Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 133 of 210
Found at i:44081191 original size:20 final size:20
Alignment explanation
Indices: 44081168--44081206 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44081158 ATTTTTACAT
44081168 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
44081188 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
44081207 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:44085470 original size:10 final size:10
Alignment explanation
Indices: 44085457--44085552 Score: 62
Period size: 10 Copynumber: 10.2 Consensus size: 10
44085447 AACTTATTAT
44085457 ATTTTTATAA
1 ATTTTTATAA
44085467 ATTTTTAT-A
1 ATTTTTATAA
*
44085476 ATATTTAT--
1 ATTTTTATAA
* *
44085484 GTTTTTATTA
1 ATTTTTATAA
* *
44085494 TTTTTTAT-G
1 ATTTTTATAA
44085503 ATTTTTATAA
1 ATTTTTATAA
44085513 ATTTTT-TATA
1 ATTTTTATA-A
* *
44085523 ATTTAT-TAG
1 ATTTTTATAA
44085532 ATTTTTATAA
1 ATTTTTATAA
*
44085542 A-GTTTATAA
1 ATTTTTATAA
44085551 AT
1 AT
44085553 CTTATGATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
8 6 0.09
9 30 0.44
10 32 0.47
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:44085488 original size:27 final size:27
Alignment explanation
Indices: 44085453--44085511 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
44085443 TTAGAACTTA
44085453 TTATATTTTTATAAATTTTTATAATAT
1 TTATATTTTTATAAATTTTTATAATAT
* * * * *
44085480 TTATGTTTTTATTATTTTTTATGATTT
1 TTATATTTTTATAAATTTTTATAATAT
44085507 TTATA
1 TTATA
44085512 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (27 bp):
TTATATTTTTATAAATTTTTATAATAT
Found at i:44085489 original size:18 final size:17
Alignment explanation
Indices: 44085468--44085516 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
44085458 TTTTTATAAA
44085468 TTTTTATAATATTTATG
1 TTTTTATAATATTTATG
* *
44085485 TTTTTATTATTTTTTATG
1 TTTTTA-TAATATTTATG
44085503 ATTTTTATAA-ATTT
1 -TTTTTATAATATTT
44085517 TTTATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.35
18 11 0.42
19 6 0.23
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTTTATAATATTTATG
Found at i:44085492 original size:38 final size:37
Alignment explanation
Indices: 44085450--44085565 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 37
44085440 TTATTAGAAC
44085450 TTATTATATTTTTATAAATTTTTATAATATTTATGTTT
1 TTATTATATTTTTATAAATTTTTATAA-ATTTATGTTT
* *
44085488 TTATTAT-TTTTTAT-GATTTTTATAAATTT-TTTATAAT
1 TTATTATATTTTTATAAATTTTTATAAATTTATGT-T--T
* *
44085525 TTATTAGATTTTTATAAA-GTTTATAAATCTTATGATTT
1 TTATTATATTTTTATAAATTTTTATAAAT-TTATG-TTT
44085563 TTA
1 TTA
44085566 ACGAGAGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
34 2 0.03
35 5 0.08
36 10 0.16
37 14 0.22
38 27 0.42
39 3 0.05
40 2 0.03
41 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (37 bp):
TTATTATATTTTTATAAATTTTTATAAATTTATGTTT
Found at i:44085521 original size:27 final size:27
Alignment explanation
Indices: 44085486--44085565 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 27
44085476 ATATTTATGT
44085486 TTTTATTATTTTTTATGATTTTTATAAA
1 TTTT-TTATTTTTTATGATTTTTATAAA
44085514 TTTTTTATAATTTATTA-GATTTTTATAAA
1 TTTTTTAT--TTT-TTATGATTTTTATAAA
* * ** *
44085543 GTTTATAAATCTTATGATTTTTA
1 TTTTTTATTTTTTATGATTTTTA
44085566 ACGAGAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 4 0.09
29 20 0.47
30 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTTTTATTTTTTATGATTTTTATAAA
Found at i:44085534 original size:29 final size:30
Alignment explanation
Indices: 44085485--44085542 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
44085475 AATATTTATG
* *
44085485 TTTTTATTATTTTTTATGATTTTTATAAAT
1 TTTTTATAATTTATTATGATTTTTATAAAT
44085515 TTTTTATAATTTATTA-GATTTTTATAAA
1 TTTTTATAATTTATTATGATTTTTATAAA
44085543 GTTTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (30 bp):
TTTTTATAATTTATTATGATTTTTATAAAT
Found at i:44085557 original size:29 final size:27
Alignment explanation
Indices: 44085497--44085565 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
44085487 TTTATTATTT
* *
44085497 TTTATGATTTTTATAAATTTTTTATAA
1 TTTATGATTTTTATAAAGTTTATATAA
44085524 TTTATTAGATTTTTATAAAGTTTATA-AA
1 TTTA-T-GATTTTTATAAAGTTTATATAA
44085552 TCTTATGATTTTTA
1 T-TTATGATTTTTA
44085566 ACGAGAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 12 0.32
28 5 0.14
29 20 0.54
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.59
Consensus pattern (27 bp):
TTTATGATTTTTATAAAGTTTATATAA
Found at i:44089995 original size:9 final size:9
Alignment explanation
Indices: 44089981--44090011 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44089971 GTTAAACGAA
44089981 TCGAGTTAT
1 TCGAGTTAT
*
44089990 TCGAGTTAA
1 TCGAGTTAT
44089999 TCGAGTTAT
1 TCGAGTTAT
44090008 TCGA
1 TCGA
44090012 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:44090084 original size:9 final size:9
Alignment explanation
Indices: 44090065--44090119 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
44090055 TGAGTTTTCG
*
44090065 AATTTGAAT
1 AATTCGAAT
*
44090074 AACTCGAAT
1 AATTCGAAT
44090083 AATTCGAAT
1 AATTCGAAT
*
44090092 AACTCGAAT
1 AATTCGAAT
44090101 AATTCGAAT
1 AATTCGAAT
44090110 AATTCGAAT
1 AATTCGAAT
44090119 A
1 A
44090120 TCAAACTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44090086 original size:18 final size:18
Alignment explanation
Indices: 44090065--44090119 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
44090055 TGAGTTTTCG
*
44090065 AATTTGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
44090083 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
*
44090101 AATTCGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
44090119 A
1 A
44090120 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:44104611 original size:27 final size:27
Alignment explanation
Indices: 44104543--44104611 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
44104533 GTGGAGGGTA
* *
44104543 TCCCATGCGCGGCACCAAAGGTGCCTT
1 TCCCATGGGCGGCACCAAAGGTGCCAT
* * *
44104570 TCCCATAGGCGGCACCGATGGTGCCAT
1 TCCCATGGGCGGCACCAAAGGTGCCAT
*
44104597 TCCCATGGGCAGCAC
1 TCCCATGGGCGGCAC
44104612 TGCCTATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (27 bp):
TCCCATGGGCGGCACCAAAGGTGCCAT
Found at i:44104702 original size:5 final size:5
Alignment explanation
Indices: 44104674--44104782 Score: 59
Period size: 5 Copynumber: 22.4 Consensus size: 5
44104664 GAAAGAAGAA
* * * * *
44104674 GAAA- GAAAG AAAAC GAAAG AAAAG GAAAG GAGAG GAAA- GAAAG AAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
* * *
44104722 GAAAG GAGAAG AAGAAA- -AAA- GAAAG AAAAA G-AAG GAAAG AAAAG
1 GAAAG GA-AAG --GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
* *
44104766 GAAAG GAGAG GAGAG GA
1 GAAAG GAAAG GAAAG GA
44104783 GAAAAAAAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 15
0.71 0.15 0.13
Matches are distributed among these distances:
3 3 0.04
4 14 0.17
5 56 0.70
6 3 0.04
7 2 0.03
8 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:44104715 original size:24 final size:24
Alignment explanation
Indices: 44104664--44104774 Score: 110
Period size: 24 Copynumber: 4.8 Consensus size: 24
44104654 GAAGGAGAGG
44104664 GAAAGAAGAA-GAAA-GA-AAGAAAA
1 GAAAGAA-AAGGAAAGGAGAAG-AAA
*
44104687 CGAAAGAAAAGGAAAGGAGAGGAAA
1 -GAAAGAAAAGGAAAGGAGAAGAAA
44104712 GAAAGAAAAGGAAAGGAGAAG-AA
1 GAAAGAAAAGGAAAGGAGAAGAAA
* * *
44104735 G-AA-AAAA-GAAAGAAAAAGAAG
1 GAAAGAAAAGGAAAGGAGAAGAAA
44104756 GAAAGAAAAGGAAAGGAGA
1 GAAAGAAAAGGAAAGGAGA
44104775 GGAGAGGAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
20 9 0.12
21 6 0.08
22 4 0.05
23 9 0.12
24 38 0.52
25 5 0.07
26 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAAGAAAAGGAAAGGAGAAGAAA
Found at i:44104758 original size:48 final size:48
Alignment explanation
Indices: 44104706--44104803 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
44104696 AGGAAAGGAG
*
44104706 AGGAAAG-AAAGAAAAGGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGA
1 AGGAAAGAAAAGAAAAGGAAAGGAG-AGAAGAAAAAAAAAAGAAAAAGA
* * * *
44104754 AGGAAAGAAAAGGAAAGGAGAGGAGAGGAGAAAAAAAAAAGAAGAAGA
1 AGGAAAGAAAAGAAAAGGAAAGGAGAGAAGAAAAAAAAAAGAAAAAGA
44104802 AG
1 AG
44104804 AAGAGGGGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 29 0.66
49 15 0.34
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (48 bp):
AGGAAAGAAAAGAAAAGGAAAGGAGAGAAGAAAAAAAAAAGAAAAAGA
Found at i:44104763 original size:14 final size:14
Alignment explanation
Indices: 44104712--44104764 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
44104702 GGAGAGGAAA
*
44104712 GAAAGAAAAGGAAAG
1 GAAAGAAAAAG-AAG
*
44104727 GAGAAGAAGAAA-AAA
1 GA-AAGAA-AAAGAAG
44104742 GAAAGAAAAAGAAG
1 GAAAGAAAAAGAAG
44104756 GAAAGAAAA
1 GAAAGAAAA
44104765 GGAAAGGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.09
14 16 0.50
15 6 0.19
16 5 0.16
17 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGAAG
Found at i:44104788 original size:24 final size:24
Alignment explanation
Indices: 44104689--44104794 Score: 92
Period size: 24 Copynumber: 4.4 Consensus size: 24
44104679 AAAGAAAACG
44104689 AAAGAAAAGGAAAGGAGAGGA-AA
1 AAAGAAAAGGAAAGGAGAGGAGAA
*
44104712 GAAAGAAAAGGAAAGGAGAAGAAGAA
1 -AAAGAAAAGGAAAGGAG-AGGAGAA
* * *
44104738 AAA-AGAAAGAAAAAGA-AGGAAAGA
1 AAAGA-AAAGGAAAGGAGAGGAGA-A
* *
44104762 AAAGGAAAGGAGAGGAGAGGAGAA
1 AAAGAAAAGGAAAGGAGAGGAGAA
*
44104786 AAAAAAAAG
1 AAAGAAAAG
44104795 AAGAAGAAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
23 4 0.06
24 38 0.59
25 20 0.31
26 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
AAAGAAAAGGAAAGGAGAGGAGAA
Found at i:44104800 original size:68 final size:67
Alignment explanation
Indices: 44104672--44104805 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 67
44104662 GGGAAAGAAG
*
44104672 AAGAAAGAAAGAAAACGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAGGAAAGGAGAAGAAGA
1 AAGAAAGAAAGAAAACGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAA-GAAAGAAGAAGAAGA
44104737 AAA
65 AAA
*
44104740 AAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAGGAGAGGAGAAA-AAAA-AAAGAAGAAGA
1 AAGAAAGAAAGAA-AACGAAAGAAAAGGAAAGGAGAGGA-A--AGAAAGAAAAGAAAGAAGAAGA
44104802 AGAA
62 AGAA
44104806 GAGGGGAGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
67 2 0.03
68 48 0.80
69 1 0.02
70 4 0.07
71 5 0.08
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (67 bp):
AAGAAAGAAAGAAAACGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAGAAAGAAGAAGAAGAA
AA
Found at i:44104828 original size:68 final size:66
Alignment explanation
Indices: 44104672--44104832 Score: 166
Period size: 68 Copynumber: 2.4 Consensus size: 66
44104662 GGGAAAGAAG
* *
44104672 AAGAAAGAAAGAAAACGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAGGAAAGGAGAAGAAGA
1 AAGAAAG-AAGAAAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAA-GAAAGAAGAAGAAGA
44104737 AAA
64 AAA
44104740 AAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAGGAGAGGAGAAA-AAAA-AAAGAAGAAGA
1 AAGAAAGAAGAAA-AA-GAAAGAAAAGGAAAGGAGAGGA-A--AGAAAGAAAAGAAAGAAGAAGA
*
44104802 AGAAGA
61 AGAAAA
** * *
44104808 GGGGAGGAAGGAAAAAGAAAGAAAA
1 AAGAAAGAA-GAAAAAGAAAGAAAA
44104833 AAAGGTAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
66 3 0.04
67 3 0.04
68 58 0.73
69 3 0.04
70 7 0.09
71 5 0.06
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (66 bp):
AAGAAAGAAGAAAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAGAAAGAAGAAGAAGAAA
A
Found at i:44105306 original size:159 final size:154
Alignment explanation
Indices: 44105143--44105607 Score: 412
Period size: 159 Copynumber: 2.9 Consensus size: 154
44105133 GGAAAATAAT
44105143 AAAATCTGAAAAAATTGTATATTTAATAAATTTCAAACATAATGCACTAAAATAAAGTAAAATTA
1 AAAATCTGAAAAAA-T-TATATTTAATAAATTTCAAACATAATGCACTAAAATAAAGTAAAATTA
*
44105208 TAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGAG-AAAAAATACGAAGAAATGAC
64 TAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGAGAAAAAAATACGAAGAAATGGC
*
44105272 CGAAGTAAGAGTGTTTTATAAAATTTTTTA
129 CGAAGTAAGAGTGTTTTATAAAA----CTA
* * ** * * * * *
44105302 AAAATTCAGAAATAATTAT-TGCAA-ATATTTCAAACAAAATGTACTGAAATAATA-TAAAATAA
1 AAAA-TCTGAAAAAATTATATTTAATAAATTTCAAACATAATGCACTAAAATAA-AGTAAAATTA
* * *
44105364 TAAAA-TACGAAAATAAT-ATTTTTTATTGAAAGTAATAAAATTCG-GAAAAATAATACG-AGCA
64 TAAAATTA-G-AAATTATGATATTTT-TT-AAAGTAATAAAATGCGAGAAAAA-AATACGAAG-A
* * * * *
44105425 AAGGGCAGGAA-TAAGAGT-TTTTTTGACACTA
123 AATGGC-CGAAGTAAGAGTGTTTTATAAAACTA
* * * * * *
44105456 AATTAATTTTAAAAACA-CACTAAATTAATAAATTTCAAACATAATGCACTTAAATAATGTAAAA
1 AA--AATCTGAAAAA-ATTA-T-ATTTAATAAATTTCAAACATAATGCACTAAAATAAAGTAAAA
* *
44105520 TTATAAAAATTAGAAACTATGATATTTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAAGAA
61 TTAT-AAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGC-GAGAAAAAAATACGAAGAA
44105585 ATGGCCGAAGTAAGAGTGTTTTA
124 ATGGCCGAAGTAAGAGTGTTTTA
44105608 CTAACTTTTT
Statistics
Matches: 239, Mismatches: 41, Indels: 51
0.72 0.12 0.15
Matches are distributed among these distances:
154 4 0.02
155 8 0.03
156 47 0.20
157 13 0.05
158 49 0.21
159 82 0.34
160 34 0.14
161 2 0.01
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (154 bp):
AAAATCTGAAAAAATTATATTTAATAAATTTCAAACATAATGCACTAAAATAAAGTAAAATTATA
AAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGAGAAAAAAATACGAAGAAATGGCCG
AAGTAAGAGTGTTTTATAAAACTA
Found at i:44108663 original size:40 final size:41
Alignment explanation
Indices: 44108548--44108669 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 41
44108538 CCACTAATCC
* *
44108548 TAATAACTAACACAATAAAAATAATAATAGTTTTATACTCAAAA
1 TAATAACTAAC-C-ATAATAATAATAATAGTTTT-TACTAAAAA
* *
44108592 TAAT-AGTAA-C-TAATAATAATAATTAGGGTTTTACTAAAAA
1 TAATAACTAACCATAATAATAATAA-TA-GTTTTTACTAAAAA
*
44108632 TAATAACTAACCATAATAATAATACTAGTTTTTACTAA
1 TAATAACTAACCATAATAATAATAATAGTTTTTACTAA
44108670 CTAAGTAACA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
39 11 0.17
40 14 0.21
41 19 0.29
42 3 0.05
43 15 0.23
44 4 0.06
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (41 bp):
TAATAACTAACCATAATAATAATAATAGTTTTTACTAAAAA
Found at i:44108991 original size:27 final size:27
Alignment explanation
Indices: 44108951--44109016 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
44108941 TAACACGAGT
*
44108951 GGTGCCGCCCATGGGAATGGCACCATC
1 GGTGCCGCCTATGGGAATGGCACCATC
* *
44108978 GGTGCCGCCTATGGGAATGGCACCTTT
1 GGTGCCGCCTATGGGAATGGCACCATC
44109005 GGTGCCGCCTAT
1 GGTGCCGCCTAT
44109017 CAGTCTCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAATGGCACCATC
Found at i:44110075 original size:2 final size:2
Alignment explanation
Indices: 44110068--44110108 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
44110058 CTGTTAATAT
44110068 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
44110109 ATCTTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44114127 original size:4 final size:4
Alignment explanation
Indices: 44114118--44114153 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
44114108 AACTTAAGCC
44114118 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
44114154 CAAGCGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:44135881 original size:16 final size:18
Alignment explanation
Indices: 44135855--44135887 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44135845 CGATAATAAC
44135855 CTACAAGATC-TAGAAAA
1 CTACAAGATCTTAGAAAA
44135872 CTAC-AGATCTTAGAAA
1 CTACAAGATCTTAGAAA
44135888 CGTTCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (18 bp):
CTACAAGATCTTAGAAAA
Found at i:44144747 original size:36 final size:36
Alignment explanation
Indices: 44144702--44144775 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
44144692 AATGTGCAAC
*
44144702 ATTTAGCTTTGCGT-GCAAAAACCATATAAGGATAAT
1 ATTTAGCTTTGC-TCGCAAAAACCATATAAAGATAAT
*
44144738 ATTTTGCTTTGCTCGCAAAAACCATATAAAGATAAT
1 ATTTAGCTTTGCTCGCAAAAACCATATAAAGATAAT
44144774 AT
1 AT
44144776 ACAAAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (36 bp):
ATTTAGCTTTGCTCGCAAAAACCATATAAAGATAAT
Found at i:44150119 original size:3 final size:3
Alignment explanation
Indices: 44150111--44150158 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
44150101 GAGAAGCTTA
44150111 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
44150159 CACCATACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:44153673 original size:26 final size:24
Alignment explanation
Indices: 44153597--44153675 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 24
44153587 CCTCTCAAAA
44153597 AATTCAAAATAATCTTAAAAAATATT
1 AATTCAAAA-AAT-TTAAAAAATATT
** * *
44153623 TTTTCAAAAAAAATTATAAATATATAT
1 AATTC-AAAAAATTTA-AAAAATAT-T
44153650 AATTCAAAAAATTTAAGAAAATATT
1 AATTCAAAAAATTTAA-AAAATATT
44153675 A
1 A
44153676 TTTGTGTAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
25 6 0.15
26 27 0.66
27 8 0.20
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (24 bp):
AATTCAAAAAATTTAAAAAATATT
Found at i:44157136 original size:18 final size:19
Alignment explanation
Indices: 44157109--44157145 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44157099 GAGATAACAA
44157109 GGATGAGAAATGG-ATATG
1 GGATGAGAAATGGAATATG
*
44157127 GGATGGGAAATGGAATATG
1 GGATGAGAAATGGAATATG
44157146 AAATGACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.22
Consensus pattern (19 bp):
GGATGAGAAATGGAATATG
Found at i:44161551 original size:321 final size:323
Alignment explanation
Indices: 44160697--44161638 Score: 1604
Period size: 325 Copynumber: 2.9 Consensus size: 323
44160687 CTGGAATGTA
* **
44160697 AGGATTATTCTGTAGTTTTTTATTT-CCTCTATTATCAACAACTTGATCTATATAATAGTTAAAA
1 AGGATTATTCTGCAGTTTTTCCTTTCCCTCTATTATCAACAACTTGATCTATATAATAGTTAAAA
*
44160761 TTCAAATTATCAATTCAAAAATCATTATATCACTCAAATACATGCATATGACCTTTTAATTTCAT
66 TTCAAATTATCAATTCAAAAAGCATTATATCACTCAAATACATGCATATGACCTTTTAATTTCAT
44160826 TTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTATA
131 TTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTATA
*
44160891 ACTTTCACAATTAAAC-TCAATTTTTCATTCCAATTTCAATTACATCCTTCTACAGCTCTCTAAA
196 ACTTTCACAATTAAACTTC-ATTTTTCATTCCAATTTCAATTACATCCTTCTACAGCCCTCTAAA
*
44160955 CTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAGCTGAAACGT
260 CTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAACTGAAAC-T
* *
44161020 AGGGACTATTCTGCAGTTTTTCCTTTCCCTCGATTATCAACAACTTGATCTATATAATAGTTAAA
1 A-GGATTATTCTGCAGTTTTTCCTTTCCCTCTATTATCAACAACTTGATCTATATAATAGTTAAA
*
44161085 ATTCAAATTATCAATTCAAAAAGCATTATATCACTCAAATACATGCATATGATCTTTTAATTTCA
65 ATTCAAATTATCAATTCAAAAAGCATTATATCACTCAAATACATGCATATGACCTTTTAATTTCA
44161150 TTTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTAT
130 TTTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTAT
* *
44161215 AACTTTCACAATTAAACTTCATTTTTCATTCCAATTTCAATTACATCCTTCTACAGCCCTGTAAG
195 AACTTTCACAATTAAACTTCATTTTTCATTCCAATTTCAATTACATCCTTCTACAGCCCTCTAAA
* *
44161280 CTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACCGACTAACGAATTGAAA-T
260 CTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAACTGAAACT
* *
44161343 -GTATTATTCTGCAGTTTTTCCTTTCCCCCTATTATCAACAACTTGATCTATATAATAGTTAAAA
1 AGGATTATTCTGCAGTTTTTCCTTTCCCTCTATTATCAACAACTTGATCTATATAATAGTTAAAA
* *
44161407 TTTAAATTATCAATTCAAAAAGAATTATATCACTCAAATACATGCATATGACCTTTTAATTTCAT
66 TTCAAATTATCAATTCAAAAAGCATTATATCACTCAAATACATGCATATGACCTTTTAATTTCAT
* * * * *
44161472 TTTACACAATTTCCTTGAACTTTTATATTTTATTCAAGTTAATCTCTAAAACCAAGACTATTATA
131 TTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTATA
* * *
44161537 AATTTCACAATTAAACTTCATTTTTCATTCCAATTTCAATTATATCCTTCTACATCCCTCTAAAC
196 ACTTTCACAATTAAACTTCATTTTTCATTCCAATTTCAATTACATCCTTCTACAGCCCTCTAAAC
44161602 TCTAAATTTATAGAATTTTCATGTCACTTTTATCATA
261 TCTAAATTTATAGAATTTTCATGTCACTTTTATCATA
44161639 TTCACAATTT
Statistics
Matches: 586, Mismatches: 30, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
321 279 0.48
323 2 0.00
324 20 0.03
325 283 0.48
326 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (323 bp):
AGGATTATTCTGCAGTTTTTCCTTTCCCTCTATTATCAACAACTTGATCTATATAATAGTTAAAA
TTCAAATTATCAATTCAAAAAGCATTATATCACTCAAATACATGCATATGACCTTTTAATTTCAT
TTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTATA
ACTTTCACAATTAAACTTCATTTTTCATTCCAATTTCAATTACATCCTTCTACAGCCCTCTAAAC
TCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAACTGAAACT
Found at i:44166255 original size:18 final size:17
Alignment explanation
Indices: 44166216--44166260 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
44166206 AAGAATTATG
44166216 AATTTTTCTTATTTTTT
1 AATTTTTCTTATTTTTT
*
44166233 CATTTTT-TTATATTTTT
1 AATTTTTCTTAT-TTTTT
44166250 AAATTTTTCTT
1 -AATTTTTCTT
44166261 CAAAAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 6 0.26
19 2 0.09
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (17 bp):
AATTTTTCTTATTTTTT
Found at i:44167295 original size:17 final size:18
Alignment explanation
Indices: 44167273--44167316 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
44167263 TATCAAGATA
44167273 AATATTAGAT-TAAATTT
1 AATATTAGATATAAATTT
*
44167290 AATATTAAGATAATCAATTT
1 AATATT-AGAT-ATAAATTT
44167310 AATATTA
1 AATATTA
44167317 AATTGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 1 0.04
20 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
AATATTAGATATAAATTT
Found at i:44168534 original size:16 final size:16
Alignment explanation
Indices: 44168501--44168560 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
44168491 TCTTCAGGTG
* * *
44168501 AAGAAAGAATATGTTC
1 AAGAAAGAGTACGCTC
*
44168517 AATAAAGAGTACGCTC
1 AAGAAAGAGTACGCTC
44168533 AAGAAAGAGTACGC-C
1 AAGAAAGAGTACGCTC
*
44168548 TAAGGAAGAGTAC
1 -AAGAAAGAGTAC
44168561 ACCCTAAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
15 1 0.03
16 36 0.97
ACGTcount: A:0.47, C:0.13, G:0.23, T:0.17
Consensus pattern (16 bp):
AAGAAAGAGTACGCTC
Found at i:44169038 original size:12 final size:12
Alignment explanation
Indices: 44169023--44169048 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44169013 ATGATTCAAC
44169023 CTTCTAGTAAGT
1 CTTCTAGTAAGT
44169035 CTTCTAGTAAGT
1 CTTCTAGTAAGT
44169047 CT
1 CT
44169049 ATTTTTTGTG
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:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (12 bp):
CTTCTAGTAAGT
Found at i:44176450 original size:46 final size:43
Alignment explanation
Indices: 44176369--44176467 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
44176359 TACTATGTGA
* *
44176369 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTACTATGTGCTGAAT-CC
* *
44176412 ACCGGATATCATTGATTACAAAGGGTGGTTACTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTACTATGTGCTGAATCC
44176458 ACCGTGTATC
1 ACCG-GTATC
44176468 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTACTATGTGCTGAATCC
Found at i:44177787 original size:133 final size:133
Alignment explanation
Indices: 44177638--44177903 Score: 523
Period size: 133 Copynumber: 2.0 Consensus size: 133
44177628 GTATATGAAA
44177638 CGTAATAATATATGCTTGAATAAACTTTAAGTATTCGAATGACATGGATTTGATGGTGATAAGAT
1 CGTAATAATATATGCTTGAATAAACTTTAAGTATTCGAATGACATGGATTTGATGGTGATAAGAT
44177703 TCGAACATTGAATTCATGAAGCACAGGTGATGTATTATTGTTGTGTGATAGCTTGGTTCGAGAAA
66 TCGAACATTGAATTCATGAAGCACAGGTGATGTATTATTGTTGTGTGATAGCTTGGTTCGAGAAA
44177768 TTG
131 TTG
44177771 CGTAATAATATATGCTTGAATAAACTTTAAGTATTCGAATGACATGGATTTGATGGTGATAAGAT
1 CGTAATAATATATGCTTGAATAAACTTTAAGTATTCGAATGACATGGATTTGATGGTGATAAGAT
*
44177836 TCGAACATTGAATTCATGAAGCACAGGTGATGTATTATTGTTGTGTGATAGCTTGGTTCTAGAAA
66 TCGAACATTGAATTCATGAAGCACAGGTGATGTATTATTGTTGTGTGATAGCTTGGTTCGAGAAA
44177901 TTG
131 TTG
44177904 GTTAGGTAAA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (133 bp):
CGTAATAATATATGCTTGAATAAACTTTAAGTATTCGAATGACATGGATTTGATGGTGATAAGAT
TCGAACATTGAATTCATGAAGCACAGGTGATGTATTATTGTTGTGTGATAGCTTGGTTCGAGAAA
TTG
Found at i:44178648 original size:8 final size:8
Alignment explanation
Indices: 44178637--44178679 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
44178627 GAAGTTAAGA
44178637 GTTAGTGG
1 GTTAGTGG
44178645 GTTAGTGG
1 GTTAGTGG
44178653 GTTAGTGG
1 GTTAGTGG
*
44178661 GATTTAG-CG
1 G--TTAGTGG
44178670 GTTAGTGG
1 GTTAGTGG
44178678 GT
1 GT
44178680 GGTTAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 4 0.13
8 20 0.67
9 2 0.07
10 4 0.13
ACGTcount: A:0.14, C:0.02, G:0.47, T:0.37
Consensus pattern (8 bp):
GTTAGTGG
Found at i:44181516 original size:50 final size:50
Alignment explanation
Indices: 44181447--44181617 Score: 166
Period size: 50 Copynumber: 3.4 Consensus size: 50
44181437 CAAACCACAC
* * * * *
44181447 AAAGCCTTTTTGGCAAGTTATTTGAATGGCCTGTGTGGCATA-TAGTCTGG
1 AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATTA-TCTAG
* * *
44181497 AAAGCCTTTGTGGTGAGTTATCTGAAAGGCTTATGTGGCATATTATCTAG
1 AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATTATCTAG
* * * * * *
44181547 AAAGCC-TTGTGGCGAGTTATTTAAAAGGCCTTTATGACATATTATTTGG
1 AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATTATCTAG
* *
44181596 GAAGCCTTAGTGGCGAAGTTAT
1 AAAGCCTTTGTGGCG-AGTTAT
44181618 CTGGAAAGCC
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
49 39 0.39
50 52 0.53
51 8 0.08
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATTATCTAG
Found at i:44181520 original size:25 final size:25
Alignment explanation
Indices: 44181492--44181650 Score: 103
Period size: 25 Copynumber: 6.4 Consensus size: 25
44181482 TGGCATATAG
*
44181492 TCTGGAAAGCCTTTGTGGTGAGTTA
1 TCTGGAAAGCCTTTGTGGCGAGTTA
* *
44181517 TCT-GAAAGGCTTATGTGGC-ATATTA
1 TCTGGAAAGCCTT-TGTGGCGA-GTTA
*
44181542 TCTAGAAAGCC-TTGTGGCGAGTTA
1 TCTGGAAAGCCTTTGTGGCGAGTTA
** * * *
44181566 T-TTAAAAGGCCTTTATGAC-ATATTA
1 TCTGGAAA-GCCTTTGTGGCGA-GTTA
* * *
44181591 TTTGGGAAGCCTTAGTGGCGAAGTTA
1 TCTGGAAAGCCTTTGTGGCG-AGTTA
* * *
44181617 TCTGGAAAGCCTTTGCGGCAAGTCA
1 TCTGGAAAGCCTTTGTGGCGAGTTA
44181642 TCTGGAAAG
1 TCTGGAAAG
44181651 TCTATATGGC
Statistics
Matches: 101, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
23 4 0.04
24 23 0.23
25 46 0.46
26 27 0.27
27 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.32
Consensus pattern (25 bp):
TCTGGAAAGCCTTTGTGGCGAGTTA
Found at i:44181559 original size:24 final size:24
Alignment explanation
Indices: 44181475--44181559 Score: 61
Period size: 25 Copynumber: 3.5 Consensus size: 24
44181465 TATTTGAATG
*
44181475 GCCTGTGTGGCATA-TAGTCTGGAAA
1 GCCTATGTGGCATATTA-TCT-GAAA
*
44181500 GCCTTTGTGG--TGAGTTATCTGAAA
1 GCCTATGTGGCAT-A-TTATCTGAAA
*
44181524 GGCTTATGTGGCATATTATCTAGAAA
1 -GCCTATGTGGCATATTATCT-GAAA
44181550 GCCT-TGTGGC
1 GCCTATGTGGC
44181560 GAGTTATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
23 1 0.02
24 11 0.22
25 29 0.59
26 7 0.14
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.33
Consensus pattern (24 bp):
GCCTATGTGGCATATTATCTGAAA
Found at i:44183814 original size:400 final size:400
Alignment explanation
Indices: 44182677--44183797 Score: 1847
Period size: 400 Copynumber: 2.8 Consensus size: 400
44182667 AATGAAAGGA
* * * * * * * * * *
44182677 GAGCTATGAATTCTATTATTGCTAGTAAAGCCATGCCAAATACAAGTCATCTACCCAACATACCA
1 GAGCTATGGATTCCATTGTTGCTAGTAAAGTCATGTCACACACAAGTCATGTCCCCAACATTCCA
* * * * * *
44182742 GCTATGTGT-TCGATCATCTTTAGAGCATAA-CCTCCACTTATATCAAAGTACATGAGTTAAATA
66 TCTATG-GTCTCGATCATCTTTAGAGCATAAGCCTCCACTTATATTAAAGCATATGGGTTACATA
* * * * * * *
44182805 CGTATGGTCAGTGACTAATTCAAG-ATTTAGGTAAATCACACCATGAACATTACAAGTGAATTAA
130 CGCATGGTCAATGAATAACTC-AGTATTTTGGTAAATCACACCATGAACATCACAATTGAATTAA
* * * * * * *
44182869 TTCATAAATGGATTCAGAATTAATTCAACTTGGGTCTA-GTCCAATGTATCATTCTTCCAATGAA
194 TTCACAAACGGATTCAAAATAAATTCATCTTGGGTCTACG-CCAATATGTCATTCTTCCAATGAA
44182933 TACATCTATGTCTCTACCTGTAGAGTCAACTGTTTCGATAGCCAAAACTAAACATCTCCCCAATT
258 TACATCTATGTCTCTACCTGTAGAGTCAACTGTTTCGATAGCCAAAACTAAACATCTCCCCAATT
44182998 GCAATTATAAAAGACATCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGT
323 GCAATTATAAAAGACATCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGT
44183063 TAACTCTTTAATC
388 TAACTCTTTAATC
44183076 GAGCTATGGATTCCATTGTTGCTAGTAAAGTCATGTCACACACAAGTCATGTCCCCAACATTCCA
1 GAGCTATGGATTCCATTGTTGCTAGTAAAGTCATGTCACACACAAGTCATGTCCCCAACATTCCA
44183141 TCTATGGTCTCGATCATCTTTAGAGCATAAGCCTCCACTTATATTAAAGCATATGGGTTACATAC
66 TCTATGGTCTCGATCATCTTTAGAGCATAAGCCTCCACTTATATTAAAGCATATGGGTTACATAC
44183206 GCATGGTCAATGAATAACTCAGTATTTTGGTAAATCACACCATGAACATCACAATTGAATTAATT
131 GCATGGTCAATGAATAACTCAGTATTTTGGTAAATCACACCATGAACATCACAATTGAATTAATT
44183271 CACAAACGGATTCAAAATAAATTCATCTTGGGTCTACGCCAATATGTCATTCTTCCAATGAATAC
196 CACAAACGGATTCAAAATAAATTCATCTTGGGTCTACGCCAATATGTCATTCTTCCAATGAATAC
44183336 ATCTATGTCTCTACCTGTAGAGTCAACTGTTTCGATAGCCAAAACTAAACATCTCCCCAATTGCA
261 ATCTATGTCTCTACCTGTAGAGTCAACTGTTTCGATAGCCAAAACTAAACATCTCCCCAATTGCA
44183401 ATTATAAAAGACATCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAA
326 ATTATAAAAGACATCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAA
44183466 CTCTTTAATC
391 CTCTTTAATC
44183476 GAGCTATGGATTCCATTGTTGCTAGTAAAGTCATGTCACACACAAGTCATGTCCCCAACATTCCA
1 GAGCTATGGATTCCATTGTTGCTAGTAAAGTCATGTCACACACAAGTCATGTCCCCAACATTCCA
44183541 TCTATGGTCTCGATCATCTTTAGAGCATAAGCCTCCACTTATATTAAAGCATATGGGTTACATAC
66 TCTATGGTCTCGATCATCTTTAGAGCATAAGCCTCCACTTATATTAAAGCATATGGGTTACATAC
44183606 GCATGGTCAATGAATAACTCAGTATTTTGGTAAATCACACCATGAACATCACAATTGAATTAATT
131 GCATGGTCAATGAATAACTCAGTATTTTGGTAAATCACACCATGAACATCACAATTGAATTAATT
44183671 CACAAACGGATTCAAAATAAATTCATCTTGGGTCTACGCCAATATGTCATTCTTCCAATGAATAC
196 CACAAACGGATTCAAAATAAATTCATCTTGGGTCTACGCCAATATGTCATTCTTCCAATGAATAC
** * * **
44183736 ATCTATGTCTCTA-CTCGTAGAGTCAACTACTCCGATAGCCAAGACTAGCCATCTCCCCAATT
261 ATCTATGTCTCTACCT-GTAGAGTCAACTGTTTCGATAGCCAAAACTAAACATCTCCCCAATT
44183798 TGATTTGTAT
Statistics
Matches: 681, Mismatches: 36, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
398 2 0.00
399 85 0.12
400 593 0.87
401 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (400 bp):
GAGCTATGGATTCCATTGTTGCTAGTAAAGTCATGTCACACACAAGTCATGTCCCCAACATTCCA
TCTATGGTCTCGATCATCTTTAGAGCATAAGCCTCCACTTATATTAAAGCATATGGGTTACATAC
GCATGGTCAATGAATAACTCAGTATTTTGGTAAATCACACCATGAACATCACAATTGAATTAATT
CACAAACGGATTCAAAATAAATTCATCTTGGGTCTACGCCAATATGTCATTCTTCCAATGAATAC
ATCTATGTCTCTACCTGTAGAGTCAACTGTTTCGATAGCCAAAACTAAACATCTCCCCAATTGCA
ATTATAAAAGACATCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAA
CTCTTTAATC
Found at i:44190381 original size:149 final size:149
Alignment explanation
Indices: 44189921--44190414 Score: 460
Period size: 149 Copynumber: 3.3 Consensus size: 149
44189911 AAATTTTTGA
* * * *
44189921 TTTTTTTAAAA--AGAGATTTTAGATTTT-AACAAATAAAAA-TATGATTTTTTAGTTATTTTAA
1 TTTTTTTAAAAGGAGAAAGTTTAGATTTTGAA-AAATAAAAATTAT-TTTTTTTAGTCATTTTAA
* * *
44189982 AGGAAAGATTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTCAACTATTTCAAAGTAAAAGTTT
64 AGGAAAGTTTAAAATTTTAAAACAAAGTTTTGA--TTTTTTTCAACTATTT-AAAATAAAAGTTT
*
44190047 TAATCTTTAAGAAAAATAGTGTTT
126 TAATCTTTAAGAAAAATAATGTTT
*** *
44190071 TTCTTAAAAAAAAAAAGAAAGCAGAAAGTTTAGATTTTGGAAAATAAAAA-TATGCTTTTTTTAG
1 TT-TT----TTTAAAAG---G-AGAAAGTTTAGATTTTGAAAAATAAAAATTAT--TTTTTTTAG
* * * *
44190135 TCATTTTAAAGAAAAGTTTAAAATTTTAAAACAACGTTTTGATTTTTTTCAATTACTTAAAAATA
55 TCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTA-TTTAAAATA
* *
44190200 AAAGCTTTAATCTTTAAGAAAAAT-A-GTGT
119 AAAGTTTTAATCTTTAAGAAAAATAATGTTT
44190229 TTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTTAGTCATTTTAAA
1 TTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAAT-TATTTTTTTTAGTCATTTTAAA
* * * *
44190294 GGAAAGTTTAAAGTTTTAAAACAAAGTTTTGA-TTTTTT-AACTATTTTGAAAT-AAGGTTTTGA
65 GGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTA-TTTAAAATAAAAGTTTTAA
* * *
44190356 TTTTTAAGAAAATTAATGATT
129 TCTTTAAGAAAAATAATGTTT
* *
44190377 TTTTTCT-AAA-GA-AAAGTTT-GATTCTGTAAAAA-AAAAAT
1 TTTTTTTAAAAGGAGAAAGTTTAGATTTTG-AAAAATAAAAAT
44190415 CCAGCCACCA
Statistics
Matches: 286, Mismatches: 39, Indels: 44
0.78 0.11 0.12
Matches are distributed among these distances:
144 12 0.04
145 12 0.04
146 21 0.07
147 14 0.05
148 14 0.05
149 75 0.26
150 3 0.01
151 5 0.02
153 5 0.02
155 4 0.01
157 2 0.01
158 5 0.02
160 40 0.14
161 28 0.10
162 46 0.16
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (149 bp):
TTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATTATTTTTTTTAGTCATTTTAAAG
GAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTAAAATAAAAGTTTTAATC
TTTAAGAAAAATAATGTTT
Found at i:44194101 original size:28 final size:28
Alignment explanation
Indices: 44194061--44194117 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
44194051 GGGCTTCATG
44194061 TAAAATTCTCTATGCAAATTCTGAATTC
1 TAAAATTCTCTATGCAAATTCTGAATTC
*
44194089 TAAAATTCTCTATGCAAGTTCTGAATTC
1 TAAAATTCTCTATGCAAATTCTGAATTC
44194117 T
1 T
44194118 TCGGTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (28 bp):
TAAAATTCTCTATGCAAATTCTGAATTC
Found at i:44202229 original size:4 final size:4
Alignment explanation
Indices: 44202220--44202268 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
44202210 TGACCCAATA
* * * * *
44202220 TCAT TCAT TCAT TCAT TTAT TCAT CCAT TCGT TCAC TCAT TCGT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
44202268 T
1 T
44202269 TGTTTATTCA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (4 bp):
TCAT
Found at i:44207114 original size:14 final size:15
Alignment explanation
Indices: 44207090--44207118 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44207080 TATTTGAGAC
44207090 CTTTATTTTTCTTTT
1 CTTTATTTTTCTTTT
44207105 CTTT-TTTTTCTTTT
1 CTTTATTTTTCTTTT
44207119 TTCCTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTATTTTTCTTTT
Found at i:44207756 original size:152 final size:150
Alignment explanation
Indices: 44207540--44208184 Score: 762
Period size: 152 Copynumber: 4.3 Consensus size: 150
44207530 AAGTTTTAAT
* * * * * *
44207540 TTTTTTTTAAAAAGAAAAAGCTTATATTTT-AACAAATAAAAATCTTTTTTTGTTTTAGTTATTT
1 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTGAA-AAATAAAAATC-TATTTT-TTTAAGTCATTT
* * *
44207604 TAAAGGAAAGTTTAAATTTTTAAAACAAAATTTTGA-TTTTTTTCAACTATTTCAAAGTAAAAGC
63 TAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGC
44207668 TTTAATCTTTAA-AAAAATAGTA
128 TTTAATCTTTAAGAAAAATAGTA
44207690 TTTTTTTCTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTAAGTCATT
1 TTTTTTT-T--AAAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTAAGTCATT
*
44207755 TTAAAGGAAAGTTT-AAATGTTTAAAACAAAGTTTTGATTTTTGTCTTTTTCAACT-CTTCAAAA
62 TTAAAGGAAAGTTTAAAAT-TTTAAAACAAAATTTTGA---TT-T-TTTTTCAACTACTTCAAAA
44207818 TAAAAGCTTTAATCTTTAAGAAAAATAG--
121 TAAAAGCTTTAATCTTTAAGAAAAATAGTA
* *
44207846 TTTTTTTT--AAAGAGAAAGTTTAGATTTTGAAAAATAAAAATTTATTTTTTCTTAGTCATTTTA
1 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTT-TAAGTCATTTTA
*
44207909 AAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTTTCAACTACTTCAAAATAAAAAC
65 AAGGAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTTTTTCAACTACTTCAAAATAAAAGC
* *
44207974 TTTAATCTTTAAGAAAAGTAGTG
128 TTTAATCTTTAAGAAAAATAGTA
* *
44207997 TTTTTTTTAAAAGGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTTAAGTCATTTTAA
1 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTAAGTCATTTTAA
* * * * * * *
44208062 AAGAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTTTTT-AACTATTTCGAAAT-AAGGTTTT
66 AGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGCTTT
* *
44208125 AATTTTTAAGAAAAATAATGA
131 AATCTTTAAGAAAAATAGT-A
* * *
44208146 TTTTTTCT--AAAGA-AAACTTT-GATTTTGCAAAAAAAAAAA
1 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTG-AAAAATAAAAA
44208185 AAATTTGACC
Statistics
Matches: 437, Mismatches: 36, Indels: 48
0.84 0.07 0.09
Matches are distributed among these distances:
145 6 0.01
146 16 0.04
147 4 0.01
148 31 0.07
149 54 0.12
150 57 0.13
151 54 0.12
152 86 0.20
153 49 0.11
154 25 0.06
155 3 0.01
156 8 0.02
157 26 0.06
158 18 0.04
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (150 bp):
TTTTTTTTAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTAAGTCATTTTAA
AGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGCTTT
AATCTTTAAGAAAAATAGTA
Found at i:44207944 original size:303 final size:303
Alignment explanation
Indices: 44207540--44208099 Score: 855
Period size: 303 Copynumber: 1.8 Consensus size: 303
44207530 AAGTTTTAAT
* * *
44207540 TTTTTTTTAAAAAGAAAAAGCTTATATTTTAACAAATAAAAATCTTTTTTTGTTTTAGTTATTTT
1 TTTTTTTT-AAAAGAAAAAGCTTAGATTTTAACAAATAAAAATCTTTTTTTGTCTTAGTCATTTT
* * * *
44207605 AAAGGAAAGTTTAAATTTTTAAAACAAAATTTTGA-TTTTTTTCAACTATTTCAAAGTAAAAGCT
65 AAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAACT
44207669 TTAATCTTTAA-AAAAATAGTATTTTTTTCTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAA
130 TTAATCTTTAAGAAAAATAGTATTTTTTT-T---AAAAGGAGAAAGTTTAGATTTTGAAAAATAA
* *
44207733 AAATCTATTTTTTTAAGTCATTTTAAAGGAAAGTTT-AAATGTTTAAAACAAAGTTTTGATTTTT
191 AAATCTATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAAAT-TTTAAAACAAAGTTTTAATTTTT
44207797 GTCTTTTTCAACTCTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAG
255 GTCTTTTTCAACTCTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAG
* *
44207846 TTTTTTTT-AAAGAGAAAGTTTAGATTTTGAA-AAATAAAAAT-TTATTTTT-TCTTAGTCATTT
1 TTTTTTTTAAAAGAAAAAGCTTAGATTTT-AACAAATAAAAATCTT-TTTTTGTCTTAGTCATTT
44207907 TAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTTTCAACTACTTCAAAATAAAA
64 TAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTTTTTCAACTACTTCAAAATAAAA
* * *
44207972 ACTTTAATCTTTAAGAAAAGTAGTGTTTTTTTTAAAAGGAGAAAGTTTAGATTTTTAAAAATAAA
127 ACTTTAATCTTTAAGAAAAATAGTATTTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
44208037 AATCTATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTT
192 AATCTATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTT
44208100 TTTAACTATT
Statistics
Matches: 233, Mismatches: 14, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
303 134 0.58
304 36 0.15
305 2 0.01
306 46 0.20
307 15 0.06
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.44
Consensus pattern (303 bp):
TTTTTTTTAAAAGAAAAAGCTTAGATTTTAACAAATAAAAATCTTTTTTTGTCTTAGTCATTTTA
AAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAACTT
TAATCTTTAAGAAAAATAGTATTTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATC
TATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTTGTCTTT
TTCAACTCTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAG
Found at i:44208619 original size:13 final size:13
Alignment explanation
Indices: 44208601--44208639 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
44208591 TATACTAGTT
44208601 AGTTTTAGTTTTA
1 AGTTTTAGTTTTA
*
44208614 AGTTTTAAGTTTTT
1 AGTTTT-AGTTTTA
*
44208628 AGCTTTAGTTTT
1 AGTTTTAGTTTT
44208640 CACTTCCCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (13 bp):
AGTTTTAGTTTTA
Found at i:44210650 original size:102 final size:101
Alignment explanation
Indices: 44210537--44210755 Score: 375
Period size: 102 Copynumber: 2.2 Consensus size: 101
44210527 TAGATTTTAC
* * * **
44210537 TAACAACTAATAATTTGATAATTTTACTAACAATTAGTACAATTAACAATTAATAATTTTACTAA
1 TAACAATTAATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAA
*
44210602 CAAAATGTTAGATTTTACAAAATGTTTTGAGTGGTAG
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGT-G
44210639 TAACAATTAATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAA
1 TAACAATTAATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAA
44210704 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTG
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTG
44210740 TAACAATTAATAATTT
1 TAACAATTAATAATTT
44210756 TACTATCAAA
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 17 0.15
102 94 0.85
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (101 bp):
TAACAATTAATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAA
CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTG
Found at i:44210752 original size:58 final size:58
Alignment explanation
Indices: 44210690--44210908 Score: 254
Period size: 58 Copynumber: 3.8 Consensus size: 58
44210680 ATTAACAAGC
44210690 AATAATTTTACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGTGTAACAATT
1 AATAATTTTACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGTGTAACAATT
* *
44210748 AATAATTTTACTATCAAAATGTTAGATTTTACAAAATATTTTGACTGGTAGTAACAATT
1 AATAATTTTACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGT-GTAACAATT
* * ** * ** **
44210807 AATAATTTGA-T-ATAATTTGATA-ATTTTACTAACAAT-TAAT-AC-AAT-TAACAATT
1 AATAATTTTACTAACAAAATGTTAGATTTTAC-AA-AATGTTTTGACTGGTGTAACAATT
*
44210860 AATAATTTTACTATCAAAATGTTAGATTTTACAAAATGTTTTGACTGGT
1 AATAATTTTACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGT
44210909 ACAAAAAAAT
Statistics
Matches: 130, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
53 17 0.13
54 4 0.03
55 11 0.08
56 18 0.14
57 11 0.08
58 51 0.39
59 18 0.14
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (58 bp):
AATAATTTTACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGTGTAACAATT
Found at i:44210754 original size:160 final size:164
Alignment explanation
Indices: 44210580--44210908 Score: 513
Period size: 170 Copynumber: 2.0 Consensus size: 164
44210570 TTAGTACAAT
* *
44210580 TAACAATTAATAATTTTACTAACAAAATGTTAGATTTTACAAAATGTTTTGAGTGGTAGTAAC-A
1 TAACAATTAATAATTTTACTAACAAAATGTTAGATTTTACAAAATATTTTGACTGGTAGTAACAA
44210644 A-TT-A-ATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAACA
66 ATTTGATATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAACA
44210706 AAATGTTAGATTTTACAAAATGTTTTGACTGGTG
131 AAATGTTAGATTTTACAAAATGTTTTGACTGGTG
*
44210740 TAACAATTAATAATTTTACTATCAAAATGTTAGATTTTACAAAATATTTTGACTGGTAGTAACAA
1 TAACAATTAATAATTTTACTAACAAAATGTTAGATTTTACAAAATATTTTGACTGGTAGTAAC--
* **
44210805 TTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTA
64 ---A-AATTTGATATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTA
*
44210870 CTATCAAAATGTTAGATTTTACAAAATGTTTTGACTGGT
125 CTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGT
44210909 ACAAAAAAAT
Statistics
Matches: 152, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
160 60 0.39
167 2 0.01
168 2 0.01
169 1 0.01
170 87 0.57
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (164 bp):
TAACAATTAATAATTTTACTAACAAAATGTTAGATTTTACAAAATATTTTGACTGGTAGTAACAA
ATTTGATATAATTTGATAATTTTACTAACAACTAATACAATTAACAAGCAATAATTTTACTAACA
AAATGTTAGATTTTACAAAATGTTTTGACTGGTG
Found at i:44210955 original size:22 final size:22
Alignment explanation
Indices: 44210945--44211004 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
44210935 TTAATAACAA
**
44210945 TTAATTTTAATAAAA-ATTGTTT
1 TTAATTTTAATAAAATA-TAATT
44210967 TTAATTTTAATAAAATATAATT
1 TTAATTTTAATAAAATATAATT
44210989 TTAATTTTAATCAAAA
1 TTAATTTTAAT-AAAA
44211005 AACGGGCCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 29 0.85
23 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAATATAATT
Found at i:44210971 original size:16 final size:16
Alignment explanation
Indices: 44210930--44210962 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44210920 TAATTTGATA
*
44210930 TAATTTTAATAACAAT
1 TAATTTTAATAAAAAT
44210946 TAATTTTAATAAAAAT
1 TAATTTTAATAAAAAT
44210962 T
1 T
44210963 GTTTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTTTAATAAAAAT
Found at i:44213215 original size:19 final size:20
Alignment explanation
Indices: 44213191--44213233 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44213181 TTCGACCAGT
44213191 TTTTGG-GTCTC-AGCCTCAA
1 TTTTGGAGTCTCGAGCC-CAA
*
44213210 TTTTGGATTCTCGAGCCCAA
1 TTTTGGAGTCTCGAGCCCAA
44213230 TTTT
1 TTTT
44213234 CAAGTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (20 bp):
TTTTGGAGTCTCGAGCCCAA
Found at i:44213328 original size:19 final size:19
Alignment explanation
Indices: 44213296--44213334 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44213286 AAACATCGTG
*
44213296 TTAATTTTAATTTATTTGA
1 TTAATTTTAATTTACTTGA
44213315 TTAA-TTTAATTTTACTTGA
1 TTAATTTTAA-TTTACTTGA
44213334 T
1 T
44213335 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
TTAATTTTAATTTACTTGA
Found at i:44214107 original size:5 final size:5
Alignment explanation
Indices: 44214089--44214132 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
44214079 AATAAATAAG
*
44214089 TATTA TATTA -ATTA TATTA TTATAA TATTA TATTA TATATA TAT
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TAT-TA TAT
44214133 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 4 0.12
5 21 0.62
6 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:44215157 original size:47 final size:46
Alignment explanation
Indices: 44215086--44215210 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 46
44215076 GAACTCTAGC
*
44215086 GCGCTCTCTGATATTTAGCACGTCAGTGCTCTCTATTTAGCAGATCT
1 GCGCTCTCTGATA-TTAGCACGTCAGTGCTCTCTATTTAGCACATCT
* *
44215133 GTGCTCTCTGATTATTAGCACGTCAGTGCTCTCTGTTTAGCACATCT
1 GCGCTCTCTGA-TATTAGCACGTCAGTGCTCTCTATTTAGCACATCT
* * *
44215180 GCGCTCTTTG-CA-TAGCACTTCAGTGCTCTCT
1 GCGCTCTCTGATATTAGCACGTCAGTGCTCTCT
44215211 GTTCATTAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 18 0.26
45 1 0.01
47 49 0.70
48 2 0.03
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (46 bp):
GCGCTCTCTGATATTAGCACGTCAGTGCTCTCTATTTAGCACATCT
Found at i:44215161 original size:25 final size:24
Alignment explanation
Indices: 44215088--44215211 Score: 109
Period size: 22 Copynumber: 5.3 Consensus size: 24
44215078 ACTCTAGCGC
44215088 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTGATA-TTAGCACGTCAGT
*
44215113 GCTCTCT-AT-TTAGCA-GATCTGT
1 GCTCTCTGATATTAGCACG-TCAGT
44215135 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGA-TATTAGCACGTCAGT
* * *
44215160 GCTCTCTG-T-TTAGCACATCTGC
1 GCTCTCTGATATTAGCACGTCAGT
* * *
44215182 GCTCTTTG-CA-TAGCACTTCAGT
1 GCTCTCTGATATTAGCACGTCAGT
44215204 GCTCTCTG
1 GCTCTCTG
44215212 TTCATTAGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.01
22 50 0.61
23 2 0.02
24 3 0.04
25 25 0.30
26 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTCAGT
Found at i:44217295 original size:19 final size:20
Alignment explanation
Indices: 44217255--44217297 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
44217245 ATTACAAAGT
*
44217255 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTATAAA
*
44217275 AATTCAAAAT-CTTTATAAA
1 AATTCAAAATAATTTATAAA
44217294 AATT
1 AATT
44217298 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:44218257 original size:22 final size:20
Alignment explanation
Indices: 44218231--44218271 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
44218221 TTAAAATCTT
*
44218231 ATTTAAGTAATTATTATTTTAA
1 ATTTAAATAA-TA-TATTTTAA
44218253 ATTTAAATAATATATTTTA
1 ATTTAAATAATATATTTTA
44218272 GGGATTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTAAATAATATATTTTAA
Found at i:44220278 original size:50 final size:50
Alignment explanation
Indices: 44220211--44220305 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
44220201 ACGGTATTAC
* *
44220211 AGGAGGTATGGATGGAGAAGACCTTATCCGCCTTGTGGAAAAGGTATTGT
1 AGGAGGTATGGATGGAGAAGACCTCATCCGCCTTGTGAAAAAGGTATTGT
*
44220261 AGGAGGTATTGATGGAGAAGACCTCATCCGCCTTGTGAAAAAGGT
1 AGGAGGTATGGATGGAGAAGACCTCATCCGCCTTGTGAAAAAGGT
44220306 TAGAAACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (50 bp):
AGGAGGTATGGATGGAGAAGACCTCATCCGCCTTGTGAAAAAGGTATTGT
Found at i:44227614 original size:21 final size:21
Alignment explanation
Indices: 44227580--44227619 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44227570 TGATACTAGT
**
44227580 TACTATAGTGGTAAAATTACA
1 TACTATAGCAGTAAAATTACA
*
44227601 TACTATAGCAGTAAGATTA
1 TACTATAGCAGTAAAATTA
44227620 AAATCCGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
TACTATAGCAGTAAAATTACA
Found at i:44234020 original size:11 final size:11
Alignment explanation
Indices: 44234006--44234056 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
44233996 CTCACAATAT
44234006 TCTCTCAAAAA
1 TCTCTCAAAAA
44234017 TCTCTC-AAAA
1 TCTCTCAAAAA
*
44234027 T-TCTCAAACCA
1 TCTCTCAAA-AA
*
44234038 -CTCTCAAAAT
1 TCTCTCAAAAA
44234048 TCTCTCAAA
1 TCTCTCAAA
44234057 TTCTCTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.12
10 7 0.21
11 22 0.67
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.29
Consensus pattern (11 bp):
TCTCTCAAAAA
Found at i:44234053 original size:22 final size:22
Alignment explanation
Indices: 44233995--44234056 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
44233985 CTTACTCATT
* *
44233995 TCTCACAATATTCTCTCAAAAA
1 TCTCTCAAAATTCTCTCAAAAA
*
44234017 TCTCTCAAAA-T-TCTCAAACCA
1 TCTCTCAAAATTCTCTCAAA-AA
44234038 -CTCTCAAAATTCTCTCAAA
1 TCTCTCAAAATTCTCTCAAA
44234057 TTCTCTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 16 0.47
21 3 0.09
22 15 0.44
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.31
Consensus pattern (22 bp):
TCTCTCAAAATTCTCTCAAAAA
Found at i:44237940 original size:15 final size:15
Alignment explanation
Indices: 44237922--44237955 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
44237912 ATGGTTGCAT
44237922 CACCGATGCCCACAC
1 CACCGATGCCCACAC
*
44237937 CACCGATGCCCACAT
1 CACCGATGCCCACAC
44237952 CACC
1 CACC
44237956 TACCAGTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.53, G:0.12, T:0.09
Consensus pattern (15 bp):
CACCGATGCCCACAC
Found at i:44240192 original size:30 final size:30
Alignment explanation
Indices: 44240153--44240220 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
44240143 TTTTATAAAT
* * *
44240153 AATTAATATTT-ATTGCTTAAAAATATTTAC
1 AATTTATATTTCATTGATT-AAAATATTAAC
*
44240183 AATTTATATTTCATTTATTAAAATATTAAC
1 AATTTATATTTCATTGATTAAAATATTAAC
*
44240213 AAGTTATA
1 AATTTATA
44240221 ATAAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (30 bp):
AATTTATATTTCATTGATTAAAATATTAAC
Found at i:44240420 original size:26 final size:26
Alignment explanation
Indices: 44240381--44240444 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
44240371 TTTAAACCAA
*
44240381 ACTTTTCAAAAGTACTTCTCAAAATC
1 ACTTTTCAAAAGTACTTCTCAAAAGC
* * * *
44240407 ACTTTTCTACAGTACTTTTTAAAAGC
1 ACTTTTCAAAAGTACTTCTCAAAAGC
44240433 ACTTTTCAAAAG
1 ACTTTTCAAAAG
44240445 CAATGAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (26 bp):
ACTTTTCAAAAGTACTTCTCAAAAGC
Found at i:44240445 original size:13 final size:13
Alignment explanation
Indices: 44240381--44240446 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
44240371 TTTAAACCAA
*
44240381 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
* *
44240394 ACTTCTCAAAATC
1 ACTTTTCAAAAGC
* * *
44240407 ACTTTTCTACAGT
1 ACTTTTCAAAAGC
*
44240420 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
44240433 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
44240446 A
1 A
44240447 ATGAAGAATT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:44241825 original size:24 final size:24
Alignment explanation
Indices: 44241789--44241837 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
44241779 AGTATGTAGC
* *
44241789 ATCATTCACAATAGTTGAATTTAT
1 ATCATTCAAAATAGTGGAATTTAT
44241813 ATCATTCAAAATAGTGGAATTTAT
1 ATCATTCAAAATAGTGGAATTTAT
44241837 A
1 A
44241838 GCCCAACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (24 bp):
ATCATTCAAAATAGTGGAATTTAT
Found at i:44242508 original size:36 final size:36
Alignment explanation
Indices: 44242465--44242536 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
44242455 TTAATTGGTC
*
44242465 ATTGTGAATCCATTGAATATATAAATTAAATATATT
1 ATTGTGAATCCATTAAATATATAAATTAAATATATT
44242501 ATTGTGAATCCATTAAATATATAAATTAAATATATT
1 ATTGTGAATCCATTAAATATATAAATTAAATATATT
44242537 TTCTCATAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (36 bp):
ATTGTGAATCCATTAAATATATAAATTAAATATATT
Found at i:44247853 original size:24 final size:24
Alignment explanation
Indices: 44247826--44247898 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
44247816 AAATAAACTC
44247826 AACTAATTTCATGGAAAAAAATGT
1 AACTAATTTCATGGAAAAAAATGT
44247850 AACTAATTTCATGGAAAAAAATGT
1 AACTAATTTCATGGAAAAAAATGT
*
44247874 AACTAATTTCAAGGAAAAAAATGT
1 AACTAATTTCATGGAAAAAAATGT
44247898 A
1 A
44247899 TCATTTTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.27
Consensus pattern (24 bp):
AACTAATTTCATGGAAAAAAATGT
Found at i:44255782 original size:21 final size:23
Alignment explanation
Indices: 44255741--44255785 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44255731 AATTTATATA
44255741 ATTTTTTAAAATATAACTTAATT
1 ATTTTTTAAAATATAACTTAATT
44255764 ATTTTATT-AAAT-TAA-TTAATT
1 ATTTT-TTAAAATATAACTTAATT
44255785 A
1 A
44255786 AAATTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
22 3 0.14
23 9 0.43
24 2 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTTTAAAATATAACTTAATT
Found at i:44260541 original size:5 final size:5
Alignment explanation
Indices: 44260528--44260565 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
44260518 TGCATTACAA
*
44260528 AAAAT AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
44260566 AACAACATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:44273141 original size:9 final size:9
Alignment explanation
Indices: 44273112--44273154 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
44273102 CAGATTCAAT
*
44273112 GAAAAAAAG
1 GAAAAAAAA
*
44273121 GAAAAAAGA
1 GAAAAAAAA
44273130 GAAAAAAAA
1 GAAAAAAAA
44273139 GAACAAAAAA
1 GAA-AAAAAA
*
44273149 CAAAAA
1 GAAAAA
44273155 GAAATAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:44273830 original size:42 final size:42
Alignment explanation
Indices: 44273771--44273871 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
44273761 CCCGAAAAGG
*
44273771 GCAGCTCAAATTTTGATCAG-GATAGGGCTGGAAGTGATCAGA
1 GCAGCTCAAATTTTGATCAGAG-TAGGGCTGGAAGTGATCAAA
44273813 GCAGCTCAAATTTTGATCAGAGTAGGGCTGGAAGTGATCAAA
1 GCAGCTCAAATTTTGATCAGAGTAGGGCTGGAAGTGATCAAA
** *
44273855 GTGGCTCAGATTTTGAT
1 GCAGCTCAAATTTTGAT
44273872 TGGAATGGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (42 bp):
GCAGCTCAAATTTTGATCAGAGTAGGGCTGGAAGTGATCAAA
Found at i:44273850 original size:21 final size:21
Alignment explanation
Indices: 44273784--44273852 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
44273774 GCTCAAATTT
44273784 TGATCAG-GATAGGGCTGGAAG
1 TGATCAGAG-TAGGGCTGGAAG
* ** *
44273805 TGATCAGAGCA--GCTCAAATTT
1 TGATCAGAGTAGGGCTGGAA--G
44273826 TGATCAGAGTAGGGCTGGAAG
1 TGATCAGAGTAGGGCTGGAAG
44273847 TGATCA
1 TGATCA
44273853 AAGTGGCTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 5 0.14
21 24 0.69
22 1 0.03
23 5 0.14
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (21 bp):
TGATCAGAGTAGGGCTGGAAG
Found at i:44275241 original size:50 final size:50
Alignment explanation
Indices: 44275181--44275605 Score: 248
Period size: 50 Copynumber: 8.5 Consensus size: 50
44275171 TTAAAAAGAA
*
44275181 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGCAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCAGAT
* * * * * *
44275231 TGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGCGCAAT-TA-CAAGGAT
1 TGAAGCCACAACGGCAGATCTTA-CTTCCCTGACGGTGCAATGGAGC-A-GAT
* * * *
44275281 TGAAGCCACAGCGGCAGATTTTACTTTCCTGACGGTGCAGTGGAGCAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCAGAT
* ** *** * * * *
44275331 TGAAGTCACAACGGTGGATCTGGTTTCCCCGACAGCGCAAT-TA-CAAAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGC--AGAT
* * * *
44275381 TGAAGCCACTATGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCAGAT
* * * *** * * * ** ** *
44275431 TGAAGTCACAATGGTAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGAC
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCAGAT
* * *
44275481 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGGAGCATGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCA-GAT
** * * *** * * * ** **
44275532 TGAAATCATAACGGCGGATCTGGTTTCCTTGACAGCGCAATTAAAAAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCAGAT
*
44275582 TGAAGCCACAACGGCGGATCTTAC
1 TGAAGCCACAACGGCAGATCTTAC
44275606 CTCCTTAGCT
Statistics
Matches: 263, Mismatches: 101, Indels: 22
0.68 0.26 0.06
Matches are distributed among these distances:
48 2 0.01
49 5 0.02
50 217 0.83
51 37 0.14
52 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (50 bp):
TGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAATGGAGCAGAT
Found at i:44275305 original size:100 final size:100
Alignment explanation
Indices: 44275170--44275636 Score: 655
Period size: 100 Copynumber: 4.7 Consensus size: 100
44275160 TTTGGCATTG
* *
44275170 ATTAAAAAGAATGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAGCAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
*
44275235 GTCACAACGGCAGATCTAGTTTCCCCGACAGCGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* * * * * *
44275270 ATTACAAGGATTGAAGCCACAGCGGCAGATTTTACTTTCCTGACGGTGCAGTGGAGCAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
**
44275335 GTCACAACGGTGGATCTGGTTTCCCCGACAGCGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* * *
44275370 ATTACAAAGATTGAAGCCACTATGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
* *
44275435 GTCACAATGGTAGATCTGGTTTCCCCGACAGCGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* *
44275470 ATTAAAAAGACTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGGAGCATGATTGA
1 ATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCA-GATTGA
* * * **
44275535 AATCATAACGGCGGATCTGGTTTCCTTGACAGCGCA
65 AGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* * * * * * *
44275571 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTAGCTGTGCAGTTGAACAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
44275636 G
66 G
44275637 CTACGACGGC
Statistics
Matches: 324, Mismatches: 42, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
100 240 0.74
101 84 0.26
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (100 bp):
ATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
Found at i:44275611 original size:50 final size:50
Alignment explanation
Indices: 44275170--44275665 Score: 170
Period size: 50 Copynumber: 9.9 Consensus size: 50
44275160 TTTGGCATTG
* * * * * *
44275170 ATTAAAAAGAATGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
** ** * * * **
44275220 ATGGAGCAGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGCGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCTTGACAGCGCA
* * * * * * *
44275270 ATTACAAGGATTGAAGCCACAGCGGCAGATTTTACTTTCC-TGACGGTGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC-TTCCTTGACAGCGCA
* ** ** * * *** **
44275320 GTGGAGCAGATTGAAGTCACAACGGTGGATCTGGTTTCCCCGACAGCGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
* * * * * * * *
44275370 ATTACAAAGATTGAAGCCACTATGGCAGATCTTACTTCCCTGGCGGTGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
* ** ** * * ** *** **
44275420 GTGGAGCAGATTGAAGTCACAATGGTAGATCTGGTTTCCCCGACAGCGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
* * * * * * *
44275470 ATTAAAAAGACTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
* * ** * ** * ***
44275520 GTGGAGCATGATTGAAATCATAACGGCGGATCTGGTTTCCTTGACAGCGCA
1 AT-TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
* * *
44275571 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTT-AGCTGTGCA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGA-CAGCGCA
* * * * * * **
44275621 GTTGAACAGATTGAAGCTACGACGGCGGATTTTGTTTCCTTGACA
1 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACA
44275666 TTGTAATTGG
Statistics
Matches: 304, Mismatches: 135, Indels: 14
0.67 0.30 0.03
Matches are distributed among these distances:
49 7 0.02
50 258 0.85
51 39 0.13
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
ATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGACAGCGCA
Found at i:44280058 original size:27 final size:27
Alignment explanation
Indices: 44279966--44280063 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
44279956 TTTTATATCA
* * *
44279966 CCAC-AAGTCTTCTATTTCATAGATTA
1 CCACAAAGGCTTCCATTTCATAGATTT
* *
44279992 CCACAAAGGCTTTCTTTTCATAGATTGT
1 CCACAAAGGCTTCCATTTCATAGATT-T
* *
44280020 -CACAAAGACTTCCATTTCATGGATTT
1 CCACAAAGGCTTCCATTTCATAGATTT
44280046 CCACAAAGGCTTCCATTT
1 CCACAAAGGCTTCCATTT
44280064 TTTGGCGTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (27 bp):
CCACAAAGGCTTCCATTTCATAGATTT
Found at i:44282430 original size:29 final size:29
Alignment explanation
Indices: 44282370--44282433 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
44282360 CCAAAAATAT
* *
44282370 AAAAA-ATAAAAAAATAATTAATTTTAAT
1 AAAAATATAAAAAAATAATTAATATTAAA
*
44282398 AAAAATATAAAAAAATTATTAA-ATTAGAA
1 AAAAATATAAAAAAATAATTAATATTA-AA
44282427 AAAAATA
1 AAAAATA
44282434 AATTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAAATATAAAAAAATAATTAATATTAAA
Found at i:44282514 original size:25 final size:26
Alignment explanation
Indices: 44282480--44282530 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44282470 AAATGCATCA
44282480 AAAAAAAT-CCTTTAACCATTAATTT
1 AAAAAAATCCCTTTAACCATTAATTT
44282505 AAAAAAATCCCTTTAACCATTAATTT
1 AAAAAAATCCCTTTAACCATTAATTT
44282531 TAACCGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAAAAATCCCTTTAACCATTAATTT
Found at i:44283547 original size:165 final size:166
Alignment explanation
Indices: 44283355--44283687 Score: 659
Period size: 165 Copynumber: 2.0 Consensus size: 166
44283345 GAATGATAAA
44283355 TAATATAGAATTTTTATTTTTAATATTTAATTAATTTTATTTTAAAATATAAAAATGGATAAGGT
1 TAATATAGAATTTTTATTTTTAATATTTAATTAATTTTATTTTAAAATATAAAAATGGATAAGGT
44283420 TTAAGATCAAAAAAGCCTTTAGTAAAAAAATAAAAATGCAATTAGGTTATTAGGAAAAAAAATTA
66 TTAAGATCAAAAAAGCCTTTAGTAAAAAAATAAAAATGCAATTAGGTTATTAGGAAAAAAAATTA
44283485 TTTTATTGAACTCTTAATGACCCTCAAAAAATCAAT
131 TTTTATTGAACTCTTAATGACCCTCAAAAAATCAAT
44283521 TAATATAGAA-TTTTATTTTTAATATTTAATTAATTTTATTTTAAAATATAAAAATGGATAAGGT
1 TAATATAGAATTTTTATTTTTAATATTTAATTAATTTTATTTTAAAATATAAAAATGGATAAGGT
44283585 TTAAGATCAAAAAAGCCTTTAGTAAAAAAATAAAAATGCAATTAGGTTATTAGGAAAAAAAATTA
66 TTAAGATCAAAAAAGCCTTTAGTAAAAAAATAAAAATGCAATTAGGTTATTAGGAAAAAAAATTA
44283650 TTTTATTGAACTCTTAATGACCCTCAAAAAATCAAT
131 TTTTATTGAACTCTTAATGACCCTCAAAAAATCAAT
44283686 TA
1 TA
44283688 GGTCCTTTTG
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 157 0.94
166 10 0.06
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (166 bp):
TAATATAGAATTTTTATTTTTAATATTTAATTAATTTTATTTTAAAATATAAAAATGGATAAGGT
TTAAGATCAAAAAAGCCTTTAGTAAAAAAATAAAAATGCAATTAGGTTATTAGGAAAAAAAATTA
TTTTATTGAACTCTTAATGACCCTCAAAAAATCAAT
Found at i:44285014 original size:102 final size:103
Alignment explanation
Indices: 44284890--44285085 Score: 376
Period size: 102 Copynumber: 1.9 Consensus size: 103
44284880 GGGATCTGAA
44284890 TGCCCTTTTAGCTATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAAT
1 TGCCCTTTTA-CTATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAAT
44284955 TTTATAAGTATTAAATTTATATTATAAAATTGTTTAATG
65 TTTATAAGTATTAAATTTATATTATAAAATTGTTTAATG
44284994 TGCCCTTTTA-TATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATT
1 TGCCCTTTTACTATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATT
44285058 TTATAAGTATTAAATTTATATTATAAAA
66 TTATAAGTATTAAATTTATATTATAAAA
44285086 ATATTTGATA
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 82 0.89
104 10 0.11
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.45
Consensus pattern (103 bp):
TGCCCTTTTACTATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATT
TTATAAGTATTAAATTTATATTATAAAATTGTTTAATG
Found at i:44285109 original size:102 final size:102
Alignment explanation
Indices: 44284902--44285109 Score: 317
Period size: 102 Copynumber: 2.0 Consensus size: 102
44284892 CCCTTTTAGC
44284902 TATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATTTTATAAGTATT
1 TATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATTTTATAAGTATT
* * *** ** **
44284967 AAATTTATATTATAAAATTGTTTAATGTGCCCTTTTA
66 AAATTTATATTATAAAAATATTTAATAAACCAGTAAA
44285004 TATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATTTTATAAGTATT
1 TATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATTTTATAAGTATT
* *
44285069 AAATTTATATTATAAAAATATTTGATAAACTAGTAAA
66 AAATTTATATTATAAAAATATTTAATAAACCAGTAAA
44285106 TATT
1 TATT
44285110 AAATAATGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (102 bp):
TATTGGTGAAGTATTAATGTGTGTTTGATAAATTAAAAAATTAAGTATTAAATTTTATAAGTATT
AAATTTATATTATAAAAATATTTAATAAACCAGTAAA
Found at i:44286939 original size:16 final size:16
Alignment explanation
Indices: 44286918--44287000 Score: 68
Period size: 16 Copynumber: 5.2 Consensus size: 16
44286908 ATGAATATAG
44286918 TAATTATAATAAAATC
1 TAATTATAATAAAATC
44286934 TAATTA-ACATAAAAATC
1 TAATTATA-AT-AAAATC
*
44286951 --CTTATAATAAAATC
1 TAATTATAATAAAATC
44286965 TAATTA-ACATAAAAT-
1 TAATTATA-ATAAAATC
**
44286980 TCCTTATAATAAAAATC
1 TAATTATAAT-AAAATC
44286997 TAAT
1 TAAT
44287001 AAGCATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
14 6 0.12
15 13 0.25
16 25 0.48
17 8 0.15
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTATAATAAAATC
Found at i:44286956 original size:31 final size:31
Alignment explanation
Indices: 44286921--44287008 Score: 142
Period size: 31 Copynumber: 2.8 Consensus size: 31
44286911 AATATAGTAA
44286921 TTATAATAAAATCTAATTAACATAAAAATCC
1 TTATAATAAAATCTAATTAACATAAAAATCC
*
44286952 TTATAATAAAATCTAATTAACATAAAATTCC
1 TTATAATAAAATCTAATTAACATAAAAATCC
44286983 TTATAATAAAAATCTAA-TAAGCATAA
1 TTATAAT-AAAATCTAATTAA-CATAA
44287009 TTTTTAAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
31 40 0.74
32 14 0.26
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (31 bp):
TTATAATAAAATCTAATTAACATAAAAATCC
Found at i:44286962 original size:15 final size:15
Alignment explanation
Indices: 44286942--44286996 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
44286932 TCTAATTAAC
44286942 ATAAAAATCCTTATA
1 ATAAAAATCCTTATA
*
44286957 AT-AAAAT-CTAATTAA
1 ATAAAAATCCTTA-T-A
*
44286972 CATAAAATTCCTTATA
1 -ATAAAAATCCTTATA
44286988 ATAAAAATC
1 ATAAAAATC
44286997 TAATAAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
13 3 0.10
14 6 0.19
15 11 0.35
16 3 0.10
17 5 0.16
18 3 0.10
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAAATCCTTATA
Found at i:44290634 original size:28 final size:29
Alignment explanation
Indices: 44290582--44290637 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
44290572 ATTAAAGACA
*
44290582 AATTAAAATAAATTTAGTTTCCTAAAAAC
1 AATTAAAATAAATTCAGTTTCCTAAAAAC
44290611 AATTAAAA-AAATTCAGCTTT-CTAAAAA
1 AATTAAAATAAATTCAG-TTTCCTAAAAA
44290638 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (29 bp):
AATTAAAATAAATTCAGTTTCCTAAAAAC
Found at i:44291940 original size:41 final size:42
Alignment explanation
Indices: 44291884--44291997 Score: 169
Period size: 41 Copynumber: 2.7 Consensus size: 42
44291874 ATTTACAACC
*
44291884 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT-A-
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-TGAG
44291925 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGAG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGAG
* * *
44291967 AAAAACGCCACTGAAGAACATGGTCTTTAGC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGC
44291998 AGTGTTTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
40 1 0.01
41 38 0.57
42 28 0.42
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGAG
Found at i:44299027 original size:16 final size:17
Alignment explanation
Indices: 44298992--44299028 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
44298982 NNNNNNNNNN
44298992 TTTATTTATAAGTAATT
1 TTTATTTATAAGTAATT
44299009 TTTATTT-TAA-TAGATT
1 TTTATTTATAAGTA-ATT
44299025 TTTA
1 TTTA
44299029 AATACTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 10 0.53
17 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTATTTATAAGTAATT
Found at i:44300689 original size:134 final size:130
Alignment explanation
Indices: 44300482--44300911 Score: 429
Period size: 133 Copynumber: 3.2 Consensus size: 130
44300472 AAACGTTTCT
* * * * *
44300482 GGCGTTTTTTAACATTTCGCAACTAAAG-CATAAAAAGGAAACAACAAAACGGTATCGTTTTGCT
1 GGCGTTTTTTAA-AATGCGCCACTAAAGAAAT-AAAATGAAACAACAAAACGGTA-CGTTTTGCT
* * *
44300546 CAAAATTTTTCCTCAAATTAGATTTCTTTACCGGCGTTTCTACAATAACACCACTATATCCCAAT
63 CAAATTTTTTCCTCAAATTAGATTTCTTTACCGGCGTTTCT-CAA-AACGCCGCTATAT-CCAAT
44300611 ATTTGC
125 ATTTGC
* * * *
44300617 GGCGTTTTTTACAATGCGCCACTAAGGAAATAAAATGAAGCAATAAAACGGTAGCGTTTTG-TCC
1 GGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTA-CGTTTTGCT-C
* * * * * *
44300681 AAATTTTTTCCTCAAATTAGATATCTTTACTGGCGTTTCCCTGAAAACGCCGCTA-ATGCATTCT
64 AAATTTTTTCCTCAAATTAGATTTCTTTACCGGCGTTT--CTCAAAACGCCGCTATATCCAATAT
*
44300745 TGTCC
127 T-TGC
*
44300750 GGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGTTACTGTTTTGCTCA
1 GGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTAC-GTTTTGCTCA
* * *
44300815 GATTTTTTCCTCAAATTCG-TTATCGTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCCAATT
65 AATTTTTTCCTCAAATTAGATT-TCTTTACCGGCGTTTCTC--AAAACGCCGCTATA-TCCAA-T
*
44300879 TTTTGC
125 ATTTGC
**
44300885 GGCGTTTTTGGGAAA-GCGCCACTAAAG
1 GGCGTTTTT-TAAAATGCGCCACTAAAG
44300912 TCATAAAGTG
Statistics
Matches: 244, Mismatches: 37, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
131 2 0.01
132 7 0.03
133 103 0.42
134 83 0.34
135 41 0.17
136 8 0.03
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (130 bp):
GGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACGTTTTGCTCAA
ATTTTTTCCTCAAATTAGATTTCTTTACCGGCGTTTCTCAAAACGCCGCTATATCCAATATTTGC
Found at i:44302980 original size:241 final size:242
Alignment explanation
Indices: 44302546--44303028 Score: 959
Period size: 241 Copynumber: 2.0 Consensus size: 242
44302536 ATTAAATTAA
44302546 TTATGTGATATTATTAAATGATCTTTTATCTTTAATTAATTAAATAAATATGAGATATATAATAA
1 TTATGTGATATTATTAAATGATCTTTTATCTTTAATTAATTAAATAAATATGAGATATATAATAA
44302611 ATAAAATAGTTTAATATTTATAGATAATTGAAATGAAAAATTTATATTTCATAAGAGCTCTCTTA
66 ATAAAATAGTTTAATATTTATAGATAATTGAAATGAAAAATTTATATTTCATAAGAGCTCTCTTA
44302676 TACTCAAGTAATTGACAATATAAAAAGGGGTCATCTTAAATTAATTTTACACGTTCACAATAAAT
131 TACTCAAGTAATTGACAATATAAAAAGGGGTCATCTTAAATTAATTTTACACGTTCACAATAAAT
44302741 CTCTAAAGATTTCGAAGAATCCGAAGAAATTTTGAAGGACACCATAT
196 CTCTAAAGATTTCGAAGAATCCGAAGAAATTTTGAAGGACACCATAT
44302788 TTATGTGATA-TATTAAATGATCTTTTATCTTTAATTAATTAAATAAATATGAGATATATAATAA
1 TTATGTGATATTATTAAATGATCTTTTATCTTTAATTAATTAAATAAATATGAGATATATAATAA
44302852 ATAAAATAGTTTAATATTTATAGATAATTGAAATGAAAAATTTATATTTCATAAGAGCTCTCTTA
66 ATAAAATAGTTTAATATTTATAGATAATTGAAATGAAAAATTTATATTTCATAAGAGCTCTCTTA
44302917 TACTCAAGTAATTGACAATATAAAAAGGGGTCATCTTAAATTAATTTTACACGTTCACAATAAAT
131 TACTCAAGTAATTGACAATATAAAAAGGGGTCATCTTAAATTAATTTTACACGTTCACAATAAAT
44302982 CTCTAAAGATTTCGAAGAATCCGAAGAAATTTTGAAGGACACCATAT
196 CTCTAAAGATTTCGAAGAATCCGAAGAAATTTTGAAGGACACCATAT
44303029 CAATTTGAAG
Statistics
Matches: 241, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
241 231 0.96
242 10 0.04
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (242 bp):
TTATGTGATATTATTAAATGATCTTTTATCTTTAATTAATTAAATAAATATGAGATATATAATAA
ATAAAATAGTTTAATATTTATAGATAATTGAAATGAAAAATTTATATTTCATAAGAGCTCTCTTA
TACTCAAGTAATTGACAATATAAAAAGGGGTCATCTTAAATTAATTTTACACGTTCACAATAAAT
CTCTAAAGATTTCGAAGAATCCGAAGAAATTTTGAAGGACACCATAT
Found at i:44310917 original size:26 final size:24
Alignment explanation
Indices: 44310888--44310936 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
44310878 ATAATGAAAT
44310888 ATTATTTATAGATAAATATATTTATA
1 ATTATTT-TAGATAAATA-ATTTATA
* *
44310914 ATTATTTTATATTAATAATTTAT
1 ATTATTTTAGATAAATAATTTAT
44310937 TATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 8 0.38
26 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTATTTTAGATAAATAATTTATA
Found at i:44311823 original size:10 final size:8
Alignment explanation
Indices: 44311793--44311833 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
44311783 ATATTTATTA
*
44311793 TAATATAA
1 TAATATAT
44311801 TAA-ATAT
1 TAATATAT
44311808 TAATATAT
1 TAATATAT
44311816 TAATATAT
1 TAATATAT
44311824 TAATATAT
1 TAATATAT
44311832 TA
1 TA
44311834 TAACTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TAATATAT
Found at i:44327125 original size:15 final size:17
Alignment explanation
Indices: 44327099--44327131 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44327089 TTTAAATTTT
44327099 AAATATATTTATT-TAA
1 AAATATATTTATTATAA
44327115 AAATATA-TTATTATAA
1 AAATATATTTATTATAA
44327131 A
1 A
44327132 TTAATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATATTTATTATAA
Found at i:44327548 original size:17 final size:17
Alignment explanation
Indices: 44327526--44327559 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44327516 TATTTTTATT
44327526 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
*
44327543 TTTTTATTTTTAAAATA
1 TTTTTAATTTTAAAATA
44327560 AATTTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:44329190 original size:17 final size:17
Alignment explanation
Indices: 44329168--44329206 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
44329158 TTTAAAATGC
*
44329168 TTTATTTGTTTT-TTAAT
1 TTTATTT-TTTTATCAAT
44329185 TTTATTTTTTTATCAAT
1 TTTATTTTTTTATCAAT
44329202 TTTAT
1 TTTAT
44329207 CTACCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTTTTTTATCAAT
Found at i:44330793 original size:25 final size:29
Alignment explanation
Indices: 44330758--44330843 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 29
44330748 CATATTTACG
44330758 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
44330784 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
*
44330812 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 -GAAAGTCAAAGATATGGGTATC-AAATATT
44330843 G
1 G
44330844 GCATAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
25 21 0.40
26 2 0.04
27 1 0.02
28 1 0.02
30 22 0.42
31 6 0.11
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:44330820 original size:30 final size:30
Alignment explanation
Indices: 44330757--44330844 Score: 123
Period size: 25 Copynumber: 3.1 Consensus size: 30
44330747 CCATATTTAC
44330757 GGAAAGTCAAAGATATGGGTATC-AA-A-T
1 GGAAAGTCAAAGATATGGGTATCAAATATT
44330784 --AAAGTCAAAGATATGGGTATCAAATATT
1 GGAAAGTCAAAGATATGGGTATCAAATATT
*
44330812 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 GGAAAGTCAAAGATATGGGTATC-AAATATT
44330843 GG
1 GG
44330845 CATAAGAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
25 21 0.39
26 2 0.04
27 1 0.02
28 1 0.02
30 21 0.39
31 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (30 bp):
GGAAAGTCAAAGATATGGGTATCAAATATT
Found at i:44335354 original size:15 final size:16
Alignment explanation
Indices: 44335312--44335357 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
44335302 CATCCATATT
44335312 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
44335328 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
44335343 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
44335358 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.24
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:44337239 original size:55 final size:55
Alignment explanation
Indices: 44337170--44337386 Score: 310
Period size: 55 Copynumber: 3.9 Consensus size: 55
44337160 ATTTCCCAAA
* * *
44337170 AATATTGCTTCTTTTGGATATATTGTTTTTATGTTTAAATCGATTGTTATGTTGG
1 AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
* * *
44337225 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATCGATTATCATGTTGG
1 AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
* ** * * *
44337280 AATACTGTTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTTATATTAG
1 AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
44337335 AATACTGCTTCTTTTGAAT-TGATTGTTTATATGTTTAAATCGATTGTTATGT
1 AATACTGCTTCTTTTGAATAT-ATTGTTTATATGTTTAAATCGATTGTTATGT
44337387 AGCACGTCTA
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 143 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.51
Consensus pattern (55 bp):
AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
Found at i:44338609 original size:62 final size:62
Alignment explanation
Indices: 44338539--44338662 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
44338529 TAAAATGAGC
*
44338539 ATCATAGTTTGAGAATATTTAGTGTAATTAACTCTTAAAAGTAATACAAACTATAGAAGATT
1 ATCATAGTTTGAGAATATTTACTGTAATTAACTCTTAAAAGTAATACAAACTATAGAAGATT
*
44338601 ATCATAGTTTGAGAATGTTTACTGTAATTAACTCTTAAAAGTAATACAAACTATAGAAGATT
1 ATCATAGTTTGAGAATATTTACTGTAATTAACTCTTAAAAGTAATACAAACTATAGAAGATT
44338663 GTAATTGATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (62 bp):
ATCATAGTTTGAGAATATTTACTGTAATTAACTCTTAAAAGTAATACAAACTATAGAAGATT
Found at i:44344698 original size:30 final size:29
Alignment explanation
Indices: 44344662--44344777 Score: 81
Period size: 30 Copynumber: 3.7 Consensus size: 29
44344652 CTTATGAGGA
44344662 CGTTCAGGTACTTGAGAAGACCTGATATCT
1 CGTTCAGG-ACTTGAGAAGACCTGATATCT
* * *
44344692 CGTTCAGGGGCTTGGGAAGA-CTCAATATCT
1 CGTTCA-GGACTTGAGAAGACCT-GATATCT
*
44344722 CATTCAGGATCTTGGGATTGAGAAGACCTGATATCT
1 CGTTCAGGA-C------TTGAGAAGACCTGATATCT
*
44344758 CGTTCAGGAGCTTGTGAAGA
1 CGTTCAGGA-CTTGAGAAGA
44344778 TCGGGTGTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
29 4 0.06
30 35 0.53
31 2 0.03
36 23 0.35
37 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (29 bp):
CGTTCAGGACTTGAGAAGACCTGATATCT
Found at i:44346144 original size:26 final size:25
Alignment explanation
Indices: 44346109--44346162 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 25
44346099 ACTTTTAAAT
44346109 AAATAGTTAATAGAA-CTAGTTGGTC
1 AAATAGTTAATAGAATC-AGTTGGTC
44346134 AAATAAGTTAATAGAATCAGTTGGTC
1 AAAT-AGTTAATAGAATCAGTTGGTC
44346160 AAA
1 AAA
44346163 CCAGTCACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 4 0.15
26 22 0.81
27 1 0.04
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (25 bp):
AAATAGTTAATAGAATCAGTTGGTC
Found at i:44351535 original size:51 final size:50
Alignment explanation
Indices: 44351410--44351594 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
44351400 AAAGTGATGG
* * * * * *
44351410 TCACGTGTGTTGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGT-AT-GA
*
44351460 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAG-TAT-GA
* *** * *
44351511 TCACTTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGT-ATGA
*
44351562 TCACATATGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
44351595 TGAACTGGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 37 0.33
51 72 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGTATGA
Found at i:44351536 original size:101 final size:102
Alignment explanation
Indices: 44351410--44351594 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
44351400 AAAGTGATGG
* * * *
44351410 TCACGTGTGTTGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGAT-GGTCACATATGTAGT
44351473 ACTATGTGCAGGCTACTATGCGTATCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTATCAGATAGCTTCGA
* * *
44351511 TCACTTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAGTGATGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGATGGTCACATATGTAGTA
44351576 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
44351595 TGAACTGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGATGGTCACATATGTAGTA
CTATGTGCAGGCTACTATGCGTATCAGATAGCTTCGA
Found at i:44351841 original size:16 final size:16
Alignment explanation
Indices: 44351820--44351851 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44351810 TGATTGAAAG
*
44351820 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
44351836 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
44351852 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:44354910 original size:65 final size:65
Alignment explanation
Indices: 44354833--44354979 Score: 215
Period size: 65 Copynumber: 2.3 Consensus size: 65
44354823 AGTTTTTGGA
* * *
44354833 GTTGCGATATTAAATCAGCTAACTCAAATAAAATTTTTCATGATATGAAAT-TGAATAAATTTTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATATGAAATCT-AACAAACTTTA
44354897 G
65 G
* * * *
44354898 GTTGCGATATTAAATCAGCTAACTTAAATTAAATTGTTCATGATTTGAAATCTAACGAACTTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATATGAAATCTAACAAACTTTAG
44354963 GTTGCGATATTAAATCA
1 GTTGCGATATTAAATCA
44354980 ACGAACCTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
65 73 0.99
66 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (65 bp):
GTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATATGAAATCTAACAAACTTTAG
Found at i:44355073 original size:132 final size:132
Alignment explanation
Indices: 44354898--44355838 Score: 994
Period size: 132 Copynumber: 7.1 Consensus size: 132
44354888 TAAATTTTAG
* * * * * * * *
44354898 GTTGCGATATTAAATCAGCTAACTTAAATTAAATTGTTCATGATTTGAAATCTAACGAACTTTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* * *
44354963 GTTGCGATATTAAATCAACGAACCTTGATAATACCAGCTGCGATATTAAATCAATGAGTTGTTCG
66 GTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACGAGTTGTTCG
44355028 GA
131 GA
** * * *
44355030 GTTGTGATCTTAAATCAACAAACTCAATTAAAATTGTTCATGATTTGAAAT-GAAATGAACTTTA
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCG-AATGAACTTTA
* * * * * *
44355094 GGTTGCAAT-TTAAATCAATGAACCTTGATAATTCCAACTGCGATCTTAAATCAATGAGTTGTTT
65 GGTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACGAGTTGTTC
44355158 GGA
130 GGA
* * *
44355161 GTTGCGATATTAAAT-AAGCTAACTTAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTA
1 GTTGCAATCTTAAATCAA-CTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTA
* * * ** * * *
44355225 GGTTGTGATCTTAACTAAAAAAACCTTGATAATACTAG-TGATGATCTTAAATCAATGAGTTGTT
65 GGTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTG-CGATCTTAAATCAACGAGTTGTT
44355289 CGGA
129 CGGA
** * * * * * *
44355293 GTTGTGATATTAAATCAGCTAACTTAAATAAAATTGTTAATGATTTGAAATCGAATGAACTCTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* * * * * * *
44355358 GTTGAGATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTTAAATCAGCGAGCTATTCA
66 GTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACGAGTTGTTCG
44355423 GA
131 GA
* * * * * *
44355425 GTTGCAATCTGAAATTAGCTAACTCAACTAAAATTTTTCATGATCTAAAATCGAATGAACTTTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* * * * * * * *
44355490 GTTGAGATCTTAAATCAACGAACCTTGATGATACAAGGTACGATCTTAAATCAGCGAGCTGTTCA
66 GTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACGAGTTGTTCG
44355555 GA
131 GA
* * *
44355557 GTTGCAATCTTAAATTAGCTAACTCAAATAAAACTGTTCATGATCTGAAATCGAATGAACTTTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
** * * * *
44355622 GTTGCGATCTTAAATCAGTGAACCTAGATCATACCAGCTGTGATCTTAAATCAA-GAAGTTGTTT
66 GTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACG-AGTTGTTC
44355686 GGA
130 GGA
* * * * * * * * *
44355689 GCTACTATATTAAATCAACTAACTTAAATAGAATTGTTCATGATCTCAAATAGAATGAACATTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* * * * ** * *
44355754 GTTGCAATCTTAAAT-AGGCTAACCTTGATGATACCAATTGCGATATTAAATCAGCGAGTTGTTC
66 GTTGCGATCTTAAATCA-ACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACGAGTTGTTC
*
44355818 GAA
130 GGA
44355821 GTTGCAATCTTAAATCAA
1 GTTGCAATCTTAAATCAA
44355839 TAAACCTTGA
Statistics
Matches: 687, Mismatches: 112, Indels: 20
0.84 0.14 0.02
Matches are distributed among these distances:
130 2 0.00
131 117 0.17
132 565 0.82
133 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (132 bp):
GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
GTTGCGATCTTAAATCAACGAACCTTGATAATACCAGCTGCGATCTTAAATCAACGAGTTGTTCG
GA
Found at i:44355206 original size:67 final size:68
Alignment explanation
Indices: 44355135--44355350 Score: 196
Period size: 67 Copynumber: 3.2 Consensus size: 68
44355125 TTCCAACTGC
*
44355135 GATCTTAAATC-AATGAGTTGTTTGGAGTTGCGATATTAAATAAGCTAACTTAAATAAAATTGTT
1 GATCTTAAATCGAATGAGTTGTTTGGAGTTGTGATATTAAATAAGCTAACTTAAATAAAATTGTT
*
44355199 CAT
66 AAT
* ** * * * *** * * *
44355202 GATCTGAAATCGAATGA--ACTTTAG-GTTGTGATCTTAACTAAAAAAACCTT-GATAATACTAG
1 GATCTTAAATCGAATGAGTTGTTTGGAGTTGTGATATTAAATAAGCTAA-CTTAAATAA-AATTG
*
44355263 -TGAT
64 TTAAT
* *
44355267 GATCTTAAATC-AATGAGTTGTTCGGAGTTGTGATATTAAATCAGCTAACTTAAATAAAATTGTT
1 GATCTTAAATCGAATGAGTTGTTTGGAGTTGTGATATTAAATAAGCTAACTTAAATAAAATTGTT
44355331 AAT
66 AAT
44355334 GAT-TTGAAATCGAATGA
1 GATCTT-AAATCGAATGA
44355351 ACTCTAGGTT
Statistics
Matches: 110, Mismatches: 29, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
64 5 0.05
65 33 0.30
66 21 0.19
67 41 0.37
68 10 0.09
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (68 bp):
GATCTTAAATCGAATGAGTTGTTTGGAGTTGTGATATTAAATAAGCTAACTTAAATAAAATTGTT
AAT
Found at i:44355702 original size:396 final size:393
Alignment explanation
Indices: 44354903--44355843 Score: 1151
Period size: 396 Copynumber: 2.4 Consensus size: 393
44354893 TTTAGGTTGC
* * * *
44354903 GATATTAAATCAGCTAACTTAAATTAAATTGTTCATGATTTGAAATCTAACGAACTTTAGGTTGC
1 GATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTGAAATCGAATGAAC-TTAGGTTGA
* * **
44354968 GATATTAAATCAACGAACCTTGATAATACCAGCTGCGATATTAAATCAATGAGTTGTTCGGAGTT
65 GATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATATTAAATCAGCGAGTTGTTC-GAGTT
** * * *
44355033 GTGATCTTAAATCAACAAACTCAATTAAAATTGTTCATGATTTGAAATGAAATGAACTTTAGGTT
129 GCAATCTTAAATCAACAAACTCAACTAAAATTGTTCATGATCTAAAATGAAATGAACTTTAGGTT
* * * * * **
44355098 GCAATTTAAATCAATGAACCTTGATAATTCCAACTGCGATCTTAAATCAATGAGTTGTTTGGAGT
194 GCAATTTAAATCAACGAACCTTGATAATTACAACTACGATCTTAAATCAACGAGCTGTTCAGAGT
* * *
44355163 TGCGATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAGGT
259 TGCAATATTAAATAAGCTAACTCAAATAAAACTGTTCATGATCTGAAATCGAATGAACTTTAGGT
* * * *
44355228 TGTGATCTTAACTAAAAAAACCTTGATAATACTAGTGATGATCTTAAATCAATGAGTTGTTCGGA
324 TGCGATCTTAAATAAAAAAACCTAGATAATACCAGTGATGATCTTAAATCAATGAGTTGTTCGGA
**
44355293 GTTGT
389 GTACT
*
44355298 GATATTAAATCAGCTAACTTAAATAAAATTGTTAATGATTTGAAATCGAATGAACTCTAGGTTGA
1 GATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTGAAATCGAATGAACT-TAGGTTGA
* * * *
44355363 GATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTTAAATCAGCGAGCTATTCAGAGTT
65 GATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATATTAAATCAGCGAGTTGTTC-GAGTT
* * * * *
44355428 GCAATCTGAAATTAGCTAACTCAACTAAAATTTTTCATGATCTAAAATCG-AATGAACTTTAGGT
129 GCAATCTTAAATCAACAAACTCAACTAAAATTGTTCATGATCTAAAAT-GAAATGAACTTTAGGT
* * *
44355492 TG-AGATCTTAAATCAACGAACCTTGATGA-TACAAGGTACGATCTTAAATCAGCGAGCTGTTCA
193 TGCA-AT-TTAAATCAACGAACCTTGATAATTACAA-CTACGATCTTAAATCAACGAGCTGTTCA
* *
44355555 GAGTTGCAATCTTAAATTAGCTAACTCAAATAAAACTGTTCATGATCTGAAATCGAATGAACTTT
255 GAGTTGCAATATTAAATAAGCTAACTCAAATAAAACTGTTCATGATCTGAAATCGAATGAACTTT
* *** *
44355620 AGGTTGCGATCTTAAATCAGTGAACCTAGATCATACCAGCTG-TGATCTTAAATCAA-GAAGTTG
320 AGGTTGCGATCTTAAATAAAAAAACCTAGATAATACCAG-TGATGATCTTAAATCAATG-AGTTG
*
44355683 TTTGGAGCTACT
383 TTCGGAG-TACT
* * * * *
44355695 -ATATTAAATCAACTAACTTAAATAGAATTGTTCATGATCTCAAATAGAATGAACATTAGGTTGC
1 GATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTGAAATCGAATGAAC-TTAGGTTG-
* * **
44355759 A-ATCTTAAAT-AGGCTAACCTTGATGATACCAATTGCGATATTAAATCAGCGAGTTGTTCGAAG
64 AGATCTTAAATCA-ACGAACCTTGATGATACCAGCTGCGATATTAAATCAGCGAGTTGTTCG-AG
*
44355822 TTGCAATCTTAAATCAATAAAC
127 TTGCAATCTTAAATCAACAAAC
44355844 CTTGATGATA
Statistics
Matches: 464, Mismatches: 70, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
394 2 0.00
395 177 0.38
396 279 0.60
397 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (393 bp):
GATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTGAAATCGAATGAACTTAGGTTGAG
ATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATATTAAATCAGCGAGTTGTTCGAGTTGC
AATCTTAAATCAACAAACTCAACTAAAATTGTTCATGATCTAAAATGAAATGAACTTTAGGTTGC
AATTTAAATCAACGAACCTTGATAATTACAACTACGATCTTAAATCAACGAGCTGTTCAGAGTTG
CAATATTAAATAAGCTAACTCAAATAAAACTGTTCATGATCTGAAATCGAATGAACTTTAGGTTG
CGATCTTAAATAAAAAAACCTAGATAATACCAGTGATGATCTTAAATCAATGAGTTGTTCGGAGT
ACT
Found at i:44355891 original size:67 final size:67
Alignment explanation
Indices: 44355774--44355904 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 67
44355764 TAAATAGGCT
* * * *
44355774 AACCTTGATGATACCAATTGCGATATTAAATCAGCGAGTTGTTCGAAGTTGCAATCTTAAATCAA
1 AACCTTGATGATACCAATTGCAATATTAAATCAACGAGCTATTCGAAGTTGCAATCTTAAATCAA
44355839 TA
66 TA
* ** **
44355841 AACCTTGATGATACCAATTGCAATCTTTGATCAACGAGCTATTC-ATAGTTGTGATCTTAAATCA
1 AACCTTGATGATACCAATTGCAATATTAAATCAACGAGCTATTCGA-AGTTGCAATCTTAAATCA
44355905 TCTAACTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 1 0.02
67 53 0.98
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (67 bp):
AACCTTGATGATACCAATTGCAATATTAAATCAACGAGCTATTCGAAGTTGCAATCTTAAATCAA
TA
Found at i:44363480 original size:13 final size:13
Alignment explanation
Indices: 44363462--44363497 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
44363452 ATATATCCCT
44363462 AAGTGGTGGGAAA
1 AAGTGGTGGGAAA
*
44363475 AAGTGGTGGGAGA
1 AAGTGGTGGGAAA
44363488 AAGTGCGTGG
1 AAGTG-GTGG
44363498 TCGATTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.31, C:0.03, G:0.50, T:0.17
Consensus pattern (13 bp):
AAGTGGTGGGAAA
Found at i:44364815 original size:13 final size:13
Alignment explanation
Indices: 44364797--44364823 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44364787 TCAATACTGG
44364797 ATCGATACCTACT
1 ATCGATACCTACT
44364810 ATCGATACCTACT
1 ATCGATACCTACT
44364823 A
1 A
44364824 GGTTTTGAAA
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:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (13 bp):
ATCGATACCTACT
Found at i:44370287 original size:30 final size:30
Alignment explanation
Indices: 44370250--44370396 Score: 119
Period size: 30 Copynumber: 5.0 Consensus size: 30
44370240 GAATTTGATT
44370250 CATTTAAAAATATTAACTAAATATAGTTTA
1 CATTTAAAAATATTAACTAAATATAGTTTA
* * * * *
44370280 CCA-TTAAAATTAATATA-TGAAT-TTGATT-
1 -CATTTAAAAATATTA-ACTAAATATAGTTTA
44370308 CATTTAAAAATATTAACTAAATATAGTTTA
1 CATTTAAAAATATTAACTAAATATAGTTTA
* * * * * *
44370338 CAGTTAAAATTAATATA-TGAAT-TTGATT-
1 CATTTAAAAATATTA-ACTAAATATAGTTTA
44370366 CATTTAAAAATATTAACTAAATATAGTTTA
1 CATTTAAAAATATTAACTAAATATAGTTTA
44370396 C
1 C
44370397 CAAAATTATT
Statistics
Matches: 85, Mismatches: 22, Indels: 19
0.67 0.17 0.15
Matches are distributed among these distances:
27 4 0.05
28 30 0.35
29 16 0.19
30 31 0.36
31 4 0.05
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (30 bp):
CATTTAAAAATATTAACTAAATATAGTTTA
Found at i:44370287 original size:58 final size:59
Alignment explanation
Indices: 44370223--44370398 Score: 338
Period size: 58 Copynumber: 3.0 Consensus size: 59
44370213 TAGAGAACAT
44370223 AGTTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTACC
1 AGTTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTACC
44370282 A-TTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTA-C
1 AGTTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTACC
44370339 AGTTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTACC
1 AGTTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTACC
44370398 A
1 A
44370399 AAATTATTAA
Statistics
Matches: 115, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
57 2 0.02
58 110 0.96
59 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (59 bp):
AGTTAAAATTAATATATGAATTTGATTCATTTAAAAATATTAACTAAATATAGTTTACC
Found at i:44370373 original size:28 final size:28
Alignment explanation
Indices: 44370225--44370374 Score: 117
Period size: 28 Copynumber: 5.2 Consensus size: 28
44370215 GAGAACATAG
44370225 TTAAAATTAATATATGAATTTGATTCAT
1 TTAAAATTAATATATGAATTTGATTCAT
* * * * *
44370253 TTAAAAATATTA-ACTAAATATAGTTTACCA-
1 TTAAAATTAATATA-TGAAT-TTGATT--CAT
44370283 TTAAAATTAATATATGAATTTGATTCAT
1 TTAAAATTAATATATGAATTTGATTCAT
* * * * * *
44370311 TTAAAAATATTA-ACTAAATATAGTTTACAG
1 TTAAAATTAATATA-TGAAT-TTGATT-CAT
44370341 TTAAAATTAATATATGAATTTGATTCAT
1 TTAAAATTAATATATGAATTTGATTCAT
44370369 TTAAAA
1 TTAAAA
44370375 ATATTAACTA
Statistics
Matches: 90, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
27 4 0.04
28 36 0.40
29 16 0.18
30 30 0.33
31 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (28 bp):
TTAAAATTAATATATGAATTTGATTCAT
Found at i:44378142 original size:31 final size:32
Alignment explanation
Indices: 44378097--44378175 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 32
44378087 AAGGTATGTG
* * *
44378097 TATATAGAATATATATATGCGTGGGT-TTTCT
1 TATATATAATATATATATGCATGGGTCTTGCT
* *
44378128 TATATATAAAATATATATGCATGGGTCTTGGT
1 TATATATAATATATATATGCATGGGTCTTGCT
44378160 TATATATAATATATAT
1 TATATATAATATATAT
44378176 GCATATATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 23 0.56
32 18 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (32 bp):
TATATATAATATATATATGCATGGGTCTTGCT
Found at i:44379198 original size:34 final size:34
Alignment explanation
Indices: 44379159--44379240 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
44379149 ATGTGGTATG
* *
44379159 AATGAATTATTA-TATTGTATGAACTATTAATTT-A
1 AATGAATTGTTATTA-TGCATGAACTATT-ATTTCA
*
44379193 AATGAACTGTTATTATGCATGAACTATTATTTCA
1 AATGAATTGTTATTATGCATGAACTATTATTTCA
*
44379227 TATGAATTGTTATT
1 AATGAATTGTTATT
44379241 TTATGCAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 4 0.10
34 35 0.85
35 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (34 bp):
AATGAATTGTTATTATGCATGAACTATTATTTCA
Done.