Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 91 of 100
Found at i:18115021 original size:18 final size:18
Alignment explanation
Indices: 18114943--18115023 Score: 55
Period size: 18 Copynumber: 4.5 Consensus size: 18
18114933 ATATTTATTA
18114943 AATATTAAAATTTTAAA-AT
1 AATA-TAAAA-TTTAAATAT
*
18114962 AATTATATAAA-TTAATTA-
1 AA-TATA-AAATTTAAATAT
*
18114980 AAT-TAAATTTTAAAT-T
1 AATATAAAATTTAAATAT
*
18114996 CAAAATAAAATTTAAATAT
1 -AATATAAAATTTAAATAT
18115015 AATATAAAA
1 AATATAAAA
18115024 GATTCAATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
15 2 0.04
16 7 0.15
17 3 0.06
18 25 0.52
19 6 0.12
20 5 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAAAATTTAAATAT
Found at i:18116495 original size:32 final size:32
Alignment explanation
Indices: 18116458--18116518 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
18116448 GTGGACATTA
**
18116458 AATAGAATTTTTATATTCCACAACCAAAGCCT
1 AATAGAAAATTTATATTCCACAACCAAAGCCT
**
18116490 AATAGAAAATTTATATTCGGCAACCAAAG
1 AATAGAAAATTTATATTCCACAACCAAAG
18116519 TTCAATGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (32 bp):
AATAGAAAATTTATATTCCACAACCAAAGCCT
Found at i:18116717 original size:28 final size:28
Alignment explanation
Indices: 18116675--18116736 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18116665 ACCCAAGTCT
*
18116675 GATTCTAATTCGACTGGGCT-TCAGGCCC
1 GATTTTAATTCGACTGGGCTCT-AGGCCC
* *
18116703 GATTTTAATTTGACTGGGCTCTAGGTCC
1 GATTTTAATTCGACTGGGCTCTAGGCCC
18116731 GATTTT
1 GATTTT
18116737 GACTTAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (28 bp):
GATTTTAATTCGACTGGGCTCTAGGCCC
Found at i:18116850 original size:11 final size:11
Alignment explanation
Indices: 18116815--18116861 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
18116805 CAAAACATAT
*
18116815 TTTTAATTTATA
1 TTTTATTTTA-A
18116827 TTTTATTTT-A
1 TTTTATTTTAA
18116837 TTTTATTTTAA
1 TTTTATTTTAA
* *
18116848 TTTAATATTAA
1 TTTTATTTTAA
18116859 TTT
1 TTT
18116862 ACTAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 10 0.32
11 13 0.42
12 8 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:18118527 original size:16 final size:15
Alignment explanation
Indices: 18118448--18118575 Score: 53
Period size: 16 Copynumber: 8.7 Consensus size: 15
18118438 TTCGAAATTG
18118448 AAACCCTAAATC-CTT
1 AAACCCTAAA-CACTT
18118463 CAAACCCTAAA-ACTATT
1 -AAACCCTAAACAC--TT
18118480 AAA-CCTCAAAC-CTCT
1 AAACCCT-AAACACT-T
*
18118495 AAACCAT-AA-A-TT
1 AAACCCTAAACACTT
18118507 AAACCCTAAACACTCT
1 AAACCCTAAACACT-T
*
18118523 AAACCAT-AA-A-TT
1 AAACCCTAAACACTT
*
18118535 AAACCCTAAACCCTTT
1 AAACCCTAAACAC-TT
* * *
18118551 AAACCTTAAA-AATG
1 AAACCCTAAACACTT
18118565 AAACCCTAAAC
1 AAACCCTAAAC
18118576 CCTCTGAACT
Statistics
Matches: 85, Mismatches: 10, Indels: 35
0.65 0.08 0.27
Matches are distributed among these distances:
12 14 0.16
13 6 0.07
14 15 0.18
15 11 0.13
16 37 0.44
17 2 0.02
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.22
Consensus pattern (15 bp):
AAACCCTAAACACTT
Found at i:18118530 original size:28 final size:28
Alignment explanation
Indices: 18118477--18118580 Score: 131
Period size: 28 Copynumber: 3.7 Consensus size: 28
18118467 CCCTAAAACT
18118477 ATTAAA-CCTCAAA-CCTCTAAACCATAA
1 ATTAAACCCT-AAACCCTCTAAACCATAA
*
18118504 ATTAAACCCTAAACACTCTAAACCATAA
1 ATTAAACCCTAAACCCTCTAAACCATAA
* *
18118532 ATTAAACCCTAAACCCTTTAAACCTTAAAA
1 ATTAAACCCTAAACCCTCTAAACC--ATAA
*
18118562 ATGAAACCCTAAACCCTCT
1 ATTAAACCCTAAACCCTCT
18118581 GAACTTTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
27 9 0.13
28 38 0.57
30 20 0.30
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (28 bp):
ATTAAACCCTAAACCCTCTAAACCATAA
Found at i:18125674 original size:11 final size:11
Alignment explanation
Indices: 18125649--18125721 Score: 74
Period size: 11 Copynumber: 6.1 Consensus size: 11
18125639 TATCATTATT
18125649 TTTTTTCTTTCTC
1 TTTTTT-TTT-TC
18125662 TTTTTTTTTTC
1 TTTTTTTTTTC
18125673 TTTTTTTTTTC
1 TTTTTTTTTTC
18125684 TTTTTTGTCTTTTTC
1 --TTTT-T-TTTTTC
*
18125699 TTTTTTTTTCC
1 TTTTTTTTTTC
*
18125710 TTTTTTTCTTC
1 TTTTTTTTTTC
18125721 T
1 T
18125722 CTTATTTGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
11 28 0.53
12 4 0.08
13 14 0.26
14 1 0.02
15 6 0.11
ACGTcount: A:0.00, C:0.15, G:0.01, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:18125687 original size:20 final size:19
Alignment explanation
Indices: 18125647--18125707 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 19
18125637 ATTATCATTA
*
18125647 TTTTTTT-TCTTTCTC-TT
1 TTTTTTTGTCTTTTTCTTT
*
18125664 TTTTTTT-TCTTTTTTTTT
1 TTTTTTTGTCTTTTTCTTT
18125682 TCTTTTTTGTCTTTTTCTTT
1 T-TTTTTTGTCTTTTTCTTT
18125702 TTTTTT
1 TTTTTT
18125708 CCTTTTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 13 0.34
18 3 0.08
19 11 0.29
20 11 0.29
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (19 bp):
TTTTTTTGTCTTTTTCTTT
Found at i:18125688 original size:37 final size:37
Alignment explanation
Indices: 18125647--18125721 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
18125637 ATTATCATTA
* * *
18125647 TTTTTTTTCTTTCTCTTTTTTTTTTCTTTTTTTTTTC
1 TTTTTTGTCTTTCTCTTTTTTTTTCCTTTTTTTCTTC
*
18125684 TTTTTTGTCTTTTTCTTTTTTTTTCCTTTTTTTCTTC
1 TTTTTTGTCTTTCTCTTTTTTTTTCCTTTTTTTCTTC
18125721 T
1 T
18125722 CTTATTTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.00, C:0.15, G:0.01, T:0.84
Consensus pattern (37 bp):
TTTTTTGTCTTTCTCTTTTTTTTTCCTTTTTTTCTTC
Found at i:18125716 original size:1 final size:1
Alignment explanation
Indices: 18125647--18125707 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
18125637 ATTATCATTA
* * * * * * * *
18125647 TTTTTTTTCTTTCTCTTTTTTTTTTCTTTTTTTTTTCTTTTTTGTCTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18125708 CCTTTTTTTC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (1 bp):
T
Found at i:18133362 original size:3 final size:3
Alignment explanation
Indices: 18133356--18133381 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18133346 TTTTGTTTTA
18133356 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18133382 ACAAAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18138815 original size:16 final size:15
Alignment explanation
Indices: 18138793--18138863 Score: 51
Period size: 16 Copynumber: 4.9 Consensus size: 15
18138783 CTAAACCTAA
18138793 TTAAACCCTAAACAC
1 TTAAACCCTAAACAC
*
18138808 TCTAAACCAT-AA-A-
1 T-TAAACCCTAAACAC
*
18138821 TTAAACCCTAAACCC
1 TTAAACCCTAAACAC
* *
18138836 TTTAAACCTTAAA-AA
1 -TTAAACCCTAAACAC
*
18138851 TGAAACCCTAAAC
1 TTAAACCCTAAAC
18138864 CCTCTGAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
12 7 0.17
13 3 0.07
14 11 0.26
15 3 0.07
16 18 0.43
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (15 bp):
TTAAACCCTAAACAC
Found at i:18138827 original size:28 final size:28
Alignment explanation
Indices: 18138780--18138868 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
18138770 TAAACCTCAA
18138780 CCTCTAAACC-T-AATTAAACCCTAAAC
1 CCTCTAAACCATAAATTAAACCCTAAAC
*
18138806 ACTCTAAACCATAAATTAAACCCTAAAC
1 CCTCTAAACCATAAATTAAACCCTAAAC
* * *
18138834 CCTTTAAACCTTAAAAATGAAACCCTAAAC
1 CCTCTAAACC--ATAAATTAAACCCTAAAC
18138864 CCTCT
1 CCTCT
18138869 GAACTTTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 9 0.17
27 1 0.02
28 23 0.43
30 20 0.38
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (28 bp):
CCTCTAAACCATAAATTAAACCCTAAAC
Found at i:18138859 original size:30 final size:30
Alignment explanation
Indices: 18138795--18138952 Score: 115
Period size: 30 Copynumber: 5.3 Consensus size: 30
18138785 AAACCTAATT
* * *
18138795 AAACCCTAAACACTCTAAACC--ATAAATT
1 AAACCCTAAACCCTCTAAACCTTAAAAATG
*
18138823 AAACCCTAAACCCTTTAAACCTTAAAAATG
1 AAACCCTAAACCCTCTAAACCTTAAAAATG
* * **
18138853 AAACCCTAAACCCTCTGAACTTTAAAAACA
1 AAACCCTAAACCCTCTAAACCTTAAAAATG
*** * * *
18138883 AAATATTAAACCCTCCAAACCCT-AAAATC
1 AAACCCTAAACCCTCTAAACCTTAAAAATG
* * * * *
18138912 AAATCCCTAAAACATCCAAACTTTAAAATTG
1 AAA-CCCTAAACCCTCTAAACCTTAAAAATG
18138943 AAACCCTAAA
1 AAACCCTAAA
18138953 TTCAAAACCT
Statistics
Matches: 99, Mismatches: 27, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
28 19 0.19
29 7 0.07
30 66 0.67
31 7 0.07
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.22
Consensus pattern (30 bp):
AAACCCTAAACCCTCTAAACCTTAAAAATG
Found at i:18138921 original size:14 final size:13
Alignment explanation
Indices: 18138898--18139030 Score: 51
Period size: 14 Copynumber: 9.8 Consensus size: 13
18138888 TTAAACCCTC
18138898 CAAACCCTAAAAT
1 CAAACCCTAAAAT
18138911 CAAATCCCTAAAACAT
1 CAAA-CCCT-AAA-AT
**
18138927 CCAAACTTTAAAATT
1 -CAAACCCTAAAA-T
* *
18138942 GAAACCCTAAATT
1 CAAACCCTAAAAT
*
18138955 CAAAACCT-AAA-
1 CAAACCCTAAAAT
*
18138966 -AAATCC-AAAAT
1 CAAACCCTAAAAT
* *
18138977 CCCAAACCTTAAATT
1 --CAAACCCTAAAAT
* *
18138992 CCAATCCTTAAACA-
1 -CAAACCCTAAA-AT
18139006 CTAAACCCTAAAAT
1 C-AAACCCTAAAAT
18139020 CAAACCCTAAA
1 CAAACCCTAAA
18139031 TCCTCTAAAC
Statistics
Matches: 89, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
10 8 0.09
12 2 0.02
13 23 0.26
14 37 0.42
15 11 0.12
16 4 0.04
17 4 0.04
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (13 bp):
CAAACCCTAAAAT
Found at i:18145942 original size:1 final size:1
Alignment explanation
Indices: 18145936--18145999 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
18145926 ATTATCATTA
* * * * * * * *
18145936 TTTTTTTTCTTTCTCTTTCTTTTTCTTTTTTTTTCTTTTTTTTTCTTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18146000 CCTTCTTCTT
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:18145960 original size:16 final size:16
Alignment explanation
Indices: 18145939--18146009 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
18145929 ATCATTATTT
*
18145939 TTTTTCTTTCTCTTTC
1 TTTTTCTTTCTTTTTC
*
18145955 TTTTTCTTTTTTTTTC
1 TTTTTCTTTCTTTTTC
* *
18145971 TTTTTTTTTCTTTTTT
1 TTTTTCTTTCTTTTTC
*
18145987 TTTTTCTTT-TTTTCC
1 TTTTTCTTTCTTTTTC
*
18146002 TTCTTCTT
1 TTTTTCTT
18146010 CTTCTCTTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 11 0.24
16 35 0.76
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTCTTTTTC
Found at i:18146006 original size:12 final size:10
Alignment explanation
Indices: 18145938--18146000 Score: 83
Period size: 10 Copynumber: 6.0 Consensus size: 10
18145928 TATCATTATT
18145938 TTTTTTCTTTC
1 TTTTTT-TTTC
18145949 TCTTTCTTTTTC
1 T-TTT-TTTTTC
18145961 TTTTTTTTTC
1 TTTTTTTTTC
18145971 TTTTTTTTTC
1 TTTTTTTTTC
18145981 TTTTTTTTT-
1 TTTTTTTTTC
18145990 TTCTTTTTTTC
1 TT-TTTTTTTC
18146001 CTTCTTCTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.04
10 32 0.67
11 4 0.08
12 8 0.17
13 2 0.04
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:18146012 original size:30 final size:30
Alignment explanation
Indices: 18145949--18146017 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
18145939 TTTTTCTTTC
* * *
18145949 TCTTTCTTTTTCTTTTTTTTTCTTTTTTTT
1 TCTTTCTTTTTCTTTTTTTTTCCTTCTTCT
*
18145979 TCTTT-TTTTTTTTCTTTTTTTCCTTCTTCT
1 TCTTTCTTTTTCTT-TTTTTTTCCTTCTTCT
18146009 TCTTCTCTT
1 TCTT-TCTT
18146018 ATTTGGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.22
30 22 0.69
31 1 0.03
32 2 0.06
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
TCTTTCTTTTTCTTTTTTTTTCCTTCTTCT
Found at i:18147534 original size:12 final size:12
Alignment explanation
Indices: 18147519--18147549 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18147509 CAAAATTAAA
18147519 AATAAAAAAATT
1 AATAAAAAAATT
*
18147531 AATAAAACAATT
1 AATAAAAAAATT
18147543 AATAAAA
1 AATAAAA
18147550 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAAAAAATT
Found at i:18153519 original size:15 final size:16
Alignment explanation
Indices: 18153499--18153535 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18153489 CAAAAGATTG
*
18153499 AGAGAAAGC-CAAGAA
1 AGAGAAAGCAAAAGAA
18153514 AGAGAAAGCAAAAGAA
1 AGAGAAAGCAAAAGAA
18153530 AGAGAA
1 AGAGAA
18153536 GAAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (16 bp):
AGAGAAAGCAAAAGAA
Found at i:18159444 original size:44 final size:44
Alignment explanation
Indices: 18159333--18159715 Score: 297
Period size: 44 Copynumber: 8.3 Consensus size: 44
18159323 AAAACAGATG
* * *
18159333 AGATTCTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTCA
1 AGATTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGCTTTTTCA
* * * *
18159377 A-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCA
1 AGATTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGCTTTTTCA
* * *
18159420 AGATCTTTAAAATTGTTAAGCCTCTACTGAGAGGAGCTTTTTCA
1 AGATTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGCTTTTTCA
* *
18159464 ATATTTTTAAAATTGTTAAGCCTTTGCTAAGAGGAGCTTTTTCA
1 AGATTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGCTTTTTCA
* * * *
18159508 AGATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTTCA
1 AG----ATTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGC-TTTTTCA
* *
18159557 GATGATTTTTTTTAAAATTGTTAAGCCTCTGCTAAGAGAAGCTTTTCCAAGA
1 -A-GA---TTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGCTTTTTC---A
* * *
18159609 TGAGATTTTTTTAAAATTGTTGAGCCTCTGCTGAGAGGAACTTTTTTCA
1 --AGA--TTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGC-TTTTTCA
* * * *
18159658 GATATTTTTTTTAAAGTTGTTGAA-CCTATGCTAAGAGGAGCCTTTT-A
1 -AGA---TTTTTAAAATTGTT-AAGCCTCTGCTAAGAGGAGCTTTTTCA
*
18159705 A-ATTTTCAAAA
1 AGATTTTTAAAA
18159716 ATATCAATTA
Statistics
Matches: 282, Mismatches: 39, Indels: 38
0.79 0.11 0.11
Matches are distributed among these distances:
42 7 0.02
43 40 0.14
44 78 0.28
45 1 0.00
46 1 0.00
47 2 0.01
48 37 0.13
49 42 0.15
50 31 0.11
51 33 0.12
52 8 0.03
53 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (44 bp):
AGATTTTTAAAATTGTTAAGCCTCTGCTAAGAGGAGCTTTTTCA
Found at i:18159600 original size:98 final size:92
Alignment explanation
Indices: 18159339--18159703 Score: 382
Period size: 101 Copynumber: 3.9 Consensus size: 92
18159329 GATGAGATTC
* * * *
18159339 TTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTCAA-ATTTTTAAAGTTGTTGAGCCTCTGC
1 TTAAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAATATTTTTAAAATTGTTAAGCCTCTGC
* * *
18159403 TGAGATGAGCTTTTTCAAG----ATCT
66 TAAGAGGAGCTTTTTCAAGATAAATTT
* * *
18159426 TTAAAATTGTTAAGCCTCTACTGAGAGGAGCTTTTTCAATATTTTTAAAATTGTTAAGCCTTTGC
1 TTAAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAATATTTTTAAAATTGTTAAGCCTCTGC
18159491 TAAGAGGAGCTTTTTCAAGATAAATTT
66 TAAGAGGAGCTTTTTCAAGATAAATTT
* *
18159518 TTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTTCAGATGATTTTTTTTAAAATTGTTAAGC
1 TTAAAATTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA-AT-A---TTTTTAAAATTGTTAAGC
* * *
18159583 CTCTGCTAAGAGAAGCTTTTCCAAGATGAGATTTTT
60 CTCTGCTAAGAGGAGCTTTTTCAAGAT-A-A-ATTT
* *
18159619 TTAAAATTGTTGAGCCTCTGCTGAGAGGAACTTTTTTCAGATATTTTTTTTAAAGTTGTTGAA-C
1 TTAAAATTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA-ATA---TTTTTAAAATTGTT-AAGC
* *
18159683 CTATGCTAAGAGGAGCCTTTT
60 CTCTGCTAAGAGGAGCTTTTT
18159704 AAATTTTCAA
Statistics
Matches: 237, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
87 35 0.15
88 39 0.16
92 30 0.13
93 7 0.03
94 2 0.01
95 1 0.00
98 42 0.18
99 1 0.00
100 36 0.15
101 44 0.19
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (92 bp):
TTAAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAATATTTTTAAAATTGTTAAGCCTCTGC
TAAGAGGAGCTTTTTCAAGATAAATTT
Found at i:18161308 original size:206 final size:200
Alignment explanation
Indices: 18161072--18161623 Score: 700
Period size: 206 Copynumber: 2.7 Consensus size: 200
18161062 AAAAATAAGG
*
18161072 AAAGGAAATTTTATCCAATGATGGGATTTAAAGGTATTCCGAGTAGTGATACCTATGAAATCTCT
1 AAAGGAAATTTTATCCAATGATGAGATTTAAAGGTATTCCGAGTAGTGATACCTATGAAATCTCT
18161137 AAGTAAGAAGAATTTTTTTAAATACTACCAGTGTATTGGAGTATTTATAAAAAATTTTCAATACA
66 AAGTAAGAAGAATTTTTTTAAATACTACCAGTGTATTGGAGTATTTATAAAAAATTTTCAATACA
18161202 ATAAAATTTTTTTTTTTGTTAACAATAAATAAAAATTAATTAATAAATTAAGAATAAGTAATATA
131 ATAAAA-TTTTTTTTTTGTTAACAATAAAT--AAA--AATTAATAAATTAAGAATAAGTAATATA
18161267 AACAAGGAAAA
191 AACAAGG-AAA
* *
18161278 AAAGGAAATTTTATCCAATGATGTGATTTAAAGGTATTCCGAGTAGTGATGCCTATGAAATCTCT
1 AAAGGAAATTTTATCCAATGATGAGATTTAAAGGTATTCCGAGTAGTGATACCTATGAAATCTCT
** *
18161343 AAATCTCTAGGTGAA-AAGAATTTTTTTAAATACTACCAGTACATTGGAGTATTTATAAAAATTT
66 --A-----A-GT-AAGAAGAATTTTTTTAAATACTACCAGTGTATTGGAGTATTTATAAAAAATT
*
18161407 TTCAATACAATAAAATTTTTTTTTTGTTAACAATAAATAAAAATTAATAAATTAGGAATAAGTAA
122 TTCAATACAATAAAATTTTTTTTTTGTTAACAATAAATAAAAATTAATAAATTAAGAATAAGTAA
18161472 TATAAACAAGGAAA
187 TATAAACAAGGAAA
* * * * *
18161486 AAA-GAAATTTTATCCAATGATGAGATTCTAAAAGTATTCCGAGTAGAGATA--TTTTAAATCCC
1 AAAGGAAATTTTATCCAATGATGAGATT-TAAAGGTATTCCGAGTAGTGATACCTATGAAATCTC
* ** * * * * *
18161548 TAGGCGAGAAGATTTTTTTTTTTTAAATATTACCAATGTATTGGAATATTTATAGAAAAA-CTTC
65 TAAGTAAGAAGA----ATTTTTTTAAATACTACCAGTGTATTGGAGTATTTATA-AAAAATTTTC
18161612 AATACAATAAAA
125 AATACAATAAAA
18161624 ATTCCTTTTT
Statistics
Matches: 306, Mismatches: 24, Indels: 36
0.84 0.07 0.10
Matches are distributed among these distances:
197 1 0.00
198 5 0.02
202 47 0.15
203 4 0.01
204 1 0.00
206 72 0.24
207 23 0.08
208 27 0.09
209 34 0.11
211 3 0.01
213 24 0.08
214 63 0.21
215 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (200 bp):
AAAGGAAATTTTATCCAATGATGAGATTTAAAGGTATTCCGAGTAGTGATACCTATGAAATCTCT
AAGTAAGAAGAATTTTTTTAAATACTACCAGTGTATTGGAGTATTTATAAAAAATTTTCAATACA
ATAAAATTTTTTTTTTGTTAACAATAAATAAAAATTAATAAATTAAGAATAAGTAATATAAACAA
GGAAA
Found at i:18161908 original size:145 final size:145
Alignment explanation
Indices: 18161702--18161996 Score: 581
Period size: 145 Copynumber: 2.0 Consensus size: 145
18161692 AAGAGAATAA
*
18161702 AATGTGTGCATCAACATGTTATTATTTGCATTGCATACATGACATAATTTTTTACGAAAAGTAAA
1 AATGTGTGCACCAACATGTTATTATTTGCATTGCATACATGACATAATTTTTTACGAAAAGTAAA
18161767 TTCGGACCTCCAAATATGAGATTTTAAGGTATTCCAAGAAGTGATGCCTAAGAAATCTCTAGGTG
66 TTCGGACCTCCAAATATGAGATTTTAAGGTATTCCAAGAAGTGATGCCTAAGAAATCTCTAGGTG
18161832 AGAAAGAGTTCTTCT
131 AGAAAGAGTTCTTCT
18161847 AATGTGTGCACCAACATGTTATTATTTGCATTGCATACATGACATAATTTTTTACGAAAAGTAAA
1 AATGTGTGCACCAACATGTTATTATTTGCATTGCATACATGACATAATTTTTTACGAAAAGTAAA
18161912 TTCGGACCTCCAAATATGAGATTTTAAGGTATTCCAAGAAGTGATGCCTAAGAAATCTCTAGGTG
66 TTCGGACCTCCAAATATGAGATTTTAAGGTATTCCAAGAAGTGATGCCTAAGAAATCTCTAGGTG
18161977 AGAAAGAGTTCTTCT
131 AGAAAGAGTTCTTCT
18161992 AATGT
1 AATGT
18161997 TACCAACGTA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 149 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (145 bp):
AATGTGTGCACCAACATGTTATTATTTGCATTGCATACATGACATAATTTTTTACGAAAAGTAAA
TTCGGACCTCCAAATATGAGATTTTAAGGTATTCCAAGAAGTGATGCCTAAGAAATCTCTAGGTG
AGAAAGAGTTCTTCT
Found at i:18167335 original size:23 final size:22
Alignment explanation
Indices: 18167294--18167336 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
18167284 TAAGGTTTGG
*
18167294 GGTTTTAGTTTTAGAGTTTAGA
1 GGTTTTAGGTTTAGAGTTTAGA
*
18167316 GGTTTTAAGGTTTAGTGTTTA
1 GGTTTT-AGGTTTAGAGTTTA
18167337 AGGGCTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
GGTTTTAGGTTTAGAGTTTAGA
Found at i:18167418 original size:16 final size:14
Alignment explanation
Indices: 18167362--18167440 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
18167352 GGTTTGTGAT
*
18167362 TTTGGATTTTTTGGG
1 TTTGGA-TTTTAGGG
* * *
18167377 TTTTGAATTTAGTG
1 TTTGGATTTTAGGG
**
18167391 TTTCAATTTTAGGG
1 TTTGGATTTTAGGG
18167405 TTTGGATGTTTTAGGG
1 TTTGGA--TTTTAGGG
18167421 ATTT-GATTTTAGGG
1 -TTTGGATTTTAGGG
18167435 TTTGGA
1 TTTGGA
18167441 GGGTTTAATG
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
13 3 0.06
14 29 0.58
15 5 0.10
16 10 0.20
17 3 0.06
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.53
Consensus pattern (14 bp):
TTTGGATTTTAGGG
Found at i:18167432 original size:14 final size:13
Alignment explanation
Indices: 18167396--18167438 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 13
18167386 TAGTGTTTCA
18167396 ATTTTAGGGTTTGG
1 ATTTTAGGGTTT-G
18167410 ATGTTTTAGGGATTTG
1 A--TTTTAGGG-TTTG
18167426 ATTTTAGGGTTTG
1 ATTTTAGGGTTTG
18167439 GAGGGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.15
14 9 0.35
16 10 0.38
17 3 0.12
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (13 bp):
ATTTTAGGGTTTG
Found at i:18167461 original size:30 final size:30
Alignment explanation
Indices: 18167396--18167466 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
18167386 TAGTGTTTCA
* * *
18167396 ATTTTAGGGTTTGGATGTTTTAGGGATTTG
1 ATTTTAGGGTTTGGAGGGTTTAAGGATTTG
* *
18167426 ATTTTAGGGTTTGGAGGGTTTAATGTTTTG
1 ATTTTAGGGTTTGGAGGGTTTAAGGATTTG
* *
18167456 TTTTTAAGGTT
1 ATTTTAGGGTT
18167467 CAAAGGGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (30 bp):
ATTTTAGGGTTTGGAGGGTTTAAGGATTTG
Found at i:18167474 original size:30 final size:31
Alignment explanation
Indices: 18167440--18167515 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
18167430 TAGGGTTTGG
* *
18167440 AGGGTTTAATGTTTTGTTTTTAAGG-TTCAA
1 AGGGTTTAAGGTTTCGTTTTTAAGGATTCAA
* * *
18167470 AGGGTTTAGGGTTTCGTTTTTTAGGATTTAA
1 AGGGTTTAAGGTTTCGTTTTTAAGGATTCAA
18167501 AGGGTTTAGAGGTTT
1 AGGGTTTA-AGGTTT
18167516 GAAGTTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 21 0.55
31 12 0.32
32 5 0.13
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (31 bp):
AGGGTTTAAGGTTTCGTTTTTAAGGATTCAA
Found at i:18167726 original size:3 final size:3
Alignment explanation
Indices: 18167718--18167761 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
18167708 TAATGTTTTT
*
18167718 ATA ATA ATA ATA ATTA ATA ATA ATA ATA ATA AT- ATA TTA ATA AT
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18167762 TCCCTAACAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:18167742 original size:19 final size:20
Alignment explanation
Indices: 18167718--18167761 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
18167708 TAATGTTTTT
18167718 ATAATAATAATAAT-TAATA
1 ATAATAATAATAATATAATA
*
18167737 ATAATAATAATAATATATTA
1 ATAATAATAATAATATAATA
18167757 ATAAT
1 ATAAT
18167762 TCCCTAACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATAATAATAATATAATA
Found at i:18168102 original size:16 final size:16
Alignment explanation
Indices: 18168056--18168109 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
18168046 ATAATAATGT
18168056 TAAAAATGATAT--AAA
1 TAAAAAT-ATATAAAAA
18168071 TAAATAATATATAAAAA
1 TAAA-AATATATAAAAA
18168088 TAAAAATAT-TAAAAA
1 TAAAAATATATAAAAA
*
18168103 AAAAAAT
1 TAAAAAT
18168110 TTTACTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 20 0.57
16 8 0.23
17 7 0.20
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAAAATATATAAAAA
Found at i:18169147 original size:19 final size:19
Alignment explanation
Indices: 18169105--18169147 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18169095 TCTATGTCTC
18169105 TTTTTTTAATTAATATTTA
1 TTTTTTTAATTAATATTTA
* *
18169124 ATTTTTTAATT-TTATTATA
1 TTTTTTTAATTAATATT-TA
18169143 TTTTT
1 TTTTT
18169148 GTTTAATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTAATTAATATTTA
Found at i:18169566 original size:38 final size:39
Alignment explanation
Indices: 18169514--18169608 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 39
18169504 TTTTTACCAT
* * * *
18169514 GAGTCAAAAAAATAAAGAAAATGA-CTAGGACAACACCGC
1 GAGTCAAGAAAATAAAGAAAACGATC-AAGACAAAACCGC
*
18169553 GAGTCGAG-AAATAAAGAAAACGATCAAGACAAAACCGC
1 GAGTCAAGAAAATAAAGAAAACGATCAAGACAAAACCGC
18169591 GAGTCAAGAAAATAAAGA
1 GAGTCAAGAAAATAAAGA
18169609 GACCGGGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 32 0.67
39 16 0.33
ACGTcount: A:0.55, C:0.16, G:0.20, T:0.09
Consensus pattern (39 bp):
GAGTCAAGAAAATAAAGAAAACGATCAAGACAAAACCGC
Found at i:18169813 original size:106 final size:105
Alignment explanation
Indices: 18169651--18169919 Score: 294
Period size: 104 Copynumber: 2.6 Consensus size: 105
18169641 TAAAGATCAA
* * * * *
18169651 GATTAAATCACGACTTAGAATTAAAAAGATTAGGACTGAACCAT-GAGTTAAAAAAAATTAAAAA
1 GATTAAACCACAACTTAGAATTAAAAAGATCAGGATTGAACC-TCGAGTTAAGAAAAATTAAAAA
* *
18169715 GACAAGGATTAAACTGCAAGTCAAAGAA-ATAATGAGGATCGG
65 GACAAGGATTAAACTGCAAGT-AAA-AACAGAATAAGGATCGG
* * * *
18169757 GATTAAACCGCAACTTAGAATTAAAAAGATCAAGATTGAACCTCGAGTCAAGAAAAA-TAAAGAG
1 GATTAAACCACAACTTAGAATTAAAAAGATCAGGATTGAACCTCGAGTTAAGAAAAATTAAAAAG
** *
18169821 ACCGGGATTAAACTGTAAGTAAAAACAGAATAAGGATCGG
66 ACAAGGATTAAACTGCAAGTAAAAACAGAATAAGGATCGG
* * * * *
18169861 GATTAAATCACGACTTAGAAGTAAAGAGATCGGGATTGAA-CTACGAGTTAGAGAAAAAT
1 GATTAAACCACAACTTAGAATTAAAAAGATCAGGATTGAACCT-CGAGTTA-AGAAAAAT
18169920 AAAGAGATTG
Statistics
Matches: 136, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
103 4 0.03
104 54 0.40
105 31 0.23
106 47 0.35
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (105 bp):
GATTAAACCACAACTTAGAATTAAAAAGATCAGGATTGAACCTCGAGTTAAGAAAAATTAAAAAG
ACAAGGATTAAACTGCAAGTAAAAACAGAATAAGGATCGG
Found at i:18169944 original size:37 final size:35
Alignment explanation
Indices: 18169903--18169972 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
18169893 GGATTGAACT
* * *
18169903 ACGAGTTAGAGAAAAATAAAGAGATTGAGATTAAAAC
1 ACGAGTCA-AGAAAAATAAAAAGATCGA-ATTAAAAC
18169940 ACGAGTCAAGAAAAATAAAAAGATCGAATTAAA
1 ACGAGTCAAGAAAAATAAAAAGATCGAATTAAA
18169973 CTGTAAGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 6 0.20
36 17 0.57
37 7 0.23
ACGTcount: A:0.57, C:0.07, G:0.19, T:0.17
Consensus pattern (35 bp):
ACGAGTCAAGAAAAATAAAAAGATCGAATTAAAAC
Found at i:18169947 original size:141 final size:140
Alignment explanation
Indices: 18169800--18170057 Score: 360
Period size: 141 Copynumber: 1.8 Consensus size: 140
18169790 GATTGAACCT
* * *
18169800 CGAGTCAAGAAAAATAAAGAGACCGGGATTAAACTGTAAGT-A-AAAACAGAATAAGGATCGGGA
1 CGAGTCAAGAAAAATAAAAAGACC-GAATTAAACTGTAAGTCAGAAAA-AGAATAAGGATCGAGA
* *
18169863 TTAAATCACG-ACTTAGAAGTAAAGAGATCGGGATTGAACTACGAGTTAGAGAAAAATAAAGAGA
64 TTAAA-C-CGTACTTAAAAGTAAAGAGATCGGGATTGAACCACGAGTTAGAGAAAAATAAAGAGA
18169927 TTGAGATTAAAACA
127 TTGAGATTAAAACA
* * *
18169941 CGAGTCAAGAAAAATAAAAAGATCGAATTAAACTGTAAGTCAGAGAAAGAATGAGGATCGAGATT
1 CGAGTCAAGAAAAATAAAAAGACCGAATTAAACTGTAAGTCAGAAAAAGAATAAGGATCGAGATT
**
18170006 AAACCGTTACTTAAAAGTAAAGAGATCGGGATTGAACCGTGAGTTAGAGAAA
66 AAACCG-TACTTAAAAGTAAAGAGATCGGGATTGAACCACGAGTTAGAGAAA
18170058 TAATGAGGCC
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
139 2 0.02
140 16 0.16
141 82 0.80
142 3 0.03
ACGTcount: A:0.47, C:0.10, G:0.24, T:0.19
Consensus pattern (140 bp):
CGAGTCAAGAAAAATAAAAAGACCGAATTAAACTGTAAGTCAGAAAAAGAATAAGGATCGAGATT
AAACCGTACTTAAAAGTAAAGAGATCGGGATTGAACCACGAGTTAGAGAAAAATAAAGAGATTGA
GATTAAAACA
Found at i:18169957 original size:104 final size:101
Alignment explanation
Indices: 18169590--18169957 Score: 287
Period size: 106 Copynumber: 3.5 Consensus size: 101
18169580 GACAAAACCG
* * * * **
18169590 CGAGTCAAG-AAAATAAAGAGACCGGGACTAAACCGTAAGTCAGAGAAACAATAAAGATCAAGAT
1 CGAGTTAAGAAAAATAAAGAGA-CGAGATTAAACCG--AGTCA-AGAAACAATAAGGATCGGGAT
* * *
18169654 TAAATCACGACTTAGAATTAAAAAGATTAGGACTGAACCA
62 TAAATCACGACTTAGAATTAAAAAGATCAGGATTGAACTA
* * * * * * *
18169694 TGAGTTAAAAAAAATTAAAAAGACAAGGATTAAACTGCAAGTCAAAGAAATAATGAGGATCGGGA
1 CGAGTTAAGAAAAA-TAAAGAGACGA-GATTAAAC--CGAGTC-AAGAAACAATAAGGATCGGGA
* * * *
18169759 TTAAACCGCAACTTAGAATTAAAAAGATCAAGATTGAACCT-
61 TTAAATCACGACTTAGAATTAAAAAGATCAGGATTGAA-CTA
* * *
18169800 CGAGTCAAGAAAAATAAAGAGACCGGGATTAAACTGTAAGT-AA-AAACAGAATAAGGATCGGGA
1 CGAGTTAAGAAAAATAAAGAGA-CGAGATTAAACCG--AGTCAAGAAAC--AATAAGGATCGGGA
* * *
18169863 TTAAATCACGACTTAGAAGTAAAGAGATCGGGATTGAACTA
61 TTAAATCACGACTTAGAATTAAAAAGATCAGGATTGAACTA
*
18169904 CGAGTTAGAGAAAAATAAAGAGATTGAGATTAAAACACGAGTCAAGAAA-AATAA
1 CGAGTTA-AGAAAAATAAAGAGA-CGAGATT-AAAC-CGAGTCAAGAAACAATAA
18169958 AAAGATCGAA
Statistics
Matches: 204, Mismatches: 42, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
102 3 0.01
103 4 0.02
104 61 0.30
105 46 0.23
106 83 0.41
107 6 0.03
108 1 0.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.18
Consensus pattern (101 bp):
CGAGTTAAGAAAAATAAAGAGACGAGATTAAACCGAGTCAAGAAACAATAAGGATCGGGATTAAA
TCACGACTTAGAATTAAAAAGATCAGGATTGAACTA
Found at i:18170000 original size:35 final size:35
Alignment explanation
Indices: 18169961--18170114 Score: 102
Period size: 35 Copynumber: 4.4 Consensus size: 35
18169951 AAAATAAAAA
18169961 GATCGAATTAAACTGTAAGTCAGAGAAAGAATGAG
1 GATCGAATTAAACTGTAAGTCAGAGAAAGAATGAG
* * ** *
18169996 GATCGAGATTAAACCGTTA--CTTA-AAAGTAAAGA-
1 GATCGA-ATTAAACTGTAAGTCAGAGAAAG-AATGAG
* * * * * *
18170029 GATCGGGATTGAACCGTGAGTTAGAGAAATAATGAG
1 GATC-GAATTAAACTGTAAGTCAGAGAAAGAATGAG
* * *
18170065 G-CCGGGATTAAATTGTAAGTCAGAGAAAGAATGAG
1 GATC-GAATTAAACTGTAAGTCAGAGAAAGAATGAG
18170100 GATCGAAATTAAACT
1 GATCG-AATTAAACT
18170115 ATGACTTAGA
Statistics
Matches: 87, Mismatches: 23, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
33 18 0.21
34 7 0.08
35 40 0.46
36 22 0.25
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (35 bp):
GATCGAATTAAACTGTAAGTCAGAGAAAGAATGAG
Found at i:18170031 original size:104 final size:104
Alignment explanation
Indices: 18169919--18170659 Score: 600
Period size: 104 Copynumber: 7.1 Consensus size: 104
18169909 TAGAGAAAAA
* * * * * *
18169919 TAAAGAGATTGAGATTAAAACACGAGTCAAGAAAAATAAAAAGATCGAATTAAACTGTAAGTCAG
1 TAAAGAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAGAGATCGAATTAAACTGCAAGTCAG
* * * *
18169984 AGAAAGAATGAGGATCGAGATTAAACCGTTACTTAAAAG
66 AGAAATAATGAGGATCGAGATTAAACCATGACTTAGAAG
* * * * * ** * * *
18170023 TAAAGAGATCGGGATTGAACCGTGAGT-TAGAGAAATAATGAGGCCGGGATTAAATTGTAAGTCA
1 TAAAGAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAGAGATC-GAATTAAACTGCAAGTCA
* * *
18170087 GAGAAAGAATGAGGATCGAAATTAAACTATGACTTAGAAG
65 GAGAAATAATGAGGATCGAGATTAAACCATGACTTAGAAG
* * * * *
18170127 TAAAGAGATCGGGATTGAACCGCGAGTCAGAGAAAAATAAAGAGACCGACATTAAACCGTAAGTT
1 TAAAGAGATCGAGATTGAACCGCGAGTCA-AGAAAAATAAAGAGATCGA-ATTAAACTGCAAGTC
* * * * *
18170192 AGAGAAATAATAACGATCGGGATTAAA--TTGCAACTTAGAAT
64 AGAGAAATAATGAGGATCGAGATTAAACCATG--ACTTAGAAG
* * * **
18170233 TAAAAAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAAAAATCGAGATTAAACCACAAGTCA
1 TAAAGAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAGAGATCGA-ATTAAACTGCAAGTCA
* * * **
18170298 GAGAAATAAAGAGGATTGGGATTAAACCACAACTTAGAAG
65 GAGAAATAATGAGGATCGAGATTAAACCATGACTTAGAAG
* * * * * * * ** * *
18170338 TAAGGAAATCGGGATTGAACCACAAGTCAGAGAAAAATAAAGAGACCGGGATTAAACCACGAGTT
1 TAAAGAGATCGAGATTGAACCGCGAGTCA-AGAAAAATAAAGAGATC-GAATTAAACTGCAAGTC
* * * *
18170403 AGACAAATAATGAGGATCGAGATTAAATCATGATTTAGAAT
64 AGAGAAATAATGAGGATCGAGATTAAACCATGACTTAGAAG
* * *
18170444 TAAAAAGATCGAGATTGAATCGCGAGTCAA-AAAAATAAAGAGATCGAGATTAAA-TCGCAAGTT
1 TAAAGAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAGAGATCGA-ATTAAACT-GCAAGTC
*
18170507 AGAGAAATAATGAGGATC-AGGATTAAACCATGACTTAGAAT
64 AGAGAAATAATGAGGATCGA-GATTAAACCATGACTTAGAAG
* * * * * * * *
18170548 TAAAAAGATC-AGGATTGAATCACTAGTCAAG-AAAATAAAAAGACTGGGATTAAATTGCAAGTC
1 TAAAGAGATCGA-GATTGAACCGCGAGTCAAGAAAAATAAAGAGA-TCGAATTAAACTGCAAGTC
** ** * * *
18170611 AGAG-AATAACAACTATCGAGACTAAACCATGATTTAGAAT
64 AGAGAAATAATGAGGATCGAGATTAAACCATGACTTAGAAG
*
18170651 TAAAAAGAT
1 TAAAGAGAT
18170660 TGGGATTAAA
Statistics
Matches: 519, Mismatches: 100, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
103 52 0.10
104 215 0.41
105 87 0.17
106 164 0.32
107 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (104 bp):
TAAAGAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAGAGATCGAATTAAACTGCAAGTCAG
AGAAATAATGAGGATCGAGATTAAACCATGACTTAGAAG
Found at i:18170161 original size:245 final size:245
Alignment explanation
Indices: 18169722--18170171 Score: 620
Period size: 245 Copynumber: 1.8 Consensus size: 245
18169712 AAAGACAAGG
* * * *
18169722 ATTAAACTGCAAGTCAAAGAAATAATGAGGATCGGGATTAAACCGCAACTTAGAATTAAAAAGAT
1 ATTAAACTGCAAGTCAAAGAAAGAATGAGGATCGAGATTAAACCGCAACTTAAAAGTAAAAAGAT
18169787 CAAGATTGAACCTCGAGTCAAGAAAAATAAAGAGACCGGGATTAAACTGTAAGTAAAAACAGAAT
66 CAAGATTGAACCTCGAGTCAAGAAAAATAAAGAGACCGGGATTAAACTGTAAGTAAAAACAGAAT
** * *
18169852 AAGGATCGGGATTAAATCACGACTTAGAAGTAAAGAGATCGGGATTGAACTACGAGTTAGAGAAA
131 AAGGATCGAAATTAAATCACGACTTAGAAGTAAAGAGATCGGGATTGAACCACGAGTCAGAGAAA
18169917 AATAAAGAGATTGAGATTAAAACACGAGTCAAGAAAAATAAAAAGATCGA
196 AATAAAGAGATTGAGATTAAAACACGAGTCAAGAAAAATAAAAAGATCGA
* * ** *
18169967 ATTAAACTGTAAGTCAGAGAAAGAATGAGGATCGAGATTAAACCGTTACTTAAAAGTAAAGAGAT
1 ATTAAACTGCAAGTCAAAGAAAGAATGAGGATCGAGATTAAACCGCAACTTAAAAGTAAAAAGAT
** * * * * * *
18170032 CGGGATTGAACCGT-GAGT-TAGAGAAATAATGAGGCCGGGATTAAATTGTAAGTCAGAGAA-AG
66 CAAGATTGAACC-TCGAGTCAAGAAAAATAAAGAGACCGGGATTAAACTGTAAGT-A-AAAACAG
* * *
18170094 AATGAGGATCGAAATTAAA-CTATGACTTAGAAGTAAAGAGATCGGGATTGAACCGCGAGTCAGA
128 AATAAGGATCGAAATTAAATC-ACGACTTAGAAGTAAAGAGATCGGGATTGAACCACGAGTCAGA
18170158 GAAAAATAAAGAGA
192 GAAAAATAAAGAGA
18170172 CCGACATTAA
Statistics
Matches: 177, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
244 31 0.18
245 142 0.80
246 4 0.02
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.20
Consensus pattern (245 bp):
ATTAAACTGCAAGTCAAAGAAAGAATGAGGATCGAGATTAAACCGCAACTTAAAAGTAAAAAGAT
CAAGATTGAACCTCGAGTCAAGAAAAATAAAGAGACCGGGATTAAACTGTAAGTAAAAACAGAAT
AAGGATCGAAATTAAATCACGACTTAGAAGTAAAGAGATCGGGATTGAACCACGAGTCAGAGAAA
AATAAAGAGATTGAGATTAAAACACGAGTCAAGAAAAATAAAAAGATCGA
Found at i:18170273 original size:36 final size:35
Alignment explanation
Indices: 18170233--18170412 Score: 103
Period size: 36 Copynumber: 5.1 Consensus size: 35
18170223 AACTTAGAAT
* * * *
18170233 TAAAAAGATCGAGATTGAACCGCGAGTCAAGAAAAA
1 TAAAAAAATCGAGATTAAACCACAAGTC-AGAAAAA
*
18170269 TAAAAAAATCGAGATTAAACCACAAGTCAGAGAAA
1 TAAAAAAATCGAGATTAAACCACAAGTCAGAAAAA
** * * * * *
18170304 TAAAGAGGATTGGGATTAAACCACAACTTAG--AAG
1 TAAA-AAAATCGAGATTAAACCACAAGTCAGAAAAA
** * *
18170338 TAAGGAAATCGGGATTGAACCACAAGTCAGAGAAAAA
1 TAAAAAAATCGAGATTAAACCACAAGTC--AGAAAAA
* * * * * * *
18170375 TAAAGAGACCGGGATTAAACCACGAGTTAGACAAA
1 TAAAAAAATCGAGATTAAACCACAAGTCAGAAAAA
18170410 TAA
1 TAA
18170413 TGAGGATCGA
Statistics
Matches: 111, Mismatches: 28, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
33 17 0.15
34 5 0.05
35 21 0.19
36 44 0.40
37 24 0.22
ACGTcount: A:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (35 bp):
TAAAAAAATCGAGATTAAACCACAAGTCAGAAAAA
Found at i:18170335 original size:211 final size:209
Alignment explanation
Indices: 18170081--18170659 Score: 653
Period size: 211 Copynumber: 2.8 Consensus size: 209
18170071 ATTAAATTGT
* ** *
18170081 AAGTCAGAGAAAGAATGAGGATCGAAATTAAACTATGACTTAGAAGTAAAGAGATCGGGATTGAA
1 AAGTCAGAGAAATAATGAGGATCGGGATTAAACCATGACTTAGAAGTAAAGAGATCGGGATTGAA
* * ** *
18170146 CCGCGAGTCAGAGAAAAATAAAGAGACCGACATTAAACCGTAAGTTAGAGAAATAATAACGATCG
66 CCACAAGTCAGAGAAAAATAAAGAGACCGACATTAAACCACAAGTTAGACAAATAATAACGATCG
*
18170211 GGATTAAATTGCA-ACTTAGAATTAAAAAGATCGAGATTGAACCGCGAGTCAAGAAAAATAAAAA
131 AGATTAAA-T-CAGACTTAGAATTAAAAAGATCGAGATTGAACCGCGAGTCAA-AAAAATAAAAA
18170275 AATCGAGATTAAACCAC
193 AATCGAGATTAAACCAC
* * ** * *
18170292 AAGTCAGAGAAATAAAGAGGATTGGGATTAAACCACAACTTAGAAGTAAGGAAATCGGGATTGAA
1 AAGTCAGAGAAATAATGAGGATCGGGATTAAACCATGACTTAGAAGTAAAGAGATCGGGATTGAA
** * * *
18170357 CCACAAGTCAGAGAAAAATAAAGAGACCGGGATTAAACCACGAGTTAGACAAATAATGAGGATCG
66 CCACAAGTCAGAGAAAAATAAAGAGACCGACATTAAACCACAAGTTAGACAAATAATAACGATCG
* * * *
18170422 AGATTAAATCATGATTTAGAATTAAAAAGATCGAGATTGAATCGCGAGTCAAAAAAATAAAGAGA
131 AGATTAAATCA-GACTTAGAATTAAAAAGATCGAGATTGAACCGCGAGTCAAAAAAATAAAAAAA
* *
18170487 TCGAGATTAAATCGC
195 TCGAGATTAAACCAC
* * * * *
18170502 AAGTTAGAGAAATAATGAGGATCAGGATTAAACCATGACTTAGAATTAAAAAGATCAGGATTGAA
1 AAGTCAGAGAAATAATGAGGATCGGGATTAAACCATGACTTAGAAGTAAAGAGATCGGGATTGAA
* * * * ** *** * * * *
18170567 TCACTAGTCA-AG-AAAATAAAAAGACTGGGATTAAATTGCAAGTCAGA-GAATAACAACTATCG
66 CCACAAGTCAGAGAAAAATAAAGAGACCGACATTAAACCACAAGTTAGACAAATAATAACGATCG
* * *
18170629 AGACTAAACCATGATTTAGAATTAAAAAGAT
131 AGATTAAATCA-GACTTAGAATTAAAAAGAT
18170660 TGGGATTAAA
Statistics
Matches: 312, Mismatches: 54, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
207 39 0.12
208 28 0.09
209 4 0.01
210 87 0.28
211 154 0.49
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (209 bp):
AAGTCAGAGAAATAATGAGGATCGGGATTAAACCATGACTTAGAAGTAAAGAGATCGGGATTGAA
CCACAAGTCAGAGAAAAATAAAGAGACCGACATTAAACCACAAGTTAGACAAATAATAACGATCG
AGATTAAATCAGACTTAGAATTAAAAAGATCGAGATTGAACCGCGAGTCAAAAAAATAAAAAAAT
CGAGATTAAACCAC
Found at i:18170351 original size:315 final size:312
Alignment explanation
Indices: 18169939--18170588 Score: 779
Period size: 315 Copynumber: 2.1 Consensus size: 312
18169929 GAGATTAAAA
* *** *
18169939 CACGAGTCAAGAAAAATAAAAAGATCGAATTAAACTGTAAGTCAGAGAAAGAATGAGGATCGAGA
1 CACGAGTCAAGAAAAATAAAAAAATCGAATTAAACCACAAGTCAGAGAAAGAAAGAGGATCGAGA
*** * *** * * *
18170004 TTAAACCGTTACTTAAAAGTAAAGAGATCGGGATTGAACCGTGAGTTAGAG-AAATAATGAGGCC
66 TTAAACCACAACTTAAAAGTAAAGAAATCGGGATTGAACCACAAGTCAGAGAAAATAAAGAGACC
**** * *
18170068 GGGATTAAATTGTAAGTCAGAGAAAGAATGAGGATCGAAATTAAA-CTATGACTTAGAAGTAAAG
131 GGGATTAAACCACAAGTCAGACAAAGAATGAGGATCGAAATTAAATC-ATGACTTAGAAGTAAAA
* *
18170132 AGATCGGGATTGAACCGCGAGTCAGAGAAAAATAAAGAGACCGACATTAAACCGTAAGTTAGAGA
195 AGATCGAGATTGAACCGCGAGTCA-A-AAAAATAAAGAGACCGACATTAAACCGCAAGTTAGAGA
* *
18170197 AATAATAACGATCGGGATTAAATTGCA-ACTTAGAATTAAAAAGATC-GAGATTGAAC
258 AATAATAACGATCAGGATTAAA--CCAGACTTAGAATTAAAAAGATCAG-GATTGAAC
* * * *
18170253 CGCGAGTCAAGAAAAATAAAAAAATCGAGATTAAACCACAAGTCAGAGAAATAAAGAGGATTGGG
1 CACGAGTCAAGAAAAATAAAAAAATCGA-ATTAAACCACAAGTCAGAGAAAGAAAGAGGATCGAG
* *
18170318 ATTAAACCACAACTTAGAAGTAAGGAAATCGGGATTGAACCACAAGTCAGAGAAAAATAAAGAGA
65 ATTAAACCACAACTTAAAAGTAAAGAAATCGGGATTGAACCACAAGTCAGAG-AAAATAAAGAGA
* * * * * *
18170383 CCGGGATTAAACCACGAGTTAGACAAATAATGAGGATCGAGATTAAATCATGATTTAGAATTAAA
129 CCGGGATTAAACCACAAGTCAGACAAAGAATGAGGATCGAAATTAAATCATGACTTAGAAGTAAA
* * * *
18170448 AAGATCGAGATTGAATCGCGAGTCAAAAAAATAAAGAGATCGAGATTAAATCGCAAGTTAGAGAA
194 AAGATCGAGATTGAACCGCGAGTCAAAAAAATAAAGAGACCGACATTAAACCGCAAGTTAGAGAA
* * *
18170513 ATAATGAGGATCAGGATTAAACCATGACTTAGAATTAAAAAGATCAGGATTGAAT
259 ATAATAACGATCAGGATTAAACCA-GACTTAGAATTAAAAAGATCAGGATTGAAC
*
18170568 CACTAGTCAAG-AAAATAAAAA
1 CACGAGTCAAGAAAAATAAAAA
18170589 GACTGGGATT
Statistics
Matches: 283, Mismatches: 46, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
313 2 0.01
314 36 0.13
315 159 0.56
316 2 0.01
317 83 0.29
318 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (312 bp):
CACGAGTCAAGAAAAATAAAAAAATCGAATTAAACCACAAGTCAGAGAAAGAAAGAGGATCGAGA
TTAAACCACAACTTAAAAGTAAAGAAATCGGGATTGAACCACAAGTCAGAGAAAATAAAGAGACC
GGGATTAAACCACAAGTCAGACAAAGAATGAGGATCGAAATTAAATCATGACTTAGAAGTAAAAA
GATCGAGATTGAACCGCGAGTCAAAAAAATAAAGAGACCGACATTAAACCGCAAGTTAGAGAAAT
AATAACGATCAGGATTAAACCAGACTTAGAATTAAAAAGATCAGGATTGAAC
Found at i:18173627 original size:3 final size:3
Alignment explanation
Indices: 18173621--18173646 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18173611 CTTCTTTTGT
18173621 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18173647 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18174522 original size:13 final size:13
Alignment explanation
Indices: 18174506--18174535 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18174496 TTTCTTTTTC
18174506 TTTTTATTTTCTA
1 TTTTTATTTTCTA
*
18174519 TTTTTATTTTTTA
1 TTTTTATTTTCTA
18174532 TTTT
1 TTTT
18174536 CTTTATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTTCTA
Found at i:18177972 original size:17 final size:18
Alignment explanation
Indices: 18177941--18177974 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18177931 AGAGAATGGC
*
18177941 AATGAAAAAGGAAAGAAA
1 AATGAAAAAGCAAAGAAA
18177959 AATGAAAAA-CAAAGAA
1 AATGAAAAAGCAAAGAA
18177975 CATGGTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (18 bp):
AATGAAAAAGCAAAGAAA
Found at i:18181268 original size:1 final size:1
Alignment explanation
Indices: 18181262--18181335 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
18181252 ATAAGAGAAG
** * * * * * * *
18181262 AAAAAAAAGGAAAAAAAAAAGAAAAAGACAAAAAAAGAAAAAAAAAAGAAAAAAAAAAAGAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
18181327 GAAAAAAAA
1 AAAAAAAAA
18181336 TAATGATAAT
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.01, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:18181276 original size:10 final size:9
Alignment explanation
Indices: 18181259--18181335 Score: 77
Period size: 9 Copynumber: 8.2 Consensus size: 9
18181249 CAAATAAGAG
18181259 AAGAAAAAA
1 AAGAAAAAA
18181268 AAGGAAAAAA
1 AA-GAAAAAA
*
18181278 AA-AAGAAA
1 AAGAAAAAA
18181286 AAGACAAAAA
1 AAGA-AAAAA
18181296 AAGAAAAAAAA
1 AAG--AAAAAA
18181307 AAGAAAAAA
1 AAGAAAAAA
*
18181316 AA-AAAGAGA
1 AAGAAA-AAA
18181325 AAGAAAAAA
1 AAGAAAAAA
18181334 AA
1 AA
18181336 TAATGATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
8 10 0.18
9 19 0.33
10 19 0.33
11 8 0.14
12 1 0.02
ACGTcount: A:0.86, C:0.01, G:0.13, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:18181288 original size:18 final size:18
Alignment explanation
Indices: 18181265--18181335 Score: 88
Period size: 18 Copynumber: 3.8 Consensus size: 18
18181255 AGAGAAGAAA
*
18181265 AAAAAGGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAAG
*
18181283 AAAAAGACAAAAAAAGAAAAA
1 AAAAAG--AAAAAAA-AAAAG
18181304 AAAAAGAAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAAG
*
18181322 AGAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
18181336 TAATGATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 23 0.50
19 7 0.15
20 6 0.13
21 10 0.22
ACGTcount: A:0.86, C:0.01, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAAG
Found at i:18181294 original size:27 final size:26
Alignment explanation
Indices: 18181263--18181335 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 26
18181253 TAAGAGAAGA
18181263 AAAAAAAGGAAAAAAAAAAGAAAAAG
1 AAAAAAAGGAAAAAAAAAAGAAAAAG
*
18181289 ACAAAAAAAGAAAAAAAAAAGAAAAA-
1 A-AAAAAAGGAAAAAAAAAAGAAAAAG
*
18181315 AAAAAAGAGAAAGAAAAAAAA
1 AAAAAA-AGGAA-AAAAAAAA
18181336 TAATGATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 31 0.76
ACGTcount: A:0.86, C:0.01, G:0.12, T:0.00
Consensus pattern (26 bp):
AAAAAAAGGAAAAAAAAAAGAAAAAG
Found at i:18181316 original size:39 final size:39
Alignment explanation
Indices: 18181257--18181335 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 39
18181247 ACCAAATAAG
*
18181257 AGAAGAAAAAAAAGGAAAAAAAAAAGAAAAAGACAAAAAA
1 AGAAGAAAAAAAAGAAAAAAAAAAAGAAAAAGA-AAAAAA
*
18181297 AGAA-AAAAAAAAGAAAAAAAAAAAGAGAAAGAAAAAAA
1 AGAAGAAAAAAAAGAAAAAAAAAAAGAAAAAGAAAAAAA
18181335 A
1 A
18181336 TAATGATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 7 0.19
39 26 0.70
40 4 0.11
ACGTcount: A:0.85, C:0.01, G:0.14, T:0.00
Consensus pattern (39 bp):
AGAAGAAAAAAAAGAAAAAAAAAAAGAAAAAGAAAAAAA
Found at i:18186464 original size:16 final size:16
Alignment explanation
Indices: 18186424--18186469 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
18186414 AATGTAAAAA
*
18186424 AAACAAATAAATAAAT
1 AAACAAGTAAATAAAT
**
18186440 AAATGAGTAAATAAAT
1 AAACAAGTAAATAAAT
18186456 AAACAAGTATAATA
1 AAACAAGTA-AATA
18186470 TATGACATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (16 bp):
AAACAAGTAAATAAAT
Found at i:18188363 original size:14 final size:13
Alignment explanation
Indices: 18188301--18188370 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 13
18188291 ATTTTGGATT
*
18188301 TTTTAGGTTTTGA
1 TTTTAGGGTTTGA
* *
18188314 ATTTAGGGTTTCAA
1 TTTTAGGGTTT-GA
**
18188328 TTTTAAAGTTTGGA
1 TTTTAGGGTTT-GA
18188342 TGTTTTAGGGATTTGA
1 --TTTTAGGG-TTTGA
18188358 TTTTAGGGTTTGA
1 TTTTAGGGTTTGA
18188371 AAGGTTTAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
16 8 0.19
17 3 0.07
ACGTcount: A:0.21, C:0.01, G:0.26, T:0.51
Consensus pattern (13 bp):
TTTTAGGGTTTGA
Found at i:18188421 original size:30 final size:30
Alignment explanation
Indices: 18188387--18188449 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
18188377 TAATATTTTG
* *
18188387 TTTTTAAAGTTTAGAGGGTTTAGGGTTTCA
1 TTTTTAAAGTTTAAAGGGTTTAGGGTTTAA
*
18188417 TTTTTAAGGTTTAAAGGGTTTAGGGTTTAA
1 TTTTTAAAGTTTAAAGGGTTTAGGGTTTAA
18188447 TTT
1 TTT
18188450 AGGGTTTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (30 bp):
TTTTTAAAGTTTAAAGGGTTTAGGGTTTAA
Found at i:18188494 original size:13 final size:13
Alignment explanation
Indices: 18188476--18188500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18188466 AGGTTTAATA
18188476 GTTTTAGGGTTTC
1 GTTTTAGGGTTTC
18188489 GTTTTAGGGTTT
1 GTTTTAGGGTTT
18188501 GAAGGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.32, T:0.56
Consensus pattern (13 bp):
GTTTTAGGGTTTC
Found at i:18190407 original size:32 final size:32
Alignment explanation
Indices: 18190371--18190431 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
18190361 AACCATTGAA
*
18190371 CTTTGGTTGCGGAATATAAAATTTCTATTAGG
1 CTTTGGTTGCGGAATATAAAAATTCTATTAGG
*
18190403 CTTTGGTTGTGGAATATAAAAATTCTATT
1 CTTTGGTTGCGGAATATAAAAATTCTATT
18190432 TAATGTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (32 bp):
CTTTGGTTGCGGAATATAAAAATTCTATTAGG
Found at i:18193920 original size:2 final size:2
Alignment explanation
Indices: 18193915--18193940 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18193905 ATATATATAT
18193915 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
18193941 AAGACCTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:18195787 original size:42 final size:42
Alignment explanation
Indices: 18195700--18195787 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
18195690 TGATTTATGA
* * * * *
18195700 TTTTTTGTTGTTGTTTTTAATTGCTTAAATTTATAGTTAATG
1 TTTTTTGCTATTGTTATTAATTGCTCAAATTTATAGTTAAGG
* *
18195742 TTTTTTGCTATTGTTATTAATTGCTCAAATTTATATTTGAGG
1 TTTTTTGCTATTGTTATTAATTGCTCAAATTTATAGTTAAGG
18195784 TTTT
1 TTTT
18195788 CTCTTAATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.60
Consensus pattern (42 bp):
TTTTTTGCTATTGTTATTAATTGCTCAAATTTATAGTTAAGG
Found at i:18195863 original size:42 final size:42
Alignment explanation
Indices: 18195789--18195904 Score: 151
Period size: 42 Copynumber: 2.8 Consensus size: 42
18195779 TGAGGTTTTC
* * * *
18195789 TCTTAATTGATCGAAATAATAGTTAAGATTTTCTACTATTGT
1 TCTTAATTGCTCAAAATTATAGTTAGGATTTTCTACTATTGT
* * *
18195831 TCTTAATTGCTCAAAATTATAATTAGGGTTTTCTGCTATTGT
1 TCTTAATTGCTCAAAATTATAGTTAGGATTTTCTACTATTGT
* *
18195873 TCTTAATTACTCAAATTTATAGTTAGGATTTT
1 TCTTAATTGCTCAAAATTATAGTTAGGATTTT
18195905 TTTTGTTTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (42 bp):
TCTTAATTGCTCAAAATTATAGTTAGGATTTTCTACTATTGT
Found at i:18195925 original size:15 final size:15
Alignment explanation
Indices: 18195905--18195934 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18195895 TTAGGATTTT
18195905 TTTTGTTTAAACATA
1 TTTTGTTTAAACATA
*
18195920 TTTTGTTTAGACATA
1 TTTTGTTTAAACATA
18195935 ATTGTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (15 bp):
TTTTGTTTAAACATA
Found at i:18196455 original size:18 final size:18
Alignment explanation
Indices: 18196432--18196487 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
18196422 AGACCTTCAG
*
18196432 TTATAACAAAGTAAAAGC
1 TTATAACAAAGTAAAAGA
**
18196450 TTATAAC--AG--AAATT
1 TTATAACAAAGTAAAAGA
18196464 TTATAACAAAGTAAAAGA
1 TTATAACAAAGTAAAAGA
18196482 TTATAA
1 TTATAA
18196488 TAGAAATTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 10 0.33
16 4 0.13
18 16 0.53
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (18 bp):
TTATAACAAAGTAAAAGA
Found at i:18196468 original size:32 final size:32
Alignment explanation
Indices: 18196432--18196495 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18196422 AGACCTTCAG
*
18196432 TTATAACAAAGTAAAAGCTTATAACAGAAATT
1 TTATAACAAAGTAAAAGATTATAACAGAAATT
*
18196464 TTATAACAAAGTAAAAGATTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAACAGAAATT
18196496 AGATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (32 bp):
TTATAACAAAGTAAAAGATTATAACAGAAATT
Found at i:18199973 original size:6 final size:6
Alignment explanation
Indices: 18199940--18200006 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
18199930 ATCATTATTT
*
18199940 TTTTTC TTTCTC TTTCTT- TCTTTT- TTTTTC TTTTT- TTTTATC TTTTTC
1 TTTTTC TTTTTC TTT-TTC T-TTTTC TTTTTC TTTTTC TTTT-TC TTTTTC
*
18199988 TTTTT- TTTATC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TT
18200007 CTCTTATTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 12 0.24
6 32 0.63
7 7 0.14
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:18199985 original size:18 final size:17
Alignment explanation
Indices: 18199937--18200006 Score: 88
Period size: 18 Copynumber: 4.0 Consensus size: 17
18199927 ATTATCATTA
*
18199937 TTTTTTTTCTTTCTCTT
1 TTTTTTTTCTTTTTCTT
18199954 TCTTTCTTTT-TTTTTCTT
1 T-TTT-TTTTCTTTTTCTT
18199972 TTTTTTTATCTTTTTCTT
1 TTTTTTT-TCTTTTTCTT
*
18199990 TTTTTTATCTTTTTCTT
1 TTTTTTTTCTTTTTCTT
18200007 CTCTTATTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.06
17 15 0.32
18 25 0.53
19 4 0.09
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCTT
Found at i:18199991 original size:17 final size:16
Alignment explanation
Indices: 18199937--18200006 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
18199927 ATTATCATTA
*
18199937 TTTTTTTTCTTTCTCT
1 TTTTTTTTCTTTTTCT
*
18199953 TTCTTTCTTTTTTTTTCTT
1 TT-TTT-TTTCTTTTTC-T
18199972 TTTTTTTATCTTTTTCT
1 TTTTTTT-TCTTTTTCT
18199989 TTTTTTTATCTTTTTCT
1 TTTTTTT-TCTTTTTCT
18200006 T
1 T
18200007 CTCTTATTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 2 0.04
17 24 0.51
18 18 0.38
19 3 0.06
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCT
Found at i:18200011 original size:28 final size:29
Alignment explanation
Indices: 18199939--18200011 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
18199929 TATCATTATT
18199939 TTTTTTCTTTCTCTTTCTTTCTTTTTTTTTC
1 TTTTTTC-TTCTC-TTCTTTCTTTTTTTTTC
* *
18199970 TTTTTTTTTATCTT-TTTCTTTTTTTTATC
1 TTTTTTCTTCTCTTCTTTCTTTTTTTT-TC
18199999 -TTTTTCTTCTCTT
1 TTTTTTCTTCTCTT
18200012 ATTTGGTGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 23 0.62
29 4 0.11
30 4 0.11
31 6 0.16
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTTCTTCTCTTCTTTCTTTTTTTTTC
Found at i:18201526 original size:12 final size:12
Alignment explanation
Indices: 18201511--18201541 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18201501 CAAAATTAAA
18201511 AATAAAAAAATT
1 AATAAAAAAATT
*
18201523 AATAAAACAATT
1 AATAAAAAAATT
18201535 AATAAAA
1 AATAAAA
18201542 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAAAAAATT
Found at i:18202281 original size:15 final size:16
Alignment explanation
Indices: 18202261--18202299 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
18202251 TTTTCAACCA
*
18202261 AAAAAAAGT-AAAAAT
1 AAAAAAAGTAAAAAAC
18202276 AAAAAAA-TAAAAAAC
1 AAAAAAAGTAAAAAAC
18202291 AAAAAAAGT
1 AAAAAAAGT
18202300 TCACACACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (16 bp):
AAAAAAAGTAAAAAAC
Found at i:18204450 original size:21 final size:21
Alignment explanation
Indices: 18204424--18204466 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
18204414 CAATACTGGA
18204424 AAGGTCACTAAGTCTTACCTT
1 AAGGTCACTAAGTCTTACCTT
18204445 AAGGTCACTAAGTCTTACCTT
1 AAGGTCACTAAGTCTTACCTT
18204466 A
1 A
18204467 GTCAGCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (21 bp):
AAGGTCACTAAGTCTTACCTT
Found at i:18207560 original size:14 final size:16
Alignment explanation
Indices: 18207517--18207564 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
18207507 TAGAAGATTG
* *
18207517 AGAGAAAGC-CAAGAA
1 AGAGAAAGCAAAAAAA
18207532 AGAGAAAGCAAAAAAA
1 AGAGAAAGCAAAAAAA
*
18207548 AGAG-AAGAAAAAAAA
1 AGAGAAAGCAAAAAAA
18207563 AG
1 AG
18207565 TCAGAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 21 0.72
16 8 0.28
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAGAAAGCAAAAAAA
Found at i:18211349 original size:18 final size:18
Alignment explanation
Indices: 18211306--18211349 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
18211296 ATGATATCAT
*
18211306 GCAATACATTAAAAGCCA
1 GCAATACCTTAAAAGCCA
18211324 GCAATACCTTAAAAGCCA
1 GCAATACCTTAAAAGCCA
18211342 GCAATACC
1 GCAATACC
18211350 CAAAACATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.16
Consensus pattern (18 bp):
GCAATACCTTAAAAGCCA
Found at i:18213650 original size:99 final size:97
Alignment explanation
Indices: 18213370--18213785 Score: 387
Period size: 99 Copynumber: 4.4 Consensus size: 97
18213360 GATGAGATTC
* * * *
18213370 TTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTC---A--AGATTTTTAAAGTTGTTGAGCC
1 TTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGATTTTTAAAATTGTTGAGCC
* *
18213430 TCTGCTGAGATGAGCTTTTTCA-A-GA--TCT
66 TCTGCTGAGAGGAGCTTTTTCAGATGATTTTT
* * *
18213458 TTAAAGTTGTTAAGCCTCTACTGAGAGGAGCTTTTTC-A-AT---ATTTTTAAAATTGTTAAGCC
1 TTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGATTTTTAAAATTGTTGAGCC
* * **
18213518 TTTGCTAAGAGGAGCTTTTTCAAGAT-AAATTT
66 TCTGCTGAGAGGAGCTTTTTC-AGATGATTTTT
* *
18213550 TTAAAGTTGTTGAGCCTCTACTGAAAAGAGCTTTTCCAAGATGAGATTTTTTTAAAATTGTTGAG
1 TTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGA--TTTTTAAAATTGTTGAG
* *
18213615 CCTCTGTTGAGATGAGCTTTTTTCAGATGATTTTTT
64 CCTCTGCTGAGAGGAGC-TTTTTCAGATGA-TTTTT
* * * * * * *
18213651 TTAAAATTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCAAAGATGAGAATTTTAAAGTTATTGAGC
1 TTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTTCCAAGATGAGATTTTTAAAATTGTTGAGC
18213716 CTCTGCTGAGAGGAGCTTTTTTCAGAT-ATTTTTT
65 CTCTGCTGAGAGGAGC-TTTTTCAGATGA-TTTTT
* * * *
18213750 TTAAAGTTGTTGAACCTATGCTAAGAGGAGCCTTTT
1 TTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTT
18213786 AAATTTTCAA
Statistics
Matches: 275, Mismatches: 35, Indels: 25
0.82 0.10 0.07
Matches are distributed among these distances:
88 70 0.25
89 2 0.01
90 2 0.01
92 35 0.13
93 1 0.00
94 2 0.01
97 1 0.00
99 72 0.26
100 47 0.17
101 28 0.10
102 15 0.05
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (97 bp):
TTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGATTTTTAAAATTGTTGAGCC
TCTGCTGAGAGGAGCTTTTTCAGATGATTTTT
Found at i:18213670 original size:50 final size:45
Alignment explanation
Indices: 18213365--18213785 Score: 355
Period size: 44 Copynumber: 8.9 Consensus size: 45
18213355 AAATAGATGA
* *
18213365 GATTCTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAA-
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAT
*
18213409 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAA-
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAT
* * *
18213453 GATCTTTAAAGTTGTTAAGCCTCTACTGAGAGGAGCTTTTTCAAT
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAT
* * * *
18213498 -ATTTTTAAAATTGTTAAGCCTTTGCTAAGAGGAGCTTTTTCAAGAT
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A-AT
* * * * *
18213544 AAATTTTTAAAGTTGTTGAGCCTCTACTGAAAAGAGCTTTTCCAAGAT
1 -GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A-AT
* * *
18213592 GAGATTTTTTTAAAATTGTTGAGCCTCTGTTGAGATGAGCTTTTTTCAGAT
1 --GA--TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA-AT
* * *
18213643 GATTTTTTTTAAAATTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCAAAGAT
1 GA---TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC--A-AT
* *
18213694 GAGAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTTCAGAT
1 --GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA-AT
* * * *
18213743 -ATTTTTTTTAAAGTTGTTGAACCTATGCTAAGAGGAGCCTTTT
1 GA---TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT
18213786 AAATTTTCAA
Statistics
Matches: 317, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
44 117 0.37
45 1 0.00
46 3 0.01
48 42 0.13
49 42 0.13
50 63 0.20
51 42 0.13
52 5 0.02
53 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (45 bp):
GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAT
Found at i:18214008 original size:23 final size:23
Alignment explanation
Indices: 18213978--18214029 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
18213968 ATTATTATCA
*
18213978 TTTTTTTTTCTTT--CTCTTTTT
1 TTTTTTTTTTTTTGCCTCTTTTT
18213999 TTTTTTTTTTTTTGCCTCTTTTT
1 TTTTTTTTTTTTTGCCTCTTTTT
*
18214022 TTCTTTTT
1 TTTTTTTT
18214030 CCTTCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 12 0.44
23 15 0.56
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (23 bp):
TTTTTTTTTTTTTGCCTCTTTTT
Found at i:18214020 original size:18 final size:18
Alignment explanation
Indices: 18213980--18214044 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
18213970 TATTATCATT
* * *
18213980 TTTTTTTCTTTCTCTTTTT
1 TTTTTTTCTTTTTC-CTTC
*
18213999 TTTTTTTTTTTTTGCC-TC
1 TTTTTTTCTTTTT-CCTTC
18214017 TTTTTTTCTTTTTCCTTC
1 TTTTTTTCTTTTTCCTTC
*
18214035 TTTTCTTCTT
1 TTTTTTTCTT
18214045 CTCTTATCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.05
18 24 0.63
19 11 0.29
20 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTTTCTTTTTCCTTC
Found at i:18215024 original size:11 final size:11
Alignment explanation
Indices: 18215008--18215035 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18214998 AAAAAAAAAA
18215008 TTTTTTTGAAT
1 TTTTTTTGAAT
18215019 TTTTTTTGAAT
1 TTTTTTTGAAT
18215030 TTTTTT
1 TTTTTT
18215036 ATATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:18215481 original size:214 final size:205
Alignment explanation
Indices: 18215167--18215733 Score: 741
Period size: 214 Copynumber: 2.7 Consensus size: 205
18215157 AAAAATAAGG
* * *
18215167 AAAGGAAATTTTATCCAATGATGGGATTTAAAGGTATTCCGAGTAGTGATACCTATGAAATCTCG
1 AAAGGAAATTTTATCCAATGATGAGATTTAAAGGTATTCCGAGTAGTGATGCCTATGAAATCTCA
18215232 AAGTGAAGAGAATTTTTTAAAATACTACCAGTGTATCGGAGTATTTATAAAAATTTTTCAATACA
66 AAGTGAAGAGAATTTTTTAAAATACTACCAGTGTATCGGAGTATTTATAAAAATTTTTCAATACA
*
18215297 ACAAAAATTTTCTTTTTGTTAACAATAAATAAAAATTAATTAGTAAATTAAGAATAAGTAATATA
131 ACAAAAATTTTCTTTTTGTTAACAATAAATAAAAATTAATTAATAAATTAAGAATAAGTAATATA
18215362 AACAAGGAAA
196 AACAAGGAAA
*
18215372 AAAGGAAATTTTATCCAATGATGTGATTTAAAGGTATTCCGAAGTAGTGATGCCTATGAAATCTC
1 AAAGGAAATTTTATCCAATGATGAGATTTAAAGGTATTCCG-AGTAGTGATGCCTATGAAATCTC
* *
18215437 TAAATCTCTAGGTG-AGAAGAATTTTTTTAAATACTACCAGTGTATTGGAGTATTTATAAAAATT
65 --AA-----A-GTGAAG-AGAATTTTTTAAAATACTACCAGTGTATCGGAGTATTTATAAAAATT
*
18215501 TTTCAATACAATAAAAATTTTCTTTTTGTTAACAATAAATAAAAATTAATTAATAAATTAAGAAT
121 TTTCAATACAACAAAAATTTTCTTTTTGTTAACAATAAATAAAAATTAATTAATAAATTAAGAAT
18215566 AAGTAATATAAACAAGGAAA
186 AAGTAATATAAACAAGGAAA
* * * *
18215586 AAA-GAAATTTTATCCAATGATGAGATTCTAAAAGTATTCCGAGTAGAGATG-CT-TTAAATCCC
1 AAAGGAAATTTTATCCAATGATGAGATT-TAAAGGTATTCCGAGTAGTGATGCCTATGAAATCTC
* * * * * * * **
18215648 TAGGTG-AGAAGATTTTTTTTTAAAATATTACCAATGTATTGGAATATTTATAGAAAA-ACTTCA
65 AAAGTGAAG-AGA--ATTTTTTAAAATACTACCAGTGTATCGGAGTATTTATA-AAAATTTTTCA
* *
18215711 ATACAATAAAAATTCTTTTTTTT
126 ATACAACAAAAATT-TTCTTTTT
18215734 TCTTCAAAAT
Statistics
Matches: 325, Mismatches: 22, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
203 9 0.03
205 91 0.28
206 33 0.10
208 1 0.00
209 1 0.00
211 7 0.02
212 2 0.01
213 35 0.11
214 146 0.45
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (205 bp):
AAAGGAAATTTTATCCAATGATGAGATTTAAAGGTATTCCGAGTAGTGATGCCTATGAAATCTCA
AAGTGAAGAGAATTTTTTAAAATACTACCAGTGTATCGGAGTATTTATAAAAATTTTTCAATACA
ACAAAAATTTTCTTTTTGTTAACAATAAATAAAAATTAATTAATAAATTAAGAATAAGTAATATA
AACAAGGAAA
Found at i:18220516 original size:23 final size:26
Alignment explanation
Indices: 18220469--18220516 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
18220459 AAAATATCAA
*
18220469 TTATTATTATTTTTCATTTTAGTTTT
1 TTATTATTATTTTTCATATTAGTTTT
18220495 TTATTATT-TTTTT-ATATT-GTTT
1 TTATTATTATTTTTCATATTAGTTT
18220517 AAATCAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 4 0.19
25 5 0.24
26 8 0.38
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (26 bp):
TTATTATTATTTTTCATATTAGTTTT
Found at i:18220959 original size:17 final size:17
Alignment explanation
Indices: 18220937--18220978 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
18220927 TACACAAAAT
18220937 AAAGAAAATAAAAA-AA
1 AAAGAAAATAAAAAGAA
18220953 AATAGAAAATAAAAAGAA
1 AA-AGAAAATAAAAAGAA
18220971 AAAGAAAA
1 AAAGAAAA
18220979 GGGAAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAGAAAATAAAAAGAA
Found at i:18221866 original size:12 final size:12
Alignment explanation
Indices: 18221851--18221876 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18221841 TAATAATAAT
18221851 AATAATAAACAA
1 AATAATAAACAA
18221863 AATAATAAACAA
1 AATAATAAACAA
18221875 AA
1 AA
18221877 GAAAAAGAAA
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAATAAACAA
Found at i:18221870 original size:3 final size:3
Alignment explanation
Indices: 18221833--18221858 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18221823 TTTTGTTTTA
18221833 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18221859 ACAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18223377 original size:20 final size:20
Alignment explanation
Indices: 18223352--18223389 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18223342 ATATTTTGTT
18223352 TAAAAAAAA-AAGAAAAAATG
1 TAAAAAAAAGAA-AAAAAATG
18223372 TAAAAAAAAGAAAAAAAA
1 TAAAAAAAAGAAAAAAAA
18223390 AGGGAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (20 bp):
TAAAAAAAAGAAAAAAAATG
Found at i:18225142 original size:70 final size:69
Alignment explanation
Indices: 18225062--18225191 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
18225052 TCATTATTTG
** * *
18225062 TCTAACTTGTGGTTTAATCCCGGT-CTCTTTATTTTTCTCTGACTTGTGGTTCAATCTCGATCTC
1 TCTAACTTGTGGTTTAATCCCAATCCTCTTCA--TTTCTCTGACTTGTGGTTCAATCCCGATCTC
18225126 CTTACT
64 CTTACT
* *
18225132 TCTAAGTTGTGGTTTAATCCCAATCCTCTTCATTTCTCTGACTTGTGGTTTAATCCCGAT
1 TCTAACTTGTGGTTTAATCCCAATCCTCTTCATTTCTCTGACTTGTGGTTCAATCCCGAT
18225192 TTTTTTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
69 26 0.49
70 21 0.40
71 6 0.11
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (69 bp):
TCTAACTTGTGGTTTAATCCCAATCCTCTTCATTTCTCTGACTTGTGGTTCAATCCCGATCTCCT
TACT
Found at i:18225316 original size:211 final size:211
Alignment explanation
Indices: 18224944--18225525 Score: 644
Period size: 211 Copynumber: 2.8 Consensus size: 211
18224934 TTATTTCTCG
* * * * *
18224944 ATCCTCATT-ATTTCTCTAACTTATGATTTAATCTCGATCTCTTTATTTTT-TTGATTCGCGGTT
1 ATCCTCATTCATTTCTCTGACTTATGATTTAATCCCGATCTTTTTATTTTTCTTAACTCGCGGTT
** * * * *
18225007 CAATTTCGATCTTTTTAATTCTAA-ATCATGATTTAATCTAGATCCTCATTATTTGTCTAACTTG
66 CAATCCCGATCTTTTTAATTCTAAGTTCA--ATTTAATCTCGATCCTCATTATTTCTCTGACTTG
* * * * *
18225071 TGGTTTAATCCCGGTCTCTTTATTTTTCTCTGACTTGTGGTTCAAT-CTCGATCTCCTTACTTCT
129 CGGTTTAATCCCGATCTCTTTATTTTTATCTGACTCGCGGTTCAATCCT-GATCTCCTTACTTCT
**
18225135 AAGTTGTGGTTTAATCCCA
193 AAGTCATGGTTTAATCCCA
* * *
18225154 ATCCTC-TTCATTTCTCTGACTTGTGGTTTAATCCCGATTTTTTTATTTTTCTTAACTCGCGGTT
1 ATCCTCATTCATTTCTCTGACTTATGATTTAATCCCGATCTTTTTATTTTTCTTAACTCGCGGTT
* *
18225218 CAATCCCGATCTTTTTAATTCTAAGTTGCAATTTAATCCCGATCCTTATTATTTCTCTGACTTGC
66 CAATCCCGATCTTTTTAATTCTAAGTT-CAATTTAATCTCGATCCTCATTATTTCTCTGACTTGC
* **
18225283 GGTTTAATCTCGATCTCTTTATTTTTATCTGACTCGCGGTTCAATCCTGATCTTTTTACTTCTAA
130 GGTTTAATCCCGATCTCTTTATTTTTATCTGACTCGCGGTTCAATCCTGATCTCCTTACTTCTAA
** *
18225348 GTCATGGTTTAATTTCG
195 GTCATGGTTTAATCCCA
* ** ** * *
18225365 ATCCTCATTC-TTTCTTTGACTTACAATTTAATCCCGGCCTTATTATTTCTC-TAACT-GACGGT
1 ATCCTCATTCATTTCTCTGACTTATGATTTAATCCCGATCTTTTTATTTTTCTTAACTCG-CGGT
* * * * * * *
18225427 TCAATCCCGATCTCTTTACTTTTAAGTAACGATTTAATCTCGATCCTCATTCTTTCTCTGACTTA
65 TCAATCCCGATCTTTTTAATTCTAAGT-TCAATTTAATCTCGATCCTCATTATTTCTCTGACTTG
*
18225492 CGGTTTAATCCCGATCT-TTTATTTTTCT-TGACTC
129 CGGTTTAATCCCGATCTCTTTATTTTTATCTGACTC
18225526 ATGTTTTAAT
Statistics
Matches: 314, Mismatches: 50, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
208 6 0.02
209 13 0.04
210 121 0.39
211 166 0.53
212 6 0.02
213 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (211 bp):
ATCCTCATTCATTTCTCTGACTTATGATTTAATCCCGATCTTTTTATTTTTCTTAACTCGCGGTT
CAATCCCGATCTTTTTAATTCTAAGTTCAATTTAATCTCGATCCTCATTATTTCTCTGACTTGCG
GTTTAATCCCGATCTCTTTATTTTTATCTGACTCGCGGTTCAATCCTGATCTCCTTACTTCTAAG
TCATGGTTTAATCCCA
Found at i:18225322 original size:37 final size:36
Alignment explanation
Indices: 18225142--18225334 Score: 110
Period size: 36 Copynumber: 5.4 Consensus size: 36
18225132 TCTAAGTTGT
* * * * *
18225142 GGTTTAATCCCAATCCTCT-TCATTTCTCTGACTTGT
1 GGTTTAATCCCGATCCT-TATTATTTATCTGACTCGC
* * * *
18225178 GGTTTAATCCCGAT-TTTTTTATTTTTCTTAACTCGC
1 GGTTTAATCCCGATCCTTATTATTTATC-TGACTCGC
* * * * * *
18225214 GGTTCAATCCCGAT-CTTTTTA-AT-TCTAAGTTGC
1 GGTTTAATCCCGATCCTTATTATTTATCTGACTCGC
** * *
18225247 AATTTAATCCCGATCCTTATTATTTCTCTGACTTGC
1 GGTTTAATCCCGATCCTTATTATTTATCTGACTCGC
*
18225283 GGTTTAATCTCGATCTCTTTATT-TTTATCTGACTCGC
1 GGTTTAATCCCGATC-C-TTATTATTTATCTGACTCGC
* *
18225320 GGTTCAATCCTGATC
1 GGTTTAATCCCGATC
18225335 TTTTTACTTC
Statistics
Matches: 123, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
33 17 0.14
34 9 0.07
35 10 0.08
36 57 0.46
37 25 0.20
38 5 0.04
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (36 bp):
GGTTTAATCCCGATCCTTATTATTTATCTGACTCGC
Found at i:18225337 original size:35 final size:36
Alignment explanation
Indices: 18225252--18225337 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
18225242 GTTGCAATTT
* * * * *
18225252 AATCCCGATCCTTATTATTTCTCTGACTTGCGGTTT
1 AATCCTGATCTTTATTATTTATCTGACTCGCGGTTC
18225288 AAT-CTCGATCTCTTTATT-TTTATCTGACTCGCGGTTC
1 AATCCT-GA--TCTTTATTATTTATCTGACTCGCGGTTC
18225325 AATCCTGATCTTT
1 AATCCTGATCTTT
18225338 TTACTTCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
35 6 0.15
36 5 0.12
37 21 0.51
38 9 0.22
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.45
Consensus pattern (36 bp):
AATCCTGATCTTTATTATTTATCTGACTCGCGGTTC
Found at i:18225548 original size:104 final size:104
Alignment explanation
Indices: 18224939--18225525 Score: 562
Period size: 106 Copynumber: 5.6 Consensus size: 104
18224929 TCTCTTTATT
* * * * *
18224939 TCTCGATCCTCATTATTTCTCTAACTTATGATTTAATCTCGATCTCTTTATTTTT-TTGATTCGC
1 TCTCGATCCTCATTATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATTTTTCTTGACTCGC
* * * *
18225003 GGTTCAATTTCGATCTTTTTAATTCTAAATCATGATTTAA
66 GGTTCAA-TCCGATCTCTTTACTTCTAAGTCATGATTTAA
* * * ** * *
18225043 TCTAGATCCTCATTATTTGTCTAACTTGTGGTTTAATCCCGGTCTCTTTATTTTTCTCTGACTTG
1 TCTCGATCCTCATTATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATTTTTCT-TGACTCG
* * ** *
18225108 TGGTTCAATCTCGATCTCCTTACTTCTAAGTTGTGGTTTAA
65 CGGTTCAATC-CGATCTCTTTACTTCTAAGTCATGATTTAA
* * ** * * *
18225149 TCCCAATCCTC-TTCATTTCTCTGACTTGTGGTTTAATCCCGATTTTTTTATTTTTCTTAACTCG
1 TCTCGATCCTCATT-ATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATTTTTCTTGACTCG
* *
18225213 CGGTTCAATCCCGATCTTTTTAATTCTAAGT--TGCAATTTAA
65 CGGTTCAAT-CCGATCTCTTTACTTCTAAGTCATG--ATTTAA
* * * * *
18225254 TCCCGATCCTTATTATTTCTCTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTATCTGACTCG
1 TCTCGATCCTCATTATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATTTTTCT-TGACTCG
* *
18225319 CGGTTCAATCCTGATCTTTTTACTTCTAAGTCATGGTTTAA
65 CGGTTCAATCC-GATCTCTTTACTTCTAAGTCATGATTTAA
* * * ** * *
18225360 TTTCGATCCTCATTCTTTCTTTGACTTACAATTTAATCCCG-GC-C-TTATTATTTCTCTAACT-
1 TCTCGATCCTCATTATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATT-TTTCT-TGACTC
* * *
18225421 GACGGTTCAATCCCGATCTCTTTACTTTTAAGTAACGATTTAA
64 G-CGGTTCAAT-CCGATCTCTTTACTTCTAAGTCATGATTTAA
*
18225464 TCTCGATCCTCATTCTTTCTCTGACTTACGGTTTAATCCCGATCT-TTTATTTTTCTTGACTC
1 TCTCGATCCTCATTATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATTTTTCTTGACTC
18225526 ATGTTTTAAT
Statistics
Matches: 399, Mismatches: 65, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
103 8 0.02
104 133 0.33
105 97 0.24
106 159 0.40
108 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (104 bp):
TCTCGATCCTCATTATTTCTCTGACTTACGGTTTAATCCCGATCTCTTTATTTTTCTTGACTCGC
GGTTCAATCCGATCTCTTTACTTCTAAGTCATGATTTAA
Found at i:18225555 original size:141 final size:142
Alignment explanation
Indices: 18225404--18225666 Score: 388
Period size: 141 Copynumber: 1.9 Consensus size: 142
18225394 AATCCCGGCC
* * *
18225404 TTATTATTTCTCTAACT-GACGGTTCAATCCCGATCTCTTTACTTTTAAGTAACGATTTAATCTC
1 TTATTATTTCTCTAACTCG-CAGTTCAATCCCGATCTCTTTACTTCTAAGTAACGATTTAATCCC
*
18225468 GATCCTCATTCTTTCTCTGACTTACGGTTTAATCCCGATC-TTTTATTTTTCTTGACTCATGTTT
65 GATCCTCATTCTTT-TCTGACTTACAGTTTAATCCCGATCTTTTTATTTTTCTTGACTCATGTTT
18225532 TAATCTCAGTCTCT
129 TAATCTCAGTCTCT
***
18225546 TTATT-TTTCTCTAACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTCGTGATTTAATCCCG
1 TTATTATTTCTCTAACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTAACGATTTAATCCCG
* * * *
18225610 ATCCTTATTCTTTTTTTACTTACAGTTTAATCCCGGTCTTTTTATTTTTCTTGACTC
66 ATCCTCATTCTTTTCTGACTTACAGTTTAATCCCGATCTTTTTATTTTTCTTGACTC
18225667 TAGGTTCAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
140 21 0.19
141 81 0.75
142 6 0.06
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.48
Consensus pattern (142 bp):
TTATTATTTCTCTAACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTAACGATTTAATCCCG
ATCCTCATTCTTTTCTGACTTACAGTTTAATCCCGATCTTTTTATTTTTCTTGACTCATGTTTTA
ATCTCAGTCTCT
Found at i:18225594 original size:245 final size:246
Alignment explanation
Indices: 18225249--18225747 Score: 612
Period size: 245 Copynumber: 2.0 Consensus size: 246
18225239 TAAGTTGCAA
** *
18225249 TTTAATCCCGATCCTTATTATTTCTCTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTATCTG
1 TTTAATCCCGATCCTTATTATTTCTCTGACTCACGGTTTAATCTCGATCTCTTTATTTTTATCTA
* * * * **
18225314 ACTCGCGGTTCAATCCTGATCTTTTTACTTCTAAGTCATGGTTTAATTTCGATCCTCATTCTTTC
66 ACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTCATGATTTAATCCCGATCCTCATTCTTT-
18225379 TTTGACTTACAATTTAATCCCGGCCTTATTATTTCTC-TAACT-GACGGTTCAATCCCGATCTCT
130 TTTGACTTACAATTTAATCCCGGCCTTATTATTTCTCTTAACTCGA-GGTTCAATCCCGATCTCT
* * * * *
18225442 TTACTTTTAAGTAACGATTTAATCTCGATCCTCATTCTTTCTCTGACTTACGG
194 TTAATTCTAAGTAACGATTTAATCCCGATCCTCATTATTTCTCTGACTTACAG
* * * *
18225495 TTTAATCCCGAT-CTT-TTATTTTTCTTGACTCATGTTTTAATCTC-AGTCTCTTTATTTTTCTC
1 TTTAATCCCGATCCTTATTATTTCTC-TGACTCACGGTTTAATCTCGA-TCTCTTTATTTTTATC
* *
18225557 TAACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTCGTGATTTAATCCCGATCCTTATTCTT
64 TAACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTCATGATTTAATCCCGATCCTCATTCTT
* * * * * * * ** *
18225622 TTTTTACTTACAGTTTAATCCCGGTCTTTTTATTTTTCTTGACTCTAGGTTCAATCTTGATCTTT
129 TTTTGACTTACAATTTAATCCCGGCCTTATTATTTCTCTTAACTCGAGGTTCAATCCCGATCTCT
** * * *
18225687 TTAATTCTAAGTTGCGGTTTAATCCCGATCCTCATTATTTCTTTGACTTGCAG
194 TTAATTCTAAGTAACGATTTAATCCCGATCCTCATTATTTCTCTGACTTACAG
18225740 TTTAATCC
1 TTTAATCC
18225748 TTGTCTTTTT
Statistics
Matches: 214, Mismatches: 35, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
244 41 0.19
245 160 0.75
246 13 0.06
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (246 bp):
TTTAATCCCGATCCTTATTATTTCTCTGACTCACGGTTTAATCTCGATCTCTTTATTTTTATCTA
ACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTCATGATTTAATCCCGATCCTCATTCTTTT
TTGACTTACAATTTAATCCCGGCCTTATTATTTCTCTTAACTCGAGGTTCAATCCCGATCTCTTT
AATTCTAAGTAACGATTTAATCCCGATCCTCATTATTTCTCTGACTTACAG
Found at i:18225643 original size:68 final size:69
Alignment explanation
Indices: 18225402--18225653 Score: 215
Period size: 69 Copynumber: 3.6 Consensus size: 69
18225392 TTAATCCCGG
* * * * * * *
18225402 CCTTATTATTTCTCTAACTGACGGTTCAATCCCGATCTCTTTACTTTTAAGTAACGATTTAATCT
1 CCTTATTCTTTCTCTAACTTACAGTTTAATCCCGATCTCTTTACTTCTAAGTCATGATTTAATCT
18225467 CGAT
66 CGAT
* * * * * * *
18225471 CCTCATTCTTTCTCTGACTTACGGTTTAATCCCGATCT-TTTATTTTTCTTGACTCATGTTTTAA
1 CCTTATTCTTTCTCTAACTTACAGTTTAATCCCGATCTCTTTA--CTTC-TAAGTCATGATTTAA
18225535 TCTC-AGT
63 TCTCGA-T
** * *
18225542 CTCTTTATT-TTTCTCTAACTCGCAGTTCAATCCCGATCTCTTTACTTCTAAGTCGTGATTTAAT
1 C-C-TTATTCTTTCTCTAACTTACAGTTTAATCCCGATCTCTTTACTTCTAAGTCATGATTTAAT
*
18225606 CCCGAT
64 CTCGAT
* * * *
18225612 CCTTATTCTTT-TTTTACTTACAGTTTAATCCCGGTCTTTTTA
1 CCTTATTCTTTCTCTAACTTACAGTTTAATCCCGATCTCTTTA
18225654 TTTTTCTTGA
Statistics
Matches: 143, Mismatches: 31, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
68 33 0.23
69 37 0.26
70 19 0.13
71 20 0.14
72 26 0.18
73 8 0.06
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (69 bp):
CCTTATTCTTTCTCTAACTTACAGTTTAATCCCGATCTCTTTACTTCTAAGTCATGATTTAATCT
CGAT
Found at i:18225708 original size:104 final size:104
Alignment explanation
Indices: 18225530--18225877 Score: 351
Period size: 107 Copynumber: 3.3 Consensus size: 104
18225520 TGACTCATGT
* * * * * *
18225530 TTTAATCTCAGTCTCTTTATTTTTCTCTAACTC-GCAGTTCAATCCCGATCTCTTTACTTCTAAG
1 TTTAATCCCGGTCTCTTTATTTTTCT-TGACTCAG--GTTCAATCCTGATCTTTTTAATTCTAAG
* *
18225594 TCGTGATTTAATCCCGATCCTTATTCTTT-TTTTACTTACAG
63 TCGCGATTTAATCCCGATCCTTATTATTTCTTTTACTTACAG
* * *
18225635 TTTAATCCCGGTCTTTTTATTTTTCTTGACTCTAGGTTCAATCTTGATCTTTTTAATTCTAAGTT
1 TTTAATCCCGGTCTCTTTATTTTTCTTGACTC-AGGTTCAATCCTGATCTTTTTAATTCTAAGTC
* * * *
18225700 GCGGTTTAATCCCGATCCTCATTATTTCTTTGACTTGCAG
65 GCGATTTAATCCCGATCCTTATTATTTCTTTTACTTACAG
** * * * * *
18225740 TTTAATCCTTGTCTTTTTATTTTTTTTTTTACTCATGGTTCAGTCCTAATCTTTTTAATTCTAAG
1 TTTAATCCCGGTCTCTTTA--TTTTTCTTGACTCA-GGTTCAATCCTGATCTTTTTAATTCTAAG
* * * * **
18225805 TCGCGATTTAATCCTGATCCTTATTGTTTCTCTAACTTATGG
63 TCGCGATTTAATCCCGATCCTTATTATTTCTTTTACTTACAG
*
18225847 TTTAGTCCCGGTCTCTTTA-TTTTCTTGACTC
1 TTTAATCCCGGTCTCTTTATTTTTCTTGACTC
18225878 GTGGTGTTGT
Statistics
Matches: 199, Mismatches: 38, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
104 63 0.32
105 50 0.25
106 2 0.01
107 84 0.42
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (104 bp):
TTTAATCCCGGTCTCTTTATTTTTCTTGACTCAGGTTCAATCCTGATCTTTTTAATTCTAAGTCG
CGATTTAATCCCGATCCTTATTATTTCTTTTACTTACAG
Found at i:18225913 original size:38 final size:39
Alignment explanation
Indices: 18225860--18225959 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 39
18225850 AGTCCCGGTC
** *
18225860 TCTTTATTTTCTTGACTCGTGGTGTTGTCTTGATCGTTT
1 TCTTTATTTTCTTGACTCGTGGTGTTGTCCCGATCATTT
* *
18225899 TCTTTA-TTTCTTGACTCGCGGTGTTGTCCCGGTCATTT
1 TCTTTATTTTCTTGACTCGTGGTGTTGTCCCGATCATTT
* *
18225937 TCTTTATTTTTTTGACTCATGGT
1 TCTTTATTTTCTTGACTCGTGGT
18225960 AAAAAAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 33 0.63
39 19 0.37
ACGTcount: A:0.09, C:0.18, G:0.19, T:0.54
Consensus pattern (39 bp):
TCTTTATTTTCTTGACTCGTGGTGTTGTCCCGATCATTT
Found at i:18227423 original size:14 final size:15
Alignment explanation
Indices: 18227400--18227451 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
18227390 AAGTAAAAAA
18227400 ATTTTT-TTTTA-AT
1 ATTTTTATTTTATAT
18227413 ATTTTTATTTTTATAT
1 ATTTTTA-TTTTATAT
18227429 ATTATTTA-TTTATAT
1 ATT-TTTATTTTATAT
18227444 CATTTTTA
1 -ATTTTTA
18227452 ACATTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.18
15 16 0.47
16 8 0.24
17 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTTATTTTATAT
Found at i:18227756 original size:3 final size:3
Alignment explanation
Indices: 18227742--18227773 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18227732 ATGTTAGGGA
*
18227742 ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18227774 AAAAAACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:18228035 original size:30 final size:28
Alignment explanation
Indices: 18227999--18228098 Score: 92
Period size: 30 Copynumber: 3.4 Consensus size: 28
18227989 ACCCTAAATT
18227999 AAACCCTAAACCCTTTAAATCCTAAAAAC
1 AAACCCTAAACCCTTTAAA-CCTAAAAAC
*
18228028 GAAACCCTAAACCCTTTGAACCTTAAAAAC
1 -AAACCCTAAACCCTTTAAACC-TAAAAAC
** ** *
18228058 AAAACATTAAACCCTCCAAACCCTAAAATC
1 -AAACCCTAAACCCTTTAAA-CCTAAAAAC
18228088 AAATCCCTAAA
1 AAA-CCCTAAA
18228099 ACATCCAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 5 0.09
30 50 0.88
31 2 0.04
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (28 bp):
AAACCCTAAACCCTTTAAACCTAAAAAC
Found at i:18228084 original size:16 final size:15
Alignment explanation
Indices: 18228072--18228114 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
18228062 CATTAAACCC
18228072 TCCAAACCCTAAA-A
1 TCCAAACCCTAAACA
18228086 T-CAAATCCCTAAAACA
1 TCCAAA-CCCT-AAACA
18228102 TCCAAACCCTAAA
1 TCCAAACCCTAAA
18228115 ATTGAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 5 0.20
15 6 0.24
16 6 0.24
17 4 0.16
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
TCCAAACCCTAAACA
Found at i:18228097 original size:14 final size:13
Alignment explanation
Indices: 18228074--18228149 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 13
18228064 TTAAACCCTC
18228074 CAAACCCTAAAAT
1 CAAACCCTAAAAT
18228087 CAAATCCCTAAAACAT
1 CAAA-CCCT-AAA-AT
18228103 CCAAACCCTAAAATT
1 -CAAACCCTAAAA-T
* * *
18228118 GAAACACTAAATT
1 CAAACCCTAAAAT
*
18228131 CAAAACCCAAAAAAT
1 C-AAACCC-TAAAAT
18228146 CAAA
1 CAAA
18228150 AATCCCAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.10
14 22 0.45
15 12 0.24
16 6 0.12
17 4 0.08
ACGTcount: A:0.55, C:0.28, G:0.01, T:0.16
Consensus pattern (13 bp):
CAAACCCTAAAAT
Found at i:18228115 original size:16 final size:15
Alignment explanation
Indices: 18228072--18228115 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
18228062 CATTAAACCC
18228072 TCCAAACCCT-AAAA
1 TCCAAACCCTAAAAA
18228086 T-CAAATCCCTAAAACA
1 TCCAAA-CCCTAAAA-A
18228102 TCCAAACCCTAAAA
1 TCCAAACCCTAAAA
18228116 TTGAAACACT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.15
14 5 0.19
15 3 0.12
16 10 0.38
17 4 0.15
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (15 bp):
TCCAAACCCTAAAAA
Found at i:18228301 original size:15 final size:14
Alignment explanation
Indices: 18228274--18228368 Score: 57
Period size: 15 Copynumber: 6.4 Consensus size: 14
18228264 ATCTAAAACC
*
18228274 CCAAACCCTAAAAT
1 CCAAAACCTAAAAT
18228288 CCAAAACCTAAAAAT
1 CCAAAACCT-AAAAT
** *
18228303 CCAAATTTCTAAAACC
1 CCAAA-ACCTAAAA-T
18228319 CCTAAAATCC-AAAAT
1 CC-AAAA-CCTAAAAT
**
18228334 CTCAAATTCTAAAAT
1 C-CAAAACCTAAAAT
*
18228349 TCAAAACCTAAAAAT
1 CCAAAACCT-AAAAT
18228364 CCAAA
1 CCAAA
18228369 GGTAAAGTCC
Statistics
Matches: 60, Mismatches: 13, Indels: 15
0.68 0.15 0.17
Matches are distributed among these distances:
14 15 0.25
15 32 0.53
16 9 0.15
17 4 0.07
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (14 bp):
CCAAAACCTAAAAT
Found at i:18230270 original size:33 final size:32
Alignment explanation
Indices: 18230209--18230296 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 32
18230199 TACCCCTACC
* *
18230209 ATATCTTCATTTCCTACCCCTATTACCTCAAC-
1 ATATCTTCATTT-CTACCCTTATAACCTCAACT
* *
18230241 ATCATCTTCAATTTCTACCCTTGTAACCTCAGCT
1 AT-ATCTTC-ATTTCTACCCTTATAACCTCAACT
18230275 ATATCTTCATTCTCTACCCTTA
1 ATATCTTCATT-TCTACCCTTA
18230297 CTTCATCAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
32 5 0.11
33 36 0.77
34 6 0.13
ACGTcount: A:0.24, C:0.34, G:0.02, T:0.40
Consensus pattern (32 bp):
ATATCTTCATTTCTACCCTTATAACCTCAACT
Found at i:18230371 original size:42 final size:42
Alignment explanation
Indices: 18230325--18230424 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
18230315 CAATTCCTAT
*
18230325 CCTTTCATTC-CTTACTGCTTCACCTACATGTTGATTTTCTAC
1 CCTTTCATTCAC-TACTGCATCACCTACATGTTGATTTTCTAC
* * *
18230367 CCTTTTATTCACTACTGCATCATCTACATGTTGATTTTTTAC
1 CCTTTCATTCACTACTGCATCACCTACATGTTGATTTTCTAC
** *
18230409 TTTTTCATTCTCTACT
1 CCTTTCATTCACTACT
18230425 ACCTTAGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.49
Consensus pattern (42 bp):
CCTTTCATTCACTACTGCATCACCTACATGTTGATTTTCTAC
Found at i:18231012 original size:18 final size:17
Alignment explanation
Indices: 18230989--18231046 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
18230979 CTAATTTCTA
18230989 TTATAATCTTTTACTTTG
1 TTATAA-CTTTTACTTTG
**
18231007 TTATAAAATTT-C--TG
1 TTATAACTTTTACTTTG
18231021 TTATAAGCTTTTACTTTG
1 TTATAA-CTTTTACTTTG
18231039 TTATAACT
1 TTATAACT
18231047 GAAGGTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
14 8 0.25
15 3 0.09
16 2 0.06
17 5 0.16
18 14 0.44
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATAACTTTTACTTTG
Found at i:18231025 original size:32 final size:32
Alignment explanation
Indices: 18230981--18231044 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18230971 ATTATTATCT
*
18230981 AATTTCTATTATAATCTTTTACTTTGTTATAA
1 AATTTCTATTATAAGCTTTTACTTTGTTATAA
*
18231013 AATTTCTGTTATAAGCTTTTACTTTGTTATAA
1 AATTTCTATTATAAGCTTTTACTTTGTTATAA
18231045 CTGAAGGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (32 bp):
AATTTCTATTATAAGCTTTTACTTTGTTATAA
Found at i:18231567 original size:15 final size:15
Alignment explanation
Indices: 18231543--18231572 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18231533 TATAAACAAT
18231543 TATGTCTAAACAAAA
1 TATGTCTAAACAAAA
*
18231558 TATGTTTAAACAAAA
1 TATGTCTAAACAAAA
18231573 AAAATCCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (15 bp):
TATGTCTAAACAAAA
Found at i:18231630 original size:42 final size:42
Alignment explanation
Indices: 18231573--18231776 Score: 205
Period size: 42 Copynumber: 4.9 Consensus size: 42
18231563 TTAAACAAAA
* *
18231573 AAAATCCTAACTATAAATTTGAGTAATTAAGAACAATAGCAG
1 AAAACCCTAACTATAAATTTGAGCAATTAAGAACAATAGCAG
* * *
18231615 AAAACCCTAATTATAATTTTGAGCAATTAAGAACAATAGTAG
1 AAAACCCTAACTATAAATTTGAGCAATTAAGAACAATAGCAG
* * * * * * *
18231657 AAAATCTTAACTAT-TATTTCGATCAATTAAAAACAACAGTAG
1 AAAACCCTAACTATAAATTT-GAGCAATTAAGAACAATAGCAG
* * * *
18231699 AAAA-CCTCAAATATAAATTTAAGCAATTAATAACAATAGCAA
1 AAAACCCT-AACTATAAATTTGAGCAATTAAGAACAATAGCAG
** *
18231741 AAAACATTAACTATAAATTTAAGCAATTAAGAACAA
1 AAAACCCTAACTATAAATTTGAGCAATTAAGAACAA
18231777 AAACAAAAAA
Statistics
Matches: 132, Mismatches: 26, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
41 5 0.04
42 122 0.92
43 5 0.04
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (42 bp):
AAAACCCTAACTATAAATTTGAGCAATTAAGAACAATAGCAG
Found at i:18233567 original size:2 final size:2
Alignment explanation
Indices: 18233560--18233587 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18233550 GTCAGGCCTT
18233560 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
18233588 TATATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18234922 original size:13 final size:13
Alignment explanation
Indices: 18234904--18234931 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18234894 ACATTAACCT
18234904 TTTCAATGATATC
1 TTTCAATGATATC
18234917 TTTCAATGATATC
1 TTTCAATGATATC
18234930 TT
1 TT
18234932 AATACTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTCAATGATATC
Found at i:18237088 original size:32 final size:32
Alignment explanation
Indices: 18237042--18237102 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
18237032 GTGGACATTA
18237042 AATAAAATTTTTATATTCCACAACCAAAGCCT
1 AATAAAATTTTTATATTCCACAACCAAAGCCT
*
18237074 AATAGAAA-TTTTATATTCCGCAACCAAAG
1 AATA-AAATTTTTATATTCCACAACCAAAG
18237103 TTCAATGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (32 bp):
AATAAAATTTTTATATTCCACAACCAAAGCCT
Found at i:18237585 original size:29 final size:28
Alignment explanation
Indices: 18237552--18237608 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
18237542 ATCCAACCTT
*
18237552 CTACCCGAG-CCCATCTGATCCAGCCACCC
1 CTACCC-AGTCCCATCAGA-CCAGCCACCC
*
18237581 CTACCCAGTCCCATCAGACCAGCGACCC
1 CTACCCAGTCCCATCAGACCAGCCACCC
18237609 TTGTGACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.23, C:0.51, G:0.14, T:0.12
Consensus pattern (28 bp):
CTACCCAGTCCCATCAGACCAGCCACCC
Found at i:18239060 original size:16 final size:16
Alignment explanation
Indices: 18239041--18239112 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 16
18239031 TAAATCCTTC
18239041 AAACCCTAAAACTATT
1 AAACCCTAAAACTATT
* *
18239057 AAACCTTAAACCT-TT
1 AAACCCTAAAACTATT
* *
18239072 GAACCCTAAAA--ATG
1 AAACCCTAAAACTATT
* *
18239086 AAACCCTAAACCTTTT
1 AAACCCTAAAACTATT
*
18239102 GAACCCTAAAA
1 AAACCCTAAAA
18239113 ACGAAACCCT
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
14 10 0.24
15 10 0.24
16 21 0.51
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (16 bp):
AAACCCTAAAACTATT
Found at i:18239105 original size:30 final size:29
Alignment explanation
Indices: 18239023--18239127 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 29
18239013 ACTCTGAAAT
**
18239023 TGAAACCCTAAATCCTTCAAACCCTAAAACTA
1 TGAAACCCTAAA-CCTTTGAACCCTAAAA--A
* *
18239055 TTAAACCTTAAACCTTTGAACCCTAAAAA
1 TGAAACCCTAAACCTTTGAACCCTAAAAA
18239084 TGAAACCCTAAACCTTTTGAACCCTAAAAA
1 TGAAACCCTAAACC-TTTGAACCCTAAAAA
*
18239114 CGAAACCCTAAACC
1 TGAAACCCTAAACC
18239128 CTCTGAACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
29 13 0.20
30 28 0.43
31 14 0.22
32 10 0.15
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.22
Consensus pattern (29 bp):
TGAAACCCTAAACCTTTGAACCCTAAAAA
Found at i:18239135 original size:30 final size:30
Alignment explanation
Indices: 18239057--18239185 Score: 109
Period size: 30 Copynumber: 4.3 Consensus size: 30
18239047 TAAAACTATT
* * *
18239057 AAACCTTAAA-CCTTTGAACCCTAAAAATG
1 AAACCCTAAACCCTCTGAACCCTAAAAACG
* *
18239086 AAACCCTAAACCTTTTGAACCCTAAAAACG
1 AAACCCTAAACCCTCTGAACCCTAAAAACG
** *
18239116 AAACCCTAAACCCTCTGAACTTTAAAAACA
1 AAACCCTAAACCCTCTGAACCCTAAAAACG
*** ** *
18239146 AAAGATTAAACCCTCCAAACCCTAAAATC-
1 AAACCCTAAACCCTCTGAACCCTAAAAACG
18239175 AAATCCCTAAA
1 AAA-CCCTAAA
18239186 ACATCCAAAC
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
29 12 0.15
30 67 0.85
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.20
Consensus pattern (30 bp):
AAACCCTAAACCCTCTGAACCCTAAAAACG
Found at i:18239302 original size:28 final size:27
Alignment explanation
Indices: 18239271--18239336 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
18239261 CTTAAACACA
*
18239271 AAACCCAAAAATCAAAC-CCAAATCCTC
1 AAACCCAAAAATAAAACTCCAAA-CCTC
*
18239298 TAAACCCTAAAACTAAAACTCCAAACCTC
1 -AAACCC-AAAAATAAAACTCCAAACCTC
*
18239327 AAACCTAAAA
1 AAACCCAAAA
18239337 TTGAAACCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 4 0.12
28 11 0.33
29 13 0.39
30 5 0.15
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (27 bp):
AAACCCAAAAATAAAACTCCAAACCTC
Found at i:18249724 original size:85 final size:85
Alignment explanation
Indices: 18249581--18249746 Score: 224
Period size: 85 Copynumber: 2.0 Consensus size: 85
18249571 AATCCAATTC
* * * * * *
18249581 AAATGACTTTGTTAGTCCATCAATATAAAACAAATACAATGATCTCTCATTTTGACAATACAAGT
1 AAATGACTTTATTAATCCACCAATATAAAACAAATACAATAATCTCTCAATTGGACAATACAAGT
*
18249646 TATTAAAATTGAATCTTACA
66 TATTAAAACTGAATCTTACA
* * * **
18249666 AAATGACTTTATTAATCGACCAATATAAGATAAATATTATAATCTCTCAATTGGACAATACAAGT
1 AAATGACTTTATTAATCCACCAATATAAAACAAATACAATAATCTCTCAATTGGACAATACAAGT
18249731 TATTAAAACTGAATCT
66 TATTAAAACTGAATCT
18249747 GGATTAACAT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (85 bp):
AAATGACTTTATTAATCCACCAATATAAAACAAATACAATAATCTCTCAATTGGACAATACAAGT
TATTAAAACTGAATCTTACA
Found at i:18251703 original size:12 final size:12
Alignment explanation
Indices: 18251664--18251728 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
18251654 AAAGCTTCTC
18251664 TTTCTGGAAAAG
1 TTTCTGGAAAAG
** * *
18251676 TTTCTTCAGAAC
1 TTTCTGGAAAAG
18251688 TTTCTGGAAAAG
1 TTTCTGGAAAAG
**
18251700 TTTCTCTAAAAG
1 TTTCTGGAAAAG
18251712 CTTT-TGGAAAAG
1 -TTTCTGGAAAAG
*
18251724 CTTCT
1 TTTCT
18251729 CATATGAAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
11 2 0.05
12 33 0.87
13 3 0.08
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (12 bp):
TTTCTGGAAAAG
Found at i:18251719 original size:24 final size:25
Alignment explanation
Indices: 18251663--18251729 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
18251653 TAAAGCTTCT
*
18251663 CTTTCTGGAAAAGTTTCT-TCAGAA
1 CTTTCTGGAAAAGTTTCTCTCAAAA
18251687 CTTTCTGGAAAAGTTTCTCT-AAAA
1 CTTTCTGGAAAAGTTTCTCTCAAAA
*
18251711 GCTTT-TGGAAAAGCTTCTC
1 -CTTTCTGGAAAAGTTTCTC
18251730 ATATGAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 34 0.87
25 5 0.13
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (25 bp):
CTTTCTGGAAAAGTTTCTCTCAAAA
Found at i:18252848 original size:23 final size:22
Alignment explanation
Indices: 18252815--18252857 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
18252805 TTTTCTTTTT
18252815 TCTTTTTTTTTG-TTTAGTATAC
1 TCTTTTTTTTTGCTTT-GTATAC
18252837 TCTTTTTATTTTGCTTTGTAT
1 TCTTTTT-TTTTGCTTTGTAT
18252858 GCAACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 9 0.47
24 3 0.16
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (22 bp):
TCTTTTTTTTTGCTTTGTATAC
Found at i:18252893 original size:26 final size:25
Alignment explanation
Indices: 18252865--18252915 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
18252855 TATGCAACTT
18252865 TTTTTA-ATTTATTAATTTTCAAAAG
1 TTTTTAGATTT-TTAATTTTCAAAAG
*
18252890 TTTTTAGTATTTTTTATTTTCAAAAG
1 TTTTTAG-ATTTTTAATTTTCAAAAG
18252916 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 13 0.57
27 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (25 bp):
TTTTTAGATTTTTAATTTTCAAAAG
Done.