ** *
7676271 CAAGGG-AGTGAGATTTGCCGTTGTGGATTTGATCTCTTT-AATTGCAATGT
1 C-AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAATTGCAATGC
* ** ** * *
7676321 CAGGGAA-CAAGATTAACCGTTGTAGCTTCAATCTGATCCACTGC-ATCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAAT-GC
** * *
7676370 CA-GGACAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATAC
1 CAGGGA-AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
* * * *
7676420 CAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATCT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
7676455 GCTCCACTGT
Statistics
Matches: 866, Mismatches: 327, Indels: 72
0.68 0.26 0.06
Matches are distributed among these distances:
47 1 0.00
48 43 0.05
49 184 0.21
50 576 0.67
51 61 0.07
52 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGC
Found at i:7675377 original size:100 final size:101
Alignment explanation
Indices: 7675176--7676463 Score: 1487
Period size: 100 Copynumber: 12.9 Consensus size: 101
7675166 ACTGCAACCT
* *
7675176 CAGGG-AAGTAAGATTCGCCGTTGCAGCTTCAATCT-TTTAAATTGCAATGTCGGGGAAGCAAGA
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTT-AATTGCAATGTCAGGGAAGCAAGA
* * * * *
7675239 TTCGCCATCGTAGCTTCAATCTGCTCCGCTGTACCGC
65 TTCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* * *
7675276 CAGGGAAAGTAAGATTCGCCATTGTGGCTTCGATCTCTTTAATTGCAATGTCAGGGAA-CAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
*
7675340 TCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* **
7675376 CAGGG-AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* *
7675440 TCACCGTCGTAGCTTTAATCCGCTCCACT--ATACTGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCAT-C-GC
* * *
7675476 CAGGG-AAGTGAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-TAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* * *
7675539 TCGCCGT-TTAGCTTTAATCTGCTCTACTGCATTGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* **
7675574 CAGGG-AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* * *
7675638 TCACCGTCGTAGCTTTAATCTGCTCTACTGTA-CTGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATC-GC
* * *
7675674 CAGGGAAA-TGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* * * *
7675737 TCACCGTTGTAGCTTCAATCTGATCCACTGCATCGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* * * **
7675773 CA-GGAAAGTAAGATTAGCCGTTGCGGCTTCAATCTTTTTAATTACAATACCAGGGAAGCAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
*
7675837 TCGCCGTCGTAGCTTTAATCTGCTCCACTGTA-CTGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATC-GC
* * * *
7675873 CAGGG-AAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* ** * * ** *
7675936 TCACTATTGTAGCTTCAATCTAATCCACTGCATCTC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* * * *
7675972 CA-GGACAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATATCAGGGAAGCAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* *
7676036 TCACCGTCGTAGCTTTAATCTGCTCCACTGTA-CTGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATC-GC
* * * *
7676072 CAAGGAAA-TGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* * * *
7676135 TCGCCATTGTAGCTTCAATCTGATCCACTGCATCGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* * * * **
7676171 CA-GGAAAGTAAGATTTGTCGTTGCAGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
* * *
7676235 TCGCCGTCATAGCTTTAATCTGTTCCACTGTA-CTGC
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATC-GC
* * * * **
7676271 CAAGGG--AGTGAGATTTGCCGTTGTGGATTTGATCTCTTTAATTGCAATGTCAGGGAA-CAAGA
1 C-AGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGA
** * * *
7676333 TTAACCGTTGTAGCTTCAATCTGATCCACTGCATCGC
65 TTCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
* * **
7676370 CA-GGACAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGAT
1 CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
*
7676434 TCGTCGTCGTAGCTTTAATCTGCTCCACTG
66 TCGCCGTCGTAGCTTTAATCTGCTCCACTG
7676464 TACTGCTAGG
Statistics
Matches: 999, Mismatches: 158, Indels: 62
0.82 0.13 0.05
Matches are distributed among these distances:
97 2 0.00
98 87 0.09
99 379 0.38
100 474 0.47
101 52 0.05
102 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (101 bp):
CAGGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTTAATTGCAATGTCAGGGAAGCAAGAT
TCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGC
Found at i:7675855 original size:199 final size:199
Alignment explanation
Indices: 7675176--7676476 Score: 2012
Period size: 199 Copynumber: 6.5 Consensus size: 199
7675166 ACTGCAACCT
* * * ** *
7675176 CAGGGAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* * * * * *
7675241 CGCCATCGTAGCTTCAATCTGCTCCGCTGTACCGCCAGGGAAAGTAAGATTCGCCATTGTGGCTT
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAA-TGAGATTCGCCGTTGTGGCTT
* * * * *
7675306 CGATCTCTTTAATTGCAATGTCAGGGAACAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGC
130 CAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGC
7675371 ATCGC
195 ATCGC
*
7675376 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* * * * *
7675441 CACCGTCGTAGCTTTAATCCGCTCCACTATACTGCCAGGGAAGTGAGATTCGCCGTTGCGGCTTC
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAATGAGATTCGCCGTTGTGGCTTC
* * * * *
7675506 AATCTCTTTAATTGCAATGTCGGGGAATAAGATTCGCCGTT-TAGCTTTAATCTGCTCTACTGCA
131 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA
*
7675570 TTGC
196 TCGC
*
7675574 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* *
7675639 CACCGTCGTAGCTTTAATCTGCTCTACTGTACTGCCAGGGAAATGAGATTCGCCGTTGTGGCTTC
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAATGAGATTCGCCGTTGTGGCTTC
7675704 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA
131 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA
7675769 TCGC
196 TCGC
* *
7675773 CAGGAAAGTAAGATTAGCCGTTGCGGCTTCAATCTTTTTAATTACAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* *
7675838 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTTGCCGTTGTGGCTTC
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAATGAGATTCGCCGTTGTGGCTTC
** *
7675903 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACTATTGTAGCTTCAATCTAATCCACTGCA
131 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA
*
7675968 TCTC
196 TCGC
* * *
7675972 CAGGACAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATATCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* *
7676037 CACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAAGGAAATGAGATTCGCCGTTGTGGCTTC
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAATGAGATTCGCCGTTGTGGCTTC
* *
7676102 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
131 AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA
7676167 TCGC
196 TCGC
* * *
7676171 CAGGAAAGTAAGATTTGTCGTTGCAGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* * * * *
7676236 CGCCGTCATAGCTTTAATCTGTTCCACTGTACTGCCAAGGG-AGTGAGATTTGCCGTTGTGGATT
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCC-AGGGAAATGAGATTCGCCGTTGTGGCTT
** * *
7676300 TGATCTCTTTAATTGCAATGTCAGGGAACAAGATTAACCGTTGTAGCTTCAATCTGATCCACTGC
130 CAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGC
7676365 ATCGC
195 ATCGC
*
7676370 CAGGACAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
1 CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
* *
7676435 CGTCGTCGTAGCTTTAATCTGCTCCACTGTACTGCTAGGGAA
66 CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
7676477 GGTAACTTCA
Statistics
Matches: 1017, Mismatches: 81, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
198 193 0.19
199 726 0.71
200 98 0.10
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (199 bp):
CAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATACCAGGGAAGCAAGATT
CGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAATGAGATTCGCCGTTGTGGCTTC
AATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA
TCGC
Found at i:7677738 original size:17 final size:17
Alignment explanation
Indices: 7677718--7677754 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7677708 CTTTTTGTTG
*
7677718 TTCTTTTCTTTTCCTTT
1 TTCTTTTCGTTTCCTTT
*
7677735 TTCTTTTCGTTTCTTTT
1 TTCTTTTCGTTTCCTTT
7677752 TTC
1 TTC
7677755 AAGTGAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.76
Consensus pattern (17 bp):
TTCTTTTCGTTTCCTTT
Found at i:7677752 original size:23 final size:23
Alignment explanation
Indices: 7677702--7677751 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
7677692 TTGGCCTCTC
* *
7677702 CTTTTCCTTTTTGTTGTTCTTTT
1 CTTTTCCTTTTTCTTGTTCGTTT
7677725 CTTTTCCTTTTTCTT-TTCGTTT
1 CTTTTCCTTTTTCTTGTTCGTTT
7677747 CTTTT
1 CTTTT
7677752 TTCAAGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (23 bp):
CTTTTCCTTTTTCTTGTTCGTTT
Found at i:7695016 original size:18 final size:18
Alignment explanation
Indices: 7694993--7695027 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7694983 TTTTATTACC
7694993 AGTGGTTTATCCACAACG
1 AGTGGTTTATCCACAACG
7695011 AGTGGTTTATCCACAAC
1 AGTGGTTTATCCACAAC
7695028 CTGGTGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
AGTGGTTTATCCACAACG
Found at i:7696274 original size:33 final size:34
Alignment explanation
Indices: 7696229--7696292 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
7696219 TTCAGTCAAA
7696229 ATTTTATAATATTATAAATAA-TATACATTTTATT
1 ATTTTATAATATTATAAATAATTATA-ATTTTATT
*
7696263 ATTTTA-AATATTTTAAATAATTATAATTTT
1 ATTTTATAATATTATAAATAATTATAATTTT
7696293 TAACACGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (34 bp):
ATTTTATAATATTATAAATAATTATAATTTTATT
Found at i:7699745 original size:19 final size:20
Alignment explanation
Indices: 7699704--7699746 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
7699694 TAAAAATGAT
*
7699704 AAAAAAATCATAAAAAGTCA
1 AAAAAAATCATAAAAAGTAA
* *
7699724 AAAAAAAT-ATAAATATTAA
1 AAAAAAATCATAAAAAGTAA
7699743 AAAA
1 AAAA
7699747 TATTAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAAAATCATAAAAAGTAA
Found at i:7699829 original size:60 final size:59
Alignment explanation
Indices: 7699723--7699859 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
7699713 ATAAAAAGTC
* * * *
7699723 AAAAAAAATATAAATA--TTAAAAAATATTAAAATTGATATAAACTTAT-TAGAATTAT
1 AAAAAAAATATAAAAACTTTAAAAAATATTAAAATTGACATAAACTTATAAAAAATTAT
* *
7699779 AAAAAAAATATAAAGACTTATAAATAAATATTAAAATTGACATAAGCTTATAAAAAATTAT
1 AAAAAAAATATAAAAACTT-TAAA-AAATATTAAAATTGACATAAACTTATAAAAAATTAT
*
7699840 ATAAAAAATCATAAAAACTT
1 AAAAAAAAT-ATAAAAACTT
7699860 GAACTTAACC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 15 0.22
58 1 0.01
59 4 0.06
60 24 0.35
61 15 0.22
62 9 0.13
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (59 bp):
AAAAAAAATATAAAAACTTTAAAAAATATTAAAATTGACATAAACTTATAAAAAATTAT
Found at i:7702042 original size:52 final size:52
Alignment explanation
Indices: 7701926--7702106 Score: 294
Period size: 52 Copynumber: 3.5 Consensus size: 52
7701916 CGGATACCCG
* * * *
7701926 GTGGCCTACACATAGTACCACTCTTGT-AGCGAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTTCTTCACAAA
7701977 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
7702029 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
*
7702081 GTGGCCTTCACATAGTACTACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
7702107 AGTCACTAGT
Statistics
Matches: 123, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
51 33 0.27
52 90 0.73
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
Found at i:7704052 original size:23 final size:23
Alignment explanation
Indices: 7704022--7704066 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
7704012 CAATTAAGGT
7704022 AAGTATATAAAGCATACTCAAGC
1 AAGTATATAAAGCATACTCAAGC
7704045 AAGTATATAAAGCATACTCAAG
1 AAGTATATAAAGCATACTCAAG
7704067 AAAGATGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (23 bp):
AAGTATATAAAGCATACTCAAGC
Found at i:7704611 original size:26 final size:26
Alignment explanation
Indices: 7704565--7704634 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
7704555 GCCATATCGA
7704565 GAAGCTC-CGAAA-AGCCATTAAACAG
1 GAAGCTCAC-AAAGAGCCATTAAACAG
* ***
7704590 GAAGCTCACAAAGAGCCTTTAATTGG
1 GAAGCTCACAAAGAGCCATTAAACAG
*
7704616 GAAGCTCACGAAGAGCCAT
1 GAAGCTCACAAAGAGCCAT
7704635 ATATCGGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 10 0.27
26 27 0.73
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATTAAACAG
Found at i:7705120 original size:21 final size:22
Alignment explanation
Indices: 7705091--7705133 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7705081 AAGAGTAAAT
*
7705091 TTAACTCAATTTAATACAATTC
1 TTAACTCAATTCAATACAATTC
*
7705113 TTAA-TCAATTCAATTCAATTC
1 TTAACTCAATTCAATACAATTC
7705134 ACATCTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAACTCAATTCAATACAATTC
Found at i:7706134 original size:19 final size:19
Alignment explanation
Indices: 7706084--7706157 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
7706074 AATTTAATAC
*
7706084 TTTTAATACTTTTTA-TAT
1 TTTTAATATTTTTTATTAT
7706102 TTTTAATCA-TTTTTATTAT
1 TTTTAAT-ATTTTTTATTAT
* *
7706121 TTTTAATATTTTTTATAGAA
1 TTTTAATATTTTTTAT-TAT
7706141 TTTTAATATGTTTTTAT
1 TTTTAATAT-TTTTTAT
7706158 AAAATCTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
18 14 0.29
19 18 0.37
20 10 0.20
21 7 0.14
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTAATATTTTTTATTAT
Found at i:7706154 original size:10 final size:9
Alignment explanation
Indices: 7706076--7706133 Score: 73
Period size: 9 Copynumber: 6.3 Consensus size: 9
7706066 AGTATATTAA
*
7706076 TTTAATACT
1 TTTAATATT
7706085 TTTAATACTT
1 TTTAATA-TT
7706095 TTT-ATATT
1 TTTAATATT
7706103 TTTAATCATT
1 TTTAAT-ATT
*
7706113 TTTATTATT
1 TTTAATATT
7706122 TTTAATATT
1 TTTAATATT
7706131 TTT
1 TTT
7706134 TATAGAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
8 5 0.12
9 26 0.60
10 12 0.28
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTAATATT
Found at i:7706154 original size:21 final size:20
Alignment explanation
Indices: 7706084--7706172 Score: 69
Period size: 19 Copynumber: 4.5 Consensus size: 20
7706074 AATTTAATAC
* *
7706084 TTTTAATACTTTTTAT--AT
1 TTTTAATATTTTTTATAAAA
* *
7706102 TTTTAATCA-TTTTTAT-TAT
1 TTTTAAT-ATTTTTTATAAAA
*
7706121 TTTTAATATTTTTTATAGAA
1 TTTTAATATTTTTTATAAAA
7706141 TTTTAATATGTTTTTATAAAA
1 TTTTAATAT-TTTTTATAAAA
*
7706162 TCTTAAATATT
1 T-TTTAATATT
7706173 CTAAATATAC
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
18 15 0.25
19 17 0.28
20 10 0.16
21 12 0.20
22 7 0.11
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAATATTTTTTATAAAA
Found at i:7706170 original size:22 final size:20
Alignment explanation
Indices: 7706125--7706172 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
7706115 TATTATTTTT
* *
7706125 AATATTTTTTATAGAATTTT
1 AATATTTTTTATAAAATTTA
7706145 AATATGTTTTTATAAAATCTTA
1 AATAT-TTTTTATAAAAT-TTA
7706167 AATATT
1 AATATT
7706173 CTAAATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 12 0.50
22 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
AATATTTTTTATAAAATTTA
Found at i:7706237 original size:16 final size:18
Alignment explanation
Indices: 7706211--7706243 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7706201 TTTATCATTT
7706211 ATTAGAA-TTTTTATAAA
1 ATTAGAATTTTTTATAAA
7706228 ATTA-AATTTTTTATAA
1 ATTAGAATTTTTTATAA
7706244 TTTTTATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
ATTAGAATTTTTTATAAA
Found at i:7706249 original size:54 final size:54
Alignment explanation
Indices: 7706183--7706321 Score: 124
Period size: 54 Copynumber: 2.6 Consensus size: 54
7706173 CTAAATATAC
*
7706183 TTTATTAA-TTTTAT-ATTTTTTATCATTTATTAGAATTTTTATAAAATTAA-ATTT
1 TTTA-TAATTTTTATAATTTTTTATCATTTATCA-AATTTTTA-AAAATTAATATTT
* * * * *
7706237 TTTATAATTTTTATAAGTTTATATCAATTT-TCATATTTTTAATATTTAATATTT
1 TTTATAATTTTTATAATTTTTTATC-ATTTATCAAATTTTTAAAAATTAATATTT
* * * *
7706291 TTTCTTATTTTTATGATTTTTAATCATTTAT
1 TTTATAATTTTTATAATTTTTTATCATTTAT
7706322 GGGAAAAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
53 13 0.19
54 41 0.60
55 10 0.15
56 4 0.06
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (54 bp):
TTTATAATTTTTATAATTTTTTATCATTTATCAAATTTTTAAAAATTAATATTT
Found at i:7706510 original size:29 final size:29
Alignment explanation
Indices: 7706456--7706516 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
7706446 TTAATTAATG
*
7706456 ACAGGGGCTTAACATGGTACGGATTTTAT
1 ACAGGGGCTTAACATGGTACGAATTTTAT
* *
7706485 ACAGGGGCTTAATA-GAGTATGAATTTTAT
1 ACAGGGGCTTAACATG-GTACGAATTTTAT
7706514 ACA
1 ACA
7706517 AGTACTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (29 bp):
ACAGGGGCTTAACATGGTACGAATTTTAT
Found at i:7710156 original size:17 final size:17
Alignment explanation
Indices: 7710136--7710169 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7710126 CCAAAAGGAG
7710136 AAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAGAA
* *
7710153 AAAAGAAAAAGAAAGAA
1 AAAAAAAAAAAAAAGAA
7710170 GAGAAAGCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAA
Found at i:7710171 original size:13 final size:13
Alignment explanation
Indices: 7710138--7710176 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
7710128 AAAAGGAGAA
*
7710138 AAAAAAAAAAAAG
1 AAAAAAGAAAAAG
7710151 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
* *
7710164 AAAGAAGAGAAAG
1 AAAAAAGAAAAAG
7710177 CAGTAAAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:7730664 original size:14 final size:14
Alignment explanation
Indices: 7730645--7730674 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7730635 TTTGGGAATC
7730645 GATCAATGACGTAA
1 GATCAATGACGTAA
*
7730659 GATCAATGATGTAA
1 GATCAATGACGTAA
7730673 GA
1 GA
7730675 AATGCGGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.23
Consensus pattern (14 bp):
GATCAATGACGTAA
Found at i:7732761 original size:30 final size:30
Alignment explanation
Indices: 7732712--7732792 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
7732702 ATATATAAAA
7732712 TTTTA-AATATTTT-TATATTTTT-GTATTTT
1 TTTTACAAT-TTTTATATATTTTTAGTA-TTT
7732741 TTTTACAATTTTTATATATTTTTAGTATTT
1 TTTTACAATTTTTATATATTTTTAGTATTT
* * *
7732771 TCTTGCACTTTTTATA-ATTTTT
1 TTTTACAATTTTTATATATTTTT
7732793 TTTACATTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.33
30 28 0.61
31 3 0.07
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (30 bp):
TTTTACAATTTTTATATATTTTTAGTATTT
Found at i:7733429 original size:29 final size:29
Alignment explanation
Indices: 7733388--7733462 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 29
7733378 ATTTTAAATG
7733388 ATTA-AAAAAATAAATATATTTATTATAT
1 ATTATAAAAAATAAATATATTTATTATAT
7733416 ATTATAAAAAAT--A-A-ATTTATTATAT
1 ATTATAAAAAATAAATATATTTATTATAT
*
7733441 ATTATAAAAAATAAATTTATTT
1 ATTATAAAAAATAAATATATTT
7733463 TAAATAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
25 23 0.56
26 1 0.02
27 2 0.05
28 4 0.10
29 11 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTATAAAAAATAAATATATTTATTATAT
Found at i:7733433 original size:25 final size:25
Alignment explanation
Indices: 7733399--7733479 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
7733389 TTAAAAAAAT
*
7733399 AAATATATTTATTATATATTATAAA
1 AAATAAATTTATTATATATTATAAA
7733424 AAATAAATTTATTATATATTATAAA
1 AAATAAATTTATTATATATTATAAA
* * * *
7733449 AAATAAATTTATTTTAAATAATTAA
1 AAATAAATTTATTATATATTATAAA
7733474 AAATAA
1 AAATAA
7733480 TATAATATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AAATAAATTTATTATATATTATAAA
Found at i:7735748 original size:25 final size:25
Alignment explanation
Indices: 7735684--7735756 Score: 112
Period size: 24 Copynumber: 3.0 Consensus size: 25
7735674 GCGGACACAC
*
7735684 CACAGCTCGTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTATCGATT
* *
7735709 -TCAGCTCGTAAGAGCTTATCGATT
1 CACAGCTCGTATGAGCTTATCGATT
7735733 CACAGCTCGTATGAGCTTATCGAT
1 CACAGCTCGTATGAGCTTATCGAT
7735757 ATTCAGCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTATCGATT
Found at i:7735763 original size:25 final size:24
Alignment explanation
Indices: 7735686--7735797 Score: 120
Period size: 25 Copynumber: 4.6 Consensus size: 24
7735676 GGACACACCA
*
7735686 CAGCTCGTATGAGCTTACCGATTT
1 CAGCTCGTATGAGCTTATCGATTT
* *
7735710 CAGCTCGTAAGAGCTTATCGATTCA
1 CAGCTCGTATGAGCTTATCGATT-T
7735735 CAGCTCGTATGAGCTTATCGATATT
1 CAGCTCGTATGAGCTTATCGAT-TT
* * *
7735760 CAGCTCAG-AGGAGCTTACCGTTTAT
1 CAGCTC-GTATGAGCTTATCGATT-T
7735785 C-GCTCGTATGAGC
1 CAGCTCGTATGAGC
7735798 ATACATGTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
23 1 0.01
24 31 0.42
25 40 0.54
26 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTATCGATTT
Found at i:7735790 original size:49 final size:49
Alignment explanation
Indices: 7735684--7735797 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 49
7735674 GCGGACACAC
*
7735684 CACAGCTCGTATGAGCTTACCGATTTCAGCTCGTAAGAGCTTATCGATT
1 CACAGCTCGTATGAGCTTACCGATTTCAGCTCGTAAGAGCTTACCGATT
* *
7735733 CACAGCTCGTATGAGCTTATCGATATTCAGCTCAG-AGGAGCTTACCG-TT
1 CACAGCTCGTATGAGCTTACCGAT-TTCAGCTC-GTAAGAGCTTACCGATT
*
7735782 TATC-GCTCGTATGAGC
1 CA-CAGCTCGTATGAGC
7735798 ATACATGTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
49 38 0.66
50 19 0.33
51 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (49 bp):
CACAGCTCGTATGAGCTTACCGATTTCAGCTCGTAAGAGCTTACCGATT
Found at i:7739680 original size:25 final size:25
Alignment explanation
Indices: 7739628--7739714 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 25
7739618 TCGCAGCTCT
7739628 AGCTCGTGA-GAGCTTACCG-AT-TCAC
1 AGCTCGT-ATGAGCTTACCGTATAT--C
*
7739653 AGCTCGTATGAGTTTACCG-ATATTC
1 AGCTCGTATGAGCTTACCGTATA-TC
** *
7739678 AGCTCAAATGAGCTTACCGTTTATC
1 AGCTCGTATGAGCTTACCGTATATC
7739703 -GCTCGTATGAGC
1 AGCTCGTATGAGC
7739715 ATGTATGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
24 11 0.22
25 37 0.73
26 2 0.04
27 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGTATATC
Found at i:7747355 original size:17 final size:17
Alignment explanation
Indices: 7747333--7747366 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7747323 AATATTGCAC
7747333 TTAGGGCTTTAGAATTG
1 TTAGGGCTTTAGAATTG
7747350 TTAGGGCTTTAGAATTG
1 TTAGGGCTTTAGAATTG
7747367 CTATGGGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (17 bp):
TTAGGGCTTTAGAATTG
Found at i:7749406 original size:17 final size:17
Alignment explanation
Indices: 7749373--7749406 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7749363 TTAATGAGCT
*
7749373 TCTTACAATCAATTATC
1 TCTTACAATCAAGTATC
*
7749390 TCTTACAATCACGTATC
1 TCTTACAATCAAGTATC
7749407 ATGTACAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (17 bp):
TCTTACAATCAAGTATC
Found at i:7752050 original size:18 final size:18
Alignment explanation
Indices: 7752024--7752059 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7752014 ATTTTATTTA
7752024 GTTTACTTTATTTTTCTC
1 GTTTACTTTATTTTTCTC
* *
7752042 GTTTTCTTTTTTTTTCTC
1 GTTTACTTTATTTTTCTC
7752060 TCATTTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (18 bp):
GTTTACTTTATTTTTCTC
Found at i:7754201 original size:23 final size:22
Alignment explanation
Indices: 7754175--7754217 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7754165 TTTAATTAAT
7754175 GCAAATGAAAACAAAACCATGTA
1 GCAAAT-AAAACAAAACCATGTA
* *
7754198 GCAACTCAAACAAAACCATG
1 GCAAATAAAACAAAACCATG
7754218 ATGTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.53, C:0.23, G:0.12, T:0.12
Consensus pattern (22 bp):
GCAAATAAAACAAAACCATGTA
Found at i:7758568 original size:2 final size:2
Alignment explanation
Indices: 7758561--7758599 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
7758551 ATTTTTCTTT
* *
7758561 TA TA TA TA TA TA TA TA TA TA TA TT TA TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7758600 GTGTGTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7759412 original size:17 final size:16
Alignment explanation
Indices: 7759380--7759419 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7759370 TAATTTATTA
7759380 AATAAAA-ATGATTTT
1 AATAAAATATGATTTT
*
7759395 AATTAAAATATTATTTT
1 AA-TAAAATATGATTTT
7759412 AATAAAAT
1 AATAAAAT
7759420 GCTTAAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAAAATATGATTTT
Found at i:7761281 original size:31 final size:31
Alignment explanation
Indices: 7761246--7761304 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
7761236 AATAATTTTT
* * *
7761246 CTCTTTTTGAAAAGTTGATGGTAAAATTAGA
1 CTCTTTTTAAAAAATTGAGGGTAAAATTAGA
*
7761277 CTCTTTTTAAAAAATTGAGGGTCAAATT
1 CTCTTTTTAAAAAATTGAGGGTAAAATT
7761305 TAACTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (31 bp):
CTCTTTTTAAAAAATTGAGGGTAAAATTAGA
Found at i:7762064 original size:11 final size:11
Alignment explanation
Indices: 7762048--7762090 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
7762038 TAAATTTAAA
7762048 TTTTAAAATAT
1 TTTTAAAATAT
7762059 TTTTAAAATACTT
1 TTTTAAAATA--T
* *
7762072 TTTTTAAATTT
1 TTTTAAAATAT
7762083 TTTTAAAA
1 TTTTAAAA
7762091 AATTGGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:7762990 original size:2 final size:2
Alignment explanation
Indices: 7762983--7763032 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
7762973 GCTAACATGC
7762983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7763025 AT AT AT AT
1 AT AT AT AT
7763033 CGATATGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7765140 original size:30 final size:31
Alignment explanation
Indices: 7765098--7765157 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
7765088 TGGGGTGGGA
*
7765098 TGGGAGGAGAGTAAAAGTTTTGGGGAAAAAG
1 TGGGAGGAGAGTAAAAGTATTGGGGAAAAAG
*
7765129 TGGGAGG-GAGTAAAAGTATTGGGGGAAAA
1 TGGGAGGAGAGTAAAAGTATTGGGGAAAAA
7765158 TAAAAAGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.18
Consensus pattern (31 bp):
TGGGAGGAGAGTAAAAGTATTGGGGAAAAAG
Found at i:7766455 original size:233 final size:233
Alignment explanation
Indices: 7766041--7766489 Score: 781
Period size: 233 Copynumber: 1.9 Consensus size: 233
7766031 GTTGTTGTCT
7766041 AGTATCCAAGATGCATATACATTCGGCAAAAGGAACCAAAACAACATTAATCTTGTCAAGGAAAT
1 AGTATCCAAGATGCATATACATTCGGCAAAAGGAACCAAAACAACATTAATCTTGTCAAGGAAAT
* *
7766106 TTAAGCCAAGAACATAGTTGTAATCATCCAAGTGAATTACCTTGAAGTCTTCCTTGCCTTTCTAT
66 TTAAGCCAAGAACATAGTTGTAATCATCCAAGTGAATTACCTCGAAGTCTTCCTTACCTTTCTAT
* * * *
7766171 TGACCAATCCATAGCTCAACTCTTTCTACTACTTTCACAGTTGGAACCTCTTTGGAATCTTTATC
131 TGACCAATCCATAGCTCAACCCCTTCTACTACTCTCACAGTTGGAACCTCTTTGGAATCTTCATC
7766236 TTTTTAGTTAATTCATTAACTAAAACATTAATCTTGTG
196 TTTTTAGTTAATTCATTAACTAAAACATTAATCTTGTG
*
7766274 AGTATCCAAGATGCATATACATTTGGCAAAAGGAACCAAAACAACATTAATCTTGTCAAGGAAAT
1 AGTATCCAAGATGCATATACATTCGGCAAAAGGAACCAAAACAACATTAATCTTGTCAAGGAAAT
* *
7766339 TTAAGCCAAGAACATAGTTGTAATCATCCAAGTGAATTACCTCGAAGTGTTTCTTACCTTTCTAT
66 TTAAGCCAAGAACATAGTTGTAATCATCCAAGTGAATTACCTCGAAGTCTTCCTTACCTTTCTAT
* * *
7766404 TGACCAATCCATAGCTCAACCCCTTCTGCTACTCTCACGGTTGGGACCTCTTTGGAATCTTCATC
131 TGACCAATCCATAGCTCAACCCCTTCTACTACTCTCACAGTTGGAACCTCTTTGGAATCTTCATC
*
7766469 TTTTTAGTTGATTCATTAACT
196 TTTTTAGTTAATTCATTAACT
7766490 GAGAGACCAA
Statistics
Matches: 203, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
233 203 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (233 bp):
AGTATCCAAGATGCATATACATTCGGCAAAAGGAACCAAAACAACATTAATCTTGTCAAGGAAAT
TTAAGCCAAGAACATAGTTGTAATCATCCAAGTGAATTACCTCGAAGTCTTCCTTACCTTTCTAT
TGACCAATCCATAGCTCAACCCCTTCTACTACTCTCACAGTTGGAACCTCTTTGGAATCTTCATC
TTTTTAGTTAATTCATTAACTAAAACATTAATCTTGTG
Found at i:7766513 original size:27 final size:27
Alignment explanation
Indices: 7766475--7766528 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7766465 CATCTTTTTA
7766475 GTTGATTCATTAACTGAGAGACCAAGC
1 GTTGATTCATTAACTGAGAGACCAAGC
7766502 GTTGATTCATTAACTGAGAGACCAAGC
1 GTTGATTCATTAACTGAGAGACCAAGC
7766529 TTACCCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
GTTGATTCATTAACTGAGAGACCAAGC
Found at i:7768621 original size:59 final size:58
Alignment explanation
Indices: 7768511--7768625 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 58
7768501 TTTTTGATAT
* *
7768511 CCCAACTATAAAAAGTTATAAAAAGGTCACTTAACTATTACTAAATTTCTTTTTTGTCA
1 CCCAACTATAAAAAGTTACAAAAAGGTCACCTAACTATTA-TAAATTTCTTTTTTGTCA
* * *
7768570 CCCAACTATGAAAAGTTACAAAATGGTCACCTAACTATT-TAATTTCGTCTTTTTTG
1 CCCAACTATAAAAAGTTACAAAAAGGTCACCTAACTATTATAAATT--TCTTTTTTG
7768626 GTAACCAGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 5 0.10
59 44 0.90
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (58 bp):
CCCAACTATAAAAAGTTACAAAAAGGTCACCTAACTATTATAAATTTCTTTTTTGTCA
Found at i:7768790 original size:12 final size:12
Alignment explanation
Indices: 7768758--7768801 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
7768748 ACATTGTGTA
7768758 TTTTGTTTGTTT
1 TTTTGTTTGTTT
*
7768770 GTTTGTTTGTTT
1 TTTTGTTTGTTT
*
7768782 TTTTTTTTGCTTT
1 TTTTGTTTG-TTT
7768795 TCTTTGT
1 T-TTTGT
7768802 GACCCTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 18 0.69
13 4 0.15
14 4 0.15
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.80
Consensus pattern (12 bp):
TTTTGTTTGTTT
Found at i:7769143 original size:29 final size:31
Alignment explanation
Indices: 7769100--7769160 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
7769090 GTCTGGTGAT
7769100 AAAAAAGACAAAATTA-AATAGTTAGGTGACC
1 AAAAAAGA-AAAATTACAATAGTTAGGTGACC
*
7769131 AAAAAAG-AAAATTACTAATGGTTAGGTGAC
1 AAAAAAGAAAAATTAC-AATAGTTAGGTGAC
7769161 TATTTTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 7 0.26
31 20 0.74
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.21
Consensus pattern (31 bp):
AAAAAAGAAAAATTACAATAGTTAGGTGACC
Found at i:7769345 original size:13 final size:14
Alignment explanation
Indices: 7769305--7769347 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
7769295 CAATTTTCAA
* *
7769305 TTTTTAAGATTTAT
1 TTTTTCAGATTGAT
7769319 TTTTTCAGCATTGAT
1 TTTTTCAG-ATTGAT
7769334 TTTTTCAG-TTGAT
1 TTTTTCAGATTGAT
7769347 T
1 T
7769348 AAACAACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 6 0.23
14 7 0.27
15 13 0.50
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (14 bp):
TTTTTCAGATTGAT
Found at i:7770167 original size:16 final size:17
Alignment explanation
Indices: 7770135--7770167 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7770125 TCCTTTCAAA
*
7770135 ATATTTAATTTTGTAAT
1 ATATTTAATTTTATAAT
7770152 ATATTT-ATTTTATAAT
1 ATATTTAATTTTATAAT
7770168 TTGATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTAATTTTATAAT
Found at i:7770311 original size:24 final size:23
Alignment explanation
Indices: 7770268--7770315 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
7770258 ATCATTATCT
7770268 TTTAATATTATTTTCCTATTAAAA
1 TTTAATATTATTTT-CTATTAAAA
7770292 TTTAATATTTTATTTT-TATTAAAA
1 TTTAATA--TTATTTTCTATTAAAA
7770316 AATATTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 15 0.68
26 7 0.32
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAATATTATTTTCTATTAAAA
Found at i:7770367 original size:26 final size:26
Alignment explanation
Indices: 7770334--7770442 Score: 128
Period size: 26 Copynumber: 4.0 Consensus size: 26
7770324 GGAAATTCAT
7770334 GATAATAATAATTTTAAAATTTAAGG
1 GATAATAATAATTTTAAAATTTAAGG
7770360 GATAATAATAACTATTTTAAAATTTAAGAG
1 GATAATAAT-A--ATTTTAAAATTTAAG-G
* * *
7770390 ATGATAATAATTATTTTAAACTTTAAGA
1 --GATAATAATAATTTTAAAATTTAAGG
*
7770418 GATAATAATAATTTTAAATTTTAAG
1 GATAATAATAATTTTAAAATTTAAG
7770443 AGAGAATTAC
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
26 32 0.44
27 1 0.01
29 29 0.40
30 1 0.01
32 9 0.12
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (26 bp):
GATAATAATAATTTTAAAATTTAAGG
Found at i:7770376 original size:29 final size:28
Alignment explanation
Indices: 7770335--7770445 Score: 145
Period size: 29 Copynumber: 3.9 Consensus size: 28
7770325 GAAATTCATG
*
7770335 ATAATAATAATTTTAAAATTTAAGGGATA
1 ATAATAAT-ATTTTAAAATTTAAGAGATA
*
7770364 ATAATAACTATTTTAAAATTTAAGAGATG
1 ATAATAA-TATTTTAAAATTTAAGAGATA
*
7770393 ATAATAATTATTTTAAACTTTAAGAGATA
1 ATAATAA-TATTTTAAAATTTAAGAGATA
*
7770422 ATAAT-A-ATTTTAAATTTTAAGAGA
1 ATAATAATATTTTAAAATTTAAGAGA
7770446 GAATTACTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 17 0.23
28 1 0.01
29 56 0.75
30 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.40
Consensus pattern (28 bp):
ATAATAATATTTTAAAATTTAAGAGATA
Found at i:7770400 original size:58 final size:55
Alignment explanation
Indices: 7770332--7770445 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 55
7770322 ATGGAAATTC
*
7770332 ATGATAATAATAATTTTAAAATTTAAGGGATAATAATAACTATTTTAAAATTTAAGAG
1 ATGATAATAATAATTTTAAAATTTAAGAGATAATAAT-A--ATTTTAAAATTTAAGAG
* * *
7770390 ATGATAATAATTATTTTAAACTTTAAGAGATAATAATAATTTTAAATTTTAAGAG
1 ATGATAATAATAATTTTAAAATTTAAGAGATAATAATAATTTTAAAATTTAAGAG
7770445 A
1 A
7770446 GAATTACTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
55 17 0.33
57 1 0.02
58 34 0.65
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (55 bp):
ATGATAATAATAATTTTAAAATTTAAGAGATAATAATAATTTTAAAATTTAAGAG
Found at i:7772207 original size:30 final size:29
Alignment explanation
Indices: 7772173--7772231 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
7772163 GAATTTGATC
*
7772173 AAATCAAAATTTCT-TGTGTAAAATTGCACA
1 AAATC-AAATTT-TATGTATAAAATTGCACA
*
7772203 AAATCAAATTTTATGTATACAATTGCACA
1 AAATCAAATTTTATGTATAAAATTGCACA
7772232 TTAAACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 20 0.77
30 5 0.19
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (29 bp):
AAATCAAATTTTATGTATAAAATTGCACA
Found at i:7773646 original size:19 final size:17
Alignment explanation
Indices: 7773604--7773636 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7773594 TATATTTTTA
7773604 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
7773621 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
7773637 TATATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:7782332 original size:30 final size:30
Alignment explanation
Indices: 7782295--7782383 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
7782285 CACGAGAATA
*
7782295 AGTTGCTCACACAAGCTGTCAATATATCAG
1 AGTTGCTCACACAAGCTGACAATATATCAG
* * *
7782325 GGTTGCTCACACAAGCTGGCACTATAAT-AG
1 AGTTGCTCACACAAGCTGACAATAT-ATCAG
7782355 AGTTGCTCACACAAGCTGACAATATATCA
1 AGTTGCTCACACAAGCTGACAATATATCA
7782384 AGCTTACTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
29 2 0.04
30 47 0.92
31 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (30 bp):
AGTTGCTCACACAAGCTGACAATATATCAG
Found at i:7788952 original size:19 final size:18
Alignment explanation
Indices: 7788919--7788954 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7788909 TGTCTTTCGT
*
7788919 ATTTGGGTTAGTTAGTTA
1 ATTTGGGTGAGTTAGTTA
7788937 ATTTGAGGTGAGTTAGTT
1 ATTTG-GGTGAGTTAGTT
7788955 GTATACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (18 bp):
ATTTGGGTGAGTTAGTTA
Found at i:7793330 original size:27 final size:27
Alignment explanation
Indices: 7793300--7793351 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7793290 ATGGCCGGCA
7793300 CCACCTTTATGGGAAATAATTTTTTTT
1 CCACCTTTATGGGAAATAATTTTTTTT
7793327 CCACCTTTATGGGAAATAATTTTTT
1 CCACCTTTATGGGAAATAATTTTTT
7793352 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (27 bp):
CCACCTTTATGGGAAATAATTTTTTTT
Found at i:7793678 original size:100 final size:95
Alignment explanation
Indices: 7793473--7793680 Score: 236
Period size: 100 Copynumber: 2.1 Consensus size: 95
7793463 CGAAAAAAGT
**
7793473 AAAAAAAAAATTAGTGGTGGCCTGCCAATGGTTGACACCACATTTTTGGATTTTTTTTATATTTG
1 AAAAAAAAAATTAGTGGTGGCCTGCCAATGGTTGACACCACATTTTTAAATTTTTTTTATATTTG
** *
7793538 GTCTGTCAATGGTCGGTACCAATATACGAAAAA
66 GTCTGTCAATGCCCGGCACCAATATAC---AAA
* * *
7793571 AGTAAAAAAAAATTAGTGGTGGCCTGCCAATGGTTGGCACCACCTTTTTTCAAATTTTTTTTTTT
1 A--AAAAAAAAATTAGTGGTGGCCTGCCAATGGTTGACACCA-CATTTTT-AAA-TTTTTTTTAT
*
7793636 ACTTTTGGTCTGTCAATGCCCGGCACCAACTTTACAAA
61 A--TTTGGTCTGTCAATGCCCGGCACCAA-TATACAAA
7793674 AAAAAAA
1 AAAAAAA
7793681 TTTTAATTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
98 1 0.01
100 38 0.41
101 12 0.13
102 1 0.01
103 14 0.15
105 23 0.25
106 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
AAAAAAAAAATTAGTGGTGGCCTGCCAATGGTTGACACCACATTTTTAAATTTTTTTTATATTTG
GTCTGTCAATGCCCGGCACCAATATACAAA
Found at i:7794440 original size:19 final size:19
Alignment explanation
Indices: 7794408--7794450 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
7794398 TGTTTGTATT
* **
7794408 TTTTTATATGTAAATTTAA
1 TTTTTAAATGTAAAAATAA
*
7794427 TTTTTAAATTTAAAAATAA
1 TTTTTAAATGTAAAAATAA
7794446 TTTTT
1 TTTTT
7794451 TTTACTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTAAATGTAAAAATAA
Found at i:7809288 original size:18 final size:18
Alignment explanation
Indices: 7809252--7809290 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7809242 TAGTTCAATT
* * *
7809252 AAATAAAATATTTTGAAA
1 AAATAAAAAATATTAAAA
7809270 AAATAAAAAATATTAAAA
1 AAATAAAAAATATTAAAA
7809288 AAA
1 AAA
7809291 ATCAATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATAAAAAATATTAAAA
Found at i:7809629 original size:19 final size:18
Alignment explanation
Indices: 7809577--7809753 Score: 89
Period size: 19 Copynumber: 9.8 Consensus size: 18
7809567 CTTATTAGGT
*
7809577 TTTTTAT-AATTTTATAA
1 TTTTTATGATTTTTATAA
* *
7809594 ATTTTATGATATGTTATAA
1 TTTTTATGAT-TTTTATAA
*
7809613 TTTTTATGACTTTTTATATG
1 TTTTTATGA-TTTTTATA-A
* *
7809633 TTTTTAAGAATTTT-T-A
1 TTTTTATGATTTTTATAA
* *
7809649 TTTTTATAAGTTTATATCAA
1 TTTTTATGA-TTTTTAT-AA
* * *
7809669 CTTTAAT-AATTTT-TAA
1 TTTTTATGATTTTTATAA
* *
7809685 TATTTAT-ATTTTTATTA
1 TTTTTATGATTTTTATAA
* * *
7809702 TATTTATGAGGTTTTATAT
1 TTTTTATGA-TTTTTATAA
7809721 TTTTTATGATATTTT-TAA
1 TTTTTATGAT-TTTTATAA
7809739 TTTTTATGAATTTTT
1 TTTTTATG-ATTTTT
7809754 TATGACAACA
Statistics
Matches: 119, Mismatches: 28, Indels: 25
0.69 0.16 0.15
Matches are distributed among these distances:
16 18 0.15
17 19 0.16
18 21 0.18
19 46 0.39
20 15 0.13
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTTATGATTTTTATAA
Found at i:7809754 original size:19 final size:18
Alignment explanation
Indices: 7809678--7809755 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
7809668 ACTTTAATAA
7809678 TTTTTAATATTTAT-ATT
1 TTTTTAATATTTATGATT
*
7809695 TTTATT-ATATTTATGAGGT
1 TTT-TTAATATTTATGA-TT
* * * *
7809714 TTTATATTTTTTATGATA
1 TTTTTAATATTTATGATT
* *
7809732 TTTTTAATTTTTATGAAT
1 TTTTTAATATTTATGATT
7809750 TTTTTA
1 TTTTTA
7809756 TGACAACATA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
17 11 0.23
18 24 0.51
19 12 0.26
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTAATATTTATGATT
Found at i:7811366 original size:14 final size:14
Alignment explanation
Indices: 7811335--7811380 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
7811325 GCGTGAATAT
7811335 ATATATATATAT-A
1 ATATATATATATGA
7811348 TATATATATATATGA
1 -ATATATATATATGA
* *
7811363 ATATATGTGTATGA
1 ATATATATATATGA
7811377 ATAT
1 ATAT
7811381 GATTATTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 28 0.97
15 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (14 bp):
ATATATATATATGA
Found at i:7811368 original size:2 final size:2
Alignment explanation
Indices: 7811331--7811360 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7811321 ATATGCGTGA
7811331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7811361 GAATATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7812014 original size:91 final size:90
Alignment explanation
Indices: 7811853--7812077 Score: 298
Period size: 89 Copynumber: 2.5 Consensus size: 90
7811843 TAAGGGTGCT
* * * * * *
7811853 ACCCTCAAACATTTTCAAAAAAAAGCAATTAAGACCCTA-CTTTTTTTGTACTCATTTGGGTACT
1 ACCCTCAAACCTTTTAAAAAAAAAGCAATTAAGCCCCTACCTTTTTTTGAACTCAATTGAGTACT
*
7811917 TGAACTTTTAAAATGCATTAAAAAAG
66 TGAACTTTCAAAATGCA-TAAAAAAG
* *
7811943 -CCCTCAAACCTTTTAAAAAAAAAGTAATGAAGCCCCTACCTTTGTTTTGAACTCAATTGAGTAC
1 ACCCTCAAACCTTTTAAAAAAAAAGCAATTAAGCCCCTACCTTT-TTTTGAACTCAATTGAGTAC
*
7812007 TTGAACTTTCAAAATGCATCAAAAAG
65 TTGAACTTTCAAAATGCATAAAAAAG
*
7812033 ACCCTCAAA-C-TTTAAAAAAAAAACAATTAAGCCCCT-CCTTTTTTT
1 ACCCTCAAACCTTTTAAAAAAAAAGCAATTAAGCCCCTACCTTTTTTT
7812078 TAAAAAAACT
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
87 4 0.03
88 5 0.04
89 56 0.47
90 12 0.10
91 42 0.35
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (90 bp):
ACCCTCAAACCTTTTAAAAAAAAAGCAATTAAGCCCCTACCTTTTTTTGAACTCAATTGAGTACT
TGAACTTTCAAAATGCATAAAAAAG
Found at i:7819519 original size:14 final size:15
Alignment explanation
Indices: 7819491--7819519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7819481 TTAACATTAT
7819491 CCTTTAAATATTTTA
1 CCTTTAAATATTTTA
7819506 CCTTTAAA-ATTTTA
1 CCTTTAAATATTTTA
7819520 AAAATTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (15 bp):
CCTTTAAATATTTTA
Found at i:7822314 original size:3 final size:3
Alignment explanation
Indices: 7822306--7822365 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
7822296 CTTTAGAGAA
7822306 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7822354 AAT AAT AAT AAT
1 AAT AAT AAT AAT
7822366 CAAGTGTCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7826665 original size:41 final size:41
Alignment explanation
Indices: 7826608--7826752 Score: 161
Period size: 41 Copynumber: 3.5 Consensus size: 41
7826598 TTTAACATAT
7826608 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * *
7826649 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
** * * **
7826690 TCACCGATACTTAGCCTGCT-GGACTTAAAGTCC-GAATCATT
1 TCACCGGCACTTAGCCTGCTAGG-CTTATAG-CCTGATTCAGA
7826731 TCACCGGC-CTTAAGCCTGCTAG
1 TCACCGGCACTT-AGCCTGCTAG
7826753 ACATAAAGTC
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.06
41 78 0.91
42 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
Found at i:7826848 original size:41 final size:41
Alignment explanation
Indices: 7826702--7826834 Score: 187
Period size: 41 Copynumber: 3.2 Consensus size: 41
7826692 ACCGATACTT
* * * * *
7826702 AGCCTGCTGGACTTAAAGTCCG-AATCATTTCACCGGCCTTA
1 AGCCTGCTAGACATAAAGTCTGAAAT-AATTCACCGGCATTA
7826743 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTA
7826784 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTA
* *
7826825 AACCTACTAG
1 AGCCTGCTAG
7826835 GCATCGAGCC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 81 0.96
42 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTA
Found at i:7827498 original size:2 final size:2
Alignment explanation
Indices: 7827491--7827571 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
7827481 ACATTGACTA
7827491 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7827533 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
7827572 TATATATATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7828650 original size:13 final size:13
Alignment explanation
Indices: 7828632--7828656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7828622 ACAAACGATA
7828632 AAATTTTCACACG
1 AAATTTTCACACG
7828645 AAATTTTCACAC
1 AAATTTTCACAC
7828657 AAGTAAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:7838419 original size:22 final size:22
Alignment explanation
Indices: 7838394--7838440 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
7838384 ATACAGAGAT
7838394 CACAAATGAGCTAATCGAAGAG
1 CACAAATGAGCTAATCGAAGAG
* *
7838416 CACAAATGTGCTAATCGGAGAG
1 CACAAATGAGCTAATCGAAGAG
7838438 CAC
1 CAC
7838441 TAACGTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (22 bp):
CACAAATGAGCTAATCGAAGAG
Found at i:7838448 original size:22 final size:22
Alignment explanation
Indices: 7838394--7838452 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
7838384 ATACAGAGAT
* *
7838394 CACAAATGAGCTAATCGAAGAG
1 CACAAACGTGCTAATCGAAGAG
* *
7838416 CACAAATGTGCTAATCGGAGAG
1 CACAAACGTGCTAATCGAAGAG
*
7838438 CACTAACGTGCTAAT
1 CACAAACGTGCTAAT
7838453 AATTAGAGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (22 bp):
CACAAACGTGCTAATCGAAGAG
Found at i:7838461 original size:25 final size:25
Alignment explanation
Indices: 7838427--7838488 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
7838417 ACAAATGTGC
*
7838427 TAATCGGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
* * *
7838452 TAATTAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
7838477 TAATCAGAGAGC
1 TAATCAGAGAGC
7838489 GCGCTAAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACGTGCTAA
Found at i:7839087 original size:49 final size:47
Alignment explanation
Indices: 7839034--7839158 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
7839024 TAGTATAACT
* * *
7839034 ATGGTCTTCCACATAATCACATATCACACACCAAAGCCATAGCCCAGCC
1 ATGGTCTTACACAGAAGCACATATCACAC-CCAAA-CCATAGCCCAGCC
* * * *
7839083 ATGGTCTTACACGGAAGCACATATCACACCGATACCATAGCCCAGCT
1 ATGGTCTTACACAGAAGCACATATCACACCCAAACCATAGCCCAGCC
* * *
7839130 ATGGTCTTATACGGAAATCACATATCACA
1 ATGGTCTTACACAG-AAGCACATATCACA
7839159 TATTGCCATG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
47 25 0.38
48 16 0.24
49 25 0.38
ACGTcount: A:0.34, C:0.31, G:0.14, T:0.21
Consensus pattern (47 bp):
ATGGTCTTACACAGAAGCACATATCACACCCAAACCATAGCCCAGCC
Found at i:7839134 original size:47 final size:49
Alignment explanation
Indices: 7839032--7839158 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
7839022 CATAGTATAA
* **
7839032 CTATGGTCTTCCACATAATCACATATCACACACCAAAGCCATAGCCCAG
1 CTATGGTCTTACACGGAATCACATATCACACACCAAAGCCATAGCCCAG
* * * *
7839081 CCATGGTCTTACACGGAAGCACATATCACAC-CGATA-CCATAGCCCAG
1 CTATGGTCTTACACGGAATCACATATCACACACCAAAGCCATAGCCCAG
*
7839128 CTATGGTCTTATACGGAAATCACATATCACA
1 CTATGGTCTTACACGG-AATCACATATCACA
7839159 TATTGCCATG
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 25 0.37
48 16 0.24
49 26 0.39
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.21
Consensus pattern (49 bp):
CTATGGTCTTACACGGAATCACATATCACACACCAAAGCCATAGCCCAG
Found at i:7841737 original size:22 final size:22
Alignment explanation
Indices: 7841712--7841756 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7841702 TATTACTTCA
7841712 AATATGAATAGCCAAAAAAATT
1 AATATGAATAGCCAAAAAAATT
* *
7841734 AATATGGATAGCCAAAAGAATT
1 AATATGAATAGCCAAAAAAATT
7841756 A
1 A
7841757 TCTTCACCCT
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:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (22 bp):
AATATGAATAGCCAAAAAAATT
Found at i:7846533 original size:16 final size:17
Alignment explanation
Indices: 7846501--7846535 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
7846491 ATAAAAAATT
*
7846501 TTAAATTAATGATTATA
1 TTAAATTAATAATTATA
7846518 TTAAATT-ATAATTATA
1 TTAAATTAATAATTATA
7846534 TT
1 TT
7846536 TTCATAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TTAAATTAATAATTATA
Found at i:7848395 original size:25 final size:24
Alignment explanation
Indices: 7848363--7848411 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
7848353 TGGGAAAAAT
7848363 ATCAAATCAAAATAGTAATCACCAA
1 ATCAAATCAAAATAG-AATCACCAA
* *
7848388 ATCAAATCATAATAGAATCTCCAA
1 ATCAAATCAAAATAGAATCACCAA
7848412 CTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.22
Consensus pattern (24 bp):
ATCAAATCAAAATAGAATCACCAA
Found at i:7848977 original size:23 final size:23
Alignment explanation
Indices: 7848947--7848995 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
7848937 CTTGTAGATG
7848947 CATGTACCAAAATAATATCAAAA
1 CATGTACCAAAATAATATCAAAA
7848970 CATGTACCAAAATAATATCAAAA
1 CATGTACCAAAATAATATCAAAA
7848993 CAT
1 CAT
7848996 CCACTTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.22
Consensus pattern (23 bp):
CATGTACCAAAATAATATCAAAA
Found at i:7858645 original size:16 final size:16
Alignment explanation
Indices: 7858616--7858649 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7858606 TTTGAGTGTG
*
7858616 ATTGATAGGAAAGAAA
1 ATTGAAAGGAAAGAAA
*
7858632 ATTGAAAGGCAAGAAA
1 ATTGAAAGGAAAGAAA
7858648 AT
1 AT
7858650 AAGAAATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.24, T:0.18
Consensus pattern (16 bp):
ATTGAAAGGAAAGAAA
Found at i:7868046 original size:34 final size:34
Alignment explanation
Indices: 7868002--7868070 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
7867992 AGAAGAAAGC
7868002 ATAAAAATGACAACTCCATTTACTTTTCTTTTAT
1 ATAAAAATGACAACTCCATTTACTTTTCTTTTAT
*
7868036 ATAAAGATGACAACTCCATTTACTTTTCTTTTAT
1 ATAAAAATGACAACTCCATTTACTTTTCTTTTAT
7868070 A
1 A
7868071 CCTTGTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.43
Consensus pattern (34 bp):
ATAAAAATGACAACTCCATTTACTTTTCTTTTAT
Found at i:7870675 original size:17 final size:18
Alignment explanation
Indices: 7870635--7870675 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7870625 AATAATTTTG
*
7870635 GTATCTGGTAATTCTGTT
1 GTATCTGGTAATTCTATT
7870653 -TAATCTGGT-ATTCTATT
1 GT-ATCTGGTAATTCTATT
7870670 GTATCT
1 GTATCT
7870676 AACTGTAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (18 bp):
GTATCTGGTAATTCTATT
Found at i:7873066 original size:49 final size:50
Alignment explanation
Indices: 7872996--7873117 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 50
7872986 AAGGCTCTTT
* * * *
7872996 CATGAGCTTCCCGATT-GATGGCTCTCCGGAGCTTCCCGATA-TTGGCTCA
1 CATGAGCTTCTCG-TTATATGGCTCTCCGGAGCTTCCCGATACATGACTCA
* * *
7873045 CTTGAGCCTTCTCGTTA-ATGGCTCTCCTGAGCTTCCCGTTACATGACTCA
1 CATGAG-CTTCTCGTTATATGGCTCTCCGGAGCTTCCCGATACATGACTCA
7873095 CATGAGCTTCTCGTTATATGGCT
1 CATGAGCTTCTCGTTATATGGCT
7873118 ATGCTCACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
49 39 0.63
50 23 0.37
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (50 bp):
CATGAGCTTCTCGTTATATGGCTCTCCGGAGCTTCCCGATACATGACTCA
Found at i:7873100 original size:25 final size:24
Alignment explanation
Indices: 7872996--7873117 Score: 100
Period size: 25 Copynumber: 4.9 Consensus size: 24
7872986 AAGGCTCTTT
* *
7872996 CATGAGCTTCCCGATTGATGGCTCT
1 CATGAGCTTCCCG-TTAATGGCTCA
** * *
7873021 CCGGAGCTTCCCGATATTGGCTCA
1 CATGAGCTTCCCGTTAATGGCTCA
* * *
7873045 CTTGAGCCTTCTCGTTAATGGCTCT
1 CATGAG-CTTCCCGTTAATGGCTCA
* *
7873070 CCTGAGCTTCCCGTTACATGACTCA
1 CATGAGCTTCCCGTTA-ATGGCTCA
*
7873095 CATGAGCTTCTCGTTATATGGCT
1 CATGAGCTTCCCGTTA-ATGGCT
7873118 ATGCTCACAT
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
24 20 0.27
25 55 0.73
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (24 bp):
CATGAGCTTCCCGTTAATGGCTCA
Found at i:7878249 original size:22 final size:22
Alignment explanation
Indices: 7878208--7878249 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7878198 ATGAAGCGTA
*
7878208 ATATTTCTGAATTCGTATCTAG
1 ATATTTCTGAATTCGAATCTAG
*
7878230 ATATTTCTGAATTTGAATCT
1 ATATTTCTGAATTCGAATCT
7878250 TCGATCTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (22 bp):
ATATTTCTGAATTCGAATCTAG
Found at i:7881924 original size:42 final size:42
Alignment explanation
Indices: 7881848--7882043 Score: 141
Period size: 42 Copynumber: 4.7 Consensus size: 42
7881838 CCGAAAGCTT
* *
7881848 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* * * *
7881890 AACGGAAGCTCGTAAGAGCTGAACTA-AAATCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAAC-AGAAACCCATAAGGGTTA
* ** * * *
7881932 AACAGAAGCTTAATAA-ATTTGAAC-GAAAATCCATAA-GGTCA
1 AACAGAAGC-TCATAAGAGCTAAACAG-AAACCCATAAGGGTTA
* * * * *
7881973 AACAAAAGCTTA-ATAGAGCTAAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACAGAAACCCATAAGGGTTA
* * *
7882015 AACAGAAGCTCGTGAGAGATAAACAGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
7882044 GTAAACACGA
Statistics
Matches: 118, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 24 0.20
42 85 0.72
43 5 0.04
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:7882016 original size:21 final size:21
Alignment explanation
Indices: 7881987--7882043 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
7881977 AAAGCTTAAT
*
7881987 AGAGCTAAACAGAAACTCAT-
1 AGAGATAAACAGAAACTCATG
* * *
7882007 ATGAGTTAAACAGAAGCTCGTG
1 A-GAGATAAACAGAAACTCATG
7882029 AGAGATAAACAGAAA
1 AGAGATAAACAGAAA
7882044 GTAAACACGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (21 bp):
AGAGATAAACAGAAACTCATG
Found at i:7887956 original size:22 final size:22
Alignment explanation
Indices: 7887921--7887971 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
7887911 CTCTCAAATA
7887921 ACTACAA-ATCTCACTCTTTTT
1 ACTACAATATCTCACTCTTTTT
7887942 ACTACAATATCTCACTCTTTTT
1 ACTACAATATCTCACTCTTTTT
7887964 ACTACAAT
1 ACTACAAT
7887972 TGCAAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.41
Consensus pattern (22 bp):
ACTACAATATCTCACTCTTTTT
Done.