Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 34 of 332
Found at i:10336824 original size:12 final size:12
Alignment explanation
Indices: 10336784--10336824 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
10336774 TTTAAAACCT
10336784 GAAAAATAAAAA
1 GAAAAATAAAAA
*
10336796 TAAAAATAAAAA
1 GAAAAATAAAAA
* *
10336808 TAAAAATAAAAG
1 GAAAAATAAAAA
10336820 GAAAA
1 GAAAA
10336825 GCAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (12 bp):
GAAAAATAAAAA
Found at i:10336824 original size:17 final size:17
Alignment explanation
Indices: 10336786--10336845 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
10336776 TAAAACCTGA
**
10336786 AAAATAAAAATAAAAATA
1 AAAATAAAAAT-AAAAGG
10336804 AAAATAAAAATAAAAGG
1 AAAATAAAAATAAAAGG
**
10336821 AAAAGCAAAAT-AAAGTG
1 AAAATAAAAATAAAAG-G
10336838 AAAATAAA
1 AAAATAAA
10336846 TGGACTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 4 0.11
17 20 0.57
18 11 0.31
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAATAAAAATAAAAGG
Found at i:10336824 original size:18 final size:18
Alignment explanation
Indices: 10336784--10336824 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10336774 TTTAAAACCT
10336784 GAAAAATAAAAATAAAAA
1 GAAAAATAAAAATAAAAA
* *
10336802 TAAAAATAAAAATAAAAG
1 GAAAAATAAAAATAAAAA
10336820 GAAAA
1 GAAAA
10336825 GCAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
GAAAAATAAAAATAAAAA
Found at i:10349455 original size:15 final size:14
Alignment explanation
Indices: 10349435--10349467 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
10349425 AGGAACGAAT
10349435 AAAAGAAAAAAATA
1 AAAAGAAAAAAATA
10349449 GAAAAGAAAAAAATA
1 -AAAAGAAAAAAATA
10349464 AAAA
1 AAAA
10349468 TTTAAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (14 bp):
AAAAGAAAAAAATA
Found at i:10352841 original size:22 final size:23
Alignment explanation
Indices: 10352791--10352852 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
10352781 TGCCAGAAGC
10352791 AAATAAAAGAAAAATTAGTAATTA
1 AAATAAAAGAAAAATTAG-AATTA
10352815 AAATAAAA-ACAAAATTA-AATTA
1 AAATAAAAGA-AAAATTAGAATTA
* *
10352837 CAATAACAATAAAAAT
1 AAATAA-AAGAAAAAT
10352853 GGATAAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 10 0.29
23 8 0.24
24 16 0.47
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (23 bp):
AAATAAAAGAAAAATTAGAATTA
Found at i:10355666 original size:20 final size:20
Alignment explanation
Indices: 10355620--10355669 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10355610 CTATAAAGAG
**
10355620 TGTTAGTATGCAAACCTGTAT
1 TGTT-GTATGCAAACCAATAT
* *
10355641 TATTGTATGCAAACCAATGT
1 TGTTGTATGCAAACCAATAT
10355661 TGTTGTATG
1 TGTTGTATG
10355670 ATTCTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (20 bp):
TGTTGTATGCAAACCAATAT
Found at i:10369660 original size:27 final size:27
Alignment explanation
Indices: 10369615--10369766 Score: 112
Period size: 27 Copynumber: 5.6 Consensus size: 27
10369605 TCACCGTCTA
* * *
10369615 TACTATCACGATAAACTACCCTGTGTT
1 TACTATCCCAATAGACTACCCTGTGTT
* * *
10369642 TACTGTCCCAATAGTCTA-CCTCATGTT
1 TACTATCCCAATAGACTACCCT-GTGTT
* *
10369669 TACTATCTCAGTAGACTACCCTGTGTT
1 TACTATCCCAATAGACTACCCTGTGTT
* * *
10369696 TA-T-TGCCCTGATAGCCTACCATGTGTT
1 TACTAT-CCC-AATAGACTACCCTGTGTT
* * * *
10369723 TATTATCCCGATGGACTACCCCGTGTT
1 TACTATCCCAATAGACTACCCTGTGTT
*
10369750 TACTATCCCAATGGACT
1 TACTATCCCAATAGACT
10369767 CTCTGTGCTG
Statistics
Matches: 97, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
25 1 0.01
26 6 0.06
27 82 0.85
28 7 0.07
29 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (27 bp):
TACTATCCCAATAGACTACCCTGTGTT
Found at i:10369723 original size:54 final size:54
Alignment explanation
Indices: 10369615--10369761 Score: 140
Period size: 54 Copynumber: 2.7 Consensus size: 54
10369605 TCACCGTCTA
* *
10369615 TACTAT-CACGATAAACTACCCTGTGTTTACTGTCCCAATAGTCTACCTCATGTT
1 TACTATCCA-GATAGACTACCCTGTGTTTACTGTCCCAATAGCCTACCTCATGTT
* * *
10369669 TACTATCTCAG-TAGACTACCCTGTGTTTATTG-CCCTGATAGCCTACCAT-GTGTT
1 TACTATC-CAGATAGACTACCCTGTGTTTACTGTCCC-AATAGCCTACC-TCATGTT
* * * * *
10369723 TATTATCCCGATGGACTACCCCGTGTTTACTATCCCAAT
1 TACTATCCAGATAGACTACCCTGTGTTTACTGTCCCAAT
10369762 GGACTCTCTG
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
53 5 0.07
54 63 0.84
55 5 0.07
56 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (54 bp):
TACTATCCAGATAGACTACCCTGTGTTTACTGTCCCAATAGCCTACCTCATGTT
Found at i:10371963 original size:14 final size:14
Alignment explanation
Indices: 10371944--10371976 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10371934 TGTGTCATAT
*
10371944 TTTTTATTATTTAA
1 TTTTTATTATATAA
10371958 TTTTTATTATATAA
1 TTTTTATTATATAA
10371972 TTTTT
1 TTTTT
10371977 TCAACATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTATTATATAA
Found at i:10376451 original size:17 final size:17
Alignment explanation
Indices: 10376429--10376462 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10376419 AATTTAGAAA
*
10376429 ATAATAATAAGATTCGT
1 ATAATAACAAGATTCGT
10376446 ATAATAACAAGATTCGT
1 ATAATAACAAGATTCGT
10376463 CTTAGGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (17 bp):
ATAATAACAAGATTCGT
Found at i:10385488 original size:21 final size:22
Alignment explanation
Indices: 10385451--10385497 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
10385441 ATAATTTTCA
* *
10385451 TTTT-TTTCATGTTCAAGTTTT
1 TTTTATTTCATGTACAAGATTT
10385472 TTTTATTTCAT-TACAAGATTT
1 TTTTATTTCATGTACAAGATTT
*
10385493 CTTTA
1 TTTTA
10385498 CTCCATTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTTATTTCATGTACAAGATTT
Found at i:10392674 original size:9 final size:9
Alignment explanation
Indices: 10392658--10392690 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10392648 GGTTGCAAGA
10392658 ATGATGAGG
1 ATGATGAGG
*
10392667 ACGATGAGG
1 ATGATGAGG
10392676 ATGATGAGG
1 ATGATGAGG
10392685 ATGATG
1 ATGATG
10392691 TTTCTTCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.42, T:0.21
Consensus pattern (9 bp):
ATGATGAGG
Found at i:10392848 original size:11 final size:11
Alignment explanation
Indices: 10392834--10392977 Score: 80
Period size: 11 Copynumber: 12.9 Consensus size: 11
10392824 TTTTGCAGGT
10392834 TTTTTGTGCTA
1 TTTTTGTGCTA
*
10392845 TTTTGGTG-T-
1 TTTTTGTGCTA
10392854 TTTTGGTGATGCTA
1 TTTT--TG-TGCTA
10392868 TTTTTGTGCT-
1 TTTTTGTGCTA
* * *
10392878 GTTTGGTGCTGT
1 TTTTTGTGCT-A
10392890 TTTTTGTGCTA
1 TTTTTGTGCTA
*
10392901 TTTTTATGCTA
1 TTTTTGTGCTA
*
10392912 TTTTGGTGCT-
1 TTTTTGTGCTA
* * *
10392922 GTTTTGTTGTTG
1 TTTTTG-TGCTA
* * *
10392934 TTTTGGTGATG
1 TTTTTGTGCTA
*
10392945 TTTTGGTGCTA
1 TTTTTGTGCTA
10392956 TTTTTTGTGCTA
1 -TTTTTGTGCTA
*
10392968 TTTTTATGCT
1 TTTTTGTGCT
10392978 GTTTGGTGCT
Statistics
Matches: 103, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
9 4 0.04
10 13 0.13
11 55 0.53
12 26 0.25
13 1 0.01
14 4 0.04
ACGTcount: A:0.07, C:0.07, G:0.25, T:0.61
Consensus pattern (11 bp):
TTTTTGTGCTA
Found at i:10392870 original size:23 final size:24
Alignment explanation
Indices: 10392840--10393013 Score: 88
Period size: 22 Copynumber: 7.8 Consensus size: 24
10392830 AGGTTTTTTG
*
10392840 TGCTATTTTGGTG-TTTTTGGTGA
1 TGCTATTTTGGTGCTGTTTGGTGA
* *
10392863 TGCTATTTTTGTGCTGTTTGGTGC
1 TGCTATTTTGGTGCTGTTTGGTGA
* * *
10392887 TG-T-TTTTTGTGCTATTT--TTA
1 TGCTATTTTGGTGCTGTTTGGTGA
*
10392907 TGCTATTTTGGTGCTGTTT--TGT
1 TGCTATTTTGGTGCTGTTTGGTGA
* * * *
10392929 TGTTGTTTTGGTGATGTTT--TGG
1 TGCTATTTTGGTGCTGTTTGGTGA
* * *
10392951 TGCTATTTTTTGTGCTATTT--TTA
1 TGCTA-TTTTGGTGCTGTTTGGTGA
* *
10392974 TGCT-GTTTGGTGCTGTTT--TGT
1 TGCTATTTTGGTGCTGTTTGGTGA
*
10392995 TGCTGTTTTGGTGCTGTTT
1 TGCTATTTTGGTGCTGTTT
10393014 TTATACTTAG
Statistics
Matches: 119, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.03
21 17 0.14
22 60 0.50
23 29 0.24
24 10 0.08
ACGTcount: A:0.06, C:0.07, G:0.27, T:0.60
Consensus pattern (24 bp):
TGCTATTTTGGTGCTGTTTGGTGA
Found at i:10392872 original size:34 final size:34
Alignment explanation
Indices: 10392834--10393014 Score: 167
Period size: 33 Copynumber: 5.4 Consensus size: 34
10392824 TTTTGCAGGT
10392834 TTTTTGTGCTATTTTGGTG-T-TTTTGGTGATGCTA
1 TTTTTGTGCTATTTTGGTGCTGTTTT-GTG-TGCTA
* *
10392868 TTTTTGTGCT-GTTTGGTGCTGTTTTTTGTGCTA
1 TTTTTGTGCTATTTTGGTGCTGTTTTGTGTGCTA
* * *
10392901 TTTTTATGCTATTTTGGTGCTGTTTTGT-TGTTG
1 TTTTTGTGCTATTTTGGTGCTGTTTTGTGTGCTA
* * * * *
10392934 TTTTGGTGATGTTTTGGTGCTATTTTTTGTGCTA
1 TTTTTGTGCTATTTTGGTGCTGTTTTGTGTGCTA
* * *
10392968 TTTTTATGCT-GTTTGGTGCTGTTTTGT-TGCTG
1 TTTTTGTGCTATTTTGGTGCTGTTTTGTGTGCTA
* *
10393000 TTTTGGTGCTGTTTT
1 TTTTTGTGCTATTTT
10393015 TATACTTAGG
Statistics
Matches: 117, Mismatches: 25, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
32 12 0.10
33 63 0.54
34 38 0.32
35 4 0.03
ACGTcount: A:0.06, C:0.07, G:0.27, T:0.61
Consensus pattern (34 bp):
TTTTTGTGCTATTTTGGTGCTGTTTTGTGTGCTA
Found at i:10392911 original size:67 final size:67
Alignment explanation
Indices: 10392834--10393014 Score: 226
Period size: 67 Copynumber: 2.7 Consensus size: 67
10392824 TTTTGCAGGT
* * * *
10392834 TTTTTGTGCTATTTTGGTG-T-TTTTGGTGATGCTATTTTTGTGCTG-TTTGGTGCTGTTTTTTG
1 TTTTTATGCTATTTTGGTGCTGTTTT-GT--TGCTATTTTGGTGATGTTTTGGTGCTATTTTTTG
10392896 TGCTA
63 TGCTA
* *
10392901 TTTTTATGCTATTTTGGTGCTGTTTTGTTGTTGTTTTGGTGATGTTTTGGTGCTATTTTTTGTGC
1 TTTTTATGCTATTTTGGTGCTGTTTTGTTGCTATTTTGGTGATGTTTTGGTGCTATTTTTTGTGC
10392966 TA
66 TA
* * *
10392968 TTTTTATGCT-GTTTGGTGCTGTTTTGTTGCTGTTTTGGTGCTGTTTT
1 TTTTTATGCTATTTTGGTGCTGTTTTGTTGCTATTTTGGTGATGTTTT
10393015 TATACTTAGG
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
66 46 0.45
67 49 0.48
68 3 0.03
69 4 0.04
ACGTcount: A:0.06, C:0.07, G:0.27, T:0.61
Consensus pattern (67 bp):
TTTTTATGCTATTTTGGTGCTGTTTTGTTGCTATTTTGGTGATGTTTTGGTGCTATTTTTTGTGC
TA
Found at i:10392955 original size:44 final size:44
Alignment explanation
Indices: 10392860--10393014 Score: 147
Period size: 44 Copynumber: 3.5 Consensus size: 44
10392850 GTGTTTTTGG
* * *
10392860 TGATGCTATTTTTGTGCTGTTTGGTGCTGTT-TTTT-GTGCTATTT
1 TGATGCTATTTTGGTGCTGTTT--TGTTGTTGTTTTGGTGCTGTTT
* *
10392904 TTATGCTATTTTGGTGCTGTTTTGTTGTTGTTTTGGTGATGTTT
1 TGATGCTATTTTGGTGCTGTTTTGTTGTTGTTTTGGTGCTGTTT
* * * *
10392948 TGGTGCTATTTTTTGTGCTATTTT-TATGCTG-TTTGGTGCTGTTT
1 TGATGCTA-TTTTGGTGCTGTTTTGT-TGTTGTTTTGGTGCTGTTT
* *
10392992 TGTTGCTGTTTTGGTGCTGTTTT
1 TGATGCTATTTTGGTGCTGTTTT
10393015 TATACTTAGG
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 6 0.07
43 17 0.18
44 52 0.57
45 17 0.18
ACGTcount: A:0.06, C:0.08, G:0.26, T:0.60
Consensus pattern (44 bp):
TGATGCTATTTTGGTGCTGTTTTGTTGTTGTTTTGGTGCTGTTT
Found at i:10392960 original size:55 final size:54
Alignment explanation
Indices: 10392873--10393017 Score: 175
Period size: 55 Copynumber: 2.6 Consensus size: 54
10392863 TGCTATTTTT
* *
10392873 GTGCTG-TTTGGTGCTGTTTTTTGTGCTATTTTTATGCTATTTTGGTGCTGTTTTG
1 GTGCTGTTTTGGTGCTG-TTTTGGTGCTATTTTTATGCTATTTTGATGCTG-TTTG
* * * * *
10392928 TTGTTGTTTTGGTGATGTTTTGGTGCTATTTTTTGTGCTATTTTTATGCTGTTTG
1 GTGCTGTTTTGGTGCTGTTTTGGTGCTA-TTTTTATGCTATTTTGATGCTGTTTG
* *
10392983 GTGCTGTTTTGTTGCTGTTTTGGTGCTGTTTTTAT
1 GTGCTGTTTTGGTGCTGTTTTGGTGCTATTTTTAT
10393018 ACTTAGGTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 6 0.08
55 41 0.55
56 28 0.37
ACGTcount: A:0.06, C:0.08, G:0.27, T:0.60
Consensus pattern (54 bp):
GTGCTGTTTTGGTGCTGTTTTGGTGCTATTTTTATGCTATTTTGATGCTGTTTG
Found at i:10392990 original size:66 final size:67
Alignment explanation
Indices: 10392879--10393014 Score: 229
Period size: 66 Copynumber: 2.0 Consensus size: 67
10392869 TTTTGTGCTG
* * *
10392879 TTTGGTGCTGTTTTTTGTGCTATTTTTATGCTATTTTGGTGCTGTTTTGTTGTTGTTTTGGTGAT
1 TTTGGTGCTATTTTTTGTGCTATTTTTATGCTAGTTTGGTGCTGTTTTGTTGCTGTTTTGGTGAT
10392944 GT
66 GT
*
10392946 TTTGGTGCTATTTTTTGTGCTATTTTTATGCT-GTTTGGTGCTGTTTTGTTGCTGTTTTGGTGCT
1 TTTGGTGCTATTTTTTGTGCTATTTTTATGCTAGTTTGGTGCTGTTTTGTTGCTGTTTTGGTGAT
10393010 GT
66 GT
10393012 TTT
1 TTT
10393015 TATACTTAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
66 34 0.52
67 31 0.48
ACGTcount: A:0.05, C:0.07, G:0.26, T:0.61
Consensus pattern (67 bp):
TTTGGTGCTATTTTTTGTGCTATTTTTATGCTAGTTTGGTGCTGTTTTGTTGCTGTTTTGGTGAT
GT
Found at i:10392993 original size:11 final size:11
Alignment explanation
Indices: 10392863--10393014 Score: 128
Period size: 11 Copynumber: 13.8 Consensus size: 11
10392853 TTTTTGGTGA
* *
10392863 TGCTATTTTTG
1 TGCTGTTTTGG
10392874 TGCTG-TTTGG
1 TGCTGTTTTGG
*
10392884 TGCTGTTTTTTG
1 TGCTG-TTTTGG
* **
10392896 TGCTATTTTTA
1 TGCTGTTTTGG
*
10392907 TGCTATTTTGG
1 TGCTGTTTTGG
*
10392918 TGCTGTTTTGT
1 TGCTGTTTTGG
*
10392929 TGTTGTTTTGG
1 TGCTGTTTTGG
*
10392940 TGATGTTTTGG
1 TGCTGTTTTGG
* *
10392951 TGCTATTTTTTG
1 TGCT-GTTTTGG
* **
10392963 TGCTATTTTTA
1 TGCTGTTTTGG
10392974 TGCTG-TTTGG
1 TGCTGTTTTGG
*
10392984 TGCTGTTTTGT
1 TGCTGTTTTGG
10392995 TGCTGTTTTGG
1 TGCTGTTTTGG
10393006 TGCTGTTTT
1 TGCTGTTTT
10393015 TATACTTAGG
Statistics
Matches: 115, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
10 17 0.15
11 81 0.70
12 17 0.15
ACGTcount: A:0.05, C:0.08, G:0.26, T:0.61
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:10393698 original size:11 final size:11
Alignment explanation
Indices: 10393665--10393700 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10393655 CTGAACTTGC
*
10393665 TTTGGTGTTAT
1 TTTGGTGTTGT
10393676 TTTGGTGTTGT
1 TTTGGTGTTGT
*
10393687 TTTGGTGGTGT
1 TTTGGTGTTGT
10393698 TTT
1 TTT
10393701 ATTGTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.33, T:0.64
Consensus pattern (11 bp):
TTTGGTGTTGT
Found at i:10411255 original size:14 final size:15
Alignment explanation
Indices: 10411236--10411268 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10411226 GAATCGCAAC
10411236 AAACC-ATTTTGCTA
1 AAACCAATTTTGCTA
10411250 AAACCATATTTTGCTA
1 AAACCA-ATTTTGCTA
10411266 AAA
1 AAA
10411269 ATCAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
16 12 0.71
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (15 bp):
AAACCAATTTTGCTA
Found at i:10415492 original size:21 final size:22
Alignment explanation
Indices: 10415440--10415492 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10415430 AATTAAAGCC
*
10415440 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
10415461 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
10415483 CATGTATCAT
1 CATGTATCAT
10415493 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:10419422 original size:47 final size:45
Alignment explanation
Indices: 10419305--10419429 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 45
10419295 ATTCGTGTGT
*
10419305 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTAAGA
* *
10419351 GAGCTAGTGTAAGACCATGCCTGGGACATGACATC-G-GCATTAAGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCAGCACATTAAGA
10419396 CGAGGGCTAGTGTAAGACATGTCTGGGACATGCA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCA
10419430 ACGTCCTTGA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 7 0.10
46 18 0.26
47 29 0.41
48 16 0.23
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTAAGA
Found at i:10419459 original size:46 final size:44
Alignment explanation
Indices: 10419306--10419478 Score: 152
Period size: 46 Copynumber: 3.8 Consensus size: 44
10419296 TTCGTGTGTG
10419306 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-G-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCC-C-TTA-GACGA
* * *
10419352 AGCTAGTGTAAGACCATGCCTGGGACATGACATCGGCATTAAGACGA
1 AGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGCCCTT-AGACGA
* * *
10419399 GGGCTAGTGTAAGACATGTCTGGGACATGCAACGTCCTTGAGACGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCCTT-AGACG-A
* * * *
10419446 AGCTAATGTAAGACATGTTTGGAACATTCATCG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCG
10419479 GCTACGAGAT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
45 4 0.04
46 54 0.51
47 31 0.30
48 16 0.15
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCCTTAGACGA
Found at i:10425399 original size:64 final size:64
Alignment explanation
Indices: 10425296--10425421 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
10425286 ATCCTACGCA
* *
10425296 GATTTGAAATGAAAGGAAATTGAGTTTCAAGTTGATGATAAGGTATTTTTAAAAGTATCTCGCG
1 GATTTGAAACGAAAGGAAATTGAGTTTCAAGTCGATGATAAGGTATTTTTAAAAGTATCTCGCG
* *
10425360 GATTTGAAGCGAAAGGAAATTGAGTTTCAAGTCGGTGATAAGGTATTTTTAAAAGTATCTCG
1 GATTTGAAACGAAAGGAAATTGAGTTTCAAGTCGATGATAAGGTATTTTTAAAAGTATCTCG
10425422 GTAGAGGAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (64 bp):
GATTTGAAACGAAAGGAAATTGAGTTTCAAGTCGATGATAAGGTATTTTTAAAAGTATCTCGCG
Found at i:10427198 original size:46 final size:46
Alignment explanation
Indices: 10427095--10427225 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 46
10427085 TGAGAGCCAA
*
10427095 TGTAAGACCATGTCTGGGACATGGC-ATCGGCATTGAGATAAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCAATCGGCATCGAGATAA-GGCTAG
*
10427143 TGTAAGACATGTCTGGGACATGCAAT-GGCCTCGAGACATAA-GCTAG
1 TGTAAGACATGTCTGGGACATGCAATCGGCATCGAG--ATAAGGCTAG
10427189 TGTAAGACATGTCTGGGACATGC-ATCGGC-TACGAGAT
1 TGTAAGACATGTCTGGGACATGCAATCGGCAT-CGAGAT
10427226 GATAGTCAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
44 2 0.03
45 3 0.04
46 44 0.58
47 16 0.21
48 11 0.14
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCAATCGGCATCGAGATAAGGCTAG
Found at i:10427239 original size:46 final size:45
Alignment explanation
Indices: 10427093--10427242 Score: 139
Period size: 46 Copynumber: 3.2 Consensus size: 45
10427083 TATGAGAGCC
*
10427093 AATGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATA-AGGGCT
1 AATGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATATA--GCT
* *
10427141 AGTGTAAGACATGTCTGGGACATGCAAT-GGCCT-CGAGACATAAGCT
1 AATGTAAGACATGTCTGGGACATGC-ATCGG-CTACGAGATAT-AGCT
*
10427187 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAG-T
1 AATGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT-ATAGCT
10427232 CAATGTAAGAC
1 -AATGTAAGAC
10427243 CATGCCTGTA
Statistics
Matches: 88, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
45 5 0.06
46 55 0.62
47 19 0.22
48 9 0.10
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (45 bp):
AATGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATAGCT
Found at i:10427296 original size:140 final size:140
Alignment explanation
Indices: 10427043--10427304 Score: 314
Period size: 140 Copynumber: 1.9 Consensus size: 140
10427033 TTCGTGTGTG
* * * *
10427043 AGCTAGTGTAAGGCATGCCTGGGACATGTATCAGCCGCATTATGAGAGCCAATGTAAGACCATGT
1 AGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCGCATGATGAGAGCCAATGTAAGACCATGC
* ** * * * *
10427108 CTGGGACATGGCATCGGCATTGAGATAAGGGCTAGTGTAAGACATGTCTGGGACATGCAATGGCC
66 CTGGAACATGGCATCAACATTGAGATAAGAGCCAGTATAAGACATGTCTAGGACATGCAATGGCC
10427173 TCGAGACATA
131 TCGAGACATA
* * * *
10427183 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACG-A-GATGATAGTCAATGTAAGACCAT
1 AGCTAGTGTAAGACATGCCTGGGACATGCATCAGC--CGCATGATGAGAGCCAATGTAAGACCAT
* * *
10427246 GCCTGTAACATGGCATCAAC-TTGAGATATGAGCCAGTATAAGACCGTGTCTAGGACATG
64 GCCTGGAACATGGCATCAACATTGAGATAAGAGCCAGTATAAGA-CATGTCTAGGACATG
10427305 GCATCGGCAC
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
139 19 0.19
140 79 0.78
141 1 0.01
142 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (140 bp):
AGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCGCATGATGAGAGCCAATGTAAGACCATGC
CTGGAACATGGCATCAACATTGAGATAAGAGCCAGTATAAGACATGTCTAGGACATGCAATGGCC
TCGAGACATA
Found at i:10438937 original size:20 final size:17
Alignment explanation
Indices: 10438908--10438955 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 17
10438898 CGGCACAATT
10438908 ATTATTTTTTTAAATAAA
1 ATTATTTTTTTAAA-AAA
10438926 ACTTATTTTTTTAAAAAA
1 A-TTATTTTTTTAAAAAA
*
10438944 ATTATTATTTTA
1 ATTATTTTTTTA
10438956 TTAGTGGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.36
18 5 0.18
19 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTTTTTTAAAAAA
Found at i:10438943 original size:17 final size:18
Alignment explanation
Indices: 10438908--10438955 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
10438898 CGGCACAATT
10438908 ATTATTTTTTTAAATAAAA
1 ATTATTTTTTT-AATAAAA
*
10438927 CTTATTTTTTTAA-AAAA
1 ATTATTTTTTTAATAAAA
*
10438944 ATTATTATTTTA
1 ATTATTTTTTTA
10438956 TTAGTGGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 14 0.54
18 2 0.08
19 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATTTTTTTAATAAAA
Found at i:10439285 original size:23 final size:23
Alignment explanation
Indices: 10439240--10439288 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
10439230 AAAAAAGAGG
* *
10439240 GAAAGAAAGGAGAGGAATGAGAA
1 GAAAGAAAGGAAAAGAATGAGAA
10439263 GAAAGAAAGGAAAAGAA-GAAGAA
1 GAAAGAAAGGAAAAGAATG-AGAA
10439286 GAA
1 GAA
10439289 GAAGAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (23 bp):
GAAAGAAAGGAAAAGAATGAGAA
Found at i:10439693 original size:198 final size:203
Alignment explanation
Indices: 10439387--10439915 Score: 631
Period size: 199 Copynumber: 2.6 Consensus size: 203
10439377 TTATTAATTA
* * *
10439387 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTAAATTTTTATTAATGT-AATTTTTTTAAAAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGAATTTTTATAAATGTAAAATTTTTT-AAAT
* * *
10439451 TATTTTATAGTTATTTTGTAAATAATTTATGATTAGGTTATAAATTGTTTGTGCATAGTTTAGTG
65 TATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGCATAGTTTAGTG
** * *
10439516 -TT-TTGTGATTTTTTATGAATGTAAATTTTTTTAAAATTATTTTATAGTTA-TT-TTAGTAATT
130 TTTATTGTGATTTTTTATGAAAAT-AATTTTTTTAAAATTATTTGAAAGTTATTTGTTAGTAATT
10439577 TATCATTAGG
194 TATCATTAGG
* * *
10439587 TTAT-AATTGTTTTTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAAATTTTTT-AATT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGAATTTTTATAAATGTAAAATTTTTTAAATT
* **
10439650 ATTTGAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGT
66 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGCATAGTTTAGTGT
* *
10439715 TTATTGTGATTTTTTATGAAAATAATTTTTTTTAAATTATTTGAAAGTTATTTTGTTAGTTATTT
131 TTATTGTGATTTTTTATGAAAATAATTTTTTTAAAATTATTTGAAAGTTA-TTTGTTAGTAATTT
*
10439780 ATGATTAGG
195 ATCATTAGG
* * * * * ***
10439789 TTATAAATTGTTTGTATTTAGTTTAGTATTTATTGTGACTTGTTATAAATATATTTTTTTTTGTG
1 TTATAAATTGTTTGTGTTTAGTTTAGT-GTT-TTGTGAATTTTTATAAATGTA---------AAA
*
10439854 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGT
55 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGT
10439916 TTAGTTTAAG
Statistics
Matches: 280, Mismatches: 30, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
198 62 0.22
199 67 0.24
200 30 0.11
201 2 0.01
202 21 0.08
203 20 0.07
204 2 0.01
205 17 0.06
214 6 0.02
215 53 0.19
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (203 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGAATTTTTATAAATGTAAAATTTTTTAAATT
ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGCATAGTTTAGTGT
TTATTGTGATTTTTTATGAAAATAATTTTTTTAAAATTATTTGAAAGTTATTTGTTAGTAATTTA
TCATTAGG
Found at i:10439771 original size:103 final size:101
Alignment explanation
Indices: 10439387--10439954 Score: 657
Period size: 103 Copynumber: 5.6 Consensus size: 101
10439377 TTATTAATTA
* * * *
10439387 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTAAATTTTTATTAATGTAATTTTTTTAAAATT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTTAAATT
* * *
10439452 ATTTTATAGTTATTTTGTAAATAATTTATGATTAGG
66 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
** *
10439488 TTATAAATTGTTTGTGCATAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAATTTTTTTAAAAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGT-AATTTTTTTTAAAT
* *
10439553 TATTTTATAGTTA--TT-TTAGTAATTTATCATTAGG
65 TATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* **
10439587 TTAT-AATTGTTTTTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAAATTTTTT-AATT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTTAAATT
*
10439650 ATTTGAAAGTTATTTTGTTAGTAATTTATGATTAGG
66 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
**
10439686 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAAAATAATTTTTTTTAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TT-TTGTGATTTTTTATGAATGTAATTTTTTTTAAA
* *
10439751 TTATTTGAAAGTTATTTTGTTAGTTATTTATGATTAGG
64 TTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * * * *
10439789 TTATAAATTGTTTGTATTTAGTTTAGTATTTATTGTGACTTGTTATAAATATATTTTTTTTTGTG
1 TTATAAATTGTTTGTGTTTAGTTTAGT-GTT-TTGTGATTTTTTATGAATGTA-------AT-T-
10439854 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
55 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* ** * *
10439901 TTATAAATT-ATT-TGTTTAGTTTAAGTGTAATGTGATATGTTAT-AATGTAATTTT
1 TTATAAATTGTTTGTGTTTAGTTT-AGTGTTTTGTGATTTTTTATGAATGTAATTTT
10439955 ATTTGTTTTT
Statistics
Matches: 407, Mismatches: 41, Indels: 40
0.83 0.08 0.08
Matches are distributed among these distances:
96 14 0.03
97 7 0.02
98 44 0.11
99 44 0.11
100 25 0.06
101 48 0.12
102 53 0.13
103 85 0.21
108 5 0.01
109 11 0.03
110 11 0.03
111 6 0.01
112 54 0.13
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (101 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTTAAATT
ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:10440207 original size:12 final size:12
Alignment explanation
Indices: 10440190--10440214 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10440180 TAAGATATTA
10440190 TTTATTGTGTTT
1 TTTATTGTGTTT
10440202 TTTATTGTGTTT
1 TTTATTGTGTTT
10440214 T
1 T
10440215 ATGTTACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTATTGTGTTT
Found at i:10444721 original size:101 final size:101
Alignment explanation
Indices: 10444616--10444879 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
10444606 ACACTGATCA
* * * *
10444616 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10444681 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10444717 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTAATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10444782 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10444818 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
10444880 GATCAGAAGT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 156 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:10444728 original size:50 final size:51
Alignment explanation
Indices: 10444619--10444879 Score: 391
Period size: 51 Copynumber: 5.2 Consensus size: 51
10444609 CTGATCACAT
*
10444619 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
10444670 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * * *
10444720 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTAATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
10444771 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
10444821 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
*
10444872 TTGTCACT
1 TTATCACT
10444880 GATCAGAAGT
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
50 90 0.48
51 99 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:10449927 original size:49 final size:49
Alignment explanation
Indices: 10449854--10450611 Score: 1139
Period size: 47 Copynumber: 15.5 Consensus size: 49
10449844 TTATTCATTG
10449854 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
10449905 GAAAGTGTATATATATGTGATAAGGCCTAATGGAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCC---T--AATGGCCGATGTGATGAATGT
10449959 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
10450010 GAAAGTG--TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
10450057 GAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
10450106 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
10450155 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
10450206 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
10450255 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
10450306 GAAAGTG--TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
10450353 GAAAGTGTATATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
10450402 GAAAGTG--TATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
10450449 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
10450496 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
10450543 GAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
10450590 GAAAGTGTATA-A-ATGTGATAAG
1 GAAAGTGTATATATATGTGATAAG
10450612 TCCCGAAGGG
Statistics
Matches: 661, Mismatches: 29, Indels: 38
0.91 0.04 0.05
Matches are distributed among these distances:
47 273 0.41
48 1 0.00
49 205 0.31
51 132 0.20
52 1 0.00
53 1 0.00
54 28 0.04
56 20 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:10450393 original size:296 final size:294
Alignment explanation
Indices: 10449854--10450611 Score: 1257
Period size: 296 Copynumber: 2.6 Consensus size: 294
10449844 TTATTCATTG
10449854 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
10449919 ATGTGATAAGGCCTAATGGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
66 ATGTGATAAGGCCTAAT---A--GCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
10449984 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTG
126 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTG
10450049 ATGAATGTGAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
191 ATGAATGTGAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
*
10450114 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
255 -TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
10450155 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
10450220 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCT
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCT
10450285 AATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAA
131 AATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* *
10450350 TGTGAAAGTGTATATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
196 TGTGAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
10450415 TGTGATAAGGCCTAATAGCTGATGTGATGAATGT
261 TGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
10450449 GAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATAT
1 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
10450508 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAGGGCCG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCT
* * * * * *
10450569 AGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 AATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
10450612 TCCCGAAGGG
Statistics
Matches: 443, Mismatches: 14, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
284 54 0.12
288 46 0.10
290 46 0.10
294 45 0.10
296 169 0.38
298 1 0.00
301 82 0.19
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (294 bp):
GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAA
TGTGAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:10450831 original size:37 final size:37
Alignment explanation
Indices: 10450730--10450831 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
10450720 CCGAGCTCTA
*
10450730 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
10450767 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
10450804 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
10450832 CGTCTGAGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:10455752 original size:51 final size:50
Alignment explanation
Indices: 10455684--10455947 Score: 393
Period size: 51 Copynumber: 5.2 Consensus size: 50
10455674 CCACTGATCA
*
10455684 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTAT
* *
10455735 CACTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTAT
* * *
10455785 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTAT
*
10455836 CATTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTAT
* * *
10455886 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTAT
* *
10455937 CACTTGTCACT
1 CATTTATCACT
10455948 GATCAGAAGT
Statistics
Matches: 194, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 91 0.47
51 103 0.53
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (50 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTAT
Found at i:10455789 original size:101 final size:101
Alignment explanation
Indices: 10455684--10455947 Score: 465
Period size: 101 Copynumber: 2.6 Consensus size: 101
10455674 CCACTGATCA
* * * * *
10455684 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10455749 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10455785 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCATTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10455850 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10455886 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
10455948 GATCAGAAGT
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 155 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:10463050 original size:46 final size:47
Alignment explanation
Indices: 10462851--10463119 Score: 237
Period size: 46 Copynumber: 5.7 Consensus size: 47
10462841 GGCAAGTTGT
*
10462851 CGATGCCATGACCCAGACATGGTCTTACACTGACTATCATCACCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA-CATC-CCGAGGC
* * * * ** * *
10462900 CGACGCCATGTCCCGGACATGGTCTTACACTAGCTCTTATATATCTATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-TACATCCCGAGGC
* **
10462950 CAATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATTTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTACATCCCG-AGGC
* *
10462996 CGATG-CATGTTCCAGACAT-GTCTTACACTGGCTTACATCCCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TACATCCCGAGGC
* * * *
10463042 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTACATCCCGAGGC
*
10463088 TGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
10463120 GCTCTCATAA
Statistics
Matches: 181, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 58 0.32
47 18 0.10
48 12 0.07
49 29 0.16
50 33 0.18
51 3 0.02
52 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTACATCCCGAGGC
Found at i:10463106 original size:138 final size:144
Alignment explanation
Indices: 10462863--10463119 Score: 366
Period size: 138 Copynumber: 1.8 Consensus size: 144
10462853 ATGCCATGAC
*
10462863 CCAGACATGGTCTTACACTGACTATCATCACCGAGGCCGACGCCATGTCCCGGACATGGTCTTAC
1 CCAGACATGGTCTTACACTGACTATCATCACCGAGGCCGACGCCATGTCCCAGACATGGTCTTAC
* * *
10462928 ACTAGCTCTTATATATCTATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATTTCGT
66 ACTAGCACTTACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATTTCGT
10462993 AGCCGATGCATGTT
131 AGCCGATGCATGTT
* *
10463007 CCAGACAT-GTCTTACACTGGCT-TACATC-CCGAGGCCGATG-CATGTCCCAGACAT-GTCTTA
1 CCAGACATGGTCTTACACTGACTAT-CATCACCGAGGCCGACGCCATGTCCCAGACATGGTCTTA
* * **
10463067 CACTAGCAC-T-CGTCTCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTG
65 CACTAGCACTTACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTG
10463120 GCTCTCATAA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
138 37 0.36
139 1 0.01
140 14 0.14
141 13 0.13
142 12 0.12
143 17 0.17
144 8 0.08
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (144 bp):
CCAGACATGGTCTTACACTGACTATCATCACCGAGGCCGACGCCATGTCCCAGACATGGTCTTAC
ACTAGCACTTACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATTTCGT
AGCCGATGCATGTT
Found at i:10469188 original size:22 final size:22
Alignment explanation
Indices: 10469122--10469177 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
10469112 GATTATAAAC
10469122 TTCACGAAGTATATAACTATAT
1 TTCACGAAGTATATAACTATAT
10469144 TTCACGAAGTATATAACTATAT
1 TTCACGAAGTATATAACTATAT
10469166 TTCACGAAGTAT
1 TTCACGAAGTAT
10469178 TGCACTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (22 bp):
TTCACGAAGTATATAACTATAT
Found at i:10469833 original size:12 final size:13
Alignment explanation
Indices: 10469806--10469840 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
10469796 ATCCTTATTT
10469806 TTTCTTCTCCTTTC
1 TTTCTTCT-CTTTC
10469820 TTTCTTCT-TTTC
1 TTTCTTCTCTTTC
10469832 TTTCTTCTC
1 TTTCTTCTC
10469841 CCTCTCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTCTCTTTC
Found at i:10469850 original size:26 final size:27
Alignment explanation
Indices: 10469806--10469861 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
10469796 ATCCTTATTT
* *
10469806 TTTCTTCTCCTTTCTTTCTT-CTTTTC
1 TTTCTTCTCCTCTCTTTCTTCCTTCTC
10469832 TTTCTTCTCC-CTCTCTTCTTCCTTCTC
1 TTTCTTCTCCTCTCT-TTCTTCCTTCTC
10469859 TTT
1 TTT
10469862 TGCTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 3 0.12
26 15 0.58
27 8 0.31
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTCTTCTCCTCTCTTTCTTCCTTCTC
Found at i:10473168 original size:21 final size:21
Alignment explanation
Indices: 10473139--10473208 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
10473129 GCTTAGGCCA
10473139 TGTG-AGAGGTCAAACGCCCG
1 TGTGAAGAGGTCAAACGCCCG
* *
10473159 TGTGAAGAGGGACAAACGGCCG
1 TGTGAAGA-GGTCAAACGCCCG
** *
10473181 TGTGGCTGAGGT-ACACGCCCG
1 TGT-GAAGAGGTCAAACGCCCG
10473202 TGTGAAG
1 TGTGAAG
10473209 TGAGGCACAT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 6 0.16
21 13 0.34
22 16 0.42
23 3 0.08
ACGTcount: A:0.24, C:0.21, G:0.39, T:0.16
Consensus pattern (21 bp):
TGTGAAGAGGTCAAACGCCCG
Found at i:10473977 original size:12 final size:12
Alignment explanation
Indices: 10473954--10474006 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
10473944 CCGTTTTCAG
10473954 AAAGAGAGAAAAA
1 AAAGA-AGAAAAA
10473967 AAAGAAGAAAATAA
1 AAAGAAG-AAA-AA
*
10473981 TAAAGAAGAACAA
1 -AAAGAAGAAAAA
10473994 AAAGAAAGAAAAA
1 AAAG-AAGAAAAA
10474007 GAGGAACGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 6 0.18
13 17 0.50
14 4 0.12
15 7 0.21
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAGAAGAAAAA
Found at i:10479338 original size:19 final size:19
Alignment explanation
Indices: 10479302--10479337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10479292 TTGCTAATCA
10479302 AGTTAACATAATAATTTTC
1 AGTTAACATAATAATTTTC
*
10479321 AGTTAATATAA-AATTTT
1 AGTTAACATAATAATTTT
10479338 TGATTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (19 bp):
AGTTAACATAATAATTTTC
Found at i:10479958 original size:4 final size:4
Alignment explanation
Indices: 10479949--10480003 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
10479939 ATCCTTTTGT
10479949 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
10479997 ATAG ATA
1 ATAG ATA
10480004 TGAACCTTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:10481905 original size:42 final size:41
Alignment explanation
Indices: 10481798--10481925 Score: 150
Period size: 44 Copynumber: 3.0 Consensus size: 41
10481788 CGATATGTGT
*
10481798 TTTTGTGTAAGACCATGTCTGGGATGTTGGCATCG-ACTTATGA
1 TTTTGTGTAAGACCATGTCTGGGAT-ATGGCATCGTA-TT-TGA
* *
10481841 TTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
1 TTT-TGTGTAAGACCATGTCTGGGATAT-GGCATCGTATTTGA
*
10481884 TTTTGTGTAAGACCGTGTCTGGGATAGTGGCATCGATATTTG
1 TTTTGTGTAAGACCATGTCTGGGATA-TGGCATCG-TATTTG
10481926 TTTACATATA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 27 0.36
43 17 0.23
44 29 0.39
45 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (41 bp):
TTTTGTGTAAGACCATGTCTGGGATATGGCATCGTATTTGA
Found at i:10501468 original size:93 final size:95
Alignment explanation
Indices: 10501283--10501495 Score: 238
Period size: 93 Copynumber: 2.3 Consensus size: 95
10501273 TGCTGACGCC
* * * * *
10501283 ATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCGATGTCCTAGATAGGTCT
1 ATGTCCCAGACA-GGTCTTACACTGACTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCT
* *
10501348 TACACAGACTTTCATAAATCGAGGCCGATGCT
65 TACACAGACTTGCATAAATCGAAGCCGATG-T
*
10501380 GTGTCCCAGACAGGTCTTACACTGAC-A-CACAT-AAAG-CTGATGCCATGTCCCAGACAAGTCT
1 ATGTCCCAGACAGGTCTTACACTGACTAGCACATCAAAGTC-GATGCCATGTCCCAGACAAGTCT
* **
10501441 TACATTAG-CTTGCATATCTCGAAGCCGATGT
65 TACA-CAGACTTGCATAAATCGAAGCCGATGT
* *
10501472 ATGCCCCAGACATGTCTTACACTG
1 ATGTCCCAGACAGGTCTTACACTG
10501496 GCTCTCATAA
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
92 23 0.23
93 45 0.45
94 7 0.07
95 1 0.01
96 13 0.13
97 11 0.11
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (95 bp):
ATGTCCCAGACAGGTCTTACACTGACTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
ACACAGACTTGCATAAATCGAAGCCGATGT
Found at i:10511304 original size:20 final size:20
Alignment explanation
Indices: 10511276--10511313 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10511266 ACATAGGAAT
*
10511276 TTTTTTTTTAATTTTTATGC
1 TTTTCTTTTAATTTTTATGC
10511296 TTTTCTTTTAATTTTTAT
1 TTTTCTTTTAATTTTTAT
10511314 TGTCAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTAATTTTTATGC
Found at i:10514287 original size:31 final size:31
Alignment explanation
Indices: 10514249--10514389 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
10514239 TTTAACGGTT
10514249 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
10514280 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
10514311 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
10514342 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
10514373 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
10514390 ACTGTAAACG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:10514460 original size:42 final size:42
Alignment explanation
Indices: 10514413--10514504 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
10514403 TGGCCCTTAG
* *
10514413 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
10514455 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
10514497 GCCCATTT
1 GCCCATTT
10514505 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:10514684 original size:25 final size:25
Alignment explanation
Indices: 10514652--10514721 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
10514642 CTCTTTTAAT
* *
10514652 AACTGGGGTAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
10514677 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
10514702 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
10514722 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:10515593 original size:27 final size:27
Alignment explanation
Indices: 10515532--10515595 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10515522 GGCGTATTCA
10515532 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* *
10515559 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
10515586 TCTTTTTACC
1 TCATTTTACC
10515596 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:10515679 original size:27 final size:27
Alignment explanation
Indices: 10515649--10515747 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
10515639 GTAAATCTAC
10515649 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* *
10515676 AAACCAATGGTATTCCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
10515702 AAAAAAGTCAAGGGTATTTCTATAATTTTGT
1 ---AAA-CCAAGGGTATTTCTATAATTTTGT
* *
10515733 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
10515748 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.02
27 32 0.53
28 4 0.07
29 3 0.05
30 19 0.32
31 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:10515754 original size:27 final size:26
Alignment explanation
Indices: 10515724--10515809 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
10515714 GGTATTTCTA
*
10515724 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTT-CAAATCAGGGGTATTTTGG
* *
10515751 TAATTTTACAAAT-TGAGGGTATTTCGG
1 TAATTTT-CAAATCAG-GGGTATTTTGG
* *
10515778 TAATTTCTCAAACCAGTGGTATTTTGG
1 TAATTT-TCAAATCAGGGGTATTTTGG
10515805 TAATT
1 TAATT
10515810 CTATCCTACA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
27 45 0.94
28 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (26 bp):
TAATTTTCAAATCAGGGGTATTTTGG
Found at i:10516321 original size:27 final size:27
Alignment explanation
Indices: 10515845--10516310 Score: 682
Period size: 27 Copynumber: 17.3 Consensus size: 27
10515835 TTTCACAATT
* * *
10515845 GAGGGTAAAATGATAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
10515871 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAATGGTAATTCTATAAATC
*
10515899 GAGGGTAAAATGATAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
***
10515926 GAGGGTACTTTGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
10515953 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
10515980 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
10516007 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
10516034 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
10516061 GAGGGTAAAATGGTAATTTTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
** *
10516088 GAGGGTAAAACAGTAATTTTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
10516115 GAGGGTAAAATGGTGATTCTATATATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
10516142 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
10516169 GAGGGTAAAATGGTAATTTTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
10516196 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * * *
10516223 AAGGGTAAAACGGTAATTTTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
10516250 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
10516277 GAGGGTAAAATGGTAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
10516304 GAGGGTA
1 GAGGGTA
10516311 CTTTGGTAAT
Statistics
Matches: 397, Mismatches: 41, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
27 396 1.00
28 1 0.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:10527273 original size:29 final size:29
Alignment explanation
Indices: 10527240--10527444 Score: 173
Period size: 29 Copynumber: 7.1 Consensus size: 29
10527230 CTTTAATCGT
* *
10527240 TGGTCGAAACTACCCCTTTTCATATTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
*
10527269 TGGTCGAAGCCATCCCTTTTCATATTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
* * * *
10527298 TGGTC-ATCACCATCCCTCTTCATAGTCAA
1 TGGTCGA-AACCATCCCTTTTCATATTCGA
* * * *
10527327 TAGTCAAAACTATCCCTTTCCATATTTC-A
1 TGGTCGAAACCATCCCTTTTCATA-TTCGA
**
10527356 TGGTCGTGACCATCCCTTTTCATAGTT-GA
1 TGGTCGAAACCATCCCTTTTCATA-TTCGA
** * *
10527385 TGGTCGTCACCATCTCTTTTCATAGTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
* ** *
10527414 TAGTCGAAAATATCCCATTTCATATTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
10527443 TG
1 TG
10527445 AGCATCAATA
Statistics
Matches: 138, Mismatches: 33, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
28 2 0.01
29 133 0.96
30 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.36
Consensus pattern (29 bp):
TGGTCGAAACCATCCCTTTTCATATTCGA
Found at i:10527359 original size:87 final size:88
Alignment explanation
Indices: 10527242--10527444 Score: 251
Period size: 87 Copynumber: 2.3 Consensus size: 88
10527232 TTAATCGTTG
*
10527242 GTCG-AAACTACCCCTTTTCATA-TTCGATGGTCGA-AGCCATCCCTTTTCATA-TTCGATGGTC
1 GTCGAAAACTATCCC-TTTCATATTTCGATGGTCGAGA-CCATCCCTTTTCATAGTT-GATGGTC
10527303 ATCACCATCCCTCTTCATAGTCAATA
63 ATCACCATCCCTCTTCATAGTCAATA
* *
10527329 GTC-AAAACTATCCCTTTCCATATTTC-ATGGTCGTGACCATCCCTTTTCATAGTTGATGGTCGT
1 GTCGAAAACTATCCCTTT-CATATTTCGATGGTCGAGACCATCCCTTTTCATAGTTGATGGTCAT
* * *
10527392 CACCATCTCTTTTCATAGTCGATA
65 CACCATCCCTCTTCATAGTCAATA
10527416 GTCGAAAA-TATCCCATTTCATA-TTCGATG
1 GTCGAAAACTATCCC-TTTCATATTTCGATG
10527445 AGCATCAATA
Statistics
Matches: 102, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
86 6 0.06
87 83 0.81
88 13 0.13
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (88 bp):
GTCGAAAACTATCCCTTTCATATTTCGATGGTCGAGACCATCCCTTTTCATAGTTGATGGTCATC
ACCATCCCTCTTCATAGTCAATA
Found at i:10528828 original size:46 final size:46
Alignment explanation
Indices: 10528750--10529015 Score: 268
Period size: 46 Copynumber: 5.8 Consensus size: 46
10528740 GTTATAGGTT
* * *
10528750 ATCTATGATGCCTTTATGGCACATTTTATGGAGCCTTTGTGGCATA
1 ATCTATGATGCCTTTATGGCATATTCTGTGGAGCCTTTGTGGCATA
*
10528796 ATTTATGATG-CTTGTATGGCATATTCTGTGGAGCCTTTGTGGCATA
1 ATCTATGATGCCTT-TATGGCATATTCTGTGGAGCCTTTGTGGCATA
* * * *
10528842 ATCTATGATGCGTTTATGACGTATTGTGTGGAGCCTTTGTGGCATA
1 ATCTATGATGCCTTTATGGCATATTCTGTGGAGCCTTTGTGGCATA
* * * * ** *
10528888 ATCTATTAAGCCTTTCTAGTGTATTTTGTGGAGCCTTTGTGGCATA
1 ATCTATGATGCCTTTATGGCATATTCTGTGGAGCCTTTGTGGCATA
** * * * *
10528934 ATCTATG-TAGCCTTTATGGTGTATTATGTGGAGCTTTTTTAGCATA
1 ATCTATGAT-GCCTTTATGGCATATTCTGTGGAGCCTTTGTGGCATA
* * *
10528980 ATCTATGAAGCTTTTATGACATATTC-GATGGAGCCT
1 ATCTATGATGCCTTTATGGCATATTCTG-TGGAGCCT
10529016 CTTTGGTTTA
Statistics
Matches: 183, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
45 4 0.02
46 177 0.97
47 2 0.01
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.41
Consensus pattern (46 bp):
ATCTATGATGCCTTTATGGCATATTCTGTGGAGCCTTTGTGGCATA
Found at i:10528945 original size:23 final size:23
Alignment explanation
Indices: 10528750--10528948 Score: 109
Period size: 23 Copynumber: 8.7 Consensus size: 23
10528740 GTTATAGGTT
* *
10528750 ATCTAT-GATGCCTTTATGGCACA
1 ATCTATGGA-GCCTTTGTGGCATA
* *
10528773 TTTTATGGAGCCTTTGTGGCATA
1 ATCTATGGAGCCTTTGTGGCATA
* *
10528796 ATTTAT-GATG-CTTGTATGGCATA
1 ATCTATGGA-GCCTT-TGTGGCATA
* *
10528819 TTCTGTGGAGCCTTTGTGGCATA
1 ATCTATGGAGCCTTTGTGGCATA
* * * *
10528842 ATCTAT-GATGCGTTTATGACGTA
1 ATCTATGGA-GCCTTTGTGGCATA
* * *
10528865 TTGTGTGGAGCCTTTGTGGCATA
1 ATCTATGGAGCCTTTGTGGCATA
** * * **
10528888 ATCTATTAAGCCTTTCTAGTGTA
1 ATCTATGGAGCCTTTGTGGCATA
* * *
10528911 TTTTGTGGAGCCTTTGTGGCATA
1 ATCTATGGAGCCTTTGTGGCATA
*
10528934 ATCTATGTAGCCTTT
1 ATCTATGGAGCCTTT
10528949 ATGGTGTATT
Statistics
Matches: 124, Mismatches: 45, Indels: 14
0.68 0.25 0.08
Matches are distributed among these distances:
22 7 0.06
23 108 0.87
24 9 0.07
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (23 bp):
ATCTATGGAGCCTTTGTGGCATA
Found at i:10529081 original size:23 final size:23
Alignment explanation
Indices: 10529045--10529115 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
10529035 GTTTTTTATA
* *
10529045 GTGTATTTTGCAATG-CTTATGTG
1 GTGTATTCTACAATGCCTT-TGTG
10529068 GTGTATTCTACAATGCCTTTGTG
1 GTGTATTCTACAATGCCTTTGTG
* *
10529091 GTGTATCCTACAATGTCTTTGTG
1 GTGTATTCTACAATGCCTTTGTG
10529114 GT
1 GT
10529116 AAGTTCTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (23 bp):
GTGTATTCTACAATGCCTTTGTG
Found at i:10536059 original size:17 final size:17
Alignment explanation
Indices: 10536037--10536069 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10536027 ATTTTGTGAG
*
10536037 CAAGAAAGATGCCAAGC
1 CAAGAAAGATACCAAGC
10536054 CAAGAAAGATACCAAG
1 CAAGAAAGATACCAAG
10536070 GTCACAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.21, T:0.06
Consensus pattern (17 bp):
CAAGAAAGATACCAAGC
Found at i:10539945 original size:7 final size:6
Alignment explanation
Indices: 10539933--10539979 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
10539923 AATGCTCTTT
* *
10539933 TTTTTCC TTTTTC TTTTTT TTTTTC CTTTT- TTTTTC -TTTTC TTTTTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
10539980 ATGAGTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
5 9 0.26
6 20 0.59
7 5 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:10539947 original size:16 final size:15
Alignment explanation
Indices: 10539928--10539978 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
10539918 GTACAAATGC
10539928 TCTTTTTTTTCCTTTT
1 TCTTTTTTTT-CTTTT
10539944 TC-TTTTTTT-TTTT
1 TCTTTTTTTTCTTTT
*
10539957 CCTTTTTTTT-TCTTT
1 TCTTTTTTTTCT-TTT
10539972 TCTTTTT
1 TCTTTTT
10539979 CATGAGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 5 0.16
14 8 0.26
15 16 0.52
16 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TCTTTTTTTTCTTTT
Found at i:10539954 original size:19 final size:18
Alignment explanation
Indices: 10539930--10539972 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
10539920 ACAAATGCTC
10539930 TTTTTTTTCCTTTTTCTTT
1 TTTTTTTTCCTTTTT-TTT
10539949 TTTTTTTTCCTTTTTTTT
1 TTTTTTTTCCTTTTTTTT
10539967 TCTTTT
1 T-TTTT
10539973 CTTTTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTTCCTTTTTTTT
Found at i:10539955 original size:12 final size:12
Alignment explanation
Indices: 10539940--10539978 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
10539930 TTTTTTTTCC
10539940 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
10539952 TTTTTC-CTTTT
1 TTTTTCTTTTTT
10539963 TTTTTCTTTTCTT
1 TTTTTCTTTT-TT
10539976 TTT
1 TTT
10539979 CATGAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 8 0.35
13 5 0.22
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:10542984 original size:23 final size:25
Alignment explanation
Indices: 10542958--10543004 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10542948 TATCATTCAT
*
10542958 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
10542981 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
10543005 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:10543327 original size:46 final size:46
Alignment explanation
Indices: 10543265--10543576 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
10543255 TTTGACGTGA
* * * * * *
10543265 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
10543311 TGCCTTGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
10543357 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10543403 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10543449 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10543495 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---CA-A--AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10543533 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10543577 AGAGCACACT
Statistics
Matches: 242, Mismatches: 15, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 32 0.13
40 4 0.02
41 2 0.01
43 2 0.01
44 4 0.02
45 4 0.02
46 194 0.80
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:10543542 original size:38 final size:38
Alignment explanation
Indices: 10543491--10543565 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
10543481 ATTTCATATC
10543491 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAA
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAA
10543529 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
10543566 TTTCATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAA
Found at i:10546423 original size:8 final size:8
Alignment explanation
Indices: 10546391--10546433 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
10546381 ATAAGATATT
10546391 TAATATATA
1 TAATATA-A
10546400 TAATAT-A
1 TAATATAA
*
10546407 TATTATAA
1 TAATATAA
10546415 TAATATAA
1 TAATATAA
10546423 TAATATAA
1 TAATATAA
10546431 TAA
1 TAA
10546434 AGCATAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 6 0.19
8 19 0.61
9 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATATAA
Found at i:10546534 original size:10 final size:10
Alignment explanation
Indices: 10546439--10546541 Score: 55
Period size: 10 Copynumber: 9.4 Consensus size: 10
10546429 AATAAAGCAT
*
10546439 AAAAGAAATA
1 AAAAGAAAGA
*
10546449 AAAAGAAA-T
1 AAAAGAAAGA
*
10546458 AAAATAAAGA
1 AAAAGAAAGA
10546468 AAAAGGAAAGA
1 AAAA-GAAAGA
* *
10546479 AAGAAGGATGA
1 AA-AAGAAAGA
*
10546490 AACAGAATAGGGAA
1 AAAAGAA-A--G-A
10546504 AGAAAGAAAGA
1 A-AAAGAAAGA
10546515 AAAAGGGAAAGA
1 AAAA--GAAAGA
10546527 AAAAGAAAGGA
1 AAAAGAAA-GA
10546538 AAAA
1 AAAA
10546542 TAGGGTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
9 7 0.10
10 22 0.31
11 21 0.29
12 13 0.18
13 1 0.01
14 3 0.04
15 5 0.07
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.05
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:10547426 original size:6 final size:6
Alignment explanation
Indices: 10547410--10547444 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10547400 TCTGTGTACC
* *
10547410 GTTACT ATTACT GTTACT GTTACT GTTATT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
10547445 GGTGTATTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (6 bp):
GTTACT
Found at i:10548728 original size:13 final size:13
Alignment explanation
Indices: 10548706--10548738 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10548696 AAGGGTTTGT
10548706 TTAT-TAAACTAA
1 TTATCTAAACTAA
10548718 TTATCTAAACTAA
1 TTATCTAAACTAA
*
10548731 TTAACTAA
1 TTATCTAA
10548739 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:10558954 original size:13 final size:13
Alignment explanation
Indices: 10558932--10558964 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10558922 AAGGGTTTGT
10558932 TTAT-TAAACTAA
1 TTATCTAAACTAA
10558944 TTATCTAAACTAA
1 TTATCTAAACTAA
*
10558957 TTAACTAA
1 TTATCTAA
10558965 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:10565301 original size:20 final size:20
Alignment explanation
Indices: 10565264--10565302 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10565254 TAAGTATAAG
*
10565264 ATATTTAATATATGTAATAT
1 ATATTTAATATATATAATAT
10565284 ATATTATAATA-ATATAATA
1 ATATT-TAATATATATAATA
10565303 AAGCATAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
ATATTTAATATATATAATAT
Found at i:10566281 original size:6 final size:6
Alignment explanation
Indices: 10566269--10566303 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10566259 TCTGTGTACC
* *
10566269 GTTACT ATTACT ATTACT GTTACT GTTACT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
10566304 AGTGTATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (6 bp):
GTTACT
Found at i:10567913 original size:43 final size:42
Alignment explanation
Indices: 10567866--10567998 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 42
10567856 CCTCGATTGA
*
10567866 GATTTACGTATAAGACCATGTCTGGGACATCGGCATTGTATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATTGTAT-T
* * ** *
10567909 GATTT-TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATTG-TATT
* * * * *
10567951 GAATTACATGTAAGACCACGTCTAGGACGTCGGCATTGTACTT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATTGTA-TT
10567994 G-TTTA
1 GATTTA
10567999 TGAACATTTA
Statistics
Matches: 70, Mismatches: 17, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
42 36 0.51
43 34 0.49
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
GATTTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATT
Found at i:10567965 original size:85 final size:85
Alignment explanation
Indices: 10567830--10567990 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 85
10567820 CTGAGACATC
* * * * *
10567830 GTGTAAGACCTTGTCTGGGACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACA
1 GTGTAAGACCCTGTCTGGGACACAAGCATCGATTGAGATTTACATATAAGACCACGTCTAGGACA
10567895 TCGGCATTGTATCTGATTTT
66 TCGGCATTGTATCTGATTTT
* * *
10567915 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTAGGA
1 GTGTAAGACCCTGTCTGGGACACAAGCATCG--ATTGAGATTTACATATAAGACCACGTCTAGGA
*
10567978 CGTCGGCATTGTA
64 CATCGGCATTGTA
10567991 CTTGTTTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 59 0.91
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (85 bp):
GTGTAAGACCCTGTCTGGGACACAAGCATCGATTGAGATTTACATATAAGACCACGTCTAGGACA
TCGGCATTGTATCTGATTTT
Found at i:10576578 original size:42 final size:42
Alignment explanation
Indices: 10576474--10576612 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
10576464 CTGAGACATT
* *
10576474 GTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATTTAC
*
10576517 GTATAAGACCATGTCTGGGACATC-GGCATCGTATCT-GATTT-C
1 GTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATTTAC
* * * * *
10576559 GTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTAC
1 GTGTAAGACCATGTCTGGGACACAGGCATCGAT-TAGATTTAC
*
10576602 ATGTAAGACCA
1 GTGTAAGACCA
10576613 CGTATGGAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.04
42 31 0.39
43 41 0.52
44 3 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATTTAC
Found at i:10576609 original size:85 final size:85
Alignment explanation
Indices: 10576474--10576630 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 85
10576464 CTGAGACATT
* * * * * *
10576474 GTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACA
1 GTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTATGGAACA
10576539 TCGGCATCGTATCTGATTTC
66 TCGGCATCGTATCTGATTTC
* * *
10576559 GTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTATGGAA
1 GTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTATGGAA
*
10576622 CGTCGGCAT
64 CATCGGCAT
10576631 TGTACCTGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 54 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (85 bp):
GTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTATGGAACA
TCGGCATCGTATCTGATTTC
Found at i:10587525 original size:39 final size:38
Alignment explanation
Indices: 10587415--10587554 Score: 214
Period size: 37 Copynumber: 3.7 Consensus size: 38
10587405 GCTCAGACGA
* *
10587415 AATCTCCACACGAAGTT-ATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTTCATCGGGTCTTACCCGGACAT
10587452 AATCTCCACACGTAG-TCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTTCATCGGGTCTTACCCGGACAT
* *
10587489 AATCTCCATACGTAGTATCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGT-TCATCGGGTCTTACCCGGACAT
10587528 AATCTCCACACGTAG-TCATCGGGTCTT
1 AATCTCCACACGTAGTTCATCGGGTCTT
10587555 TAGAGCTCGG
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
36 1 0.01
37 58 0.62
39 35 0.37
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (38 bp):
AATCTCCACACGTAGTTCATCGGGTCTTACCCGGACAT
Found at i:10587751 original size:47 final size:47
Alignment explanation
Indices: 10587673--10588402 Score: 1244
Period size: 47 Copynumber: 15.3 Consensus size: 47
10587663 CCCTTCGGGA
* * * * * * *
10587673 CTTATCACATTTACACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
10587720 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10587767 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10587814 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10587863 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
10587910 CTTATCACATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10587957 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588004 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10588053 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588102 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588149 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588290 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588339 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588388 CTTATCACATATATA
1 CTTATCACATATATA
10588403 TACACTGTCT
Statistics
Matches: 656, Mismatches: 21, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
47 419 0.64
49 237 0.36
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10588090 original size:239 final size:237
Alignment explanation
Indices: 10587673--10588402 Score: 1316
Period size: 239 Copynumber: 3.1 Consensus size: 237
10587663 CCCTTCGGGA
* * * * * * * *
10587673 CTTATCACATTTACACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
10587738 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
10587803 GGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTAT
10587868 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
10587910 CTTATCACATATATACACCTTCTCATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
10587975 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
10588040 TCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
129 TCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
10588105 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
194 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10588149 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
10588214 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
10588279 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTAT
10588344 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10588388 CTTATCACATATATA
1 CTTATCACATATATA
10588403 TACACTGTCT
Statistics
Matches: 475, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
237 187 0.39
239 288 0.61
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10588240 original size:286 final size:286
Alignment explanation
Indices: 10587673--10588402 Score: 1288
Period size: 286 Copynumber: 2.6 Consensus size: 286
10587663 CCCTTCGGGA
* * * * * * * * *
10587673 CTTATCACATTTACACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
10587736 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
10587799 CATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
131 CATCGGCCATTAGGCCTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
10587864 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACC
194 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACC
*
10587929 TTCTCATTCATCACATCGGCCATTAGGC
259 TTCACATTCATCACATCGGCCATTAGGC
*
10587957 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
10588022 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
10588087 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 CATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
*
10588152 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
196 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTT
10588217 CACATTCATCACATCGGCCATTAGGC
261 CACATTCATCACATCGGCCATTAGGC
10588243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
10588308 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
10588373 CATCGGCCATTAGGCCTTATCACATATATA
131 CATCGGCCATTAGGCCTTATCACATATATA
10588403 TACACTGTCT
Statistics
Matches: 426, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
284 45 0.11
286 335 0.79
288 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (286 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTT
CACATTCATCACATCGGCCATTAGGC
Found at i:10591491 original size:17 final size:17
Alignment explanation
Indices: 10591457--10591507 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
10591447 TGAACCAAAC
* *
10591457 AAAAACAAAAAAAAAAAG
1 AAAAAC-AAAACAGAAAG
10591475 AAAAACAAAACAGAAAG
1 AAAAACAAAACAGAAAG
**
10591492 AAAAAGGAAACAGAAA
1 AAAAACAAAACAGAAA
10591508 CATCATCCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAACAAAACAGAAAG
Found at i:10591501 original size:24 final size:24
Alignment explanation
Indices: 10591453--10591497 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10591443 AACATGAACC
10591453 AAACAAAAACAAAAAAAAAAAGAA
1 AAACAAAAACAAAAAAAAAAAGAA
* *
10591477 AAAC-AAAACAGAAAGAAAAAG
1 AAACAAAAACAAAAAAAAAAAG
10591498 GAAACAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (24 bp):
AAACAAAAACAAAAAAAAAAAGAA
Found at i:10613364 original size:68 final size:68
Alignment explanation
Indices: 10613254--10613550 Score: 319
Period size: 68 Copynumber: 4.4 Consensus size: 68
10613244 TTTACCTGAC
* * * * *
10613254 GCCATATCCGAGCTATGGTCTTATATAGTATA-AACCCATGTTTAACGTCCTGGAAAACTCTCTT
1 GCCATAGCCGAGCTATGGTCTTACACAGTA-AGAACCCATGTTTAACGTCCTAGAAAACTCCCTT
10613318 TGTT
65 TGTT
* ** * *
10613322 ACCATAGCCGAGCTATGGTCTTGTACAGTAAGAACCCATGTTTAACTTCCTA-ACAGACTCCCTT
1 GCCATAGCCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACGTCCTAGA-AAACTCCCTT
10613386 TGTT
65 TGTT
* * * * * * * * **
10613390 TCCATAGTCGAGCTATGGTCTTACACAATAGGAGCCCATGTTTAATGTCCTAGCAGACTCAATTT
1 GCCATAGCCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACGTCCTAGAAAACTCCCTTT
10613455 GTT
66 GTT
* * * * * *
10613458 GTCATTGCCGAGCTATGGTCTTACACAGTATGAACTCATGTTTAACGTCCTAGTAGACTCCCTTT
1 GCCATAGCCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACGTCCTAGAAAACTCCCTTT
10613523 GTT
66 GTT
*
10613526 GCCATAGCCAAGCTATGGTCTTACA
1 GCCATAGCCGAGCTATGGTCTTACA
10613551 TATTAAACTT
Statistics
Matches: 191, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
67 2 0.01
68 189 0.99
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (68 bp):
GCCATAGCCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACGTCCTAGAAAACTCCCTTT
GTT
Found at i:10616281 original size:23 final size:23
Alignment explanation
Indices: 10616251--10616308 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
10616241 TTGATTCTTA
*
10616251 ATGGGATATTATGAGACATTATT
1 ATGGGATATTATAAGACATTATT
*
10616274 ATGGGATATTATAAGATATTATT
1 ATGGGATATTATAAGACATTATT
*
10616297 ATGGTATATTAT
1 ATGGGATATTAT
10616309 CTTTTAGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (23 bp):
ATGGGATATTATAAGACATTATT
Found at i:10617401 original size:20 final size:18
Alignment explanation
Indices: 10617376--10617412 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
10617366 ACCTAACACG
10617376 AATTAAATTTAAACCATATT
1 AATTAAA-TTAAA-CATATT
10617396 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
10617413 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:10620612 original size:21 final size:21
Alignment explanation
Indices: 10620572--10620637 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
10620562 ATATGCCAAT
*
10620572 CAAAAGCTC-AAA-ATCTAAA
1 CAAAAGCTCGAAAGACCTAAA
*
10620591 CAGAAGCTCGAAAGACCTAAA
1 CAAAAGCTCGAAAGACCTAAA
* * *
10620612 CAAAAGCTCGTAAGAGCTGAA
1 CAAAAGCTCGAAAGACCTAAA
10620633 CAAAA
1 CAAAA
10620638 ACTCATAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.21
20 3 0.08
21 28 0.72
ACGTcount: A:0.52, C:0.21, G:0.15, T:0.12
Consensus pattern (21 bp):
CAAAAGCTCGAAAGACCTAAA
Found at i:10620659 original size:22 final size:21
Alignment explanation
Indices: 10620610--10620659 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
10620600 GAAAGACCTA
* *
10620610 AACAAAAGCTCGTAAGAGCTG
1 AACAAAAACTCATAAGAGCTG
10620631 AACAAAAACTCATAAGAGCTG
1 AACAAAAACTCATAAGAGCTG
10620652 AACAAAAA
1 AACAAAAA
10620660 GTAAAACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.18, G:0.16, T:0.12
Consensus pattern (21 bp):
AACAAAAACTCATAAGAGCTG
Found at i:10629075 original size:28 final size:29
Alignment explanation
Indices: 10629010--10629108 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
10629000 CATGAGATTG
* *
10629010 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
10629039 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
10629067 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
10629095 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
10629109 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:10636379 original size:20 final size:22
Alignment explanation
Indices: 10636319--10636380 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
10636309 TCATTTGATT
*
10636319 TAATAAAACAAAT-ATTTTTTA
1 TAATAAAACAATTGATTTTTTA
*
10636340 TAATAAAACATTTGAATTTTTTA
1 TAATAAAACAATTG-ATTTTTTA
*
10636363 TAA-AAAATAATTG-TTTTT
1 TAATAAAACAATTGATTTTT
10636381 AATTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 8 0.23
23 11 0.31
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (22 bp):
TAATAAAACAATTGATTTTTTA
Found at i:10638324 original size:39 final size:39
Alignment explanation
Indices: 10638262--10638362 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
10638252 ATCGTGATTT
* * *
10638262 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
* * *
10638301 GAAGCCTGAAGGCTAACTAAAGCACACAAGTGTTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
10638340 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
10638363 TCATCAAAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.16
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
Found at i:10644260 original size:25 final size:25
Alignment explanation
Indices: 10644218--10644276 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
10644208 GCATATAATT
10644218 AGGAAGCTCTTCTAAGCC-ATGTAAC
1 AGGAAGCTCTTCTAAGCCAAT-TAAC
* *
10644243 AGGAAGCTCTTGC-GAGCCAATTATC
1 AGGAAGCTCTT-CTAAGCCAATTAAC
10644268 AGGAAGCTC
1 AGGAAGCTC
10644277 ATATGAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (25 bp):
AGGAAGCTCTTCTAAGCCAATTAAC
Found at i:10644284 original size:25 final size:25
Alignment explanation
Indices: 10644242--10644348 Score: 64
Period size: 24 Copynumber: 4.4 Consensus size: 25
10644232 AGCCATGTAA
* **
10644242 CAGGAAGCTCTTGCGAGCCAATTAT
1 CAGGAAGCTCATATGAGCCAATTAT
* *
10644267 CAGGAAGCTCATATGAGCC-ATAAA
1 CAGGAAGCTCATATGAGCCAATTAT
* *
10644291 C-GAGAAGCTCA-AGAGAGCCAAAT-T
1 CAG-GAAGCTCATA-TGAGCCAATTAT
* *
10644315 CAGAAATCTCAT-TCGAGCCAA-TAT
1 CAGGAAGCTCATAT-GAGCCAATTAT
10644339 CAGGAAGCTC
1 CAGGAAGCTC
10644349 CAGAGAGTCA
Statistics
Matches: 61, Mismatches: 14, Indels: 15
0.68 0.16 0.17
Matches are distributed among these distances:
23 3 0.05
24 40 0.66
25 18 0.30
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (25 bp):
CAGGAAGCTCATATGAGCCAATTAT
Found at i:10644372 original size:73 final size:74
Alignment explanation
Indices: 10644255--10644391 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 74
10644245 GAAGCTCTTG
*
10644255 CGAGCCAATTATCAGGAAGCTCATATGAGCCATAAACGAGAAGCTCAAGAGAGCCAAAT-TCAGA
1 CGAGCCAATTATCAGGAAGCTCAGATGAGCCATAAACGAGAAGCTCAAGAGAGCCAAATATCAGA
10644319 AATCTCATT
66 AATCTCATT
* * ** *
10644328 CGAGCCAA-TATCAGGAAGCTCCAGA-GAGTCATTAATCG-GAAAGCTCGTGAGAGTCAAATATC
1 CGAGCCAATTATCAGGAAGCT-CAGATGAGCCA-TAAACGAG-AAGCTCAAGAGAGCCAAATATC
10644390 AG
63 AG
10644392 GATGCTCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
72 18 0.33
73 32 0.59
74 4 0.07
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (74 bp):
CGAGCCAATTATCAGGAAGCTCAGATGAGCCATAAACGAGAAGCTCAAGAGAGCCAAATATCAGA
AATCTCATT
Found at i:10646003 original size:47 final size:48
Alignment explanation
Indices: 10645929--10646098 Score: 174
Period size: 47 Copynumber: 3.6 Consensus size: 48
10645919 AGGGTAAGGT
* * *
10645929 GCCGATGCCATGTCCTATACACGGTCTTACACTGGCTCAT-ATCTCA-A
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCATCATCTCATA
* * * *
10645976 GTCGATGCCATGTCCCAGACATTGTCTTATATTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCATCATCTCATA
* * *
10646024 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTC-TCATGAT-GTG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCAT-CTCATA
10646070 GCCGATG-CATGTCCCAGACATGTCTTACA
1 GCCGATGCCATGTCCCAGACATGTCTTACA
10646099 TAGCTCACAC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 48 0.46
47 49 0.47
48 7 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCATA
Found at i:10655387 original size:40 final size:40
Alignment explanation
Indices: 10655321--10655457 Score: 184
Period size: 40 Copynumber: 3.4 Consensus size: 40
10655311 CTCGAGAATA
* * ** *
10655321 TAAAGTGGATAGGATTCGTTCTTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
10655361 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
10655401 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
*
10655441 TAAGGTGGATAGGATTT
1 TAAAGTGGATAGGATTT
10655458 AACCTGAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:10655514 original size:78 final size:78
Alignment explanation
Indices: 10655423--10655650 Score: 357
Period size: 79 Copynumber: 2.9 Consensus size: 78
10655413 GATTTATTCC
* * * *
10655423 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTAACCTGAAAAGGTAATCCTGATTTGCTATA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
10655488 GTTACACGATATA
66 GTTACACGATATA
*
10655501 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
* *
10655566 GGTTACATGATATA
65 AGTTACACGATATA
* * *
10655580 TGATTCATCATGGTAACTTAAGGTGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
10655645 GTTACA
66 GTTACA
10655651 TGAGATGTGA
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 66 0.48
79 71 0.52
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GTTACACGATATA
Found at i:10657267 original size:30 final size:30
Alignment explanation
Indices: 10657190--10657357 Score: 130
Period size: 30 Copynumber: 5.8 Consensus size: 30
10657180 GTAGGCGTCC
* *
10657190 TTTTAACAAAGATAGCCACAAA-GCA-TCC
1 TTTTAACAGAGATAGCCACAAAGGCATTCT
* * *
10657218 ATTTAACTGAGATAGCCACAAAGGTATTCT
1 TTTTAACAGAGATAGCCACAAAGGCATTCT
* *
10657248 TTTTATCAGAGATAACCACAAAGGCATTCT
1 TTTTAACAGAGATAGCCACAAAGGCATTCT
* * * *
10657278 TTTTAACAGATATAGCCACTAATGC-TTCC
1 TTTTAACAGAGATAGCCACAAAGGCATTCT
* * * * *
10657307 TTGTCACAAAGATCGCCACAAAGTC-TTC-
1 TTTTAACAGAGATAGCCACAAAGGCATTCT
* * *
10657335 CTTTAACAAAGATAGCCATAAAG
1 TTTTAACAGAGATAGCCACAAAG
10657358 TCTTATTTAT
Statistics
Matches: 109, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
28 37 0.34
29 25 0.23
30 47 0.43
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (30 bp):
TTTTAACAGAGATAGCCACAAAGGCATTCT
Found at i:10671155 original size:32 final size:32
Alignment explanation
Indices: 10671093--10671155 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
10671083 TCAAAGATAA
*
10671093 AATTTAAGTTTAAAAATTAAAATGAAAAAAAT
1 AATTTAAGTTTAAAAATTAAAATAAAAAAAAT
* *
10671125 AATTTAA-TTTCAAAATTAATATAAACAAAAA
1 AATTTAAGTTTAAAAATTAAAATAAA-AAAAA
10671156 ATCAAAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (32 bp):
AATTTAAGTTTAAAAATTAAAATAAAAAAAAT
Found at i:10672015 original size:30 final size:30
Alignment explanation
Indices: 10671981--10672043 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
10671971 ACTTAAGAAG
10671981 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
10672011 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
10672041 CAA
1 CAA
10672044 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:10675910 original size:31 final size:31
Alignment explanation
Indices: 10675865--10675939 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
10675855 AAATTTACAA
* *
10675865 TAAAAAAAT-GTATAAA-ATTATT-AAATAT
1 TAAAAAAATAATATAAATATTATTAAAAAAT
*
10675893 TAAAATAATATAATATAAATATTTTTAAAAAAT
1 TAAAA-AA-ATAATATAAATATTATTAAAAAAT
10675926 TAAAAAAATAATAT
1 TAAAAAAATAATAT
10675940 GGGTGGACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 5 0.13
29 2 0.05
30 2 0.05
31 13 0.33
32 7 0.18
33 10 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (31 bp):
TAAAAAAATAATATAAATATTATTAAAAAAT
Found at i:10679338 original size:15 final size:15
Alignment explanation
Indices: 10679318--10679347 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10679308 TTTAATGAAC
10679318 TATGCAAGTTAGAAG
1 TATGCAAGTTAGAAG
10679333 TATGCAAGTTAGAAG
1 TATGCAAGTTAGAAG
10679348 GGATTATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
TATGCAAGTTAGAAG
Found at i:10684826 original size:14 final size:14
Alignment explanation
Indices: 10684807--10684833 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10684797 CATGATAAAA
10684807 TAAAATACAAGTGG
1 TAAAATACAAGTGG
10684821 TAAAATACAAGTG
1 TAAAATACAAGTG
10684834 TGCAAGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:10686098 original size:17 final size:18
Alignment explanation
Indices: 10686066--10686099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10686056 TATTTTATAA
*
10686066 ATAATTTTATAAAATTCT
1 ATAATTGTATAAAATTCT
10686084 ATAATTGTA-AAAATTC
1 ATAATTGTATAAAATTC
10686100 ATTACAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
ATAATTGTATAAAATTCT
Found at i:10701811 original size:80 final size:80
Alignment explanation
Indices: 10701718--10701879 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
10701708 TTTGGCTTTG
10701718 TGAATGAGTAGAAAATATGTTATGAATAGTCATTATATTTGTGTATGTATGATGAGATATGTTCG
1 TGAATGAGTAGAAAATATGTTATGAATAGTCATTATATTTGTGTATGTATGATGAGATATGTTCG
10701783 GTTATATGATTAGTA
66 GTTATATGATTAGTA
*
10701798 TGAATGAGTAGAAAGTATGTTATGAATAGTCATTATATTTGTGTATGTATGATGAGATATGTTCG
1 TGAATGAGTAGAAAATATGTTATGAATAGTCATTATATTTGTGTATGTATGATGAGATATGTTCG
10701863 GTTATATGATTAGTA
66 GTTATATGATTAGTA
10701878 TG
1 TG
10701880 TGTATATGAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.41
Consensus pattern (80 bp):
TGAATGAGTAGAAAATATGTTATGAATAGTCATTATATTTGTGTATGTATGATGAGATATGTTCG
GTTATATGATTAGTA
Found at i:10703249 original size:18 final size:18
Alignment explanation
Indices: 10703226--10703260 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10703216 ATAGTTTTTG
10703226 AGCAGAAA-AAGAGAAAAT
1 AGCAGAAAGAAG-GAAAAT
10703244 AGCAGAAAGAAGGAAAA
1 AGCAGAAAGAAGGAAAA
10703261 AAACAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.66, C:0.06, G:0.26, T:0.03
Consensus pattern (18 bp):
AGCAGAAAGAAGGAAAAT
Found at i:10707502 original size:15 final size:15
Alignment explanation
Indices: 10707482--10707511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10707472 CAACATAGAT
*
10707482 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
10707497 TTTTTATAATTTATA
1 TTTTTATAATTTATA
10707512 AAAGATTAAA
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:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:10712022 original size:26 final size:26
Alignment explanation
Indices: 10711993--10712043 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10711983 CTAGTGAGTT
*
10711993 GGGTCA-CTAGTGGGCTTGGCGAGCTG
1 GGGTCATC-AGTGGGCCTGGCGAGCTG
*
10712019 GGGTCATCAGTGGGCCTGGTGAGCT
1 GGGTCATCAGTGGGCCTGGCGAGCT
10712044 ATAGTCGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.12, C:0.20, G:0.45, T:0.24
Consensus pattern (26 bp):
GGGTCATCAGTGGGCCTGGCGAGCTG
Found at i:10729634 original size:26 final size:25
Alignment explanation
Indices: 10729605--10729686 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 25
10729595 TCTTCTTTCA
10729605 AGCCATATAATAGGAAGCTCACAAAG
1 AGCCAT-TAATAGGAAGCTCACAAAG
*
10729631 AGCCATTAATTGGGAAGCTCACAAAG
1 AGCCATTAA-TAGGAAGCTCACAAAG
* *
10729657 AGCCATTAATCGGAAAGCTTACAAAG
1 AGCCATTAATAGG-AAGCTCACAAAG
10729683 AGCC
1 AGCC
10729687 TATCAAGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 6 0.12
26 45 0.88
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
AGCCATTAATAGGAAGCTCACAAAG
Found at i:10729767 original size:26 final size:26
Alignment explanation
Indices: 10729735--10729799 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
10729725 ATAAGAGCCA
* *
10729735 TAATCAGGAAGTTCACAAAGAAATTT
1 TAATCAGGAAGCTCACAAAGAAACTT
* **
10729761 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAAACTT
10729787 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
10729800 TTGTAATACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAAACTT
Found at i:10733015 original size:17 final size:17
Alignment explanation
Indices: 10732971--10733016 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
10732961 GAAATACATA
*
10732971 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
10732986 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
10733002 GAAATGAATGATATA
1 GAAATGAATGATATA
10733017 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:10735424 original size:40 final size:39
Alignment explanation
Indices: 10735380--10735603 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
10735370 GCTCCTCGTT
*
10735380 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGTTATAGTAACTCGCA
*
10735420 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
10735460 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
10735499 CAAATGCCTTCGGATCTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
10735539 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
10735580 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
10735604 ACATCATTCA
Statistics
Matches: 159, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
39 36 0.23
40 109 0.69
41 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Done.