Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 5 of 16
Found at i:685974 original size:23 final size:23
Alignment explanation
Indices: 685939--685992 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
685929 TTAACTTTAA
*
685939 AAAAAATT-A-TATTAATAAATT
1 AAAAAATTAATTATTAATAAAAT
* **
685960 AAAATATTAATTATTTTTAAAAT
1 AAAAAATTAATTATTAATAAAAT
685983 AAAAAATTAA
1 AAAAAATTAA
685993 ATTAAAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 18 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAAATTAATTATTAATAAAAT
Found at i:686530 original size:15 final size:15
Alignment explanation
Indices: 686509--686540 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
686499 TTATTATAAT
686509 AAATTTTTTA-TTTA
1 AAATTTTTTATTTTA
686523 AAATTTTTTATTTTA
1 AAATTTTTTATTTTA
686538 AAA
1 AAA
686541 AACATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATTTTTTATTTTA
Found at i:686737 original size:125 final size:124
Alignment explanation
Indices: 686512--686964 Score: 549
Period size: 125 Copynumber: 3.8 Consensus size: 124
686502 TTATAATAAA
686512 TTTTTTATTTAAAATTTTTTA-TTTTA-AAAAACATAATAATTAATATTTTAATTTGTTAATGTA
1 TTTTTTATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
* *
686575 ATTTTTTTGAACTTAATTAAATATTATTTTTTA-TTTATTAAAAATTATAATAAAAAACC
66 A-TTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATTATAATAAAAAACC
* *
686634 TTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATTTTTTAATTTGCTAATGT
1 TTTTTTA-TTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGT
686699 AATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATTATAAT-AAAAA-C
65 AATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATTATAATAAAAAACC
686757 -------------ATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
1 TTTTTTATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
* * *
686809 ATTTTTTAAAATTAATTAAATATTA-TTTTAATTTTATATAAAAAATAATAATAATAAACC
66 ATTTTTTAAACTTAATTAAATATTATTTTTAATTTTAT-T-AAAAATTATAATAAAAAACC
* *
686869 TTTTTTATTTTTATTTAAATTTTTT-TATTT-T-AAAA-A-AATAATTAATATTTTAATTTATTA
1 TTTTTTA--TTTA---AAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTA
* *
686929 ATATAAATTTTTTAAAGTTAATTAAATATTATTTTT
61 ATGT-AATTTTTTAAACTTAATTAAATATTATTTTT
686965 TCTTAAAAAT
Statistics
Matches: 290, Mismatches: 13, Indels: 51
0.82 0.04 0.14
Matches are distributed among these distances:
108 12 0.04
109 75 0.26
110 11 0.04
111 4 0.01
112 1 0.00
122 7 0.02
123 15 0.05
124 39 0.13
125 80 0.28
126 26 0.09
127 8 0.03
128 1 0.00
129 4 0.01
130 7 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (124 bp):
TTTTTTATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
ATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATTATAATAAAAAACC
Found at i:686775 original size:109 final size:111
Alignment explanation
Indices: 686644--686882 Score: 396
Period size: 109 Copynumber: 2.2 Consensus size: 111
686634 TTTTTTATTT
*
686644 TAAA-ATTTTTTATTTTTATAAAAACATAATAATTAATTTTTTAATTTGCTAATGTAATTTTTTA
1 TAAACATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGCTAATGTAATTTTTTA
* *
686708 AACTTAATTAAATATTATTTTTAATTTTAT-T-AAAAATTATAATAA
66 AAATTAATTAAATATTA-TTTTAATTTTATATAAAAAATAATAATAA
*
686753 -AAACATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTA
1 TAAACATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGCTAATGTAATTTTTTA
686817 AAATTAATTAAATATTATTTTAATTTTATATAAAAAATAATAATAA
66 AAATTAATTAAATATTATTTTAATTTTATATAAAAAATAATAATAA
*
686863 TAAACCTTTTTTATTTTTAT
1 TAAACATTTTTTATTTTTAT
686883 TTAAATTTTT
Statistics
Matches: 121, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
108 15 0.12
109 75 0.62
110 13 0.11
111 18 0.15
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (111 bp):
TAAACATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGCTAATGTAATTTTTTA
AAATTAATTAAATATTATTTTAATTTTATATAAAAAATAATAATAA
Found at i:687008 original size:67 final size:67
Alignment explanation
Indices: 686883--687020 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 67
686873 TTATTTTTAT
** *
686883 TTAAATTTTTTTATTTTAAAAAAATAATTAATATTTTAATTTATTAATATAAATTTTTTAAAGTT
1 TTAAATTTTTTTATTTTAAAAAAATAATTAATACATTAATTTATTAATATAAAATTTTTAAAGTT
686948 AA
66 AA
*
686950 TTAAATATTATTTT-TTCTTAAAAATAATAATTAATACATT-A-TTATTTAT-TAAAATTTTTAA
1 TTAAAT-TT-TTTTATT-TTAAAAA-AATAATTAATACATTAATTTATTAATATAAAATTTTTAA
*
687011 ATTTAA
62 AGTTAA
687017 TTAA
1 TTAA
687021 TTTATAAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
67 26 0.42
68 11 0.18
69 12 0.19
70 13 0.21
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (67 bp):
TTAAATTTTTTTATTTTAAAAAAATAATTAATACATTAATTTATTAATATAAAATTTTTAAAGTT
AA
Found at i:687030 original size:125 final size:124
Alignment explanation
Indices: 686780--687031 Score: 287
Period size: 125 Copynumber: 2.0 Consensus size: 124
686770 ATAAAAACAT
* *
686780 AATAATTAATATTTTAATTTGTTAATGTAATTTTTTAAAATTAATTAAATATTATTTTAATTTTA
1 AATAATTAATATTTTAATTTATTAATATAATTTTTTAAAATTAATTAAATATTATTTT-ATTTTA
* * *** ** *
686845 TATAAAAAATAATAATAATAAACCTTTTTTATTTTTATTTAAATTTTTTTATTTTAAAAA
65 TATAAAAAATAATAATAATAAACATTTATTAAAATTATTTAAATTTAATTAATTTAAAAA
*
686905 AATAATTAATATTTTAATTTATTAATATAAATTTTTTAAAGTTAATTAAATATTATTTT-TTCTT
1 AATAATTAATATTTTAATTTATTAATAT-AATTTTTTAAAATTAATTAAATATTATTTTATT-TT
* * **
686969 A-A-AAATAATAATTAATACATTATTATTTATTAAAATT-TTTAAATTTAATTAATTTATAAAA
64 ATATAAAAAATAA-TAATA-ATAAACATTTATTAAAATTATTTAAATTTAATTAATTTA-AAAA
687030 AA
1 AA
687032 ACTGAAATGG
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
123 8 0.07
124 24 0.22
125 46 0.43
126 29 0.27
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (124 bp):
AATAATTAATATTTTAATTTATTAATATAATTTTTTAAAATTAATTAAATATTATTTTATTTTAT
ATAAAAAATAATAATAATAAACATTTATTAAAATTATTTAAATTTAATTAATTTAAAAA
Found at i:687352 original size:57 final size:56
Alignment explanation
Indices: 687100--687563 Score: 455
Period size: 57 Copynumber: 8.0 Consensus size: 56
687090 ACAATATCAA
* * * * * *
687100 GTGCCATTGATTTATGGGCTTTGAAAGGGGTGCCACTGATTTGTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGA-CT-TGTGGGCTTTGAAAGG
* * * *
687159 GTACGCCACAGACTTGTGGTCTTTCG-AAGAGATGCCACTAACTTATGGGCTTTGAAAAGAG
1 GT--GCCACTGACTTGTGGGCTTT-GAAAG-GATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * * * *
687220 TTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGGGCTTTGGAAA-G
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAA-GGATGCCACTGACTTGTGGGCTTT-GAAAGG
* * * * *
687280 GTGTCATTGATTTGTGGGCTTTGAAAGGTATGCAACTGACTTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG-ATGCCACTGACTTGTGGGCTTTGAAAGG
* *
687337 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
687394 GTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTAACTGGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
687450 GTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAATTTGTGGGATTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * *
687508 TTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
687564 ATGAACGTTC
Statistics
Matches: 336, Mismatches: 52, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
56 77 0.23
57 103 0.31
58 58 0.17
59 21 0.06
60 14 0.04
61 37 0.11
62 24 0.07
63 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (56 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:687356 original size:28 final size:28
Alignment explanation
Indices: 687100--687563 Score: 446
Period size: 28 Copynumber: 16.0 Consensus size: 28
687090 ACAATATCAA
* * *
687100 GTGCCATTGATTTATGGGCTTTGAAAGGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* *
687129 GTGCCACTGATTTGTGTGGGCTTTGAAAAG
1 GTGCCACTGA-CT-TGTGGGCTTTGAAAGG
* *
687159 GTACGCCACAGACTTGTGGTCTTTCG-AAGAG
1 GT--GCCACTGACTTGTGGGCTTT-GAAAG-G
* * *
687190 ATGCCACTAACTTATGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
687220 TTGCCACCGACTTGTGTGGGCTTTGAAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAGG
* *
687251 GTTGCCACCGACTCGTGGGCTTTGGAAA-G
1 G-TGCCACTGACTTGTGGGCTTT-GAAAGG
* * *
687280 GTGTCATTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
687308 TATGCAACTGACTTGTAGGCTTTGAAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAGG
*
687337 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
687366 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
687394 GTGCCACCGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
687422 GTGCCACTAACTGGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
687450 GTGCCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
687478 ATGCCACTAATTTGTGGGATTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* * *
687508 TTGCCACCGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
687536 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
687564 ATGAACGTTC
Statistics
Matches: 364, Mismatches: 54, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.01
28 164 0.45
29 84 0.23
30 59 0.16
31 21 0.06
32 32 0.09
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:688797 original size:11 final size:11
Alignment explanation
Indices: 688781--688832 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
688771 TCCTTTTTTG
*
688781 TTTTTTGTTAT
1 TTTTTTGTTGT
*
688792 TTTTTTCTTGGT
1 TTTTTTGTT-GT
688804 TTTTTT-TTGT
1 TTTTTTGTTGT
*
688814 TTTTTTGTTTT
1 TTTTTTGTTGT
688825 TTTTTTGT
1 TTTTTTGT
688833 ATGAAGGGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 8 0.22
11 21 0.58
12 7 0.19
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.85
Consensus pattern (11 bp):
TTTTTTGTTGT
Found at i:688806 original size:10 final size:8
Alignment explanation
Indices: 688774--688827 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
688764 TTTGGACTCC
688774 TTTTTTG-
1 TTTTTTGT
688781 TTTTTTGT
1 TTTTTTGT
688789 TATTTTT-T
1 T-TTTTTGT
*
688797 TCTTGGTT-T
1 T-TT-TTTGT
688806 TTTTTTGT
1 TTTTTTGT
688814 TTTTTTGT
1 TTTTTTGT
688822 TTTTTT
1 TTTTTT
688828 TTTGTATGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 9 0.22
8 22 0.55
9 9 0.22
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTTGT
Found at i:688816 original size:19 final size:19
Alignment explanation
Indices: 688794--688832 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
688784 TTTGTTATTT
688794 TTTTCTTGGTTTTTTTTTG
1 TTTTCTTGGTTTTTTTTTG
* *
688813 TTTTTTTGTTTTTTTTTTG
1 TTTTCTTGGTTTTTTTTTG
688832 T
1 T
688833 ATGAAGGGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (19 bp):
TTTTCTTGGTTTTTTTTTG
Found at i:689445 original size:59 final size:59
Alignment explanation
Indices: 689275--689734 Score: 581
Period size: 59 Copynumber: 8.0 Consensus size: 59
689265 GGAGTAAAAA
* **
689275 GTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCTTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * *
689330 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* * *
689390 GTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
689449 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
***
689508 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATATGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* ** * *
689567 GTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTACTCTCTGAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* * *
689622 ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* * *
689676 GTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCACTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
689735 ATGGAAGGAG
Statistics
Matches: 359, Mismatches: 32, Indels: 24
0.87 0.08 0.06
Matches are distributed among these distances:
53 1 0.00
54 42 0.12
55 70 0.19
57 3 0.01
58 1 0.00
59 193 0.54
60 26 0.07
61 23 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (59 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
Found at i:690716 original size:1 final size:1
Alignment explanation
Indices: 690712--690771 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
690702 CTTTTCTCTC
* * * * * * *
690712 TTTTTCTTTGTTTTGTTTTTTGTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
690772 GAAAAAGAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:690749 original size:27 final size:25
Alignment explanation
Indices: 690712--690771 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 25
690702 CTTTTCTCTC
*
690712 TTTTTCTTTGTTTTGTTTTTTGTTTT
1 TTTTTTTTTGTTTT-TTTTTTGTTTT
690738 GTTTTTTTTTGTTTTTTTTTTGTTTT
1 -TTTTTTTTTGTTTTTTTTTTGTTTT
690764 TTTTTTTT
1 TTTTTTTT
690772 GAAAAAGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 8 0.25
26 11 0.34
27 13 0.41
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (25 bp):
TTTTTTTTTGTTTTTTTTTTGTTTT
Found at i:690753 original size:11 final size:11
Alignment explanation
Indices: 690722--690769 Score: 80
Period size: 11 Copynumber: 4.4 Consensus size: 11
690712 TTTTTCTTTG
690722 TTTTGTTTTTT
1 TTTTGTTTTTT
690733 GTTTTG-TTTTT
1 -TTTTGTTTTTT
690744 TTTTGTTTTTT
1 TTTTGTTTTTT
690755 TTTTGTTTTTT
1 TTTTGTTTTTT
690766 TTTT
1 TTTT
690770 TTGAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.14
11 25 0.71
12 5 0.14
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:690769 original size:22 final size:22
Alignment explanation
Indices: 690722--690768 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
690712 TTTTTCTTTG
690722 TTTTGTTTTTTGTTTTGTTTTT
1 TTTTGTTTTTTGTTTTGTTTTT
690744 TTTTGTTTTTT-TTTTGTTTTT
1 TTTTGTTTTTTGTTTTGTTTTT
690765 TTTT
1 TTTT
690769 TTTGAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (22 bp):
TTTTGTTTTTTGTTTTGTTTTT
Found at i:690770 original size:12 final size:12
Alignment explanation
Indices: 690712--690770 Score: 73
Period size: 12 Copynumber: 4.8 Consensus size: 12
690702 CTTTTCTCTC
*
690712 TTTTTCTTTGTT
1 TTTTTTTTTGTT
*
690724 TTGTTTTTTGTT
1 TTTTTTTTTGTT
*
690736 TTGTTTTTTTTTGT
1 TT-TTTTTTTGT-T
690750 TTTTTTTTTGTT
1 TTTTTTTTTGTT
690762 TTTTTTTTT
1 TTTTTTTTT
690771 TGAAAAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 22 0.55
13 15 0.38
14 3 0.08
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:701870 original size:19 final size:19
Alignment explanation
Indices: 701846--701884 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
701836 ATTGCCATGC
701846 CTATGCGGAGGGTTACTCA
1 CTATGCGGAGGGTTACTCA
701865 CTATGCGGAGGGTTACTCA
1 CTATGCGGAGGGTTACTCA
701884 C
1 C
701885 GAAGGCGGAT
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:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (19 bp):
CTATGCGGAGGGTTACTCA
Found at i:703254 original size:28 final size:28
Alignment explanation
Indices: 703193--703274 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
703183 TTTTGGAGAT
*
703193 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
703221 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
703249 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
703275 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:703318 original size:52 final size:50
Alignment explanation
Indices: 703257--703426 Score: 196
Period size: 52 Copynumber: 3.3 Consensus size: 50
703247 GAAATAACGA
* *
703257 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCG
* * * * *
703308 GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTGG
1 G-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAA-TCG
*** *
703361 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
703411 AGGTTGGAGTATCCCC
1 -GGTTGGAGTATCCCC
703427 TCGGAAATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.02
51 36 0.36
52 48 0.48
53 13 0.13
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
Found at i:703535 original size:54 final size:51
Alignment explanation
Indices: 703468--703598 Score: 147
Period size: 51 Copynumber: 2.5 Consensus size: 51
703458 GATTAACGGG
* ** *
703468 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG--TTTTGAAAATAAAATCGGA
*
703522 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAATAAAATCGGA
* *
703573 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
703599 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
51 35 0.53
52 4 0.06
53 9 0.14
54 18 0.27
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAATAAAATCGGA
Found at i:703549 original size:211 final size:211
Alignment explanation
Indices: 703201--703590 Score: 588
Period size: 211 Copynumber: 1.8 Consensus size: 211
703191 ATAATAACGG
* * * *
703201 GGTTGGAGTGTTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGT
* *
703266 ATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTAAA
66 ATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
** * *
703331 GGAAAATTGGTGTTTTGAAAATAAAA-CTGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
131 GGAAAATTAATGTTTTGAAAATAAAATC-GGAGTTGGAATATCCCCGATTATGAAAAATCAATAT
703395 TTTGGAAATAAAGTCGA
195 TTTGGAAATAAAGTCGA
* *
703412 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATG-ATTAACGGGGTTGGAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGT
* *
703476 GTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
66 ATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
* *
703541 TA-GAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATT
129 AAGGAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
703591 GTGGAGAATT
Statistics
Matches: 160, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
210 28 0.17
211 92 0.57
212 40 0.25
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (211 bp):
GGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGT
ATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
GGAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTATGAAAAATCAATATT
TTGGAAATAAAGTCGA
Found at i:705975 original size:13 final size:13
Alignment explanation
Indices: 705957--705982 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
705947 ACAAAGATCC
705957 ATGTATCGATACA
1 ATGTATCGATACA
705970 ATGTATCGATACA
1 ATGTATCGATACA
705983 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:705978 original size:33 final size:33
Alignment explanation
Indices: 705936--706002 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
705926 AAAATTTTCA
***
705936 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
705969 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
706002 A
1 A
706003 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:706062 original size:13 final size:13
Alignment explanation
Indices: 706044--706068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
706034 ACAATACTTA
706044 TGTATCGATACAT
1 TGTATCGATACAT
706057 TGTATCGATACA
1 TGTATCGATACA
706069 AATTGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:706132 original size:21 final size:21
Alignment explanation
Indices: 706106--706182 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
706096 GTTGGGACCC
* *
706106 TGTATCGATACATTTGTA-GGA
1 TGTATCGATACA-TTCTACAGA
* *
706127 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAGA
706148 TGTATCGATACATTCTACAGA
1 TGTATCGATACATTCTACAGA
706169 TGTATCGATACATT
1 TGTATCGATACATT
706183 TGGATAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAGA
Found at i:707124 original size:20 final size:20
Alignment explanation
Indices: 707099--707223 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 20
707089 TTTTAACTAG
707099 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
707119 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
707150 ATGTATCGATAC-TGTGAAGA
1 ATGTATCGATACAT-TGAAAA
* * *
707170 ATGTATCGATACATTTATAC
1 ATGTATCGATACATTGAAAA
707190 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* *
707210 ATATATCCATACAT
1 ATGTATCGATACAT
707224 CTGGGTAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
20 58 0.71
21 2 0.02
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 3 0.04
31 13 0.16
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:707207 original size:91 final size:90
Alignment explanation
Indices: 707099--707273 Score: 280
Period size: 90 Copynumber: 1.9 Consensus size: 90
707089 TTTTAACTAG
* *
707099 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATAC-T
1 ATGTATCGATACATTGAAAAATATATCCATACATCTGGGT-AAAAGACAGAATGTATCGATACAT
* *
707163 GTGAAGAATGTATCGATACATTTATAC
65 -TCAAAAATGTATCGATACATTTATAC
*
707190 ATGTATCGATACATTGAAAAATATATCCATACATCTGGGTAAAAGACAGAATGTATTGATACATT
1 ATGTATCGATACATTGAAAAATATATCCATACATCTGGGTAAAAGACAGAATGTATCGATACATT
707255 CAAAAATGTATCGATACAT
66 CAAAAATGTATCGATACAT
707274 CTAAGTAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
90 39 0.50
91 39 0.50
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATATATCCATACATCTGGGTAAAAGACAGAATGTATCGATACATT
CAAAAATGTATCGATACATTTATAC
Found at i:708673 original size:65 final size:67
Alignment explanation
Indices: 708595--708724 Score: 167
Period size: 65 Copynumber: 2.0 Consensus size: 67
708585 TTTTTATAAA
* ** **
708595 TTAATTAAATTTAATAAATTTA-ATAAAT-AA-TAATGTATTAATTATTATTTTTTAATAAAAAA
1 TTAATTAAATTTAAAAAATTTATATAAATAAATTAAAATATTAATTATT-TTTTAAAATAAAAAA
708657 TGT
65 TGT
* *
708660 TTAATTAACTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAAT
1 TTAATTAAATTTAAAAAATTTATATAAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAAT
708725 TAAATTAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 20 0.36
66 5 0.09
67 16 0.29
68 14 0.25
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (67 bp):
TTAATTAAATTTAAAAAATTTATATAAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAAT
GT
Found at i:708714 original size:41 final size:39
Alignment explanation
Indices: 708669--708938 Score: 113
Period size: 34 Copynumber: 7.0 Consensus size: 39
708659 TTTAATTAAC
708669 TTTAAAAAATTTATATTAATAAATTAAAATATTAATTATTT
1 TTTAAAAAATTTATATTAA-AAA-TAAAATATTAATTATTT
* * * **
708710 TTTAAAATAAAAAATTAAATTAAAAATCATTTA-TAATTATTT
1 TTT---A-AAAAATTTATATTAAAAATAAAATATTAATTATTT
* * * **
708752 TTTTAATAA---A-ATTAAAAATAATAT-TTAATTAACT
1 TTTAAAAAATTTATATTAAAAATAAAATATTAATTATTT
*
708786 TTAAAAAAATTTATATTAATAAATTAAAATATTAATTATTT
1 TTTAAAAAATTTATATTAA-AAA-TAAAATATTAATTATTT
* ****
708827 TTAAAATAAAAAA-TTAAATTAAAAA-GGGTTATT-ATTATTT
1 TT----TAAAAAATTTATATTAAAAATAAAATATTAATTATTT
* ** **
708867 TTTAATAAA---AT-TT-AAAATATTAT-TTAATTAAGT
1 TTTAAAAAATTTATATTAAAAATAAAATATTAATTATTT
708900 TTTAAAAAA-TTATATTAACAAATTAAAATATTAATTATT
1 TTTAAAAAATTTATATTAA-AAA-TAAAATATTAATTATT
708939 ATGTTTTTAT
Statistics
Matches: 168, Mismatches: 36, Indels: 51
0.66 0.14 0.20
Matches are distributed among these distances:
32 6 0.04
33 16 0.10
34 26 0.15
35 3 0.02
36 8 0.05
37 2 0.01
38 12 0.07
39 7 0.04
40 21 0.12
41 17 0.10
42 12 0.07
43 7 0.04
44 12 0.07
45 19 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (39 bp):
TTTAAAAAATTTATATTAAAAATAAAATATTAATTATTT
Found at i:708780 original size:116 final size:115
Alignment explanation
Indices: 708651--709038 Score: 467
Period size: 111 Copynumber: 3.4 Consensus size: 115
708641 ATTTTTTAAT
*
708651 AAAA-AATGTTTAATTAACTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTAA
1 AAAATAATATTTAATTAACTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTAA
*
708715 AATAAAAAATTAAATTAAAAATCATTTATAATTATTTTTTTAATAAAATTA
66 AATAAAAAATTAAATTAAAAAT-ATTTATTATTATTTTTTTAATAAAATTA
708766 AAAATAATATTTAATTAACTTTAAAAAAATTTATATTAATAAATTAAAATATTAATTA-TTTTTA
1 AAAATAATATTTAATTAACTTT-AAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTA
*** *
708830 AAATAAAAAATTAAATTAAAAAGGGTTATTATTA-TTTTTTAATAAAATTT
65 AAATAAAAAATTAAATTAAAAATATTTATTATTATTTTTTTAATAAAATTA
* * *
708880 AAAATATTATTTAATTAAGTTTTAAAAAA-TTATATTAACAAATTAAAATATTAATTATTATGTT
1 AAAATAATATTTAATTAA-CTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATT-T-TT
* * * * *
708944 T----T-TATAA--AAA-TAAAAGTATTTATTATTATTACTTTTTGATAAAATAA
63 TAAAATAAAAAATTAAATTAAAAATATTTATTATTATT--TTTTTAATAAAATTA
* * * *
708991 AAAATGATATTTAATTAAATTAAAAAAATTTACATTAATAAATTAAAA
1 AAAATAATATTTAATTAACTTTAAAAAATTTATATTAATAAATTAAAA
709039 AAATAATATT
Statistics
Matches: 239, Mismatches: 24, Indels: 24
0.83 0.08 0.08
Matches are distributed among these distances:
108 14 0.06
109 4 0.02
110 8 0.03
111 48 0.20
112 1 0.00
113 27 0.11
114 39 0.16
115 16 0.07
116 47 0.20
117 35 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (115 bp):
AAAATAATATTTAATTAACTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTAA
AATAAAAAATTAAATTAAAAATATTTATTATTATTTTTTTAATAAAATTA
Found at i:709014 original size:23 final size:22
Alignment explanation
Indices: 708989--709065 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 22
708979 TTGATAAAAT
708989 AAAAAATGATATTTAATTAAATTA
1 AAAAAAT-ATATTTAA-TAAATTA
* *
709013 AAAAAATTTACATTAATAAATTA
1 AAAAAATATA-TTTAATAAATTA
**
709036 AAAAAATAATATTTAAGGAATTA
1 AAAAAAT-ATATTTAATAAATTA
709059 AAAAAAT
1 AAAAAAT
709066 TTATCATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 32 0.71
24 13 0.29
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAAAATATATTTAATAAATTA
Found at i:709085 original size:47 final size:46
Alignment explanation
Indices: 708985--709086 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 46
708975 CTTTTTGATA
* *
708985 AAAT-AAAAAATGATATTTAATTAAATTAAAAAAATTTACATTAAT
1 AAATAAAAAAATAATATTTAATGAAATTAAAAAAATTTACATTAAT
* *
709030 AAATTAAAAAAATAATATTTAA-GGAATTAAAAAAATTTATCATTATT
1 AAA-TAAAAAAATAATATTTAATGAAATTAAAAAAATTTA-CATTAAT
709077 CAAATAAAAA
1 -AAATAAAAA
709087 CCCTCGATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
45 3 0.06
46 16 0.33
47 27 0.55
48 3 0.06
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (46 bp):
AAATAAAAAAATAATATTTAATGAAATTAAAAAAATTTACATTAAT
Found at i:709389 original size:14 final size:15
Alignment explanation
Indices: 709364--709395 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
709354 TTATTATAAT
709364 AAATTTTTTA-TTTA
1 AAATTTTTTATTTTA
709378 AAATTTTTTATTTTA
1 AAATTTTTTATTTTA
709393 AAA
1 AAA
709396 AACATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATTTTTTATTTTA
Found at i:709576 original size:123 final size:123
Alignment explanation
Indices: 709367--709735 Score: 504
Period size: 107 Copynumber: 3.1 Consensus size: 123
709357 TTATAATAAA
*
709367 TTTTTTATTTAAAATTTTTTA-TTTTA-AAAAACATAATAATTAATATTTTAATTTGTTAATGTA
1 TTTTTTATTTTAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
* *
709430 ATTTTTTTGAACTTAATTAAATATTATTTTTTATTTATTAAAAATTATAATAAAAAACC
66 A-TTTTTTAAACTTAATTAAATATTATTTTTAATTTATTAAAAATTATAATAAAAAACC
* *
709489 TTTTTTATTTTAAATTTTTTATTTTTATAAAAACATAATAATTAATGTTTTAATTTGCTAATGTA
1 TTTTTTATTTTAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
709554 ATTTTTTAAACTTAATTAAATATTATTTTTAATTTATTAAAAATTATAAT-AAAAA-C
66 ATTTTTTAAACTTAATTAAATATTATTTTTAATTTATTAAAAATTATAATAAAAAACC
*
709610 -------------A-TTTTTATTTTTATAAATACATAATAATTAATATTTTAATTTGTTAATGTA
1 TTTTTTATTTTAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
* *
709661 ATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATATAAAAAATAATAATAATAAACC
66 ATTTTTTAAACTTAATTAAATATTATTTTTAA-TTTAT-T-AAAAATTATAATAAAAAACC
709722 TTTTTTATTTTAAA
1 TTTTTTATTTTAAA
709736 AAAATAATTA
Statistics
Matches: 217, Mismatches: 10, Indels: 37
0.82 0.04 0.14
Matches are distributed among these distances:
107 79 0.36
108 6 0.03
109 1 0.00
110 11 0.05
111 4 0.02
112 1 0.00
121 1 0.00
122 25 0.12
123 52 0.24
124 36 0.17
125 1 0.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (123 bp):
TTTTTTATTTTAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
ATTTTTTAAACTTAATTAAATATTATTTTTAATTTATTAAAAATTATAATAAAAAACC
Found at i:709623 original size:107 final size:111
Alignment explanation
Indices: 709382--709796 Score: 464
Period size: 107 Copynumber: 3.7 Consensus size: 111
709372 TATTTAAAAT
*
709382 TTTTTA-TTTTA-AAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTTGAACTTA
1 TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA-TTTTTTAAACTTA
* *
709445 ATTAAATATTATTTTTTA-TTTAT-TAAAAATTATAATAAAAAACCTTTTTTATTTTAA-A
65 ATTAAATATTATTTTTAATTTTATATAAAAA--ATAAT-AATAA-------TA----AACA
* *
709503 TTTTTTATTTTTATAAAAACATAATAATTAATGTTTTAATTTGCTAATGTAATTTTTTAAACTTA
1 -TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTAAACTTA
*
709568 ATTAAATATTATTTTTAA-TTTAT-T-AAAAATTATAATAA-AAACA
65 ATTAAATATTATTTTTAATTTTATATAAAAAATAATAATAATAAACA
*
709611 TTTTTATTTTTATAAATACATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTAAACTTAA
1 TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTAAACTTAA
*
709676 TTAAATATTATTTTTAATTTTATATAAAAAATAATAATAATAAACC
66 TTAAATATTATTTTTAATTTTATATAAAAAATAATAATAATAAACA
* * * *
709722 TTTTT-TATTT-T-AAAA-A-AATAATTAATATTTTAATTTATTAATATAAATTTTTTAAAGTTA
1 TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGT-AATTTTTTAAACTTA
709782 ATT-AATATTATTTTT
65 ATTAAATATTATTTTT
709797 TCTTAAAAAT
Statistics
Matches: 269, Mismatches: 16, Indels: 32
0.85 0.05 0.10
Matches are distributed among these distances:
106 38 0.14
107 99 0.37
108 9 0.03
109 2 0.01
110 17 0.06
111 10 0.04
119 4 0.01
120 4 0.01
122 10 0.04
123 40 0.15
124 36 0.13
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (111 bp):
TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTAAACTTAA
TTAAATATTATTTTTAATTTTATATAAAAAATAATAATAATAAACA
Found at i:709849 original size:66 final size:67
Alignment explanation
Indices: 709731--709857 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 67
709721 CTTTTTTATT
** *
709731 TTAAAAAAATAATTAATATTTTAATTTATTAATATAAATTTTTTAAAGTTAATTAATATTATTTT
1 TTAAAAAAATAATTAATACATTAATTTATTAATATAAAATTTTTAAAGTTAATTAAT-TTATTTT
709796 TTC
65 TTC
* *
709799 TTAAAAATAATAATTAATACATT-A-TTATTTAT-TAAAATTTTTAAATTTAATTAATTTAT
1 TTAAAAA-AATAATTAATACATTAATTTATTAATATAAAATTTTTAAAGTTAATTAATTTAT
709858 AAAAAAACTG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
65 4 0.08
66 21 0.40
67 7 0.13
68 8 0.15
69 13 0.25
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (67 bp):
TTAAAAAAATAATTAATACATTAATTTATTAATATAAAATTTTTAAAGTTAATTAATTTATTTTT
TC
Found at i:709974 original size:29 final size:28
Alignment explanation
Indices: 709943--710367 Score: 404
Period size: 28 Copynumber: 14.6 Consensus size: 28
709933 TGCAATTGAT
*
709943 TTGTGGGCTTTGAAAGGGGTGCCACTGATT
1 TTGTGGGCTTTGAAA-GGGTGCCACTGA-C
* * *
709973 TGTGTGGGCTCTGAAAAGGTACGCCACAGAC
1 T-TGTGGGCTTTGAAAGGGT--GCCACTGAC
* * *
710004 TTGTGGTCTTTCG-AAGAGATGCCACTAAC
1 TTGTGGGCTTT-GAAAG-GGTGCCACTGAC
* * *
710033 TTATGGGCTTTGAAAAGAGTTGCCACCGAC
1 TTGTGGGCTTTG-AAAG-GGTGCCACTGAC
* *
710063 TTGTGTGGGTTTTGAAAAGGGTTGCCACCGAC
1 -T-TGTGGGCTTTG-AAAGGG-TGCCACTGAC
* * * *
710095 TCGTGGGCTTTGGAAA-GGTGTCATTGAT
1 TTGTGGGCTTT-GAAAGGGTGCCACTGAC
* *
710123 TTGTGGGCTTTGAAAGGTATGCAACTGAC
1 TTGTGGGCTTTGAAAGG-GTGCCACTGAC
*
710152 TTGTAGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
710180 TTGTGGGCTTTGAAAAGAGTGCCACTAAC
1 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
* *
710209 TTGTGGGCTTTGAAAGAGTGCCACCGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
710237 TTGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
710265 TGGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * *
710293 TCGTGGGCTTTGAAAGGATGCCACTGAT
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
710321 TTGTGGGCTTTGAAAAGAGTTGCCACCGAC
1 TTGTGGGCTTTG-AAAG-GGTGCCACTGAC
*
710351 TCGTGGGCTTTGAAAGG
1 TTGTGGGCTTTGAAAGG
710368 ATGAACGTTC
Statistics
Matches: 330, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.01
28 142 0.43
29 74 0.22
30 58 0.18
31 21 0.06
32 31 0.09
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (28 bp):
TTGTGGGCTTTGAAAGGGTGCCACTGAC
Found at i:710184 original size:57 final size:56
Alignment explanation
Indices: 709943--710370 Score: 410
Period size: 57 Copynumber: 7.4 Consensus size: 56
709933 TGCAATTGAT
* * * * *
709943 TTGTGGGCTTTGAAAGGGGTGCCACTGATTTGTGTGGGCTCTGAAAAGGTACGCCACAGAC
1 TTGTGGGCTTTGAAA-GGATGCCACTGA-CT-TGTGGGCTTTGAAAGGGT--GCCACCGAC
* * * *
710004 TTGTGGTCTTTCG-AAGAGATGCCACTAACTTATGGGCTTTGAAAAGAGTTGCCACCGAC
1 TTGTGGGCTTT-GAAAG-GATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACCGAC
* * * * * ** *
710063 TTGTGTGGGTTTTGAAAAGGGTTGCCACCGACTCGTGGGCTTTGGAAA-GGTGTCATTGAT
1 -T-TGTGGGCTTTG-AAA-GGATGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACCGAC
* * *
710123 TTGTGGGCTTTGAAAGGTATGCAACTGACTTGTAGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGAC
* * *
710180 TTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACCGAC
1 TTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGAC
* * *
710237 TTGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGAC
* * *
710293 TCGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTGAAAAGAGTTGCCACCGAC
1 TTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACCGAC
*
710351 TCGTGGGCTTTGAAAGGATG
1 TTGTGGGCTTTGAAAGGATG
710371 AACGTTCTAG
Statistics
Matches: 304, Mismatches: 48, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
56 77 0.25
57 98 0.32
58 40 0.13
59 18 0.06
60 14 0.05
61 31 0.10
62 24 0.08
63 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (56 bp):
TTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGAC
Found at i:711596 original size:11 final size:11
Alignment explanation
Indices: 711580--711630 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
711570 TCCTTTTTTG
*
711580 TTTTTTGTTAT
1 TTTTTTGTTGT
*
711591 TTTTTTCTTGGT
1 TTTTTTGTT-GT
*
711603 TTTTTTTTTGT
1 TTTTTTGTTGT
711614 TTTTTTGTT-T
1 TTTTTTGTTGT
711624 TTTTTTG
1 TTTTTTG
711631 GTATGAAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.23
11 18 0.51
12 9 0.26
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (11 bp):
TTTTTTGTTGT
Found at i:711608 original size:15 final size:13
Alignment explanation
Indices: 711573--711629 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
711563 TTTGGACTCC
711573 TTTTTTGTTTTTTG
1 TTTTTT-TTTTTTG
*
711587 TTATTTTTTTCTTG
1 TT-TTTTTTTTTTG
*
711601 -GTTTTTTTTTTG
1 TTTTTTTTTTTTG
711613 TTTTTTTGTTTTT-
1 TTTTTTT-TTTTTG
711626 TTTT
1 TTTT
711630 GGTATGAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 10 0.28
13 9 0.25
14 13 0.36
15 4 0.11
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:726641 original size:19 final size:19
Alignment explanation
Indices: 726601--726669 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
726591 CAGTTTCATA
**
726601 TATCGATACAATTGTCCATG
1 TATCGATACAA-TGAACATG
726621 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
*
726640 TATCGATACAAAGTATA-ATG
1 TATCGATACAATG-A-ACATG
726660 TATCGATACA
1 TATCGATACA
726670 TCTGGGTGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 18 0.41
20 25 0.57
21 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:727001 original size:35 final size:35
Alignment explanation
Indices: 726962--727075 Score: 131
Period size: 35 Copynumber: 3.3 Consensus size: 35
726952 CCTAAAAAAT
*
726962 CTCTTTTCACCATCGTTTGATTGTATCTGGTCAAA
1 CTCTTTTCACCATCATTTGATTGTATCTGGTCAAA
* ** * *
726997 CTCTTTCCACCATCATTTGACAGTATCTAGT-TAA
1 CTCTTTTCACCATCATTTGATTGTATCTGGTCAAA
* * *
727031 CTTTTTTCCACAATCATTTGATTGTATCTGGTCAAG
1 CTCTTTT-CACCATCATTTGATTGTATCTGGTCAAA
727067 CTCTTTTCA
1 CTCTTTTCA
727076 TTCTCGTTTG
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
34 7 0.11
35 48 0.77
36 7 0.11
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (35 bp):
CTCTTTTCACCATCATTTGATTGTATCTGGTCAAA
Found at i:727150 original size:44 final size:43
Alignment explanation
Indices: 727102--727810 Score: 294
Period size: 44 Copynumber: 16.2 Consensus size: 43
727092 GATCACTACT
*
727102 CTGGTCAAACGTTTCTCATTTTGGTCTGACGTATGGTTACCACC
1 CTGGTCAAAC-TTTCTCATTTTGGTTTGACGTATGGTTACCACC
* * *
727146 CTGGTCAGAATCTTT-TCATTCTGATTTGACATATGGTTACCACC
1 CTGGTCA-AA-CTTTCTCATTTTGGTTTGACGTATGGTTACCACC
* ** * * **** * *
727190 CTAGTCAAATCTACCGCCTTCCAATTTGATGTATGGTTACCACA
1 CTGGTCAAA-CTTTCTCATTTTGGTTTGACGTATGGTTACCACC
* * * *
727234 TTGGTCAAACTCTTC-CTATTTTGGTCTAACATATGGTTACCACC
1 CTGGTCAAACT-TTCTC-ATTTTGGTTTGACGTATGGTTACCACC
* * * * *
727278 CTGGTTAGATTCTTT-TCATTCTGATTTGATGTATGGTTACCACC
1 CTGGTCA-A-ACTTTCTCATTTTGGTTTGACGTATGGTTACCACC
** * *
727322 CTGGTCAAATCTGCCTCGTTCTT-GTTTGATGTATGGTTACCACC
1 CTGGTCAAA-CTTTCTCATT-TTGGTTTGACGTATGGTTACCACC
* * * *
727366 CTGATCAAACTTTTCTCATTTCGGTCTGACGTATGGTTATCACC
1 CTGGTCAAAC-TTTCTCATTTTGGTTTGACGTATGGTTACCACC
* ** * * *
727410 TTGGTCAAATCTGCCTCCTTTCT-ATTTGATGTATGGTTACCACC
1 CTGGTCAAA-CTTTCTCATTT-TGGTTTGACGTATGGTTACCACC
* * * *
727454 CTAGTCAAACTCTTCCCATTTTGGTCTGACGTATGGTTACCATC
1 CTGGTCAAACT-TTCTCATTTTGGTTTGACGTATGGTTACCACC
** * * * * * *
727498 CTATTCAGATTTTTTACATTTTGATTTAACATATGGTTACCACC
1 CTGGTCAAACTTTCT-CATTTTGGTTTGACGTATGGTTACCACC
* * * *
727542 TTGGTCAAA-TTTGCCTCCTTTTTGTTTGA--TGT-GTTACCACC
1 CTGGTCAAACTTT--CTCATTTTGGTTTGACGTATGGTTACCACC
* * * * *
727583 CTAGTCAAAC-TCCTTCATTTCGGTTTGACGTTTAGTTACCACC
1 CTGGTCAAACTTTC-TCATTTTGGTTTGACGTATGGTTACCACC
* * * * * * * *
727626 CTCGTCAGATTCTTT-TTATTTTGATTTAATGTATGGTTACCGCT
1 CTGGTCA-A-ACTTTCTCATTTTGGTTTGACGTATGGTTACCACC
* ** * * * *
727670 CTCGTCAAATCTGCCTC-TTTCCT-ATTTGACCTATGATTACCACT
1 CTGGTCAAA-CTTTCTCATTT--TGGTTTGACGTATGGTTACCACC
* * * * * *
727714 TTGGTCAAAATCTTCTCATTTCGGTCTGATGTATGGTTACCACT
1 CTGGTCAAACT-TTCTCATTTTGGTTTGACGTATGGTTACCACC
* * * * * * **
727758 TTAGT-AAGATTTTTTTCATTCTGATTTGACACATGGTTACCACC
1 CTGGTCAA-A-CTTTCTCATTTTGGTTTGACGTATGGTTACCACC
727802 CTGGTCAAA
1 CTGGTCAAA
727811 TTTGCTTTCT
Statistics
Matches: 483, Mismatches: 144, Indels: 76
0.69 0.20 0.11
Matches are distributed among these distances:
39 1 0.00
40 11 0.02
41 17 0.04
42 4 0.01
43 45 0.09
44 381 0.79
45 20 0.04
46 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (43 bp):
CTGGTCAAACTTTCTCATTTTGGTTTGACGTATGGTTACCACC
Found at i:727488 original size:132 final size:131
Alignment explanation
Indices: 727081--727756 Score: 470
Period size: 132 Copynumber: 5.2 Consensus size: 131
727071 TTTCATTCTC
* * * * * * *
727081 GTTTGATGTATGATCACTACTCTGGTCAAACGTTTCTCATTTTGGTCTGACGTATGGTTACCACC
1 GTTTGATGTATGGTTACCACCCTGATCAAACTTTTCTCATTTTGGTCTAACGTATGGTTACCACC
* * * * ** * *
727146 CTGGTCAGAATCT--TTTCATTCTGATTTGACATATGGTTACCACCCTAGTCAAATCTACCGCCT
66 TTGGTCA-AATCTGCCTCCTTTCT-ATTTGATGTATGGTTACCACCCTAGTCAAATCTTCC-CAT
* *
727209 TCCA
128 TTCG
* ** * * *
727213 ATTTGATGTATGGTTACCACATTGGTCAAACTCTTC-CTATTTTGGTCTAACATATGGTTACCAC
1 GTTTGATGTATGGTTACCACCCTGATCAAACTTTTCTC-ATTTTGGTCTAACGTATGGTTACCAC
* * * * * * * *
727277 CCTGGTTAGAT-T-CTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGTCAAATCTGCCTC-
65 CTTGGTCAAATCTGC-CTCCTTTCT-ATTTGATGTATGGTTACCACCCTAGTCAAATCTTCC-CA
* *
727339 GTTCTT
127 TTTC-G
* * *
727345 GTTTGATGTATGGTTACCACCCTGATCAAACTTTTCTCATTTCGGTCTGACGTATGGTTATCACC
1 GTTTGATGTATGGTTACCACCCTGATCAAACTTTTCTCATTTTGGTCTAACGTATGGTTACCACC
727410 TTGGTCAAATCTGCCTCCTTTCTATTTGATGTATGGTTACCACCCTAGTCAAACTCTTCCCATTT
66 TTGGTCAAATCTGCCTCCTTTCTATTTGATGTATGGTTACCACCCTAGTCAAA-TCTTCCCATTT
*
727475 TG
130 CG
* * * * * * * *
727477 GTCTGACGTATGGTTACCATCCT-ATTCAGA-TTTTTTACATTTTGATTTAACATATGGTTACCA
1 GTTTGATGTATGGTTACCACCCTGA-TCAAACTTTTCT-CATTTTGGTCTAACGTATGGTTACCA
* * *
727540 CCTTGGTCAAATTTGCCTCCTTTTTGTTTGATG--T-GTTACCACCCTAGTCAAA-C-TCCTTCA
64 CCTTGGTCAAATCTGCCTCCTTTCTATTTGATGTATGGTTACCACCCTAGTCAAATCTTCC--CA
727600 TTTCG
127 TTTCG
* * * * * * *
727605 GTTTGACGTTTAGTTACCACCCTCG-TCAGATTCTTTT-T-ATTTTGATTTAATGTATGGTTACC
1 GTTTGATGTATGGTTACCACCCT-GATCA-A-ACTTTTCTCATTTTGGTCTAACGTATGGTTACC
* * ** * ** * *
727667 -GCTCTCGTCAAATCTGCCT-CTTTCCTATTTGACCTATGATTACCACTTTGGTCAAAATCTTCT
63 ACCT-TGGTCAAATCTGCCTCCTTT-CTATTTGATGTATGGTTACCACCCTAGTC-AAATCTTCC
727730 CATTTCG
125 CATTTCG
*
727737 GTCTGATGTATGGTTACCAC
1 GTTTGATGTATGGTTACCAC
727757 TTTAGTAAGA
Statistics
Matches: 439, Mismatches: 79, Indels: 52
0.77 0.14 0.09
Matches are distributed among these distances:
126 3 0.01
127 7 0.02
128 69 0.16
129 18 0.04
130 4 0.01
131 26 0.06
132 293 0.67
133 16 0.04
134 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (131 bp):
GTTTGATGTATGGTTACCACCCTGATCAAACTTTTCTCATTTTGGTCTAACGTATGGTTACCACC
TTGGTCAAATCTGCCTCCTTTCTATTTGATGTATGGTTACCACCCTAGTCAAATCTTCCCATTTC
G
Found at i:727852 original size:132 final size:132
Alignment explanation
Indices: 727133--727840 Score: 469
Period size: 132 Copynumber: 5.4 Consensus size: 132
727123 TGGTCTGACG
* * * *
727133 TATGGTTACCACCCTGGTCAGAATCT--TTTCATTCTGATTTGACATATGGTTACCACCCTAGTC
1 TATGGTTACCACCCTGGTCA-AATCTGCCTCCTTTCT-ATTTGACGTATGGTTACCACCCTAGTC
* * * * ** * * * ** * * *
727196 AAA-TCTACCGCCTTCCAATTTGATGTATGGTTACCACAT-TGGTCA-AACTCTTCCTATTTTGG
64 AAACTCT-TCTCATTTCGGTCTGACGTATGGTTACCAC-TCTAGTCAGATTTTTTTC-ATTTTGA
*
727258 TCTAACA
126 TTTAACA
* * * * * * *
727265 TATGGTTACCACCCTGGTTAGAT-T-CTTTTCATTCTGATTTGATGTATGGTTACCACCCTGGTC
1 TATGGTTACCACCCTGGTCAAATCTGC-CTCCTTTCT-ATTTGACGTATGGTTACCACCCTAGTC
* * * * * * * * * * *
727328 AAA-TCTGCCTC-GTTCTTGTTTGATGTATGGTTACCACCCT-GATCAAACTTTTCTCATTTCGG
64 AAACTCT-TCTCATTTC-GGTCTGACGTATGGTTACCACTCTAG-TCAGATTTTTTTCATTTTGA
* * *
727390 TCTGACG
126 TTTAACA
* * *
727397 TATGGTTATCACCTTGGTCAAATCTGCCTCCTTTCTATTTGATGTATGGTTACCACCCTAGTCAA
1 TATGGTTACCACCCTGGTCAAATCTGCCTCCTTTCTATTTGACGTATGGTTACCACCCTAGTCAA
* * * *
727462 ACTCTTCCCATTTTGGTCTGACGTATGGTTACCA-TCCTATTCAGATTTTTTACATTTTGATTTA
66 ACTCTTCTCATTTCGGTCTGACGTATGGTTACCACT-CTAGTCAGATTTTTTTCATTTTGATTTA
727526 ACA
130 ACA
* * * * *
727529 TATGGTTACCACCTTGGTCAAATTTGCCTCCTTTTTGTTTGA--TGT-GTTACCACCCTAGTCAA
1 TATGGTTACCACCCTGGTCAAATCTGCCTCCTTTCTATTTGACGTATGGTTACCACCCTAGTCAA
* * * * * *
727591 ACTCCT-TCATTTCGGTTTGACGTTTAGTTACCACCCTCGTCAGATTCTTTTT-ATTTTGATTTA
66 ACTCTTCTCATTTCGGTCTGACGTATGGTTACCACTCTAGTCAGATT-TTTTTCATTTTGATTTA
**
727654 ATG
130 ACA
* * * * * ** *
727657 TATGGTTACCGCTCTCGTCAAATCTGCCT-CTTTCCTATTTGACCTATGATTACCACTTTGGTCA
1 TATGGTTACCACCCTGGTCAAATCTGCCTCCTTT-CTATTTGACGTATGGTTACCACCCTAGTCA
* * * * * *
727721 AAATCTTCTCATTTCGGTCTGATGTATGGTTACCACTTTAGTAAGATTTTTTTCATTCTGATTTG
65 AACTCTTCTCATTTCGGTCTGACGTATGGTTACCACTCTAGTCAGATTTTTTTCATTTTGATTTA
727786 ACA
130 ACA
* * * *
727789 CATGGTTACCACCCTGGTCAAATTTGCTTTCTTTCTATTTGACGTAATGGTT
1 TATGGTTACCACCCTGGTCAAATCTGCCTCCTTTCTATTTGACGT-ATGGTT
727841 CACCCCTGGT
Statistics
Matches: 457, Mismatches: 97, Indels: 43
0.77 0.16 0.07
Matches are distributed among these distances:
127 4 0.01
128 73 0.16
129 26 0.06
130 5 0.01
131 27 0.06
132 296 0.65
133 25 0.05
134 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (132 bp):
TATGGTTACCACCCTGGTCAAATCTGCCTCCTTTCTATTTGACGTATGGTTACCACCCTAGTCAA
ACTCTTCTCATTTCGGTCTGACGTATGGTTACCACTCTAGTCAGATTTTTTTCATTTTGATTTAA
CA
Found at i:731593 original size:94 final size:94
Alignment explanation
Indices: 731416--731611 Score: 229
Period size: 94 Copynumber: 2.1 Consensus size: 94
731406 AAGGTCCTTA
* * * *
731416 ATCCCATATTTTCTTTAATGGGAAAATTCCATCATGGTTAAGTAATTAAGAGTCATAAACTTTCT
1 ATCCCATAATTTCATTAATGGGAAAATTCCATCATGCTTAAGTAATTAAGAGTCATAAACTATCT
*
731481 TTATTTTATGTTTTATTAATTTGTTAATC
66 TTATTATATGTTTTATTAATTTGTTAATC
* * * **
731510 ATCCCATAATTTCATTAGTGGGAAAATTTCATCCTGCTTAAGTAATTAAGAGTCATGCAC-ATC-
1 ATCCCATAATTTCATTAATGGGAAAATTCCATCATGCTTAAGTAATTAAGAGTCATAAACTATCT
* ** *
731573 -TATTATATATTTT-TTAATTAATTAGTC
66 TTATTATATGTTTTATTAATTTGTTAATC
*
731600 ATTCCATAATTT
1 ATCCCATAATTT
731612 ACTGTGTCTT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
90 22 0.25
91 11 0.13
93 2 0.02
94 52 0.60
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (94 bp):
ATCCCATAATTTCATTAATGGGAAAATTCCATCATGCTTAAGTAATTAAGAGTCATAAACTATCT
TTATTATATGTTTTATTAATTTGTTAATC
Found at i:735072 original size:32 final size:33
Alignment explanation
Indices: 735034--735117 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 33
735024 CTTAATTAAA
*
735034 AATAAAATTAATTAGAATTATTAA-TTACTAAG-
1 AATAAAATTAATTAGAATT-TTAATTTAATAAGT
735066 AATAAAATTAATTA-ATATTTTAATTTAATAAGT
1 AATAAAATTAATTAGA-ATTTTAATTTAATAAGT
*
735099 AAAAAAATTAATTAAGAAT
1 AATAAAATTAATT-AGAAT
735118 AAAAATAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
31 5 0.11
32 24 0.53
33 12 0.27
34 3 0.07
35 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (33 bp):
AATAAAATTAATTAGAATTTTAATTTAATAAGT
Found at i:738012 original size:21 final size:21
Alignment explanation
Indices: 737978--738018 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
737968 ATAATTACTT
*
737978 TATTATTATATTTAAATTTAG
1 TATTAGTATATTTAAATTTAG
* *
737999 TATTAGTATTTTTAATTTTA
1 TATTAGTATATTTAAATTTA
738019 ACTTTTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TATTAGTATATTTAAATTTAG
Found at i:739431 original size:32 final size:33
Alignment explanation
Indices: 739390--739473 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 33
739380 CTTAGTTAAA
*
739390 AATAAAATTAATTAGAATTATTAA-TTACTAAG-
1 AATAAAATTAATTAGAATT-TTAATTTAATAAGT
739422 AATAAAATTAATTA-ATATTTTAATTTAATAAGT
1 AATAAAATTAATTAGA-ATTTTAATTTAATAAGT
*
739455 AAAAAAATTAATTAAGAAT
1 AATAAAATTAATT-AGAAT
739474 AAGAAGAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
31 5 0.11
32 24 0.53
33 12 0.27
34 3 0.07
35 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (33 bp):
AATAAAATTAATTAGAATTTTAATTTAATAAGT
Found at i:742672 original size:28 final size:27
Alignment explanation
Indices: 742617--742687 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
742607 GCCACCCATT
742617 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
742644 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
742672 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
742688 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:747240 original size:28 final size:27
Alignment explanation
Indices: 747185--747255 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
747175 GTCACCCATT
747185 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
747212 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
747240 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
747256 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:751898 original size:13 final size:13
Alignment explanation
Indices: 751880--751906 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
751870 TACAGTGAGC
751880 ATGTATCGATACA
1 ATGTATCGATACA
751893 ATGTATCGATACA
1 ATGTATCGATACA
751906 A
1 A
751907 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:754589 original size:31 final size:29
Alignment explanation
Indices: 754551--754612 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 29
754541 GACCCTAATT
*
754551 CATAACAAACATGCATAATTCAATCATACAA
1 CATAACAAACAT-CAAAATTCAATCA-ACAA
*
754582 CATAACAAACATCAAAATTCATTCAACAA
1 CATAACAAACATCAAAATTCAATCAACAA
754611 CA
1 CA
754613 AAGCATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.21
30 11 0.38
31 12 0.41
ACGTcount: A:0.53, C:0.24, G:0.02, T:0.21
Consensus pattern (29 bp):
CATAACAAACATCAAAATTCAATCAACAA
Found at i:760702 original size:13 final size:13
Alignment explanation
Indices: 760684--760710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
760674 TATAGTGAGC
760684 ATGTATCGATACA
1 ATGTATCGATACA
760697 ATGTATCGATACA
1 ATGTATCGATACA
760710 A
1 A
760711 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:765971 original size:16 final size:16
Alignment explanation
Indices: 765950--765999 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
765940 TCATTGAATG
765950 ATTCACATATTATTTC
1 ATTCACATATTATTTC
* *
765966 ATTCAC-CA-T-CTT-
1 ATTCACATATTATTTC
765978 ATTCACATATTATTTC
1 ATTCACATATTATTTC
765994 ATTCAC
1 ATTCAC
766000 CATCTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 6 0.23
13 3 0.12
14 2 0.08
15 3 0.12
16 12 0.46
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTCACATATTATTTC
Found at i:765990 original size:28 final size:28
Alignment explanation
Indices: 765950--766018 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
765940 TCATTGAATG
765950 ATTCACATATTATTTCATTCACCATCTT
1 ATTCACATATTATTTCATTCACCATCTT
765978 ATTCACATATTATTTCATTCACCATCTT
1 ATTCACATATTATTTCATTCACCATCTT
*
766006 ATTAACATATTAT
1 ATTCACATATTAT
766019 CCTTGTGATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTCACATATTATTTCATTCACCATCTT
Found at i:768275 original size:33 final size:33
Alignment explanation
Indices: 768233--768329 Score: 178
Period size: 33 Copynumber: 3.0 Consensus size: 33
768223 CTTTTATTAC
768233 AGAT-TTATACACTTTTGGTTAACCTTGATCAT
1 AGATATTATACACTTTTGGTTAACCTTGATCAT
*
768265 AGATATTATACACTTTTGATTAACCTTGATCAT
1 AGATATTATACACTTTTGGTTAACCTTGATCAT
768298 AGATATTATACACTTTTGGTTAACCTTGATCA
1 AGATATTATACACTTTTGGTTAACCTTGATCA
768330 AATTTCTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 4 0.06
33 58 0.94
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.42
Consensus pattern (33 bp):
AGATATTATACACTTTTGGTTAACCTTGATCAT
Found at i:768503 original size:108 final size:108
Alignment explanation
Indices: 768289--768510 Score: 266
Period size: 108 Copynumber: 2.1 Consensus size: 108
768279 TTTGATTAAC
* *
768289 CTTGATCATAGATATTATACACTTTTGGTTAACCTTGATCAAATTTCTTAAAGTTGTTTGACATG
1 CTTGATCATAGATATTATACACTTTTGATTAACCTTGATCAAATTTCTTAAAGTTATTTGACATG
* * ** * *
768354 GTAATTTGCTTCTTTCTTAAATAAGAAAGTTTTTATATTACAA
66 ATAATTTGCATCTTTCACAAAAAAGAAAGTTCTTATATTACAA
* * ** * *
768397 CTTGATCATAGATGTTATATACTTTTGATTAATTTTGATTAAATTT-TCTAAGGTTATTTGACAT
1 CTTGATCATAGATATTATACACTTTTGATTAACCTTGATCAAATTTCT-TAAAGTTATTTGACAT
* * * *
768461 GATAGTTTGCATCTTTCACAAAAAAGATAGTTCTTATGTTACAG
65 GATAATTTGCATCTTTCACAAAAAAGAAAGTTCTTATATTACAA
768505 CTTGAT
1 CTTGAT
768511 TTATTTTATT
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
107 1 0.01
108 94 0.99
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (108 bp):
CTTGATCATAGATATTATACACTTTTGATTAACCTTGATCAAATTTCTTAAAGTTATTTGACATG
ATAATTTGCATCTTTCACAAAAAAGAAAGTTCTTATATTACAA
Found at i:771823 original size:90 final size:91
Alignment explanation
Indices: 771669--771845 Score: 275
Period size: 90 Copynumber: 2.0 Consensus size: 91
771659 ACTAATTAGT
* * *
771669 CATAATCATATATTGACAACCTTTTTGATCAGTTAATAAAGTGCTTAACTTTTAATTTCATTAAT
1 CATAATCATATATTGACAACCTTTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAAT
771734 CAAGATTCAATCAGGATTCTTAGTGC
66 CAAGATTCAATCAGGATTCTTAGTGC
* *
771760 CATAATCTTATATTGACAACC-TTATGATCAATGAATAAAGTGTTTAACTTTTAATTTCATTAAT
1 CATAATCATATATTGACAACCTTTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAAT
* * *
771824 CAAGATTTAATTATGATTCTTA
66 CAAGATTCAATCAGGATTCTTA
771846 TTGTCAGACT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 58 0.74
91 20 0.26
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (91 bp):
CATAATCATATATTGACAACCTTTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAAT
CAAGATTCAATCAGGATTCTTAGTGC
Found at i:775476 original size:55 final size:57
Alignment explanation
Indices: 775394--775526 Score: 216
Period size: 58 Copynumber: 2.4 Consensus size: 57
775384 ATAAAAAGAC
**
775394 AAAAAAAATACCCACTTCTTT-TTAAAAAAAAAGGGTTCCATTCACA-TTTTTTTAA
1 AAAAAAAATACCCACTTCTTTGAAAAAAAAAAAGGGTTCCATTCACATTTTTTTTAA
*
775449 AAAAAAAATACCCACTTCTTTGAAAAAAAAAAAGGGTTCCATTCACATTTTTTTTTTA
1 AAAAAAAATACCCACTTCTTTGAAAAAAAAAAAGGGTTCCATTCACA-TTTTTTTTAA
775507 AAAAAAAATACCCACTTCTT
1 AAAAAAAATACCCACTTCTT
775527 AACGTCGCTA
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
55 21 0.29
56 23 0.32
58 28 0.39
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.33
Consensus pattern (57 bp):
AAAAAAAATACCCACTTCTTTGAAAAAAAAAAAGGGTTCCATTCACATTTTTTTTAA
Found at i:775592 original size:17 final size:17
Alignment explanation
Indices: 775570--775610 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
775560 AGTAATTGCG
* *
775570 TATAACAATTTTTCCAT
1 TATAACAATCTCTCCAT
*
775587 TATAACAATCTCTCCCT
1 TATAACAATCTCTCCAT
775604 TATAACA
1 TATAACA
775611 TAAGCCTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
TATAACAATCTCTCCAT
Found at i:777205 original size:15 final size:16
Alignment explanation
Indices: 777166--777207 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
777156 AAACATTCGT
777166 ATTTAATAATATAACAA
1 ATTTAA-AATATAACAA
*
777183 ACTTTAAAATATAA-TA
1 A-TTTAAAATATAACAA
777199 ATTTAAAAT
1 ATTTAAAAT
777208 TTCATCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 8 0.35
18 5 0.22
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAATATAACAA
Found at i:777341 original size:3 final size:3
Alignment explanation
Indices: 777327--777376 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
777317 TAATTACACA
*
777327 AAT AAC 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
777375 AA
1 AA
777377 CAAATCTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:778923 original size:15 final size:15
Alignment explanation
Indices: 778877--778929 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
778867 ATTAAGTTAT
778877 TTAAATTTTAAAAT-
1 TTAAATTTTAAAATA
**
778891 TT-AA-TAAAAAATA
1 TTAAATTTTAAAATA
778904 TTAAATTATTAAAA-A
1 TTAAATT-TTAAAATA
778919 TTAAATTTTAA
1 TTAAATTTTAA
778930 CAAAAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.19
13 4 0.13
14 8 0.26
15 9 0.29
16 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAATTTTAAAATA
Found at i:779329 original size:22 final size:21
Alignment explanation
Indices: 779281--779338 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
779271 ATAATAAATT
* *
779281 TAATTAAATTTAAATATTTAAA
1 TAATTTAATTTAAA-AATTAAA
779303 T-ATTTAATTTAAAAATTAAA
1 TAATTTAATTTAAAAATTAAA
779323 TAAATTTAATTTAAAA
1 T-AATTTAATTTAAAA
779339 TATATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.22
21 11 0.34
22 14 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTTAATTTAAAAATTAAA
Found at i:779348 original size:22 final size:22
Alignment explanation
Indices: 779273--779349 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
779263 TTATTCGAAT
* *
779273 AATAAATTT-AATTAAATTT-A
1 AATATATTTAAATTTAATTTAA
*
779293 AATAT-TTAAATATTTAATTTAA
1 AATATATTTAA-ATTTAATTTAA
**
779315 AA-ATTAAATAAATTTAATTTAA
1 AATA-TATTTAAATTTAATTTAA
779337 AATATATTTAAAT
1 AATATATTTAAAT
779350 ATATAGTAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 9 0.21
22 24 0.56
23 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATATTTAAATTTAATTTAA
Found at i:780501 original size:16 final size:16
Alignment explanation
Indices: 780463--780501 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
780453 GAATTTAAAC
780463 ATTAAATAAATATTTA
1 ATTAAATAAATATTTA
** *
780479 AAAAAATATATATTTA
1 ATTAAATAAATATTTA
780495 ATTAAAT
1 ATTAAAT
780502 GAAACGATCT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAATAAATATTTA
Found at i:783378 original size:121 final size:122
Alignment explanation
Indices: 783235--783533 Score: 327
Period size: 122 Copynumber: 2.5 Consensus size: 122
783225 TGATCTGTTG
* * * * * * *
783235 TTGATAATATGTTGAATTTTTAATTTCAG-TAATCAAGATTCAATCAAGATTTTTAGTGCGAGAT
1 TTGATAAAATGCTAAATTTTTAATTTC-GTTAATCAAGATTCAATCAAGACTCTTAGCGCGAGAC
* * * *
783299 TCTTAATTTTAAT-AAAATTAATTAATTATAATCATACAGTGACAAACTTTTGATCTA
65 TCTTAATTTCAATAAAAACTAATTAATCATAATCATACAATGACAAACTTTTGATCTA
*
783356 TTGATAAAATGCTAAATTTTTAATTTCGTTAATCAAGATTCAATCAAGACTCTTAGCGCTAGACT
1 TTGATAAAATGCTAAATTTTTAATTTCGTTAATCAAGATTCAATCAAGACTCTTAGCGCGAGACT
* ** * *
783421 CTTAGTTTCAATAAAAACTAATTAATCATAATCATACAATGACAGCCCTTTAATCTA
66 CTTAATTTCAATAAAAACTAATTAATCATAATCATACAATGACAAACTTTTGATCTA
* *** * * *
783478 TT-AAAAAAGTG-TCAGGCTTTTAATTTCGATAATCAAAATTCAATCAGGACTCTTAG
1 TTGATAAAA-TGCT-AAATTTTTAATTTCGTTAATCAAGATTCAATCAAGACTCTTAG
783534 TGCTGCGCTT
Statistics
Matches: 150, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
120 1 0.01
121 71 0.47
122 78 0.52
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (122 bp):
TTGATAAAATGCTAAATTTTTAATTTCGTTAATCAAGATTCAATCAAGACTCTTAGCGCGAGACT
CTTAATTTCAATAAAAACTAATTAATCATAATCATACAATGACAAACTTTTGATCTA
Found at i:787510 original size:14 final size:14
Alignment explanation
Indices: 787491--787518 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
787481 CATATTAAAA
787491 AATATTTTTATATT
1 AATATTTTTATATT
787505 AATATTTTTATATT
1 AATATTTTTATATT
787519 TTATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:788195 original size:20 final size:20
Alignment explanation
Indices: 788163--788237 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
788153 TTTTACCCAG
*
788163 ATATATTGATACATTCTTCA
1 ATATATCGATACATTCTTCA
* * *
788183 ATGTATCGATACATGT-ATGA
1 ATATATCGATACAT-TCTTCA
* *
788203 ATATATCAATACATTCTTTA
1 ATATATCGATACATTCTTCA
788223 ATATATCGATACATT
1 ATATATCGATACATT
788238 TTATCTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.41
Consensus pattern (20 bp):
ATATATCGATACATTCTTCA
Found at i:795273 original size:22 final size:21
Alignment explanation
Indices: 795248--795317 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
795238 CAAAATGATG
795248 AAAAAGTCAAAAGCAAAAGCACA
1 AAAAAGTCAAAAGCAAAA--ACA
*
795271 AAAAA-TGAAAAG-AAAAACA
1 AAAAAGTCAAAAGCAAAAACA
*
795290 AAAAAGTGCAAAAACAAAATA-A
1 AAAAAGT-CAAAAGCAAAA-ACA
795312 AAAAAG
1 AAAAAG
795318 GGAACAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 8 0.20
20 1 0.03
21 8 0.20
22 17 0.43
23 6 0.15
ACGTcount: A:0.73, C:0.10, G:0.11, T:0.06
Consensus pattern (21 bp):
AAAAAGTCAAAAGCAAAAACA
Found at i:795302 original size:21 final size:21
Alignment explanation
Indices: 795248--795315 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
795238 CAAAATGATG
795248 AAAAAGT-CAAAAGCAAAAGCACA
1 AAAAAGTGCAAAAG-AAAA--ACA
795271 AAAAA-TG-AAAAGAAAAACA
1 AAAAAGTGCAAAAGAAAAACA
*
795290 AAAAAGTGCAAAA-ACAAAATA
1 AAAAAGTGCAAAAGA-AAAACA
795311 AAAAA
1 AAAAA
795316 AGGGAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 8 0.20
20 3 0.08
21 18 0.45
22 6 0.15
23 5 0.12
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAGTGCAAAAGAAAAACA
Found at i:795342 original size:20 final size:19
Alignment explanation
Indices: 795305--795343 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
795295 GTGCAAAAAC
**
795305 AAAATAAAAAAAGGGAACA
1 AAAATAAAAAAAAAGAACA
795324 AAAATAAAAAAATAAGAACA
1 AAAATAAAAAAA-AAGAACA
795344 TGAATGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (19 bp):
AAAATAAAAAAAAAGAACA
Found at i:796958 original size:82 final size:82
Alignment explanation
Indices: 796676--797040 Score: 450
Period size: 82 Copynumber: 4.4 Consensus size: 82
796666 TAGTATTGTA
* * * * *
796676 ACCTCTTTAAGGTCCACAACTTCGTGGCATCCTTTTAAGTCTACAACTCTATAGCATCCTTTTTA
1 ACCTTTTTAA-GTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCATGGCATCCTTTTAA
796741 AGTCCACAACTCCGTGGC
65 AGTCCACAACTCCGTGGC
796759 ATCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCATGGCATCCTTTT-A
1 A-CCTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCATGGCATCCTTTTAA
796822 AGTCCACAACTCCGTGGC
65 AGTCCACAACTCCGTGGC
* *
796840 ATCC-TTTTAAGTCCACAACTCCGTGGCATCCGTTTAAGTCTACAACTCCGTGGCATCCTTTTAA
1 A-CCTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCATGGCATCCTTTTAA
*
796904 AGTCCACAACTCTGTGGC
65 AGTCCACAACTCCGTGGC
** * *
796922 ACCTTTTTAAGTCCACAACTCCGTGGCATTTTTTTAAGTCCACAAC-CCTATGGCAACTCTTTTC
1 ACCTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCC-ATGGCATC-CTTTT-
* * *
796986 AAAGCCCACAAGTCAGTGGC
63 AAAGTCCACAACTCCGTGGC
* * * * * *
797006 ATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
1 ACCTTTT-TAAGTCCACAACTCCGTGGCATCCTTT
797041 CAAAGCCCAC
Statistics
Matches: 251, Mismatches: 24, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
81 83 0.33
82 112 0.45
83 11 0.04
84 25 0.10
85 20 0.08
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (82 bp):
ACCTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCATGGCATCCTTTTAAA
GTCCACAACTCCGTGGC
Found at i:796976 original size:27 final size:27
Alignment explanation
Indices: 796681--796967 Score: 423
Period size: 27 Copynumber: 10.5 Consensus size: 27
796671 TTGTAACCTC
*
796681 TTTAAGGTCCACAACTTCGTGGCATCCT
1 TTTAA-GTCCACAACTCCGTGGCATCCT
* ** *
796709 TTTAAGTCTACAACTCTATAGCATCCTT
1 TTTAAGTCCACAACTCCGTGGCATCC-T
796737 TTTAAGTCCACAACTCCGTGGCATCCT
1 TTTAAGTCCACAACTCCGTGGCATCCT
796764 TTTAAGTCCACAACTCCGTGGCATCCT
1 TTTAAGTCCACAACTCCGTGGCATCCT
* *
796791 TTTAAGTCTACAACTCCATGGCATCCT
1 TTTAAGTCCACAACTCCGTGGCATCCT
796818 TTTAAGTCCACAACTCCGTGGCATCCT
1 TTTAAGTCCACAACTCCGTGGCATCCT
*
796845 TTTAAGTCCACAACTCCGTGGCATCCG
1 TTTAAGTCCACAACTCCGTGGCATCCT
*
796872 TTTAAGTCTACAACTCCGTGGCATCCT
1 TTTAAGTCCACAACTCCGTGGCATCCT
*
796899 TTTAAAGTCCACAACTCTGTGGCA-CCTT
1 TTT-AAGTCCACAACTCCGTGGCATCC-T
**
796927 TTTAAGTCCACAACTCCGTGGCATTTT
1 TTTAAGTCCACAACTCCGTGGCATCCT
796954 TTTAAGTCCACAAC
1 TTTAAGTCCACAAC
796968 CCTATGGCAA
Statistics
Matches: 234, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
27 184 0.79
28 50 0.21
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (27 bp):
TTTAAGTCCACAACTCCGTGGCATCCT
Found at i:797011 original size:28 final size:28
Alignment explanation
Indices: 796979--797719 Score: 781
Period size: 28 Copynumber: 25.6 Consensus size: 28
796969 CTATGGCAAC
796979 TCTTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
797007 TCTTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
797035 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797063 CCCTTTCAAAGCCCACACGAGTC-GATGGCAA
1 TCTTTTCAAAGCCCACA--AGTCAG-TGGC-A
*
797094 CTCTTTTCAAAGCCCATAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
797123 CTCTTTT-AAAGCCCACAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
797151 TCTTTTCAAAGCCCACAAGTCAGTGACA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797179 CCTTTTCAAAGCCCAAAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
797207 TCCTTTCAAAGCCCACATGAGTCGGTGGTAA
1 TCTTTTCAAAGCCCACA--AGTCAGTGG-CA
* *
797238 CTATTTTCAAAGCCCACACAAGTTAGTGGCAA
1 -TCTTTTCAAAG-CC-CACAAGTCAGTGGC-A
*
797270 CTCTTTTCAAAGCCCATAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797299 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
797327 TAC-TTTCAAAGCCCACAAGTCAGTGGCA
1 T-CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797355 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
797383 CCTTTTCAAAGCCCATACGAGTCGGTGGCAA
1 TCTTTTCAAAGCCC--ACAAGTCAGTGGC-A
*
797414 CTATTTTCAAAGCCCACAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
797443 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
797471 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797499 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797527 CCCTTTT-AAAGCCCACAAGTTAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* ** *
797555 TTCCTTTCAAAGCCCATGAGTCGGTGGCAA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGC-A
*
797585 CTCTTTTCAAAGCACACAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797614 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
797642 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
**
797670 -CTTTTTCCAAAGCCCACACGAGTTGGTGGCAA
1 TC-TTTT-CAAAGCCCACA--AGTCAGTGGC-A
*
797702 CTCTTTTCAATGCCCACA
1 -TCTTTTCAAAGCCCACA
797720 CAAGTTAGTG
Statistics
Matches: 619, Mismatches: 64, Indels: 56
0.84 0.09 0.08
Matches are distributed among these distances:
27 8 0.01
28 396 0.64
29 45 0.07
30 80 0.13
31 14 0.02
32 65 0.11
33 6 0.01
34 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:797050 original size:56 final size:56
Alignment explanation
Indices: 796982--797733 Score: 862
Period size: 56 Copynumber: 13.0 Consensus size: 56
796972 TGGCAACTCT
*
796982 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
797038 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACACGAGTC-GATGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACA--AGTCAG-TGGC-AC-CC
* * *
797098 TTTCAAAGCCCATAAGTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
797154 TTTCAAAGCCCACAAGTCAGTGACACCTTTTCAAAGCCCAAAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
797210 TTTCAAAGCCCACATGAGTCGGTGGTAACTATTTTCAAAGCCCACACAAGTTAGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGG-CAC-CTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * **
797274 TTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATAC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
797330 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
797386 TTTCAAAGCCCATACGAGTCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCC--ACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
797446 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
797502 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCA-CCC
** * *
797559 TTTCAAAGCCCATGAGTCGGTGGCAACTCTTTTCAAAGCACACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCACCC
* **
797617 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
** * *
797673 TTTCCAAAGCCCACACGAGTTGGTGGCAACTCTTTTCAATGCCCACACAAGTTAGTGGCAC
1 TTT-CAAAGCCCACA--AGTCAGTGGC-AC-CTTTTCAAAG-CC-CACAAGTCAGTGGCAC
797734 ATTTTTTAAA
Statistics
Matches: 599, Mismatches: 65, Indels: 57
0.83 0.09 0.08
Matches are distributed among these distances:
55 5 0.01
56 265 0.44
57 47 0.08
58 86 0.14
59 36 0.06
60 92 0.15
61 16 0.03
62 22 0.04
63 16 0.03
64 14 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:797154 original size:144 final size:143
Alignment explanation
Indices: 796972--797719 Score: 1006
Period size: 144 Copynumber: 5.2 Consensus size: 143
796962 CACAACCCTA
796972 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACC
1 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACC
*
797037 CTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACACGAGTC-GATGGCAACTCTTTT
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--AGTCAG-TGGC-ACTCTTTT
*
797101 CAAAGCCCATAAGTCAG
127 CAAAGCCCACAAGTCAG
*
797118 TGGC-ACTCTTTT-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGACACC
1 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * * * * *
797181 TTTTCAAAGCCCAAAAGTCAGTGGCATCCTTTCAAAGCCCACATGAGTCGGTGGTAACTATTTTC
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--AGTCAGTGG-CACTCTTTTC
*
797246 AAAGCCCACACAAGTTAG
128 AAAG-CC-CACAAGTCAG
* * * **
797264 TGGCAACTCTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATA
1 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACC
797329 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAA
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
* *
797393 GCCCATACGAGTCGG
131 GCCC--ACAAGTCAG
* * * *
797408 TGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACC
1 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACC
* *
797473 CTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAA
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
*
797537 GCCCACAAGTTAG
131 GCCCACAAGTCAG
* * ** * *
797550 TGGC-ATTCCTTTCAAAGCCCATGAGTCGGTGGCAACTCTTTTCAAAGCACACAAGTCAGTGGCA
1 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCA
797614 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT-TTTTCC
64 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT-C
**
797678 AAAGCCCACACGAGTTGG
128 AAAGCCCACA--AGTCAG
*
797696 TGGCAACTCTTTTCAATGCCCACA
1 TGGCAACTCTTTTCAAAGCCCACA
797720 CAAGTTAGTG
Statistics
Matches: 534, Mismatches: 52, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
141 23 0.04
142 16 0.03
143 82 0.15
144 255 0.48
145 18 0.03
146 33 0.06
147 22 0.04
148 85 0.16
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (143 bp):
TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACC
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
GCCCACAAGTCAG
Found at i:798666 original size:20 final size:20
Alignment explanation
Indices: 798643--798700 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
798633 AGATGTACCA
798643 ATACATTTTTCAATGTATCG
1 ATACATTTTTCAATGTATCG
* * *
798663 ATACATGTATGAATGTATCG
1 ATACATTTTTCAATGTATCG
*
798683 ATCCATTTTTCAATGTAT
1 ATACATTTTTCAATGTAT
798701 TAATACATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
ATACATTTTTCAATGTATCG
Found at i:798709 original size:20 final size:20
Alignment explanation
Indices: 798635--798709 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
798625 TTTTACCAAG
*
798635 ATGTACCAATACATTTTTCA
1 ATGTATCAATACATTTTTCA
* * * *
798655 ATGTATCGATACATGTATGA
1 ATGTATCAATACATTTTTCA
* *
798675 ATGTATCGATCCATTTTTCA
1 ATGTATCAATACATTTTTCA
*
798695 ATGTATTAATACATT
1 ATGTATCAATACATT
798710 CTGTTTTTCT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:798757 original size:20 final size:20
Alignment explanation
Indices: 798732--798780 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
798722 CCCAGATGTG
* *
798732 TCGATACATTTTTCAATATA
1 TCGATACATGTATCAATATA
* *
798752 TCGATACATGTATGAATGTA
1 TCGATACATGTATCAATATA
798772 TCGATACAT
1 TCGATACAT
798781 CTAGTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
TCGATACATGTATCAATATA
Found at i:802551 original size:20 final size:20
Alignment explanation
Indices: 802528--802600 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
802518 ACAATTCAAA
802528 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
802548 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
802569 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
802589 GTATCGATACAT
1 GTATCGATACAT
802601 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:802572 original size:21 final size:21
Alignment explanation
Indices: 802546--802621 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
802536 ACATGTTGCA
802546 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
802567 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
802587 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
802608 ATGTATCGATACAT
1 ATGTATCGATACAT
802622 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:802579 original size:41 final size:41
Alignment explanation
Indices: 802528--802621 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
802518 ACAATTCAAA
*
802528 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
802569 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
802610 GTATCGATACAT
1 GTATCGATACAT
802622 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:802678 original size:13 final size:13
Alignment explanation
Indices: 802660--802685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
802650 TACAGCAAGT
802660 ATGTATCGATACA
1 ATGTATCGATACA
802673 ATGTATCGATACA
1 ATGTATCGATACA
802686 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:805263 original size:79 final size:79
Alignment explanation
Indices: 805166--805478 Score: 330
Period size: 79 Copynumber: 4.0 Consensus size: 79
805156 TACATCCATT
805166 GATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTC-GAAAATAATGGGA
1 GATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAG-AAATAATGGGA
805230 TTGGAGTATCCCTGA
65 TTGGAGTATCCCTGA
* * * * * *
805245 AATGAAAATTTTAGTATTTTGGAAATAAAAATGGGGTTGGAGTATTCTCTCAAAAATAACAGGG-
1 GATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAA-TGGGA
*
805309 TTGGAGTATCCCTTA
65 TTGGAGTATCCCTGA
* * * * * * * * ** *
805324 GCTTAAAAATTTAATATTTGGGAAATAAAAACGAGGTTGGAGTATCCTCTTAGAAACGATAGGAT
1 GATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAATGGGAT
805389 TGGAGTAT-CCTCGA
66 TGGAGTATCCCT-GA
* * * * *
805403 GATGAGAAA-TTTAATATTTTGGAGATAAAAATGGGGGT-GATGTATCTCTTCAGAAATGATGGG
1 GATGA-AAATTTTAATATTTTGGAAATAAAAATGGGGTTGGA-GTATCCCCTCAGAAATAATGGG
*
805466 GTTGGAGTATCCC
64 ATTGGAGTATCCC
805479 CAATGGTGAA
Statistics
Matches: 190, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
78 7 0.04
79 175 0.92
80 8 0.04
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (79 bp):
GATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAATGGGAT
TGGAGTATCCCTGA
Found at i:805389 original size:158 final size:158
Alignment explanation
Indices: 805170--805478 Score: 385
Period size: 158 Copynumber: 2.0 Consensus size: 158
805160 TCCATTGATG
* * * * * * *
805170 AAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCGAAAATAATGGGATTGGA
1 AAAAATTTAATATTTGGGAAATAAAAACGAGGTTGGAGTATCCCCTAGAAAACAATAGGATTGGA
* *
805235 GTATCC-CTGAAATGA-AAATTTTAGTATTTTGGAAATAAAAATGGGGTTGGA-GTAT-TCTCTC
66 GTATCCTC-GAAATGAGAAA-TTTAATATTTTGGAAATAAAAATGGGGGT-GATGTATCTCT-TC
805296 AAAAATAACAGGGTTGGAGTATCCCTTAGCTT
127 AAAAATAACAGGGTTGGAGTATCCCTTAGCTT
* *
805328 AAAAATTTAATATTTGGGAAATAAAAACGAGGTTGGAGTATCCTCTTAG-AAACGATAGGATTGG
1 AAAAATTTAATATTTGGGAAATAAAAACGAGGTTGGAGTATCC-CCTAGAAAACAATAGGATTGG
* * *
805392 AGTATCCTCGAGATGAGAAATTTAATATTTTGGAGATAAAAATGGGGGTGATGTATCTCTTCAGA
65 AGTATCCTCGAAATGAGAAATTTAATATTTTGGAAATAAAAATGGGGGTGATGTATCTCTTCAAA
* **
805457 AATGATGGGGTTGGAGTATCCC
130 AATAACAGGGTTGGAGTATCCC
805479 CAATGGTGAA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
157 2 0.02
158 117 0.91
159 10 0.08
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (158 bp):
AAAAATTTAATATTTGGGAAATAAAAACGAGGTTGGAGTATCCCCTAGAAAACAATAGGATTGGA
GTATCCTCGAAATGAGAAATTTAATATTTTGGAAATAAAAATGGGGGTGATGTATCTCTTCAAAA
ATAACAGGGTTGGAGTATCCCTTAGCTT
Found at i:805558 original size:84 final size:79
Alignment explanation
Indices: 805444--805719 Score: 251
Period size: 78 Copynumber: 3.4 Consensus size: 79
805434 TGGGGGTGAT
* * * * *
805444 GTATCTCTTCAGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAAAATCGATATTTTGGACA
1 GTATCTCCTCAAAAATAATGGGGTT-GAGTATCCCCGATGGTG-AAAAAATTGATATTTTGGA-A
*
805509 TAAAAAAAACTAGGTTGGA
63 TAAAAAAAA--AGGTTAGA
* * *
805528 GTAT-TCCCTCGAAAATAATGGGGTTAGAGTATCCTCGATGGTG-AAAGATTGATATTTT-GAA-
1 GTATCT-CCTCAAAAATAATGGGGTT-GAGTATCCCCGATGGTGAAAAAATTGATATTTTGGAAT
805589 AATAAAAAAAGGTTAGA
64 AA-AAAAAAAGGTTAGA
* *
805606 GTATCTCCTCAAAAATAATAGGGTTGAAGTATCACCGATGGT-AAAAAATTGATA-TTTGGAA-A
1 GTATCTCCTCAAAAATAATGGGGTTG-AGTATCCCCGATGGTGAAAAAATTGATATTTTGGAATA
* *
805668 TAAAAATAGGGTTAGA
65 -AAAAAAAAGGTTAGA
* * * *
805684 GCATCTCCTCGAAAATATTGGCGTTGGAGTATCCCC
1 GTATCTCCTCAAAAATAATGGGGTT-GAGTATCCCC
805720 TAGAAAATAA
Statistics
Matches: 161, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
77 4 0.02
78 95 0.59
79 5 0.03
80 7 0.04
81 2 0.01
82 13 0.08
83 1 0.01
84 34 0.21
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (79 bp):
GTATCTCCTCAAAAATAATGGGGTTGAGTATCCCCGATGGTGAAAAAATTGATATTTTGGAATAA
AAAAAAAGGTTAGA
Found at i:805726 original size:28 final size:28
Alignment explanation
Indices: 805694--805747 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
805684 GCATCTCCTC
*
805694 GAAAATATTGGCGTTGGAGTATCCCCTA
1 GAAAATAATGGCGTTGGAGTATCCCCTA
*
805722 GAAAATAATGGGGTTGGAGTATCCCC
1 GAAAATAATGGCGTTGGAGTATCCCC
805748 GATTGTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (28 bp):
GAAAATAATGGCGTTGGAGTATCCCCTA
Found at i:805847 original size:79 final size:80
Alignment explanation
Indices: 805706--805916 Score: 216
Period size: 79 Copynumber: 2.7 Consensus size: 80
805696 AAATATTGGC
* *** * ** * *
805706 GTTGGAGTATCCCCTAGAAAATAATGGGGTTGGAGTATCCCCGATTGTGATAAA-TT-GATATTT
1 GTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTAGATGGTGA-AAATTTGGTTATTT
805769 T-AGAAAT-AAAATCGAG
65 TGA-AAATAAAAAT-GAG
* * *
805785 GTTGGAGTGTCCCCTCGAAAATATCAATGTTAGAGTATCCT-GATGGTGAAAATTTGGTTATTTT
1 GTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTAGATGGTGAAAATTTGGTTATTTT
805849 GAAAATAAAAATGAG
66 GAAAATAAAAATGAG
* * * *
805864 GTTGGAGTATCTCTTCGGAAATAACAAGGTTGGAGTATCCTAGATGGTGAAAA
1 GTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTAGATGGTGAAAA
805917 AAATCAATAT
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
77 3 0.03
78 9 0.08
79 80 0.73
80 17 0.16
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.31
Consensus pattern (80 bp):
GTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCTAGATGGTGAAAATTTGGTTATTTT
GAAAATAAAAATGAG
Found at i:807840 original size:13 final size:13
Alignment explanation
Indices: 807822--807878 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
807812 TTCAACAATT
807822 TGTATCGATACAA
1 TGTATCGATACAA
*
807835 TGTATCGATATATAA
1 TGTATCG--ATACAA
807850 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
807867 TGTATCGATACA
1 TGTATCGATACA
807879 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 19 0.53
15 5 0.14
17 5 0.14
19 7 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:807862 original size:32 final size:32
Alignment explanation
Indices: 807821--807905 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
807811 TTTCAACAAT
*
807821 TTGTATCGATACAATGTATCGATATATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
807853 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
807885 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
807906 CTGCGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:807891 original size:19 final size:18
Alignment explanation
Indices: 807835--807897 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
807825 ATCGATACAA
*
807835 TGTATCGATATATAAGTGT
1 TGTATCGATACATAAGT-T
807854 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
807867 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
807886 TGTATCGATACA
1 TGTATCGATACA
807898 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:814979 original size:15 final size:16
Alignment explanation
Indices: 814961--815004 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
814951 AGTCAAAAGT
814961 AAACACAAAAAAACA-
1 AAACACAAAAAAACAC
*
814976 AAACAAAAAAAAACAC
1 AAACACAAAAAAACAC
*
814992 ACACACAAAAAAA
1 AAACACAAAAAAA
815005 GTGCAAAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (16 bp):
AAACACAAAAAAACAC
Found at i:816344 original size:31 final size:30
Alignment explanation
Indices: 816234--816345 Score: 152
Period size: 30 Copynumber: 3.7 Consensus size: 30
816224 CTCCCTTCTT
816234 AAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCCC
* *
816264 AAAGCCCACGACTTAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCCC
* * *
816294 AAAATCCATGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
* *
816325 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
816346 CTCTTTTTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
30 51 0.73
31 19 0.27
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCCC
Found at i:816368 original size:34 final size:34
Alignment explanation
Indices: 816330--817182 Score: 806
Period size: 34 Copynumber: 26.6 Consensus size: 34
816320 TCTCCAAAGT
816330 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816364 CCACAACTCCGTGGCACACCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
816398 CTACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
816425 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816459 CCACAACTCCGTGTCACTCTTTTTTCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816493 CCACAACTCCGTGGCACACCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
816527 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
816554 CCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTC-TTTTTCCTTTTAAGC
* * *
816589 CCACAACTTCGTGGCAATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
816623 CCACAACTCTGTGGCA--C-----CCTTCTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* **
816650 CCATAACTCTATGGCACTCTTTTTCCTTTTAAG-
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
816683 CCATAACTTCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816717 CCATAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816751 CCATAACTCCATGGTA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
816778 CCACAACTTTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
816812 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
816846 CCATAACTCTGTGGCACACCTTTTT-CTTTTAAGT
1 CCACAACTCCGTGGCAC-TCTTTTTCCTTTTAAGC
*
816880 CCACAACTTCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
816907 CCACAACTCTGTGGCACTCTTTTTCGTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816941 CCACAACTCCTTGGCCCTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
816975 CCACAACTCTGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
817002 CCACAACTCTGTGGCACTCTTTTTCCTTTTAATC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
817036 CCACAACTCCATGGCACACCTTTTT--TTTTAAGT
1 CCACAACTCCGTGGCAC-TCTTTTTCCTTTTAAGC
*
817069 CCACAACTCCGT-G-ACAC-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
817096 CCACAACTTTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
817130 CCGCAACTCCGTGGCA-TGCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACT-CTTTTTCCTTTTAAGC
* *
817164 CCTCAACTCTGTGGCACTC
1 CCACAACTCCGTGGCACTC
817183 CCTTCTAAAG
Statistics
Matches: 678, Mismatches: 83, Indels: 116
0.77 0.09 0.13
Matches are distributed among these distances:
27 154 0.23
28 1 0.00
29 9 0.01
30 1 0.00
31 3 0.00
32 6 0.01
33 48 0.07
34 416 0.61
35 40 0.06
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.36
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:816441 original size:95 final size:96
Alignment explanation
Indices: 816330--817183 Score: 839
Period size: 95 Copynumber: 8.9 Consensus size: 96
816320 TCTCCAAAGT
* *
816330 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACCTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
*
816395 AGTCTACAACTCCGTGGCAC-CCTTTTAAGC
66 AGTCCACAACTCCGTGGCACTCCTTTTAAGC
* * * *
816425 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGTCACTCTTTTTTCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
*
816490 AGTCCACAACTCCGTGGCACACCTTTTCCTTTTAAGT
66 AGTCCACAACTCCGTGG--CA-C---TCCTTTTAAGC
* *
816527 CCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACAC-TTTTTCCTTTT
* * *
816585 AAGCCCACAACTTCGTGGCAATCTTTTTCCTTTTAAGT
65 AAGTCCACAACTCCGTGGC-A-C----TCCTTTTAAGC
* * ** *
816623 CCACAACTCTGTGGCA--C-----CCTTCTAAGCCCATAACTCTATGGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
* *
816681 AG-CCATAACTTCGTGGCACTCTTTTTCCTTTTAAGC
66 AGTCCACAACTCCGTGGCA--C----TCCTTTTAAGC
* * * * *
816717 CCATAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCATGG--TAC-----CCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
* **
816775 AGCCCACAACTTTGTGGCACTCTTTTTCCTTTTAAGC
66 AGTCCACAACTCCGTGGCA--C----TCCTTTTAAGC
** * *
816812 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGCCCATAACTCTGTGGCACACCTTTTT-CTTTT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACA-CTTTTTCCTTTT
*
816876 AAGTCCACAACTTCGTGGCAC-CCTTTTAAGC
65 AAGTCCACAACTCCGTGGCACTCCTTTTAAGC
* * * *
816907 CCACAACTCTGTGGCACTCTTTTTCGTTTTAAGCCCACAACTCCTTGGCCCTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
*
816972 AGTCCACAACTCTGTGGCAC-CCTTTTAAGC
66 AGTCCACAACTCCGTGGCACTCCTTTTAAGC
* *
817002 CCACAACTCTGTGGCACTCTTTTTCCTTTTAATCCCACAACTCCATGGCACACCTTTTT--TTTT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACA-CTTTTTCCTTTT
*
817065 AAGTCCACAACTCCGTGACAC-CCTTTTAAGC
65 AAGTCCACAACTCCGTGGCACTCCTTTTAAGC
* * **
817096 CCACAACTTTGTGGCACTCTTTTTCCTTTTAAGCCCGCAACTCCGTGGCATGCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
* *
817161 AGTCCTCAACTCTGTGGCACTCC
66 AGTCCACAACTCCGTGGCACTCC
817184 CTTCTAAAGG
Statistics
Matches: 662, Mismatches: 65, Indels: 63
0.84 0.08 0.08
Matches are distributed among these distances:
93 7 0.01
94 140 0.21
95 349 0.53
96 90 0.14
97 3 0.00
98 2 0.00
99 1 0.00
100 2 0.00
101 21 0.03
102 47 0.07
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.36
Consensus pattern (96 bp):
CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTA
AGTCCACAACTCCGTGGCACTCCTTTTAAGC
Found at i:816509 original size:129 final size:130
Alignment explanation
Indices: 816330--817183 Score: 755
Period size: 129 Copynumber: 6.7 Consensus size: 130
816320 TCTCCAAAGT
* *
816330 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACACCTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
* * * *
816395 AGTCTACAACTCCGTGGCAC-CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
66 AGTCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
816459 CCACAACTCCGTGTCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
*
816524 AGTCCACAACTCCGTGGCAC-CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAG
66 AGTCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTTAAG
816588 C
130 C
* *
816589 CCACAACT-TCGTGGCAATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC-CC--TT-C---T
1 CCACAACTCT-GTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTT
* * * * *
816646 AAGCCCATAACTCTATGGCACTCTTTTTCCTTTTAAG-CCATAACTTCGTGGCACTCTTTTTCCT
65 AAGTCCACAACTCTGTGGCA--C----TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
816710 TTTAAGC
124 TTTAAGC
* * * *
816717 CCATAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCATGG--TA-C----CCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
* * *
816775 AGCCCACAACTTTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTT
66 AGTCCACAACTCTGTGGCA--C----TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
816840 TTAAGC
125 TTAAGC
* * *
816846 CCATAACTCTGTGGCACACCTTTTT-CTTTTAAGTCCACAACTTCGTGG--CA-C----CCTTTT
1 CCACAACTCTGTGGCAC-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTT
* * *
816903 AAGCCCACAACTCTGTGGCACTCTTTTTCGTTTTAAGCCCACAACTCCTTGGCCCTCTTTTTCCT
65 AAGTCCACAACTCTGTGGCACTC-----C-TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
*
816968 TTTAAGT
124 TTTAAGC
* * * *
816975 CCACAACTCTGTGGCA--C-----CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
** * * *
817033 A-TCCCACAACTCCATGGCACACCTTTTTTTTTAAGTCCACAACTCCGT-G-ACAC-----CCTT
66 AGT-CCACAACTCTGTGGCACTCC-----TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
817090 TTAAGC
125 TTAAGC
* * * ** *
817096 CCACAACTTTGTGGCACTCTTTTTCCTTTTAAGCCCGCAACTCCGTGGCATGCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
*
817161 AGTCCTCAACTCTGTGGCACTCC
66 AGTCCACAACTCTGTGGCACTCC
817184 CTTCTAAAGG
Statistics
Matches: 618, Mismatches: 63, Indels: 89
0.80 0.08 0.12
Matches are distributed among these distances:
121 24 0.04
122 20 0.03
123 20 0.03
124 2 0.00
125 2 0.00
126 5 0.01
127 4 0.01
128 164 0.27
129 303 0.49
130 74 0.12
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.36
Consensus pattern (130 bp):
CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACACCTTTTCCTTTTA
AGTCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:816963 original size:61 final size:64
Alignment explanation
Indices: 816544--817182 Score: 543
Period size: 61 Copynumber: 9.9 Consensus size: 64
816534 TCCGTGGCAC
*
816544 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACT-TCGTGGCAATC
1 CCTTTTAAGCCCACAACTCCGTGGCACTC-----TCCTTTTAAGCCCACAACTCT-GTGGCACTC
816608 TTTTT
60 TTTTT
* * * * *
816613 CCTTTTAAGTCCACAACTCTGTGGCA--C-CCTTCTAAGCCCATAACTCTATGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * *
816674 CCTTTTAAG-CCATAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCTGTGGCACTCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTC----TCCTTTTAAGCCCACAACTCTGTGGCACTCTT
816738 TTT
62 TTT
* * * * *
816741 CCTTTTAAGTCCATAACTCCATGGTA--C-CCTTTTAAGCCCACAACTTTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * *
816802 CCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGCCCATAACTCTGTGGCACACCT
1 CCTTTTAAGCCCACAACTCCGTGGCACTC----TCCTTTTAAGCCCACAACTCTGTGGCAC-TCT
816867 TTTT
61 TTTT
* *
816871 -CTTTTAAGTCCACAACTTCGTGGCA--C-CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * * *
816931 CGTTTTAAGCCCACAACTCCTTGGCCCTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA--C--
1 CCTTTTAAGCCCACAACTCCGTGGCACTC----TCCTTTTAAGCCCACAACTCTGTGGCACTCTT
816992 ---
62 TTT
* * ** *
816992 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAATCCCACAACTCCATGGCACACCT
1 CCTTTTAAGCCCACAACTCCGTGGCACTC----TCCTTTTAAGCCCACAACTCTGTGGCAC-TCT
817057 TTTT
61 TTTT
* * *
817061 --TTTTAAGTCCACAACTCCGT-G-ACAC-CCTTTTAAGCCCACAACTTTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * * *
817120 CCTTTTAAGCCCGCAACTCCGTGGCATGCTTTTTCCTTTTAAGTCCTCAACTCTGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCA--C--TCTCCTTTTAAGCCCACAACTCTGTGGCACTC
817183 CCTTCTAAAG
Statistics
Matches: 472, Mismatches: 56, Indels: 85
0.77 0.09 0.14
Matches are distributed among these distances:
59 6 0.01
60 42 0.09
61 208 0.44
62 3 0.01
63 3 0.01
64 1 0.00
65 4 0.01
66 4 0.01
67 60 0.13
68 111 0.24
69 30 0.06
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (64 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
Found at i:817111 original size:60 final size:60
Alignment explanation
Indices: 817026--817142 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
817016 CACTCTTTTT
* *
817026 CCTTTTAATCCCACAACTCCATGGCACACCTTTTT-TTTTAAGTCCACAACTCCGTGACAC
1 CCTTTTAAGCCCACAACTCCATGGCAC-CCTTTTTCTTTTAAGCCCACAACTCCGTGACAC
*** * *
817086 CCTTTTAAGCCCACAACTTTGTGGCACTCTTTTTCCTTTTAAGCCCGCAACTCCGTG
1 CCTTTTAAGCCCACAACTCCATGGCACCCTTTTT-CTTTTAAGCCCACAACTCCGTG
817143 GCATGCTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 6 0.12
60 23 0.48
61 19 0.40
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.33
Consensus pattern (60 bp):
CCTTTTAAGCCCACAACTCCATGGCACCCTTTTTCTTTTAAGCCCACAACTCCGTGACAC
Found at i:817217 original size:31 final size:31
Alignment explanation
Indices: 817182--817259 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 31
817172 CTGTGGCACT
*
817182 CCCTTCTAAAGGCCACACAAGTCGATGGCAA
1 CCCTTCTAAAGCCCACACAAGTCGATGGCAA
*
817213 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCC-T-TCTAAAGCCCACACAAGTCGATGGCAA
817246 CCCTTCT-AAGCCCA
1 CCCTTCTAAAGCCCA
817260 ATATTGCTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 7 0.16
31 6 0.14
32 2 0.05
33 28 0.65
ACGTcount: A:0.28, C:0.37, G:0.17, T:0.18
Consensus pattern (31 bp):
CCCTTCTAAAGCCCACACAAGTCGATGGCAA
Found at i:817225 original size:33 final size:33
Alignment explanation
Indices: 817186--817252 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
817176 GGCACTCCCT
*
817186 TCTAAAGGCCACACAAGTCGATGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGATGGCAACCCTTC
*
817219 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGATGGCAACCCTTC
817252 T
1 T
817253 AAGCCCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.19
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGATGGCAACCCTTC
Found at i:817322 original size:49 final size:49
Alignment explanation
Indices: 817252--817816 Score: 473
Period size: 49 Copynumber: 11.7 Consensus size: 49
817242 GCAACCCTTC
* * * * *
817252 TAAGCCCAATATTGCTAGCCTTGAATCAGCACATTAGCACCTTCCTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
817301 TAATTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
817350 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
817393 TAAGTCCAATGTCACTGGCCTTGATTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
817442 TAAGT-C--TATCGCTGGCCTTGAATCAGGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCA-GCACATTGGCACCTTCATCTT
*
817489 TAA-TACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGT-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
817532 TAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGACACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
817581 TAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
* * * * *
817633 TAAATCCAATGTCACTTGCCTTAAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
** * * * * *
817682 TAAACCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT
* * * ** * *
817732 CCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCGCATTGGCA--TTCTTCTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
817781 CAAGTCTAATGTTGCTGGCCATGAATCAACACATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
817817 TCATTTTTTG
Statistics
Matches: 419, Mismatches: 73, Indels: 50
0.77 0.13 0.09
Matches are distributed among these distances:
43 78 0.19
44 1 0.00
46 17 0.04
47 48 0.11
48 2 0.00
49 176 0.42
50 24 0.06
51 1 0.00
52 72 0.17
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:817396 original size:43 final size:43
Alignment explanation
Indices: 817347--817576 Score: 237
Period size: 43 Copynumber: 5.1 Consensus size: 43
817337 GCACATTTAT
*
817347 CTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
*
817390 CTTTAAGTCCAATGTCACTGGCCTTGATTCAGCACATTGGCAC
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
* ** ** *
817433 CTTCACCTTTAA-GTCTATCGCTGGCCTTGAATCAGGCATATTGGCAC
1 CTTTAAGTCCAATGTC-A---CTGGCCTTGAATCA-GCACATTGGCAC
* *
817480 CTTTATCTTTAATACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTA-----AGT-CCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
* * *
817529 CTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGACAC
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
817572 CTTTA
1 CTTTA
817577 TCTTTAAGTC
Statistics
Matches: 156, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
42 3 0.02
43 87 0.56
44 2 0.01
46 13 0.08
47 15 0.10
49 16 0.10
50 14 0.09
52 1 0.01
53 2 0.01
54 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
Found at i:817509 original size:139 final size:139
Alignment explanation
Indices: 817269--817675 Score: 577
Period size: 139 Copynumber: 2.9 Consensus size: 139
817259 AATATTGCTA
* *
817269 GCCTTGAATCAGCACATTAGCACCTTC-CTCTTTAATTCCAATATCGCTGGCCTTGAATCAGCAT
1 GCCTTGAATCAGCACATTGGCACCTTCAC-CTTTAAGTCC-ATATCGCTGGCCTTGAATCAGCAT
*
817333 ATTGGCACATTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
64 ATTGGCACCTTTATCTTTAA-ACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
817398 CCAATGTCACTG
128 CCAATGTCACTG
*
817410 GCCTTGATTCAGCACATTGGCACCTTCACCTTTAAGT-C-TATCGCTGGCCTTGAATCAGGCATA
1 GCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCATATCGCTGGCCTTGAATCA-GCATA
*
817473 TTGGCACCTTTATCTTTAATACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
65 TTGGCACCTTTATCTTTAA-ACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
*
817538 CAATGTCGCTG
129 CAATGTCACTG
* * * *
817549 GCCTTGACTCAGCACATTGACACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 GCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCC-ATATCGCTGGCCTTGAATCAGCATA
* * * *
817614 GTGGCGCCTTTGTCATCTTTAAATCCAATGTCACTTGCCTTAAATCAGCACATTGGCACCTT
65 TTGGCACC-TT-T-ATCTTTAAA-CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTT
817676 CATCTTTAAA
Statistics
Matches: 241, Mismatches: 16, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
138 19 0.08
139 110 0.46
140 2 0.01
141 43 0.18
142 22 0.09
143 2 0.01
144 43 0.18
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (139 bp):
GCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCATATCGCTGGCCTTGAATCAGCATAT
TGGCACCTTTATCTTTAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
ATGTCACTG
Found at i:817704 original size:101 final size:101
Alignment explanation
Indices: 817529--817719 Score: 283
Period size: 101 Copynumber: 1.9 Consensus size: 101
817519 ACATTGGCAC
* * * * * **
817529 CTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGACACCTTTATCTTTAAGTCCAATATC
1 CTTTAAATCCAATGTCACTGGCCTTAAATCAGCACATTGACACCTTCATCTTTAAACCCAATATC
817594 GCTGGCCTTGAATCAGCATAGTGGCGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCATAGTGGCGCCTTTGTCAT
* *
817630 CTTTAAATCCAATGTCACTTGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAACCCAATATC
1 CTTTAAATCCAATGTCACTGGCCTTAAATCAGCACATTGACACCTTCATCTTTAAACCCAATATC
* *
817695 GTTGGCCTTGAATCAGCATATTGGC
66 GCTGGCCTTGAATCAGCATAGTGGC
817720 ATCTTTAACA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (101 bp):
CTTTAAATCCAATGTCACTGGCCTTAAATCAGCACATTGACACCTTCATCTTTAAACCCAATATC
GCTGGCCTTGAATCAGCATAGTGGCGCCTTTGTCAT
Found at i:817763 original size:101 final size:101
Alignment explanation
Indices: 817532--817772 Score: 279
Period size: 101 Copynumber: 2.4 Consensus size: 101
817522 TTGGCACCTT
* * * **
817532 TAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGACACCTTTATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAACCCAATATCGCT
* ** *
817597 GGCCTTGAATCAGCATAGTGGCGCCTTTGTCATCTT
66 GGCCTTGAATCAGCATAGTGGCACCTTTAACATCTC
* * * * *
817633 TAAATCCAATGTCACTT-GCCTTAAATCAGCACATTGGCACCTTCATCTTTAAACCCAATATCGT
1 TAAGTCCAATGTC-GTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAACCCAATATCGC
* *
817697 TGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCC
65 TGGCCTTGAATCAGCATAGTGGCACCTTTAACATCT-C
* * *
817734 TAAGCCCAATGTCGTTGGCCTTGTCTCAGCGCATTGGCA
1 TAAGTCCAATGTCGTTGGCCTTGACTCAGCACATTGGCA
817773 TTCTTCTTCA
Statistics
Matches: 114, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 3 0.03
101 110 0.96
102 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (101 bp):
TAAGTCCAATGTCGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAACCCAATATCGCT
GGCCTTGAATCAGCATAGTGGCACCTTTAACATCTC
Found at i:818604 original size:13 final size:13
Alignment explanation
Indices: 818586--818640 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
818576 TTCAACAATT
818586 TGTATCGATAAAA
1 TGTATCGATAAAA
818599 TGTATCGATACATAA
1 TGTATCGATA-A-AA
818614 GTGTTGTATCGATAAAA
1 ----TGTATCGATAAAA
818631 TGTATCGATA
1 TGTATCGATA
818641 CATAAGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATAAAA
Found at i:818621 original size:32 final size:32
Alignment explanation
Indices: 818585--818669 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
818575 TTTCAACAAT
818585 TTGTATCGATAAAATGTATCGATACATAAGTG
1 TTGTATCGATAAAATGTATCGATACATAAGTG
*
818617 TTGTATCGATAAAATGTATCGATACATAAGTT
1 TTGTATCGATAAAATGTATCGATACATAAGTG
*
818649 TTGTATCGATACAATGTATCG
1 TTGTATCGATAAAATGTATCG
818670 CTACGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATAAAATGTATCGATACATAAGTG
Found at i:818623 original size:19 final size:18
Alignment explanation
Indices: 818599--818661 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
818589 ATCGATAAAA
818599 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
818618 TGTATCGATA-A-AA---
1 TGTATCGATACATAAGTT
818631 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
818650 TGTATCGATACA
1 TGTATCGATACA
818662 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:822882 original size:20 final size:20
Alignment explanation
Indices: 822859--822903 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
822849 GAAAGTATCA
*
822859 ATACATTCACTTA-TGTTTTG
1 ATACATT-ACTTATTGTATTG
822879 ATACATTACTTATTGTATTG
1 ATACATTACTTATTGTATTG
822899 ATACA
1 ATACA
822904 AACTGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (20 bp):
ATACATTACTTATTGTATTG
Found at i:828337 original size:163 final size:160
Alignment explanation
Indices: 828151--828579 Score: 435
Period size: 158 Copynumber: 2.7 Consensus size: 160
828141 CTCTTTCTCA
* * * * * *
828151 AAAATATCATTTCGTACCTTAATGGAATCCCGAAAAGATAAAAAAAATTTTTGAAACCATTTATA
1 AAAATATTATTTCGTATCTTAATGGAATCCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATA
* ** *
828216 CCTCTACGGAACCCCATAGGAATATAAAAGATTAAAAAAGCTATTAGAGTTTGTCTTGATTATGA
66 CCTCTACGGAACCCCATAGGAATATAAAAGATTAAAAAA---ATTAAAGTTCCTCCTGATTATGA
* * *
828281 AAGTGTTAATTTACTTTAATTTGTTT-TATTTTG
128 AAGTATTAATTTAATTTAATTTATTTAT-TTTTG
* *
828314 AAAATATTATTTCGTATCTTAATGGAAGT-TC-AAAAGATACAAAAAGTTTTTGAAATTTTTTAT
1 AAAATATTATTTCGTATCTTAATGGAA-TCCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTAT
* * *
828377 ATCCCCTAC-GAACCCATATAGGAATATAAAAGA-T-AAAAAATTAAAGTTCCTCCTGGTTATGA
65 A-CCTCTACGGAACCC-CATAGGAATATAAAAGATTAAAAAAATTAAAGTTCCTCCTGATTATGA
828439 AAGTATTAATTTAATTTAATTTATTTATTTTTG
128 AAGTATTAATTTAATTTAATTTATTTATTTTTG
* * *
828472 AAAA-A-TACCTTT-TTATACTTTAATGGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTT
1 AAAATATTA--TTTCGTAT-C-TTAATGGAATCCCGAAAAGATACAAAAAGTTTTTGAAATCTTT
* * ** * * *
828534 TATACCTTTAAGGGTCCTCATTGGAATATAAAATATTAGAAAAAAT
62 TATACCTCTACGGAACCCCATAGGAATATAAAAGATTA-AAAAAAT
828580 GATTAATATT
Statistics
Matches: 220, Mismatches: 32, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
156 2 0.01
157 4 0.02
158 54 0.25
159 29 0.13
160 35 0.16
161 5 0.02
162 42 0.19
163 48 0.22
164 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (160 bp):
AAAATATTATTTCGTATCTTAATGGAATCCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATA
CCTCTACGGAACCCCATAGGAATATAAAAGATTAAAAAAATTAAAGTTCCTCCTGATTATGAAAG
TATTAATTTAATTTAATTTATTTATTTTTG
Found at i:828782 original size:235 final size:235
Alignment explanation
Indices: 828366--829069 Score: 1320
Period size: 235 Copynumber: 3.0 Consensus size: 235
828356 AAAGTTTTTG
* * * *
828366 AAATTTTTTATATCCCCTACGAACCCATATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCCT
1 AAATCTTTTATACCCCCTACGAACCCGTATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCTT
828431 GGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
66 GGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
828496 GGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCTTTAAGGGTCCTCATTGGAAT
131 GGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCTTTAAGGGTCCTCATTGGAAT
828561 ATAAAATATTAGAAAAAATGATTAATATTTATTTCAATTA
196 ATAAAATATTAGAAAAAATGATTAATATTTATTTCAATTA
828601 AAATCTTTTATACCCCCTACGAACCCGTATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCTT
1 AAATCTTTTATACCCCCTACGAACCCGTATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCTT
828666 GGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
66 GGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
828731 GGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCTTTAAGGGTCCTCATTGGAAT
131 GGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCTTTAAGGGTCCTCATTGGAAT
828796 ATAAAATATTAGAAAAAATGATTAATATTTATTTCAATTA
196 ATAAAATATTAGAAAAAATGATTAATATTTATTTCAATTA
828836 AAATCTTTTATACCCCCTACGAACCCGTATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCTT
1 AAATCTTTTATACCCCCTACGAACCCGTATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCTT
*
828901 GGTTATGAAAGTATTAATTTAATTTTATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
66 GGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
* * * *
828966 GGAAACCCGAAAAGATACGAAAAGTTTTTAAAATCTTTTATACCTTTACGGGCCCTCATTGGGAT
131 GGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCTTTAAGGGTCCTCATTGGAAT
829031 ATAAAATATTAG-AAAAATGATTAATATTTATTTCAATTA
196 ATAAAATATTAGAAAAAATGATTAATATTTATTTCAATTA
829070 TAAAAGTGTT
Statistics
Matches: 460, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
234 27 0.06
235 433 0.94
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (235 bp):
AAATCTTTTATACCCCCTACGAACCCGTATAGGAATATAAAAGATAAAAAATTAAAGTTCCTCTT
GGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTTGAAAAATACCTTTTTATACTTTAAT
GGAAACCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCTTTAAGGGTCCTCATTGGAAT
ATAAAATATTAGAAAAAATGATTAATATTTATTTCAATTA
Found at i:829698 original size:11 final size:11
Alignment explanation
Indices: 829682--829706 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
829672 ATGGATCACG
829682 AAGGCTAAATC
1 AAGGCTAAATC
829693 AAGGCTAAATC
1 AAGGCTAAATC
829704 AAG
1 AAG
829707 CATGAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (11 bp):
AAGGCTAAATC
Found at i:830043 original size:21 final size:21
Alignment explanation
Indices: 829996--830043 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
829986 TAGCTTAGTT
*
829996 TTTCTATTTTTTAACCTATTT
1 TTTCTATTTTTTAACCTATTG
*
830017 TCTTCTATTTTTCTAGCCT-TTG
1 T-TTCTATTTTT-TAACCTATTG
830039 TTTCT
1 TTTCT
830044 CTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.22
22 13 0.57
23 5 0.22
ACGTcount: A:0.12, C:0.19, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTCTATTTTTTAACCTATTG
Found at i:835789 original size:2 final size:2
Alignment explanation
Indices: 835782--835806 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
835772 AGAAAAGTGT
835782 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
835807 TTAAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:836245 original size:30 final size:30
Alignment explanation
Indices: 836211--836267 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
836201 AAAAAAAATG
*
836211 TTACTAA-ATATTTTTTCTTAAAACAAAGAA
1 TTACTAATATATATTTT-TTAAAACAAAGAA
836241 TTACTAATATATATTTTTTAAAACAAA
1 TTACTAATATATATTTTTTAAAACAAA
836268 CATCATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (30 bp):
TTACTAATATATATTTTTTAAAACAAAGAA
Found at i:836292 original size:13 final size:13
Alignment explanation
Indices: 836270--836304 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
836260 AAAACAAACA
836270 TCATAATAAAATT
1 TCATAATAAAATT
*
836283 TCATATTAAAATT
1 TCATAATAAAATT
*
836296 TCACAATAA
1 TCATAATAA
836305 TATCAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (13 bp):
TCATAATAAAATT
Found at i:843654 original size:17 final size:17
Alignment explanation
Indices: 843634--843668 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
843624 AATAATTGAA
*
843634 ATAAAATATAAAATAAT
1 ATAAAATAAAAAATAAT
*
843651 ATAATATAAAAAATAAT
1 ATAAAATAAAAAATAAT
843668 A
1 A
843669 AAATTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATAAAAAATAAT
Done.