Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 207 of 216
Found at i:64113561 original size:45 final size:45
Alignment explanation
Indices: 64113401--64113718 Score: 364
Period size: 45 Copynumber: 7.2 Consensus size: 45
64113391 GTAACAGTAG
* ** *
64113401 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * * * *
64113446 TAGT-ACGGTAACAGTATTTGACACACAAAGTGTCGAATCGATAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * * *
64113490 TAGT-ACGGTAACAGTATTTGACACACAAAGTGCCGAACCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
64113534 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* *
64113579 CAGTAACGGTAACAGTATTCGACACACACAGTGCCGAA----T--
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * * **
64113618 CAGTAACAGTAACAGTATTCGACGCACAAAATGTCGAATATGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * * *
64113663 CAATAACAATAACAGTATTCGACACACAAAGTGCCTAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
64113708 CAGTAACAGTA
1 CAGTAACAGTA
64113719 CTCGACATAT
Statistics
Matches: 235, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.14
41 1 0.00
43 1 0.00
44 78 0.33
45 122 0.52
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
Found at i:64113646 original size:84 final size:84
Alignment explanation
Indices: 64113401--64113725 Score: 355
Period size: 84 Copynumber: 3.8 Consensus size: 84
64113391 GTAACAGTAG
* * ** * * *
64113401 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAATAGTACGGTAACAGTATTTG
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATC---AGTA--ACAGTAACAGTATTCG
*
64113466 ACACACAAAGTGTCGAATCGATAA
61 ACACACAAAGTGTCGAATCGGTAA
* *
64113490 TAGT-ACGGTAACAGTATTTGACACACAAAGTGCCGAACCGGTAACAGTAACAGTAACAGTATTC
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAA----T--CAGTAACAGTAACAGTATTC
*
64113554 GACACACAAAGTGCCGAATCGGTAA
60 GACACACAAAGTGTCGAATCGGTAA
* *
64113579 CAGTAACGGTAACAGTATTCGACACACACAGTGCCGAATCAGTAACAGTAACAGTATTCGACGCA
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTATTCGACACA
* **
64113644 CAAAATGTCGAATATGTAA
66 CAAAGTGTCGAATCGGTAA
* ** * *
64113663 CAATAACAATAACAGTATTCGACACACAAAGTGCCTAATCAGTAACAGTAACAGTACTCGACA
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTATTCGACA
64113726 TATAAATGCC
Statistics
Matches: 203, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
84 96 0.47
86 1 0.00
88 28 0.14
89 42 0.21
90 31 0.15
91 3 0.01
92 1 0.00
94 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (84 bp):
CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTATTCGACACA
CAAAGTGTCGAATCGGTAA
Found at i:64113680 original size:129 final size:131
Alignment explanation
Indices: 64113404--64113714 Score: 385
Period size: 129 Copynumber: 2.4 Consensus size: 131
64113394 ACAGTAGCAG
* ** * * *
64113404 TAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAATAGT-ACGGTAACAGTATTTGAC
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACGGTAACAGTATTCGAC
* * * * *
64113468 ACACAAAGTGTCGAATCGATAATAGTACGGTAACAGTATTTGACACACAAAGTGCCGAACCGGTA
66 ACACAAAGTGCCGAATC-A-AATAG-ACAGTAACAGTATTCGACACACAAAATGCCGAACAGGTA
*
64113533 ACAG
128 ACAA
*
64113537 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGTAACGGTAACAGTATTCGAC
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACGGTAACAGTATTCGAC
* * * * * *
64113602 ACACACAGTGCCGAATC-AGTA-ACAGTAACAGTATTCGACGCACAAAATGTCGAATATGTAACA
66 ACACAAAGTGCCGAATCAAATAGACAGTAACAGTATTCGACACACAAAATGCCGAACAGGTAACA
64113665 A
131 A
* *
64113666 TAACAATAACAGTATTCGACACACAAAGTGCCTAATCAGTAACAGTAAC
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
64113715 AGTACTCGAC
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
129 80 0.51
131 3 0.02
133 41 0.26
134 32 0.21
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (131 bp):
TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACGGTAACAGTATTCGAC
ACACAAAGTGCCGAATCAAATAGACAGTAACAGTATTCGACACACAAAATGCCGAACAGGTAACA
A
Found at i:64113724 original size:39 final size:39
Alignment explanation
Indices: 64113497--64113745 Score: 185
Period size: 45 Copynumber: 5.9 Consensus size: 39
64113487 TAATAGTACG
* *
64113497 GTAACAGTATTTGACACACAAAGTGCCGAACCGGTAACAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCTAA----T--CAGTAACA
* *
64113542 GTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGTAACG
1 GTAACAGTATTCGACACACAAAGTGCCTAA----T--CAGTAACA
* *
64113587 GTAACAGTATTCGACACACACAGTGCCGAATCAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCTAATCAGTAACA
* ** * *
64113626 GTAACAGTATTCGACGCACAAAATGTCGAATATGTAACAATAACA
1 GTAACAGTATTCGACACAC-AAA-GT-GCCTA---ATCAGTAACA
*
64113671 ATAACAGTATTCGACACACAAAGTGCCTAATCAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCTAATCAGTAACA
* * * *
64113710 GTAACAGTACTCGACATATAAA-TGCCTGATCAGTAA
1 GTAACAGTATTCGACACACAAAGTGCCTAATCAGTAA
64113746 GCCGACAAAA
Statistics
Matches: 175, Mismatches: 23, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
38 13 0.07
39 51 0.29
40 2 0.01
41 3 0.02
42 5 0.03
43 2 0.01
44 3 0.02
45 96 0.55
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (39 bp):
GTAACAGTATTCGACACACAAAGTGCCTAATCAGTAACA
Found at i:64113962 original size:40 final size:40
Alignment explanation
Indices: 64113918--64114004 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
64113908 AATTCATAAC
* *
64113918 TTCAGTAATTTCACAGTTCAA-TGCAATA-TACAAAACAATA
1 TTCAGTAACTTCACAATTCAACT-CAATACT-CAAAACAATA
*
64113958 TTCAGTAACTTCACAATTCAACTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAACTCAATACTCAAAACAATA
64113998 TTCAGTA
1 TTCAGTA
64114005 TTCCATAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAACTCAATACTCAAAACAATA
Found at i:64121038 original size:15 final size:16
Alignment explanation
Indices: 64121014--64121060 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
64121004 AAATTCATGA
64121014 AAATG-ATGATATATG
1 AAATGAATGATATATG
*
64121029 AAAT-ATTGATATAATG
1 AAATGAATGATAT-ATG
64121045 AAATGAATGATATATG
1 AAATGAATGATATATG
64121061 TTTATGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.37
16 10 0.37
17 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (16 bp):
AAATGAATGATATATG
Found at i:64125755 original size:44 final size:42
Alignment explanation
Indices: 64125705--64125839 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 42
64125695 ACCAAAAATT
*
64125705 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAATA
1 TATTTT-AAAATTAAAA-AAAAATTAAAAAAAGTATTTTAAAAA
*
64125749 TATTTTAAAATT--AAAAAAATAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
64125789 -AATTTAAAA--AAAAATTAAAATTAAAAAAA-T-TTTAAAAAAA
1 TATTTTAAAATTAAAAA--AAAATTAAAAAAAGTATTT-TAAAAA
64125829 GTATTTTAAAA
1 -TATTTTAAAA
64125840 AAATTTTAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
39 14 0.18
40 30 0.38
41 14 0.18
42 8 0.10
43 6 0.08
44 6 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:64125776 original size:40 final size:43
Alignment explanation
Indices: 64125700--64125912 Score: 138
Period size: 44 Copynumber: 4.8 Consensus size: 43
64125690 TAAATACCAA
* *
64125700 AAATTTATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTT
1 AAATATATTTTAAAAATT-AAATAAAAATAAAAAAAAGTATTTT
64125744 AAATATATTTT-AAAATT-AA-AAAAATAAAAAAAAGTATTTT
1 AAATATATTTTAAAAATTAAATAAAAATAAAAAAAAGTATTTT
* * * *
64125784 AAAAAAATTTAAAAAAAAATTAAAATTAAAAAAATTTTAAAAAAAGTATTTT
1 AAATATATTT---TAAAAATT-AAA-T--AAAAA--TAAAAAAAAGTATTTT
* * ***
64125836 AAAAAAATTTT-AAAATTAAA-AATTTTTTTAAAAAAAAGTATTTT
1 AAATATATTTTAAAAATTAAATAA---AAATAAAAAAAAGTATTTT
64125880 AAA-AGTATTTT-AAAATT-AA-AAAAATAAAAAAAA
1 AAATA-TATTTTAAAAATTAAATAAAAATAAAAAAAA
64125913 ATAAAAATAT
Statistics
Matches: 138, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
40 37 0.27
41 2 0.01
43 13 0.09
44 45 0.33
46 2 0.01
47 3 0.02
48 6 0.04
50 5 0.04
52 25 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (43 bp):
AAATATATTTTAAAAATTAAATAAAAATAAAAAAAAGTATTTT
Found at i:64125786 original size:15 final size:14
Alignment explanation
Indices: 64125768--64125883 Score: 68
Period size: 15 Copynumber: 8.4 Consensus size: 14
64125758 ATTAAAAAAA
64125768 TAAAAAAAAGTATTT
1 TAAAAAAAA-TATTT
64125783 T--AAAAAA-A-TT
1 TAAAAAAAATATTT
64125793 TAAAAAAAA-A-TT
1 TAAAAAAAATATTT
* *
64125805 AAAATTAAAAAAATTT
1 TAAA--AAAAATATTT
*
64125821 TAAAAAAAGTATTT
1 TAAAAAAAATATTT
64125835 T-AAAAAAAT-TTT
1 TAAAAAAAATATTT
* *
64125847 AAAATTAAAAATTTTTT
1 TAAA--AAAAA-TATTT
64125864 TAAAAAAAAGTATTT
1 TAAAAAAAA-TATTT
64125879 TAAAA
1 TAAAA
64125884 GTATTTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
10 3 0.04
11 1 0.01
12 15 0.19
13 15 0.19
14 14 0.17
15 21 0.26
16 6 0.07
17 6 0.07
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
TAAAAAAAATATTT
Found at i:64125788 original size:52 final size:51
Alignment explanation
Indices: 64125753--64125859 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 51
64125743 TAAATATATT
*
64125753 TTAAAATTAAAAAAA-TAAAAAAAAGTATTTTAAAAAAATTTAAAAAAAAA
1 TTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAAATTTTAAAAAAAAA
*
64125803 TTAAAATTAAAAAAATTTTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAAAAA
1 TTAAAATTAAAAAAA-TTAAAAAAAAGTATTTT-AAAAAATTTTAAAA--AAAAA
64125858 TT
1 TT
64125860 TTTTTAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
50 15 0.30
52 15 0.30
53 13 0.26
55 7 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (51 bp):
TTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAAATTTTAAAAAAAAA
Found at i:64125793 original size:11 final size:11
Alignment explanation
Indices: 64125779--64125850 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 11
64125769 AAAAAAAAGT
64125779 ATTTTAAAAAA
1 ATTTTAAAAAA
*
64125790 ATTTAAAAAAAA
1 ATTT-TAAAAAA
64125802 ATTAAAATTAAAAAA
1 ATT----TTAAAAAA
64125817 ATTTTAAAAAAA
1 ATTTT-AAAAAA
64125829 GTATTTTAAAAAA
1 --ATTTTAAAAAA
64125842 ATTTTAAAA
1 ATTTTAAAA
64125851 TTAAAAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
11 15 0.29
12 15 0.29
13 6 0.12
14 5 0.10
15 9 0.18
16 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:64125812 original size:27 final size:26
Alignment explanation
Indices: 64125753--64125850 Score: 87
Period size: 25 Copynumber: 3.9 Consensus size: 26
64125743 TAAATATATT
64125753 TTAAAATTAAAAAAA--TAAAAAAAA
1 TTAAAATTAAAAAAATTTAAAAAAAA
* **
64125777 GT-ATTTTAAAAAAATTTAAAAAAAAA
1 TTAAAATTAAAAAAATTT-AAAAAAAA
*
64125803 TTAAAATTAAAAAAATTTTAAAAAAA
1 TTAAAATTAAAAAAATTTAAAAAAAA
* ** *
64125829 GT-ATTTTAAAAAAATTTTAAAA
1 TTAAAATTAAAAAAATTTAAAAA
64125851 TTAAAAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 10 0.17
24 1 0.02
25 19 0.32
26 17 0.28
27 13 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
TTAAAATTAAAAAAATTTAAAAAAAA
Found at i:64125869 original size:52 final size:50
Alignment explanation
Indices: 64125757--64125859 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 50
64125747 TATATTTTAA
*
64125757 AATTAAAAAAA--TAAAAAAAAGTATTTTAAAAAAATTTAAAAAAAAATT
1 AATTAAAAAAATTTTAAAAAAAGTATTTTAAAAAAATTTAAAAAAAAATT
64125805 AAAATTAAAAAAATTTTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAAAAATT
1 --AATTAAAAAAATTTTAAAAAAAGTATTTTAAAAAAA-TTTAAAA--AAAAATT
64125860 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
50 11 0.23
52 22 0.47
53 7 0.15
55 7 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (50 bp):
AATTAAAAAAATTTTAAAAAAAGTATTTTAAAAAAATTTAAAAAAAAATT
Found at i:64125883 original size:11 final size:11
Alignment explanation
Indices: 64125869--64125894 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64125859 TTTTTTAAAA
64125869 AAAAGTATTTT
1 AAAAGTATTTT
64125880 AAAAGTATTTT
1 AAAAGTATTTT
64125891 AAAA
1 AAAA
64125895 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:64125890 original size:44 final size:42
Alignment explanation
Indices: 64125791--64125904 Score: 156
Period size: 44 Copynumber: 2.7 Consensus size: 42
64125781 TTTAAAAAAA
**
64125791 TTTAAAAAAAAATTAAAATTAAAAAAATTTTAAAAAAAGTAT
1 TTTAAAAAAATTTTAAAATTAAAAAAATTTTAAAAAAAGTAT
**
64125833 TTTAAAAAAATTTTAAAATTAAAAATTTTTTTAAAAAAAAGTAT
1 TTTAAAAAAATTTTAAAATTAAAAA-AATTTT-AAAAAAAGTAT
**
64125877 TTTAAAAGTATTTTAAAATTAAAAAAAT
1 TTTAAAAAAATTTTAAAATTAAAAAAAT
64125905 AAAAAAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 23 0.37
43 5 0.08
44 34 0.55
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (42 bp):
TTTAAAAAAATTTTAAAATTAAAAAAATTTTAAAAAAAGTAT
Found at i:64128006 original size:19 final size:19
Alignment explanation
Indices: 64127984--64128023 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
64127974 ATTTTCTTGC
* *
64127984 TATTTTTTTACTATTTTGT
1 TATTTTTTCACTAATTTGT
64128003 TATTTTTTCACTAATTTGT
1 TATTTTTTCACTAATTTGT
64128022 TA
1 TA
64128024 CAATTTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTTTTTCACTAATTTGT
Found at i:64129599 original size:2 final size:2
Alignment explanation
Indices: 64129592--64129618 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
64129582 TTTTGATTGT
64129592 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
64129619 TATTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64130801 original size:9 final size:9
Alignment explanation
Indices: 64130787--64130834 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
64130777 GAAATATTTA
64130787 TTTTAATAT
1 TTTTAATAT
*
64130796 TTTTAACAT
1 TTTTAATAT
64130805 TTTTAATA-
1 TTTTAATAT
*
64130813 TATTATATAT
1 TTTTA-ATAT
64130823 TTTTAA-AT
1 TTTTAATAT
64130831 TTTT
1 TTTT
64130835 TATAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 10 0.30
9 19 0.58
10 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:64130849 original size:27 final size:28
Alignment explanation
Indices: 64130790--64130849 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
64130780 ATATTTATTT
* **
64130790 TAATATTTTTAACATTTTTAATATATTA
1 TAATATTTTTAACATTTTTAATAAAAAA
*
64130818 T-ATATTTTTAA-ATTTTTTATAAAAAA
1 TAATATTTTTAACATTTTTAATAAAAAA
64130844 TAATAT
1 TAATAT
64130850 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 12 0.44
27 14 0.52
28 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TAATATTTTTAACATTTTTAATAAAAAA
Found at i:64139267 original size:25 final size:25
Alignment explanation
Indices: 64139092--64139371 Score: 203
Period size: 25 Copynumber: 11.2 Consensus size: 25
64139082 AATCTCTTTC
* * *
64139092 GAGCCATGTAACGGGAAGCTCGTGT
1 GAGCCATATAACGGGAAGCTCATGA
* * * *
64139117 GAGCTATATAATGGGAAGCTCTTGC
1 GAGCCATATAACGGGAAGCTCATGA
64139142 GAGCCA-ATAATCGGGAAGCTCAT-A
1 GAGCCATATAA-CGGGAAGCTCATGA
*
64139166 CGAGCCATA-AACGGGAAGCTCATGT
1 -GAGCCATATAACGGGAAGCTCATGA
* * * * *
64139191 GAGCCAAATATCGGTAATCTTATGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
64139216 GAGCCATATATCGAGAAGCTCGTGA
1 GAGCCATATAACGGGAAGCTCATGA
* *
64139241 GAGCCATATAACTGGAAGCTCAAGAGA
1 GAGCCATATAACGGGAAGCTC-A-TGA
*
64139268 GAGCCAT-TAATCGAGAAGCTCATGA
1 GAGCCATATAA-CGGGAAGCTCATGA
* * * *
64139293 GAGCTAAATAATGGGAAGCTCGTGA
1 GAGCCATATAACGGGAAGCTCATGA
* *
64139318 GAGCCA-AGTATCGGGAAGCTCGTGA
1 GAGCCATA-TAACGGGAAGCTCATGA
* * *
64139343 GAGCCAAATAGCGGGATA-CTCATAA
1 GAGCCATATAACGGGA-AGCTCATGA
64139368 GAGC
1 GAGC
64139372 TATGGTGTGC
Statistics
Matches: 202, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
24 24 0.12
25 151 0.75
26 10 0.05
27 17 0.08
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:64139285 original size:27 final size:26
Alignment explanation
Indices: 64139214--64139295 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 26
64139204 GTAATCTTAT
*
64139214 GAGAGCCA-TATATCGAGAAGCTC-GT
1 GAGAGCCATTA-ATCGAGAAGCTCAGA
64139239 GAGAGCCATATAA-CTG-GAAGCTCAAGA
1 GAGAGCCAT-TAATC-GAGAAGCTC-AGA
64139266 GAGAGCCATTAATCGAGAAGCTCATGA
1 GAGAGCCATTAATCGAGAAGCTCA-GA
64139293 GAG
1 GAG
64139296 CTAAATAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
25 16 0.33
26 7 0.15
27 25 0.52
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (26 bp):
GAGAGCCATTAATCGAGAAGCTCAGA
Found at i:64164898 original size:21 final size:21
Alignment explanation
Indices: 64164874--64164917 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64164864 AGATAGGATA
64164874 GTGTCTTCGA-TCCGCTCCGCT
1 GTGTCTTCGACT-CGCTCCGCT
*
64164895 GTGTCTTCGACTTGCTCCGCT
1 GTGTCTTCGACTCGCTCCGCT
64164916 GT
1 GT
64164918 AATCTTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.05, C:0.34, G:0.25, T:0.36
Consensus pattern (21 bp):
GTGTCTTCGACTCGCTCCGCT
Found at i:64164977 original size:44 final size:45
Alignment explanation
Indices: 64164907--64165066 Score: 125
Period size: 46 Copynumber: 3.6 Consensus size: 45
64164897 GTCTTCGACT
* * *
64164907 TGCTCCGCTGTAATCTTAGGGAGATAAGACCT-C-TGGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGACCTGCAT-GCTTCAATC
* * * **
64164951 TGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTC
1 TGCTCCACTGTAACCTCAGGGAGATAAGACCTGC-ATGCTTCAATC
* * *
64164997 TACTCCACTGTAACCTCAGAGAGATAAGACCTG-ATG--T-GATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGACCTGCATGCTTCAATC
* * * *
64165038 TTCTCTACTGTAACTTCAGAGAGATAAGA
1 TGCTCCACTGTAACCTCAGGGAGATAAGA
64165067 TCATTTAATC
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 29 0.30
42 1 0.01
44 29 0.30
45 1 0.01
46 35 0.36
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
TGCTCCACTGTAACCTCAGGGAGATAAGACCTGCATGCTTCAATC
Found at i:64165483 original size:88 final size:88
Alignment explanation
Indices: 64165200--64165887 Score: 925
Period size: 88 Copynumber: 7.9 Consensus size: 88
64165190 TGTAACCTTT
* ** *
64165200 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TT-GATCTGCTTTGCTGT-AATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* ** *
64165260 CAGGAAGGCAAGATCTGCT-TCTTT
64 CAGAAAGGCAAGATCTTTTGTCTTC
* * * ** * * * *
64165284 AACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTGT-T-TTCGATCTGCTTCGCTGTTAATGT
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
* * ** *
64165346 AGGAAGGTAAGATCTGCT-TCTTT
65 AGAAAGGCAAGATCTTTTGTCTTC
*
64165369 AACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
* *
64165433 AGCAAGGCAAGATTTTTTGTCTTC
65 AGAAAGGCAAGATCTTTTGTCTTC
*
64165457 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
64165522 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
64165545 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
64165610 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
64165633 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
64165698 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
*
64165721 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
**
64165786 GGCAGGCAAG--CTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
* * * * * *
64165807 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCAACCTGTTTCACTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
64165872 GGAAGGCAAGATCTTT
66 GAAAGGCAAGATCTTT
64165888 AACTTCATTG
Statistics
Matches: 556, Mismatches: 38, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
83 8 0.01
84 40 0.07
85 56 0.10
86 79 0.14
87 35 0.06
88 337 0.61
89 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GAAAGGCAAGATCTTTTGTCTTC
Found at i:64168013 original size:7 final size:8
Alignment explanation
Indices: 64167988--64168017 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
64167978 CTATTTTGAC
64167988 TTTGATTTT
1 TTTGA-TTT
64167997 TTTGATTT
1 TTTGATTT
64168005 TTTGATTT
1 TTTGATTT
64168013 TTTGA
1 TTTGA
64168018 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:64178453 original size:27 final size:25
Alignment explanation
Indices: 64178423--64178478 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
64178413 TTACAGTATA
64178423 AAAATAAATAAAATAATTAATATTTTT
1 AAAATAAATAAAATAATT-A-ATTTTT
*
64178450 AAAATGAATAAAATAATTAATTTTT
1 AAAATAAATAAAATAATTAATTTTT
64178475 AAAA
1 AAAA
64178479 CATATTCCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 10 0.36
26 1 0.04
27 17 0.61
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATAAATAAAATAATTAATTTTT
Found at i:64189326 original size:15 final size:15
Alignment explanation
Indices: 64189306--64189337 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
64189296 CAGGTAAGAA
64189306 TTCTATTAATGGTGG
1 TTCTATTAATGGTGG
64189321 TTCTATTAATGGTGG
1 TTCTATTAATGGTGG
64189336 TT
1 TT
64189338 GGAGGGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (15 bp):
TTCTATTAATGGTGG
Found at i:64193160 original size:30 final size:30
Alignment explanation
Indices: 64193124--64193180 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
64193114 CTTCCTGATA
*
64193124 AAACCAACATATAGAACATCATTTTACATG
1 AAACCAACAAATAGAACATCATTTTACATG
64193154 AAACCAACAAATAGAACATCATTTTAC
1 AAACCAACAAATAGAACATCATTTTAC
64193181 TTTTATGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (30 bp):
AAACCAACAAATAGAACATCATTTTACATG
Found at i:64194507 original size:31 final size:31
Alignment explanation
Indices: 64194472--64194535 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
64194462 TTGAAAATGG
64194472 AAAACACTAAAGAAAACGTGTTTGATTGAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAA
*
64194503 AAAACACTACAGAAAACGTGTTTGATTGAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAA
64194534 AA
1 AA
64194536 TTAAAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.22
Consensus pattern (31 bp):
AAAACACTAAAGAAAACGTGTTTGATTGAAA
Found at i:64201542 original size:16 final size:15
Alignment explanation
Indices: 64201522--64201555 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64201512 AAAATTTAAG
64201522 ATTTTTAAAACATTT
1 ATTTTTAAAACATTT
* *
64201537 ATTTTTACAATATTT
1 ATTTTTAAAACATTT
64201552 ATTT
1 ATTT
64201556 AAAATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTAAAACATTT
Found at i:64207791 original size:18 final size:17
Alignment explanation
Indices: 64207752--64207791 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
64207742 TAAATTTTAT
*
64207752 CAAATTTATTTTAAAAC
1 CAAATTTATTTGAAAAC
64207769 CAAATTTATTTGATAAAC
1 CAAATTTATTTGA-AAAC
*
64207787 TAAAT
1 CAAAT
64207792 GTAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (17 bp):
CAAATTTATTTGAAAAC
Found at i:64208551 original size:13 final size:13
Alignment explanation
Indices: 64208533--64208559 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64208523 AGTTTGGCAA
64208533 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
64208546 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
64208559 T
1 T
64208560 TTAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:64208832 original size:33 final size:35
Alignment explanation
Indices: 64208737--64208833 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
64208727 TTAATATTTT
*
64208737 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
64208772 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
64208805 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
64208834 ATATTTGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:64213226 original size:18 final size:17
Alignment explanation
Indices: 64213185--64213226 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
64213175 TTTTGAAAAT
64213185 AATTTT-TAAAATTCTA
1 AATTTTATAAAATTCTA
64213201 AATATTTATAGAAATTCTA
1 AAT-TTTATA-AAATTCTA
64213220 AATTTTA
1 AATTTTA
64213227 CATTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 3 0.13
18 6 0.26
19 11 0.48
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (17 bp):
AATTTTATAAAATTCTA
Found at i:64213319 original size:16 final size:16
Alignment explanation
Indices: 64213298--64213350 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
64213288 TTTTGTAATA
*
64213298 AAATTTTTAAAACTTT
1 AAATTTTGAAAACTTT
*
64213314 AAATTTTGAAAACTTAA
1 AAATTTTGAAAACTT-T
*
64213331 AAATTTGGAGAAACTTT
1 AAATTTTGA-AAACTTT
64213348 AAA
1 AAA
64213351 ACTTTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 11 0.35
18 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (16 bp):
AAATTTTGAAAACTTT
Found at i:64213349 original size:19 final size:17
Alignment explanation
Indices: 64213314--64213356 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
64213304 TTAAAACTTT
*
64213314 AAATTTTGAAAACTTAA
1 AAATTTGGAAAACTTAA
64213331 AAATTTGGAGAAACTTTAA
1 AAATTTGGA-AAAC-TTAA
*
64213350 AACTTTG
1 AAATTTG
64213357 ATTTCTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (17 bp):
AAATTTGGAAAACTTAA
Found at i:64213610 original size:23 final size:24
Alignment explanation
Indices: 64213562--64213610 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
64213552 TTCATGCATC
*
64213562 TTTTCTTGCAGGGAATATTTATTG
1 TTTTCTTGCAGGGAATATTTACTG
*
64213586 TTTTCTT-CAGGGAATATTTCCTG
1 TTTTCTTGCAGGGAATATTTACTG
64213609 TT
1 TT
64213611 CACTTGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.51
Consensus pattern (24 bp):
TTTTCTTGCAGGGAATATTTACTG
Found at i:64220773 original size:11 final size:11
Alignment explanation
Indices: 64220759--64220797 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
64220749 ATAAATTTTT
64220759 TAAAATATATA
1 TAAAATATATA
64220770 TAAAATATATA
1 TAAAATATATA
* *
64220781 AAAAATTTA-A
1 TAAAATATATA
64220791 TAAAATA
1 TAAAATA
64220798 ATAATTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAATATATA
Found at i:64221994 original size:61 final size:60
Alignment explanation
Indices: 64221891--64222004 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
64221881 AAATAGTATT
* *
64221891 TAAATATTAATTTGATAAAAATAAAATTTAATAATCGCAATATCTAAATATAAATGGCATC
1 TAAATATTAATTAGATAAAAATAAAATTTAATAATCACAATATCT-AATATAAATGGCATC
* * * *
64221952 TAAATATTAATTAGGTAAAAAT-AAATTTAAATAATTATAATATCTGATATAAA
1 TAAATATTAATTAGATAAAAATAAAATTT-AATAATCACAATATCTAATATAAA
64222005 AATGAATATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 13 0.28
61 33 0.72
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (60 bp):
TAAATATTAATTAGATAAAAATAAAATTTAATAATCACAATATCTAATATAAATGGCATC
Found at i:64222042 original size:12 final size:12
Alignment explanation
Indices: 64222025--64222053 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
64222015 TAATTTAATT
64222025 TAATTTTATAAA
1 TAATTTTATAAA
64222037 TAA-TTTATAAA
1 TAATTTTATAAA
64222048 TAATTT
1 TAATTT
64222054 AATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTTTATAAA
Found at i:64222043 original size:11 final size:11
Alignment explanation
Indices: 64222029--64222054 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64222019 TTAATTTAAT
64222029 TTTATAAATAA
1 TTTATAAATAA
64222040 TTTATAAATAA
1 TTTATAAATAA
64222051 TTTA
1 TTTA
64222055 ATATTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTATAAATAA
Found at i:64222285 original size:17 final size:17
Alignment explanation
Indices: 64222255--64222288 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64222245 TTTTATTTAC
*
64222255 CAAAATATACAAAAAAA
1 CAAAAAATACAAAAAAA
*
64222272 CAAAAAATAGAAAAAAA
1 CAAAAAATACAAAAAAA
64222289 AAGCTGCGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (17 bp):
CAAAAAATACAAAAAAA
Found at i:64222459 original size:10 final size:10
Alignment explanation
Indices: 64222444--64222634 Score: 74
Period size: 10 Copynumber: 19.3 Consensus size: 10
64222434 GAATGAGAGG
64222444 GAAAGAAGAA
1 GAAAGAAGAA
64222454 GAAAG-A-AA
1 GAAAGAAGAA
64222462 GAAAG-A-AA
1 GAAAGAAGAA
64222470 GAAAGAA-AA
1 GAAAGAAGAA
* *
64222479 GAAAAGGAGAG
1 G-AAAGAAGAA
64222490 GAAAG-A-AA
1 GAAAGAAGAA
64222498 GAAA-AAGAA
1 GAAAGAAGAA
64222507 GGAAAGAA-AA
1 -GAAAGAAGAA
*
64222517 GGAAAGGAGAA
1 -GAAAGAAGAA
*
64222528 GGAGAGGAAAGAAA
1 -GA-AAG-AAG-AA
64222542 GAAA-AAGAA
1 GAAAGAAGAA
64222551 GGAAAGAA-AA
1 -GAAAGAAGAA
64222561 GGAAAGGAGAAGAA
1 -G-AA--AGAAGAA
*
64222575 GAAAAAAGAAA
1 GAAAGAAG-AA
64222586 GAAA-AAGAA
1 GAAAGAAGAA
64222595 GGAAAGAA-AA
1 -GAAAGAAGAA
*
64222605 GGAAAGGAGAA
1 -GAAAGAAGAA
64222616 G--AGAA-AA
1 GAAAGAAGAA
64222623 -AAAGAAGAA
1 GAAAGAAGAA
64222632 GAA
1 GAA
64222635 GAGGGAATGA
Statistics
Matches: 146, Mismatches: 10, Indels: 50
0.71 0.05 0.24
Matches are distributed among these distances:
7 2 0.01
8 28 0.19
9 14 0.10
10 61 0.42
11 23 0.16
12 5 0.03
13 9 0.06
14 4 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:64222461 original size:4 final size:4
Alignment explanation
Indices: 64222444--64222603 Score: 81
Period size: 4 Copynumber: 40.0 Consensus size: 4
64222434 GAATGAGAGG
*
64222444 GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAA GAAAA GAAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA -GA-AA
* * * *
64222490 GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAG GAGAG GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAAA GA-AA GAAA
*
64222538 GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA GGAGAA G-AA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA GAAA
*
64222582 GAAA G-AA -AAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA
64222604 AGGAAAGGAG
Statistics
Matches: 125, Mismatches: 12, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
3 26 0.21
4 62 0.50
5 31 0.25
6 6 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:64222531 original size:44 final size:44
Alignment explanation
Indices: 64222432--64222635 Score: 256
Period size: 44 Copynumber: 4.7 Consensus size: 44
64222422 GGGCGGGGGA
* * * *
64222432 GAGAATGAGAGGGAAAG-AAGAAGAAAGAAAGAAAGAAAGAAAGAAAA
1 GAGAAGGAGA-GGAAAGAAAGAA-AAAGAAGGAAAG-AA-AAGGAAAG
*
64222479 GAAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
1 GAGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
64222523 GAGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
1 GAGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
* **
64222567 GAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
1 GAGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
*
64222611 GAGAA-GAGA--AAA-AAAGAAGAAGAAG
1 GAGAAGGAGAGGAAAGAAAGAAAAAGAAG
64222636 AGGGAATGAA
Statistics
Matches: 145, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
40 12 0.08
41 3 0.02
43 3 0.02
44 95 0.66
45 2 0.01
46 17 0.12
47 13 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (44 bp):
GAGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
Found at i:64222581 original size:34 final size:33
Alignment explanation
Indices: 64222444--64222603 Score: 117
Period size: 34 Copynumber: 5.0 Consensus size: 33
64222434 GAATGAGAGG
64222444 GAAAGAAGAA-GAAAG-AAA-GAAA-GAAAGAAA
1 GAAA-AAGAAGGAAAGAAAAGGAAAGGAAAGAAA
* * * * *
64222474 GAAAAGAAAAGGAGAGGAAA-GAAAGAAAAAGAAG
1 GAAAA-AGAAGGAAAGAAAAGGAAAG-GAAAGAAA
* *
64222508 GAAAGAA-AAGGAAAGGAGAAGGAGAGGAAAGAAA
1 GAAA-AAGAAGGAAA-GAAAAGGAAAGGAAAGAAA
64222542 GAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AA
1 GAAAAAGAAGGAAAGAAAAGGAAAGGA-AAGAAA
*
64222575 G-AAAA-AA-GAAAGAAAAAG-AAGGAAAGAAA
1 GAAAAAGAAGGAAAGAAAAGGAAAGGAAAGAAA
64222604 AGGAAAGGAG
Statistics
Matches: 106, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
28 3 0.03
29 8 0.08
30 17 0.16
31 6 0.06
32 11 0.10
33 22 0.21
34 34 0.32
35 5 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (33 bp):
GAAAAAGAAGGAAAGAAAAGGAAAGGAAAGAAA
Found at i:64222634 original size:32 final size:29
Alignment explanation
Indices: 64222445--64222667 Score: 77
Period size: 33 Copynumber: 7.6 Consensus size: 29
64222435 AATGAGAGGG
* *
64222445 AAAGAAGAAG-AAA-G-AAAGAAAGAAAG
1 AAAGAAGAAGAAAAGGAAAAGAAGGAAAA
* * *
64222471 AAAGAA-AAGAAAAGGAGAGGAAAGAAAGAA
1 AAAGAAGAAGAAAAGGAAAAG-AAGGAA-AA
**
64222501 AAAGAAGGAAAGAAAAGGAAAGGAGAAGGAGAGG
1 AAAGAA-G-AAGAAAAGGAAA--AGAAGGA-AAA
* *
64222535 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
1 AAAG-AAGAAGAA-AAGGAAA-AGAAGGAAA--A
* * * **
64222569 GAAGAAGAA-AAAA-GAAAGAAAAAGAAGG
1 AAAGAAGAAGAAAAGGAAA-AGAAGGAAAA
* *
64222597 AAAGAA-AAGGAAAGGAGAAG-A-GAAAA
1 AAAGAAGAAGAAAAGGAAAAGAAGGAAAA
* * *
64222623 AAAGAAGAAGAAGAGGGAATGAAGGAAAA
1 AAAGAAGAAGAAAAGGAAAAGAAGGAAAA
* *
64222652 AAAAAAGAAAAAAAGG
1 AAAGAAGAAGAAAAGG
64222668 TAATTTTTAT
Statistics
Matches: 145, Mismatches: 32, Indels: 37
0.68 0.15 0.17
Matches are distributed among these distances:
25 3 0.02
26 18 0.12
27 13 0.09
28 12 0.08
29 25 0.17
30 19 0.13
31 2 0.01
32 3 0.02
33 27 0.19
34 19 0.13
35 4 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AAAGAAGAAGAAAAGGAAAAGAAGGAAAA
Found at i:64224327 original size:3 final size:3
Alignment explanation
Indices: 64224321--64224362 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
64224311 ACTATTATTG
64224321 TAT TAT TAAT TAT TAT TAT TAT TA- TAT TAT ATAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
64224363 CACCTATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:64224337 original size:21 final size:22
Alignment explanation
Indices: 64224313--64224361 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
64224303 TATTTTTCAC
64224313 TATTATTGTATTAT-TAAT-TAT
1 TATTATT-TATTATATAATATAT
*
64224334 TATTA-TTATTATATTATATAT
1 TATTATTTATTATATAATATAT
64224355 TATTATT
1 TATTATT
64224362 ACACCTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 13 0.54
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTTATTATATAATATAT
Found at i:64224362 original size:21 final size:24
Alignment explanation
Indices: 64224313--64224362 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
64224303 TATTTTTCAC
*
64224313 TATTATTGTATTATTAATTATTAT
1 TATTATTATATTATTAATTATTAT
64224337 TATTATTATATTA-TATATTATTAT
1 TATTATTATATTATTA-ATTATTAT
64224361 TA
1 TA
64224363 CACCTATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATTATATTATTAATTATTAT
Found at i:64224639 original size:8 final size:8
Alignment explanation
Indices: 64224626--64224652 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
64224616 CATTATGTAT
64224626 ATATTTTC
1 ATATTTTC
64224634 ATATTTTC
1 ATATTTTC
64224642 ATATTTTC
1 ATATTTTC
64224650 ATA
1 ATA
64224653 ATTTGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (8 bp):
ATATTTTC
Found at i:64239688 original size:100 final size:100
Alignment explanation
Indices: 64239559--64240100 Score: 789
Period size: 100 Copynumber: 5.4 Consensus size: 100
64239549 TATCTCTTTG
*
64239559 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
64239624 GAAGTCACAACGGCAGATCTGGTTTTCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
64239659 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
64239724 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
** *
64239759 ATAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
64239824 GAAGTTACAACGAC-GAATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAG-ATCTGGTTTCCCCGACAGC
* * *
64239859 GCAAGTAAAAAGATTGAAGCCACAATGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* * * *
64239924 GAAGTCACAACGACGGATCTTGTTTCCCCGATAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * * **
64239959 GCAATTAAAAAGATTAAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* * * * **
64240024 GAAGTTACGACGGTAGATCTTGTTTCCCCGACATT
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * ** *
64240059 GTAATTTTAAAAGATTGAAGCCACAATAGCGAATCTTACTTC
1 GCAA-TTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTC
64240101 TTTAGCGGCG
Statistics
Matches: 399, Mismatches: 40, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
99 1 0.00
100 367 0.92
101 31 0.08
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
Found at i:64240023 original size:50 final size:50
Alignment explanation
Indices: 64239569--64240027 Score: 191
Period size: 50 Copynumber: 9.2 Consensus size: 50
64239559 GCAATTAAAA
* * **
64239569 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
* * * * * * ** **
64239619 AAATTGAAG-TCACAACGGCAGATCTGGT-TTTCCC--GACAGCGCAATTAAAA
1 AGATTGAAGCT-ACAACGACGGATCT--TACTTCCCTGGA-AGTGCAGTGGAGC
* * **
64239669 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
* * *** * *** * ** **
64239719 AGATTGAAG-TCACAACGGCAGATCTGGTTTCCC-CGACAGCATAATTAAAA
1 AGATTGAAGCT-ACAACGACGGATCTTACTTCCCTGGA-AGTGCAGTGGAGC
* * **
64239769 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
* * * *** * * * **
64239819 AAATTGAAGTTACAACGACGAATCTGGTTTCCC-CGACAGCGCAAGT-AAAA
1 AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGA-AGTGC-AGTGGAGC
* * * * **
64239869 AGATTGAAGCCACAATGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
** * * * ** **
64239919 AGATTGAAG-TCACAACGACGGATCTTGTTTCCC-CGATAGCGCAATTAAAA
1 AGATTGAAGCT-ACAACGACGGATCTTACTTCCCTGGA-AGTGCAGTGGAGC
*
64239969 AGATTAAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
1 AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
64240019 AGATTGAAG
1 AGATTGAAG
64240028 TTACGACGGT
Statistics
Matches: 275, Mismatches: 114, Indels: 40
0.64 0.27 0.09
Matches are distributed among these distances:
48 1 0.00
49 12 0.04
50 247 0.90
51 14 0.05
52 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (50 bp):
AGATTGAAGCTACAACGACGGATCTTACTTCCCTGGAAGTGCAGTGGAGC
Found at i:64241464 original size:3 final size:3
Alignment explanation
Indices: 64241458--64241495 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
64241448 ACTATTATTG
64241458 TAT TAT TAT TAT TAT TAT TA- TAT TAT ATAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
64241496 CACCTATAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:64242958 original size:162 final size:160
Alignment explanation
Indices: 64242521--64243001 Score: 425
Period size: 162 Copynumber: 3.0 Consensus size: 160
64242511 GGTTTCGACA
* *
64242521 GTAGGGATTAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAATTAATAAATTTC
1 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACAAAATTAATAAATTTC
*
64242586 AGACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
66 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
*
64242651 AAAATACGGAGAAAAAAATACGAAAAATGGC
131 AAAATAC-GAAAAAAAAATACGAAAAATGGC
** * * * * * *** * * *
64242682 CCA-AG-TAAGAG----TGTATTACA--AACTT-TTTTAAAAATTTAGAAATAATTAATACAAAT
1 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTT-AAAAAACACACAAAATTAAT---AA-
* * * * * * *
64242738 ATTTCAAACAATATACACTGGAATAATATAAAATAATAAAA-TACGAAAA-TAAAATATTTGTAT
61 ATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTA--AAAATTATAATATTT-T-C
* ** *
64242801 TGAAAGTAATAAAA-ATC-AAAAAAATAATATTAGCAAA-GG-
122 T-AAAATAATAAAATA-CGAAAAAAA-AATACGA-AAAATGGC
* *
64242840 GTAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACGAAATTAATAAATTTC
1 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACAAAATTAATAAATTTC
*
64242905 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAA
66 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
*
64242970 AAAATACGGAGAAAAAAATACGAACAAATGGC
131 AAAATAC-GAAAAAAAAATACGAA-AAATGGC
64243002 CGAAGTAAGA
Statistics
Matches: 234, Mismatches: 56, Indels: 59
0.67 0.16 0.17
Matches are distributed among these distances:
152 3 0.01
153 17 0.07
155 7 0.03
156 4 0.02
157 44 0.19
158 12 0.05
159 26 0.11
160 31 0.13
161 14 0.06
162 45 0.19
163 4 0.02
164 7 0.03
166 17 0.07
167 3 0.01
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.30
Consensus pattern (160 bp):
GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACAAAATTAATAAATTTC
AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
AAAATACGAAAAAAAAATACGAAAAATGGC
Found at i:64248225 original size:3 final size:3
Alignment explanation
Indices: 64248217--64248242 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
64248207 AATTACATCT
64248217 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
64248243 CTAACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:64248400 original size:11 final size:11
Alignment explanation
Indices: 64248359--64248399 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
64248349 TAAAAAAATA
64248359 TCTTCTTTTTC
1 TCTTCTTTTTC
*
64248370 TCTTCTCTTTC
1 TCTTCTTTTTC
*
64248381 TC-TGTTTTTC
1 TCTTCTTTTTC
64248391 TCTT-TTTTT
1 TCTTCTTTTT
64248400 TTCCCACAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 13 0.50
11 13 0.50
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:64248531 original size:27 final size:27
Alignment explanation
Indices: 64248501--64248574 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
64248491 CACCAATCAA
*
64248501 TATGGCACCATCGGTGCCGCCAACCTG
1 TATGGCACCATCGGTGCCGCCAACCAG
64248528 TATGGCACCATCGGTGCCGCCAACCAG
1 TATGGCACCATCGGTGCCGCCAACCAG
* *
64248555 TATGGCACCTTTGGTGCCGC
1 TATGGCACCATCGGTGCCGC
64248575 TAATCAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (27 bp):
TATGGCACCATCGGTGCCGCCAACCAG
Found at i:64251446 original size:31 final size:31
Alignment explanation
Indices: 64251383--64251453 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
64251373 TAAAAACAAC
*
64251383 AATTCAACTTTTTTTAAAAGATTAATTATCA
1 AATTCAACTCTTTTTAAAAGATTAATTATCA
* *
64251414 AATTCGACTCTTTTTAAAAGATTGA-TAGTCA
1 AATTCAACTCTTTTTAAAAGATTAATTA-TCA
*
64251445 AATTTAACT
1 AATTCAACT
64251454 TAAAATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAGATTAATTATCA
Found at i:64251871 original size:19 final size:21
Alignment explanation
Indices: 64251847--64251891 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
64251837 AAATACTTTA
64251847 AAAATATTTTTT-TATTT-TT
1 AAAATATTTTTTGTATTTATT
*
64251866 AAAATATTTTTTGTGTTTATT
1 AAAATATTTTTTGTATTTATT
64251887 AAAAT
1 AAAAT
64251892 TCGGGCCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 4 0.17
21 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
AAAATATTTTTTGTATTTATT
Found at i:64259761 original size:33 final size:33
Alignment explanation
Indices: 64259724--64259792 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
64259714 TTCAAAGGTA
*
64259724 AAACAATCTGAGGTTTCCCGCAGGGAACCCCAG
1 AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
64259757 AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
1 AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
64259790 AAA
1 AAA
64259793 AAAGGTTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (33 bp):
AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
Found at i:64273887 original size:16 final size:17
Alignment explanation
Indices: 64273866--64273897 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
64273856 CACTCAATAT
64273866 ATTGTTGA-AAAAAAAC
1 ATTGTTGATAAAAAAAC
64273882 ATTGTTGATAAAAAAA
1 ATTGTTGATAAAAAAA
64273898 GAAGGTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.28
Consensus pattern (17 bp):
ATTGTTGATAAAAAAAC
Found at i:64274993 original size:26 final size:26
Alignment explanation
Indices: 64274964--64275043 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
64274954 TTATAAGTTT
*
64274964 ATAACTACTAAGTAATCCCATTGCTC
1 ATAACTACTAAGTAATCCTATTGCTC
* *
64274990 ATAACTACCAAATAATCCTATTGCTC
1 ATAACTACTAAGTAATCCTATTGCTC
* *
64275016 ATAACAACTAAGTAATCCTATTACTC
1 ATAACTACTAAGTAATCCTATTGCTC
64275042 AT
1 AT
64275044 CAAGCTAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (26 bp):
ATAACTACTAAGTAATCCTATTGCTC
Found at i:64278204 original size:24 final size:24
Alignment explanation
Indices: 64278177--64278222 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
64278167 TATGAAGAAC
*
64278177 CTTAAATTTAAAAATGATTATAGG
1 CTTAAAATTAAAAATGATTATAGG
64278201 CTTAAAATTAAAAATGATTATA
1 CTTAAAATTAAAAATGATTATA
64278223 AGTGGACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (24 bp):
CTTAAAATTAAAAATGATTATAGG
Found at i:64278924 original size:96 final size:96
Alignment explanation
Indices: 64278811--64279027 Score: 283
Period size: 96 Copynumber: 2.2 Consensus size: 96
64278801 TGTTTATTGT
* * * *
64278811 TTTTTAACAAAAAATCAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAATATT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATT-AAAAATATT
*
64278876 TA-AAAATCAGATAATGGTTTAGAGTTAAGGG
65 TATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* * * *
64278907 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATATTT
* * * *
64278972 ATAAAATTAGATTAGGGTTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
*
64279003 TTTTTAAGTAAAAACTCAAATAAAT
1 TTTTTAAG-AAAAAATCAAATAAAT
64279028 AAGGATTTGG
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
95 9 0.09
96 81 0.78
97 14 0.13
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATATTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:64283662 original size:52 final size:52
Alignment explanation
Indices: 64283591--64283708 Score: 218
Period size: 52 Copynumber: 2.3 Consensus size: 52
64283581 ACTATATGAC
64283591 CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
1 CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
* *
64283643 TATGATGGAAATATTAGTTATATACTAAATACTAAACACCAGTTGACTATCT
1 CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
64283695 CATGATGGAAATAT
1 CATGATGGAAATAT
64283709 CTATTTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (52 bp):
CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
Found at i:64284871 original size:12 final size:12
Alignment explanation
Indices: 64284854--64284914 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
64284844 CTTTTAAATA
*
64284854 GAAATTTGAGTG
1 GAAATTTGAGAG
64284866 GAAA-TTGAGAG
1 GAAATTTGAGAG
64284877 GAAATTTGAGA-
1 GAAATTTGAGAG
*
64284888 GAATATTAGAGA-
1 GAA-ATTTGAGAG
64284900 GAAA-TTGAG-G
1 GAAATTTGAGAG
64284910 GAAAT
1 GAAAT
64284915 GATTTAGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
10 8 0.19
11 14 0.33
12 20 0.48
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:64284879 original size:11 final size:11
Alignment explanation
Indices: 64284854--64284914 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
64284844 CTTTTAAATA
*
64284854 GAAATTTGAGTG
1 GAAA-TTGAGAG
64284866 GAAATTGAGAG
1 GAAATTGAGAG
64284877 GAAATTTGAGA-
1 GAAA-TTGAGAG
64284888 GAATATT-AGAG
1 GAA-ATTGAGAG
64284899 AGAAATTGAG-G
1 -GAAATTGAGAG
64284910 GAAAT
1 GAAAT
64284915 GATTTAGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
10 8 0.19
11 19 0.44
12 16 0.37
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:64284884 original size:23 final size:22
Alignment explanation
Indices: 64284853--64284914 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
64284843 TCTTTTAAAT
64284853 AGAAATTTGAGTGGAAATT-GAG
1 AGAAATTTGAG-GGAAATTAGAG
*
64284875 AGGAAATTTGAGAGAATATTAGAG
1 A-GAAATTTGAGGGAA-ATTAGAG
64284899 AGAAA-TTGAGGGAAAT
1 AGAAATTTGAGGGAAAT
64284915 GATTTAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 12 0.34
23 17 0.49
24 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (22 bp):
AGAAATTTGAGGGAAATTAGAG
Found at i:64285734 original size:20 final size:21
Alignment explanation
Indices: 64285709--64285747 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64285699 TGTTGTAAAC
64285709 TTATAAAA-ACTATAAAAAAG
1 TTATAAAATACTATAAAAAAG
*
64285729 TTATAAAATATTATAAAAA
1 TTATAAAATACTATAAAAA
64285748 TATATAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
TTATAAAATACTATAAAAAAG
Found at i:64285820 original size:21 final size:22
Alignment explanation
Indices: 64285784--64285838 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
64285774 AATAAGAATA
*
64285784 ATAAAAACATATTTAAAATTTT
1 ATAAAAACATATTTAAAATTCT
64285806 ATAAAAACATA-TTAAAATTCT
1 ATAAAAACATATTTAAAATTCT
64285827 ATAAAAATCATA
1 ATAAAAA-CATA
64285839 AAAAGTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAAACATATTTAAAATTCT
Found at i:64286352 original size:9 final size:9
Alignment explanation
Indices: 64286294--64286534 Score: 100
Period size: 10 Copynumber: 25.8 Consensus size: 9
64286284 CCAGTTCAAG
*
64286294 TTTTTATGA
1 TTTTTATAA
64286303 TTTTT-TAGTA
1 TTTTTATA--A
64286313 TTTTTATAA
1 TTTTTATAA
*
64286322 GTTTATATCAA
1 -TTTTTAT-AA
*
64286333 TTTTAAT-A
1 TTTTTATAA
64286341 TTTTTATAA
1 TTTTTATAA
*
64286350 TTTTTTATAG
1 -TTTTTATAA
*
64286360 TTTTTATTA
1 TTTTTATAA
*
64286369 TTTTTAAAGAA
1 TTTTT--ATAA
* *
64286380 TTCTAATAAA
1 TTTTTAT-AA
**
64286390 AATTT-TAA
1 TTTTTATAA
*
64286398 TATTTA-ATA
1 TTTTTATA-A
*
64286407 TTTTAAATAA
1 TTTT-TATAA
*
64286417 ATTTTATTAA
1 TTTTTA-TAA
*
64286427 -TTTTATAG
1 TTTTTATAA
* *
64286435 CTTTTATTA
1 TTTTTATAA
*
64286444 TTTATTAGAA
1 TTT-TTATAA
64286454 TTTTTAT-A
1 TTTTTATAA
64286462 TTTTTATAA
1 TTTTTATAA
64286471 TTTTTATAA
1 TTTTTATAA
*
64286480 GTTTTTATAT
1 -TTTTTATAA
64286490 TATTTTATAA
1 T-TTTTATAA
*
64286500 TTTTAATAA
1 TTTTTATAA
*
64286509 GTTTATATGAA
1 -TTTTTAT-AA
*
64286520 TTTTAAT-A
1 TTTTTATAA
64286528 TTTTTAT
1 TTTTTAT
64286535 TTTTATAATA
Statistics
Matches: 173, Mismatches: 37, Indels: 45
0.68 0.15 0.18
Matches are distributed among these distances:
8 32 0.18
9 60 0.35
10 69 0.40
11 12 0.07
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:64286353 original size:37 final size:36
Alignment explanation
Indices: 64286304--64286534 Score: 99
Period size: 37 Copynumber: 6.2 Consensus size: 36
64286294 TTTTTATGAT
64286304 TTTTTAGT-ATTTTTATAAGTTTATATCAATTTTAATA
1 TTTTTA-TAATTTTTATAAGTTTATAT-AATTTTAATA
* * *
64286341 TTTTTATAATTTTT-TATAGTTTTTATTATTTTTAAAGAA
1 TTTTTATAATTTTTATA-AGTTTATA-TAATTTT-AA-TA
* * *
64286380 TTCTAATAAAAATTTTA-ATA-TTTA-AT-ATTTTAAATAA
1 TT-T-TTATAATTTTTATA-AGTTTATATAATTTT-AAT-A
* *
64286417 ATTTTATTAA-TTTTAT-AGCTTT-TATTATTTATTAGA-A
1 TTTTTA-TAATTTTTATAAG-TTTATA-TAATT-TTA-ATA
* *
64286454 TTTTTAT-ATTTTTATAA-TTTTTATAAGTTTTTATA
1 TTTTTATAATTTTTATAAGTTTATATAA-TTTTAATA
*
64286489 TTATTTTATAATTTTAATAAGTTTATATGAATTTTAATA
1 -T-TTTTATAATTTTTATAAGTTTATAT-AATTTTAATA
64286528 TTTTTAT
1 TTTTTAT
64286535 TTTTATAATA
Statistics
Matches: 147, Mismatches: 19, Indels: 56
0.66 0.09 0.25
Matches are distributed among these distances:
34 2 0.01
35 16 0.11
36 22 0.15
37 53 0.36
38 17 0.12
39 20 0.14
40 6 0.04
41 11 0.07
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (36 bp):
TTTTTATAATTTTTATAAGTTTATATAATTTTAATA
Found at i:64286355 original size:19 final size:19
Alignment explanation
Indices: 64286313--64286373 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
64286303 TTTTTTAGTA
*
64286313 TTTTTATAAGTTTATATCAA-
1 TTTTTAT-AGTTTTTAT-AAT
*
64286333 TTTTAATA-TTTTTATAAT
1 TTTTTATAGTTTTTATAAT
*
64286351 TTTTTATAGTTTTTATTAT
1 TTTTTATAGTTTTTATAAT
64286370 TTTT
1 TTTT
64286374 AAAGAATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.06
18 13 0.37
19 14 0.40
20 6 0.17
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTTATAGTTTTTATAAT
Found at i:64286364 original size:28 final size:28
Alignment explanation
Indices: 64286291--64286374 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
64286281 AATCCAGTTC
* *
64286291 AAGTTTTTATGATTTTTTAGTATTTTTAT
1 AAGTTTTTATCA-TTTTTAATATTTTTAT
* *
64286320 AAGTTTATATCAATTTTAATATTTTTAT
1 AAGTTTTTATCATTTTTAATATTTTTAT
* *
64286348 AATTTTTTAT-AGTTTTTATTATTTTTA
1 AAGTTTTTATCA-TTTTTAATATTTTTA
64286375 AAGAATTCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 35 0.76
29 10 0.22
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (28 bp):
AAGTTTTTATCATTTTTAATATTTTTAT
Found at i:64286466 original size:27 final size:27
Alignment explanation
Indices: 64286427--64286512 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 27
64286417 ATTTTATTAA
* *
64286427 TTTTATAGCTTTTATTATTTATTAGAA-T
1 TTTTATA-TTTTTATAATTT-TTAGAAGT
*
64286455 TTTTATATTTTTATAATTTTTATAAGT
1 TTTTATATTTTTATAATTTTTAGAAGT
* *
64286482 TTTTATATTATTTTATAATTTTAATAAGT
1 TTTTATA-T-TTTTATAATTTTTAGAAGT
64286511 TT
1 TT
64286513 ATATGAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.10
27 18 0.35
28 8 0.16
29 20 0.39
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTTATATTTTTATAATTTTTAGAAGT
Found at i:64286508 original size:29 final size:27
Alignment explanation
Indices: 64286454--64286512 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 27
64286444 TTTATTAGAA
*
64286454 TTTTTATATTTTTATAATTTTTATAAG
1 TTTTTATATTTTTATAATTTTAATAAG
64286481 TTTTTATATTATTTTATAATTTTAATAAG
1 TTTTTATA-T-TTTTATAATTTTAATAAG
64286510 TTT
1 TTT
64286513 ATATGAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 8 0.28
28 1 0.03
29 20 0.69
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTATATTTTTATAATTTTAATAAG
Found at i:64286532 original size:29 final size:28
Alignment explanation
Indices: 64286454--64286533 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
64286444 TTTATTAGAA
*
64286454 TTTT-TATATTTTTATAATTTTT-ATAAG
1 TTTTATATAATTTTAT-ATTTTTAATAAG
* *
64286481 TTTTTATATTATTTTATAATTTTAATAAG
1 -TTTTATATAATTTTATATTTTTAATAAG
64286510 -TTTATATGAATTTTAATATTTTTA
1 TTTTATAT-AATTTT-ATATTTTTA
64286534 TTTTTATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 7 0.16
28 14 0.33
29 22 0.51
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (28 bp):
TTTTATATAATTTTATATTTTTAATAAG
Found at i:64286533 original size:20 final size:19
Alignment explanation
Indices: 64286498--64286576 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 19
64286488 ATTATTTTAT
**
64286498 AATTTTAATAAGTTTATATG
1 AATTTTAATATTTTTAT-TG
64286518 AATTTTAATATTTTTATT-
1 AATTTTAATATTTTTATTG
64286536 --TTTATAATATTTTT-TTG
1 AATTT-TAATATTTTTATTG
64286553 AATTTTTAATCATTTTTATGTG
1 AA-TTTTAAT-ATTTTTAT-TG
64286575 AA
1 AA
64286577 AAATATTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 5 0.10
17 10 0.20
19 5 0.10
20 24 0.49
21 1 0.02
22 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.59
Consensus pattern (19 bp):
AATTTTAATATTTTTATTG
Found at i:64287698 original size:18 final size:18
Alignment explanation
Indices: 64287675--64287711 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64287665 AAAAGCTTTA
64287675 AAAAAATGTATATATATT
1 AAAAAATGTATATATATT
*
64287693 AAAAAATGTGTATATATT
1 AAAAAATGTATATATATT
64287711 A
1 A
64287712 TATATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (18 bp):
AAAAAATGTATATATATT
Found at i:64287975 original size:22 final size:22
Alignment explanation
Indices: 64287950--64287993 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
64287940 TAAATTATAG
* *
64287950 GTATATATATATAAAATATAAA
1 GTATATATATAAAAAAAATAAA
*
64287972 GTATGTATATAAAAAAAATAAA
1 GTATATATATAAAAAAAATAAA
64287994 AGCAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
GTATATATATAAAAAAAATAAA
Found at i:64288150 original size:3 final size:3
Alignment explanation
Indices: 64288135--64288194 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
64288125 AGCAATAACT
* *
64288135 ATA ATA ATG ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64288183 ATA ATA ATA ATA
1 ATA ATA ATA ATA
64288195 TAACATGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64289846 original size:44 final size:44
Alignment explanation
Indices: 64289758--64289870 Score: 156
Period size: 44 Copynumber: 2.5 Consensus size: 44
64289748 ACCAGTATGG
** * *
64289758 GAAGACAAGATCTGCTTATTTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTT-TTTCCGATCTACTTCACGCCAATACAT
*
64289803 GAAGACAAGATCTG-TTTTCTCCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTT-TCCGATCTACTTCACGCCAATACAT
64289847 GAAGACAAGATCTGCTTTTTCCGA
1 GAAGACAAGATCTGCTTTTTCCGA
64289871 CCGATTCCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.03
44 41 0.67
45 18 0.30
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTTTCCGATCTACTTCACGCCAATACAT
Found at i:64293500 original size:13 final size:14
Alignment explanation
Indices: 64293476--64293509 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
64293466 GACACCGGAT
64293476 TATTTTTAAATAAG
1 TATTTTTAAATAAG
64293490 TATTTTT-AATAAG
1 TATTTTTAAATAAG
64293503 TATTTTT
1 TATTTTT
64293510 TATTGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
TATTTTTAAATAAG
Found at i:64298248 original size:7 final size:8
Alignment explanation
Indices: 64298233--64298257 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
64298223 GAAAGCAATG
64298233 TATTTTTT
1 TATTTTTT
64298241 TATTTTTT
1 TATTTTTT
64298249 TATTTTTT
1 TATTTTTT
64298257 T
1 T
64298258 GAACCGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:64302465 original size:29 final size:26
Alignment explanation
Indices: 64302417--64302470 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
64302407 TGGGTATGGT
*
64302417 GGACAAAAAAATCAAATACCAAGTTA
1 GGACAAAAAAAACAAATACCAAGTTA
64302443 GGACAAAAAAAAACATAAGTACCAAGTT
1 GGAC-AAAAAAAACA-AA-TACCAAGTT
64302471 GGGAGAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 2 0.08
29 9 0.38
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (26 bp):
GGACAAAAAAAACAAATACCAAGTTA
Found at i:64302966 original size:30 final size:29
Alignment explanation
Indices: 64302930--64302991 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
64302920 CTAACGGCCT
64302930 AAATCCACTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-AAAACAACTTTAACCC
* * *
64302960 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCAAAACAACTTTAACCC
64302989 AAA
1 AAA
64302992 CCCAACTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (29 bp):
AAATCCACTACCCAAAACAACTTTAACCC
Found at i:64302984 original size:29 final size:29
Alignment explanation
Indices: 64302930--64303007 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
64302920 CTAACGGCCT
*
64302930 AAATCCACTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-TAAACAACTTTAACCC
* *
64302960 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCTAAACAACTTTAACCC
* *
64302989 AAACCCAACTAGCCTAAAC
1 AAATCC-ACTACCCTAAAC
64303008 CCAAAACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (29 bp):
AAATCCACTACCCTAAACAACTTTAACCC
Found at i:64303007 original size:30 final size:29
Alignment explanation
Indices: 64302945--64303007 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
64302935 CACTACCCAA
* *
64302945 AAACAACTTTAACCCAAATCCACTATCCT
1 AAACAACTTTAACCCAAACCCACTAGCCT
*
64302974 AAACAGCTTTAACCCAAACCCAACTAGCCT
1 AAACAACTTTAACCCAAACCC-ACTAGCCT
64303004 AAAC
1 AAAC
64303008 CCAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.19
Consensus pattern (29 bp):
AAACAACTTTAACCCAAACCCACTAGCCT
Found at i:64314850 original size:44 final size:44
Alignment explanation
Indices: 64314802--64315179 Score: 228
Period size: 44 Copynumber: 8.1 Consensus size: 44
64314792 TAGGGTAGAC
*
64314802 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGAT
1 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
* ** * * **
64314846 TGAAGCTTGTGATCCTATCTCCCTGAGATTACAGTGGAGTGGAT
1 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
* * * *
64314890 TAAAAC-A-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGAT
1 TGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAG-CG-G-AG-------CAGAT
*
64314944 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
* * * * *
64314988 TGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGAT
1 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
* * * *
64315032 TAAAAC-A-AATGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGAT
1 TGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGAT
* *
64315086 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAACAGAT
1 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
* * *
64315130 TGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAAAT
1 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
*
64315174 TAAAGC
1 TGAAGC
64315180 AAATGATCTT
Statistics
Matches: 255, Mismatches: 47, Indels: 64
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 172 0.67
45 1 0.00
46 1 0.00
47 5 0.02
49 4 0.02
51 5 0.02
52 1 0.00
53 1 0.00
54 53 0.21
55 4 0.02
56 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
Found at i:64315058 original size:142 final size:142
Alignment explanation
Indices: 64314802--64315272 Score: 771
Period size: 142 Copynumber: 3.3 Consensus size: 142
64314792 TAGGGTAGAC
* * * *
64314802 TGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTTGTGATCCTATCTC
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
* *
64314867 CCTGAGATTACAGTGGAGTGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
*
64314932 ATCACATCAGAT
131 ATCGCATCAGAT
64314944 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
*
64315009 CCTGAGATTACAGTGGAACGGATTAAAACAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
64315074 ATCGCATCAGAT
131 ATCGCATCAGAT
* *
64315086 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCTTATCTC
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
** *
64315151 CCTGAGATTACAGTGGAGCAAATTAAAGCAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
64315216 ATCGCATCAGAT
131 ATCGCATCAGAT
* * * * * *
64315228 TGAAGCTAGTAATCCTATCTTCCTGAGATTACAGTGGAGCGGATT
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
64315273 AAAACAAAGG
Statistics
Matches: 308, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 308 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (142 bp):
TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
CCTGAGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
ATCGCATCAGAT
Found at i:64315162 original size:98 final size:98
Alignment explanation
Indices: 64314983--64315164 Score: 249
Period size: 98 Copynumber: 1.9 Consensus size: 98
64314973 TACAGCGGAG
* * * * *
64314983 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAACAAATGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAACAGATTAAAACAAATAATCTT
*
64315048 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * * * *
64315081 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAACAGATTAAAACAAATAATCTT
64315146 ATCTCCCTG-AGATTACAGT
66 ATCTCCCTGAAG-TTACAGT
64315165 GGAGCAAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
97 2 0.03
98 70 0.97
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (98 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAACAGATTAAAACAAATAATCTT
ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:64315189 original size:44 final size:44
Alignment explanation
Indices: 64315096--64315208 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
64315086 TGAAGCCAGA
* * * * *
64315096 AATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAACAAATTAAAGCAAAT
*
64315140 AATCTTATCTCCCTGAGATTACAGTGGAGCAAATTAAAGCAAAT
1 AATCTTATCTCCCTGAGATTACAGTGGAACAAATTAAAGCAAAT
* *
64315184 GATCTTATCTCTCTGA-AGTTACAGT
1 AATCTTATCTCCCTGAGA-TTACAGT
64315209 AGAGTAGATC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 59 0.98
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAACAAATTAAAGCAAAT
Found at i:64315247 original size:98 final size:98
Alignment explanation
Indices: 64315125--64315333 Score: 337
Period size: 98 Copynumber: 2.1 Consensus size: 98
64315115 TACAGCGGAA
* * *
64315125 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAAATTAAAGCAAATGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAAATTAAAACAAAGGATCTT
**
64315190 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAACAGAGTAGATCGCAT
* ** *
64315223 CAGATTGAAGCTAGTAATCCTATCTTCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGGTCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAAATTAAAACAAAGGATCTT
64315288 ATCTCTCTGAAGTTACAACAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAACAGAGTAGATCGCAT
64315321 CAGATTGAAGCTA
1 CAGATTGAAGCTA
64315334 CAACAGCAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 102 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (98 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAAATTAAAACAAAGGATCTT
ATCTCTCTGAAGTTACAACAGAGTAGATCGCAT
Found at i:64315738 original size:30 final size:29
Alignment explanation
Indices: 64315702--64315763 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
64315692 CTAACGGCCT
*
64315702 AAATCCATTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-AAAACAACTTTAACCC
* * *
64315732 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCAAAACAACTTTAACCC
64315761 AAA
1 AAA
64315764 CTCAACTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (29 bp):
AAATCCACTACCCAAAACAACTTTAACCC
Found at i:64315755 original size:29 final size:30
Alignment explanation
Indices: 64315717--64315779 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
64315707 CATTACCCAA
* *
64315717 AAACAACTTTAACCCAAA-TCCACTATCCT
1 AAACAACTTTAACCCAAACTCAACTAGCCT
*
64315746 AAACAGCTTTAACCCAAACTCAACTAGCCT
1 AAACAACTTTAACCCAAACTCAACTAGCCT
64315776 AAAC
1 AAAC
64315780 CCAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.21
Consensus pattern (30 bp):
AAACAACTTTAACCCAAACTCAACTAGCCT
Found at i:64318917 original size:15 final size:15
Alignment explanation
Indices: 64318894--64318926 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
64318884 AAAGATCTAA
64318894 AAATAAAATAAAATT
1 AAATAAAATAAAATT
*
64318909 AAATTAAATAAAATT
1 AAATAAAATAAAATT
64318924 AAA
1 AAA
64318927 CTTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATAAAATT
Found at i:64318938 original size:7 final size:7
Alignment explanation
Indices: 64318917--64318954 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
64318907 TTAAATTAAA
64318917 TAAAA-T
1 TAAAATT
*
64318923 TAAACTT
1 TAAAATT
64318930 TAAAATT
1 TAAAATT
64318937 TAAAATT
1 TAAAATT
64318944 TAAAATT
1 TAAAATT
64318951 TAAA
1 TAAA
64318955 CTCTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:64318946 original size:21 final size:21
Alignment explanation
Indices: 64318917--64318963 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
64318907 TTAAATTAAA
* *
64318917 TAAAA-TTAAACTTTAAAATT
1 TAAAATTTAAAATTTAAAATC
*
64318937 TAAAATTTAAAATTTAAACTC
1 TAAAATTTAAAATTTAAAATC
64318958 TAAAAT
1 TAAAAT
64318964 AGCTCTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTTAAAATTTAAAATC
Found at i:64318961 original size:14 final size:14
Alignment explanation
Indices: 64318917--64318963 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
64318907 TTAAATTAAA
64318917 TAAAA-TTAAACTT
1 TAAAATTTAAACTT
*
64318930 TAAAATTTAAAATT
1 TAAAATTTAAACTT
*
64318944 TAAAATTTAAACTC
1 TAAAATTTAAACTT
64318958 TAAAAT
1 TAAAAT
64318964 AGCTCTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 5 0.17
14 25 0.83
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAATTTAAACTT
Found at i:64327539 original size:51 final size:51
Alignment explanation
Indices: 64327463--64327575 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
64327453 CTAATCAGTA
*
64327463 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
* *
64327514 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACGAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
64327565 ACAAGTGATAA
1 ACAAGTGATAA
64327576 ATGTGATCCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
Found at i:64327714 original size:47 final size:48
Alignment explanation
Indices: 64327586--64327724 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 48
64327576 ATGTGATCCA
* *
64327586 TGTAAGACCATATCTGGGATATGGCATCGATGTGATATGTGATTTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATTTCCG
* *
64327634 AGTAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG-TTTCCG
1 TGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATTTCCG
* * * * *
64327681 TGTAAGATCATAGCTGGGCTATGACTTCGGTGTGTGATATGTGA
1 TGTAAGACCATATCTGGGATATGGCATC-G-GTGTGATATGTGA
64327725 CGATGTGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 27 0.35
48 38 0.49
49 12 0.16
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATTTCCG
Found at i:64333499 original size:68 final size:68
Alignment explanation
Indices: 64333390--64333525 Score: 236
Period size: 68 Copynumber: 2.0 Consensus size: 68
64333380 ATAAAACTTT
* *
64333390 CCCTTGTAAGCTTAGCAGTAAATCCAAGTAGCTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
1 CCCTTGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
64333455 TAG
66 TAG
* *
64333458 CCCTTGTAAGCTTAGCCGTAAAACCAAGTAACTTGTTTGAGTTTTACTTAAAAATGTACTCTAAA
1 CCCTTGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
64333523 TAG
66 TAG
64333526 GCTAAGAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (68 bp):
CCCTTGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
TAG
Found at i:64335488 original size:27 final size:25
Alignment explanation
Indices: 64335437--64335488 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
64335427 AATATTTAAA
*
64335437 AAATGTCTGAATTATTGTATTTTTT
1 AAATGTCTGAATTAATGTATTTTTT
64335462 AAATGTCAATGAATTAAT-TATTGTTTT
1 AAATGTC--TGAATTAATGTATT-TTTT
64335489 TTTTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (25 bp):
AAATGTCTGAATTAATGTATTTTTT
Found at i:64341801 original size:43 final size:44
Alignment explanation
Indices: 64341748--64341832 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
64341738 TTCGGATTCA
* *
64341748 TTTATATATAT-AGTTGAATCAATTTTAATATATGTTTAATATCC
1 TTTATATATATAAG-TGAATCAAATATAATATATGTTTAATATCC
64341792 TTTAT-TATATAAGTGAATCAAATATAATATATGTTTAATAT
1 TTTATATATATAAGTGAATCAAATATAATATATGTTTAATAT
64341833 AAGAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 31 0.82
44 7 0.18
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (44 bp):
TTTATATATATAAGTGAATCAAATATAATATATGTTTAATATCC
Found at i:64348690 original size:34 final size:34
Alignment explanation
Indices: 64348652--64348719 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
64348642 GTATGAGTAT
64348652 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
1 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
64348686 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
1 ATTTAGCTTTTTTAAATGACATAATAATAATTGA
64348720 GATAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (34 bp):
ATTTAGCTTTTTTAAATGACATAATAATAATTGA
Found at i:64372035 original size:29 final size:27
Alignment explanation
Indices: 64372002--64372068 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
64371992 ATACGGTTAT
*
64372002 TAAAATTAAATTAAATTATATTTTTAATA
1 TAAAATTAAATTAAATT-T-TTTATAATA
* *
64372031 TAAAATTAAATTTAATTTTTTATGATA
1 TAAAATTAAATTAAATTTTTTATAATA
*
64372058 TAAAAATAAAT
1 TAAAATTAAAT
64372069 ATTTTATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 17 0.50
28 1 0.03
29 16 0.47
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (27 bp):
TAAAATTAAATTAAATTTTTTATAATA
Found at i:64374858 original size:19 final size:19
Alignment explanation
Indices: 64374834--64374886 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
64374824 GTTTTCCTAC
*
64374834 AAAAATAAAATAAAATAGT
1 AAAAATAAAATAAAATAGG
64374853 AAAAAT-AAATAATAATAGG
1 AAAAATAAAATAA-AATAGG
*
64374872 AAAATTAAAA-AAAAT
1 AAAAATAAAATAAAAT
64374887 TCTTTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 18 0.60
20 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAAATAAAATAAAATAGG
Found at i:64384701 original size:12 final size:12
Alignment explanation
Indices: 64384684--64384711 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
64384674 GTTTTTATTT
64384684 TATAATATAATA
1 TATAATATAATA
64384696 TATAATATAATA
1 TATAATATAATA
64384708 TATA
1 TATA
64384712 TTCTTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATATAATA
Found at i:64385666 original size:45 final size:44
Alignment explanation
Indices: 64385602--64385686 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
64385592 GGTCAATACA
* *
64385602 AAAATATATATTTTTAATTTTAATTTATTTTTTAATTATTTTTACC
1 AAAATATATA-TTTTAAATTTAATTT-TTTATTAATTATTTTTACC
*
64385648 AAAA-ATATATTTTAAATTTAATTTTTTATTATTTATTTT
1 AAAATATATATTTTAAATTTAATTTTTTATTAATTATTTT
64385687 AGATTTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 13 0.36
44 14 0.39
45 5 0.14
46 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (44 bp):
AAAATATATATTTTAAATTTAATTTTTTATTAATTATTTTTACC
Found at i:64392545 original size:42 final size:43
Alignment explanation
Indices: 64392486--64392573 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 43
64392476 TTACACAGTG
64392486 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTG-AGC
1 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
*
64392528 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCGTGATTGAAGC
1 TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
64392571 TCT
1 TCT
64392574 GATCAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 38 0.86
43 6 0.14
ACGTcount: A:0.14, C:0.22, G:0.15, T:0.50
Consensus pattern (43 bp):
TCTTCTTTGTTGCTTCTTACATTTTCTAGTCCATGATTGAAGC
Found at i:64395825 original size:17 final size:18
Alignment explanation
Indices: 64395785--64395829 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
64395775 AAACAAATAT
64395785 TAAATTTAAATGAAATAAA
1 TAAA-TTAAATGAAATAAA
* *
64395804 AAAATTAAAT-AAATAGA
1 TAAATTAAATGAAATAAA
64395821 TAAATTAAA
1 TAAATTAAA
64395830 AATGAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 6 0.26
19 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
TAAATTAAATGAAATAAA
Found at i:64396052 original size:16 final size:18
Alignment explanation
Indices: 64396013--64396054 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
64396003 TAAGTTTATA
64396013 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
64396030 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
64396047 A-ATTTATA
1 ATATTTATA
64396055 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:64400305 original size:13 final size:14
Alignment explanation
Indices: 64400272--64400310 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
64400262 TACCGAACAA
64400272 AATTTTAATATTTT
1 AATTTTAATATTTT
*
64400286 AAATTTAAT-TTTT
1 AATTTTAATATTTT
*
64400299 ATTTTTAATATT
1 AATTTTAATATT
64400311 CAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATTTTAATATTTT
Found at i:64402828 original size:9 final size:9
Alignment explanation
Indices: 64402814--64402842 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
64402804 ATTTAATATT
64402814 ATTATAAAA
1 ATTATAAAA
64402823 ATTATAAAA
1 ATTATAAAA
64402832 ATTATAAAA
1 ATTATAAAA
64402841 AT
1 AT
64402843 ATTTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:64403177 original size:17 final size:17
Alignment explanation
Indices: 64403155--64403193 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
64403145 GTAATAAAAG
64403155 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
64403172 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
64403189 TAAAA
1 TAAAA
64403194 GGTACCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (17 bp):
TAAAACCCTTTGACTTT
Found at i:64407580 original size:22 final size:23
Alignment explanation
Indices: 64407561--64407603 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
64407551 CTTTTTTTAG
*
64407561 GCTTTAATTTGGTAA-CTTTTGT
1 GCTTTAATTTGATAACCTTTTGT
64407583 GCTTTAATTTGATAACCTTTT
1 GCTTTAATTTGATAACCTTTT
64407604 TTTACAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.53
Consensus pattern (23 bp):
GCTTTAATTTGATAACCTTTTGT
Found at i:64408558 original size:128 final size:128
Alignment explanation
Indices: 64408411--64408662 Score: 434
Period size: 128 Copynumber: 2.0 Consensus size: 128
64408401 TCTCACATGG
64408411 GTACTAATTTTTAACTTAACTGTCTTATAAACATGACC-GAAGTTTATTAATCATAAATGAAAAT
1 GTACTAATTTTTAACTTAACTGTCTTATAAACATGACCAG-AGTTTATTAATCATAAATGAAAAT
* * *
64408475 ACAAATATGTATTTGAATTTAGGATTTTAAATAATTATAAAATGATATTTTAGATAGAATATGA
65 ACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAATATGA
* * *
64408539 GTACTAATTTTTAACTTAACTGTCTTATAAGCATGACCAGAGTTTATTAATCATAAATGAAACTG
1 GTACTAATTTTTAACTTAACTGTCTTATAAACATGACCAGAGTTTATTAATCATAAATGAAAATA
64408604 CAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
66 CAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
64408663 TTTGTTACTT
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
128 116 0.99
129 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (128 bp):
GTACTAATTTTTAACTTAACTGTCTTATAAACATGACCAGAGTTTATTAATCATAAATGAAAATA
CAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAATATGA
Found at i:64417857 original size:25 final size:25
Alignment explanation
Indices: 64417829--64417909 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
64417819 AGTGCTCTCT
*
64417829 TGAGCCATATAATGGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATG
* * *
64417854 TGAGCCATATAACAGGAAGCTTATA
1 TGAGCCATATAATAGGAAGCTCATG
* *
64417879 AGAGCCATA-ATTAGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATG
*
64417903 CGAGCCA
1 TGAGCCA
64417910 ATAGTTGGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
24 17 0.37
25 29 0.63
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
TGAGCCATATAATAGGAAGCTCATG
Found at i:64418035 original size:26 final size:25
Alignment explanation
Indices: 64417988--64418057 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
64417978 AGTCATATCG
**
64417988 GGAAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCCAAAGAGCCATTAATCA
* *
64418013 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CAAAGAGCCATTAATCA
*
64418039 GGAAGCTCCGAAGAGCCAT
1 GGAAGCTCCAAAGAGCCAT
64418058 ATATCGGGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (25 bp):
GGAAGCTCCAAAGAGCCATTAATCA
Done.