Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold104
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: 327367
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 3
Found at i:6737 original size:90 final size:91
Alignment explanation
Indices: 6478--6740 Score: 316
Period size: 92 Copynumber: 2.9 Consensus size: 91
6468 ATATTAAGGA
* * * * *
6478 ACAAAGATAAAATTTGAGTTTTTTATGAAGAACGAGGTTAGAGTATCCCCTTGGAGTAGTGGAGT
1 ACAAAGAGAAAATTTAAGTTTTTTATGAAGAACGAGGTTGGAGTATCCCCTTAGAGTAATGGAGT
* *
6543 TGGAGTTTTCCCAAAAATAAAATTAT
66 TGGAGTTTCCCCAAAGATAAAATTAT
** * * * *
6569 ATGAAGAGAAAATTTAAGTTTTTTTATGAAGAACAAGGTTGGAGTATCCCCTCAAAATAATGGAG
1 ACAAAGAGAAAATTTAAG-TTTTTTATGAAGAACGAGGTTGGAGTATCCCCTTAGAGTAATGGAG
6634 TTGGAGTTTCCCCAAAGATAAAATTAT
65 TTGGAGTTTCCCCAAAGATAAAATTAT
* * *
6661 ACAAAGA-AAAATTTAAGTTCTTTT-TGAAGAACG-GAGTTGGAATATCTCCTTAGAGTAATGGG
1 ACAAAGAGAAAATTTAAGTT-TTTTATGAAGAACGAG-GTTGGAGTATCCCCTTAGAGTAATGGA
* *
6723 GTTGGAATTACCCCAAAG
64 GTTGGAGTTTCCCCAAAG
6741 TCTGAAAATT
Statistics
Matches: 145, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
89 1 0.01
90 47 0.32
91 28 0.19
92 69 0.48
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (91 bp):
ACAAAGAGAAAATTTAAGTTTTTTATGAAGAACGAGGTTGGAGTATCCCCTTAGAGTAATGGAGT
TGGAGTTTCCCCAAAGATAAAATTAT
Found at i:10510 original size:52 final size:52
Alignment explanation
Indices: 10432--10559 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
10422 CGAAATATGA
*
10432 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
10484 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
10536 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
10560 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:10586 original size:13 final size:13
Alignment explanation
Indices: 10568--10592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10558 CAAAGATCAG
10568 TGTATCGATACAA
1 TGTATCGATACAA
10581 TGTATCGATACA
1 TGTATCGATACA
10593 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10671 original size:20 final size:20
Alignment explanation
Indices: 10642--10699 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
10632 GCAGTAGCTT
10642 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
10661 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
10681 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
10700 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:15431 original size:171 final size:171
Alignment explanation
Indices: 15236--15563 Score: 595
Period size: 171 Copynumber: 1.9 Consensus size: 171
15226 TTTTAGAGAT
* *
15236 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATACTGGACTTAAAGATGA-AGATGAGAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATACTGGACTTAAAAATGATA-ATGAGAAA
15300 AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGG
65 AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGG
15365 ATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
130 ATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
15407 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATAATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATACTGGACTTAAAAATGATAATGAGAAAA
*
15472 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
15537 TGTCAACGTGCTGATTCAAGGCCAGCT
131 TGTCAACGTGCTGATTCAAGGCCAGCT
15564 TAAAGATGGA
Statistics
Matches: 151, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
171 150 0.99
172 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATACTGGACTTAAAAATGATAATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:15453 original size:49 final size:49
Alignment explanation
Indices: 15307--15460 Score: 146
Period size: 49 Copynumber: 3.0 Consensus size: 49
15297 AAAAGTGATA
* * * * *
15307 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
15358 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
15411 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
15460 A
1 A
15461 TAATGAGAAA
Statistics
Matches: 81, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
49 41 0.51
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.43
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:15639 original size:43 final size:43
Alignment explanation
Indices: 15544--15937 Score: 404
Period size: 43 Copynumber: 8.8 Consensus size: 43
15534 GGATGTCAAC
* * *
15544 GTGCTGATTCAAGGCCAGCTTAAAGATGGA---AAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGC-TACA-TTGGACTTAAAGGTGCCAAT
* *
15586 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAAT
15629 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAAT
* *
15678 GTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAAT
15721 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAAT
* * * *
15770 ATGCTGATTCAAGGCCAGCTTAAAGATGGA---AAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGC-TACA-TTGGACTTAAAGGTGCCAAT
* *
15812 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAAT
15855 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G--G-TGCCAAT
* * *
15904 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
15938 AATGATGATG
Statistics
Matches: 304, Mismatches: 22, Indels: 47
0.82 0.06 0.13
Matches are distributed among these distances:
40 8 0.03
41 6 0.02
42 48 0.16
43 118 0.39
44 4 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 4 0.01
49 106 0.35
50 3 0.01
51 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAAT
Found at i:15693 original size:92 final size:92
Alignment explanation
Indices: 15578--15937 Score: 468
Period size: 92 Copynumber: 3.9 Consensus size: 92
15568 GATGGAAAAT
* *
15578 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
15643 CCAGCTACATTGGACTTAAAGATAAAG
66 CCAGCTACATTGGACTTAAAGATAAAG
* * * *
15670 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
15735 CCAGCTACATTGGACTTAAAGATAAAG
66 CCAGCTACATTGGACTTAAAGATAAAG
* * *
15762 GTGCCAATATGCTGATTCAAGGCCAGCTTAAAGATGGA---AAATGTGCCAATATGCTGATTCAA
1 GTGCCAATATGCTGATTCAAGGCCAGC-TACA-TTGGACTTAAAGGTGCCAATATGCTGATTCAA
*
15824 GGCCAGCTATATTGGAC-T-----TAAAG
64 GGCCAGCTACATTGGACTTAAAGATAAAG
*
15847 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G--G-TGCCAATATGCTGAT
* *
15912 TCAAGGCCAGCGATATTGGACTTAAA
60 TCAAGGCCAGCTACATTGGACTTAAA
15938 AATGATGATG
Statistics
Matches: 236, Mismatches: 17, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
83 4 0.02
84 3 0.01
85 31 0.13
87 2 0.01
88 1 0.00
90 1 0.00
91 39 0.17
92 148 0.63
93 4 0.02
94 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (92 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
CCAGCTACATTGGACTTAAAGATAAAG
Found at i:15851 original size:134 final size:134
Alignment explanation
Indices: 15670--15922 Score: 452
Period size: 134 Copynumber: 1.9 Consensus size: 134
15660 AAAGATAAAG
*
15670 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGG
*
15735 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTTAAAGATGGA
66 CCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTTAAAGATGGA
15800 AAAT
131 AAAT
* * *
15804 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGG
*
15869 CCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGC
66 CCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGC
15923 GATATTGGAC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 113 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (134 bp):
GTGCCAATATGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGG
CCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTTAAAGATGGA
AAAT
Found at i:16059 original size:55 final size:52
Alignment explanation
Indices: 15999--16103 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
15989 CGATATTGGG
* *
15999 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * *
16054 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTG
16104 GGCTTAGAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 29 0.64
53 5 0.11
54 1 0.02
55 10 0.22
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:16093 original size:52 final size:55
Alignment explanation
Indices: 15962--16103 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 55
15952 GAGTGATAAA
* * * * **
15962 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
* ** * *
16017 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
16070 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
16104 GGCTTAGAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 29 0.40
53 5 0.07
54 1 0.01
55 37 0.51
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
Found at i:16227 original size:35 final size:35
Alignment explanation
Indices: 16176--16792 Score: 806
Period size: 35 Copynumber: 17.9 Consensus size: 35
16166 GGGCTTTGGG
*
16176 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
16210 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
16246 AA-GAAAAA-AGTGCCACGGAGTTGTGGG-TTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
16278 AAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
16312 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
16345 AAGG-AAAAGAGTGCCACAGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
16380 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
16416 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
16451 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
16487 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
16522 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
16555 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
16590 AA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
16624 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
16660 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
16695 GATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
16730 AA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
16762 AAGG-AAAAG-GTGCCACGAAGTTGTGGGCTTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
16793 GAAGAAAAAA
Statistics
Matches: 529, Mismatches: 31, Indels: 48
0.87 0.05 0.08
Matches are distributed among these distances:
32 34 0.06
33 124 0.23
34 128 0.24
35 136 0.26
36 36 0.07
37 71 0.13
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:16252 original size:34 final size:34
Alignment explanation
Indices: 16181--16823 Score: 787
Period size: 34 Copynumber: 18.9 Consensus size: 34
16171 TTGGGAAGGA
*
16181 AAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
16215 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
16249 AAAAA-AGTGCCACGGAGTTGTGGG-TTTAGAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAAG
* * *
16282 AAAAATAGTGCCACAGAGTTGTGGGC-TTAGAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
16315 GAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
16348 GAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--G
*
16385 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
16420 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--G
*
16456 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* *
16491 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
16525 AAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* *
16559 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
16593 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--G
16629 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* * *
16664 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAA-AAG
16699 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
16733 AAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
16765 GAAAAG-GTGCCACGAAGTTGTGGGCTTT-GAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
16797 AAAAA-A-TGCCACTGAGTCGTGGACTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
16824 GAGAAGAGAT
Statistics
Matches: 545, Mismatches: 41, Indels: 49
0.86 0.06 0.08
Matches are distributed among these distances:
31 17 0.03
32 40 0.07
33 123 0.23
34 147 0.27
35 114 0.21
36 20 0.04
37 84 0.15
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
Found at i:25135 original size:52 final size:52
Alignment explanation
Indices: 25057--25184 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
25047 CGAAATATGA
*
25057 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
25109 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
25161 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
25185 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:25211 original size:13 final size:13
Alignment explanation
Indices: 25193--25217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25183 CAAAGATCAG
25193 TGTATCGATACAA
1 TGTATCGATACAA
25206 TGTATCGATACA
1 TGTATCGATACA
25218 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25297 original size:20 final size:20
Alignment explanation
Indices: 25268--25325 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
25258 GCAGTAGCTT
25268 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
25287 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
25307 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
25326 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:31051 original size:115 final size:114
Alignment explanation
Indices: 30909--31132 Score: 299
Period size: 115 Copynumber: 2.0 Consensus size: 114
30899 TACTTTCTAG
* * *
30909 ACTTGTATCGATACACAAGCTTGTGTATCAATACATTTTGCTGAAAATTC-CAACCATAGCTATT
1 ACTTGTATCAATACACAAGCTTGTGTATCAATACATTCTGCTG-AAAGTCACAACCATAGCTATT
*
30973 GCCAAGGCCATGTATCGATACAATCATAAT-AGGTATCAATACATCTCATGA
65 GCCAAGGCC-TGTATCGATACAACCATAATGA-GTATCAATACATCTCATGA
* * ** *
31024 ACTTGTATCAATACACAAGCTTGTGTATCGATATATTCTGCTGAAAGTCACAACTGTAGGTATTG
1 ACTTGTATCAATACACAAGCTTGTGTATCAATACATTCTGCTGAAAGTCACAACCATAGCTATTG
* * *
31089 CCAAGGTCTGTATCGATACAACCATGATGAGTATCGATACATCT
66 CCAAGGCCTGTATCGATACAACCATAATGAGTATCAATACATCT
31133 TGTAAAAATT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
114 36 0.38
115 59 0.62
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (114 bp):
ACTTGTATCAATACACAAGCTTGTGTATCAATACATTCTGCTGAAAGTCACAACCATAGCTATTG
CCAAGGCCTGTATCGATACAACCATAATGAGTATCAATACATCTCATGA
Found at i:37373 original size:20 final size:20
Alignment explanation
Indices: 37350--37389 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
37340 TACACATATA
*
37350 TTTTTAATTTTTAATTTAAC
1 TTTTTAATTTTTAAATTAAC
37370 TTTTTAATTTTTAAATTAAC
1 TTTTTAATTTTTAAATTAAC
37390 CTTCACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTTAAATTAAC
Found at i:37462 original size:28 final size:27
Alignment explanation
Indices: 37426--37478 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
37416 TTCTATAAAA
**
37426 TTTTCAATTAAATCTTTCACATTTGAAT
1 TTTTCAATTAAAAATTT-ACATTTGAAT
*
37454 TTTTGAATTAAAAATTTACATTTGA
1 TTTTCAATTAAAAATTTACATTTGA
37479 GTATAGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (27 bp):
TTTTCAATTAAAAATTTACATTTGAAT
Found at i:38019 original size:16 final size:17
Alignment explanation
Indices: 37998--38035 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
37988 TTATTGATAC
*
37998 AAAATAAGTAGAT-ATT
1 AAAATAAATAGATAATT
*
38014 AAAATAAATTGATAATT
1 AAAATAAATAGATAATT
38031 AAAAT
1 AAAAT
38036 TTTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
AAAATAAATAGATAATT
Found at i:38181 original size:15 final size:15
Alignment explanation
Indices: 38149--38229 Score: 72
Period size: 15 Copynumber: 5.3 Consensus size: 15
38139 GGGTTTCAAG
* *
38149 TTTTTTTCATCTTGAA
1 TTTTTTTAAT-TTAAA
38165 TTTTTTTAATTTAAA
1 TTTTTTTAATTTAAA
**
38180 TTTTTAGAATTTAAAA
1 TTTTTTTAATTT-AAA
* * *
38196 TATTTTAAATTCAAA
1 TTTTTTTAATTTAAA
*
38211 TTATTTTAATTTAAA
1 TTTTTTTAATTTAAA
38226 TTTT
1 TTTT
38230 ATCAAATTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
15 31 0.61
16 20 0.39
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTTTTTAATTTAAA
Found at i:38212 original size:31 final size:31
Alignment explanation
Indices: 38167--38225 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
38157 ATCTTGAATT
* *
38167 TTTTTAATTTAAATT-TTTAGAATTTAAAATA
1 TTTTAAATTCAAATTATTT-GAATTTAAAATA
*
38198 TTTTAAATTCAAATTATTTTAATTTAAA
1 TTTTAAATTCAAATTATTTGAATTTAAA
38226 TTTTATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTTAAATTCAAATTATTTGAATTTAAAATA
Found at i:38306 original size:16 final size:17
Alignment explanation
Indices: 38285--38318 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38275 ATTATTTAAA
38285 TTATTT-AAATTAATTT
1 TTATTTCAAATTAATTT
*
38301 TTATTTCAAATTCATTT
1 TTATTTCAAATTAATTT
38318 T
1 T
38319 GTAACTTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTCAAATTAATTT
Found at i:44027 original size:2 final size:2
Alignment explanation
Indices: 44016--44062 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
44006 AACAATAATC
* *
44016 TA TA -A TA TA TA TA TA TA CA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44057 TA TA TA
1 TA TA TA
44063 AATAAGAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:49558 original size:39 final size:39
Alignment explanation
Indices: 49397--49591 Score: 105
Period size: 38 Copynumber: 5.1 Consensus size: 39
49387 CACTAAAGGT
* * * * * *
49397 TCAGTTTTGAAATGAAATTACAAAACTAATCCTAAAGGC
1 TCAGTTTTGATATAAAAGTGCAAAACTAATCTTAAAAGC
** * * *
49436 TCA-TTTTGCCATAAAAGTGCTAAAA-T-GTCCTAAAGGC
1 TCAGTTTTGATATAAAAGTGC-AAAACTAATCTTAAAAGC
* ** * * * *
49473 TCAGTTTTGACACGATAGTGC-AAATTAAT-TTTAAAGG
1 TCAGTTTTGATATAAAAGTGCAAAACTAATCTTAAAAGC
* * * **
49510 TCCAATTTTGATGTAAAATTATTAAAA-TAATCTTAAAAGC
1 T-CAGTTTTGATATAAAAGT-GCAAAACTAATCTTAAAAGC
*
49550 TCAGTTTTGATATGAAAGTGCAAAACTAATCTTAAAAGC
1 TCAGTTTTGATATAAAAGTGCAAAACTAATCTTAAAAGC
49589 TCA
1 TCA
49592 ATTTGGATTT
Statistics
Matches: 115, Mismatches: 32, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
36 3 0.03
37 19 0.17
38 42 0.37
39 41 0.36
40 10 0.09
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (39 bp):
TCAGTTTTGATATAAAAGTGCAAAACTAATCTTAAAAGC
Found at i:51522 original size:22 final size:20
Alignment explanation
Indices: 51471--51524 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
51461 ATTCAAGGGG
* *
51471 ATCAATTTTAATATTTAAAG
1 ATCAATTTTAAAATTTAAAA
*
51491 ATGAATTTTTAAAATTTTAAATA
1 ATCAA-TTTTAAAA-TTTAAA-A
51514 ATCAATTTTAA
1 ATCAATTTTAA
51525 TAGGTATCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 7 0.26
22 12 0.44
23 4 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (20 bp):
ATCAATTTTAAAATTTAAAA
Found at i:51992 original size:29 final size:29
Alignment explanation
Indices: 51944--51999 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
51934 TTTCAAAATT
*
51944 TATTTTATTAGTTAAAATAATATTAAAAA
1 TATTTTATTAGTTAAAATAAAATTAAAAA
51973 TATTTTA-TA-TTAATATATAAAATTAAA
1 TATTTTATTAGTTAA-A-ATAAAATTAAA
52000 TTTATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 3 0.12
29 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TATTTTATTAGTTAAAATAAAATTAAAAA
Found at i:53188 original size:17 final size:17
Alignment explanation
Indices: 53163--53197 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
53153 TTTTAAAATT
* *
53163 TTAAGATAAAAAATTAA
1 TTAAAATAAAAAAATAA
53180 TTAAAATAAAAAAATAA
1 TTAAAATAAAAAAATAA
53197 T
1 T
53198 ATTTTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAATAAAAAAATAA
Found at i:53796 original size:16 final size:16
Alignment explanation
Indices: 53786--53818 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53776 TCAAAATGAT
53786 TTAAACCCAAAATAAC
1 TTAAACCCAAAATAAC
*
53802 TTAAACTCAAAATAAC
1 TTAAACCCAAAATAAC
53818 T
1 T
53819 AGAAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
TTAAACCCAAAATAAC
Found at i:54397 original size:18 final size:19
Alignment explanation
Indices: 54362--54406 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
54352 ATAGTAAATT
54362 TTTTTTATATTTTCTTAAA
1 TTTTTTATATTTTCTTAAA
54381 TTTTTTAT-TTCTT-TTAAA
1 TTTTTTATATT-TTCTTAAA
*
54399 CTTTTTAT
1 TTTTTTAT
54407 GAAAAATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTATATTTTCTTAAA
Found at i:54848 original size:17 final size:17
Alignment explanation
Indices: 54828--54861 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
54818 AGTTAAATAC
54828 ATATTTTTATTAACTAT
1 ATATTTTTATTAACTAT
54845 ATATTTTTATTAACTAT
1 ATATTTTTATTAACTAT
54862 TTACTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTTTATTAACTAT
Found at i:54905 original size:20 final size:22
Alignment explanation
Indices: 54877--54916 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
54867 ATGTTTAAAA
54877 TTTATTAAACA-TTAAAATTAT
1 TTTATTAAACATTTAAAATTAT
*
54898 TTTA-TAAATATTTAAAATT
1 TTTATTAAACATTTAAAATT
54917 TTATTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATTAAACATTTAAAATTAT
Found at i:56490 original size:21 final size:21
Alignment explanation
Indices: 56451--56490 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56441 ATCTAATTTT
* *
56451 AAAAATTTATTCTTATATTAA
1 AAAAATTGATTATTATATTAA
*
56472 AAAAATTGATTATTTTATT
1 AAAAATTGATTATTATATT
56491 CTTTTGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
AAAAATTGATTATTATATTAA
Found at i:58707 original size:2 final size:2
Alignment explanation
Indices: 58700--58731 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
58690 CACTTCACTC
58700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58732 TATCTCATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59610 original size:2 final size:2
Alignment explanation
Indices: 59603--59668 Score: 89
Period size: 2 Copynumber: 33.0 Consensus size: 2
59593 AATTGTAGAT
* **
59603 TA TA TA TA TA TA TA TA TA TA TA AA GC T- TA TCA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
59645 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
59669 AAACTAAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 55 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:64050 original size:13 final size:13
Alignment explanation
Indices: 64032--64064 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
64022 CCCCCCAAAG
64032 TCAGCCAATTCCT
1 TCAGCCAATTCCT
64045 TCAGCCAATTCCT
1 TCAGCCAATTCCT
64058 TCGAGCC
1 TC-AGCC
64065 CTTTGGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.21, C:0.39, G:0.12, T:0.27
Consensus pattern (13 bp):
TCAGCCAATTCCT
Found at i:71048 original size:3 final size:3
Alignment explanation
Indices: 71040--71107 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
71030 TTGAAGTCAA
*
71040 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
71088 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
71108 ATGAGGATAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:73890 original size:85 final size:83
Alignment explanation
Indices: 73715--73949 Score: 230
Period size: 85 Copynumber: 2.8 Consensus size: 83
73705 CTTCAACCCA
* *
73715 ATTTTTATTACAAAAGAAAAATCTTGAATTTACATT-GTAGGGGATACTCCAACCTTATCTCTCC
1 ATTTTT-TTACAAAAGAAAAATTTTGAATTTACATTCTTA-GGGATACTCCAACCTTATCTCTCC
* * * **
73779 AAAAGAGACTCCAATTTTGTT
64 AAAAGAAAATCCAA-TATCCT
* * *
73800 TTTTTTCTTACAAAAGAAAAATTTTGAATTTACATTCTTAGGGATACTCCAACTTTATCTTTCCA
1 ATTTTT-TTACAAAAGAAAAATTTTGAATTTACATTCTTAGGGATACTCCAACCTTATCTCTCCA
73865 AAAGAAAATACTCAA-ATCCT
65 AAAGAAAAT-C-CAATATCCT
* ** *
73885 ATTTTTTGT--ATAA-AAAAATTTTGAATTTATGTTCTTAGGGATACTCCAAACC-CATCTCTCC
1 ATTTTTT-TACAAAAGAAAAATTTTGAATTTACATTCTTAGGGATACTCC-AACCTTATCTCTCC
73946 AAAA
64 AAAA
73950 AGGATACTCT
Statistics
Matches: 127, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
82 43 0.34
83 6 0.05
84 1 0.01
85 71 0.56
86 3 0.02
87 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.37
Consensus pattern (83 bp):
ATTTTTTTACAAAAGAAAAATTTTGAATTTACATTCTTAGGGATACTCCAACCTTATCTCTCCAA
AAGAAAATCCAATATCCT
Found at i:81705 original size:14 final size:15
Alignment explanation
Indices: 81681--81713 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
81671 AAAGCACAAA
*
81681 AAAATGAAAAAAAAG
1 AAAATGAAAAAAAAC
81696 AAAA-GAAAAAAAAC
1 AAAATGAAAAAAAAC
81710 AAAA
1 AAAA
81714 AAAGTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAATGAAAAAAAAC
Found at i:83064 original size:27 final size:27
Alignment explanation
Indices: 83004--83064 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
82994 GGCACCTTTT
83004 CTTTTTTAAGTCCACAACTCCGTGGCA
1 CTTTTTTAAGTCCACAACTCCGTGGCA
**
83031 CCATTTTAAGTCCACAACTCCGTGGCA
1 CTTTTTTAAGTCCACAACTCCGTGGCA
83058 CTTTTTT
1 CTTTTTT
83065 CTTTTTAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (27 bp):
CTTTTTTAAGTCCACAACTCCGTGGCA
Found at i:83071 original size:60 final size:62
Alignment explanation
Indices: 82977--83152 Score: 205
Period size: 60 Copynumber: 2.8 Consensus size: 62
82967 CTTTTTCTTC
* *
82977 AAAGTCCACAACTCCGTGGCACCTTTTCTTTTTTAAGTCCACAACTCCGTGGCA-CC-ATTTT
1 AAAGTCCACAACTCCGTGGCACTTTTTC-TTTTTAAGTCCACAACTCCATGGCATCCTATTTT
* * *
83038 -AAGTCCACAACTCCGTGGCACTTTTTTCTTTTTAAGTTCACAACTTCATGGCATCCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCAC-TTTTTCTTTTTAAGTCCACAACTCCATGGCATCC----TATT
83102 TT
61 TT
* *
83104 AAAGTCTACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCA
1 AAAGTCCACAACTCCGTGGCA-CTTTTTCTTTTTAAGTCCACAACTCCA
83153 CAACACCCTT
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
60 43 0.44
61 7 0.07
66 4 0.04
67 42 0.43
68 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.36
Consensus pattern (62 bp):
AAAGTCCACAACTCCGTGGCACTTTTTCTTTTTAAGTCCACAACTCCATGGCATCCTATTTT
Found at i:83103 original size:34 final size:33
Alignment explanation
Indices: 82978--83878 Score: 443
Period size: 34 Copynumber: 27.8 Consensus size: 33
82968 TTTTTCTTCA
82978 AAGTCCACAACTCCGTGGCACC-TTTTCTTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTTT
*
83011 AAGTCCACAACTCCGTGGCA-C-----CATTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
*
83038 AAGTCCACAACTCCGTGGCACTTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
83071 AAGTTCACAACTTCATGGCATCCTTTTTCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* *
83105 AAGTCTACAACTCCGTGGCACCTTTTTCTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
****
83138 AAGTCCACAACTCCACAACACCCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
*
83172 AAGTCCACAACTCCATGGCACC-----C-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* ** * *
83199 AAGTCCACAATTTTGTGGTACCTTTTTCTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
83232 AAGTCCATAACTCCGTGACACCCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* * * *
83266 AAGTCCACAACTTCATAGCACATTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
*
83300 AAGTCCATAACTCCGTGGCA-C-----CTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
** ** *
83327 AAGTCCACAACTTTGTGGCAATTTTTTCTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
83360 AAATCCATAACTTCAG-GGAACCTTTTCTGTGGCACCCTTTTT
1 AAGTCCACAAC-TCCGTGGCACC-TTT-T-T------CTTTTT
** ** * ** * *** *
83402 -CTTTAAGTCCACAAC-T-CCATGGCACCTTTTTTTTTT
1 AAGTCCA--CAACTCCGTGGCA---CCTTTTT-CTTTTT
* *
83438 AAGTCCACAACTCTGTGGTA-C----TC-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
83465 AAGTTCACAACTGCGTGGCACCTTTTTATTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
83498 AAGTCCATAACTCCATGGCATCTTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* ** *
83532 AAGTCCATAACTTTGTGGCACCCTTTTTCTTTGT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
** *
83566 AAGTCCACAACTTTGTGACACC-----C-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
** * *
83593 AAGTCCACAACTCTATGGCACATTTTTC-TTTG
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
83625 AAGTCTACAACTCCGTAGCACCTTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTTCTTTTT
* * *
83659 AAGTCCATAACTCCGTAGCACCTTTTTCTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
83692 AACTCTATAACTCCGTGGCACCTTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTTCTTTTT
* *
83726 AAGTTCACAACTCCGTAGCACTCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* * * *
83760 TAGTCCATAACTTCATGGCA-C-----C-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
83786 AAGTTCACAACTTCGTGGCACCCTTTTTC--TTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* * * *
83818 AAGTCTATAACTCTGTGACACTCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
83852 AAGTCCACAACTTCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
83879 AAGTCCATAA
Statistics
Matches: 648, Mismatches: 153, Indels: 134
0.69 0.16 0.14
Matches are distributed among these distances:
26 20 0.03
27 110 0.17
28 5 0.01
29 1 0.00
31 1 0.00
32 49 0.08
33 169 0.26
34 264 0.41
35 5 0.01
36 7 0.01
37 3 0.00
41 4 0.01
42 6 0.01
43 3 0.00
44 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:83228 original size:60 final size:60
Alignment explanation
Indices: 83067--83371 Score: 223
Period size: 67 Copynumber: 4.8 Consensus size: 60
83057 ACTTTTTTCT
* ** * * *
83067 TTTTAAGTTCACAACTTCATGGCATCCTTTTTCTTTTAAAGTCTACAACTCCGTGGCACCTTTTT
1 TTTTAAGTCCACAACTTTGTGGCA-CCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACC-----
83132 C
60 C
****** * *
83133 TTTTAAAGTCCACAACTCCACAACACCCTTTTTCTTTTTAAGTCCACAACTCCATGGCACCC
1 TTTT-AAGTCCACAACTTTGTGGCA-CCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCC
* * * *
83195 TTTTAAGTCCACAATTTTGTGGTACCTTTTTCTTTTAAAGTCCATAACTCCGTGACACCCTTTTT
1 TTTTAAGTCCACAACTTTGTGGCACCTTTTTCTTTTTAAGTCCATAACTCCGTGGCA-CC-----
83260 C
60 C
** * * *
83261 TTTTTAAGTCCACAACTTCATAGCACATTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCT
1 -TTTTAAGTCCACAACTTTGTGGCAC-CTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCC
** * *
83323 TTTTAAGTCCACAACTTTGTGGCAATTTTTTCTTTTAAAATCCATAACT
1 TTTTAAGTCCACAACTTTGTGGCACCTTTTTCTTTTTAAGTCCATAACT
83372 TCAGGGAACC
Statistics
Matches: 194, Mismatches: 36, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
60 51 0.26
61 35 0.18
62 5 0.03
66 5 0.03
67 69 0.36
68 29 0.15
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.40
Consensus pattern (60 bp):
TTTTAAGTCCACAACTTTGTGGCACCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCC
Found at i:83253 original size:94 final size:96
Alignment explanation
Indices: 82978--83939 Score: 331
Period size: 94 Copynumber: 9.9 Consensus size: 96
82968 TTTTTCTTCA
* * * *
82978 AAGTCCACAACTCCGTGGCACCTTTTCTTTTTTAAGTCCACAACTCCGTGGCACC-----ATTTT
1 AAGTCCACAACTTCATGGCACC---TC-TTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
83038 -AAGTCCACAACTCCGTGGCA-CTTTTTTCTTTTT
62 AAAGTCCACAACTCCGTGACACCCTTTTTCTTTTT
* *
83071 AAGTTCACAACTTCATGGCATCCTTTTTCTTTTAAAGTCTACAACTCCGTGGCACCTTTTTCTTT
1 AAGTCCACAACTTCATGGCA-CC----TCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
***
83136 TAAAGTCCACAACTCCACAACACCCTTTTTCTTTTT
61 TAAAGTCCACAACTCCGTGACACCCTTTTTCTTTTT
* * ** *
83172 AAGTCCACAACTCCATGGCACC-CTTTT-AAGTCCACAATTTTGTGGTACCTTTTTCTTTTAAAG
1 AAGTCCACAACTTCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
*
83235 TCCATAACTCCGTGACACCCTTTTTCTTTTT
66 TCCACAACTCCGTGACACCCTTTTTCTTTTT
* * * *
83266 AAGTCCACAACTTCATAGCACATTTTTTCTTTTTAAGTCCATAACTCCGTGGCACC----T-TTT
1 AAGTCCACAACTTCATGGCAC-----CTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
** * ** *
83326 T-AAGTCCACAACTTTGTGGCA-ATTTTTTCTTTTA
61 TAAAGTCCACAACTCCGTGACACCCTTTTTCTTTTT
* * * * ** * * *** ** *
83360 AAATCCATAACTTCAGGGAACCT-TTTCT-GTGGCACCCTTTTTCTTTAAGTCCACAACTCCATG
1 AAGTCCACAACTTCATGGCACCTCTTT-TAAAGTC-CAC-AACTCCGT--G-GCAC--CT---T-
*** * **** * * * *
83423 GCACCTTTT---TTTTTTAAGTCC---ACAACTCTGTGGTACTCTTTT
54 -TTTCTTTTAAAGTCCACAACTCCGTGAC-ACCCT-T-TTTCT-TTTT
* * * * * * *
83465 AAGTTCACAACTGCGTGGCACCTTTTTATTTTAAAGTCCATAACTCCATGGCATCTTTTTTCTTT
1 AAGTCCACAACTTCATGGCACC----TCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTCTTT
* * ** * *
83530 TTAAGTCCATAACTTTGTGGCACCCTTTTTCTTTGT
61 TAAAGTCCACAACTCCGTGACACCCTTTTTCTTTTT
** * ** * *
83566 AAGTCCACAACTTTGTGACACC-CTTTT-AAGTCCACAACTCTATGGCACATTTTTC-TTTGAAG
1 AAGTCCACAACTTCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
* *
83628 TCTACAACTCCGT-AGCACCTTTTTTCTTTTT
66 TCCACAACTCCGTGA-CACCCTTTTTCTTTTT
* * * * * * *
83659 AAGTCCATAACTCCGTAGCACCTTTTTCTTTTAAACTCTATAACTCCGTGGCACCTTTTTTCTTT
1 AAGTCCACAACTTCATGGCACC----TCTTTTAAAGTCCACAACTCCGTGGCACC-TTTTTCTTT
* * *
83724 TTAAGTTCACAACTCCGT-AGCACTCTTTTTCTTTTT
61 TAAAGTCCACAACTCCGTGA-CACCCTTTTTCTTTTT
* * * *
83760 TAGTCCATAACTTCATGGCA-C-CTTTT-AAGTTCACAACTTCGTGGCACCCTTTTTC-TTT-AA
1 AAGTCCACAACTTCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTAAA
* * * *
83820 GTCTATAACTCTGTGACACTCTTTTTCTTTTT
65 GTCCACAACTCCGTGACACCCTTTTTCTTTTT
* * * * * * *
83852 AAGTCCACAACTTCGTGGCACC-CTTTT-AAGTCCATAACTCCATGACACATCTTCCTTTTAAAG
1 AAGTCCACAACTTCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
* ** * *
83915 TTCATGACTCTGTGATACCCTTTTT
66 TCCACAACTCCGTGACACCCTTTTT
83940 AAAGTTCACA
Statistics
Matches: 639, Mismatches: 164, Indels: 131
0.68 0.18 0.14
Matches are distributed among these distances:
88 5 0.01
89 3 0.00
90 3 0.00
92 51 0.08
93 94 0.15
94 181 0.28
95 52 0.08
96 8 0.01
97 1 0.00
98 5 0.01
99 25 0.04
100 31 0.05
101 119 0.19
102 9 0.01
103 6 0.01
104 8 0.01
105 25 0.04
106 2 0.00
108 3 0.00
109 3 0.00
110 5 0.01
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (96 bp):
AAGTCCACAACTTCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
TCCACAACTCCGTGACACCCTTTTTCTTTTT
Found at i:83293 original size:128 final size:127
Alignment explanation
Indices: 82967--83718 Score: 641
Period size: 128 Copynumber: 5.8 Consensus size: 127
82957 TCCTTTAAAT
* * * *
82967 CTTTTTC-TTCAAAGTCCACAACTCCGTGGCA-CC-TTTTCTTTTTTAAGTCCACAACTCCGTGG
1 CTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTTC-TTTTTAAGTCCACAACTCCATAG
* * * **
83029 CA-C-----CATTTTAAGTCCACAACTCCGTGGCACTTTTTTCTTTTTAAGTTCACAACTTCATG
65 CACCTTTTTCTTTTTAAGTCCACAACTCCGTGGCAC------CCTTTTAAGTCCACAACTTTGTG
83088 GCATC
124 GCA-C
* * * * *
83093 CTTTTTCTTTTAAAGTCTACAACTCCGTGGCA-CCTTTTTCTTTTAAAGTCCACAACTCCACAAC
1 CTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCATAGC
* * *
83157 ACCCTTTTTCTTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAATTTTGTGGTAC
66 A-CCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCAC
* *
83220 CTTTTTCTTTTAAAGTCCATAACTCCGTGACACCCTTTTTCTTTTTAAGTCCACAACTTCATAGC
1 CTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCATAGC
* * * *
83285 ACATTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTTTGTGGCAA
66 AC-CTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCAC
* *
83348 TTTTTTCTTTTAAAATCCATAACTTCAGGGAACCTTTTCTGTGGCACCCTTTTTC--TTTAAGTC
1 CTTTTTCTTTTAAAGTCCATAAC-T--------C----C-GTGGCACCCTTTTTCTTTTTAAGTC
* * * * *
83411 CACAACTCCATGGCACCTTTTT-TTTTTAAGTCCACAACTCTGTGGTACTCTTTTAAGTTCACAA
52 CACAACTCCATAGCACCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
**
83475 CTGCGTGGCAC
117 CTTTGTGGCAC
* * * * * *** *
83486 CTTTTTATTTTAAAGTCCATAACTCCATGGCATCTTTTTTCTTTTTAAGTCCATAACTTTGTGGC
1 CTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCATAGC
* ** * * *
83551 ACCCTTTTTCTTTGTAAGTCCACAACTTTGTGACACCCTTTTAAGTCCACAACTCTATGGCAC
66 A-CCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCAC
* * * * * * * *
83614 ATTTTTC-TTTGAAGTCTACAACTCCGTAGCACCTTTTTTCTTTTTAAGTCCATAACTCCGTAGC
1 CTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCATAGC
* * * * *
83678 ACCTTTTTCTTTTAAACTCTATAACTCCGTGGCACCTTTTT
66 ACCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT
83719 TCTTTTTAAG
Statistics
Matches: 514, Mismatches: 83, Indels: 58
0.78 0.13 0.09
Matches are distributed among these distances:
124 12 0.02
125 1 0.00
126 57 0.11
127 131 0.25
128 177 0.34
129 3 0.01
134 25 0.05
137 2 0.00
138 64 0.12
139 5 0.01
140 22 0.04
141 1 0.00
142 14 0.03
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (127 bp):
CTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCATAGC
ACCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCAC
Found at i:83352 original size:27 final size:27
Alignment explanation
Indices: 83294--83353 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
83284 CACATTTTTT
* *
83294 CTTTTTAAGTCCATAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAA
**
83321 CTTTTTAAGTCCACAACTTTGTGGCAA
1 CTTTTTAAGTCCACAACTCCGTGGCAA
*
83348 TTTTTT
1 CTTTTT
83354 CTTTTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (27 bp):
CTTTTTAAGTCCACAACTCCGTGGCAA
Found at i:83383 original size:60 final size:61
Alignment explanation
Indices: 83260--83385 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 61
83250 CACCCTTTTT
* * * *
83260 CTTTTTAAGTCCACAACTTCATAGCACATTTTTTCTTTTTAAGTCCATAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTTCATAGCACATTTTTTCTTTTAAAATCCATAACTCAGTGGAAC
** *
83321 CTTTTTAAGTCCACAACTTTGTGGCA-ATTTTTTCTTTTAAAATCCATAACTTCAG-GGAAC
1 CTTTTTAAGTCCACAACTTCATAGCACATTTTTTCTTTTAAAATCCATAAC-TCAGTGGAAC
83381 CTTTT
1 CTTTT
83386 CTGTGGCACC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
60 31 0.54
61 26 0.46
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.41
Consensus pattern (61 bp):
CTTTTTAAGTCCACAACTTCATAGCACATTTTTTCTTTTAAAATCCATAACTCAGTGGAAC
Found at i:83465 original size:138 final size:141
Alignment explanation
Indices: 83250--83509 Score: 357
Period size: 138 Copynumber: 1.9 Consensus size: 141
83240 AACTCCGTGA
* * *
83250 CACCCTTTTTCTTTTTAAGTCCACAACTTCATAGCACATTTTTTCTTTTTAAGTCCATAACTCCG
1 CACCCTTTTTC-TTTTAAGTCCACAACTCCATAGCACACTTTTTCTTTTTAAGTCCACAACTCCG
** * *
83315 TGGCACCTTTTTAAGTCCACAACTTTGTGGCAATTTTTTCTTTTAAAATCCATAACTTCAGGGAA
65 TGGCACCTTTTTAAGTCCACAACTGCGTGGCAACTTTTTATTTTAAAATCCATAACTTCAGGGAA
83380 CCTTTTCTGTGG
130 CCTTTTCTGTGG
* *
83392 CACCCTTTTTC-TTTAAGTCCACAACTCCATGGCAC-CTTTTT-TTTTTAAGTCCACAACTCTGT
1 CACCCTTTTTCTTTTAAGTCCACAACTCCATAGCACACTTTTTCTTTTTAAGTCCACAACTCCGT
* * * *
83454 GGTA-CTCTTTTAAGTTCACAACTGCGTGGCACCTTTTTATTTTAAAGTCCATAACT
66 GGCACCT-TTTTAAGTCCACAACTGCGTGGCAACTTTTTATTTTAAAATCCATAACT
83510 CCATGGCATC
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
137 2 0.02
138 64 0.62
139 5 0.05
140 22 0.21
142 11 0.11
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (141 bp):
CACCCTTTTTCTTTTAAGTCCACAACTCCATAGCACACTTTTTCTTTTTAAGTCCACAACTCCGT
GGCACCTTTTTAAGTCCACAACTGCGTGGCAACTTTTTATTTTAAAATCCATAACTTCAGGGAAC
CTTTTCTGTGG
Found at i:83482 original size:27 final size:26
Alignment explanation
Indices: 83434--83490 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
83424 CACCTTTTTT
*
83434 TTTTAAGTCCACAACTCTGTGGTACTC
1 TTTTAAGTCCACAACTCTGTGGCAC-C
*
83461 TTTTAAGTTCACAACTGC-GTGGCACC
1 TTTTAAGTCCACAACT-CTGTGGCACC
83487 TTTT
1 TTTT
83491 TATTTTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 21 0.78
28 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (26 bp):
TTTTAAGTCCACAACTCTGTGGCACC
Found at i:83619 original size:27 final size:27
Alignment explanation
Indices: 83560--83619 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
83550 CACCCTTTTT
* * *
83560 CTTTGTAAGTCCACAACTTTGTGACACC
1 CTTT-TAAGTCCACAACTCTATGACACA
*
83588 CTTTTAAGTCCACAACTCTATGGCACA
1 CTTTTAAGTCCACAACTCTATGACACA
*
83615 TTTTT
1 CTTTT
83620 CTTTGAAGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTATGACACA
Found at i:83704 original size:194 final size:193
Alignment explanation
Indices: 83403--83879 Score: 517
Period size: 194 Copynumber: 2.5 Consensus size: 193
83393 ACCCTTTTTC
* * * * * **
83403 TTTAAGTCCACAACTCCATGGCACCTTTTTTTTTTAAGTCCACAACTCTGTGGTA--C----TC-
1 TTTAAGTCCACAACTTCATGGCACCATTTTTCTTTAAGTCTACAACTCCGTGACACTCTTTTTCT
* * * *
83461 TTTTAAGTTCACAACTGCGTGGCACCTTTTTATTTTAAAGTCCATAACTCCATGGCATCTTTTTT
66 TTTTAAGTCCACAACTCCGTGGCACCTTTTTATTTTAAACTCCATAACTCCATGGCACCTTTTTT
* ** * **
83526 CTTTTTAAGTCCATAACTTTGTGGCACCCTTTTTCTTTGTAAGTCCACAACTTTGTGACACCCT
131 CTTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCTTTGTAAGTCCACAACTTCATGACA-CCT
83590 TTTAAGTCCACAAC-TCTATGGCA-CATTTTTCTTTGAAGTCTACAACTCCGT-AGCAC-CTTTT
1 TTTAAGTCCACAACTTC-ATGGCACCATTTTTCTTT-AAGTCTACAACTCCGTGA-CACTC-TTT
* * * * *
83651 TTCTTTTTAAGTCCATAACTCCGTAGCACCTTTTTCTTTTAAACTCTATAACTCCGTGGCACCTT
62 TTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTATTTTAAACTCCATAACTCCATGGCACCTT
* * * * * *
83716 TTTTCTTTTTAAGTTCACAACTCCGTAGCACTCTTTTTCTTTTTTAGTCCATAACTTCATGGCAC
127 TTTTCTTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCTTTGTAAGTCCACAACTTCATGACAC
83781 CT
192 CT
* * * * *
83783 TTTAAGTTCACAACTTCGTGGCACCCTTTTTCTTTAAGTCTATAACTCTGTGACACTCTTTTTCT
1 TTTAAGTCCACAACTTCATGGCACCATTTTTCTTTAAGTCTACAACTCCGTGACACTCTTTTTCT
* *
83848 TTTTAAGTCCACAACTTCGTGGCACCCTTTTA
66 TTTTAAGTCCACAACTCCGTGGCACCTTTTTA
83880 AGTCCATAAC
Statistics
Matches: 238, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
186 10 0.04
187 35 0.15
188 1 0.00
193 74 0.31
194 118 0.50
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.42
Consensus pattern (193 bp):
TTTAAGTCCACAACTTCATGGCACCATTTTTCTTTAAGTCTACAACTCCGTGACACTCTTTTTCT
TTTTAAGTCCACAACTCCGTGGCACCTTTTTATTTTAAACTCCATAACTCCATGGCACCTTTTTT
CTTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCTTTGTAAGTCCACAACTTCATGACACCT
Found at i:83910 original size:66 final size:63
Alignment explanation
Indices: 83782--83904 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 63
83772 TCATGGCACC
* * **
83782 TTTTAAGTTCACAACTTCGTGGCACCCTTTTTCTTTAAGTCTATAACTCTGTGACACTCTTTTTC
1 TTTTAAGTCCACAACTTCGTGGCACCC---TTCTTTAAGTCCATAACTCTGACACACTCTTTTTC
83847 T
63 T
83848 TTTTAAGTCCACAACTTCGTGGCACCC-T-TTTAAGTCCATAACTCCATGACACA-TCTT
1 TTTTAAGTCCACAACTTCGTGGCACCCTTCTTTAAGTCCATAACT-C-TGACACACTCTT
83905 CCTTTTAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
61 14 0.27
62 6 0.12
63 5 0.10
66 26 0.51
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.40
Consensus pattern (63 bp):
TTTTAAGTCCACAACTTCGTGGCACCCTTCTTTAAGTCCATAACTCTGACACACTCTTTTTCT
Found at i:84131 original size:95 final size:98
Alignment explanation
Indices: 84032--84256 Score: 235
Period size: 95 Copynumber: 2.3 Consensus size: 98
84022 AACCTTTTTC
* * * *
84032 TAAAGCCTACACAAGTCAGTGGCAATACTTCTCAAGCTC-ACACAAGTC-GACAGCAACCCTTCT
1 TAAAGCCTACACAAGTCGGTGGCAACACTTCTAAAAC-CAACACAAGTCAG-CAGCAACCCTTCT
* *
84095 CTAAAGCCTACACATGTCA-ATGACAACCC-T-TT
64 CTAAAGCCCACACAAGTCAGATGACAACCCTTCTT
* * * * * **
84127 TAAAGCCCATATAAGTCGGTGGCAACCCTTCTAAAACCAACATAAGTCAGTGGCAACCCTTCTCT
1 TAAAGCCTACACAAGTCGGTGGCAACACTTCTAAAACCAACACAAGTCAGCAGCAACCCTTCTCT
* *
84192 AAAGCCCACACAAGTCAGGTGGCAACCCTTCTT
66 AAAGCCCACACAAGTCAGATGACAACCCTTCTT
* * *
84225 TAAAGCCTACTCAACTCGGTGGCAACCCTTCT
1 TAAAGCCTACACAAGTCGGTGGCAACACTTCT
84257 TTAAAGGCCA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
94 1 0.01
95 65 0.62
96 9 0.09
97 1 0.01
98 29 0.28
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (98 bp):
TAAAGCCTACACAAGTCGGTGGCAACACTTCTAAAACCAACACAAGTCAGCAGCAACCCTTCTCT
AAAGCCCACACAAGTCAGATGACAACCCTTCTT
Found at i:84153 original size:31 final size:31
Alignment explanation
Indices: 84118--84275 Score: 156
Period size: 33 Copynumber: 4.9 Consensus size: 31
84108 ATGTCAATGA
*
84118 CAACCCTTTTAAAGCCCATATAAGTCGGTGG
1 CAACCCTTTTAAAGCCCACATAAGTCGGTGG
* * * *
84149 CAACCCTTCTAAAACCAACATAAGTCAGTGG
1 CAACCCTTTTAAAGCCCACATAAGTCGGTGG
*
84180 CAACCCTTCTCTAAAGCCCACACAAGTCAGGTGG
1 CAACCCTT-T-TAAAGCCCACATAAGTC-GGTGG
* *
84214 CAACCCTTCTTTAAAGCCTAC-TCAACTCGGTGG
1 CAACCC-T-TTTAAAGCCCACAT-AAGTCGGTGG
*
84247 CAACCCTTCTTTAAAGGCCACATAAGTCG
1 CAACCC-T-TTTAAAGCCCACATAAGTCG
84276 ATAGCAACTT
Statistics
Matches: 104, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
31 34 0.33
33 43 0.41
34 24 0.23
35 2 0.02
36 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (31 bp):
CAACCCTTTTAAAGCCCACATAAGTCGGTGG
Found at i:84251 original size:33 final size:33
Alignment explanation
Indices: 84084--84262 Score: 147
Period size: 31 Copynumber: 5.5 Consensus size: 33
84074 CAAGTCGACA
* * * * **
84084 GCAACCCTTCTCTAAAGCCTACACATGTCAATG
1 GCAACCCTTCTTTAAAGCCAACTCAAGTCGGTG
*
84117 ACAACCC-T-TTTAAAGCCCATA-T-AAGTCGGTG
1 GCAACCCTTCTTTAAAG-CCA-ACTCAAGTCGGTG
* *
84148 GCAACCCTTC--TAAAACCAACAT-AAGTCAGTG
1 GCAACCCTTCTTTAAAGCCAAC-TCAAGTCGGTG
* * *
84179 GCAACCCTTCTCTAAAGCCCACACAAGTCAGGTG
1 GCAACCCTTCTTTAAAGCCAACTCAAGTC-GGTG
* *
84213 GCAACCCTTCTTTAAAGCCTACTCAACTCGGTG
1 GCAACCCTTCTTTAAAGCCAACTCAAGTCGGTG
84246 GCAACCCTTCTTTAAAG
1 GCAACCCTTCTTTAAAG
84263 GCCACATAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 20
0.76 0.12 0.13
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 41 0.35
32 4 0.03
33 41 0.35
34 28 0.24
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (33 bp):
GCAACCCTTCTTTAAAGCCAACTCAAGTCGGTG
Found at i:84262 original size:67 final size:65
Alignment explanation
Indices: 83979--84275 Score: 223
Period size: 64 Copynumber: 4.6 Consensus size: 65
83969 AAAATTCCAC
* * * * * * * * *
83979 CAAGTCGGTGGCAA-CC-TCTCTAACGCTCACATGAGTCGATGTCAACCTTTTTCTAAAGCCTAC
1 CAAGTCAGTGGCAACCCTTCTTTAAAGCCCACATAAGTCGGTGGCAACCCTTCT-TAAAGCCTAC
*
84042 A
65 T
** * * * ***
84043 CAAGTCAGTGGCAATACTTC--TCAAGCTCACACAAGTCGACAGCAACCCTTCTCTAAAGCCTAC
1 CAAGTCAGTGGCAACCCTTCTTTAAAGCCCACATAAGTCGGTGGCAACCCTTCT-TAAAGCCTAC
*
84106 A
65 T
* * * * * *
84107 CATGTCAATGACAACCC-T-TTTAAAGCCCATATAAGTCGGTGGCAACCCTTC-TAAAACCAACA
1 CAAGTCAGTGGCAACCCTTCTTTAAAGCCCACATAAGTCGGTGGCAACCCTTCTTAAAGCCTAC-
84169 T
65 T
* *
84170 -AAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGGTGGCAACCCTTCTTTAAAGCCTA
1 CAAGTCAGTGGCAACCCTTCTTTAAAGCCCACATAAGTC-GGTGGCAACCCTTC-TTAAAGCCTA
84234 CT
64 CT
* * *
84236 CAACTCGGTGGCAACCCTTCTTTAAAGGCCACATAAGTCG
1 CAAGTCAGTGGCAACCCTTCTTTAAAGCCCACATAAGTCG
84276 ATAGCAACTT
Statistics
Matches: 183, Mismatches: 39, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
62 21 0.11
63 2 0.01
64 100 0.55
65 15 0.08
66 4 0.02
67 41 0.22
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (65 bp):
CAAGTCAGTGGCAACCCTTCTTTAAAGCCCACATAAGTCGGTGGCAACCCTTCTTAAAGCCTACT
Found at i:84283 original size:33 final size:32
Alignment explanation
Indices: 83980--84283 Score: 155
Period size: 33 Copynumber: 9.4 Consensus size: 32
83970 AAATTCCACC
* * *
83980 AAGTCGGTGGCAA-CC-TCTCTAACGCTCACAT
1 AAGTCGATGGCAACCCTTCTTTAAAGC-CACAT
* * * *
84011 GAGTCGATGTCAA-CCTTTTTCTAAAGCCTACAC
1 AAGTCGATGGCAACCCTTCTT-TAAAGCC-ACAT
** * *
84044 AAGTC-AGTGGCAATACTTC--TCAAGCTCACAC
1 AAGTCGA-TGGCAACCCTTCTTTAAAGC-CACAT
** * *
84075 AAGTCGACAGCAACCCTTCTCTAAAGCCTACAC
1 AAGTCGATGGCAACCCTTCTTTAAAGCC-ACAT
* * * *
84108 ATGTCAATGACAACCC-T-TTTAAAGCCCATAT
1 AAGTCGATGGCAACCCTTCTTTAAAG-CCACAT
* *
84139 AAGTCGGTGGCAACCCTTC--TAAAACCAACAT
1 AAGTCGATGGCAACCCTTCTTTAAAGCC-ACAT
* *
84170 AAGTC-AGTGGCAACCCTTCTCTAAAGCCCACAC
1 AAGTCGA-TGGCAACCCTTCTTTAAAG-CCACAT
*
84203 AAGTCAGGTGGCAACCCTTCTTTAAAGCCTAC-T
1 AAGTC-GATGGCAACCCTTCTTTAAAGCC-ACAT
* *
84236 CAACTCGGTGGCAACCCTTCTTTAAAGGCCACAT
1 -AAGTCGATGGCAACCCTTCTTTAAA-GCCACAT
*
84270 AAGTCGATAGCAAC
1 AAGTCGATGGCAAC
84284 TTTTAGTCCT
Statistics
Matches: 208, Mismatches: 41, Indels: 46
0.71 0.14 0.16
Matches are distributed among these distances:
30 2 0.01
31 78 0.38
32 11 0.05
33 84 0.40
34 33 0.16
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (32 bp):
AAGTCGATGGCAACCCTTCTTTAAAGCCACAT
Found at i:84569 original size:64 final size:61
Alignment explanation
Indices: 84256--84586 Score: 270
Period size: 62 Copynumber: 5.3 Consensus size: 61
84246 GCAACCCTTC
* * ** * * * *
84256 TTTAAAGGCCACATAAGTCGATAGCAACTTTTAGTCCTTAAAAAACATGATGCCTTTTTCTT
1 TTTAAAGCCCACACAAGTTAATGGCAACTTTTAGTCCTCAAAGAGCATGATGCCTTTTT-TT
** * * * * * *
84318 TTTAAAGCTTACACAAATTAATGGCATCTTTTAGTCCTTAAAGAGTAGGACGCCTTTTTTTT
1 TTTAAAGCCCACACAAGTTAATGGCAACTTTTAGTCCTCAAAGAGCATGATGCC-TTTTTTT
* * ** * * *
84380 TTTAAAGCACACACAAGTGAATGGCATTTTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCT
1 TTTAAAGCCCACACAAGTTAATGGCAACTTTTAGTCCTCAAAGAGCATGATGCCTTTTTTT
* * * * *
84441 TTTAAAGCCCACTCAAGTTGATGGC-ACGTTTTAGGCTTCAAAGAGCATGACAT-CTTTTTCTTT
1 TTTAAAGCCCACACAAGTTAATGGCAAC-TTTTAGTCCTCAAAGAGCATG--ATGCCTTTT-TTT
* * * *
84504 TTTAAAAGCCCATACAAGTTAGTGGCAACTTTTAGTCCTCAAAAAGTATGATGCCTTTCCTTTT
1 TTT-AAAGCCCACACAAGTTAATGGCAACTTTTAGTCCTCAAAGAGCATGATGCCTTT--TTTT
*
84568 TTTAAAGCCCACACTAGTT
1 TTTAAAGCCCACACAAGTT
84587 GGTAGCATTA
Statistics
Matches: 213, Mismatches: 46, Indels: 19
0.77 0.17 0.07
Matches are distributed among these distances:
61 45 0.21
62 95 0.45
63 29 0.14
64 41 0.19
65 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (61 bp):
TTTAAAGCCCACACAAGTTAATGGCAACTTTTAGTCCTCAAAGAGCATGATGCCTTTTTTT
Found at i:87594 original size:10 final size:10
Alignment explanation
Indices: 87580--87687 Score: 80
Period size: 10 Copynumber: 10.8 Consensus size: 10
87570 TTTCTCTCTA
87580 TTTCTTTTTC
1 TTTCTTTTTC
* *
87590 ATTCTTTTTT
1 TTTCTTTTTC
* *
87600 TTTGTTTTTT
1 TTTCTTTTTC
87610 TTTCTTTTTC
1 TTTCTTTTTC
*
87620 TCTCTTCTCTT-
1 TTTCTT-T-TTC
87631 TTTCTTTTTC
1 TTTCTTTTTC
*
87641 ATTCTTTTT-
1 TTTCTTTTTC
87650 TTT-TTTTTC
1 TTTCTTTTTC
*
87659 TTT-TTCTCTC
1 TTTCTT-TTTC
*
87669 TTCCTTTTTTC
1 TTTC-TTTTTC
87680 TTTCTTTT
1 TTTCTTTT
87688 CAGTTGAGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
8 5 0.06
9 9 0.12
10 47 0.61
11 12 0.16
12 4 0.05
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:87639 original size:30 final size:31
Alignment explanation
Indices: 87580--87663 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
87570 TTTCTCTCTA
* *
87580 TTTCTTTTTCATTCTTTTTTTTTG-TTTTTT
1 TTTCTTTTTCATTCTTTCTTTTTGCTTTTTC
87610 TTTCTTTTTC-TCTCTTCTCTTTTT-CTTTTTC
1 TTTCTTTTTCAT-TCTT-TCTTTTTGCTTTTTC
* ** *
87641 ATTCTTTTTTTTTTTTTCTTTTT
1 TTTCTTTTTCATTCTTTCTTTTT
87664 CTCTCTTCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 21 0.47
31 22 0.49
32 1 0.02
ACGTcount: A:0.02, C:0.15, G:0.01, T:0.81
Consensus pattern (31 bp):
TTTCTTTTTCATTCTTTCTTTTTGCTTTTTC
Found at i:87649 original size:38 final size:39
Alignment explanation
Indices: 87607--87687 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
87597 TTTTTTGTTT
* *
87607 TTTTTTCTTTTTCTC-TCTTCTCTTTTTC-TTTTTCATTC
1 TTTTTT-TTTTTCTCTTCTTCTCTCTTCCTTTTTTCATTC
* * *
87645 TTTTTTTTTTTTTCTTTTTCTCTCTTCCTTTTTTCTTTC
1 TTTTTTTTTTTCTCTTCTTCTCTCTTCCTTTTTTCATTC
87684 TTTT
1 TTTT
87688 CAGTTGAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 7 0.19
38 16 0.44
39 13 0.36
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (39 bp):
TTTTTTTTTTTCTCTTCTTCTCTCTTCCTTTTTTCATTC
Found at i:87649 original size:39 final size:39
Alignment explanation
Indices: 87606--87687 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
87596 TTTTTTTGTT
* *
87606 TTTTTTTCTTTTTCTCTCTTCTCTTTTTC-TTTTTCATTC
1 TTTTTTTCTTTTTCT-TCTTCTCTCTTCCTTTTTTCATTC
* * *
87645 TTTTTTTTTTTTTCTTTTTCTCTCTTCCTTTTTTCTTTC
1 TTTTTTTCTTTTTCTTCTTCTCTCTTCCTTTTTTCATTC
87684 TTTT
1 TTTT
87688 CAGTTGAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 10 0.27
39 27 0.73
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (39 bp):
TTTTTTTCTTTTTCTTCTTCTCTCTTCCTTTTTTCATTC
Found at i:87653 original size:45 final size:43
Alignment explanation
Indices: 87570--87687 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 43
87560 GTATTCTAAC
*
87570 TTTCTCTCTATTTCTTTTTCATTCTTTTTTTTTGTTTTTTTTTCTT
1 TTTCTCTCT-TCTCTTTTTC-TT-TTTTTTTTTGTTTTTTTTTCTT
87616 TTTCTCTCTTCTCTTTTTCTTTTTCATTCTTTT-TTTTTTTTTCTT
1 TTTCTCTCTTCTCTTTTTCTTTTT--TT-TTTTGTTTTTTTTTCTT
*
87661 TTTCTCTCTTC-CTTTTTTCTTTCTTTT
1 TTTCTCTCTTCTC-TTTTTCTTTTTTTT
87688 CAGTTGAGTT
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
42 1 0.02
43 5 0.08
44 3 0.05
45 44 0.67
46 13 0.20
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (43 bp):
TTTCTCTCTTCTCTTTTTCTTTTTTTTTTTGTTTTTTTTTCTT
Found at i:87678 original size:21 final size:20
Alignment explanation
Indices: 87607--87682 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 20
87597 TTTTTTGTTT
87607 TTTTTTCTTTTTCTCTCTTC
1 TTTTTTCTTTTTCTCTCTTC
* *
87627 TCTTTTTCTTTTTCATTCTTTTTTT
1 T-TTTTTCTTTTTC--TC--TCTTC
87652 TTTTTTCTTTTTCTCTCTTCC
1 TTTTTTCTTTTTCTCTCTT-C
87673 TTTTTTCTTT
1 TTTTTTCTTT
87683 CTTTTCAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.09
21 22 0.48
22 2 0.04
23 2 0.04
24 12 0.26
25 4 0.09
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTTTTCTCTCTTC
Found at i:87682 original size:51 final size:51
Alignment explanation
Indices: 87574--87671 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
87564 TCTAACTTTC
* *
87574 TCTCTATTTCTTTTTCATTCTTTTTTTTTGTTTTTTTTTCTTTTTCTCTCT
1 TCTCTTTTTCTTTTTCATTCTTTTTTTTTGTTTTTTTTTCTTCTTCTCTCT
87625 TCTCTTTTTCTTTTTCATTCTTTTTTTTT-TTTTCTTTTTCTCTCTTC
1 TCTCTTTTTCTTTTTCATTCTTTTTTTTTGTTTT-TTTTTCT-TCTTC
87672 CTTTTTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 4 0.09
51 35 0.81
52 4 0.09
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (51 bp):
TCTCTTTTTCTTTTTCATTCTTTTTTTTTGTTTTTTTTTCTTCTTCTCTCT
Found at i:87688 original size:24 final size:23
Alignment explanation
Indices: 87604--87687 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 23
87594 TTTTTTTTTG
87604 TTTTTTTTTCTTTTTCTCTCTTC
1 TTTTTTTTTCTTTTTCTCTCTTC
* *
87627 --TCTTTTTCTTTTTCAT-TCTTTT
1 TTTTTTTTTCTTTTTC-TCTC-TTC
87649 TTTTTTTTTCTTTTTCTCTCTTCC
1 TTTTTTTTTCTTTTTCTCTCTT-C
87673 TTTTTTCTTTCTTTT
1 TTTTTT-TTTCTTTT
87688 CAGTTGAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
21 15 0.30
22 3 0.06
23 3 0.06
24 21 0.42
25 8 0.16
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTCTTTTTCTCTCTTC
Found at i:87829 original size:19 final size:21
Alignment explanation
Indices: 87798--87842 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
87788 CCATTTTGTT
87798 ATCTTTTTCTTATAT-TTTTC
1 ATCTTTTTCTTATATATTTTC
*
87818 ATCTTTTT-TTATTTATTTTC
1 ATCTTTTTCTTATATATTTTC
87838 -TCTTT
1 ATCTTT
87843 GATTCCTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (21 bp):
ATCTTTTTCTTATATATTTTC
Found at i:90152 original size:44 final size:44
Alignment explanation
Indices: 90009--90696 Score: 385
Period size: 44 Copynumber: 15.6 Consensus size: 44
89999 ATGCAAATTG
* * * * *
90009 TTTGACCAAGGTGGTAACCATACATCAAA-CTGACATAAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGA-ATGAGAAGAA
* * ** *
90053 TTTGACTAGGGTGGTAACCATACATGAAA-CA-AAAAAGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAG-A-A
* * *
90097 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
* * * * * * * *
90141 TCT-AGCCAGGGTGGTAACTATACGTTAGACCAAAATGAGAAGAG
1 TTTGA-CCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
** * * * * *
90185 TTCAACTAGGGTGGCAACCATGCGTCAAAT-AGGAATGAGGCAG-A
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAATGA-GAAGAA
* * * * * *
90229 TTTGACTAGTGTGGTAATCATACATCAAATCAAAATGAAAAAAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
* * * ** *
90273 ATTGACTAAGGTGGTAACCATATGTCAAATC-GAAATGAGAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATGAGAAGAA
** * * ** *
90317 TTCAATCGGGGTGGTAACCATACATCAAATGGGAATGAGGTAG-A
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGA-GAAGAA
* * * * *
90361 TTTGACCAAGGTGGTAACCATGCATGAAATCAGAATAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
* * *** * *
90405 TTTGACTAGGGTGGTAACCATACGTTTGAT-TGAAATGAGAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATGAGAAGAA
* ** * *
90449 TTTGACTAGGGTGGTAACCATATGTCAAAT-AGGAAGGAGGCA-AA
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAATGA-GAAGAA
* * *
90493 TTCGACCAAGGTGGTAACCATGCATCAAATCAGAATGAGAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
* * * * *
90537 TCTGACCAGGGTGATAACCATGCATCAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
** * * * * *
90581 GCTGACCAGTGTGGTAACCATACATCAGACCTA-AATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATC-AGAATGAGAAGAA
* * ** * *
90625 TTTAATCAGGGTGGTAACCATATGTCAAA-CATGAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAATGAGAAGAA
* *
90669 CTTGACCAGGGTGATAACCATACATCAA
1 TTTGACCAGGGTGGTAACCATACATCAA
90697 GCAAGAAATT
Statistics
Matches: 488, Mismatches: 134, Indels: 44
0.73 0.20 0.07
Matches are distributed among these distances:
42 6 0.01
43 11 0.02
44 449 0.92
45 17 0.03
46 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAGAAGAA
Found at i:90573 original size:132 final size:132
Alignment explanation
Indices: 90011--90607 Score: 558
Period size: 132 Copynumber: 4.5 Consensus size: 132
90001 GCAAATTGTT
* * * * * *
90011 TGACCAAGGTGGTAACCATACATCAAA-CTGACATAAAAAGAGTTTGACTAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAGAAGAGTTTGACTAGGGTGGTAACCATA
* * ** * * * *
90075 CATGAAACAAAAAAGAGGCAGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
65 CATCAAATAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACATCAAATCAGAATGAAAAGA
90140 ATC
130 ATC
* * * * ** * *
90143 T-AGCCAGGGTGGTAACTATACGTTAGACCAAAATGAGAAGAGTTCAACTAGGGTGGCAACCATG
1 TGA-CCAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAGTTTGACTAGGGTGGTAACCATA
* * * *
90207 CGTCAAATAGGAATGAGGCAGATTTGA-CTAGTGTGGTAATCATACATCAAATCAAAATGAAAAA
65 CATCAAATAGGAATGAGGCAGATTTGACCAAG-GTGGTAACCATACATCAAATCAGAATG-AAAA
*
90271 AAAT-
128 GAATC
* * * * * * *
90275 TGACTAAGGTGGTAACCATATGTCAAATCGAAATGAGAAGAG-TTCAATCGGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAGTTTGACT-AGGGTGGTAACCATA
* * * * *
90339 CATCAAATGGGAATGAGGTAGATTTGACCAAGGTGGTAACCATGCATGAAATCAGAATAAAAAGA
65 CATCAAATAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACATCAAATCAGAATGAAAAGA
*
90404 ATT
130 ATC
* *** ** *
90407 TGACTAGGGTGGTAACCATACGTTTGATTGAAATGAGAAGAGTTTGACTAGGGTGGTAACCATAT
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAGTTTGACTAGGGTGGTAACCATAC
* * * * * *
90472 GTCAAATAGGAAGGAGGCAAATTCGACCAAGGTGGTAACCATGCATCAAATCAGAATGAGAAGAA
66 ATCAAATAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
90537 TC
131 TC
* * * * * * *
90539 TGACCAGGGTGATAACCATGCATCAAATCAAAATGAAAAGAAG-CTGACCAGTGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAGAAG-AGTTTGACTAGGGTGGTAACCATA
90603 CATCA
65 CATCA
90608 GACCTAAATG
Statistics
Matches: 370, Mismatches: 85, Indels: 20
0.78 0.18 0.04
Matches are distributed among these distances:
131 12 0.03
132 340 0.92
133 18 0.05
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (132 bp):
TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAGTTTGACTAGGGTGGTAACCATAC
ATCAAATAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
TC
Found at i:91000 original size:3 final size:3
Alignment explanation
Indices: 90987--91036 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
90977 TCTTACTCAT
90987 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91033 TTA T
1 TTA T
91037 GATGATGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:95026 original size:79 final size:78
Alignment explanation
Indices: 94894--95382 Score: 473
Period size: 79 Copynumber: 6.2 Consensus size: 78
94884 TCATTCATGT
* * * * * * *
94894 TTTTATTTCTAAAATACCGATTTTCCACAATCGGGGGTACTCTAACCCCGTTATTTTTGAGAGCA
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGAGGA
94959 TACTCCAACCCTAG
66 TACTCCAACCC-AG
* * * *
94973 TTTTATTTCCAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTGTTATTTTTAAGGGGA
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGAGGA
*
95038 TACTCCAACCCCG
66 TACTCCAACCCAG
* * *
95051 ATTTTATTTCCAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTAAGGGG
1 -TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGAGG
*
95116 ATACTCCAACCCTGATT
65 ATACTCCAACCC--A-G
* * * * ** *
95133 TTTTATTTCTAAAACACCGATATTCCACAATCGGGGATACTCTAACCCTATTATTTTCAAG-GAG
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGAG-G
*
95197 ATACTCCAACCCCGG
65 ATACTCCAA-CCCAG
* * * * * ** *
95212 CTTTATTTCTAAAACATTGATTTTCCATAATCGAGGATACTCCAACCCCGTTA-TTTTCGGGGGA
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGAGGA
*
95276 TACTCCAACTCCGG
66 TACTCCAAC-CCAG
* * * * * * *
95290 TTTTATTTTCAAAACATCTATTTTTCACTATCAGGGGATA-TCCCACTCCGTTATTTCTGAAG-G
1 TTTTATTTCCAAAACATCGATTTTCCACAATC-GGGGATACTCCAACCCCGTTATTT-TTAAGAG
*
95353 GATACTCCAACCCCAT
64 GATACTCCAA-CCCAG
*
95369 TTTTATCTCCAAAA
1 TTTTATTTCCAAAA
95383 TATTAAATTT
Statistics
Matches: 340, Mismatches: 58, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
77 1 0.00
78 54 0.16
79 216 0.64
80 4 0.01
81 62 0.18
82 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGAGGA
TACTCCAACCCAG
Found at i:95228 original size:160 final size:157
Alignment explanation
Indices: 94895--95366 Score: 520
Period size: 160 Copynumber: 3.0 Consensus size: 157
94885 CATTCATGTT
* * * * * * *
94895 TTTATTTCTAAAATACCGATTTTCCACAATCGGGGGTACTCTAACCCCGTTATTTTTGAGAGCAT
1 TTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTA-TTTTAAGGGGAT
* * * *
94960 ACTCCAACCCTAGTTTTATTTCCAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTGTT
65 ACTCCAACCCTAGTTTTATTTCCAAAACACCGATATTCCACAATCAGGGATACTCCAACCCTATT
* * *
95025 ATTTTTAAGGGGATACTCCAACCCCGAT
130 ATTTTCAAGGAGATACTCCAACCCCGAC
* *
95053 TTTATTTCCAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGAT
1 TTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTT-TAAGGGGAT
* * * *
95118 ACTCCAACCCTGATTTTTTATTTCTAAAACACCGATATTCCACAATCGGGGATACTCTAACCCTA
65 ACTCCAACCCT-A-GTTTTATTTCCAAAACACCGATATTCCACAATCAGGGATACTCCAACCCTA
*
95183 TTATTTTCAAGGAGATACTCCAACCCCGGC
128 TTATTTTCAAGGAGATACTCCAACCCCGAC
* * * **
95213 TTTATTTCTAAAACATTGATTTTCCATAATCGAGGATACTCCAACCCCGTTATTTTCGGGGGATA
1 TTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTAAGGGGATA
* * * * * * * * *
95278 CTCCAACTCC-GGTTTTATTTTCAAAACATCTATTTTTCACTATCAGGGGATA-TCCCACTCC-G
66 CTCCAAC-CCTAGTTTTATTTCCAAAACACCGATATTCCACAATCA-GGGATACTCCAAC-CCTA
*
95340 TTATTTCTGAAGG-GATACTCCAACCCC
128 TTATTT-TCAAGGAGATACTCCAACCCC
95367 ATTTTTATCT
Statistics
Matches: 265, Mismatches: 42, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
157 52 0.20
158 76 0.29
159 16 0.06
160 121 0.46
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (157 bp):
TTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTAAGGGGATA
CTCCAACCCTAGTTTTATTTCCAAAACACCGATATTCCACAATCAGGGATACTCCAACCCTATTA
TTTTCAAGGAGATACTCCAACCCCGAC
Found at i:95329 original size:239 final size:238
Alignment explanation
Indices: 94893--95365 Score: 648
Period size: 239 Copynumber: 2.0 Consensus size: 238
94883 TTCATTCATG
* * * * **
94893 TTTTTATTTCTAAAATACCGATTTTCCACAATCGGGGGTACTCTAACCCCGTTATTTTTGAGAGC
1 TTTTTATTTCTAAAACACCGATATTCCACAATCGGGGATACTCTAACCCCATTATTTTCAAGAGC
* * * *
94958 ATACTCCAACCCTAGTTTTATTTCCAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTG
66 ATACTCCAACCCCAGCTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCG
95023 TTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACCATCGGGG
131 TTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACCATCGGGG
95088 ATACTCCAACCCCGTTATTTCT-AAGGGGATACTCCAACCCTGAT
196 ATA-TCCAACCCCGTTATTTCTGAA-GGGATACTCCAACCCTGAT
*
95132 TTTTTATTTCTAAAACACCGATATTCCACAATCGGGGATACTCTAACCCTATTATTTTCAAGGAG
1 TTTTTATTTCTAAAACACCGATATTCCACAATCGGGGATACTCTAACCCCATTATTTTCAA-GAG
* * * *
95197 -ATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTCCATAATC-GAGGATACTCCAACCC
65 CATACTCCAACCCCAGCTTTATTTCCAAAACATCGATTTTCCACAATCAG-GGATACTCCAACCC
** * * * * * *
95260 CGTTA-TTTTCGGGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCTATTTTTCACTATCAG
129 CGTTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACCATC-G
* *
95324 GGGATATCCCACTCCGTTATTTCTGAAGGGATACTCCAACCC
193 GGGATATCCAACCCCGTTATTTCTGAAGGGATACTCCAACCC
95366 CATTTTTATC
Statistics
Matches: 205, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
238 81 0.40
239 121 0.59
240 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (238 bp):
TTTTTATTTCTAAAACACCGATATTCCACAATCGGGGATACTCTAACCCCATTATTTTCAAGAGC
ATACTCCAACCCCAGCTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCG
TTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACCATCGGGG
ATATCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCTGAT
Found at i:96369 original size:20 final size:21
Alignment explanation
Indices: 96330--96382 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
96320 TGTGTCGACA
* *
96330 GTATTGATATAAATAGTAAAT
1 GTATTGATACATATAGTAAAT
96351 GTATTGATACATA-AGTAAAT
1 GTATTGATACATATAGTAAAT
*
96371 GTATCGATACAT
1 GTATTGATACAT
96383 GCCTAAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (21 bp):
GTATTGATACATATAGTAAAT
Found at i:96389 original size:20 final size:20
Alignment explanation
Indices: 96346--96396 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
96336 ATATAAATAG
* *
96346 TAAATGTATTGATACATAAG
1 TAAATGTATCGATACATAAC
**
96366 TAAATGTATCGATACATGCC
1 TAAATGTATCGATACATAAC
96386 TAAAATGTATC
1 T-AAATGTATC
96397 AATATAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
TAAATGTATCGATACATAAC
Found at i:100556 original size:16 final size:16
Alignment explanation
Indices: 100535--100569 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
100525 TTTGGTTTTG
100535 ATATAACAAAGTATGA
1 ATATAACAAAGTATGA
100551 ATATAACAAAGTATGA
1 ATATAACAAAGTATGA
100567 ATA
1 ATA
100570 AAAACCGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (16 bp):
ATATAACAAAGTATGA
Found at i:100859 original size:13 final size:13
Alignment explanation
Indices: 100841--100865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100831 CATATTGCTT
100841 TGTATCGATACAC
1 TGTATCGATACAC
100854 TGTATCGATACA
1 TGTATCGATACA
100866 TGATCTTGGT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:100883 original size:32 final size:33
Alignment explanation
Indices: 100822--100884 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
100812 AAGCCTAGAA
*
100822 GTATCGATACATATTGCTTTGTATCGATACACT
1 GTATCGATACATATTGCTTGGTATCGATACACT
100855 GTATCGATACATGA-T-CTTGGTATCGATACA
1 GTATCGATACAT-ATTGCTTGGTATCGATACA
100885 TAGCGAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.50
33 13 0.46
34 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (33 bp):
GTATCGATACATATTGCTTGGTATCGATACACT
Found at i:102486 original size:16 final size:16
Alignment explanation
Indices: 102465--102497 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
102455 TAACCTATGA
102465 GATGAAGATTAAGCAT
1 GATGAAGATTAAGCAT
102481 GATGAAGATTAAGCAT
1 GATGAAGATTAAGCAT
102497 G
1 G
102498 CACATGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (16 bp):
GATGAAGATTAAGCAT
Found at i:105479 original size:153 final size:155
Alignment explanation
Indices: 105135--105530 Score: 401
Period size: 153 Copynumber: 2.5 Consensus size: 155
105125 ATTCATGTCT
* * ** * * * * * * *
105135 TTATTTCCGAGGGGATACTCTAACCCCGGTTTTATATCCAAAACAACAAATTATCACAATC-GGG
1 TTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCAAAATCAGAG
* * *
105199 AATACTTCAACCCCGTTATTTTTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACCAAT
66 -ATACTCCAACCCCGTTATTTTTAAGGAGATAC-T--ACCCCGATTTTATTTCCAAAACACCAAT
105264 TATTCACAATCGGAGATACTCTAACCCTG
127 TATTCACAATCGGAGATACTCTAACCCTG
* **
105293 TTATTTCTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACA-C-ATATTTTCCAAAATCAG
1 TTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACATCGAT-TTTT-CAAAATCAG
* * *
105356 AGATACTCCAACCCCGTTATTTTTAAGGAGATA-T-CCCCGATTTTATTTTCAAAACACTAATTT
64 AGATACTCCAACCCCGTTATTTTTAAGGAGATACTACCCCGATTTTATTTCCAAAACACCAATTA
** *
105419 TTCATTATCGGGGATACTCTAA-CCTCG
129 TTCACAATCGGAGATACTCTAACCCT-G
* * ** ** *
105446 TTATTT-TCGAGGGGATACTCCGACCCTAATTTTATTTCCAAAACATCGATTTTTCACCATTGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCAAAATCAGA
105510 GATACTCCAACCCCGTTATTT
65 GATACTCCAACCCCGTTATTT
105531 CTGAGGGGGC
Statistics
Matches: 206, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
152 4 0.02
153 110 0.53
154 5 0.02
155 2 0.01
156 2 0.01
157 4 0.02
158 77 0.37
159 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (155 bp):
TTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCAAAATCAGAG
ATACTCCAACCCCGTTATTTTTAAGGAGATACTACCCCGATTTTATTTCCAAAACACCAATTATT
CACAATCGGAGATACTCTAACCCTG
Found at i:105545 original size:79 final size:78
Alignment explanation
Indices: 105135--105567 Score: 412
Period size: 79 Copynumber: 5.6 Consensus size: 78
105125 ATTCATGTCT
* * * * * * *
105135 TTATTTCCGAGGGGATACTCTAACCCCGGTTTTATATCCAAAACAACAAATTATCACAATCGGGA
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAC-ACAATTTTTCACAATCGGGG
*
105200 ATACTTCAACCCCG
65 ATACTCCAACCCCG
* * * *
105214 TTATTTTTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACCAATTATTCACAATCGGAG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACA-CAATTTTTCACAATCGGGG
* *
105279 ATACTCTAACCCTG
65 ATACTCCAACCCCG
* * * * * *
105293 TTATTTCTGAGGGGATACTCTAACCCCGGTTTTATTTCCAAAACACATATTTTCCAAAATCAGAG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACA-ATTTTTCACAATCGGGG
105358 ATACTCCAACCCCG
65 ATACTCCAACCCCG
* * * * **
105372 TTATTTTTAAGGAGATA-T----CCCCGATTTTATTTTCAAAACACTAATTTTTCATTATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC-AATTTTTCACAATCGGGG
* *
105432 ATACTCTAACCTCG
65 ATACTCCAACCCCG
* ** * * *
105446 TTATTT-TCGAGGGGATACTCCGACCCTAATTTTATTTCCAAAACATCGATTTTTCACCATTGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACA-CAATTTTTCACAATCGGG
105510 GATACTCCAACCCCG
64 GATACTCCAACCCCG
** * *
105525 TTATTTCTGAGGGGGCACTCCGACCCC-ATTTTTATCTCCAAAA
1 TTATTTCTGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAA
105568 TATTAAATTT
Statistics
Matches: 291, Mismatches: 51, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
73 1 0.00
74 58 0.20
75 2 0.01
78 5 0.02
79 223 0.77
80 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACAATTTTTCACAATCGGGGA
TACTCCAACCCCG
Found at i:110244 original size:76 final size:77
Alignment explanation
Indices: 110107--110350 Score: 294
Period size: 76 Copynumber: 3.2 Consensus size: 77
110097 GAAATTATCT
* * ** * * *
110107 AAATGCCAATATAGTCTAAAGTGTAGATACGCGTGAAATGATGCAAATGCAAGAGGAAAATGCAT
1 AAATGCCAATATGGTATAAAGTGTAGATGTGCATGAAATGATGCAAATACAAGAGGCAAATGCAT
*
110172 TTGAAACGATGC
66 ATGAAACGATGC
* * * * *
110184 AAATGCCAATATGGT-TTAAGTGTAGATGTGCATGAAACGATGCAAATACATGAGGCAAATGAAC
1 AAATGCCAATATGGTATAAAGTGTAGATGTGCATGAAATGATGCAAATACAAGAGGCAAATGCAT
110248 ATGAAACG-TGC
66 ATGAAACGATGC
* * * * *
110259 AAATGCCAATGTGGTATAAAGTGCAGATGTGCATGAAATAATACAAATACAAAAGGCAAATGCAT
1 AAATGCCAATATGGTATAAAGTGTAGATGTGCATGAAATGATGCAAATACAAGAGGCAAATGCAT
* *
110324 ATGAAATGATGT
66 ATGAAACGATGC
110336 AAATGCCAATATGGT
1 AAATGCCAATATGGT
110351 TTAGTGGTAA
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
75 17 0.12
76 93 0.66
77 30 0.21
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (77 bp):
AAATGCCAATATGGTATAAAGTGTAGATGTGCATGAAATGATGCAAATACAAGAGGCAAATGCAT
ATGAAACGATGC
Found at i:111578 original size:20 final size:20
Alignment explanation
Indices: 111524--111592 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
111514 CTTATCTCTT
*
111524 TTTTTTCTTCT-CATTT-TTC
1 TTTTTTCTT-TACATTTCATC
* *
111543 TTTTTTCTTAATATTTACA-C
1 TTTTTTCTTTACATTT-CATC
*
111563 TTTTTTCTTTACATTTCATT
1 TTTTTTCTTTACATTTCATC
111583 TTTTTTCTTT
1 TTTTTTCTTT
111593 TTTTAGTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTCTTTACATTTCATC
Found at i:111995 original size:15 final size:15
Alignment explanation
Indices: 111975--112007 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
111965 TGTATTTGAA
111975 TTTTCTT-TTTCTTTT
1 TTTTCTTCTTT-TTTT
111990 TTTTCTTCTTTTTTT
1 TTTTCTTCTTTTTTT
112005 TTT
1 TTT
112008 GAAACTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTCTTTTTTT
Found at i:114887 original size:72 final size:73
Alignment explanation
Indices: 114804--114941 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 73
114794 AGATATTACC
* *
114804 TGAATTTTTTCTAAAATTTCAATTTTATT-A-AAATATTAATAGAGCATTTTAAGACCCGAAAAA
1 TGAACTTTTTCTAAAATTTCAATTTTATTAAGAAAAATTAATAGAGCATTTTAAGACCC-AAAAA
114867 TACATTGCT
65 TACATTGCT
* *
114876 TGAACTTTTTCTAAAATTTTAATTTTATTAAGAAAAATTAATAGAGCATTTTGAGACCCAAAAAT
1 TGAACTTTTTCTAAAATTTCAATTTTATTAAGAAAAATTAATAGAGCATTTTAAGACCCAAAAAT
114941 A
66 A
114942 ATCTAAAATG
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 27 0.45
73 8 0.13
74 25 0.42
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (73 bp):
TGAACTTTTTCTAAAATTTCAATTTTATTAAGAAAAATTAATAGAGCATTTTAAGACCCAAAAAT
ACATTGCT
Found at i:119501 original size:95 final size:95
Alignment explanation
Indices: 119355--119580 Score: 269
Period size: 97 Copynumber: 2.3 Consensus size: 95
119345 ATTTATCGGA
* * * **
119355 GATACTCCAACCCCAATTTTCC-AAGAGGATACTCCAACCTCGTTTTTAAACTTGTC-GATTTAA
1 GATACTCCAACCAC-ATTTTCCGAGGA-GATACTCCAACCTCATTTTTAAACTCATCAGATTTAA
* * *
119418 ATCTTATTTTTGCTTAAATTGTCATCATC-AGG
64 ATATTATTTTTGCCTAAATTATCATCATCGA-G
119450 GATACTCCAACCACATTCTTCCGAGGAGATACTCCAACCTCATTTTTAAACTCATCATGATTTAA
1 GATACTCCAACCACATT-TTCCGAGGAGATACTCCAACCTCATTTTTAAACTCATCA-GATTTAA
*
119515 ATATTATTTTTGCCTAAATTATCATCGTCGAG
64 ATATTATTTTTGCCTAAATTATCATCATCGAG
* * *
119547 GACACTCCAACCTCATTTCTCTGAGGAGATACTC
1 GATACTCCAACCACATTT-TCCGAGGAGATACTC
119581 TAGCCCTACT
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
94 3 0.03
95 43 0.38
96 4 0.04
97 62 0.55
98 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (95 bp):
GATACTCCAACCACATTTTCCGAGGAGATACTCCAACCTCATTTTTAAACTCATCAGATTTAAAT
ATTATTTTTGCCTAAATTATCATCATCGAG
Found at i:120091 original size:22 final size:22
Alignment explanation
Indices: 120063--120105 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
120053 GGTGATTATA
120063 TTGAAATAATGATAAACCAAAT
1 TTGAAATAATGATAAACCAAAT
120085 TTGAAATAATGATAAACCAAA
1 TTGAAATAATGATAAACCAAA
120106 ACTGAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (22 bp):
TTGAAATAATGATAAACCAAAT
Found at i:120111 original size:22 final size:22
Alignment explanation
Indices: 120064--120111 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
120054 GTGATTATAT
**
120064 TGAAATAATGATAAACCAAATT
1 TGAAATAATGATAAACCAAAAC
120086 TGAAATAATGATAAACCAAAAC
1 TGAAATAATGATAAACCAAAAC
120108 TGAA
1 TGAA
120112 GAAACTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
TGAAATAATGATAAACCAAAAC
Found at i:124694 original size:29 final size:29
Alignment explanation
Indices: 124662--124753 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
124652 TAACATTTAT
124662 AAAATTGCATAAAAATCCCTAAATCATGG
1 AAAATTGCATAAAAATCCCTAAATCATGG
** * ****
124691 AAAATAACCTAAGTGGCCCTAACATTCAT--
1 AAAATTGCATAAAAATCCCTAA-A-TCATGG
**
124720 AAAATTGCATCTAAATCCCTAAATCATGG
1 AAAATTGCATAAAAATCCCTAAATCATGG
124749 AAAAT
1 AAAAT
124754 GACTTAGATG
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
27 4 0.09
28 1 0.02
29 33 0.77
30 1 0.02
31 4 0.09
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.25
Consensus pattern (29 bp):
AAAATTGCATAAAAATCCCTAAATCATGG
Found at i:124788 original size:58 final size:57
Alignment explanation
Indices: 124605--124791 Score: 239
Period size: 58 Copynumber: 3.2 Consensus size: 57
124595 AAGATATATG
* * * * * *
124605 AAATTGCATGAAAATTCTTAGATCATGAAAAATGACCTACATGACCCTAACATTTATA
1 AAATTGCATCAAAATCCCTAAATCATGGAAAATGACCTA-ATGACCCTAACATTCATA
* * *
124663 AAATTGCATAAAAATCCCTAAATCATGGAAAATAACCTAAGTGGCCCTAACATTCATA
1 AAATTGCATCAAAATCCCTAAATCATGGAAAATGACCTAA-TGACCCTAACATTCATA
* * *
124721 AAATTGCATCTAAATCCCTAAATCATGGAAAATGACTTAGATGACCCCAACATTCATA
1 AAATTGCATCAAAATCCCTAAATCATGGAAAATGACCTA-ATGACCCTAACATTCATA
124779 AAATTGCATCAAA
1 AAATTGCATCAAA
124792 GTCTATACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
57 1 0.01
58 110 0.98
59 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (57 bp):
AAATTGCATCAAAATCCCTAAATCATGGAAAATGACCTAATGACCCTAACATTCATA
Found at i:124823 original size:58 final size:58
Alignment explanation
Indices: 124626--124823 Score: 193
Period size: 58 Copynumber: 3.4 Consensus size: 58
124616 AAATTCTTAG
* * * * * ** *
124626 ATCATGAAAAATGACCTACATGACCCTAACATTTATAAAATTGCATAAAAATCCCTAA
1 ATCATGGAAAATGACTTAAATGACCCCAACATTCATAAAATTGCATCTAAATCCATAA
* * * * * *
124684 ATCATGGAAAATAACCTAAGTGGCCCTAACATTCATAAAATTGCATCTAAATCCCTAA
1 ATCATGGAAAATGACTTAAATGACCCCAACATTCATAAAATTGCATCTAAATCCATAA
* * *
124742 ATCATGGAAAATGACTTAGATGACCCCAACATTCATAAAATTGCATC-AAAGTCTATAC
1 ATCATGGAAAATGACTTAAATGACCCCAACATTCATAAAATTGCATCTAAA-TCCATAA
* *
124800 TTCATGGAAAGTGA-TATAAATGAC
1 ATCATGGAAAATGACT-TAAATGAC
124824 ATTACAATGC
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 4 0.03
58 114 0.97
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (58 bp):
ATCATGGAAAATGACTTAAATGACCCCAACATTCATAAAATTGCATCTAAATCCATAA
Found at i:124851 original size:58 final size:56
Alignment explanation
Indices: 124801--125065 Score: 212
Period size: 58 Copynumber: 4.6 Consensus size: 56
124791 AGTCTATACT
* * *
124801 TCATGGAAAGTGA-TATAAATGACATTACAATGCATGAAATGACATAAAAGTCCCTAAG
1 TCATGGAAAATGACTA-AAATGACA--AAAATGCATGAAATGACATAAAAGTCCATAAG
* * * *
124859 TCATGGAAAATGACTAAAATGACAAAAATGCTTGAGATGACATAAAA-TCCCTGAG
1 TCATGGAAAATGACTAAAATGACAAAAATGCATGAAATGACATAAAAGTCCATAAG
* * * * * * * *
124914 TCATAGAAAATGATTAAAATGACATAAGTATGAATGAAATAATATAAAAGTCCTTGAG
1 TCATGGAAAATGACTAAAATGACA-AA-AATGCATGAAATGACATAAAAGTCCATAAG
* * ** *
124972 TCATGAAAAATGATTAAAATGACATAAAAATGCATGAAACAACATAAACA-TCCATGAG
1 TCATGGAAAATGACTAAAATGAC--AAAAATGCATGAAATGACATAAA-AGTCCATAAG
* * *
125030 TCATGGAAAAATAACTAAGATGACCTAAAATGCATG
1 TCATGG-AAAATGACTAAAATGA-CAAAAATGCATG
125066 GGAGTTGCAA
Statistics
Matches: 172, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
55 29 0.17
56 22 0.13
57 15 0.09
58 86 0.50
59 18 0.10
60 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.23
Consensus pattern (56 bp):
TCATGGAAAATGACTAAAATGACAAAAATGCATGAAATGACATAAAAGTCCATAAG
Found at i:127709 original size:20 final size:20
Alignment explanation
Indices: 127686--127731 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
127676 ATTGCTTGGA
127686 TTTCTTATTGATTCTTGTTC
1 TTTCTTATTGATTCTTGTTC
*
127706 TTTCTTGTTGATTCTTGTTC
1 TTTCTTATTGATTCTTGTTC
127726 TTTCTT
1 TTTCTT
127732 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.07, C:0.15, G:0.11, T:0.67
Consensus pattern (20 bp):
TTTCTTATTGATTCTTGTTC
Found at i:127710 original size:10 final size:10
Alignment explanation
Indices: 127697--127744 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
127687 TTCTTATTGA
127697 TTCTTGTTCT
1 TTCTTGTTCT
**
127707 TTCTTGTTGA
1 TTCTTGTTCT
127717 TTCTTGTTCT
1 TTCTTGTTCT
*
127727 TTCTTTTTCT
1 TTCTTGTTCT
127737 TTCTTGTT
1 TTCTTGTT
127745 GTTCTTCAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.02, C:0.17, G:0.10, T:0.71
Consensus pattern (10 bp):
TTCTTGTTCT
Found at i:127721 original size:30 final size:29
Alignment explanation
Indices: 127687--127750 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
127677 TTGCTTGGAT
*
127687 TTCTTATTGATTCTTGTTCTTTCTTGTTG
1 TTCTTATTCATTCTTGTTCTTTCTTGTTG
* * *
127716 ATTCTTGTTCTTTCTTTTTCTTTCTTGTTG
1 -TTCTTATTCATTCTTGTTCTTTCTTGTTG
127746 TTCTT
1 TTCTT
127751 CAGCTGTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.05, C:0.16, G:0.11, T:0.69
Consensus pattern (29 bp):
TTCTTATTCATTCTTGTTCTTTCTTGTTG
Found at i:127740 original size:20 final size:20
Alignment explanation
Indices: 127686--127744 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
127676 ATTGCTTGGA
* *
127686 TTTCTTATTGATTCTTGTTC
1 TTTCTTGTTCATTCTTGTTC
*
127706 TTTCTTGTTGATTCTTGTTC
1 TTTCTTGTTCATTCTTGTTC
* *
127726 TTTCTTTTTCTTTCTTGTT
1 TTTCTTGTTCATTCTTGTT
127745 GTTCTTCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.05, C:0.15, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTCTTGTTCATTCTTGTTC
Found at i:128093 original size:20 final size:19
Alignment explanation
Indices: 128030--128096 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
128020 GATATAATTC
* *
128030 AATATGTATCAATACCAAG
1 AATATGTATCGATACTAAG
*
128049 AACATGTATCGATAC--AG
1 AATATGTATCGATACTAAG
128066 --TA--TATCGATACTAAG
1 AATATGTATCGATACTAAG
128081 CAATATGTATCGATAC
1 -AATATGTATCGATAC
128097 ATCTAGGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
17 2 0.05
18 2 0.05
19 13 0.34
20 9 0.24
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (19 bp):
AATATGTATCGATACTAAG
Found at i:128763 original size:21 final size:23
Alignment explanation
Indices: 128729--128798 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 23
128719 TGCCATTTTC
128729 AATTTAGTACTCCCCCTTAACAA
1 AATTTAGTACTCCCCCTTAACAA
128752 AATTT-GT-CTCCCCCTTAACGAA
1 AATTTAGTACTCCCCCTTAAC-AA
* *
128774 ACATTTAATACTCTCCCTTAACAA
1 A-ATTTAGTACTCCCCCTTAACAA
128798 A
1 A
128799 TTATCCCCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 12 0.29
22 5 0.12
23 9 0.22
24 4 0.10
25 11 0.27
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTTAGTACTCCCCCTTAACAA
Found at i:133446 original size:43 final size:43
Alignment explanation
Indices: 133398--133483 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
133388 TCAACTTCTT
133398 CATCATCATCATTTTCATCATCATT-ATTGGTTGACTTGAAGGC
1 CATCATCATCATTTTCATCATCATTGA-TGGTTGACTTGAAGGC
133441 CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
1 CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
133484 GACACTTGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (43 bp):
CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
Found at i:134832 original size:10 final size:10
Alignment explanation
Indices: 134808--134846 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
134798 ATTGCTTGGA
*
134808 TTTCTTGTTG
1 TTTCTTGTTC
*
134818 ATTCTTGTTC
1 TTTCTTGTTC
*
134828 TTTCTTTTTC
1 TTTCTTGTTC
134838 TTTCTTGTT
1 TTTCTTGTT
134847 GTTCTGCAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.03, C:0.15, G:0.10, T:0.72
Consensus pattern (10 bp):
TTTCTTGTTC
Found at i:135077 original size:21 final size:21
Alignment explanation
Indices: 135036--135077 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
135026 ATTGGGCTTA
* *
135036 ATGTATCGATATAATTCAAGT
1 ATGTATCGATAAAAGTCAAGT
135057 ATGTATCGATACAAAGT-AAGT
1 ATGTATCGATA-AAAGTCAAGT
135078 TTTAGCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGTATCGATAAAAGTCAAGT
Found at i:135122 original size:20 final size:19
Alignment explanation
Indices: 135097--135167 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
135087 TGCCAGTTTC
135097 ATGTATCGATA-TAATTCAAT
1 ATGTATCGATACTAA--CAAT
* * * *
135117 ATGTATCAATACCAAGAAC
1 ATGTATCGATACTAACAAT
*
135136 ATGTATCGATAGTAAGCAAT
1 ATGTATCGATACTAA-CAAT
135156 ATGTATCGATAC
1 ATGTATCGATAC
135168 ATCTGGGTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
19 14 0.36
20 23 0.59
21 2 0.05
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACTAACAAT
Found at i:138825 original size:20 final size:20
Alignment explanation
Indices: 138802--138847 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
138792 AAATATATCA
138802 ATACAT-GGCCAAATGTATTG
1 ATACATAGGCC-AATGTATTG
138822 ATACATAGGCCAATGTATTG
1 ATACATAGGCCAATGTATTG
138842 ATACAT
1 ATACAT
138848 TTTAGCCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
ATACATAGGCCAATGTATTG
Found at i:138860 original size:21 final size:22
Alignment explanation
Indices: 138808--138869 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 22
138798 ATCAATACAT
138808 GGCCAAATGTATTGATACA--TA
1 GGCC-AATGTATTGATACATTTA
138829 GGCCAATGTATTGATACATTTTA
1 GGCCAATGTATTGATACA-TTTA
*
138852 -GCC-ATGTATGGATACATT
1 GGCCAATGTATTGATACATT
138870 GAGACATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 16 0.43
21 16 0.43
22 3 0.08
23 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (22 bp):
GGCCAATGTATTGATACATTTA
Found at i:139733 original size:20 final size:19
Alignment explanation
Indices: 139708--139805 Score: 94
Period size: 20 Copynumber: 5.7 Consensus size: 19
139698 TTTCAACGAT
139708 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
139728 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
139742 -TGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
139761 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
139775 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
139793 TTGTATCGATACA
1 TTGTATCGATACA
139806 ATGTACCAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 2 0.03
16 2 0.03
17 4 0.06
19 12 0.18
20 23 0.35
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:139747 original size:13 final size:13
Alignment explanation
Indices: 139729--139786 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
139719 CATAAAGTGT
139729 TGTATCGATACAA
1 TGTATCGATACAA
139742 TGTATCGATACATAAA
1 TGTATCGATAC---AA
139758 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
139775 TGTATCGATACA
1 TGTATCGATACA
139787 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:139797 original size:32 final size:33
Alignment explanation
Indices: 139709--139842 Score: 227
Period size: 32 Copynumber: 4.1 Consensus size: 33
139699 TTCAACGATT
139709 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
139742 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
139775 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* * *
139807 TGTACCAATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
139839 TGTA
1 TGTA
139843 AGCTACTGCC
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 52 0.53
33 46 0.47
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:139863 original size:65 final size:65
Alignment explanation
Indices: 139729--139870 Score: 155
Period size: 65 Copynumber: 2.2 Consensus size: 65
139719 CATAAAGTGT
* * * ****
139729 TGTATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
1 TGTATCGATACAATGTACCAATACATAAAGTGTTGTATCGATACAATGTATAGATACATAAAAAA
* *
139794 TGTATCGATACAATGTACCAATACAT-AAGTTTTGTATCGATACAATGTA-AGCTAC-TGCCAAA
1 TGTATCGATACAATGTACCAATACATAAAGTGTTGTATCGATACAATGTATAGATACAT---AAA
139856 AAA
63 AAA
139859 TGTATCGATACA
1 TGTATCGATACA
139871 CTACCCAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 1 0.02
63 4 0.06
64 22 0.34
65 38 0.58
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (65 bp):
TGTATCGATACAATGTACCAATACATAAAGTGTTGTATCGATACAATGTATAGATACATAAAAAA
Found at i:139898 original size:13 final size:13
Alignment explanation
Indices: 139880--139904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
139870 ACTACCCAAA
139880 TGTATCGATACAT
1 TGTATCGATACAT
139893 TGTATCGATACA
1 TGTATCGATACA
139905 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:146812 original size:9 final size:9
Alignment explanation
Indices: 146779--146824 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
146769 AAAATGATGA
146779 AAAAAAAAC
1 AAAAAAAAC
* *
146788 AACAACAAC
1 AAAAAAAAC
146797 AACAAAAAAC
1 AA-AAAAAAC
146807 AAAAAAAAC
1 AAAAAAAAC
146816 AAAATAAAA
1 AAAA-AAAA
146825 AAGTGCAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 20 0.65
10 11 0.35
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:147465 original size:31 final size:29
Alignment explanation
Indices: 147412--147470 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
147402 TTGTTGGAAA
* *
147412 CAAACCATTATCTTTCTTGTCAAACAAAT
1 CAAACCATTATCTTTATCGTCAAACAAAT
*
147441 CAAACCATATCATCTTTATCGTCAAGCAAA
1 CAAACCAT-T-ATCTTTATCGTCAAACAAA
147471 CCTTTTGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 1 0.04
31 16 0.64
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (29 bp):
CAAACCATTATCTTTATCGTCAAACAAAT
Found at i:148269 original size:100 final size:99
Alignment explanation
Indices: 148157--148623 Score: 478
Period size: 100 Copynumber: 4.7 Consensus size: 99
148147 CCTTTTCTGC
148157 AAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTT-CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
*
148222 AAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTT
65 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
* * ** * *
148257 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTTGTAGCGCC--CTTTT-
1 AAAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
* *
148319 AAAGCCCACAACTCCGTGGCACTCTTTTCCCCTTTT
65 AAAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTT
* * * * * **
148355 AAAGTCCACAACCCCGTGGCAC-C--AT--TTTAAAGCCCATAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACGACTCCGTGGCAC-C---TT--C
* * * * *
148415 TTTT-AAAGTCCACAACCCCGTGGCACCGTGTTCC-TTTT
60 TTTTCAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
* ** *
148453 -AAGTCCATGACTCTGTGGCAC-C--TT-CTTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTT--AAGTCCACGACTCCGTGGCACCTTCTTTT
*
148513 CAAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTT
64 CAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
*
148549 AAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACGACTCCGTGCCACCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTT-CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
148614 AAAGCCCACA
65 AAAGCCCACA
148624 CAAGTCGGTG
Statistics
Matches: 300, Mismatches: 46, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
92 17 0.06
93 1 0.00
94 6 0.02
95 24 0.08
96 6 0.02
97 57 0.19
98 45 0.15
99 6 0.02
100 129 0.43
101 4 0.01
102 5 0.02
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (99 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
AAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
Found at i:148364 original size:36 final size:34
Alignment explanation
Indices: 148312--148607 Score: 230
Period size: 36 Copynumber: 8.9 Consensus size: 34
148302 CTTTGTAGCG
*
148312 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
*
148347 CCCCTTTTAAAGTCCACAACCCCGTGGCA------
1 -CCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
148376 CCATTTTAAAGCCCATAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCAC-C-TTTT
* *
148412 CCCTTTTAAAGTCCACAACCCCGTGGCACCGTGTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACC-TTTT
** *
148447 -CCTTTT-AAGTCCATGACTCTGTGGCACC--TT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
148477 --CTTTTCAAAGTCCACGACTCCGTGGCACC--TT
1 CCCTTTT-AAAGTCCACAACTCCGTGGCACCTTTT
* * *
148508 --CTTTTCAAAGCCCACAACTCTGTGGCATCTTTTT
1 CCCTTTT-AAAGTCCACAACTCCGTGGCA-CCTTTT
* *
148542 CCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
148577 CCCTTTT-AAGTCCACGACTCCGTGCCACCTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTT
148608 CTTTTCAAAG
Statistics
Matches: 215, Mismatches: 29, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
28 24 0.11
29 5 0.02
30 2 0.01
31 46 0.21
32 1 0.00
33 21 0.10
34 27 0.13
35 34 0.16
36 55 0.26
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (34 bp):
CCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:148396 original size:64 final size:64
Alignment explanation
Indices: 148253--148576 Score: 310
Period size: 64 Copynumber: 5.1 Consensus size: 64
148243 TCTTTTTCCT
* * ** * *
148253 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGTCCACAACTTTGTAGCGCC-C
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTC
* *
148315 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACC-A
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTT-CCCTTTTAAAGTCCACAACTCCGTGGCACCTC
* *
148379 TTTTAAAGCCCATAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCGT
1 TTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAAGTCCACAACTCCGTGGCACC--
148444 GTTCC
63 --T-C
* ** * *
148449 TTTT-AAGTCCATGACTCTGTGGCAC-C--TT--CTTTTCAAAGTCCACGACTCCGTGGCACCTT
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTT-AAAGTCCACAACTCCGTGGCACC-T
148508 C
64 C
* * *
148509 TTTTCAAAGCCCACAACTCTGTGGCA-TCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCA-CT
1 TTTT-AAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCT
148572 C
64 C
148573 TTTT
1 TTTT
148577 CCCTTTTAAG
Statistics
Matches: 223, Mismatches: 21, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
60 5 0.02
61 2 0.01
62 50 0.22
63 10 0.04
64 101 0.45
65 9 0.04
66 19 0.09
67 4 0.02
68 1 0.00
69 18 0.08
70 4 0.02
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (64 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTC
Found at i:148496 original size:31 final size:31
Alignment explanation
Indices: 148461--148622 Score: 148
Period size: 31 Copynumber: 5.0 Consensus size: 31
148451 TTAAGTCCAT
* *
148461 GACTCTGTGGCACCTTCTTTTCAAAGTCCAC
1 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
148492 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
1 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
* * * *
148523 AACTCTGTGGCATCTTTTTCCTTTTTAAAGCCCAC
1 GACTCCGTGGCA-C--CTT-CTTTTCAAAGCCCAC
* *
148558 AACTCCGTGGCACTCTTTTCCCTTTT--AAGTCCAC
1 GACTCCGTGGCAC-C--TT--CTTTTCAAAGCCCAC
*
148592 GACTCCGTGCCACCTTCTTTTCAAAGCCCAC
1 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
148623 ACAAGTCGGT
Statistics
Matches: 110, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
29 5 0.05
31 48 0.44
32 1 0.01
33 2 0.02
34 21 0.19
35 27 0.25
36 6 0.05
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.32
Consensus pattern (31 bp):
GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
Found at i:148596 original size:131 final size:128
Alignment explanation
Indices: 148157--148623 Score: 391
Period size: 131 Copynumber: 3.6 Consensus size: 128
148147 CCTTTTCTGC
* * *
148157 AAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAAGCCCACAACCCCGTGGCAC-CGTGTT-CCTTTTAAGTCCACGACTCCGTGCCACCTTCTTTT
* * * *
148221 CAAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
64 CAAAGTCCACAACCCCGTGGCA-------CCATTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
148286 -CCTTCT
122 CCCTTTT
* * * * * * * * *
148292 -AAGTCCACAA---CTTTGTA--GCG-CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
1 AAAGCCCACAACCCCGTGGCACCGTGTTCCTTTT-AAGTCCACGACTCCGTGCCAC-C--TT---
*
148350 CTTTT-AAAGTCCACAACCCCGTGGCACCATTTTAAAGCCCATAACTCCGTGGCACTCTTTTTCC
59 CTTTTCAAAGTCCACAACCCCGTGGCACCATTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
148414 CTTTT
124 CTTTT
* * * *
148419 AAAGTCCACAACCCCGTGGCACCGTGTTCCTTTTAAGTCCATGACTCTGTGGCACCTTCTTTTCA
1 AAAGCCCACAACCCCGTGGCACCGTGTTCCTTTTAAGTCCACGACTCCGTGCCACCTTCTTTTCA
* * * * *
148484 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCA-TCTTTTTCCTTTT
66 AAGTCCACAACCCCGTGGCACC--ATTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
148548 T
128 T
* *
148549 AAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAGTCCACGACTCCGTGCCACCTTCTTTT
1 AAAGCCCACAACCCCGTGGCAC-CGTGTT-CCTTTTAAGTCCACGACTCCGTGCCACCTTCTTTT
*
148613 CAAAGCCCACA
64 CAAAGTCCACA
148624 CAAGTCGGTG
Statistics
Matches: 272, Mismatches: 38, Indels: 48
0.76 0.11 0.13
Matches are distributed among these distances:
126 34 0.12
127 16 0.06
128 50 0.18
129 1 0.00
130 42 0.15
131 71 0.26
132 1 0.00
133 37 0.14
134 20 0.07
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (128 bp):
AAAGCCCACAACCCCGTGGCACCGTGTTCCTTTTAAGTCCACGACTCCGTGCCACCTTCTTTTCA
AAGTCCACAACCCCGTGGCACCATTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
Found at i:148611 original size:36 final size:35
Alignment explanation
Indices: 148379--148613 Score: 122
Period size: 31 Copynumber: 6.9 Consensus size: 35
148369 CGTGGCACCA
* *
148379 TTTTAAAGCCCATAACTCCGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGCCACTC-TTTTCCC
* * * *
148415 TTTTAAAGTCCACAACCCCGTGGCAC-CGTGTT-CC
1 TTTTAAAGCCCACAACTCCGTGCCACTC-TTTTCCC
* ** * *
148449 TTTT-AAGTCCATGACTCTGTGGCAC-C--TT--C
1 TTTTAAAGCCCACAACTCCGTGCCACTCTTTTCCC
* * *
148478 TTTTCAAAGTCCACGACTCCGTGGCAC-C--TT--C
1 TTTT-AAAGCCCACAACTCCGTGCCACTCTTTTCCC
* * *
148509 TTTTCAAAGCCCACAACTCTGTGGCA-TCTTTTTCCT
1 TTTT-AAAGCCCACAACTCCGTGCCACTC-TTTTCCC
*
148545 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGCCACTCTTTTCCC
* *
148580 TTTT-AAGTCCACGACTCCGTGCCACCTTCTTTTC
1 TTTTAAAGCCCACAACTCCGTGCCA-C-TCTTTTC
148614 AAAGCCCACA
Statistics
Matches: 168, Mismatches: 20, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
29 5 0.03
30 2 0.01
31 47 0.28
33 18 0.11
34 25 0.15
35 35 0.21
36 36 0.21
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.34
Consensus pattern (35 bp):
TTTTAAAGCCCACAACTCCGTGCCACTCTTTTCCC
Found at i:148649 original size:32 final size:33
Alignment explanation
Indices: 148614--148739 Score: 211
Period size: 32 Copynumber: 3.9 Consensus size: 33
148604 CCTTCTTTTC
148614 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
148646 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * *
148678 AAAGCCCACACAAGTTGGTGGAAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
148711 AAAGCCCACACAAGTCGGTGGCAACCCTT
1 AAAGCCCACACAAGTCGGTGGCAACCCTT
148740 TTAAGCCCAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 4 0.05
32 51 0.59
33 31 0.36
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:148799 original size:49 final size:49
Alignment explanation
Indices: 148739--149211 Score: 496
Period size: 49 Copynumber: 9.8 Consensus size: 49
148729 TGGCAACCCT
* *
148739 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
148788 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
148833 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
148880 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACC-TC--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
148926 ---AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
148972 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----T-ACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
149015 TTTAAGTCCAATATCGCTGGACTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
149064 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATC
* * * * *
149116 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGTACATTGACATCCTTGTTCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATC
* * * * *
149171 TTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
149212 TCTTTATCAC
Statistics
Matches: 353, Mismatches: 46, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
43 107 0.30
44 4 0.01
45 2 0.01
46 4 0.01
47 2 0.01
48 4 0.01
49 147 0.42
51 2 0.01
52 41 0.12
53 2 0.01
55 37 0.10
56 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:148903 original size:92 final size:92
Alignment explanation
Indices: 148741--149107 Score: 653
Period size: 92 Copynumber: 4.0 Consensus size: 92
148731 GCAACCCTTT
148741 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
148806 GGCCTTGAATCAGCACATTGGCACCTC
66 GGCCTTGAATCAGCACATTGGCACCTC
148833 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
148898 AGCCTTGAATCAGCACATTGGCACCTC
66 GGCCTTGAATCAGCACATTGGCACCTC
* * *
148925 CAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
148990 GGCCTTGAATCAGCACATTGGTACCTT
66 GGCCTTGAATCAGCACATTGGCACCTC
* *
149017 TAAGTCCAATATCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
149082 GGCCTTGAATCAGCATATTGGCACCT
66 GGCCTTGAATCAGCACATTGGCACCT
149108 TTTCCATCTT
Statistics
Matches: 263, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 263 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTC
Done.