Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 151 of 205
Found at i:45621750 original size:36 final size:37
Alignment explanation
Indices: 45621666--45621787 Score: 140
Period size: 36 Copynumber: 3.3 Consensus size: 37
45621656 GGCAGAAACT
* * *
45621666 GAGCAAATTGGCCGAAAAAGAAAAGAAAAGAAACGGGGG
1 GAGCAAATCGGCAG-AAAAGAAAAGAAAAGAAAC-GAGG
* *
45621705 GAGCAAATCGGCAGAAAAGAAAAGAAAATAAAC-TGG
1 GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGAGG
* *
45621741 GAGCAAATCGGCAGAAAA-AAAAGCAAAGAAACAAGG
1 GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGAGG
*
45621777 AAGCAAATCGG
1 GAGCAAATCGG
45621788 ATGAAGGTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
35 12 0.16
36 32 0.43
38 18 0.24
39 12 0.16
ACGTcount: A:0.54, C:0.12, G:0.28, T:0.06
Consensus pattern (37 bp):
GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGAGG
Found at i:45622079 original size:25 final size:26
Alignment explanation
Indices: 45622051--45622105 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
45622041 TTATTAAATT
*
45622051 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
45622076 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
45622101 A-ATAT
1 ATATAT
45622106 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:45622339 original size:16 final size:16
Alignment explanation
Indices: 45622318--45622352 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45622308 GTTTGCTATA
* *
45622318 ACACCTCTATTCCATT
1 ACACCTCTAATCCAAT
45622334 ACACCTCTAATCCAAT
1 ACACCTCTAATCCAAT
45622350 ACA
1 ACA
45622353 GCGACCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
ACACCTCTAATCCAAT
Found at i:45623738 original size:38 final size:38
Alignment explanation
Indices: 45623666--45623752 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
45623656 ACAATGAACT
* * * *
45623666 TGCTTATCATGTGTTCAGTTCCATAATAGCAGTAGACA
1 TGCTTAACATGTATTCAGTTCAATAATAACAGTAGACA
* * *
45623704 TGCTTAACATGTATTCAGTTCAATAGTAATAGTAGGCA
1 TGCTTAACATGTATTCAGTTCAATAATAACAGTAGACA
*
45623742 TGCTAAACATG
1 TGCTTAACATG
45623753 CAATCAGTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (38 bp):
TGCTTAACATGTATTCAGTTCAATAATAACAGTAGACA
Found at i:45626076 original size:30 final size:31
Alignment explanation
Indices: 45626026--45626084 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
45626016 AAACTTTCAA
*
45626026 AATTCAAAAAGTACAAAGACTAAAATTGACC
1 AATTCAAAAAGAACAAAGACTAAAATTGACC
*
45626057 AATTCAAAAA-AATAAAGACTAAAATTGA
1 AATTCAAAAAGAACAAAGACTAAAATTGA
45626085 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.20
Consensus pattern (31 bp):
AATTCAAAAAGAACAAAGACTAAAATTGACC
Found at i:45634919 original size:27 final size:27
Alignment explanation
Indices: 45634864--45634942 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
45634854 ACATAAAGTC
* *
45634864 ATAACAGTCATTTCATCTCCTA--GGTGT
1 ATAACAGTCATTTTA-C-CCTATGGGGGT
45634891 ATAACAGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
** *
45634918 ATTTCGGTCATTTTACCCTATGGGG
1 ATAACAGTCATTTTACCCTATGGGG
45634943 ACATTTCGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 40 0.89
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATGGGGGT
Found at i:45634948 original size:27 final size:27
Alignment explanation
Indices: 45634897--45634956 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
45634887 GTGTATAACA
**
45634897 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGACATTTCG
45634924 GTCATTTTACCCTATGGGGACATTTCG
1 GTCATTTTACCCTATGGGGACATTTCG
45634951 GTCATT
1 GTCATT
45634957 CTAGCCATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGACATTTCG
Found at i:45635029 original size:27 final size:27
Alignment explanation
Indices: 45634999--45635149 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
45634989 TATAATAGTT
* *
45634999 ATTTTACCTTATGAGGGTATTTCGATC
1 ATTTTACCTTATGGGGGTATTTCGGTC
*
45635026 ATTTTACCCTATAGGGGTATTTTGATATTTCGGTC
1 ATTTTACCTTAT-GGGG------G-TATTTCGGTC
* *
45635061 ACTTTACCCTAT-GGGGTATATT-GGTC
1 ATTTTACCTTATGGGGGTAT-TTCGGTC
45635087 ATTTTACCTTATGGGGGTATTTCGGTC
1 ATTTTACCTTATGGGGGTATTTCGGTC
* *
45635114 ATTCTATCC-TATGGGGGTATTTCGATC
1 ATTTTA-CCTTATGGGGGTATTTCGGTC
45635141 ATTTTACCT
1 ATTTTACCT
45635150 ATTTTGGGGT
Statistics
Matches: 102, Mismatches: 9, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
26 21 0.21
27 52 0.51
28 5 0.05
33 3 0.03
34 1 0.01
35 20 0.20
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
ATTTTACCTTATGGGGGTATTTCGGTC
Found at i:45635034 original size:99 final size:100
Alignment explanation
Indices: 45634863--45635042 Score: 290
Period size: 99 Copynumber: 1.8 Consensus size: 100
45634853 AACATAAAGT
* * *
45634863 CATAACAGTCATTTCATCTCCTAGGTGTATAACAGTCATTTTACCCTATGGGGGTATTTCGGTCA
1 CATAACAGTCATTTCATCTCCTAGGAGTATAACAGTCATTTTACCCTATGAGGGTATTTCGATCA
45634928 TTTTACCCTAT-GGGGACATTTCGGTCATTCTAGC
66 TTTTACCCTATAGGGGACATTTCGGTCATTCTAGC
* * * *
45634962 CATAACAGTCATTTCATCTTCTAGGAGTATAATAGTTATTTTACCTTATGAGGGTATTTCGATCA
1 CATAACAGTCATTTCATCTCCTAGGAGTATAACAGTCATTTTACCCTATGAGGGTATTTCGATCA
45635027 TTTTACCCTATAGGGG
66 TTTTACCCTATAGGGG
45635043 TATTTTGATA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 69 0.95
100 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (100 bp):
CATAACAGTCATTTCATCTCCTAGGAGTATAACAGTCATTTTACCCTATGAGGGTATTTCGATCA
TTTTACCCTATAGGGGACATTTCGGTCATTCTAGC
Found at i:45643412 original size:53 final size:52
Alignment explanation
Indices: 45643341--45643485 Score: 173
Period size: 53 Copynumber: 2.7 Consensus size: 52
45643331 CTAAAGAACT
* *
45643341 ATATCATGTAAGATCATAACTGGTGGGTTACAGCATCATATGGAAAGAAGACC
1 ATATCATGTAAGACCATAACTAGTGGGTTA-AGCATCATATGGAAAGAAGACC
** * * * *
45643394 ATATCATGTAAGACCATAACTAGTATGTTATGAAATTATATGGAAATAAGACC
1 ATATCATGTAAGACCATAACTAGTGGGTTAAG-CATCATATGGAAAGAAGACC
* *
45643447 ATATCGTGTAAGACCATAACTAGTGGGTTATGGCATCAT
1 ATATCATGTAAGACCATAACTAGTGGGTTA-AGCATCAT
45643486 GTTGGAAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.01
53 74 0.97
54 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (52 bp):
ATATCATGTAAGACCATAACTAGTGGGTTAAGCATCATATGGAAAGAAGACC
Found at i:45643648 original size:29 final size:27
Alignment explanation
Indices: 45643616--45643819 Score: 96
Period size: 28 Copynumber: 7.3 Consensus size: 27
45643606 AAGTACAACA
45643616 TTTGTGGAAAAACTTTAGAAAGGTAAGCC
1 TTTGTGG-AAAACTTT-GAAAGGTAAGCC
* * *
45643645 TTTGTGGAGAACTTGTTAAAGG-ACA-CA
1 TTTGTGGAAAACTT-TGAAAGGTA-AGCC
* **
45643672 TTTGTGGCAAAACTTTAGAAATGTAAGTG
1 TTTGTGG-AAAACTTT-GAAAGGTAAGCC
* * *
45643701 TTTGTGGTAAACTTGTTAAAGG-ACAACC
1 TTTGTGGAAAACTT-TGAAAGGTA-AGCC
*
45643729 TTTGTGGCAAAACTCTTGAAGGGTAAGCC
1 TTTGTGG-AAAACT-TTGAAAGGTAAGCC
* *
45643758 TTCGTGTCG-AAACTCTT-AAAGG-ACGCC
1 TT--TGTGGAAAACT-TTGAAAGGTAAGCC
* * * *
45643785 TTTGTGGTGAGACTCTGAAAGGAAAGCC
1 TTTGTGG-AAAACTTTGAAAGGTAAGCC
45643813 TTTGTGG
1 TTTGTGG
45643820 CGAGTACTTA
Statistics
Matches: 133, Mismatches: 25, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
25 4 0.03
26 1 0.01
27 26 0.20
28 56 0.42
29 40 0.30
30 2 0.02
31 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (27 bp):
TTTGTGGAAAACTTTGAAAGGTAAGCC
Found at i:45643750 original size:28 final size:28
Alignment explanation
Indices: 45643716--45643820 Score: 79
Period size: 27 Copynumber: 3.8 Consensus size: 28
45643706 GGTAAACTTG
45643716 TTAAAGGACAACCTTTGTGGCAAAACTC
1 TTAAAGGACAACCTTTGTGGCAAAACTC
* ** * * *
45643744 TTGAAGGGTAAGCCTTCGTGTCGAAACTC
1 TTAAAGGACAA-CCTTTGTGGCAAAACTC
* ** *
45643773 TTAAAGGAC-GCCTTTGTGGTGAGACTC
1 TTAAAGGACAACCTTTGTGGCAAAACTC
*
45643800 TGAAAGGA-AAGCCTTTGTGGC
1 TTAAAGGACAA-CCTTTGTGGC
45643821 GAGTACTTAA
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
27 20 0.35
28 17 0.30
29 20 0.35
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (28 bp):
TTAAAGGACAACCTTTGTGGCAAAACTC
Found at i:45643777 original size:57 final size:55
Alignment explanation
Indices: 45643613--45643819 Score: 204
Period size: 56 Copynumber: 3.7 Consensus size: 55
45643603 TAAAAGTACA
*
45643613 ACATTTGTGGAAAAACTTTAGAAAGGTAAGCCTTTGTGGAGAACTTGTTAAAGGAC
1 ACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGGA-AACTTGTTAAAGGAC
* **
45643669 ACATTTGTGGCAAAACTTTAGAAATGTAAGTGTTTGTGGTAAACTTGTTAAAGGAC
1 ACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGG-AAACTTGTTAAAGGAC
* * * *
45643725 AACCTTTGTGGCAAAACTCTT-GAAGGGTAAGCCTTCGTGTCGAAAC-TCTTAAAGGAC
1 -ACATTTGTGGCAAAACT-TTAGAAAGGTAAGCCTT--TGTGGAAACTTGTTAAAGGAC
* * ** * * *
45643782 GCCTTTGTGGTGAGACTCT-GAAAGGAAAGCCTTTGTGG
1 ACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGG
45643820 CGAGTACTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.03
55 13 0.10
56 63 0.50
57 37 0.29
58 6 0.05
59 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (55 bp):
ACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGGAAACTTGTTAAAGGAC
Found at i:45643845 original size:31 final size:27
Alignment explanation
Indices: 45643775--45643851 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
45643765 CGAAACTCTT
* *
45643775 AAAGGACGCCTTTGTGGTGAGACTCTG
1 AAAGGACGCCTTTGTGGCGAGACTATG
*
45643802 AAAGGAAAGCCTTTGTGGCGAGTACTTAATG
1 AAAGG-ACGCCTTTGTGGCGAG-AC-T-ATG
45643833 AAAAGGACGCCTTTGTGGC
1 -AAAGGACGCCTTTGTGGC
45643852 AATATCTAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
28 14 0.34
29 2 0.05
30 1 0.02
31 14 0.34
32 5 0.12
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (27 bp):
AAAGGACGCCTTTGTGGCGAGACTATG
Found at i:45652542 original size:23 final size:22
Alignment explanation
Indices: 45652499--45652542 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
45652489 TTCTAAGTCG
45652499 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
45652522 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
45652543 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:45652651 original size:45 final size:45
Alignment explanation
Indices: 45652587--45652680 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
45652577 AACAGATACT
* *
45652587 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
45652632 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
45652677 CGGT
1 CGGT
45652681 TAACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:45652744 original size:51 final size:50
Alignment explanation
Indices: 45652686--45652871 Score: 176
Period size: 51 Copynumber: 3.7 Consensus size: 50
45652676 TCGGTTAACA
* *
45652686 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
* * * * * * *
45652737 TAGTAGCCTGCACATAGTACTATACACGTGATCGAAACTATCCAGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACG
* * * * **
45652788 TAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
* * *
45652838 TTGTATCTTGCACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
45652872 CCACTTTCAC
Statistics
Matches: 106, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.02
50 36 0.34
51 66 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:45661873 original size:21 final size:21
Alignment explanation
Indices: 45661847--45661887 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45661837 AGACGAGCAA
*
45661847 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
45661868 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
45661888 TTGAGCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:45670074 original size:19 final size:18
Alignment explanation
Indices: 45670043--45670083 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
45670033 TTTTTATAAC
45670043 ATTTAATAATTTTTAATA
1 ATTTAATAATTTTTAATA
* *
45670061 ATTTATATACTTTTTTATA
1 ATTTA-ATAATTTTTAATA
45670080 ATTT
1 ATTT
45670084 TCTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAATAATTTTTAATA
Found at i:45670107 original size:44 final size:46
Alignment explanation
Indices: 45670053--45670144 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
45670043 ATTTAATAAT
*
45670053 TTTTAATAATTTATA-T-ACTTTTTTATAATTTTCTAA-AAAAATTA
1 TTTTAATAATTTATACTAACTTTTTTAAAATTTT-TAATAAAAATTA
* * *
45670097 TTTTAGTAATTTCTACTAATTTTTTTAAAATTTTTAATAAAAATTA
1 TTTTAATAATTTATACTAACTTTTTTAAAATTTTTAATAAAAATTA
45670143 TT
1 TT
45670145 ACTCATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 13 0.32
45 4 0.10
46 24 0.59
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (46 bp):
TTTTAATAATTTATACTAACTTTTTTAAAATTTTTAATAAAAATTA
Found at i:45670377 original size:5 final size:5
Alignment explanation
Indices: 45670369--45670395 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45670359 CCAAACTTTG
45670369 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
45670396 TCTATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45670538 original size:11 final size:11
Alignment explanation
Indices: 45670522--45670629 Score: 54
Period size: 11 Copynumber: 10.5 Consensus size: 11
45670512 TATGATTTCT
45670522 ATATTTTTATA
1 ATATTTTTATA
45670533 ATATTTATT-TA
1 ATATTT-TTATA
*
45670544 ATATTTTCAT-
1 ATATTTTTATA
*
45670554 -TA-TTTCATA
1 ATATTTTTATA
* * *
45670563 ACATATTAATA
1 ATATTTTTATA
45670574 ATA-TTTTATA
1 ATATTTTTATA
*
45670584 ATA-TTTAAT-
1 ATATTTTTATA
45670593 AT-TTTTTAT-
1 ATATTTTTATA
*
45670602 ATATTTTTTTA
1 ATATTTTTATA
* * *
45670613 AAAATTTTATG
1 ATATTTTTATA
45670624 ATATTT
1 ATATTT
45670630 AATAATTTTG
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
8 6 0.08
9 11 0.15
10 21 0.29
11 33 0.45
12 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:45670578 original size:21 final size:20
Alignment explanation
Indices: 45670554--45670593 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45670544 ATATTTTCAT
45670554 TATTTCATAACATATTAATAA
1 TATTTCATAACAT-TTAATAA
* *
45670575 TATTTTATAATATTTAATA
1 TATTTCATAACATTTAATA
45670594 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTCATAACATTTAATAA
Found at i:45670586 original size:10 final size:10
Alignment explanation
Indices: 45670526--45670678 Score: 63
Period size: 10 Copynumber: 15.5 Consensus size: 10
45670516 ATTTCTATAT
45670526 TTTTATAATA
1 TTTTATAATA
*
45670536 TTTATTTAATA
1 TTT-TATAATA
45670547 TTTTCAT--TA
1 TTTT-ATAATA
* *
45670556 TTTCATAACA
1 TTTTATAATA
*
45670566 TATTAATAATA
1 T-TTTATAATA
45670577 TTTTATAATA
1 TTTTATAATA
* *
45670587 TTTAAT-ATT
1 TTTTATAATA
45670596 TTTTAT-ATA
1 TTTTATAATA
* *
45670605 TTTTTTTAAAAA
1 -TTTTAT-AATA
*
45670617 TTTTATGATA
1 TTTTATAATA
*
45670627 TTTAATAAT-
1 TTTTATAATA
* *
45670636 TTTGAT-GTA
1 TTTTATAATA
45670645 TTTTCTATAAT-
1 -TTT-TATAATA
*
45670656 TTTCA-AAT-
1 TTTTATAATA
45670664 TTTTATAATA
1 TTTTATAATA
45670674 TTTTA
1 TTTTA
45670679 ATAACTTTTA
Statistics
Matches: 105, Mismatches: 24, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
8 10 0.10
9 23 0.22
10 44 0.42
11 25 0.24
12 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTTATAATA
Found at i:45670594 original size:17 final size:18
Alignment explanation
Indices: 45670572--45670607 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45670562 AACATATTAA
45670572 TAATATTTTATA-ATATT
1 TAATATTTTATATATATT
*
45670589 TAATATTTTTTATATATT
1 TAATATTTTATATATATT
45670607 T
1 T
45670608 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATATTTTATATATATT
Found at i:45670636 original size:18 final size:18
Alignment explanation
Indices: 45670609--45670647 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45670599 TATATATTTT
45670609 TTTAAAAATTTT-ATGATA
1 TTTAAAAATTTTGATG-TA
*
45670627 TTTAATAATTTTGATGTA
1 TTTAAAAATTTTGATGTA
45670645 TTT
1 TTT
45670648 TCTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTAAAAATTTTGATGTA
Found at i:45670750 original size:10 final size:10
Alignment explanation
Indices: 45670735--45670784 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
45670725 TCATTTTAGT
45670735 TTTTATATAA
1 TTTTATATAA
45670745 TTTTATATAA
1 TTTTATATAA
*
45670755 -TTTATAAAA
1 TTTTATATAA
45670764 TATTT-TA-ATA
1 T-TTTATATA-A
45670774 TTTTATATAA
1 TTTTATATAA
45670784 T
1 T
45670785 CCCTAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 12 0.35
10 18 0.53
11 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTATATAA
Found at i:45670822 original size:30 final size:30
Alignment explanation
Indices: 45670788--45670866 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
45670778 ATATAATCCC
45670788 TAAAAATCAATTAAACCCTCCTAAAATAAT
1 TAAAAATCAATTAAACCCTCCTAAAATAAT
* ** *
45670818 TAAAAATCATTTAGGCCCTCGTAAAATAAT
1 TAAAAATCAATTAAACCCTCCTAAAATAAT
* * *
45670848 AAAAAATTAATTAACCCCT
1 TAAAAATCAATTAAACCCT
45670867 ACACATTAGC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (30 bp):
TAAAAATCAATTAAACCCTCCTAAAATAAT
Found at i:45673307 original size:3 final size:3
Alignment explanation
Indices: 45673299--45673325 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45673289 ACATGCTTTG
45673299 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
45673326 TGGATTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:45675822 original size:22 final size:20
Alignment explanation
Indices: 45675769--45675826 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 20
45675759 TAATTATTAG
*
45675769 ATTTTCATATTATGTTTACT
1 ATTTTCATTTTATGTTTACT
*
45675789 -TTTTC-TTATTATGTGGTTCCT
1 ATTTTCATT-TTATGT--TTACT
45675810 ATTTTCATTTTAT-TTTA
1 ATTTTCATTTTATGTTTA
45675827 TTTTATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 11
0.68 0.07 0.25
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
21 5 0.17
22 9 0.30
23 2 0.07
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (20 bp):
ATTTTCATTTTATGTTTACT
Found at i:45676119 original size:22 final size:24
Alignment explanation
Indices: 45676093--45676136 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
45676083 GAAAAATATT
45676093 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
45676115 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
45676137 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:45698665 original size:9 final size:8
Alignment explanation
Indices: 45698609--45698672 Score: 58
Period size: 9 Copynumber: 7.5 Consensus size: 8
45698599 CTTGGGATTA
45698609 TTTTAT-T
1 TTTTATAT
45698616 TTTTATGAT
1 TTTTAT-AT
*
45698625 TTTGTATGT
1 TTT-TATAT
*
45698634 TCTTATAT
1 TTTTATAT
45698642 TTTTATAT
1 TTTTATAT
45698650 TTGTTATAAT
1 TT-TTAT-AT
45698660 TTTTATAT
1 TTTTATAT
45698668 ATTTT
1 -TTTT
45698673 GAATCACTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 6 0.13
8 15 0.32
9 19 0.40
10 7 0.15
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (8 bp):
TTTTATAT
Found at i:45703717 original size:3 final size:3
Alignment explanation
Indices: 45703711--45703760 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
45703701 TTTTTTTTTG
**
45703711 TTA TTA TTA TTA -TA TTA -TA CCA TTA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
45703755 ATA TTA
1 TTA TTA
45703761 CACTTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:45703751 original size:16 final size:17
Alignment explanation
Indices: 45703711--45703760 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
45703701 TTTTTTTTTG
45703711 TTATTATTATTATATTA
1 TTATTATTATTATATTA
**
45703728 -TACCATTATTAT-TTA
1 TTATTATTATTATATTA
45703743 TTATTATTATTAATATTA
1 TTATTATTATT-ATATTA
45703761 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 3 0.12
16 18 0.69
17 2 0.08
18 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:45703754 original size:19 final size:19
Alignment explanation
Indices: 45703711--45703760 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
45703701 TTTTTTTTTG
45703711 TTATTATTATTATATTATA
1 TTATTATTATTATATTATA
**
45703730 CCATTATTATT-TATTATTA
1 TTATTATTATTATATTA-TA
*
45703749 TTATTAATATTA
1 TTATTATTATTA
45703761 CACTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTATTATTATATTATA
Found at i:45703857 original size:31 final size:31
Alignment explanation
Indices: 45703820--45703879 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
45703810 TTTTAATTTC
*
45703820 AAAAACGTTTTGCTTTTGTAAATATATATCA
1 AAAAACGTTTTACTTTTGTAAATATATATCA
45703851 AAAAACGTTTTACTTTTGTAAATATATAT
1 AAAAACGTTTTACTTTTGTAAATATATAT
45703880 ATGTATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (31 bp):
AAAAACGTTTTACTTTTGTAAATATATATCA
Found at i:45706852 original size:44 final size:45
Alignment explanation
Indices: 45706794--45706906 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
45706784 AATCTACTCT
** * * * *
45706794 ACTGCAATGCCAAGGAGATAGGATTTG-TTTATTTAGTCTGCCCC
1 ACTGCAATTTCAAGGAGATAAGACTTGCTTTATTGAATCTGCCCC
* * * *
45706838 ACTGCAATTTCAAGGGGATAATACTTGCTTTCTTGAATCTGCTCC
1 ACTGCAATTTCAAGGAGATAAGACTTGCTTTATTGAATCTGCCCC
*
45706883 ACTGCAATTTCAATGAGATAAGAC
1 ACTGCAATTTCAAGGAGATAAGAC
45706907 CCGATGCGAT
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
44 21 0.38
45 34 0.62
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (45 bp):
ACTGCAATTTCAAGGAGATAAGACTTGCTTTATTGAATCTGCCCC
Found at i:45706976 original size:44 final size:43
Alignment explanation
Indices: 45706924--45707036 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 43
45706914 GATCTACTCT
* *
45706924 ACTGCAACTTCAGAGAGATAAGATCTGT-GATTTTAATCCGCTCC
1 ACTGCAACTTCAG-GAGATAAGAT-TATAGACTTTAATCCGCTCC
* * *
45706968 ACTGCAACTTCAGGAAGATAGGATTATAGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGG-AGATAAGATTATAGACTTTAATCCGCTCC
*
45707012 ACTGCAACTTCAGGGAGACAAGATT
1 ACTGCAACTTCA-GGAGATAAGATT
45707037 TATATATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.05
44 54 0.92
45 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
ACTGCAACTTCAGGAGATAAGATTATAGACTTTAATCCGCTCC
Found at i:45707744 original size:131 final size:130
Alignment explanation
Indices: 45707332--45707779 Score: 593
Period size: 134 Copynumber: 3.4 Consensus size: 130
45707322 GCTAATACAT
* * * * * *
45707332 GAAGACAAGATCTACTACCTTTGATCTACTTCACGCCGATACATGAAGACAATATC-AGCTTTCT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTA--TTTCT
*
45707396 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCCACTTCACTACCAA
64 TTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-A-CTTCAATCCACTTC-CTACCAA
45707461 TATAG
126 TATAG
* * * *
45707466 GAAGATAGGATTTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-ATTTCTT
* * *
45707531 TAATCTACTTCGCCACCAATATGGGAAGACAAGA--T---CTTCGATCCACTTCCTACCAATATA
65 TGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCACTTCAATCCACTTCCTACCAATATA
45707591 G
130 G
* * * *
45707592 GAAGACAGGATCTGTTATCTTCGATTTACTTCAAGCCAATACATGAAGACAAGATCTATTTTTTT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTCTTT
*
45707657 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCACCTTCAATCTACTTCCTACCAATATA
66 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA-CTTCAATCCACTTCCTACCAATATA
45707722 G
130 G
* * *
45707723 GAAGACAGGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGATAAGATCT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
45707780 GCTATTTTTA
Statistics
Matches: 274, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
125 37 0.14
126 63 0.23
127 14 0.05
131 75 0.27
132 1 0.00
134 84 0.31
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (130 bp):
GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTCTTT
GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCACTTCAATCCACTTCCTACCAATATAG
Found at i:45707782 original size:44 final size:44
Alignment explanation
Indices: 45707043--45707784 Score: 558
Period size: 44 Copynumber: 17.0 Consensus size: 44
45707033 GATTTATATA
* *
45707043 TTCGATCTACTTCATGCCAATACATGAAGACAATATCTG-TCATC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-ATC
* *
45707087 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTACC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * * *
45707131 TTTGATCTACTTCATGCCGATACATGAAGACAAGATCTTCTACCC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA-TC
* * * * *
45707176 TT-GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * **
45707219 TTCGATCTACTTCACGCCAATACATGAAGAAAAGATCTTCTGCC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * * * * *
45707263 TTTGATCTACTTCATGTCGATACATGAAGATAAGAT-TCGTTTTC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-GCTATC
* * *
45707307 TTCGATCTACTTCACGCTAATACATGAAGACAAGATCTACTACC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * * *
45707351 TTTGATCTACTTCACGCCGATACATGAAGACAATATCAGCTTTC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * ***
45707395 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATC
* * * * * * * * *
45707440 TTCAATCCACTTCACTACCAATATAGGAAGATAGGATTTGCTTTC
1 TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATC
*
45707485 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
** * * ***
45707529 TTTAATCTACTTCGCCACCAATATGGGAAGAC-A-A---G--ATC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATC
* * * * * *
45707567 TTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGTTATC
1 TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATC
* * * * *
45707611 TTCGATTTACTTCAAGCCAATACATGAAGACAAGATCT-ATTTT
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * * *** *
45707654 TTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ACC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATC
* * * * * *
45707698 TTCAATCTACTTC-CTACCAATATAGGAAGACAGGACCTGCTATC
1 TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATC
* *
45707742 TTCAATCTACTTCACGCCAATACATGAAGATAAGATCTGCTAT
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
45707785 TTTTAACCTA
Statistics
Matches: 552, Mismatches: 124, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
36 1 0.00
37 15 0.03
38 12 0.02
39 1 0.00
40 1 0.00
42 2 0.00
43 39 0.07
44 393 0.71
45 88 0.16
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (44 bp):
TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
Found at i:45712340 original size:48 final size:48
Alignment explanation
Indices: 45712284--45712377 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
45712274 TCGACAAGGT
45712284 CTCGTCTTGCCTTTGCGGAAATCTCTATTCCAATTTTCACCTCTTTCC
1 CTCGTCTTGCCTTTGCGGAAATCTCTATTCCAATTTTCACCTCTTTCC
* * *
45712332 CTCGTCTTGTCTTTGCGGAAATCTCTGTTCTAATTTTCACCTCTTT
1 CTCGTCTTGCCTTTGCGGAAATCTCTATTCCAATTTTCACCTCTTT
45712378 TCCTTCTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.14, C:0.30, G:0.12, T:0.45
Consensus pattern (48 bp):
CTCGTCTTGCCTTTGCGGAAATCTCTATTCCAATTTTCACCTCTTTCC
Found at i:45717036 original size:18 final size:18
Alignment explanation
Indices: 45717015--45717060 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
45717005 TTTTTCGACC
45717015 TCTTTTTCTTTTGCAATT
1 TCTTTTTCTTTTGCAATT
* * *
45717033 TCTTTTCCTTTTTCACTT
1 TCTTTTTCTTTTGCAATT
*
45717051 TCGTTTTCTT
1 TCTTTTTCTT
45717061 GTTGTTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (18 bp):
TCTTTTTCTTTTGCAATT
Found at i:45717133 original size:22 final size:21
Alignment explanation
Indices: 45717092--45717133 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
45717082 TTTTCCACTC
*
45717092 TTTCTTTTTCTTCTCTTTCAA
1 TTTCTTTTCCTTCTCTTTCAA
*
45717113 TTTCTTGTTCCTTTTCTTTCA
1 TTTCTT-TTCCTTCTCTTTCA
45717134 TCTTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCTTTTCCTTCTCTTTCAA
Found at i:45721837 original size:30 final size:30
Alignment explanation
Indices: 45721799--45721872 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
45721789 TATAAAATTT
45721799 TGAA-TTATAAAATTTATATAAATATATAA
1 TGAATTTATAAAATTTATATAAATATATAA
*
45721828 TGCATTTATAAAATTTATATAAATATATAA
1 TGAATTTATAAAATTTATATAAATATATAA
45721858 TGAATTTATGAAAAT
1 TGAATTTAT-AAAAT
45721873 AAAGAAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 3 0.07
30 33 0.80
31 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (30 bp):
TGAATTTATAAAATTTATATAAATATATAA
Found at i:45721886 original size:31 final size:30
Alignment explanation
Indices: 45721799--45721888 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
45721789 TATAAAATTT
** *
45721799 TGAA-TTATAAAATTTATATAAATATATAA
1 TGAATTTATAAAATAAAGATAAATATATAA
* ** *
45721828 TGCATTTATAAAATTTATATAAATATATAA
1 TGAATTTATAAAATAAAGATAAATATATAA
45721858 TGAATTTATGAAAATAAAGA-AAAGTATATAA
1 TGAATTTAT-AAAATAAAGATAAA-TATATAA
45721889 ATATACACGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
29 3 0.06
30 36 0.68
31 14 0.26
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (30 bp):
TGAATTTATAAAATAAAGATAAATATATAA
Found at i:45723119 original size:15 final size:15
Alignment explanation
Indices: 45723099--45723129 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45723089 AGGGTTTCTG
45723099 ACTGTAATTTGGGCC
1 ACTGTAATTTGGGCC
*
45723114 ACTGTAGTTTGGGCC
1 ACTGTAATTTGGGCC
45723129 A
1 A
45723130 TTGTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
ACTGTAATTTGGGCC
Found at i:45725534 original size:25 final size:25
Alignment explanation
Indices: 45725486--45725534 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45725476 ACTGTTATTT
* * *
45725486 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
45725511 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
45725535 TTTATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:45728085 original size:21 final size:22
Alignment explanation
Indices: 45728061--45728106 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
45728051 TCCCTTTCTC
45728061 CTTTCTCTTCTAAGC-AATCTT
1 CTTTCTCTTCTAAGCAAATCTT
45728082 CTTTCTCTTCTAAGCAAATCTT
1 CTTTCTCTTCTAAGCAAATCTT
45728104 CTT
1 CTT
45728107 CCACATCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (22 bp):
CTTTCTCTTCTAAGCAAATCTT
Found at i:45730368 original size:18 final size:18
Alignment explanation
Indices: 45730345--45730380 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45730335 CAATTAAACC
45730345 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
45730363 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
45730381 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:45730460 original size:20 final size:20
Alignment explanation
Indices: 45730396--45730472 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
45730386 AAATCATTGC
45730396 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* * *
45730416 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-TAATTT
*
45730435 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAATAATTT
45730456 AATATATGTAAAAATAA
1 AATATATGTAAAAATAA
45730473 CTTTTCCGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.18
19 6 0.13
20 18 0.40
21 5 0.11
22 8 0.18
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:45730565 original size:14 final size:15
Alignment explanation
Indices: 45730543--45730619 Score: 70
Period size: 14 Copynumber: 5.0 Consensus size: 15
45730533 CAATCAAACA
45730543 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45730557 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45730572 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45730592 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
45730606 CCAGAAAA-CATTTT
1 CCAGAAAATCATTTT
45730620 ACAACCAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 24 0.46
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.17
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45730584 original size:20 final size:20
Alignment explanation
Indices: 45730559--45730598 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45730549 AATATTTTCC
*
45730559 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45730579 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45730599 TCATTTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45730604 original size:34 final size:35
Alignment explanation
Indices: 45730547--45730613 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45730537 CAAACACCAG
*
45730547 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45730582 AAAACATTTTCCAG-AAATCATTTTCCAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45730614 CATTTTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45744329 original size:37 final size:37
Alignment explanation
Indices: 45744274--45744346 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
45744264 ACACGCCTTA
45744274 GAGCATGTCCTATTTCTTCTTTTTCTTTTCGAGTTCG
1 GAGCATGTCCTATTTCTTCTTTTTCTTTTCGAGTTCG
*
45744311 GAGCCTGTCCTATTTCTTCTTTTTCTTTTCGAGTTC
1 GAGCATGTCCTATTTCTTCTTTTTCTTTTCGAGTTC
45744347 TGATCGTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.52
Consensus pattern (37 bp):
GAGCATGTCCTATTTCTTCTTTTTCTTTTCGAGTTCG
Found at i:45761119 original size:7 final size:7
Alignment explanation
Indices: 45761107--45761138 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
45761097 TTTCTTTATT
45761107 TATTAAA
1 TATTAAA
45761114 TATTAAA
1 TATTAAA
45761121 TATTAAA
1 TATTAAA
45761128 TATTAAA
1 TATTAAA
45761135 TATT
1 TATT
45761139 TAAAAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TATTAAA
Found at i:45762298 original size:31 final size:30
Alignment explanation
Indices: 45762204--45762301 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
45762194 TAAAATTTAG
* * * *
45762204 ATACCAAATTAAGAAAAAGTACCAAATTCAT
1 ATACCAAATTAAGAAAAA-AAACAAAATCAA
* * *
45762235 ATACCAAATT-A-AACAAAAA-AAACTTAA
1 ATACCAAATTAAGAAAAAAAACAAAATCAA
45762262 ATACCAAATTAAGAAAAAAAATCAAAATCAA
1 ATACCAAATTAAGAAAAAAAA-CAAAATCAA
45762293 ATACCAAAT
1 ATACCAAAT
45762302 ATTATATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.28
28 2 0.04
29 11 0.20
30 1 0.02
31 25 0.46
ACGTcount: A:0.62, C:0.15, G:0.03, T:0.19
Consensus pattern (30 bp):
ATACCAAATTAAGAAAAAAAACAAAATCAA
Found at i:45765581 original size:19 final size:19
Alignment explanation
Indices: 45765546--45765588 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45765536 CATTAATGAA
45765546 AATGTTATTAATAATATATT
1 AATGTTATTAATAATATA-T
*
45765566 AATGTTA-TATTAATATAT
1 AATGTTATTAATAATATAT
45765584 AATGT
1 AATGT
45765589 GAATGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
AATGTTATTAATAATATAT
Found at i:45765644 original size:50 final size:50
Alignment explanation
Indices: 45765490--45765645 Score: 112
Period size: 50 Copynumber: 3.1 Consensus size: 50
45765480 ATATAATGTG
45765490 AATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
1 AATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
* * * * * * * *
45765540 AATGAAAATGTT-A-TTAATAATATATTAATG-T-T-ATATTA--ATATATA-ATGT
1 AATG--AAT-TTAACCT-A-AAGAGATTAAGGATATCCTATGAGGGTA-ACACAT-T
45765589 GAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
1 -AATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
45765640 AATGAA
1 AATGAA
45765646 AATGTTATTA
Statistics
Matches: 74, Mismatches: 16, Indels: 32
0.61 0.13 0.26
Matches are distributed among these distances:
47 11 0.15
48 10 0.14
49 5 0.07
50 22 0.30
51 5 0.07
52 10 0.14
53 11 0.15
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (50 bp):
AATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
Found at i:45765681 original size:19 final size:19
Alignment explanation
Indices: 45765646--45765688 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45765636 CATTAATGAA
45765646 AATGTTATTAATAATATATT
1 AATGTTATTAATAATATA-T
*
45765666 AATGTTA-TATTAATATAT
1 AATGTTATTAATAATATAT
45765684 AATGT
1 AATGT
45765689 GAATGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
AATGTTATTAATAATATAT
Found at i:45765694 original size:50 final size:50
Alignment explanation
Indices: 45765540--45765695 Score: 112
Period size: 47 Copynumber: 3.1 Consensus size: 50
45765530 GTAACACATT
45765540 AATGAAAATGTTATTAATAATATATTAATGTTATATTAATATATAATGTG
1 AATGAAAATGTTATTAATAATATATTAATGTTATATTAATATATAATGTG
* * * * * ** *
45765590 AATG--AAT-TTA--ACCTAAAGAGATTAAGGATATCCT-ATGAGGGTAACACAT-T-
1 AATGAAAATGTTATTA-AT-AATATATTAATGTTATATTAAT-A---T-ATA-ATGTG
45765640 AATGAAAATGTTATTAATAATATATTAATGTTATATTAATATATAATGTG
1 AATGAAAATGTTATTAATAATATATTAATGTTATATTAATATATAATGTG
45765690 AATGAA
1 AATGAA
45765696 TTTAACCTAA
Statistics
Matches: 74, Mismatches: 16, Indels: 32
0.61 0.13 0.26
Matches are distributed among these distances:
45 1 0.01
46 3 0.04
47 17 0.23
48 5 0.07
49 3 0.04
50 16 0.22
51 3 0.04
52 5 0.07
53 17 0.23
54 3 0.04
55 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.38
Consensus pattern (50 bp):
AATGAAAATGTTATTAATAATATATTAATGTTATATTAATATATAATGTG
Found at i:45765727 original size:50 final size:50
Alignment explanation
Indices: 45765473--45765727 Score: 124
Period size: 44 Copynumber: 5.1 Consensus size: 50
45765463 TGAGATAAAA
45765473 TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
1 TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
* * ** * * * * *
45765523 TATGAGGGTAACACATTAATGAAAATG-TTATTAA--T-AATATATTAATG-T-T-A
1 TAT-----TAATATA-TAATGTGAATGAAT-TTAACCTAAAGAGATTAAGGATATCC
45765573 TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
1 TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
* * ** * * * * *
45765623 TATGAGGGTAACACATTAATGAAAATG-TTATTAA--T-AATATATTAATG-T-T-A
1 TAT-----TAATATA-TAATGTGAATGAAT-TTAACCTAAAGAGATTAAGGATATCC
45765673 TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
1 TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
45765723 TATTA
1 TATTA
45765728 GGGTAACACA
Statistics
Matches: 141, Mismatches: 36, Indels: 56
0.61 0.15 0.24
Matches are distributed among these distances:
44 26 0.18
45 12 0.09
46 2 0.01
47 18 0.13
48 2 0.01
49 2 0.01
50 17 0.12
51 2 0.01
52 2 0.01
53 18 0.13
54 2 0.01
55 12 0.09
56 26 0.18
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (50 bp):
TATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCC
Found at i:45765744 original size:50 final size:50
Alignment explanation
Indices: 45765490--45765744 Score: 110
Period size: 50 Copynumber: 5.1 Consensus size: 50
45765480 ATATAATGTG
*
45765490 AATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
1 AATGAATTTAACCTAAAGAGATTAAGGATATCCTATTAGGGTAACACATT
* * * * * * *
45765540 AATGAAAATGTT-A-TTAATAATATATTAATG-T-T-ATATTA--ATATATA-ATGT
1 AATG--AAT-TTAACCT-A-AAGAGATTAAGGATATCCTATTAGGGTA-ACACAT-T
*
45765589 GAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACACATT
1 -AATGAATTTAACCTAAAGAGATTAAGGATATCCTATTAGGGTAACACATT
* * * * * * *
45765640 AATGAAAATGTT-A-TTAATAATATATTAATG-T-T-ATATTA--ATATATA-ATGT
1 AATG--AAT-TTAACCT-A-AAGAGATTAAGGATATCCTATTAGGGTA-ACACAT-T
45765689 GAATGAATTTAACCTAAAGAGATTAAGGATATCCTATTAGGGTAACACATT
1 -AATGAATTTAACCTAAAGAGATTAAGGATATCCTATTAGGGTAACACATT
45765740 AATGA
1 AATGA
45765745 CAATGTTATT
Statistics
Matches: 142, Mismatches: 31, Indels: 64
0.60 0.13 0.27
Matches are distributed among these distances:
47 22 0.15
48 20 0.14
49 10 0.07
50 38 0.27
51 10 0.07
52 20 0.14
53 22 0.15
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.35
Consensus pattern (50 bp):
AATGAATTTAACCTAAAGAGATTAAGGATATCCTATTAGGGTAACACATT
Found at i:45765787 original size:100 final size:100
Alignment explanation
Indices: 45765472--45765755 Score: 550
Period size: 100 Copynumber: 2.8 Consensus size: 100
45765462 ATGAGATAAA
45765472 ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACAC
1 ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACAC
45765537 ATTAATGAAAATGTTATTAATAATATATTAATGTT
66 ATTAATGAAAATGTTATTAATAATATATTAATGTT
45765572 ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACAC
1 ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACAC
45765637 ATTAATGAAAATGTTATTAATAATATATTAATGTT
66 ATTAATGAAAATGTTATTAATAATATATTAATGTT
*
45765672 ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATTAGGGTAACAC
1 ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACAC
*
45765737 ATTAATGACAATGTTATTA
66 ATTAATGAAAATGTTATTA
45765756 GACAAATATA
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 182 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (100 bp):
ATATTAATATATAATGTGAATGAATTTAACCTAAAGAGATTAAGGATATCCTATGAGGGTAACAC
ATTAATGAAAATGTTATTAATAATATATTAATGTT
Found at i:45768177 original size:16 final size:15
Alignment explanation
Indices: 45768156--45768187 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
45768146 TATAAATCTT
45768156 AATAAAATATTAATTA
1 AATAAAATA-TAATTA
45768172 AATAAAATATAATTA
1 AATAAAATATAATTA
45768187 A
1 A
45768188 TTAATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAAATATAATTA
Found at i:45768183 original size:23 final size:23
Alignment explanation
Indices: 45768156--45768201 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
45768146 TATAAATCTT
45768156 AATA-AAAT-ATTAATTAAATAA
1 AATATAAATAATTAATTAAATAA
* *
45768177 AATATAATTAATTAATTAATTAA
1 AATATAAATAATTAATTAAATAA
45768200 AA
1 AA
45768202 ATATCACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 3 0.14
23 14 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AATATAAATAATTAATTAAATAA
Found at i:45785252 original size:11 final size:11
Alignment explanation
Indices: 45785236--45785260 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45785226 ATCCACATTA
45785236 TTAAAAAATAT
1 TTAAAAAATAT
45785247 TTAAAAAATAT
1 TTAAAAAATAT
45785258 TTA
1 TTA
45785261 TTTGTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAAAAATAT
Found at i:45791259 original size:4 final size:4
Alignment explanation
Indices: 45791250--45791297 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
45791240 ATATATGTGA
*
45791250 ATGT ATGT ATGA AT-T CAATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT -A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
45791298 CTGCCCTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 36 0.92
5 2 0.05
6 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:45792005 original size:12 final size:12
Alignment explanation
Indices: 45791988--45792012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45791978 GATTTACCCG
45791988 TGTTTTGGAAAA
1 TGTTTTGGAAAA
45792000 TGTTTTGGAAAA
1 TGTTTTGGAAAA
45792012 T
1 T
45792013 TATAATTGGG
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:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTTTTGGAAAA
Found at i:45793532 original size:132 final size:132
Alignment explanation
Indices: 45793305--45793598 Score: 579
Period size: 132 Copynumber: 2.2 Consensus size: 132
45793295 TGAGATTGAT
*
45793305 CAATTTTTTTAATATCATCAATGTAAACATCAACGTCGGATGGGAACATGGTGCCATTGTCGGGA
1 CAATTTTTTTAATATCATCAATGTAACCATCAACGTCGGATGGGAACATGGTGCCATTGTCGGGA
45793370 AACCTAAATCTCTCTTTGGTTCATTTTTTTTTAGTAGTGAATTTTTTGGGGGGCTTAATCAATGT
66 AACCTAAATCTCTCTTTGGTTCATTTTTTTTTAGTAGTGAATTTTTTGGGGGGCTTAATCAATGT
45793435 AA
131 AA
45793437 CAATTTTTTTAATATCATCAATGTAACCATCAACGTCGGATGGGAACATGGTGCCATTGTCGGGA
1 CAATTTTTTTAATATCATCAATGTAACCATCAACGTCGGATGGGAACATGGTGCCATTGTCGGGA
45793502 AACCTAAATCTCTCTTTGGTTCATTTTTTTTTAGTAGTGAATTTTTTGGGGGGCTTAATCAATGT
66 AACCTAAATCTCTCTTTGGTTCATTTTTTTTTAGTAGTGAATTTTTTGGGGGGCTTAATCAATGT
45793567 AA
131 AA
45793569 CAATTTTTTTAATATCATCAATGTAACCAT
1 CAATTTTTTTAATATCATCAATGTAACCAT
45793599 TTTTTCAATG
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 161 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (132 bp):
CAATTTTTTTAATATCATCAATGTAACCATCAACGTCGGATGGGAACATGGTGCCATTGTCGGGA
AACCTAAATCTCTCTTTGGTTCATTTTTTTTTAGTAGTGAATTTTTTGGGGGGCTTAATCAATGT
AA
Found at i:45801622 original size:32 final size:32
Alignment explanation
Indices: 45801577--45801640 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
45801567 TTAAACAGGC
* *
45801577 TAAGTTATCAAATTAAATTAATTAATTTATAA
1 TAAGTTATCAAATTAAAGTAATCAATTTATAA
* * *
45801609 TAAGTTGTTAAATTCAAGTAATCAATTTATAA
1 TAAGTTATCAAATTAAAGTAATCAATTTATAA
45801641 GTTTATGATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (32 bp):
TAAGTTATCAAATTAAAGTAATCAATTTATAA
Found at i:45802951 original size:26 final size:27
Alignment explanation
Indices: 45802915--45803054 Score: 88
Period size: 30 Copynumber: 4.9 Consensus size: 27
45802905 ATTTTTCTCA
45802915 TAAAATTTATAACAAATTA-AAAATAT
1 TAAAATTTATAACAAATTATAAAATAT
* *
45802941 TAAAATTTATAATAAATTATAAAATTT
1 TAAAATTTATAACAAATTATAAAATAT
* * *
45802968 TATAAAATTAGTAA-AACATATTTAAAATTT
1 TA-AAATTTA-TAACAA-AT-TATAAAATAT
*
45802998 TATAATGACTTATAA-AAACTTATAAATAATAT
1 TA-AA--ATTTATAACAAA-TTAT-AA-AATAT
* * *
45803030 AAAAATATCTAACAAATTATAAAAT
1 TAAAATTTATAACAAATTATAAAAT
45803055 TTATAAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
26 18 0.20
27 11 0.12
28 10 0.11
29 14 0.15
30 20 0.22
31 10 0.11
32 9 0.10
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (27 bp):
TAAAATTTATAACAAATTATAAAATAT
Found at i:45802974 original size:29 final size:28
Alignment explanation
Indices: 45802914--45803062 Score: 103
Period size: 29 Copynumber: 5.2 Consensus size: 28
45802904 TATTTTTCTC
*
45802914 ATAAAATTTATAACAAATTA-AAAA-TAT
1 ATAAAATTTATAA-AAATTATAAAATTTT
45802941 -TAAAATTTATAATAAATTATAAAATTTT
1 ATAAAATTTATAA-AAATTATAAAATTTT
*
45802969 ATAAAA-TTAGTAAAACATATTTAAAATTTT
1 ATAAAATTTA-TAAAA-AT-TATAAAATTTT
* * **
45802999 ATAATGACTTATAAAAACTTAT-AAATAAT
1 ATAA-AATTTATAAAAA-TTATAAAATTTT
* *
45803028 ATAAAAATATCTAACAAATTATAAAA-TTT
1 AT-AAAATTTATAA-AAATTATAAAATTTT
45803057 ATAAAA
1 ATAAAA
45803063 AAAGTCATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
26 18 0.19
27 4 0.04
28 11 0.11
29 29 0.30
30 25 0.26
31 7 0.07
32 3 0.03
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (28 bp):
ATAAAATTTATAAAAATTATAAAATTTT
Found at i:45802977 original size:18 final size:20
Alignment explanation
Indices: 45802941--45802983 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
45802931 TTAAAAATAT
45802941 TAAAATTTATAATAAATTA-
1 TAAAATTTATAATAAATTAG
45802960 TAAAATTT-T-ATAAAATTAG
1 TAAAATTTATAAT-AAATTAG
45802979 TAAAA
1 TAAAA
45802984 CATATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.09
18 7 0.32
19 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATTTATAATAAATTAG
Found at i:45803011 original size:50 final size:47
Alignment explanation
Indices: 45802932--45803063 Score: 133
Period size: 50 Copynumber: 2.7 Consensus size: 47
45802922 TATAACAAAT
**
45802932 TAAAAATATTAAAATTTATAATAAATTATAAAATTTTATAAAATTAG
1 TAAAAATATTAAAATTTATAATAAATTATAAAAACTTATAAAATTAG
* * *
45802979 TAAAACATATTTAAAATTTTATAATGACTTATAAAAACTTATAAATAATA-
1 TAAAA-ATA-TTAAAA-TTTATAATAAATTATAAAAACTTATAAA-ATTAG
* *
45803029 TAAAAATATCTAACAAATTATAA-AATTTATAAAAA
1 TAAAAATAT-TAA-AATTTATAATAAATTATAAAAA
45803064 AAGTCATTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
47 5 0.07
48 14 0.20
49 18 0.25
50 31 0.44
51 3 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (47 bp):
TAAAAATATTAAAATTTATAATAAATTATAAAAACTTATAAAATTAG
Found at i:45803756 original size:19 final size:19
Alignment explanation
Indices: 45803710--45803866 Score: 88
Period size: 19 Copynumber: 7.9 Consensus size: 19
45803700 AAATTGTGAT
*
45803710 TATTTATAA-TTTATTAGAA
1 TATTTATAAGTTT-TTATAA
*
45803729 TTTTTTATAAGTTTTTATAA
1 -TATTTATAAGTTTTTATAA
*
45803749 AATTTATAAGTTTTTATGAA
1 TATTTATAAGTTTTTAT-AA
* *
45803769 TTTTTATAA-TTTTTTTAGA
1 TATTTATAAGTTTTTATA-A
* *
45803788 AAGTTT-TAAATATTTTA-AA
1 TA-TTTATAAGT-TTTTATAA
* *
45803807 TATGTTTTATATTATTTTATAA
1 TAT-TTATA-AGT-TTTTATAA
* *
45803829 TATATTAGAATTTTTTTATAA
1 TAT-TTATAA-GTTTTTATAA
45803850 TATTTATAAGTTTTTAT
1 TATTTATAAGTTTTTAT
45803867 GAATTTTTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 23
0.73 0.11 0.15
Matches are distributed among these distances:
18 2 0.02
19 36 0.33
20 34 0.31
21 27 0.25
22 10 0.09
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
TATTTATAAGTTTTTATAA
Found at i:45803772 original size:9 final size:9
Alignment explanation
Indices: 45803712--45803882 Score: 83
Period size: 10 Copynumber: 17.1 Consensus size: 9
45803702 ATTGTGATTA
45803712 TTTATAATT
1 TTTATAATT
*
45803721 TATTAGAATTT
1 T-TTATAA-TT
45803732 TTTATAAGTT
1 TTTATAA-TT
**
45803742 TTTATAAAA
1 TTTATAATT
45803751 TTTATAAGTT
1 TTTATAA-TT
45803761 TTTATGAATT
1 TTTAT-AATT
45803771 TTTATAATTTT
1 TTTATAA--TT
* *
45803782 TTTAGAAAGT
1 TTTA-TAATT
45803792 TTTA-AATAT
1 TTTATAAT-T
*
45803801 TTTAAATATGT
1 TTTATA-AT-T
*
45803812 TTTATATTAT
1 TTTATAAT-T
45803822 TTTATAATAT
1 TTTATAAT-T
* *
45803832 ATTAGAATTTT
1 TTTATAA--TT
*
45803843 TTTATAATA
1 TTTATAATT
45803852 TTTATAAGTT
1 TTTATAA-TT
45803862 TTTATGAATTT
1 TTTAT-AA-TT
45803873 TTTATAATT
1 TTTATAATT
45803882 T
1 T
45803883 ATAAGTTTAT
Statistics
Matches: 126, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
8 2 0.02
9 26 0.21
10 61 0.48
11 34 0.27
12 3 0.02
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (9 bp):
TTTATAATT
Found at i:45803813 original size:20 final size:22
Alignment explanation
Indices: 45803790--45803831 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
45803780 TTTTTAGAAA
45803790 GTTTTA-AATATTTTA-AATAT
1 GTTTTATAATATTTTATAATAT
*
45803810 GTTTTATATTATTTTATAATAT
1 GTTTTATAATATTTTATAATAT
45803832 ATTAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
GTTTTATAATATTTTATAATAT
Found at i:45803902 original size:28 final size:30
Alignment explanation
Indices: 45803841--45803902 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
45803831 TATTAGAATT
* * *
45803841 TTTTTATAATATTTATAAGTTTTTATGAAT
1 TTTTTATAATATTTATAAGTTTATATAAAA
45803871 TTTTTAT-A-ATTTATAAGTTTATATAAAA
1 TTTTTATAATATTTATAAGTTTATATAAAA
45803899 TTTT
1 TTTT
45803903 GATATTTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
29 1 0.03
30 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTTTATAATATTTATAAGTTTATATAAAA
Found at i:45803966 original size:20 final size:20
Alignment explanation
Indices: 45803712--45803882 Score: 92
Period size: 20 Copynumber: 8.5 Consensus size: 20
45803702 ATTGTGATTA
*
45803712 TTTATAATTTATTAGAAT-TT
1 TTTATAATTT-TTATAATATT
*
45803732 TTTATAAGTTTTTATAA-A-A
1 TTTATAA-TTTTTATAATATT
*
45803751 TTTATAAGTTTTTATGA-ATT
1 TTTATAA-TTTTTATAATATT
* * *
45803771 TTTATAATTTTTTTAGAAAGT
1 TTTATAATTTTTATA-ATATT
45803792 TTTA-AATATTTTA-AATATGT
1 TTTATAAT-TTTTATAATAT-T
*
45803812 TTTATATTATTTTATAATA-T
1 TTTATAAT-TTTTATAATATT
* *
45803832 ATTAGAATTTTTTTATAATA--
1 TTTATAA--TTTTTATAATATT
45803852 TTTATAAGTTTTTATGAAT-TT
1 TTTATAA-TTTTTAT-AATATT
45803873 TTTATAATTT
1 TTTATAATTT
45803883 ATAAGTTTAT
Statistics
Matches: 120, Mismatches: 17, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
19 32 0.27
20 45 0.38
21 38 0.32
22 5 0.04
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTATAATTTTTATAATATT
Found at i:45803984 original size:31 final size:31
Alignment explanation
Indices: 45803927--45803986 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
45803917 TTAATTTTAT
*
45803927 TATTTTCATGCTTTTTTTATAATTTTTATAA
1 TATTTTCATGCTTTTTTCATAATTTTTATAA
* *
45803958 TATTTTTATG-TTCTTTTCATACTTTTTAT
1 TATTTTCATGCTT-TTTTCATAATTTTTAT
45803987 GGATTGGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (31 bp):
TATTTTCATGCTTTTTTCATAATTTTTATAA
Found at i:45804130 original size:13 final size:12
Alignment explanation
Indices: 45804110--45804146 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
45804100 CCCATAAAGC
45804110 TAAATAAAAATA
1 TAAATAAAAATA
45804122 TACAATAAAAATA
1 TA-AATAAAAATA
*
45804135 TAAATATAAATA
1 TAAATAAAAATA
45804147 CACTCTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAATAAAAATA
Found at i:45804139 original size:19 final size:18
Alignment explanation
Indices: 45804111--45804146 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
45804101 CCATAAAGCT
45804111 AAATAAAAATATACAATAA
1 AAATAAAAATATA-AATAA
*
45804130 AAATATAAATATAAATA
1 AAATAAAAATATAAATA
45804147 CACTCTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAATAAAAATATAAATAA
Found at i:45807545 original size:11 final size:11
Alignment explanation
Indices: 45807531--45807555 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45807521 GTTGAAGGAG
45807531 GATTATAAAAT
1 GATTATAAAAT
45807542 GATTATAAAAT
1 GATTATAAAAT
45807553 GAT
1 GAT
45807556 CCTAAATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (11 bp):
GATTATAAAAT
Found at i:45808506 original size:19 final size:19
Alignment explanation
Indices: 45808468--45808506 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45808458 GAATTGTGAT
*
45808468 TTTTTAAATAATTTTATAA
1 TTTTTAAATAATTGTATAA
45808487 TTTTTAAATTAATTGT-TAA
1 TTTTTAAA-TAATTGTATAA
45808506 T
1 T
45808507 GTGGCATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTAAATAATTGTATAA
Found at i:45814300 original size:40 final size:40
Alignment explanation
Indices: 45814213--45814322 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 40
45814203 AGTACGAATT
*
45814213 ATTATACCGGC-CTGAAGCCTGCTAGGGCACTAAGCCCGACA
1 ATTACACCGGCAC-GAAGCCTGCTA-GGCACTAAGCCCGACA
* * *
45814254 ATTACACCGGTACGAAGCCTGCTAGGCATTAAGCCCGATA
1 ATTACACCGGCACGAAGCCTGCTAGGCACTAAGCCCGACA
*
45814294 GA-TACACTGGCACGAAGCCTGCTAGGCAC
1 -ATTACACCGGCACGAAGCCTGCTAGGCAC
45814323 AAGGCTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
40 38 0.63
41 21 0.35
42 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (40 bp):
ATTACACCGGCACGAAGCCTGCTAGGCACTAAGCCCGACA
Found at i:45815145 original size:36 final size:35
Alignment explanation
Indices: 45815105--45815197 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
45815095 TATATGTGTG
* *
45815105 GAATTGAAATGAATAT-TGACTTGAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTGAAAATGAAAAAGT
*
45815141 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
45815178 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
45815198 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 18 0.37
37 16 0.33
38 15 0.31
ACGTcount: A:0.44, C:0.01, G:0.24, T:0.31
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:45816801 original size:14 final size:14
Alignment explanation
Indices: 45816778--45816811 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
45816768 AAACTGCAGT
*
45816778 AATGATAAAGGTAC
1 AATGACAAAGGTAC
45816792 AATGACAAAGGTAC
1 AATGACAAAGGTAC
45816806 AATGAC
1 AATGAC
45816812 TATTGAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (14 bp):
AATGACAAAGGTAC
Found at i:45818804 original size:64 final size:63
Alignment explanation
Indices: 45818641--45818805 Score: 213
Period size: 64 Copynumber: 2.6 Consensus size: 63
45818631 ATAACACACC
* * * *
45818641 ACGTTGTGACCAAGCCACTCAATATCGCAGTCAAGCTGTACGTTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGTCAAACTGTACGTTATGGTCAAGACACTCAATA
* * * *
45818704 ACATTGTGGCCAAGCCACTCAATATCACAGGCAAACTGTATCGTTATTGTCAAGACACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGTCAAACTGTA-CGTTATGGTCAAGACACTCAATA
* * * *
45818768 GCGTTGTGGCCAAGCCACTCATTATTGCAGTAAAACTG
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGTCAAACTG
45818806 CCAAAGTTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 35 0.41
64 51 0.59
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (63 bp):
ACGTTGTGGCCAAGCCACTCAATATCGCAGTCAAACTGTACGTTATGGTCAAGACACTCAATA
Found at i:45818927 original size:42 final size:42
Alignment explanation
Indices: 45818878--45818983 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
45818868 TATTTTCAGT
* *
45818878 GACATGCTTAACATGTAAAT-TGAATTTATAATCAACATAGTC
1 GACATGCTTAACATGCAAATCAGAA-TTATAATCAACATAGTC
* * * *
45818920 GGCATGCTTAACATGCGAATCAGAATTATAATTAATATAGTC
1 GACATGCTTAACATGCAAATCAGAATTATAATCAACATAGTC
*
45818962 GACATGCTTAACATGCGAATCA
1 GACATGCTTAACATGCAAATCA
45818984 TATCTCAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 53 0.95
43 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (42 bp):
GACATGCTTAACATGCAAATCAGAATTATAATCAACATAGTC
Found at i:45821507 original size:16 final size:17
Alignment explanation
Indices: 45821488--45821524 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
45821478 ATAAACATTT
*
45821488 AAAACCTTAA-AAACCA
1 AAAACCCTAACAAACCA
45821504 AAAACCCTAACAAACCA
1 AAAACCCTAACAAACCA
45821521 AAAA
1 AAAA
45821525 ATTGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.65, C:0.27, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAACCCTAACAAACCA
Found at i:45825602 original size:25 final size:26
Alignment explanation
Indices: 45825568--45825619 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
45825558 AAATGGGCAA
45825568 CATAAAA-TTTGCTGAGAGCAAAGCT
1 CATAAAATTTTGCTGAGAGCAAAGCT
45825593 CATAAAATTTTGCTGAGAGCAAAGCT
1 CATAAAATTTTGCTGAGAGCAAAGCT
45825619 C
1 C
45825620 GAAATGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (26 bp):
CATAAAATTTTGCTGAGAGCAAAGCT
Found at i:45826866 original size:23 final size:23
Alignment explanation
Indices: 45826840--45826885 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
45826830 GAACCCTTTG
45826840 GCGATATCGGCCCAATGACGTCC
1 GCGATATCGGCCCAATGACGTCC
45826863 GCGATATCGGCCCAATGACGTCC
1 GCGATATCGGCCCAATGACGTCC
45826886 ATGCCCCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (23 bp):
GCGATATCGGCCCAATGACGTCC
Found at i:45831284 original size:38 final size:38
Alignment explanation
Indices: 45831226--45831301 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
45831216 CCAGTTGTAT
*
45831226 TCCAGATCCTGTACTCGTTGGCTTTGAAATAATCACCA
1 TCCAGATCCTGTACTCGTTGGCCTTGAAATAATCACCA
* *
45831264 TCCAGATCCTGTGCTTGTTGGCCTTGAAATAATCACCA
1 TCCAGATCCTGTACTCGTTGGCCTTGAAATAATCACCA
45831302 CTGGGTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (38 bp):
TCCAGATCCTGTACTCGTTGGCCTTGAAATAATCACCA
Found at i:45831857 original size:17 final size:17
Alignment explanation
Indices: 45831835--45831869 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45831825 TTGCATGGGC
45831835 TCGAGACAAAATAGAGA
1 TCGAGACAAAATAGAGA
*
45831852 TCGAGATAAAATAGAGA
1 TCGAGACAAAATAGAGA
45831869 T
1 T
45831870 ACTATGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (17 bp):
TCGAGACAAAATAGAGA
Found at i:45832063 original size:89 final size:89
Alignment explanation
Indices: 45831906--45832080 Score: 296
Period size: 89 Copynumber: 2.0 Consensus size: 89
45831896 ATACAGTTTT
* * * *
45831906 CCGTGTGTTATTGGAATGGTCGTGAACTGAAGTCTCTCTGTGTTAGTCCTTGTGTTGGGCCTTAT
1 CCGTATGTTATTGGAATGGGCGTGAACTGAAGTCTCTCTGTGTTAGTCCTTGTGTTAGGCCTCAT
45831971 GTTGGGTTCCTGCCTCGAGGGTCC
66 GTTGGGTTCCTGCCTCGAGGGTCC
* *
45831995 CCGTATGTTATTGGAATGGGCGTGAATTGAAGTCTCTCTGTGTTAGTCCTTGTGTTAGGCCTCGT
1 CCGTATGTTATTGGAATGGGCGTGAACTGAAGTCTCTCTGTGTTAGTCCTTGTGTTAGGCCTCAT
45832060 GTTGGGTTCCTGCCTCGAGGG
66 GTTGGGTTCCTGCCTCGAGGG
45832081 GGCTTGGTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.12, C:0.19, G:0.32, T:0.37
Consensus pattern (89 bp):
CCGTATGTTATTGGAATGGGCGTGAACTGAAGTCTCTCTGTGTTAGTCCTTGTGTTAGGCCTCAT
GTTGGGTTCCTGCCTCGAGGGTCC
Found at i:45841022 original size:11 final size:11
Alignment explanation
Indices: 45840994--45841061 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 11
45840984 TATTATGCCT
45840994 AAAAAAACAAAA
1 AAAAAAAC-AAA
*
45841006 ATAAAAAATAACA
1 A-AAAAAACAA-A
*
45841019 AAAAACAAGAAA
1 AAAAA-AACAAA
45841031 AAAAAAACAAA
1 AAAAAAACAAA
45841042 AAAAAAACAGAA
1 AAAAAAACA-AA
45841054 AAAGAAAA
1 AAA-AAAA
45841062 ATCAAGATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
11 14 0.29
12 18 0.38
13 16 0.33
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:45841023 original size:10 final size:10
Alignment explanation
Indices: 45840997--45841047 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
45840987 TATGCCTAAA
*
45840997 AAAACAAAAAT
1 AAAA-AAAAAC
*
45841008 AAAAAATAAC
1 AAAAAAAAAC
45841018 AAAAAACAAGA-
1 AAAAAA-AA-AC
45841029 AAAAAAAAAC
1 AAAAAAAAAC
45841039 AAAAAAAAA
1 AAAAAAAAA
45841048 ACAGAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 1 0.03
10 21 0.62
11 11 0.32
12 1 0.03
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:45841035 original size:24 final size:23
Alignment explanation
Indices: 45840994--45841063 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
45840984 TATTATGCCT
*
45840994 AAAAAAACAA-AAATAAAAAATA
1 AAAAAAACAAGAAAAAAAAAATA
*
45841016 ACAAAAAACAAGAAAAAAAAAACA
1 A-AAAAAACAAGAAAAAAAAAATA
*
45841040 AAAAAAAAACAGAAAAAGAAAAAT
1 AAAAAAACA-AGAAAAA-AAAAAT
45841064 CAAGATGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 16 0.40
24 18 0.45
25 5 0.12
ACGTcount: A:0.84, C:0.07, G:0.04, T:0.04
Consensus pattern (23 bp):
AAAAAAACAAGAAAAAAAAAATA
Found at i:45841056 original size:14 final size:13
Alignment explanation
Indices: 45840995--45841062 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
45840985 ATTATGCCTA
*
45840995 AAAAAACAAAAATAA
1 AAAAAA-AAAAA-AC
45841010 AAAATAACAAAAAAC
1 AAAA-AA-AAAAAAC
45841025 AAGAAAAAAAAAAC
1 AA-AAAAAAAAAAC
* *
45841039 AAAAAAAAAACAG
1 AAAAAAAAAAAAC
45841052 AAAAAGAAAAA
1 AAAAA-AAAAA
45841063 TCAAGATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 14 0.30
14 14 0.30
15 9 0.19
16 10 0.21
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:45842221 original size:74 final size:74
Alignment explanation
Indices: 45841920--45843258 Score: 1759
Period size: 74 Copynumber: 17.9 Consensus size: 74
45841910 TTTCAAGAAA
* * *
45841920 TATTTTTCACTTTCTGTTTTTTTTCAAATATCAACTCATAATACGAAAGGTGAGTTGAGCCTCGG
1 TATTTTT-AATTTCTGTCTTTTTT-AAA-ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
45841985 GTCACGCTGAGG
63 GTCACGCTGAGG
45841997 TATTTTTAATTTC-GATCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TATTTTTAATTTCTG-TC--TTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
* *
45842060 GTCACTTCTAAGG
63 GTCAC-GCTGAGG
* *
45842073 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCTTCG
1 TATTTTTAATTTCTGTCTTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
45842137 GGTCACGCTGAGG
62 GGTCACGCTGAGG
45842150 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842215 ACGCTGAGG
66 ACGCTGAGG
45842224 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842289 ACGCTGAGG
66 ACGCTGAGG
45842298 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842363 ACGCTGAGG
66 ACGCTGAGG
45842372 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842437 ACGCTGAGG
66 ACGCTGAGG
*
45842446 TATTTTTAATTTTCGGTCTTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
1 TATTTTTAA-TTTCTGTC--TTTTTT-AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
45842510 GGTCACGCTGAGG
62 GGTCACGCTGAGG
* * * * * *
45842523 TATTTTTAATATCTATCTTTTTTAAAATTAACTTATAATACGAGAGGTGAGTTGAGCTTCAGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842588 ACGCTGAGG
66 ACGCTGAGG
* *
45842597 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCATCG
1 TATTTTTAATTTCTGTCTTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
45842661 GGTCACGCTGAGG
62 GGTCACGCTGAGG
* * * *
45842674 TA----T--TTCCTCTCTTTTTTAAAATCAATTCATAATAC-AGAGGTGAGTTGAGCCTCGAGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842732 ACGCTGAGG
66 ACGCTGAGG
* *
45842741 TATTTTTAATTTCTATCTTTTTTAAAATTAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842806 ACGCTGAGG
66 ACGCTGAGG
*
45842815 TATTTTTAATTTATGTCTTTTTTTAAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
1 TATTTTTAATTTCTGTC-TTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
45842879 GGGTCACGCTGAGG
61 GGGTCACGCTGAGG
* * *
45842893 TA----T--TTCCTCTCTTTTTTAAAATCAACTCAAAATAC-AGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
*
45842951 ACGTTGAGG
66 ACGCTGAGG
* *
45842960 TATTTTTAATTTCGGTCTTTTTTTTTAAAATCAACTCATAATAC-AAAGGTGAGTTGAGCCTCGG
1 TATTTTTAATTTCTGTC---TTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
*
45843024 ATCACGCTGAGG
63 GTCACGCTGAGG
45843036 TATTTTTAATTTCTGTCTTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTGTC-TTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
45843101 CACGCTGAGG
65 CACGCTGAGG
* * * * *
45843111 TACTTCTTTTAAATTTCTGTTTTTTTTCAAAAAAATCAACACATATTGCGAGAGGTGAGTTAAGC
1 TA--T-TTTT-AATTTCTGTCTTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGC
** * * *
45843176 CTCGGACCATGCCGATG
58 CTCGGGTCACGCTGAGG
** * * *
45843193 TATTTCATTTAAATTTCTGT-TTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCG
1 TA-TT--TTT-AATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
45843257 GG
62 GG
45843259 CGACACTCCG
Statistics
Matches: 1140, Mismatches: 71, Indels: 102
0.87 0.05 0.08
Matches are distributed among these distances:
67 99 0.09
71 19 0.02
72 5 0.00
73 68 0.06
74 396 0.35
75 70 0.06
76 113 0.10
77 154 0.14
78 126 0.11
79 26 0.02
80 1 0.00
81 6 0.01
82 57 0.05
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (74 bp):
TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
ACGCTGAGG
Found at i:45842319 original size:148 final size:147
Alignment explanation
Indices: 45841920--45843258 Score: 1751
Period size: 151 Copynumber: 8.9 Consensus size: 147
45841910 TTTCAAGAAA
* * *
45841920 TATTTTTCACTTTCTGTTTTTTTTCAAATATCAACTCATAATACGAAAGGTGAGTTGAGCCTCGG
1 TATTTTT-AATTTCTGTCTTTTTT-AAA-ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
45841985 GTCACGCTGAGGTATTTTTAATTTC-GATCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAG
63 GTCACGCTGAGGTATTTTTAATTTCTG-TC--TTTTTTAAAATCAACTCATAATACAGAGGTGAG
* *
45842049 TTGAGCCTCGGGTCACTTCTAAGG
125 TTGAGCCTCGGGTCAC-GCTGAGG
* *
45842073 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCTTCG
1 TATTTTTAATTTCTGTCTTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
45842137 GGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGT
62 GGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGT
45842202 TGAGCCTCGGGTCACGCTGAGG
126 TGAGCCTCGGGTCACGCTGAGG
45842224 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
45842289 ACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAG
45842354 CCTCGGGTCACGCTGAGG
130 CCTCGGGTCACGCTGAGG
45842372 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
*
45842437 ACGCTGAGGTATTTTTAATTTTCGGTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTT
66 ACGCTGAGGTATTTTTAA-TTTCTGTC--TTTTTT-AAAATCAACTCATAATACAGAGGTGAGTT
45842502 GAGCCTCGGGTCACGCTGAGG
127 GAGCCTCGGGTCACGCTGAGG
* * * * * *
45842523 TATTTTTAATATCTATCTTTTTTAAAATTAACTTATAATACGAGAGGTGAGTTGAGCTTCAGGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
*
45842588 ACGCTGAGGTATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGTT
66 ACGCTGAGGTATTTTTAATTTCTGTCTTTTTT----AAAATCAACTCATAATACAGAGGTGAGTT
*
45842653 GAGCATCGGGTCACGCTGAGG
127 GAGCCTCGGGTCACGCTGAGG
* * * *
45842674 TA----T--TTCCTCTCTTTTTTAAAATCAATTCATAATAC-AGAGGTGAGTTGAGCCTCGAGTC
1 TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
* *
45842732 ACGCTGAGGTATTTTTAATTTCTATCTTTTTTAAAATTAACTCATAATACGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAG
45842797 CCTCGGGTCACGCTGAGG
130 CCTCGGGTCACGCTGAGG
*
45842815 TATTTTTAATTTATGTCTTTTTTTAAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
1 TATTTTTAATTTCTGTC-TTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
* * *
45842879 GGGTCACGCTGAGGTA----T--TTCCTCTCTTTTTTAAAATCAACTCAAAATACAGAGGTGAGT
61 GGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACAGAGGTGAGT
*
45842938 TGAGCCTCGGGTCACGTTGAGG
126 TGAGCCTCGGGTCACGCTGAGG
* *
45842960 TATTTTTAATTTCGGTCTTTTTTTTTAAAATCAACTCATAATAC-AAAGGTGAGTTGAGCCTCGG
1 TATTTTTAATTTCTGTC---TTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
*
45843024 ATCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTAAAATCAACTCATAATACGAGAGGTGAGT
63 GTCACGCTGAGGTATTTTTAATTTCTGTC-TTTTTTAAAATCAACTCATAATAC-AGAGGTGAGT
45843089 TGAGCCTCGGGTCACGCTGAGG
126 TGAGCCTCGGGTCACGCTGAGG
* * * * *
45843111 TACTTCTTTTAAATTTCTGTTTTTTTTCAAAAAAATCAACACATATTGCGAGAGGTGAGTTAAGC
1 TA--T-TTTT-AATTTCTGTCTTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGC
** * * * ** * *
45843176 CTCGGACCATGCCGATGTATTTCATTTAAATTTCTGT-TTTTCAAAAATCAACTCATATTGCTAG
58 CTCGGGTCACGCTGAGGTA-TT--TTT-AATTTCTGTCTTTTTTAAAATCAACTCATAATAC-AG
45843240 AGGTGAGTTGAGCCTCGGG
118 AGGTGAGTTGAGCCTCGGG
45843259 CGACACTCCG
Statistics
Matches: 1071, Mismatches: 67, Indels: 90
0.87 0.05 0.07
Matches are distributed among these distances:
140 17 0.02
141 33 0.03
143 50 0.05
144 50 0.05
145 73 0.07
146 28 0.03
147 32 0.03
148 201 0.19
149 13 0.01
150 29 0.03
151 251 0.23
152 112 0.10
153 53 0.05
154 20 0.02
155 11 0.01
156 15 0.01
157 28 0.03
158 2 0.00
159 41 0.04
160 3 0.00
161 9 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (147 bp):
TATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
ACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGC
CTCGGGTCACGCTGAGG
Found at i:45843502 original size:29 final size:29
Alignment explanation
Indices: 45843456--45843569 Score: 156
Period size: 29 Copynumber: 3.9 Consensus size: 29
45843446 CAAAAATAAA
*
45843456 AAATTACATTTTGGCCCCTAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
* * * *
45843485 AAATTGCATTTTGACCCCTAAAATTTCATA
1 AAATTACATTTTGACCCCTAAACTTT-TTG
* *
45843515 AAATTACATTTTAACCCATAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
45843544 AAATTACATTTTGACCCCTAAACTTT
1 AAATTACATTTTGACCCCTAAACTTT
45843570 CTCAAAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 48 0.68
30 23 0.32
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.39
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTTTG
Found at i:45843523 original size:59 final size:59
Alignment explanation
Indices: 45843455--45843578 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 59
45843445 ACAAAAATAA
** * *
45843455 AAAATTACATTTTGGCCCCTAAACTTTTTGAAATTGCATTTTGACCCCTAAAATTTCAT-
1 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTC-TC
*
45843514 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCTC
45843573 AAAATT
1 AAAATT
45843579 TTGTTTCAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 1 0.02
59 58 0.98
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCTC
Found at i:45843590 original size:59 final size:60
Alignment explanation
Indices: 45843455--45843600 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 60
45843445 ACAAAAATAA
*** *
45843455 AAAATTACATTTTGGCCCC-TAAACTTTTTGAAATTGCATTTTGACCCCTAAAATTTCAT
1 AAAATTACATTTCAACCCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCAT
* *
45843514 AAAATTACATTTTAA-CCCATAAACTTTTTGAAATTACATTTTGACCCCTAAACTTTC-T
1 AAAATTACATTTCAACCCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCAT
***
45843572 CAAAATTTTGTTTCAACCCCA-AAACTTTT
1 -AAAATTACATTTCAACCCCATAAACTTTT
45843601 GTTGCATTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 4 0.05
59 68 0.89
60 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (60 bp):
AAAATTACATTTCAACCCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCAT
Found at i:45843834 original size:21 final size:21
Alignment explanation
Indices: 45843810--45843866 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
45843800 AAAAACTTGC
45843810 AAAAAAGAGAAAAAGAAGAGG
1 AAAAAAGAGAAAAAGAAGAGG
* *
45843831 AAAAAGGAGAGAAAG-AGAGG
1 AAAAAAGAGAAAAAGAAGAGG
* * *
45843851 AGAAATGAGAAGAAGA
1 AAAAAAGAGAAAAAGA
45843867 GGAGAGCCCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (21 bp):
AAAAAAGAGAAAAAGAAGAGG
Found at i:45843941 original size:13 final size:13
Alignment explanation
Indices: 45843923--45843952 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45843913 GCACAAGCGA
45843923 CGGCGCGGCGCGG
1 CGGCGCGGCGCGG
45843936 CGGCGCGGCGCGG
1 CGGCGCGGCGCGG
45843949 CGGC
1 CGGC
45843953 TAGGGTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (13 bp):
CGGCGCGGCGCGG
Found at i:45844313 original size:15 final size:17
Alignment explanation
Indices: 45844293--45844332 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
45844283 AAAAATAAAA
45844293 AAAAAAGAAG-GAA-AG
1 AAAAAAGAAGAGAAGAG
45844308 AAAAAAG-AGAGAAGAG
1 AAAAAAGAAGAGAAGAG
45844324 AAAAAAGAA
1 AAAAAAGAA
45844333 AAAAAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 9 0.41
17 1 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAGAGAAGAG
Found at i:45844728 original size:22 final size:20
Alignment explanation
Indices: 45844695--45844737 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
45844685 TCGGGTTTCG
45844695 AAATTTTCGTGTCTTTAAAAA
1 AAATTTTCGTGT-TTTAAAAA
45844716 AAATTTCTCGTGTTTTCAAAAA
1 AAATTT-TCGTGTTTT-AAAAA
45844738 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
AAATTTTCGTGTTTTAAAAA
Found at i:45844736 original size:20 final size:21
Alignment explanation
Indices: 45844695--45844737 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45844685 TCGGGTTTCG
45844695 AAATTTTCGTGTCTTTAAAAA
1 AAATTTTCGTGTCTTTAAAAA
*
45844716 AAATTTCTCGTGT-TTTCAAAA
1 AAATTT-TCGTGTCTTTAAAAA
45844737 A
1 A
45844738 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
AAATTTTCGTGTCTTTAAAAA
Found at i:45846901 original size:6 final size:7
Alignment explanation
Indices: 45846880--45846906 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
45846870 AGTAATATAA
45846880 TTTGTTT
1 TTTGTTT
45846887 TTTGTTT
1 TTTGTTT
45846894 TTTGTTT
1 TTTGTTT
45846901 TTTGTT
1 TTTGTT
45846907 AACGGAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTGTTT
Found at i:45847613 original size:40 final size:40
Alignment explanation
Indices: 45847498--45847604 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
45847488 CTTACATTTC
*
45847498 GGGGCTTTAGCGGCGTTTTTGAAAATACGCCGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGAAAA-ACGCCGCTAATGCTG
* * * * *
45847539 GGTGTTTTAGCAGCGTTTTTTAAAAGCGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTG
*
45847579 GGGGCTTTAGCGGCGTTTCTGAAAAA
1 GGGGCTTTAGCGGCGTTTTTGAAAAA
45847605 AACTGCTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 33 0.61
41 21 0.39
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (40 bp):
GGGGCTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTG
Found at i:45848041 original size:22 final size:22
Alignment explanation
Indices: 45847988--45848078 Score: 75
Period size: 21 Copynumber: 4.3 Consensus size: 22
45847978 TAGGGATTAT
*
45847988 GGTTTAAGGGTT-GAGATTTA-A
1 GGTTTAAGGGTTAGAGA-TTAGG
* * *
45848009 GATTTAGGGGTTAGAGGTTAGG
1 GGTTTAAGGGTTAGAGATTAGG
*
45848031 GGTTTAAGGGTTAGATATTAGG
1 GGTTTAAGGGTTAGAGATTAGG
*
45848053 GG-TTAAGAGTTAG-GATTCA-G
1 GGTTTAAGGGTTAGAGATT-AGG
45848073 GGTTTA
1 GGTTTA
45848079 GGGATTTAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
20 6 0.11
21 27 0.48
22 23 0.41
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.35
Consensus pattern (22 bp):
GGTTTAAGGGTTAGAGATTAGG
Found at i:45848326 original size:21 final size:20
Alignment explanation
Indices: 45848292--45848332 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
45848282 ATATGGATTA
*
45848292 GGGATTATGGTTTACGGGTT
1 GGGATTAAGGTTTACGGGTT
*
45848312 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTACGGGTT
45848333 AGAGATTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTACGGGTT
Found at i:45848346 original size:22 final size:22
Alignment explanation
Indices: 45848321--45848368 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
45848311 TGGGATTTAA
*
45848321 GGTTTAGGGGTTAGAGATTAGG
1 GGTTTAGGGGTTAGACATTAGG
45848343 GGTTTAGGGGTTAGACATTAGG
1 GGTTTAGGGGTTAGACATTAGG
45848365 GGTT
1 GGTT
45848369 AAGAGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (22 bp):
GGTTTAGGGGTTAGACATTAGG
Found at i:45854723 original size:42 final size:43
Alignment explanation
Indices: 45854650--45854738 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
45854640 AGCGGCGTTT
* *
45854650 GTTTGTGGGTAAAGCGCCGTTAAAGACCATGTT-TTTAGCGGC
1 GTTTGTGGGTAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
* ** *
45854692 GTTTGTGGGTAAAGCGTCGCTAAAGGTCATGTTCTATAGCGGT
1 GTTTGTGGGTAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
45854735 GTTT
1 GTTT
45854739 TTTCAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 29 0.73
43 11 0.28
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (43 bp):
GTTTGTGGGTAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
Found at i:45856706 original size:21 final size:20
Alignment explanation
Indices: 45856663--45856707 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
45856653 ATTAAGAATG
*
45856663 AATAAATAAATTTATATATT
1 AATAAATAAATTTATACATT
45856683 AATAATATATAATTT-TACATT
1 AATAA-ATA-AATTTATACATT
45856704 AATA
1 AATA
45856708 TTTTTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAAATAAATTTATACATT
Found at i:45863440 original size:13 final size:13
Alignment explanation
Indices: 45863422--45863446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45863412 TTGGCAATGC
45863422 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
45863435 TTTTGAAAAGTG
1 TTTTGAAAAGTG
45863447 ATGTGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:45863456 original size:13 final size:13
Alignment explanation
Indices: 45863440--45863471 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45863430 AGTGTTTTTG
*
45863440 AAAAGTGATGTGA
1 AAAAGTGACGTGA
45863453 AAAAGTGACGTGA
1 AAAAGTGACGTGA
45863466 AAAAGT
1 AAAAGT
45863472 ACTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.19
Consensus pattern (13 bp):
AAAAGTGACGTGA
Found at i:45874326 original size:63 final size:63
Alignment explanation
Indices: 45874144--45874326 Score: 213
Period size: 63 Copynumber: 2.9 Consensus size: 63
45874134 GTACTGTTAC
* * * ** * * *
45874144 TATAAAGTACCTTAATAAAACACATATTGATAGTTTAAGTACGATATTGGATAATTTGTGAACA
1 TATAAA-TACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTTATGAAAA
* ** * * *
45874208 TACAAATACCATAATAAAATGCATATTAATAGTTCAGGTACCAAATTAAATATTTTATGAAAA
1 TATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTTATGAAAA
* *
45874271 TATAAATACCATAATAAAACACATATTGATAGTTCAAATACCATATTAAACATTTT
1 TATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTT
45874327 TAATACTACA
Statistics
Matches: 97, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
63 92 0.95
64 5 0.05
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (63 bp):
TATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTTATGAAAA
Found at i:45882841 original size:3 final size:3
Alignment explanation
Indices: 45882828--45882891 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
45882818 ATTAATTTAT
* * * ** * *
45882828 ATA AAA ATA ATA ATA ATA GTA TTA ATA GCA ATA ATA ATG GTA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
45882874 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
45882892 TTATTATTAT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Done.