Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 32 of 352
Found at i:10314088 original size:20 final size:20
Alignment explanation
Indices: 10314063--10314106 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10314053 TATACATGTC
* * *
10314063 AATTCTGCTCTAAATCTAAA
1 AATTCTACTCGAAATCAAAA
10314083 AATTCTACTCGAAATCAAAA
1 AATTCTACTCGAAATCAAAA
10314103 AATT
1 AATT
10314107 TCACCCGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTCTACTCGAAATCAAAA
Found at i:10336101 original size:9 final size:9
Alignment explanation
Indices: 10336080--10336143 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
10336070 GAAGTAATAC
10336080 AAAATTAATT
1 AAAATT-ATT
10336090 AAAATTATT
1 AAAATTATT
*
10336099 AAAATTATAA
1 AAAATTAT-T
*
10336109 AAAATTATC
1 AAAATTATT
*
10336118 AAAGTTATT
1 AAAATTATT
*
10336127 ATAAATTTATA
1 A-AAA-TTATT
10336138 AAAATT
1 AAAATT
10336144 TATAAAGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 21 0.47
10 19 0.42
11 5 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:10336112 original size:19 final size:19
Alignment explanation
Indices: 10336090--10336149 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
10336080 AAAATTAATT
*
10336090 AAAATTATTAAAATTATAA
1 AAAATTATAAAAATTATAA
* * *
10336109 AAAATTATCAAAGTTATTAT
1 AAAATTATAAAAATTA-TAA
*
10336129 AAATTTATAAAAATTTATAA
1 AAAATTATAAAAA-TTATAA
10336149 A
1 A
10336150 GGAAAAGTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 14 0.44
20 15 0.47
21 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATAAAAATTATAA
Found at i:10336570 original size:28 final size:28
Alignment explanation
Indices: 10336539--10336592 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
10336529 TTTTTGCAAC
*
10336539 TTTTTAATAATATTTA-ATATTTTTTAGA
1 TTTTTAAT-ATATTTATACATTTTTTAGA
*
10336567 TTTTTAATATTTTTATACATTTTTTA
1 TTTTTAATATATTTATACATTTTTTA
10336593 TCATGTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTAATATATTTATACATTTTTTAGA
Found at i:10336619 original size:10 final size:9
Alignment explanation
Indices: 10336604--10336672 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 9
10336594 CATGTCAATA
10336604 AATTTTATAT
1 AATTTT-TAT
10336614 AATTTTT-T
1 AATTTTTAT
10336622 AATTTTTAT
1 AATTTTTAT
* *
10336631 AATCATTCAT
1 AAT-TTTTAT
10336641 -ATTTTTAT
1 AATTTTTAT
*
10336649 AATATATTGAT
1 AAT-T-TTTAT
10336660 AATATTTTAT
1 AAT-TTTTAT
10336670 AAT
1 AAT
10336673 ATCTAACGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 12 0.25
9 9 0.19
10 18 0.38
11 9 0.19
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
AATTTTTAT
Found at i:10336626 original size:8 final size:9
Alignment explanation
Indices: 10336508--10336672 Score: 61
Period size: 9 Copynumber: 17.3 Consensus size: 9
10336498 AAAATAACAA
10336508 AATTTTTAT
1 AATTTTTAT
* *
10336517 ATTTTTTTT
1 AATTTTTAT
**
10336526 ATATTTTTGC
1 A-ATTTTTAT
10336536 AACTTTTTAAT
1 AA-TTTTT-AT
*
10336547 AATATTTA-
1 AATTTTTAT
10336555 ATATTTTT-T
1 A-ATTTTTAT
10336564 AGATTTTTA-
1 A-ATTTTTAT
10336573 ATATTTTTAT
1 A-ATTTTTAT
10336583 ACATTTTTTAT
1 A-A-TTTTTAT
* * **
10336594 CATGTCAAT
1 AATTTTTAT
10336603 AAATTTTATAT
1 -AATTTT-TAT
10336614 AATTTTT-T
1 AATTTTTAT
10336622 AATTTTTAT
1 AATTTTTAT
* *
10336631 AATCATTCAT
1 AAT-TTTTAT
10336641 -ATTTTTAT
1 AATTTTTAT
*
10336649 AATATATTGAT
1 AAT-T-TTTAT
10336660 AATATTTTAT
1 AAT-TTTTAT
10336670 AAT
1 AAT
10336673 ATCTAACGCA
Statistics
Matches: 115, Mismatches: 26, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
8 13 0.11
9 43 0.37
10 39 0.34
11 20 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:10343022 original size:29 final size:28
Alignment explanation
Indices: 10342989--10343063 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 28
10342979 AGACATATTT
* *
10342989 TTATTTTTATTTAATTTTATGGTTTTTTA
1 TTATTTTTATATAATTTTAT-GATTTTTA
*
10343018 TTATTTTTATAT-ATTTTGTGATTTTTA
1 TTATTTTTATATAATTTTATGATTTTTA
*
10343045 TCATTTTTATAATAATTTT
1 TTATTTTTAT-ATAATTTT
10343064 TTAACAACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 16 0.40
28 8 0.20
29 16 0.40
ACGTcount: A:0.24, C:0.01, G:0.05, T:0.69
Consensus pattern (28 bp):
TTATTTTTATATAATTTTATGATTTTTA
Found at i:10343034 original size:18 final size:18
Alignment explanation
Indices: 10343012--10343054 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10343002 ATTTTATGGT
*
10343012 TTTTTATTATTTTTAT-A
1 TTTTTATGATTTTTATCA
*
10343029 TATTTTGTGATTTTTATCA
1 T-TTTTATGATTTTTATCA
10343048 TTTTTAT
1 TTTTTAT
10343055 AATAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.86
19 2 0.10
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTTATGATTTTTATCA
Found at i:10343034 original size:19 final size:21
Alignment explanation
Indices: 10342990--10343034 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
10342980 GACATATTTT
*
10342990 TATTTTTATTTAATTTTATGG
1 TATTTTTATTTAATTTTATGA
*
10343011 T-TTTTTA-TTATTTTTAT-A
1 TATTTTTATTTAATTTTATGA
10343029 TATTTT
1 TATTTT
10343035 GTGATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.05
19 13 0.62
20 6 0.29
21 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTTTTATTTAATTTTATGA
Found at i:10344892 original size:37 final size:37
Alignment explanation
Indices: 10344850--10344920 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
10344840 TTTAAATAAC
*
10344850 AAGTATATGGTTATTTGATAAGTGAACGGAAATGAAT
1 AAGTATATGGTTATTTGATAAGTGAACGAAAATGAAT
* * *
10344887 AAGTATATGGTTGTTTGATATGTGTACGAAAATG
1 AAGTATATGGTTATTTGATAAGTGAACGAAAATG
10344921 TTAAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATAAGTGAACGAAAATGAAT
Found at i:10345081 original size:28 final size:30
Alignment explanation
Indices: 10345010--10345081 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
10345000 TTATTAGGGT
* *
10345010 TTATCAGGTACTATATGCCAGTGATTACAG
1 TTATCAGGTACTTTATACCAGTGATTACAG
*
10345040 TTATCAGGTACTTTATACCGGTG-TTACAG
1 TTATCAGGTACTTTATACCAGTGATTACAG
*
10345069 -TATCAGGCACTTT
1 TTATCAGGTACTTT
10345082 GTGCTGATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 12 0.32
29 6 0.16
30 20 0.53
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (30 bp):
TTATCAGGTACTTTATACCAGTGATTACAG
Found at i:10351592 original size:29 final size:30
Alignment explanation
Indices: 10351533--10351590 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10351523 TCCGAGCCTT
*
10351533 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10351563 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
10351591 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10351820 original size:13 final size:13
Alignment explanation
Indices: 10351802--10351833 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10351792 TTTCCAGCAA
10351802 TTATGAATTTATT
1 TTATGAATTTATT
10351815 TTATGAATTTATT
1 TTATGAATTTATT
*
10351828 TGATGA
1 TTATGA
10351834 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10352041 original size:50 final size:50
Alignment explanation
Indices: 10351928--10352169 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10351918 ATTTGGGTAA
* * *
10351928 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10351984 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10352034 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10352084 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10352134 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10352170 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10352117 original size:100 final size:103
Alignment explanation
Indices: 10351928--10352177 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10351918 ATTTGGGTAA
10351928 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10351993 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10352034 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10352096 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10352134 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10352178 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10362069 original size:20 final size:21
Alignment explanation
Indices: 10362029--10362069 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10362019 TAAATTAATA
*
10362029 ATTAAAATGACATGTTTATAT
1 ATTAAAATGACATGATTATAT
*
10362050 ATTAAAATTACA-GATTATAT
1 ATTAAAATGACATGATTATAT
10362070 CTATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTAAAATGACATGATTATAT
Found at i:10364093 original size:13 final size:13
Alignment explanation
Indices: 10364077--10364106 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10364067 AGTGCTGCAA
10364077 AAAAATGCTTATG
1 AAAAATGCTTATG
*
10364090 AAAAATGCTTTTG
1 AAAAATGCTTATG
10364103 AAAA
1 AAAA
10364107 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:10365751 original size:101 final size:103
Alignment explanation
Indices: 10365591--10365788 Score: 364
Period size: 102 Copynumber: 1.9 Consensus size: 103
10365581 CCACAAAATC
*
10365591 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATA-
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
10365655 TTTAATACTAAGAATTTTATTAAATTATATTTAATAAT
66 TTTAATACTAAGAATTTTATTAAATTATATTTAATAAT
10365693 AATTATTTTAGATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
*
10365757 TTTAATATTAAGAATTTTATTAAATTATATTT
66 TTTAATACTAAGAATTTTATTAAATTATATTT
10365789 TTTATTAAAT
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
101 45 0.48
102 48 0.52
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (103 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTTAATACTAAGAATTTTATTAAATTATATTTAATAAT
Found at i:10365786 original size:22 final size:21
Alignment explanation
Indices: 10365769--10365933 Score: 82
Period size: 22 Copynumber: 8.0 Consensus size: 21
10365759 TAATATTAAG
10365769 AATTTTATTAAATTATA-T-T
1 AATTTTATTAAATTATATTAT
10365788 --TTTTATTAAATTATATTTAAT
1 AATTTTATTAAATTATA-TT-AT
10365809 AATTATTATTTTAAATTATATT-T
1 AATT-TTA--TTAAATTATATTAT
* **
10365832 TATACTATT--A-TATATTAT
1 AATTTTATTAAATTATATTAT
* * *
10365850 AATTTTAGTAAATTCATATAAG
1 AATTTTATTAAATT-ATATTAT
*
10365872 AATTTTATTAAATTATAATAT
1 AATTTTATTAAATTATATTAT
* *
10365893 -ATTTAATTATAATTATGTT-T
1 AATTTTATTA-AATTATATTAT
* *
10365913 AAATATGATTAAATTAT-TTAT
1 -AATTTTATTAAATTATATTAT
10365934 TTTTGATAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
17 21 0.19
18 7 0.06
19 1 0.01
20 14 0.13
21 20 0.18
22 27 0.25
23 5 0.05
24 3 0.03
25 2 0.02
26 10 0.09
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTTTATTAAATTATATTAT
Found at i:10365791 original size:17 final size:17
Alignment explanation
Indices: 10365771--10365805 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10365761 ATATTAAGAA
10365771 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
10365788 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
10365805 T
1 T
10365806 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:10365814 original size:13 final size:13
Alignment explanation
Indices: 10365796--10365853 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
10365786 TTTTTTATTA
*
10365796 AATTATATTTAAT
1 AATTATATTTTAT
10365809 AATTATTATTTTA-
1 AATTA-TATTTTAT
10365822 AATTATATTTTAT
1 AATTATATTTTAT
*
10365835 ACTATTATATATTAT
1 A--ATTATATTTTAT
10365850 AATT
1 AATT
10365854 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:10365902 original size:60 final size:58
Alignment explanation
Indices: 10365717--10365908 Score: 162
Period size: 60 Copynumber: 3.2 Consensus size: 58
10365707 ATATTTATAG
* *
10365717 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATT-TTAATATTA-AGA-AT-TT
1 TATTATA-ATTATAATTTTAGTAAATTCATATAAGAATTTTATTAA-ATTATA-ATATATT
* * * * * *
10365774 TATTA-AATTATATTTTTTATTAAATT-ATATTTAATAATTATTATTTTAAATTATATTTTATAC
1 TATTATAATTATA-ATTTTAGTAAATTCATA--TAAGAATT-TTA--TTAAATTATAATATAT-T
10365837 TATTATATATTATAATTTTAGTAAATTCATATAAGAATTTTATTAAATTATAATATATT
1 TATTATA-ATTATAATTTTAGTAAATTCATATAAGAATTTTATTAAATTATAATATATT
10365896 TAATTATAATTAT
1 T-ATTATAATTAT
10365909 GTTTAAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
55 8 0.08
56 12 0.11
57 11 0.10
58 2 0.02
59 6 0.06
60 24 0.23
61 6 0.06
62 4 0.04
63 12 0.11
64 12 0.11
65 9 0.08
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (58 bp):
TATTATAATTATAATTTTAGTAAATTCATATAAGAATTTTATTAAATTATAATATATT
Found at i:10366104 original size:44 final size:45
Alignment explanation
Indices: 10366055--10366149 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
10366045 TTACACTTCT
* * *
10366055 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAATCC
** *
10366099 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAATCC
10366144 ATTACA
1 ATTACA
10366150 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAATCC
Found at i:10366149 original size:16 final size:16
Alignment explanation
Indices: 10366130--10366181 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
10366120 GATTTGCTAT
*
10366130 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
10366146 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
10366162 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
10366178 TACA
1 TACA
10366182 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:10368203 original size:13 final size:13
Alignment explanation
Indices: 10368185--10368220 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
10368175 CGTCCTTTTA
10368185 TTCTAATAGTAGG
1 TTCTAATAGTAGG
10368198 TTCTAATAGTAGG
1 TTCTAATAGTAGG
10368211 TTCTAATAGT
1 TTCTAATAGT
10368221 TGGTGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (13 bp):
TTCTAATAGTAGG
Found at i:10373486 original size:25 final size:24
Alignment explanation
Indices: 10373458--10373510 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
10373448 AATATATTAT
*
10373458 TTAATATTTAGAT-TTTGATATTTTC
1 TTAATATGT-GATATTTG-TATTTTC
*
10373483 TTAA-ATGTGATATTTGTATTTTT
1 TTAATATGTGATATTTGTATTTTC
10373506 TTAAT
1 TTAAT
10373511 TTAATGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 13 0.54
24 7 0.29
25 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (24 bp):
TTAATATGTGATATTTGTATTTTC
Found at i:10393300 original size:19 final size:19
Alignment explanation
Indices: 10393276--10393314 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10393266 AATCATGTTT
10393276 TAGTTTTATGTAATCTTAA
1 TAGTTTTATGTAATCTTAA
*
10393295 TAGTTTTATTTAATCTTAA
1 TAGTTTTATGTAATCTTAA
10393314 T
1 T
10393315 TTACTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (19 bp):
TAGTTTTATGTAATCTTAA
Found at i:10399277 original size:21 final size:21
Alignment explanation
Indices: 10399251--10399291 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10399241 ATCTGCTCAA
* *
10399251 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
10399272 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
10399292 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:10406431 original size:46 final size:44
Alignment explanation
Indices: 10406380--10406553 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 44
10406370 TTTGAGCATT
10406380 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--TC
* * * *
10406426 TGAACTCGTTGAGTTGAGTCCGAGTTCGAGC-GATGTAACTAG-GCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-A-CTTATG-GA-T-GCGAATC
* *
10406473 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-ATC
*
10406519 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10406554 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATC
Found at i:10406543 original size:93 final size:93
Alignment explanation
Indices: 10406375--10406545 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
10406365 GGATGTTTGA
* *** *
10406375 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
10406440 TGAGTCCGAGTTCGAGCGATGTAACTAG
66 TGAGTCCGAGTTCGAGCGATGTAACTAG
* *
10406468 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
10406533 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
10406546 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGCGATGTAACTAG
Found at i:10410972 original size:39 final size:39
Alignment explanation
Indices: 10410920--10411047 Score: 186
Period size: 39 Copynumber: 3.3 Consensus size: 39
10410910 TATGAGATTG
*
10410920 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
10410959 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGG-
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCT-GGA
* * **
10410998 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
10411037 AAAATATCCGG
1 AAAATATCCGG
10411048 GTTAAAGACC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.03
39 75 0.95
40 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:10411061 original size:78 final size:77
Alignment explanation
Indices: 10410923--10411073 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 77
10410913 GAGATTGAAA
* * * *
10410923 ATATCCGGACATGAGGTCTGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCAGGCT
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCAGGCT
*
10410988 ATATGCTAGGAAT
66 -TACGCTAGGAAT
* * **
10411001 ATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCGCAGGC
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCGCAGGC
10411065 TTACGCTAG
65 TTACGCTAG
10411074 TAATGTATTC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 8 0.13
78 55 0.87
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (77 bp):
ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCAGGCT
TACGCTAGGAAT
Found at i:10412221 original size:22 final size:23
Alignment explanation
Indices: 10412195--10412240 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10412185 CAACCAAACC
10412195 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
10412217 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
10412240 A
1 A
10412241 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:10412246 original size:23 final size:23
Alignment explanation
Indices: 10412202--10412246 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10412192 ACCAATTCAA
*
10412202 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
10412225 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
10412247 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:10418087 original size:14 final size:14
Alignment explanation
Indices: 10418068--10418095 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10418058 GAACAATCTT
10418068 GCTTAAATTAATTG
1 GCTTAAATTAATTG
10418082 GCTTAAATTAATTG
1 GCTTAAATTAATTG
10418096 ATTTGTTTGC
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:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
GCTTAAATTAATTG
Found at i:10427277 original size:12 final size:12
Alignment explanation
Indices: 10427260--10427285 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10427250 CGTTGTTTCC
10427260 AACATGATTCGG
1 AACATGATTCGG
10427272 AACATGATTCGG
1 AACATGATTCGG
10427284 AA
1 AA
10427286 TTGTTGGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (12 bp):
AACATGATTCGG
Found at i:10427640 original size:38 final size:38
Alignment explanation
Indices: 10427598--10427675 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
10427588 TTTGATTGAA
10427598 GCTTAATTGTGATGCATAATTTGATATTGCGGTGATTT
1 GCTTAATTGTGATGCATAATTTGATATTGCGGTGATTT
10427636 GCTTAATTGTGATGCATAATTTGATATTGCGGTGATTT
1 GCTTAATTGTGATGCATAATTTGATATTGCGGTGATTT
10427674 GC
1 GC
10427676 AGGGACTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (38 bp):
GCTTAATTGTGATGCATAATTTGATATTGCGGTGATTT
Found at i:10427738 original size:34 final size:34
Alignment explanation
Indices: 10427689--10427755 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
10427679 GACTATAATA
* *
10427689 GTGATAACGCTCGTACACCTCTGCTGAAACCATG
1 GTGATAACACCCGTACACCTCTGCTGAAACCATG
*
10427723 GTGATAACACCCGTACACCTCTGCTGTAACCAT
1 GTGATAACACCCGTACACCTCTGCTGAAACCAT
10427756 TGCAATTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (34 bp):
GTGATAACACCCGTACACCTCTGCTGAAACCATG
Found at i:10435537 original size:26 final size:26
Alignment explanation
Indices: 10435508--10435569 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
10435498 TTTAATTTAA
10435508 AAAAATATATTTTT-TCATATATGTAG
1 AAAAATATATTTTTAT-ATATATGTAG
* **
10435534 -AAAATCATATTTTTATATTTATGTTT
1 AAAAAT-ATATTTTTATATATATGTAG
10435560 AAAAATATAT
1 AAAAATATAT
10435570 CCGAATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.17
26 19 0.63
27 6 0.20
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (26 bp):
AAAAATATATTTTTATATATATGTAG
Found at i:10438765 original size:18 final size:18
Alignment explanation
Indices: 10438739--10438795 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
10438729 TTAAATTATA
10438739 ATATA-TTTAAAAAATAT
1 ATATATTTTAAAAAATAT
*
10438756 ATATTTTTTAAAAAA-ATT
1 ATATATTTTAAAAAATA-T
* *
10438774 ATAAATTATAAAAAATAT
1 ATATATTTTAAAAAATAT
10438792 ATAT
1 ATAT
10438796 GAAAACTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.16
18 26 0.81
19 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATATTTTAAAAAATAT
Found at i:10444217 original size:22 final size:22
Alignment explanation
Indices: 10444192--10444239 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
10444182 TATTTAACGT
10444192 ATTTGA-TAAACA-AATATATTTA
1 ATTTGATTAAA-ATAATAT-TTTA
*
10444214 ATTTTATTAAAATAATATTTTA
1 ATTTGATTAAAATAATATTTTA
10444236 ATTT
1 ATTT
10444240 TTTTCTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTGATTAAAATAATATTTTA
Found at i:10444820 original size:13 final size:13
Alignment explanation
Indices: 10444802--10444826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10444792 TTTCATATTT
10444802 TTATATTATTAAA
1 TTATATTATTAAA
10444815 TTATATTATTAA
1 TTATATTATTAA
10444827 CCTTAAGCTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATTATTAAA
Found at i:10446716 original size:40 final size:40
Alignment explanation
Indices: 10446657--10446783 Score: 173
Period size: 41 Copynumber: 3.1 Consensus size: 40
10446647 GCAAAAATTA
* * *
10446657 TAAAACACGGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
10446698 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * * *
10446738 TAAAAACCAAAGCATTAGCGGCGCCTTCGATAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
10446779 TAAAA
1 TAAAA
10446784 GTCATATAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 38 0.49
41 40 0.51
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:10446868 original size:54 final size:53
Alignment explanation
Indices: 10446796--10446909 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 53
10446786 CATATAATCC
* * *
10446796 CTAAAGCCCTAAACCCTAAAAAATAATAAACACTAATCTATAACCCTTAAAACA
1 CTAAA-CCCTAAACCCTAAAAAACAATAAACACTAAACTATAACCCCTAAAACA
* * * ** *
10446850 CTAAACCTCTAAATCCTAAAGACCCCTAAACACTAAACTATAACCCCTAAAACC
1 CTAAACC-CTAAACCCTAAAAAACAATAAACACTAAACTATAACCCCTAAAACA
10446904 CTAAAC
1 CTAAAC
10446910 TCCAAAAAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (53 bp):
CTAAACCCTAAACCCTAAAAAACAATAAACACTAAACTATAACCCCTAAAACA
Found at i:10448361 original size:14 final size:14
Alignment explanation
Indices: 10448342--10448371 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10448332 CTAATTTTTC
*
10448342 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
10448356 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
10448370 CC
1 CC
10448372 TTCCACCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:10452579 original size:19 final size:18
Alignment explanation
Indices: 10452553--10452591 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10452543 TGATTCTATA
10452553 TTTATATTTAATCTAATT
1 TTTATATTTAATCTAATT
* *
10452571 TTTATTATTTATTTTAATT
1 TTTA-TATTTAATCTAATT
10452590 TT
1 TT
10452592 GATTCTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATATTTAATCTAATT
Found at i:10452602 original size:19 final size:19
Alignment explanation
Indices: 10452566--10452610 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
10452556 ATATTTAATC
* *
10452566 TAATTTTTATTATTTATTT
1 TAATTTTGATTATATATTT
*
10452585 TAATTTTGATTCTATATTT
1 TAATTTTGATTATATATTT
*
10452604 TTATTTT
1 TAATTTT
10452611 TATTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TAATTTTGATTATATATTT
Found at i:10452616 original size:6 final size:6
Alignment explanation
Indices: 10452568--10452621 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
10452558 ATTTAATCTA
* * * *
10452568 ATTTTT ATTATTT ATTTTA ATTTTG ATTCTAT ATTTTT ATTTTT ATTTTA
1 ATTTTT ATT-TTT ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
10452618 ATTT
1 ATTT
10452622 GATAACGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 30 0.75
7 10 0.25
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:10458707 original size:16 final size:16
Alignment explanation
Indices: 10458678--10458720 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
10458668 GTGGCCGGAG
10458678 CTCTC-CCCTT-TCCC
1 CTCTCTCCCTTCTCCC
*
10458692 CTCTCTTCCTTCTCCC
1 CTCTCTCCCTTCTCCC
10458708 CTCTCTCCCTTCT
1 CTCTCTCCCTTCT
10458721 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTCTCCCTTCTCCC
Found at i:10472360 original size:71 final size:71
Alignment explanation
Indices: 10472208--10472346 Score: 188
Period size: 71 Copynumber: 1.9 Consensus size: 71
10472198 AATTCATGTT
* * ** *
10472208 TTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGTAATTTCAAT
1 TTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGTAATTTCAAA
10472273 TTATGC
66 TTATGC
** * *
10472279 TTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAA
1 TTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGA-GTAATTTCAA
10472344 ATT
65 ATT
10472347 CTCTTGTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
71 47 0.81
72 11 0.19
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (71 bp):
TTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGTAATTTCAAA
TTATGC
Found at i:10472507 original size:71 final size:71
Alignment explanation
Indices: 10472384--10472517 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
10472374 TTACTTTTCC
*
10472384 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTTAT
10472449 GGTTCA
66 GGTTCA
** * * *
10472455 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTT
10472518 CTACTTTCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTTAT
GGTTCA
Found at i:10472679 original size:54 final size:54
Alignment explanation
Indices: 10472527--10472742 Score: 308
Period size: 54 Copynumber: 4.0 Consensus size: 54
10472517 TCTACTTTCC
* * *
10472527 AATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTTC
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* *
10472581 AATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
1 AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
*
10472637 AATTTCTGTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CCTTTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTT
* * * *
10472691 AATTTTTGTTTTTCAAAAATCAACCCATATTGCGATAAGTGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
10472743 AGGTCATATG
Statistics
Matches: 145, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 93 0.64
55 1 0.01
56 50 0.34
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (54 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:10474160 original size:16 final size:16
Alignment explanation
Indices: 10474131--10474173 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
10474121 GTGACCGGAG
10474131 CTCTC-CCCTT-TCCC
1 CTCTCTCCCTTCTCCC
*
10474145 CTCTCTTCCTTCTCCC
1 CTCTCTCCCTTCTCCC
10474161 CTCTCTCCCTTCT
1 CTCTCTCCCTTCT
10474174 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTCTCCCTTCTCCC
Found at i:10475134 original size:15 final size:14
Alignment explanation
Indices: 10475105--10475138 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
10475095 TTGATATTAG
*
10475105 TATATGTTTATATA
1 TATATCTTTATATA
10475119 TATATCTTTAATATA
1 TATATCTTT-ATATA
10475134 TATAT
1 TATAT
10475139 AGGTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TATATCTTTATATA
Found at i:10476723 original size:131 final size:130
Alignment explanation
Indices: 10476489--10476817 Score: 470
Period size: 131 Copynumber: 2.6 Consensus size: 130
10476479 TATTCATTTA
*
10476489 AAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* * * *
10476554 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGGAATTTCATTCATGTCTT
66 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT-TT
10476619 T
130 T
* *
10476620 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGAGGAATCTTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
*
10476685 CTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
66 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
** * * * * *
10476750 CTAAATTC--TAAAA--AAGGCAATGTTCAATGTCTAGAAATTTGGGGAATCGTGCCCTA-CTGT
1 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC-GT
10476810 GCTGGGTT
65 GCTGGGTT
10476818 TCGGTTTTTT
Statistics
Matches: 180, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
125 1 0.01
126 46 0.26
128 5 0.03
130 9 0.05
131 119 0.66
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
Found at i:10493123 original size:46 final size:46
Alignment explanation
Indices: 10493056--10493599 Score: 732
Period size: 46 Copynumber: 11.8 Consensus size: 46
10493046 AGTGTGCTCT
* * *
10493056 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
10493102 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
10493148 CTGATATTAAATGTGTAAGA-CATGGTTGAAAGATACCACGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
10493193 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
10493239 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
10493285 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
10493331 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
10493378 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
10493424 TTGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
10493470 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
10493516 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
10493563 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
10493600 TATGACATCA
Statistics
Matches: 452, Mismatches: 43, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
45 41 0.09
46 328 0.73
47 83 0.18
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10493397 original size:139 final size:138
Alignment explanation
Indices: 10493065--10493599 Score: 741
Period size: 139 Copynumber: 3.9 Consensus size: 138
10493055 TCTGATATGG
* * **
10493065 AATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTT
* * * * *
10493130 GAAAGATACCATGGCAACCTGATATTAAATGTGTAAGA-CATGGTTGAAAGATACCACGACAACG
66 GAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
10493194 TGATATGA
131 TGACATGA
*
10493202 AATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTT
10493267 GAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
66 GAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
10493332 TGACGGGAA
131 TGACATG-A
* * **
10493341 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTT
* * * * *
10493406 GAAAGATACCATGGTAACTTGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAACC
66 GAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
10493471 TGACATGA
131 TGACATGA
* * ***
10493479 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATG-AAATGAATAAGACCATGGT
* * * * *
10493544 TGAAAGATACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
65 TGAAAGATACCATGGCAACCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
10493600 TATGACATCA
Statistics
Matches: 356, Mismatches: 38, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
137 98 0.28
138 69 0.19
139 189 0.53
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (138 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTT
GAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
TGACATGA
Found at i:10493436 original size:185 final size:185
Alignment explanation
Indices: 10493057--10493606 Score: 836
Period size: 185 Copynumber: 3.0 Consensus size: 185
10493047 GTGTGCTCTC
* ** * *
10493057 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGA
* **** **
10493122 CCATGGTTGAAAGATACCATGGCAACCTGA-TATTAAATGTGTAAGA-CATGGTTGAAAGATACC
66 CCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
* *
10493185 ACGACAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
131 ATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
10493240 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGA
10493305 CCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
66 CCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
** *
10493370 ATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACT
131 ATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
* *
10493425 TGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGA
10493490 CCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
66 CCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
* * * * * * *
10493555 ATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATACTATGACA
131 ATGGCAACGTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGACA
10493607 TCATGTCGAA
Statistics
Matches: 336, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
183 89 0.26
184 11 0.03
185 236 0.70
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (185 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
Found at i:10501011 original size:162 final size:162
Alignment explanation
Indices: 10500744--10501064 Score: 536
Period size: 162 Copynumber: 2.0 Consensus size: 162
10500734 GAAGGAAGAT
* *
10500744 CTGCAAAGCTAGATGGTACTCTCAATGGTGGTTCATTGTTGCCCCGGAAAAGGAAAACTGCGAAG
1 CTGCAAAGCTAGATGGTACTCTCAATGGTGGTTCATTGTTGCCCCGAAAAAGGAAAACTGAGAAG
*
10500809 AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCTGAAGAAAACACTGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
*
10500874 GCAAACGACATATAGGACTGAAACTCCACCGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
* * * *
10500906 CTGCAAAGCTAGCTGGTACTGTCAATGGTGGTTCGTTGTTGCCCCAGAAAAAGG-GAACTGAGAA
1 CTGCAAAGCTAGATGGTACTCTCAATGGTGGTTCATTGTTGCCCC-GAAAAAGGAAAACTGAGAA
*
10500970 GAAAAGTTCTAAAATTGATCCACATCAGTTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTA
65 GAAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTA
*
10501035 AGCAAACAACATATAGGAGTGAAACTCCAC
130 AGCAAACAACATATAGGACTGAAACTCCAC
10501065 TTCCTTCAGA
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
162 141 0.95
163 7 0.05
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (162 bp):
CTGCAAAGCTAGATGGTACTCTCAATGGTGGTTCATTGTTGCCCCGAAAAAGGAAAACTGAGAAG
AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
GCAAACAACATATAGGACTGAAACTCCACCGC
Found at i:10510801 original size:26 final size:26
Alignment explanation
Indices: 10510772--10510824 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
10510762 GTACCAAGGG
10510772 AAGAGAGACGAATGGATGAATTTCAC
1 AAGAGAGACGAATGGATGAATTTCAC
*
10510798 AAGAGAGACGAATGGATGAGTTTCAC
1 AAGAGAGACGAATGGATGAATTTCAC
10510824 A
1 A
10510825 TTATGCTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (26 bp):
AAGAGAGACGAATGGATGAATTTCAC
Found at i:10518348 original size:21 final size:21
Alignment explanation
Indices: 10518322--10518362 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10518312 CACAGAAGCA
*
10518322 CATAAGTGCTAAATGGAAACC
1 CATAAGGGCTAAATGGAAACC
* *
10518343 CATAAGGGTTGAATGGAAAC
1 CATAAGGGCTAAATGGAAAC
10518363 TCATTGAAGC
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:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (21 bp):
CATAAGGGCTAAATGGAAACC
Found at i:10522274 original size:43 final size:43
Alignment explanation
Indices: 10522227--10522340 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 43
10522217 TCTTACATGT
10522227 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCCTACACG-A
1 AATCAAATAT-GATGCCACTGTCCCAGACAGGGTCCTACACGTA
* * * * *
10522270 AATCATATATGATGCCAATGTCCCAAACATGGTCTTACACGTA
1 AATCAAATATGATGCCACTGTCCCAGACAGGGTCCTACACGTA
*
10522313 AATCAAAAATTGATGCCAAC-GTCCCAGA
1 AATCAAATA-TGATGCC-ACTGTCCCAGA
10522341 TGTGGTCTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 27 0.46
43 17 0.29
44 14 0.24
45 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (43 bp):
AATCAAATATGATGCCACTGTCCCAGACAGGGTCCTACACGTA
Found at i:10522292 original size:42 final size:42
Alignment explanation
Indices: 10522196--10522340 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
10522186 AGCTCGTACA
* * *
10522196 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
* *
10522239 ATGCC-ACTGTCCCAGACAGGGTCCTACACGAAATCATATATG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAAATATG
* * * *
10522281 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAAAAATTG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCAAATA-TG
10522325 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
10522341 TGTGGTCTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
42 27 0.32
43 40 0.48
44 17 0.20
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:10525150 original size:17 final size:18
Alignment explanation
Indices: 10525110--10525150 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10525100 TAATACACAT
*
10525110 CATTCATATACAATTATG
1 CATTCATATACAATTATC
10525128 CATTCATA-ATCAA-TATC
1 CATTCATATA-CAATTATC
10525145 CATTCA
1 CATTCA
10525151 ACTCATCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (18 bp):
CATTCATATACAATTATC
Found at i:10534007 original size:19 final size:21
Alignment explanation
Indices: 10533983--10534024 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10533973 TTTAAAAAAT
10533983 AAATA-TT-AAAATTTCTAAA
1 AAATATTTCAAAATTTCTAAA
*
10534002 AAATATTTCAAAATTTGTAAA
1 AAATATTTCAAAATTTCTAAA
10534023 AA
1 AA
10534025 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 13 0.65
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATATTTCAAAATTTCTAAA
Found at i:10536006 original size:35 final size:34
Alignment explanation
Indices: 10535953--10536023 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
10535943 TTATATGTTT
*
10535953 ATAATTTTTTAATACTTTTTAATTTTTTTTAAAAAA
1 ATAATTTTTTAATACTTTTTAA--ATTTTTAAAAAA
* *
10535989 ATAATTTTTTGA-GCTTTTTAAATTTTTAAAAAA
1 ATAATTTTTTAATACTTTTTAAATTTTTAAAAAA
10536022 AT
1 AT
10536024 TATTAATTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 13 0.41
35 8 0.25
36 11 0.34
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (34 bp):
ATAATTTTTTAATACTTTTTAAATTTTTAAAAAA
Found at i:10542605 original size:20 final size:21
Alignment explanation
Indices: 10542580--10542624 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 21
10542570 TTAGGAATAA
10542580 ATATATA-AAATCTA-AAAAAT
1 ATATATATAAAT-TATAAAAAT
10542600 ATATATATAAATTATTAAAAAT
1 ATATATATAAATTA-TAAAAAT
10542622 ATA
1 ATA
10542625 AAAATACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATATATAAATTATAAAAAT
Found at i:10542605 original size:22 final size:22
Alignment explanation
Indices: 10542575--10542624 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
10542565 AGAATTTAGG
* *
10542575 AATAAATATATAAAATCTAAAA
1 AATATATATATAAAATATAAAA
* *
10542597 AATATATATATAAATTATTAAA
1 AATATATATATAAAATATAAAA
10542619 AATATA
1 AATATA
10542625 AAAATACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATATATATAAAATATAAAA
Found at i:10555727 original size:12 final size:12
Alignment explanation
Indices: 10555710--10555735 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10555700 TATTAGCTTC
10555710 TTTTCTTTTTTT
1 TTTTCTTTTTTT
10555722 TTTTCTTTTTTT
1 TTTTCTTTTTTT
10555734 TT
1 TT
10555736 GCTTTGTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:10556684 original size:4 final size:4
Alignment explanation
Indices: 10556675--10556722 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
10556665 CGCAACCATA
10556675 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
10556723 CTATAGAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:10559471 original size:25 final size:24
Alignment explanation
Indices: 10559428--10559491 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
10559418 ATCAATTTGG
*
10559428 GTTTT-AAATATTAATGGTTATTGA
1 GTTTTAAAATATTAATGGTT-TAGA
10559452 GTTTTAAAAT-TTAATGGGTTTAGA
1 GTTTTAAAATATTAAT-GGTTTAGA
*
10559476 CTTTTAAAAATATTAA
1 GTTTT-AAAATATTAA
10559492 ATTTTAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 17 0.50
25 13 0.38
26 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (24 bp):
GTTTTAAAATATTAATGGTTTAGA
Found at i:10559880 original size:37 final size:36
Alignment explanation
Indices: 10559814--10559884 Score: 83
Period size: 37 Copynumber: 1.9 Consensus size: 36
10559804 TTAAAATATT
*
10559814 AAAAATTAAATAAATAAAATACATTATTATTAATTTA
1 AAAAATTAAATAAATAAAATACATAATTA-TAATTTA
*
10559851 AAAAATTTAAT-AATAAATATATCA-AATTATAATT
1 AAAAATTAAATAAATAAA-ATA-CATAATTATAATT
10559885 CAATAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
36 11 0.37
37 17 0.57
38 2 0.07
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (36 bp):
AAAAATTAAATAAATAAAATACATAATTATAATTTA
Found at i:10565883 original size:53 final size:53
Alignment explanation
Indices: 10565822--10565936 Score: 185
Period size: 53 Copynumber: 2.2 Consensus size: 53
10565812 TGTGCCTGTT
* *
10565822 TAAGACCATAGCTAGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAACTAGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
* * *
10565875 TAAGACCATAACTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAACTAGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
10565928 TAAGACCAT
1 TAAGACCAT
10565937 GTCTGGGATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (53 bp):
TAAGACCATAACTAGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
Found at i:10565943 original size:53 final size:52
Alignment explanation
Indices: 10565822--10565967 Score: 184
Period size: 53 Copynumber: 2.7 Consensus size: 52
10565812 TGTGCCTGTT
* **
10565822 TAAGACCATAGCTAGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCAT-GCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
10565875 TAAGACCATAACTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCAT-GCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
10565928 TAAGACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
10565968 ACCGTGTAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 75 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (52 bp):
TAAGACCATGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:10572283 original size:47 final size:46
Alignment explanation
Indices: 10572168--10572320 Score: 171
Period size: 47 Copynumber: 3.2 Consensus size: 46
10572158 TGCACATAGT
* * ** * * *
10572168 CACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACAAGGAT
1 CACATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATAAGAAG
* *
10572216 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATA-AGAAG
* *
10572263 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATA-AGAAG
10572310 CACATATCACA
1 CACATATCACA
10572321 TTTCTCCGAA
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 25 0.27
47 56 0.62
48 10 0.11
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (46 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAAGAAG
Found at i:10574474 original size:15 final size:15
Alignment explanation
Indices: 10574454--10574483 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10574444 TTGAAGTTTA
10574454 AATTGGTAAGCCAAT
1 AATTGGTAAGCCAAT
*
10574469 AATTGGTAAGTCAAT
1 AATTGGTAAGCCAAT
10574484 CAAGCCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (15 bp):
AATTGGTAAGCCAAT
Found at i:10575497 original size:235 final size:235
Alignment explanation
Indices: 10575086--10575562 Score: 819
Period size: 235 Copynumber: 2.0 Consensus size: 235
10575076 ATTGAATAGA
* * * * *
10575086 ATATGTGAGTATTGAGTTGAAACTTAAAAAATGTATATTGCATTGAAATTGATTTGCATGTGGAT
1 ATATGTGAATATTAAGTGGAAAATTAAAAAATGTATATTGCATTGAAATTGATTTGCATGTCGAT
10575151 TGATATGGAAAAATGTATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAAG
66 TGATATGGAAAAATGTATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAAG
* *
10575216 TTTATTGAATACCCTATTAACTGTATCAGACTAGTCGGATATAGTTGGCACGCCATAGGATTGGA
131 TTTATTAAATACCCTATTAACTGTATCAGACTAGTCGGATATAGTTGGCACGCCATAGGATTAGA
10575281 AGTGTTTAGGGATATTCCGACTGTGTGTCGATGAGACACT
196 AGTGTTTAGGGATATTCCGACTGTGTGTCGATGAGACACT
*
10575321 ATATGTGAATATTAAGTGGAAAATTGAAAAATGTATATTGCATTGAAATTGATTTGCATGTCGAT
1 ATATGTGAATATTAAGTGGAAAATTAAAAAATGTATATTGCATTGAAATTGATTTGCATGTCGAT
*
10575386 TGATATGGAAAAATGTATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAATTTGAAAG
66 TGATATGGAAAAATGTATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAAG
* ** * *
10575451 TTTATTAAATACCCTATTAACTGTATCGGGTTAGTCGGATATAGTTGGCATGCTATAGGATTAGA
131 TTTATTAAATACCCTATTAACTGTATCAGACTAGTCGGATATAGTTGGCACGCCATAGGATTAGA
*
10575516 AGTGTTTAGGGATATTCCGACTGTGTGTCGTTGAGACACT
196 AGTGTTTAGGGATATTCCGACTGTGTGTCGATGAGACACT
10575556 ATATGTG
1 ATATGTG
10575563 TCGACTACTG
Statistics
Matches: 227, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
235 227 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (235 bp):
ATATGTGAATATTAAGTGGAAAATTAAAAAATGTATATTGCATTGAAATTGATTTGCATGTCGAT
TGATATGGAAAAATGTATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAAG
TTTATTAAATACCCTATTAACTGTATCAGACTAGTCGGATATAGTTGGCACGCCATAGGATTAGA
AGTGTTTAGGGATATTCCGACTGTGTGTCGATGAGACACT
Found at i:10580186 original size:18 final size:17
Alignment explanation
Indices: 10580150--10580282 Score: 185
Period size: 18 Copynumber: 7.5 Consensus size: 17
10580140 AATCATATCT
10580150 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
10580169 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
10580187 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
10580204 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
10580222 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
10580239 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
10580257 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
10580274 TCTAAGATT
1 TCTAAGATT
10580283 ACATATCATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 46 0.44
18 47 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:10580208 original size:35 final size:35
Alignment explanation
Indices: 10580150--10580291 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
10580140 AATCATATCT
10580150 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
10580187 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
10580222 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
10580257 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
10580292 TGAGGATTAT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 87 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:10583045 original size:12 final size:12
Alignment explanation
Indices: 10583030--10583060 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10583020 TTCTCTTTTA
10583030 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
10583042 TTTTTCTTTCTC
1 TTTTTCTTTCCC
10583054 TTTTTCT
1 TTTTTCT
10583061 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:10583328 original size:8 final size:8
Alignment explanation
Indices: 10583293--10583326 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
10583283 CAAAAATCTC
10583293 ATAATTTA
1 ATAATTTA
10583301 ATAATTTA
1 ATAATTTA
10583309 ATAATTTA
1 ATAATTTA
*
10583317 ATTATTTA
1 ATAATTTA
10583325 AT
1 AT
10583327 TAACAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATAATTTA
Found at i:10583465 original size:15 final size:14
Alignment explanation
Indices: 10583447--10583477 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
10583437 TTAATTTATT
10583447 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
10583462 TAATAATAATCTAA
1 TAATAATAATCTAA
10583476 TA
1 TA
10583478 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:10583488 original size:21 final size:20
Alignment explanation
Indices: 10583464--10583532 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
10583454 AATGCTAATA
10583464 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
10583485 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
10583504 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
10583525 ATAATAAT
1 ATAATAAT
10583533 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:10587667 original size:13 final size:13
Alignment explanation
Indices: 10587649--10587673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10587639 TAAAATAAAA
10587649 GAAATAAAGAAAT
1 GAAATAAAGAAAT
10587662 GAAATAAAGAAA
1 GAAATAAAGAAA
10587674 AAAGGAAAGA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:10587730 original size:19 final size:19
Alignment explanation
Indices: 10587706--10587746 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10587696 GTTAGCAGGG
10587706 AAAGAAAGAA-AAAAAGAGA
1 AAAGAAA-AAGAAAAAGAGA
*
10587725 AAAGAAAAAGAAAAAGGGA
1 AAAGAAAAAGAAAAAGAGA
10587744 AAA
1 AAA
10587747 CTAGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAGAAAAAGAGA
Found at i:10588354 original size:3 final size:3
Alignment explanation
Indices: 10588346--10588372 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10588336 GAATGGTAAG
10588346 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
10588373 GGTATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10588841 original size:236 final size:235
Alignment explanation
Indices: 10588429--10588906 Score: 821
Period size: 236 Copynumber: 2.0 Consensus size: 235
10588419 ATTGAATAGA
*
10588429 ATATGTGAATATTGAGTGGAAAATTGAAAAATGTATATTGCATTGAAATTGATTTGCATGTGGAT
1 ATATGTGAATATTGAGTGGAAAATCGAAAAATGTATATTGCATTGAAATTGATTTGCATGTGGAT
* * * *
10588494 TGGTATGGAAAAATGTATTAAATTGGATTGAAACTAAATTGCAAATGCAATTGAAAAGTTGAAAG
66 TGATATGGAAAAATATATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAAG
* *
10588559 TTTATTGAATACCCTATTAACTGTATCGGGCAAGTTGGATATAGTTGGCACGCCATAGGATTGGA
131 TTTATTGAATACCCTATTAACTATATCGGGCAAGTCGGATATAGTTGGCACGCCATAGGATTGGA
10588624 AGTGTTCAGGGATATTCCGACCGCGTGTCGATGAGACACT
196 AGTGTTCAGGGATATTCCGACCGCGTGTCGATGAGACACT
*
10588664 ATATGTGAATATTGAGTGGAAAATCGAAAAATTGTATATTGCATTGAAATTGATTTGTATGTGGA
1 ATATGTGAATATTGAGTGGAAAATCGAAAAA-TGTATATTGCATTGAAATTGATTTGCATGTGGA
10588729 TTGATATGGAAAAATATATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAA
65 TTGATATGGAAAAATATATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAA
* *
10588794 GTTTATTGAATACCCTATTAACTATATCGGGCTAGTCGGATATAGTTGGCATGCCATAGGATTGG
130 GTTTATTGAATACCCTATTAACTATATCGGGCAAGTCGGATATAGTTGGCACGCCATAGGATTGG
* ** *
10588859 AAGTGTTTAGGGATATTCCGATTGTGTGTCGATGAGACACT
195 AAGTGTTCAGGGATATTCCGACCGCGTGTCGATGAGACACT
10588900 ATATGTG
1 ATATGTG
10588907 TCGACTACTG
Statistics
Matches: 228, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
235 30 0.13
236 198 0.87
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (235 bp):
ATATGTGAATATTGAGTGGAAAATCGAAAAATGTATATTGCATTGAAATTGATTTGCATGTGGAT
TGATATGGAAAAATATATTAAATTGGATTGAAACTAAATTACAAATGAAATTGAAAAGTTGAAAG
TTTATTGAATACCCTATTAACTATATCGGGCAAGTCGGATATAGTTGGCACGCCATAGGATTGGA
AGTGTTCAGGGATATTCCGACCGCGTGTCGATGAGACACT
Found at i:10589022 original size:6 final size:6
Alignment explanation
Indices: 10589011--10589043 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10589001 TGTATACCGC
*
10589011 TACTGT TACTGT CACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
10589044 CCTTACGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:10589049 original size:18 final size:18
Alignment explanation
Indices: 10589011--10589049 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10589001 TGTATACCGC
**
10589011 TACTGTTACTGTCACTGT
1 TACTGTTACTGTCACCCT
*
10589029 TACTGTTACTGTTACCCT
1 TACTGTTACTGTCACCCT
10589047 TAC
1 TAC
10589050 GGTGTATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.44
Consensus pattern (18 bp):
TACTGTTACTGTCACCCT
Found at i:10597453 original size:9 final size:10
Alignment explanation
Indices: 10597427--10597455 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10597417 CAAAACTTCG
10597427 AAGAAGAAAA
1 AAGAAGAAAA
10597437 AAGAAGAAAA
1 AAGAAGAAAA
10597447 AAG-AGAAAA
1 AAGAAGAAAA
10597456 CCCTGTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAAGAAAA
Found at i:10599175 original size:16 final size:17
Alignment explanation
Indices: 10599154--10599194 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10599144 AATTAAATCA
*
10599154 TTTATTAAGTA-ATATT
1 TTTATTAAATACATATT
10599170 TTTATTACAATACATATT
1 TTTATTA-AATACATATT
10599188 TTT-TTAA
1 TTTATTAA
10599195 CTTCATTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTATTAAATACATATT
Found at i:10601316 original size:11 final size:11
Alignment explanation
Indices: 10601302--10601353 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
10601292 TCTTTCAATA
10601302 TTCTCTCAAAT
1 TTCTCTCAAAT
*
10601313 TTCTTTCAAA-
1 TTCTCTCAAAT
10601323 -TCTCTCAAAT
1 TTCTCTCAAAT
*
10601333 TTCTCTTAAAT
1 TTCTCTCAAAT
*
10601344 TCCTCTCAAA
1 TTCTCTCAAA
10601354 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:10601317 original size:22 final size:21
Alignment explanation
Indices: 10601292--10601353 Score: 83
Period size: 20 Copynumber: 2.9 Consensus size: 21
10601282 CAATCTTCAA
10601292 TCTTTCAATATTCTCTCAAATT
1 TCTTTCAA-ATTCTCTCAAATT
10601314 TCTTTCAAA-TCTCTCAAATT
1 TCTTTCAAATTCTCTCAAATT
10601334 TCTCTT-AAATTCCTCTCAAA
1 TCT-TTCAAATT-CTCTCAAA
10601354 ACTCTCGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.46
21 4 0.11
22 16 0.43
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (21 bp):
TCTTTCAAATTCTCTCAAATT
Found at i:10601409 original size:16 final size:15
Alignment explanation
Indices: 10601380--10601410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10601370 TCAAAAAAGC
*
10601380 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
10601395 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
10601410 T
1 T
10601411 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:10603155 original size:18 final size:18
Alignment explanation
Indices: 10603132--10603174 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10603122 TGCCAGGTAC
*
10603132 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
10603150 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
10603168 GTTTCCT
1 GTATCCT
10603175 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:10603763 original size:116 final size:116
Alignment explanation
Indices: 10603559--10603940 Score: 649
Period size: 116 Copynumber: 3.3 Consensus size: 116
10603549 TATTTGTACA
* *
10603559 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
10603624 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
10603675 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
10603740 TATAATTTACTTTTATATTTTTAAT-AAATAGAAATTATTTTAAATAAGGT
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
10603790 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAATAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
10603855 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
10603906 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
10603941 AAAATAGAAA
Statistics
Matches: 250, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
115 109 0.44
116 141 0.56
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:10607500 original size:126 final size:126
Alignment explanation
Indices: 10606954--10607492 Score: 828
Period size: 126 Copynumber: 4.3 Consensus size: 126
10606944 GCCCAAGTTA
* * *
10606954 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACTTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * **
10607019 TGCATCTTGCTTGAAGTGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
10607080 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
10607145 TGCATCCTGCTTGAAGCCTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
10607206 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAACTTCTTTCAGTATTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* ** *
10607271 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCATAGACATGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
10607332 TTCCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
10607397 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGCGCAAACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
10607458 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
10607493 AGAAGCTTTT
Statistics
Matches: 376, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 374 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:10607739 original size:96 final size:98
Alignment explanation
Indices: 10607594--10607769 Score: 241
Period size: 96 Copynumber: 1.8 Consensus size: 98
10607584 CTTAAAATCC
* ** * * *
10607594 TAATCTAATTTTTTTAAAATTTATAACTAATTTACTCAAGTAACCCTAAACTCTAATTTATTTGA
1 TAATCTAATTTTTTTAAAATTTATAACTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
10607659 -TTTTTTCCTTAAAAACTATAAACACTAAACCA
66 TTTTTTTCCTTAAAAACTATAAACACTAAACCA
* * *
10607691 TAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACAAACACTAAACCCTAATTTGTTTA
1 TAATCTAATTTTTTTAAAATTTA-TAACTAATTTAATCAACAAACACTAAACCCTAATTTATTTA
10607754 ATTTTTTTCCTTAAAA
65 ATTTTTTTCCTTAAAA
10607770 CCTTAAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 3 0.04
96 43 0.63
97 22 0.32
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.43
Consensus pattern (98 bp):
TAATCTAATTTTTTTAAAATTTATAACTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
TTTTTTTCCTTAAAAACTATAAACACTAAACCA
Found at i:10626036 original size:25 final size:25
Alignment explanation
Indices: 10625981--10626029 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
10625971 TTATACATAC
* *
10625981 AAAATTTAAGTTGAAAGTTTATTTG
1 AAAATTTAAGTTAAAAATTTATTTG
10626006 AAAATTTGAAGTTAAAAATTTATT
1 AAAATTT-AAGTTAAAAATTTATT
10626030 AATAATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (25 bp):
AAAATTTAAGTTAAAAATTTATTTG
Found at i:10629063 original size:43 final size:43
Alignment explanation
Indices: 10629007--10629094 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
10628997 ATCTAATAAT
* *
10629007 AAATATATAATTATATATTTTTTAAAAAT-ATGTCTTAAAATTA
1 AAATATATAATTAT-TATTGTATAAAAATAATGTCTTAAAATTA
* * * *
10629050 AAATATTTTATTATTATTGTATAAAAATAATTTCTTAAACTTA
1 AAATATATAATTATTATTGTATAAAAATAATGTCTTAAAATTA
10629093 AA
1 AA
10629095 TTATGTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
AAATATATAATTATTATTGTATAAAAATAATGTCTTAAAATTA
Found at i:10633374 original size:16 final size:17
Alignment explanation
Indices: 10633355--10633395 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
10633345 AAATTCAACG
10633355 ATTAAATAAT-TAAAAT
1 ATTAAATAATATAAAAT
10633371 ATT-AATAATATAAAAT
1 ATTAAATAATATAAAAT
*
10633387 ATTATATAA
1 ATTAAATAA
10633396 AAATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAAATAATATAAAAT
Found at i:10648418 original size:35 final size:35
Alignment explanation
Indices: 10648370--10648494 Score: 169
Period size: 35 Copynumber: 3.6 Consensus size: 35
10648360 GTTCACACCT
**
10648370 CATACCTACGTTTCTTAACTCAGTATGGATAATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
* * *
10648405 CATACCTATGTTTCACAACTCATTATGGTTAATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
* *
10648440 CATACCTACGTATCACAACTCAGTATGGATGATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
* *
10648475 CATATCTGCGTTTCACAACT
1 CATACCTACGTTTCACAACT
10648495 TTGCCATGGA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (35 bp):
CATACCTACGTTTCACAACTCAGTATGGATAATAC
Found at i:10649744 original size:8 final size:8
Alignment explanation
Indices: 10649722--10649751 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10649712 AAATTGTTTT
10649722 AATTCACC
1 AATTCACC
10649730 AAATTCACC
1 -AATTCACC
10649739 AATTCACC
1 AATTCACC
10649747 AATTC
1 AATTC
10649752 TTCTAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (8 bp):
AATTCACC
Found at i:10657341 original size:44 final size:45
Alignment explanation
Indices: 10657278--10657369 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 45
10657268 CCTTAGTCAA
10657278 GTATTATTGTTGGCTAGGACAACAATAATGCATTAAGACTAAC-T
1 GTATTATTGTTGGCTAGGACAACAATAATGCATTAAGACTAACAT
10657322 GTATTATTGTTGGCTAGGACAACAATAATGCATTAAGACTAACAT
1 GTATTATTGTTGGCTAGGACAACAATAATGCATTAAGACTAACAT
10657367 GTA
1 GTA
10657370 GTTGATTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (45 bp):
GTATTATTGTTGGCTAGGACAACAATAATGCATTAAGACTAACAT
Found at i:10659749 original size:46 final size:46
Alignment explanation
Indices: 10659699--10659871 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
10659689 TGGTTGAGCA
10659699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
10659745 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * **
10659790 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATCCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
10659838 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
10659872 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10659855 original size:93 final size:93
Alignment explanation
Indices: 10659696--10659866 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10659686 GGATGGTTGA
* * * *
10659696 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGCCCGAGCTCGTTGAGT
10659761 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
10659789 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATCCGAGCGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGCCCGAGCTCGTTGAGT
10659854 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
10659867 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10663117 original size:56 final size:56
Alignment explanation
Indices: 10663047--10663155 Score: 218
Period size: 56 Copynumber: 1.9 Consensus size: 56
10663037 ATGGGATGGT
10663047 GTTTCACAAGTTGGACAAAGTGAGAATAGAAAGGAAGACAATTTGATCCTTTCCGC
1 GTTTCACAAGTTGGACAAAGTGAGAATAGAAAGGAAGACAATTTGATCCTTTCCGC
10663103 GTTTCACAAGTTGGACAAAGTGAGAATAGAAAGGAAGACAATTTGATCCTTTC
1 GTTTCACAAGTTGGACAAAGTGAGAATAGAAAGGAAGACAATTTGATCCTTTC
10663156 TAACTTATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (56 bp):
GTTTCACAAGTTGGACAAAGTGAGAATAGAAAGGAAGACAATTTGATCCTTTCCGC
Found at i:10666206 original size:35 final size:35
Alignment explanation
Indices: 10666160--10666227 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
10666150 TGTACTAAGT
10666160 GGTTGTCTAAATTAAATTTATTTAATTAAAAATAA
1 GGTTGTCTAAATTAAATTTATTTAATTAAAAATAA
10666195 GGTTGTCTAAATTAAATTTATTTAATTAAAAAT
1 GGTTGTCTAAATTAAATTTATTTAATTAAAAAT
10666228 TTATTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (35 bp):
GGTTGTCTAAATTAAATTTATTTAATTAAAAATAA
Found at i:10671880 original size:14 final size:14
Alignment explanation
Indices: 10671861--10671888 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10671851 AATTGCTCTA
10671861 TTATGTCCAAATAC
1 TTATGTCCAAATAC
10671875 TTATGTCCAAATAC
1 TTATGTCCAAATAC
10671889 ACCCTCAATA
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:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
TTATGTCCAAATAC
Found at i:10673460 original size:23 final size:23
Alignment explanation
Indices: 10673434--10673478 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10673424 ATGTTTTTTT
10673434 ATTTA-AAAATAAATTAATTTTAA
1 ATTTATAAAATAAA-TAATTTTAA
* *
10673457 ATTTATATAATTAATAATTTTA
1 ATTTATAAAATAAATAATTTTA
10673479 CTACATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTATAAAATAAATAATTTTAA
Found at i:10679443 original size:53 final size:53
Alignment explanation
Indices: 10679386--10679505 Score: 195
Period size: 53 Copynumber: 2.3 Consensus size: 53
10679376 TATCCCAGAC
* *
10679386 ATGGTCTTATACGGAATCACATTATCACATTATACTGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTATACCGATGCCATAGCACAGCT
* *
10679439 ATGGTCTTATACGGAGTCACATTATCACATTGTACCGATGCCATAGCACAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTATACCGATGCCATAGCACAGCT
*
10679492 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
10679506 GCGCACTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTATACCGATGCCATAGCACAGCT
Found at i:10682463 original size:10 final size:10
Alignment explanation
Indices: 10682448--10682480 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10682438 TATAAGATAT
10682448 TTATTATTTA
1 TTATTATTTA
10682458 TTATTATTTA
1 TTATTATTTA
10682468 TTAGTTA-TTA
1 TTA-TTATTTA
10682478 TTA
1 TTA
10682481 AATTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 19 0.86
11 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTATTATTTA
Found at i:10682465 original size:17 final size:17
Alignment explanation
Indices: 10682445--10682480 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10682435 TAGTATAAGA
*
10682445 TATTTATTATTTATTAT
1 TATTTATTAGTTATTAT
10682462 TATTTATTAGTTATTAT
1 TATTTATTAGTTATTAT
10682479 TA
1 TA
10682481 AATTAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTATTAGTTATTAT
Found at i:10683535 original size:18 final size:18
Alignment explanation
Indices: 10683512--10683560 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
10683502 ATGTGAGGTA
*
10683512 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
10683530 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
10683548 ATTATTATTATTA
1 AGTATTATTATTA
10683561 TGACTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:10683540 original size:3 final size:3
Alignment explanation
Indices: 10683514--10683561 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
10683504 GTGAGGTAAG
* * * *
10683514 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10683562 GACTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:10683561 original size:12 final size:12
Alignment explanation
Indices: 10683514--10683561 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
10683504 GTGAGGTAAG
* *
10683514 TATTAATATTAG
1 TATTAGTATTAT
10683526 TATTAGTATTAT
1 TATTAGTATTAT
10683538 TATTAGTATTAT
1 TATTAGTATTAT
*
10683550 TATTATTATTAT
1 TATTAGTATTAT
10683562 GACTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:10683976 original size:37 final size:39
Alignment explanation
Indices: 10683917--10684012 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
10683907 CGGATAGATT
* * * *
10683917 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
10683954 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
10683993 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
10684013 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:10684668 original size:9 final size:9
Alignment explanation
Indices: 10684654--10684680 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10684644 GAATGTGAAA
10684654 TGAATTGGT
1 TGAATTGGT
10684663 TGAATTGGT
1 TGAATTGGT
10684672 TGAATTGGT
1 TGAATTGGT
10684681 GATATTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (9 bp):
TGAATTGGT
Found at i:10688893 original size:16 final size:17
Alignment explanation
Indices: 10688857--10688893 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10688847 AATTTTATTT
*
10688857 TAATTATAAATTTTAAA
1 TAATAATAAATTTTAAA
10688874 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
10688889 TAATA
1 TAATA
10688894 TTCTTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:10692331 original size:46 final size:46
Alignment explanation
Indices: 10692159--10692334 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
10692149 TGTAACCCGA
* * **
10692159 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
* * * *
10692205 CCATAAGTGAACTCGGGCTCAACTCAATGAGCTCGGACGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-ACTCG---CAT
* * *
10692255 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGAACACTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
* *
10692298 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
10692335 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.61
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
Done.