Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 113 of 120
Found at i:16858177 original size:36 final size:38
Alignment explanation
Indices: 16858119--16858212 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 38
16858109 TTATTTTAAA
* *
16858119 TTAAATTTAAATTATAAA-ATTAAAATTT-GATCAAAT
1 TTAAATTTAAATTTTAAATATTAAAATTTAAATCAAAT
16858155 TTAAA-TTAAATTTTAAATATT-AAATTTAAAATCAAAT
1 TTAAATTTAAATTTTAAATATTAAAATTT-AAATCAAAT
16858192 TTAAATTTAAA-TTT-AATATTA
1 TTAAATTTAAATTTTAAATATTA
16858213 TATCAATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
35 17 0.33
36 14 0.27
37 15 0.29
38 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (38 bp):
TTAAATTTAAATTTTAAATATTAAAATTTAAATCAAAT
Found at i:16861895 original size:28 final size:28
Alignment explanation
Indices: 16861855--16861935 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
16861845 TTTGGTTAAG
16861855 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* * *
16861883 AATGATTGTTTG-AATTTTACAAGGGTA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* ** *
16861910 AAAGATTGGATGAAAACTTACAAGTG
1 AATGATTGTTTGAAATCTTACAAGTG
16861936 ATGATTTTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
27 21 0.49
28 22 0.51
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (28 bp):
AATGATTGTTTGAAATCTTACAAGTGCA
Found at i:16861916 original size:27 final size:28
Alignment explanation
Indices: 16861858--16861933 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 28
16861848 GGTTAAGAAT
* *
16861858 GATTGTTTGAAATCTTACAAGTGCAAAT
1 GATTGTTTGAAATCTTACAAGGGCAAAA
* *
16861886 GATTGTTTG-AATTTTACAAGGGTAAAA
1 GATTGTTTGAAATCTTACAAGGGCAAAA
** *
16861913 GATTGGATGAAAACTTACAAG
1 GATTGTTTGAAATCTTACAAG
16861934 TGATGATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (28 bp):
GATTGTTTGAAATCTTACAAGGGCAAAA
Found at i:16862561 original size:3 final size:3
Alignment explanation
Indices: 16862548--16862581 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16862538 TGGGTTTATC
16862548 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16862582 TTTAATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:16862668 original size:42 final size:43
Alignment explanation
Indices: 16862564--16862669 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 43
16862554 TATTATTATT
* *
16862564 ATTATTATTATTATTATTTTTAATTATCTGTTCTGATTTTTCCTG
1 ATTATTATTA-TATT-TTTTTAAATATCTGTTCTGATTTATCCTG
* * *
16862609 ATTATCAGATATTTTTTTTTAAATATCT-TT-TGATTTAT-CTG
1 ATTATTA-TTATATTTTTTTAAATATCTGTTCTGATTTATCCTG
16862650 ATTATTATCTAGTATTTTTT
1 ATTATTAT-TA-TATTTTTT
16862670 ATTTTTGATT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
41 11 0.22
42 14 0.28
43 2 0.04
44 12 0.24
45 9 0.18
46 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.61
Consensus pattern (43 bp):
ATTATTATTATATTTTTTTAAATATCTGTTCTGATTTATCCTG
Found at i:16862965 original size:24 final size:25
Alignment explanation
Indices: 16862933--16862985 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
16862923 CTGGGAGTGA
16862933 GAAAAAA-TTTCTAGAAATTT-TGG
1 GAAAAAATTTTCTAGAAATTTCTGG
16862956 CGAAAAAATTTTCTAGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
16862982 GAAA
1 GAAA
16862986 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.26
25 17 0.63
26 3 0.11
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:16863077 original size:19 final size:19
Alignment explanation
Indices: 16863053--16863092 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16863043 GCCAACTTGA
16863053 AGTTTCCGGCAACAATCCC
1 AGTTTCCGGCAACAATCCC
* *
16863072 AGTTTCCGGCGAGAATCCC
1 AGTTTCCGGCAACAATCCC
16863091 AG
1 AG
16863093 AAACAGGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (19 bp):
AGTTTCCGGCAACAATCCC
Found at i:16863143 original size:20 final size:19
Alignment explanation
Indices: 16863116--16863166 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16863106 TTCGGCAACT
*
16863116 TCCGGCGAAATTCTCCAGAT
1 TCCGGCGAAATT-TCCAGAA
*
16863136 TTCGGCGAGAATTTCCAGAA
1 TCCGGCGA-AATTTCCAGAA
16863156 TCCGGCGAAAT
1 TCCGGCGAAAT
16863167 CCCACCGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 20 0.74
21 4 0.15
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (19 bp):
TCCGGCGAAATTTCCAGAA
Found at i:16863678 original size:59 final size:58
Alignment explanation
Indices: 16863600--16863993 Score: 483
Period size: 59 Copynumber: 6.7 Consensus size: 58
16863590 AATTTTCAAA
* *
16863600 AAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTC
* * *
16863659 AAAAAAATATTTTTGGGGAAAAGTCGAAAGTATCAATTTTTCTTAAAAAT-AAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
*** * *
16863716 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCCAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTC
* ** * *
16863775 CAAAAAATATTTTTAGGAAAAAAGTTG-AAGTATCAA-TTTCCTTGGAAATAAATTTTC
1 AAAAAAATATTTTT-GGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
*
16863832 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTC
1 --AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATAAAATTTC
* * * *
16863892 AAAAAAAAATAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTC
1 --AAAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
*
16863953 AAGAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16863994 CTTAACAAAA
Statistics
Matches: 292, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
57 87 0.30
58 23 0.08
59 100 0.34
60 38 0.13
61 43 0.15
62 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
Found at i:16863736 original size:116 final size:113
Alignment explanation
Indices: 16863603--16863993 Score: 466
Period size: 116 Copynumber: 3.3 Consensus size: 113
16863593 TTTCAAAAAA
*
16863603 AAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAATA
1 AAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAATA
* * *
16863668 TTTTTGGGGAAAAGTCGAAAGTATCAATTTTTCTTAAAAATAAATTTC
66 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
* * *
16863716 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCCAAATTTCCAAAAA
1 AAAAAA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAA
** *
16863781 ATATTTTTAGGAAAAAAGTTG-AAGTATCAA-TTTCCTTGGAAATAAATTTTC
63 ATATTTTT-GGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA-TTTC
*
16863832 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTTCAAA
1 ----AAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTTC--A
* * * *
16863895 AAAAAATAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTC
58 AAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTTC
16863953 AAGAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AA-AAAAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16863994 CTTAACAAAA
Statistics
Matches: 238, Mismatches: 21, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
113 6 0.03
115 13 0.05
116 73 0.31
117 20 0.08
118 73 0.31
119 16 0.07
120 19 0.08
121 15 0.06
122 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (113 bp):
AAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAATA
TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
Found at i:16863992 original size:57 final size:57
Alignment explanation
Indices: 16863602--16863993 Score: 429
Period size: 57 Copynumber: 6.7 Consensus size: 57
16863592 TTTTCAAAAA
* *
16863602 AAAAAAAT-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAATTAAAATTTC
* * * *
16863659 AAAAAAATATTTTTGGGGAAAAGTCGAAAGTATCAATTTTTCTTAAAAAT-AAATTTC
1 AAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTC
* * **
16863716 AAAAAAGGGT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCCAAATTTC
1 AAAAAA--ATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAATTAAAATTTC
* ** *
16863775 CAAAAAATATTTTTAGGAAAAAAGTTG-AAGTATCAA-TTTCCTTGGAAA-TAAATTTTC
1 AAAAAAATA-TTTT-GGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAATTAAAATTTC
*
16863832 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-TAAATTTTC
1 --AAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAATTAAAATTTC
* *
16863892 AAAAAAAAATAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTC
1 --AAAAAAAT--ATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTC
*
16863953 AAGAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16863994 CTTAACAAAA
Statistics
Matches: 288, Mismatches: 30, Indels: 34
0.82 0.09 0.10
Matches are distributed among these distances:
57 91 0.32
58 26 0.09
59 87 0.30
60 43 0.15
61 40 0.14
62 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (57 bp):
AAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTC
Found at i:16867180 original size:15 final size:15
Alignment explanation
Indices: 16867160--16867204 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
16867150 ATACATGCAT
16867160 TTCTCATTCATTACA
1 TTCTCATTCATTACA
*
16867175 TTCTCATTCATTGCA
1 TTCTCATTCATTACA
16867190 TTCTCATTCATTACA
1 TTCTCATTCATTACA
16867205 CTTACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (15 bp):
TTCTCATTCATTACA
Found at i:16873640 original size:17 final size:18
Alignment explanation
Indices: 16873609--16873642 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16873599 GTAAATTCTG
*
16873609 ATGCTGTGAAGAAATACT
1 ATGCTGTGAAAAAATACT
16873627 ATGCT-TGAAAAAATAC
1 ATGCTGTGAAAAAATAC
16873643 AAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (18 bp):
ATGCTGTGAAAAAATACT
Found at i:16873672 original size:9 final size:9
Alignment explanation
Indices: 16873644--16873742 Score: 91
Period size: 9 Copynumber: 11.2 Consensus size: 9
16873634 AAAAAATACA
16873644 AAAAAAAT-
1 AAAAAAATG
16873652 AAAAAAAT-
1 AAAAAAATG
16873660 AAAAAAATG
1 AAAAAAATG
16873669 -AAAAAATG
1 AAAAAAATG
*
16873677 GAAAAAATG
1 AAAAAAATG
16873686 --AAAAATG
1 AAAAAAATG
*
16873693 ATGAAAAATG
1 A-AAAAAATG
16873703 AAAAAAAATG
1 -AAAAAAATG
*
16873713 GAAAAAATGG
1 AAAAAAAT-G
*
16873723 AAAAAAAAG
1 AAAAAAATG
*
16873732 AAAAAAGTG
1 AAAAAAATG
16873741 AA
1 AA
16873743 TGAAAAAGGA
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
7 7 0.09
8 24 0.31
9 25 0.32
10 21 0.27
11 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (9 bp):
AAAAAAATG
Found at i:16873707 original size:8 final size:8
Alignment explanation
Indices: 16873645--16873742 Score: 81
Period size: 8 Copynumber: 11.2 Consensus size: 8
16873635 AAAAATACAA
*
16873645 AAAAAATA
1 AAAAAATG
*
16873653 AAAAAATA
1 AAAAAATG
16873661 AAAAAATG
1 AAAAAATG
16873669 AAAAAATGG
1 AAAAAAT-G
16873678 AAAAAATG
1 AAAAAATG
16873686 -AAAAATG
1 AAAAAATG
16873693 ATGAAAAATG
1 A--AAAAATG
16873703 AAAAAAAATGG
1 --AAAAAAT-G
16873714 AAAAAATGG
1 AAAAAAT-G
*
16873723 AAAAAAAAG
1 -AAAAAATG
16873732 AAAAAAGTG
1 AAAAAA-TG
16873741 AA
1 AA
16873743 TGAAAAAGGA
Statistics
Matches: 78, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
7 7 0.09
8 29 0.37
9 21 0.27
10 19 0.24
11 1 0.01
12 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:16874916 original size:41 final size:41
Alignment explanation
Indices: 16874756--16875331 Score: 837
Period size: 41 Copynumber: 14.0 Consensus size: 41
16874746 GTCTAGGAGT
*
16874756 ATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
16874797 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
16874839 ATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
16874879 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
16874920 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
16874962 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
16875003 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
16875044 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
16875085 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
16875127 ATTTATTTTTCCAAAATCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
16875169 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
16875210 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
16875252 ATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * *
16875292 ATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
16875332 TTCGGCAAAA
Statistics
Matches: 494, Mismatches: 23, Indels: 36
0.89 0.04 0.07
Matches are distributed among these distances:
39 13 0.03
40 67 0.14
41 214 0.43
42 196 0.40
43 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:16874981 original size:83 final size:81
Alignment explanation
Indices: 16874756--16875331 Score: 831
Period size: 83 Copynumber: 7.0 Consensus size: 81
16874746 GTCTAGGAGT
* *
16874756 ATTTA-TTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGT
1 ATTTACTTTTCCAAAG--TCGTTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGTCGTGGT
* *
16874820 ACCTCTGTTGAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
16874839 ATTTAC-TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
16874903 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
16874920 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
16874985 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* *
16875003 ATTTA-TTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTA
1 ATTTACTTTTCCAAAG-T-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
16875067 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* * * *
16875085 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAATCGTGGT
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGT
16875150 GCCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
*
16875169 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGT
*
16875233 GCCTCTGTTGAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* *
16875252 ATTTAC-TTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAG
1 ATTTACTTTTCCAAAGT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTG
*
16875315 TCTCTGTTTAGAGGAGC
64 CCTCTGTTTAGAGGAGC
16875332 TTCGGCAAAA
Statistics
Matches: 459, Mismatches: 21, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
80 1 0.00
81 74 0.16
82 142 0.31
83 197 0.43
84 45 0.10
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (81 bp):
ATTTACTTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
TCTGTTTAGAGGAGCA
Found at i:16875344 original size:1 final size:1
Alignment explanation
Indices: 16875338--16875437 Score: 74
Period size: 1 Copynumber: 100.0 Consensus size: 1
16875328 GAGCTTCGGC
* * * * * ** * *
16875338 AAAAAAAAAACAAAAAAATAAAAACAAAAAAACAAAAACAAAAAAATCAAAAAAAATAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ** *
16875403 AAAAACAAAAATAAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16875438 TGTTGAGTTG
Statistics
Matches: 73, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:16875390 original size:46 final size:49
Alignment explanation
Indices: 16875340--16875431 Score: 145
Period size: 46 Copynumber: 1.9 Consensus size: 49
16875330 GCTTCGGCAA
*
16875340 AAAAAAAACAAAAAAATAAAAAC-AAAA-AAACAAAAA-CAAAAAAATC
1 AAAAAAAACAAAAAAATAAAAACAAAAATAAAAAAAAATCAAAAAAATC
*
16875386 AAAAAAAATAAAAAAATAAAAACAAAAATAAAAAAAAATCAAAAAA
1 AAAAAAAACAAAAAAATAAAAACAAAAATAAAAAAAAATCAAAAAA
16875432 TAAAAATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 22 0.54
47 4 0.10
48 8 0.20
49 7 0.17
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.07
Consensus pattern (49 bp):
AAAAAAAACAAAAAAATAAAAACAAAAATAAAAAAAAATCAAAAAAATC
Found at i:16875432 original size:38 final size:37
Alignment explanation
Indices: 16875338--16875437 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 37
16875328 GAGCTTCGGC
16875338 AAAAAAAAAA-CAAAAAAATAAAAACAAAAAAACAAA
1 AAAAAAAAAATCAAAAAAATAAAAACAAAAAAACAAA
*
16875374 AACAAAAAAATCAAAAAAAATAAAAA-AATAAAAACAAAA
1 AAAAAAAAAATC-AAAAAAATAAAAACAA-AAAAAC-AAA
16875413 ATAAAAAAAAATC-AAAAAATAAAAA
1 A-AAAAAAAAATCAAAAAAATAAAAA
16875438 TGTTGAGTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
36 9 0.16
37 3 0.05
38 31 0.54
39 4 0.07
40 10 0.18
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (37 bp):
AAAAAAAAAATCAAAAAAATAAAAACAAAAAAACAAA
Found at i:16875438 original size:14 final size:14
Alignment explanation
Indices: 16875338--16875437 Score: 96
Period size: 14 Copynumber: 6.8 Consensus size: 14
16875328 GAGCTTCGGC
16875338 AAAAA-AAAAACAA
1 AAAAATAAAAACAA
16875351 AAAAATAAAAACAA
1 AAAAATAAAAACAA
*
16875365 AAAAACAAAAACAA
1 AAAAATAAAAACAA
*
16875379 AAAAATCAAAAAAAATAA
1 AAAAAT----AAAAACAA
16875397 AAAAATAAAAACAA
1 AAAAATAAAAACAA
*
16875411 AAATAA-AAAAAAATCA
1 AAA-AATAAAAACA--A
16875427 AAAAATAAAAA
1 AAAAATAAAAA
16875438 TGTTGAGTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
13 5 0.07
14 42 0.58
15 4 0.05
16 9 0.12
18 13 0.18
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAATAAAAACAA
Found at i:16875772 original size:3 final size:3
Alignment explanation
Indices: 16875759--16875792 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16875749 TGGGTTTATC
16875759 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16875793 TTTAATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:16875880 original size:42 final size:44
Alignment explanation
Indices: 16875775--16875881 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 44
16875765 TATTATTATT
* *
16875775 ATTATTATTATTATTATTTTTAATTATCTGTTCTGATTTTTCCTG
1 ATTATTATTATTATT-TTTTTAAATATCTGTTCTGATTTATCCTG
* * *
16875820 ATTATCAGATATTTTTTTTTTAAATATCT-TT-TGATTTAT-CTG
1 ATTATTA-TTATTATTTTTTTAAATATCTGTTCTGATTTATCCTG
*
16875862 ATTATTATCTAGTATTTTTT
1 ATTATTAT-TATTATTTTTT
16875882 ATTTTTGATT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
42 18 0.35
43 7 0.14
44 2 0.04
45 18 0.35
46 6 0.12
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (44 bp):
ATTATTATTATTATTTTTTTAAATATCTGTTCTGATTTATCCTG
Found at i:16876174 original size:25 final size:25
Alignment explanation
Indices: 16876145--16876198 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
16876135 CTGGAAGTGA
*
16876145 GAAAAAA-TTTCTAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
*
16876169 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
16876195 GAAA
1 GAAA
16876199 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:16876242 original size:31 final size:31
Alignment explanation
Indices: 16876207--16876277 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
16876197 AATTTCCAGA
* ** *
16876207 TTCCGGCAAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCAAAAATTCCGGCCAAACTTGAAGT
* * *
16876238 TTCCGGCGATAGTTCCGGCCAAACTTGAAGT
1 TTCCGGCAAAAATTCCGGCCAAACTTGAAGT
16876269 TTCCGGCAA
1 TTCCGGCAA
16876278 CAATCCCAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (31 bp):
TTCCGGCAAAAATTCCGGCCAAACTTGAAGT
Found at i:16876288 original size:19 final size:20
Alignment explanation
Indices: 16876266--16876306 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
16876256 CCAAACTTGA
16876266 AGTTTCCGGC-AACAATCCC
1 AGTTTCCGGCGAACAATCCC
*
16876285 AGTTTCCGGCGAAGAATCCC
1 AGTTTCCGGCGAACAATCCC
16876305 AG
1 AG
16876307 AAACCGGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.20
Consensus pattern (20 bp):
AGTTTCCGGCGAACAATCCC
Found at i:16876340 original size:11 final size:11
Alignment explanation
Indices: 16876310--16876349 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16876300 ATCCCAGAAA
*
16876310 CCGGCGATCTT
1 CCGGCGAACTT
*
16876321 TCGGC-AACTT
1 CCGGCGAACTT
16876331 CCGGCGAACTT
1 CCGGCGAACTT
16876342 CCGGCGAA
1 CCGGCGAA
16876350 ATTCTCCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (11 bp):
CCGGCGAACTT
Found at i:16876365 original size:20 final size:19
Alignment explanation
Indices: 16876340--16876391 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
16876330 TCCGGCGAAC
16876340 TTCCGGCGAAATTCTCCAGA
1 TTCCGGCGAAATT-TCCAGA
16876360 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGA-AATTTCCAGA
*
16876380 ATCCGGCGAAAT
1 TTCCGGCGAAAT
16876392 CCCACCGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (19 bp):
TTCCGGCGAAATTTCCAGA
Found at i:16876906 original size:59 final size:58
Alignment explanation
Indices: 16876820--16877232 Score: 524
Period size: 59 Copynumber: 6.9 Consensus size: 58
16876810 TCTTTAAATA
* * *
16876820 AAAATAAATTTTCAAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTC--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
16876880 AAAATCAAAATTTCAAAAAAATATTTTTGGGGAAAAGTCGAAAGTATCAATTTTTCTTA
1 AAAAT-AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
*** *
16876939 AAAAT-AAATTTCAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
16876996 AAAATCCAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAT-AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
16877055 GAAATAAATTTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-
1 AAAATAAAATTTC--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
16877114 AGAAATAAATTTTCAAAAAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
1 A-AAATAAAATTTC---AAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
16877178 AAATTAAAATTTCAAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16877233 CTTAACAAAA
Statistics
Matches: 312, Mismatches: 31, Indels: 22
0.85 0.08 0.06
Matches are distributed among these distances:
57 50 0.16
58 39 0.12
59 95 0.30
60 66 0.21
61 17 0.05
63 44 0.14
64 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAATAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:16876973 original size:116 final size:115
Alignment explanation
Indices: 16876836--16877232 Score: 519
Period size: 116 Copynumber: 3.4 Consensus size: 115
16876826 AATTTTCAAA
* *
16876836 AAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAA
* * *
16876901 TATTTTTGGGGAAAAGTCGAAAGTATCAATTTTTCTTAAAAATAAATTTC
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
** * * *
16876951 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCCAAATTTCCAAAAA
1 AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAA
* *
16877016 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAATTTTC
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA-TTTC
*
16877068 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTTCAAA
1 ---AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTTC---
* * *
16877131 AAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTC
59 AAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTTC
16877191 AAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AA-AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16877233 CTTAACAAAA
Statistics
Matches: 247, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
115 6 0.02
116 94 0.38
117 4 0.02
118 7 0.03
119 38 0.15
120 8 0.03
121 46 0.19
123 41 0.17
124 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (115 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
Found at i:16890786 original size:16 final size:16
Alignment explanation
Indices: 16890765--16890796 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16890755 ACATATCTCA
16890765 TTTTATTTTTAATTAT
1 TTTTATTTTTAATTAT
*
16890781 TTTTATTTTTTATTAT
1 TTTTATTTTTAATTAT
16890797 ACTTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTAATTAT
Found at i:16894067 original size:24 final size:24
Alignment explanation
Indices: 16894035--16894085 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
16894025 CCCCTAAATT
16894035 ATGGATTAAACTAGATTGAATCTG
1 ATGGATTAAACTAGATTGAATCTG
*
16894059 ATGGATTAAACTAGTTTGAATCTG
1 ATGGATTAAACTAGATTGAATCTG
16894083 ATG
1 ATG
16894086 ATGGTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (24 bp):
ATGGATTAAACTAGATTGAATCTG
Found at i:16898787 original size:2 final size:2
Alignment explanation
Indices: 16898780--16898807 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16898770 CAATTTAAGC
16898780 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
16898808 CAATGACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16906142 original size:23 final size:23
Alignment explanation
Indices: 16906092--16906136 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
16906082 AGACTACAGC
*
16906092 ATTTATGCTCTCTTTTTGTATAT
1 ATTTATGCTCTCCTTTTGTATAT
16906115 ATTTATGCTCTCCTTTTGTATA
1 ATTTATGCTCTCCTTTTGTATA
16906137 ACTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.58
Consensus pattern (23 bp):
ATTTATGCTCTCCTTTTGTATAT
Found at i:16909593 original size:5 final size:5
Alignment explanation
Indices: 16909583--16909646 Score: 55
Period size: 5 Copynumber: 13.0 Consensus size: 5
16909573 GTTGTGTGTA
* *
16909583 AATTT AATTT AATTT AATTT ATTATTA AATTT -ATTT AATTAT ATTTT
1 AATTT AATTT AATTT AATTT A--ATTT AATTT AATTT AATT-T AATTT
16909630 AATTT -A-TT AA-TT AATTT
1 AATTT AATTT AATTT AATTT
16909647 TATATTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
3 2 0.04
4 10 0.20
5 29 0.59
6 4 0.08
7 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
AATTT
Found at i:16909634 original size:32 final size:32
Alignment explanation
Indices: 16909584--16909649 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
16909574 TTGTGTGTAA
16909584 ATTTAATTTAATTTAATTTATT-ATTAAATTT
1 ATTTAATTTAATTTAATTTATTAATTAAATTT
* *
16909615 ATTTAATTATATTTTAATTTATTAATTAATTTT
1 ATTTAATT-TAATTTAATTTATTAATTAAATTT
16909648 AT
1 AT
16909650 ATTAGGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 8 0.26
32 13 0.42
33 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
ATTTAATTTAATTTAATTTATTAATTAAATTT
Found at i:16910261 original size:10 final size:10
Alignment explanation
Indices: 16910246--16910273 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16910236 AATAAAGTTC
16910246 TCAATTTATA
1 TCAATTTATA
16910256 TCAATTTATA
1 TCAATTTATA
16910266 TCAATTTA
1 TCAATTTA
16910274 ATCCTTCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (10 bp):
TCAATTTATA
Found at i:16915344 original size:2 final size:2
Alignment explanation
Indices: 16915326--16915370 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
16915316 TAATTTCATG
* * * *
16915326 TA TA TA TG TA TA CA TA TA TA CA TA TA TA TA TA TT 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
16915368 TA T
1 TA T
16915371 GTGAGAAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16925624 original size:12 final size:12
Alignment explanation
Indices: 16925607--16925644 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16925597 TGTATGTGAC
16925607 ATACATACATAT
1 ATACATACATAT
16925619 ATACATACAT-T
1 ATACATACATAT
*
16925630 CATACATAAATAT
1 -ATACATACATAT
16925643 AT
1 AT
16925645 GTATATGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 1 0.04
12 21 0.91
13 1 0.04
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (12 bp):
ATACATACATAT
Found at i:16925651 original size:6 final size:6
Alignment explanation
Indices: 16925640--16925670 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16925630 CATACATAAA
*
16925640 TATATG TATATG TATATA TATATG TATATG T
1 TATATG TATATG TATATG TATATG TATATG T
16925671 TTCCAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:16936530 original size:23 final size:24
Alignment explanation
Indices: 16936503--16936555 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16936493 TAGGACTGAG
16936503 AAAAT-TAA-AAAATATATATAATT
1 AAAATATAATAAAATATAT-TAATT
* *
16936526 CAAATATAATTAAATATATTAATT
1 AAAATATAATAAAATATATTAATT
16936550 AAAATA
1 AAAATA
16936556 ATCAAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.16
24 13 0.52
25 8 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATATAATAAAATATATTAATT
Found at i:16936548 original size:13 final size:13
Alignment explanation
Indices: 16936512--16936552 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
16936502 GAAAATTAAA
16936512 AAATATATATAATT
1 AAATATAT-TAATT
*
16936526 CAA-ATA-TAATT
1 AAATATATTAATT
16936537 AAATATATTAATT
1 AAATATATTAATT
16936550 AAA
1 AAA
16936553 ATAATCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 7 0.30
12 3 0.13
13 11 0.48
14 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATATATTAATT
Found at i:16940662 original size:14 final size:14
Alignment explanation
Indices: 16940645--16940694 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
16940635 CATAAATATT
*
16940645 AATAATAAAATTAA
1 AATAAAAAAATTAA
16940659 AATAACAAAAA-TAA
1 AATAA-AAAAATTAA
16940673 TATATAAAAAAATTAA
1 -A-ATAAAAAAATTAA
16940689 AA-AAAA
1 AATAAAA
16940695 TTTTTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 9 0.29
15 11 0.35
16 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAAAAATTAA
Found at i:16941261 original size:11 final size:11
Alignment explanation
Indices: 16941218--16941265 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
16941208 TTGGCTAAAA
16941218 TTTTTTTTTGT
1 TTTTTTTTTGT
* * *
16941229 GTTTGTATTGT
1 TTTTTTTTTGT
16941240 TTTATTATTTTGT
1 TTT-TT-TTTTGT
16941253 TTTTTTTTTGT
1 TTTTTTTTTGT
16941264 TT
1 TT
16941266 GGCATTGTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 18 0.62
12 3 0.10
13 8 0.28
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:16941919 original size:44 final size:43
Alignment explanation
Indices: 16941836--16942032 Score: 205
Period size: 44 Copynumber: 4.4 Consensus size: 43
16941826 TTTTTAAAGG
* * * * *
16941836 GCTCCTTTAAATAGAAGTTCAATGACATTTTTGAAAATTTAAAGAA
1 GCTCCTCTAAACAGAGGCTCAATGAC--TTTTAAAAATTTAAA-AA
* * *
16941882 GTTCCTCTAAGCAGAGGCTCAACGACTTTTAAAAATTTAAAAA
1 GCTCCTCTAAACAGAGGCTCAATGACTTTTAAAAATTTAAAAA
* * *
16941925 GGCTCCTCTAAACAGAGGCACAATAATTTTTAAAAATTTAAAAA
1 -GCTCCTCTAAACAGAGGCTCAATGACTTTTAAAAATTTAAAAA
* *
16941969 GCCTCATCTAAATAGAGGCTCAATGACTTTTAAAAATTTAAAAA
1 G-CTCCTCTAAACAGAGGCTCAATGACTTTTAAAAATTTAAAAA
* *
16942013 GGCTTCTCTAAACAAAGGCT
1 -GCTCCTCTAAACAGAGGCT
16942033 TAACAACTTT
Statistics
Matches: 125, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
43 3 0.02
44 102 0.82
45 1 0.01
46 19 0.15
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCTCAATGACTTTTAAAAATTTAAAAA
Found at i:16942011 original size:88 final size:88
Alignment explanation
Indices: 16941862--16942031 Score: 252
Period size: 88 Copynumber: 1.9 Consensus size: 88
16941852 GTTCAATGAC
* * * *
16941862 ATTTTTGAAAATTTAAAGAAGTTCCTCTAAGCAGAGGCTCAACGACTTTTAAAAATTTAAAAAGG
1 ATTTTTAAAAATTTAAAGAAGCTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTTAAAAAGG
*
16941927 CTCCTCTAAACAGAGGCACAATA
66 CTCCTCTAAACAAAGGCACAATA
* *
16941950 ATTTTTAAAAATTTAAA-AAGCCTCATCTAAATAGAGGCTCAATGACTTTTAAAAATTTAAAAAG
1 ATTTTTAAAAATTTAAAGAAG-CTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTTAAAAAG
*
16942014 GCTTCTCTAAACAAAGGC
65 GCTCCTCTAAACAAAGGC
16942032 TTAACAACTT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 3 0.04
88 70 0.96
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (88 bp):
ATTTTTAAAAATTTAAAGAAGCTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTTAAAAAGG
CTCCTCTAAACAAAGGCACAATA
Found at i:16942094 original size:47 final size:47
Alignment explanation
Indices: 16942015--16942332 Score: 288
Period size: 47 Copynumber: 6.7 Consensus size: 47
16942005 TTTAAAAAGG
* * *
16942015 CTTCTCTAAACAAAGGCTTAACAACTTTAAAATTCATCTTGAAAAAT
1 CTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAT
* * * * *
16942062 CTTCTTTAAGTAGA-GCTCAAGAACTTTAAAAATCTATCTTGAAAAAA
1 CTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTC-ATCTTGAAAAAT
* * * *
16942109 CTCCTCTAAGCAGAGGCTTAACAACTTTAAAATTTATCTTGGAAAAGT
1 CTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTT-GAAAAAT
* **
16942157 -TCCTCTAAGCAGAGGCTCAATGACTTTAAAAATCTCATCTTGAAAAAAT
1 CTTCTCTAAGCAGAGGCTCAACAACTTT-AAAAT-TCATCTTG-AAAAAT
16942206 -TT-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCAACTTGGAAAAA-
1 CTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCAT---CTT-GAAAAAT
** * *
16942254 C-TCTTCTAATTAGAGACTCAACAACTTTAAAATTCATCTTGAAAAAA
1 CTTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAT
* * ** *
16942301 CTCCTCTAAACAGAGGCTTTATAACTTTAAAA
1 CTTCTCTAAGCAGAGGCTCAACAACTTTAAAA
16942333 ATCTCATATG
Statistics
Matches: 221, Mismatches: 35, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
46 27 0.12
47 92 0.42
48 51 0.23
49 20 0.09
50 31 0.14
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAT
Found at i:16942212 original size:95 final size:95
Alignment explanation
Indices: 16942018--16942332 Score: 354
Period size: 95 Copynumber: 3.3 Consensus size: 95
16942008 AAAAAGGCTT
* * * *
16942018 CTCTAAACAAAGGCTTAACAACTTTAAAATTCATCTT-GAAAAATCTTCTTTAAGTAGA-GCTCA
1 CTCTAAACAGAGGCTTAACAACTTTAAAATTTATCTTGGAAAAAT-TCCTCTAAGTAGAGGCTCA
16942081 AGAACTTTAAAAATCT-ATCTTGAAAAAACTC
65 AG-ACTTTAAAAATCTCATCTTGAAAAAACTC
* * *
16942112 CTCTAAGCAGAGGCTTAACAACTTTAAAATTTATCTTGGAAAAGTTCCTCTAAGCAGAGGCTCAA
1 CTCTAAACAGAGGCTTAACAACTTTAAAATTTATCTTGGAAAAATTCCTCTAAGTAGAGGCTCAA
*
16942177 TGACTTTAAAAATCTCATCTTGAAAAAA-TT
66 -GACTTTAAAAATCTCATCTTGAAAAAACTC
* * * * * * * *
16942207 TTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCAACTTGGAAAAACTCTTCTAATTAGAGACT
1 CTCTAAACAGAGGCTTAACAACTTTAAAATT--T-ATCTTGGAAAAATTCCTCTAAGTAGAGGCT
*
16942272 CAACAACTTT-AAAAT-TCATCTTGAAAAAACTC
63 CAA-GACTTTAAAAATCTCATCTTGAAAAAACTC
* *
16942304 CTCTAAACAGAGGCTTTATAACTTTAAAA
1 CTCTAAACAGAGGCTTAACAACTTTAAAA
16942333 ATCTCATATG
Statistics
Matches: 188, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
94 44 0.23
95 55 0.29
96 27 0.14
97 31 0.16
98 31 0.16
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (95 bp):
CTCTAAACAGAGGCTTAACAACTTTAAAATTTATCTTGGAAAAATTCCTCTAAGTAGAGGCTCAA
GACTTTAAAAATCTCATCTTGAAAAAACTC
Found at i:16942293 original size:145 final size:143
Alignment explanation
Indices: 16942018--16942339 Score: 382
Period size: 145 Copynumber: 2.3 Consensus size: 143
16942008 AAAAAGGCTT
* * * * *
16942018 CTCTAAACAAAGGCTTAACAACTTT-AAAAT-TCATCTTGAAAAATCTTCTTTAAGTAGAGCTCA
1 CTCTAAACAGAGGCTCAATAACTTTAAAAATCTCATCTTGAAAAATCTTCTCTAAGCAGAGCTCA
* * * * *
16942081 AGAACTTTAAAAATCTATCTTGAAAAAACTCCTCTAAGCAGAGGCTTAACAACTTTAAAATTTAT
66 ACAACTTTAAAAATCTAACTTGAAAAAACTCCTCTAAGCAGAGACTCAACAACTTTAAAATTCAT
* **
16942146 CTTGGAAAAGTTC
131 CTTGAAAAAACTC
* *
16942159 CTCTAAGCAGAGGCTCAATGACTTTAAAAATCTCATCTTGAAAAAAT-TT-TCTAAGCAGAGGCT
1 CTCTAAACAGAGGCTCAATAACTTTAAAAATCTCATCTTG-AAAAATCTTCTCTAAGCAGA-GCT
* * * **
16942222 CAACAACTTTAAAATTCATCAACTTGGAAAAACTCTTCTAATTAGAGACTCAACAACTTTAAAAT
64 CAACAACTTTAAAAATC-T-AACTTGAAAAAACTCCTCTAAGCAGAGACTCAACAACTTTAAAAT
16942287 TCATCTTGAAAAAACTC
127 TCATCTTGAAAAAACTC
**
16942304 CTCTAAACAGAGGCTTTATAACTTTAAAAATCTCAT
1 CTCTAAACAGAGGCTCAATAACTTTAAAAATCTCAT
16942340 ATGTTCTCGA
Statistics
Matches: 151, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
141 20 0.13
142 13 0.09
143 28 0.19
144 7 0.05
145 83 0.55
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (143 bp):
CTCTAAACAGAGGCTCAATAACTTTAAAAATCTCATCTTGAAAAATCTTCTCTAAGCAGAGCTCA
ACAACTTTAAAAATCTAACTTGAAAAAACTCCTCTAAGCAGAGACTCAACAACTTTAAAATTCAT
CTTGAAAAAACTC
Found at i:16943978 original size:192 final size:192
Alignment explanation
Indices: 16943651--16944014 Score: 669
Period size: 192 Copynumber: 1.9 Consensus size: 192
16943641 GGACTGATGT
*
16943651 TTTATAAGCATGCAAAGTAAAAGATAACTTTTCATGCCAATATTTGTAAGTATCAATTATTTTTT
1 TTTATAAGCATGCAAAGTAAAAGATAACTTCTCATGCCAATATTTGTAAGTATCAATTATTTTTT
*
16943716 CCAAGATTCTTTTGATATTTTTATTTGCAACCTCTACTGCTTCATTCATCTTTGGATGATATGAT
66 CCAAGATTCTTTTGATATTTTTATTTGCAACCTCCACTGCTTCATTCATCTTTGGATGATATGAT
16943781 GTCGAATTATGATGATGGATCTTGAATTGAGTGCACACTTCAATAAAAGGTAACTTCTCATG
131 GTCGAATTATGATGATGGATCTTGAATTGAGTGCACACTTCAATAAAAGGTAACTTCTCATG
*
16943843 TTTATAAGCATGCAAAGTAAAA-AGTAACTTCTCATGCTAATATTTGTAAGTATCAATTATTTTT
1 TTTATAAGCATGCAAAGTAAAAGA-TAACTTCTCATGCCAATATTTGTAAGTATCAATTATTTTT
16943907 TCCAAGATTCTTTTGATATTTTTATTTGCAACCTCCACTGC-TCTATTCATCTTTGGATGATATG
65 TCCAAGATTCTTTTGATATTTTTATTTGCAACCTCCACTGCTTC-ATTCATCTTTGGATGATATG
16943971 ATGTCGAATTATGATGATGGATCTTGAATTGAGTGCACACTTCA
129 ATGTCGAATTATGATGATGGATCTTGAATTGAGTGCACACTTCA
16944015 TTCATCATTT
Statistics
Matches: 167, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
191 3 0.02
192 164 0.98
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (192 bp):
TTTATAAGCATGCAAAGTAAAAGATAACTTCTCATGCCAATATTTGTAAGTATCAATTATTTTTT
CCAAGATTCTTTTGATATTTTTATTTGCAACCTCCACTGCTTCATTCATCTTTGGATGATATGAT
GTCGAATTATGATGATGGATCTTGAATTGAGTGCACACTTCAATAAAAGGTAACTTCTCATG
Found at i:16944969 original size:184 final size:184
Alignment explanation
Indices: 16944660--16945030 Score: 679
Period size: 184 Copynumber: 2.0 Consensus size: 184
16944650 ACTTTTTTTT
*
16944660 ATACCTAAATAATGTGCTGGTTCATCCTTCACATCTAGTTTGATGGGTTAAATTTTAGTATTTAC
1 ATACCTAAACAATGTGCTGGTTCATCCTTCACATCTAGTTTGATGGGTTAAATTTTAGTATTTAC
*
16944725 ATCTATTTTAATCATTACAGCTAGATAGCCAGTGCATCAATAATTTGATTCTTCTCTCTAGGCAA
66 ATCTATTTTAATCATTACAGCTAGATAGCCAGTGCATCAACAATTTGATTCTTCTCTCTAGGCAA
16944790 ATGCTCAAATTGAACTTCTTCGAATTGTTTGACCAACTCAGAGATATATTTATG
131 ATGCTCAAATTGAACTTCTTCGAATTGTTTGACCAACTCAGAGATATATTTATG
*
16944844 ATACCTAAACAATGTGCTGGTTCATCTTTCACATCTAGTTTGATGGGTTAAATTTTAGTATTTAC
1 ATACCTAAACAATGTGCTGGTTCATCCTTCACATCTAGTTTGATGGGTTAAATTTTAGTATTTAC
* * * *
16944909 ATTTATTTTAATCATTATAGCTAGATAGCCAGTGCATCAGCAATTTGATTTTTCTCTCTAGGCAA
66 ATCTATTTTAATCATTACAGCTAGATAGCCAGTGCATCAACAATTTGATTCTTCTCTCTAGGCAA
16944974 ATGCTCAAATTGAACTTCTTCGAATTGTTTGACCAACTCAGAGATATATTTATG
131 ATGCTCAAATTGAACTTCTTCGAATTGTTTGACCAACTCAGAGATATATTTATG
16945028 ATA
1 ATA
16945031 TCAGATTAAT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 180 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (184 bp):
ATACCTAAACAATGTGCTGGTTCATCCTTCACATCTAGTTTGATGGGTTAAATTTTAGTATTTAC
ATCTATTTTAATCATTACAGCTAGATAGCCAGTGCATCAACAATTTGATTCTTCTCTCTAGGCAA
ATGCTCAAATTGAACTTCTTCGAATTGTTTGACCAACTCAGAGATATATTTATG
Found at i:16955167 original size:23 final size:24
Alignment explanation
Indices: 16955091--16955167 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
16955081 GGTTTATTCC
* * *
16955091 AAATTTTAATA-AAATTATCAAAAA
1 AAATTTTATTATATATT-TCAACAA
* *
16955115 AAATTTTATTATATATTTCATCAT
1 AAATTTTATTATATATTTCAACAA
** *
16955139 TTATTTT-TTATTTATTTCAACAA
1 AAATTTTATTATATATTTCAACAA
16955162 AAATTT
1 AAATTT
16955168 ATTCTAACAG
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
23 17 0.43
24 19 0.47
25 4 0.10
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTTTATTATATATTTCAACAA
Found at i:16955779 original size:23 final size:22
Alignment explanation
Indices: 16955753--16955803 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
16955743 TTAGATCGAA
16955753 ATTTTTTTAT-TTGTGTTTGTGTT
1 ATTTTTTT-TGTTGTGTTT-TGTT
*
16955776 ATTTTTTTTGTTTTGTTTTGTT
1 ATTTTTTTTGTTGTGTTTTGTT
16955798 -TTTTTT
1 ATTTTTT
16955804 GTTTGGCGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 6 0.23
22 5 0.19
23 15 0.58
ACGTcount: A:0.06, C:0.00, G:0.14, T:0.80
Consensus pattern (22 bp):
ATTTTTTTTGTTGTGTTTTGTT
Found at i:16955791 original size:5 final size:5
Alignment explanation
Indices: 16955762--16955807 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
16955752 AATTTTTTTA
* *
16955762 TTTGT GTTTGT GTTAT TTT-T TTTGT TTTGT TTTGT TTT-T TTTGT TT
1 TTTGT -TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TT
16955808 GGCGTTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
4 8 0.23
5 22 0.63
6 5 0.14
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.80
Consensus pattern (5 bp):
TTTGT
Found at i:16955799 original size:19 final size:19
Alignment explanation
Indices: 16955756--16955807 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
16955746 GATCGAAATT
16955756 TTTTTATTTGTGTTTGTGTTA
1 TTTTT-TTTGT-TTTGTGTTA
* *
16955777 TTTTTTTTGTTTTGTTTTG
1 TTTTTTTTGTTTTGTGTTA
16955796 TTTTTTTTGTTT
1 TTTTTTTTGTTT
16955808 GGCGTTGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 19 0.66
20 5 0.17
21 5 0.17
ACGTcount: A:0.04, C:0.00, G:0.15, T:0.81
Consensus pattern (19 bp):
TTTTTTTTGTTTTGTGTTA
Found at i:16955815 original size:19 final size:19
Alignment explanation
Indices: 16955777--16955815 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16955767 GTTTGTGTTA
* **
16955777 TTTTTTTTGTTTTGTTTTG
1 TTTTTTTTGTTTGGCGTTG
16955796 TTTTTTTTGTTTGGCGTTG
1 TTTTTTTTGTTTGGCGTTG
16955815 T
1 T
16955816 GGTCCTCGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.21, T:0.77
Consensus pattern (19 bp):
TTTTTTTTGTTTGGCGTTG
Found at i:16978342 original size:25 final size:25
Alignment explanation
Indices: 16978308--16978383 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
16978298 CAAAATAAGC
16978308 TGCACTAATGTAGGAGAATCAGATT
1 TGCACTAATGTAGGAGAATCAGATT
* *
16978333 TGCACTAATGTAAGAGAATCAGATC
1 TGCACTAATGTAGGAGAATCAGATT
16978358 TGCACTAATGTAGGAGAATCAGATT
1 TGCACTAATGTAGGAGAATCAGATT
16978383 T
1 T
16978384 CTACTCCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (25 bp):
TGCACTAATGTAGGAGAATCAGATT
Found at i:16985960 original size:22 final size:22
Alignment explanation
Indices: 16985935--16985976 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16985925 TTGTTTATCC
* *
16985935 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
16985957 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
16985977 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:16989677 original size:26 final size:25
Alignment explanation
Indices: 16989616--16989677 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
16989606 AAAGGGTTCG
* * *
16989616 GCAATGAAGGCCTAAACAGGATTTG
1 GCAATGAAGGCCTAAACAGAAGTTA
*
16989641 GCAATGAAGGCCTAAAATAGAAGTTA
1 GCAATGAAGGCCT-AAACAGAAGTTA
16989667 GCAATGAAGGC
1 GCAATGAAGGC
16989678 TGAAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTTA
Found at i:16989923 original size:22 final size:22
Alignment explanation
Indices: 16989888--16989930 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16989878 TTGTCTATCC
* *
16989888 TAATTTTAGGGATACAAATATT
1 TAATTCTAGAGATACAAATATT
16989910 TAATTCTAGAGATACAAATAT
1 TAATTCTAGAGATACAAATAT
16989931 AAATATACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATATT
Found at i:16994336 original size:2 final size:2
Alignment explanation
Indices: 16994329--16994364 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16994319 TGCGGTATTT
16994329 TA TA TA TA TA TA 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 TA TA TA TA TA TA
16994365 AACTGAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16994871 original size:4 final size:4
Alignment explanation
Indices: 16994862--16994888 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16994852 GCGATCCTGT
16994862 CAAA CAAA CAAA CAAA CAAA CAAA CAA
1 CAAA CAAA CAAA CAAA CAAA CAAA CAA
16994889 TCTTACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:16999732 original size:3 final size:3
Alignment explanation
Indices: 16999726--16999762 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
16999716 GTCTTAAACT
16999726 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16999763 ACGATTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17003426 original size:18 final size:18
Alignment explanation
Indices: 17003385--17003426 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17003375 TATAAAATAT
17003385 TATTTTAATGATTATTTGA
1 TATTTTAAT-ATTATTTGA
*
17003404 GATTTTAAT-TTAGTTTGA
1 TATTTTAATATTA-TTTGA
17003422 TATTT
1 TATTT
17003427 ATTGTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 9 0.45
19 8 0.40
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (18 bp):
TATTTTAATATTATTTGA
Found at i:17009457 original size:466 final size:481
Alignment explanation
Indices: 17008666--17009658 Score: 1182
Period size: 466 Copynumber: 2.1 Consensus size: 481
17008656 TCTCACATAG
* * * * *
17008666 AGATTTCTTAGGTATCGCT-TCTCGGAATACCTTAGAATCTCATCTTTGGAGACTCGAATTTATT
1 AGATTTCGTAGGTATCACTAT-TCGAAATACTTTAGAATCTCATCTTTGGAGACTCAAATTTATT
* ** * *
17008730 TTTCGTAAAAAAATATCATGCATGTAATGCAAAAATGTTACCATGTTTATGCACACATTTTATTC
65 TTTCGCAAAAAAATA-CATGCATGTAATGCAAAAATAATAACATGTTGATGCACACATTTTATTC
* * *
17008795 TCTTTTGTTAGAAATTTTATTAATTATTTTCTTAATATTCTTATTTAAAATTAAAATTTTGAAGA
129 TCTTTTGTCAAAAATTTTATTAATTATTTTATTAATATTCTTATTTAAAATTAAAATTTTGAAGA
** *
17008860 AAAAAGAATTTAATTATATTGAAGATTTTTTATAAATATTTCAATATGCTGGTAATATTTTACAA
194 AAAAAGAATTTAATTATATTGAAGATTTTTTATAAATATTTCAATACACTGGTAATATTTTAAAA
* * *
17008925 AAAAATCTTTTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAATACTTTTATAATCCCATCA
259 AAAAATCTTTTCACCTAGAGATTTCTTAAAGCATATCTACTCGAAATACTTTTAGAATCCCATCA
* * *
17008990 TTGGATAAAATTTCCTTT-TTC-C-TTATTTA-TA-TTATTATTTA-A-ATTAATTAA-TTTTAT
324 TTAGATAAAATTTACTTTCTTCTCATT-TTTATTACTTATT-TTTATATATTAATCAATTTTTAT
* *
17009047 TT-TTA-TCAAGAAAAGAAAA-TTTTATTATATTGAAA-TTTTTTTATAAATACTCCAATACACT
387 TTATTACTCAAAAAAAGAAAATTTTTATTATATTAAAATTTTTTTTATAAATACTCCAATACACT
17009108 GGTAGTA-TTTAAAAAAAACTTTTACCTAA
452 GGTAGTATTTTAAAAAAAACTTTTACCTAA
*
17009137 AGATTTCGTAGGTATCACTATTCGAAATACTTTTAGAATCTCATCTTTGGAG-GTCCAAATTTAT
1 AGATTTCGTAGGTATCACTATTCGAAATAC-TTTAGAATCTCATCTTTGGAGACT-CAAATTTAT
*
17009201 TTTTCGCAAAAAAATA-ATGTCATGT-ATGCAATGCAAATAATAATATGTTGATGCACACATTTT
64 TTTTCGCAAAAAAATACATG-CATGTAATGCAA---AAATAATAACATGTTGATGCACACATTTT
* ** * **
17009264 A-T-TCTTTT-TCAAAAATTTTATTAATTGTTTTATTAAT-TT-TT-TTTTTATTTTTAATTTTG
125 ATTCTCTTTTGTCAAAAATTTTATTAATTATTTTATTAATATTCTTATTTAAAATTAAAATTTTG
* *
17009323 AAGAAAAAA-AATTTTATTTGTATTGAAG-TTTTTCTATAAATA-TTCTAATACACTGGTAATA-
190 AAGAAAAAAGAA-TTTAATTATATTGAAGATTTTT-TATAAATATTTC-AATACACTGGTAATAT
* *
17009384 TTTAAAAAAAAATCTTCTT-ACCTAGGGATTTCTTAAAGTATATCTACTCGAAATACTTTTAGAA
252 TTTAAAAAAAAATCTT-TTCACCTAGAGATTTCTTAAAGCATATCTACTCGAAATACTTTTAGAA
* *
17009448 TTCCATCATTAGATAAAATTTATTTTCTTCTCATTTTTATTACTTATTTTTATTATATTAATCAA
316 TCCCATCATTAGATAAAATTTACTTTCTTCTCATTTTTATTACTTATTTTTA-TATATTAATCAA
* *
17009513 TTTTTATTTATTACTTTAAAAAAAGAAAATTTTTATTGTATTAAAATTTTTTTTATAAATACTCC
380 TTTTTATTTATTAC-TCAAAAAAAGAAAATTTTTATTATATTAAAATTTTTTTTATAAATACTCC
*** * *
17009578 AATACACTGGTAGTATTTTTAAAAAATTTTTTTACTTAG
444 AATACACTGGTAGTA-TTTTAAAAAAAACTTTTACCTAA
* * *
17009617 AGATTT-GTAGGCATCACTACTCAAAATACCTTTA-AATCTCAT
1 AGATTTCGTAGGTATCACTATTCGAAATA-CTTTAGAATCTCAT
17009659 TGTAGGATAA
Statistics
Matches: 446, Mismatches: 48, Indels: 49
0.82 0.09 0.09
Matches are distributed among these distances:
466 87 0.20
467 62 0.14
468 7 0.02
469 10 0.02
470 39 0.09
471 38 0.09
472 53 0.12
473 33 0.07
474 3 0.01
476 12 0.03
477 14 0.03
478 41 0.09
479 23 0.05
480 24 0.05
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (481 bp):
AGATTTCGTAGGTATCACTATTCGAAATACTTTAGAATCTCATCTTTGGAGACTCAAATTTATTT
TTCGCAAAAAAATACATGCATGTAATGCAAAAATAATAACATGTTGATGCACACATTTTATTCTC
TTTTGTCAAAAATTTTATTAATTATTTTATTAATATTCTTATTTAAAATTAAAATTTTGAAGAAA
AAAGAATTTAATTATATTGAAGATTTTTTATAAATATTTCAATACACTGGTAATATTTTAAAAAA
AAATCTTTTCACCTAGAGATTTCTTAAAGCATATCTACTCGAAATACTTTTAGAATCCCATCATT
AGATAAAATTTACTTTCTTCTCATTTTTATTACTTATTTTTATATATTAATCAATTTTTATTTAT
TACTCAAAAAAAGAAAATTTTTATTATATTAAAATTTTTTTTATAAATACTCCAATACACTGGTA
GTATTTTAAAAAAAACTTTTACCTAA
Found at i:17009729 original size:17 final size:16
Alignment explanation
Indices: 17009685--17009741 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
17009675 CTTTTTCTTA
*
17009685 TATTTTT-TATTAGTT
1 TATTTTTATATTAATT
* *
17009700 TAGTATTATTATTAAATT
1 TATTTTTA-TATT-AATT
*
17009718 TATTTTTATATTATTT
1 TATTTTTATATTAATT
17009734 TATTTTTA
1 TATTTTTA
17009742 AGGTTTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.15
16 11 0.33
17 8 0.24
18 9 0.27
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TATTTTTATATTAATT
Found at i:17010501 original size:29 final size:26
Alignment explanation
Indices: 17010444--17010504 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
17010434 GACCAAAAAA
*
17010444 ATTTTTTTTTATGTGTTTTATGGTTT
1 ATTTTTTTTTATGTGTTTTATGGTGT
* *
17010470 ATTTTTTTTGTGTGTGTTTTTGTAGGTGT
1 ATTTTTTTT-TATGTG-TTTTAT-GGTGT
17010499 ATTTTT
1 ATTTTT
17010505 GGTGCTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 5 0.17
28 5 0.17
29 10 0.34
ACGTcount: A:0.10, C:0.00, G:0.20, T:0.70
Consensus pattern (26 bp):
ATTTTTTTTTATGTGTTTTATGGTGT
Found at i:17010907 original size:3 final size:3
Alignment explanation
Indices: 17010899--17010934 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
17010889 TAAATAAATA
*
17010899 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17010935 GGTGTTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17011239 original size:43 final size:45
Alignment explanation
Indices: 17011172--17011256 Score: 138
Period size: 43 Copynumber: 1.9 Consensus size: 45
17011162 CAACAACTTT
17011172 AAAATTTTTATCTTGAAAAAGCTCATCTCAGCAGAGG-TTAAAAA
1 AAAATTTTTATCTTGAAAAAGCTCATCTCAGCAGAGGCTTAAAAA
* *
17011216 AAAATTTTT-TTTTGAAAACGCTCATCTCAGCAGAGGCTTAA
1 AAAATTTTTATCTTGAAAAAGCTCATCTCAGCAGAGGCTTAA
17011257 TAACTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 25 0.66
44 13 0.34
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (45 bp):
AAAATTTTTATCTTGAAAAAGCTCATCTCAGCAGAGGCTTAAAAA
Found at i:17016588 original size:2 final size:2
Alignment explanation
Indices: 17016581--17016614 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17016571 TTCTTTGTAT
17016581 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17016615 TGTAGATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17028426 original size:41 final size:41
Alignment explanation
Indices: 17028379--17028472 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
17028369 TCAATATCAA
*
17028379 ATCAATCTAGAATATTACTAAAATATTACTAGAATAATATC
1 ATCAATCTAGAATATTACCAAAATATTACTAGAATAATATC
* * * *
17028420 ATCAATCTAAAATATTACCAGAATATTACTAGAATATTATT
1 ATCAATCTAGAATATTACCAAAATATTACTAGAATAATATC
*
17028461 AAC-ATCTAGAAT
1 ATCAATCTAGAAT
17028473 TACAAGCCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.17
41 38 0.83
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (41 bp):
ATCAATCTAGAATATTACCAAAATATTACTAGAATAATATC
Found at i:17033064 original size:26 final size:26
Alignment explanation
Indices: 17033026--17033081 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
17033016 AATCAGACAC
*
17033026 TTATAAGCCTTAAATAAAATAAAATT
1 TTATAAACCTTAAATAAAATAAAATT
* *
17033052 TTATAAACTTTAAATAAAATAATATT
1 TTATAAACCTTAAATAAAATAAAATT
17033078 TTAT
1 TTAT
17033082 TTACTGCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (26 bp):
TTATAAACCTTAAATAAAATAAAATT
Found at i:17038386 original size:26 final size:26
Alignment explanation
Indices: 17038357--17038412 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
17038347 AATTAGATAC
*
17038357 TTATAAGCCTTAAATAAAATAAAATT
1 TTATAAACCTTAAATAAAATAAAATT
** *
17038383 TTATAAATTTTAAATAAAATAATATT
1 TTATAAACCTTAAATAAAATAAAATT
17038409 TTAT
1 TTAT
17038413 TTACTACACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
TTATAAACCTTAAATAAAATAAAATT
Found at i:17039322 original size:20 final size:20
Alignment explanation
Indices: 17039295--17039340 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
17039285 TATAAATTTA
17039295 TTTATATTATTTTTAATGA-ATT
1 TTTAT-TTA-TTTTAAT-ATATT
17039317 TTTATTTATTTTAATATATT
1 TTTATTTATTTTAATATATT
17039337 TTTA
1 TTTA
17039341 CTGTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 3 0.13
22 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTTAATATATT
Found at i:17040495 original size:14 final size:14
Alignment explanation
Indices: 17040452--17040487 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
17040442 TTGTAATCTA
*
17040452 AAAATTTGGTTTTG
1 AAAATATGGTTTTG
*
17040466 AGAATATGGTTTTG
1 AAAATATGGTTTTG
17040480 AAAATATG
1 AAAATATG
17040488 TTTGTGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (14 bp):
AAAATATGGTTTTG
Found at i:17053917 original size:14 final size:14
Alignment explanation
Indices: 17053900--17053926 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17053890 TTTTAAAATT
17053900 TTTATTTTTATTAA
1 TTTATTTTTATTAA
17053914 TTTATTTTTATTA
1 TTTATTTTTATTA
17053927 TAAAAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTTATTAA
Found at i:17053987 original size:7 final size:7
Alignment explanation
Indices: 17053954--17053987 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
17053944 AAAATTAAAA
*
17053954 AAATTAT
1 AAATTTT
*
17053961 AAATATT
1 AAATTTT
17053968 AAATTTT
1 AAATTTT
17053975 AAATTTT
1 AAATTTT
17053982 AAATTT
1 AAATTT
17053988 ATTGAATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
AAATTTT
Found at i:17066767 original size:13 final size:13
Alignment explanation
Indices: 17066749--17066777 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17066739 ACTACCAGAT
17066749 ATGGGCTGTCAAA
1 ATGGGCTGTCAAA
17066762 ATGGGCTGTCAAA
1 ATGGGCTGTCAAA
17066775 ATG
1 ATG
17066778 AAGACTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (13 bp):
ATGGGCTGTCAAA
Found at i:17076016 original size:2 final size:2
Alignment explanation
Indices: 17076009--17076038 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17075999 AGTTCAGTAA
17076009 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
17076039 GAATGTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17077301 original size:18 final size:18
Alignment explanation
Indices: 17077255--17077302 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
17077245 ACTGTGTCTC
17077255 TTCCTTTTTTATCCAATT
1 TTCCTTTTTTATCCAATT
* *
17077273 TT-TTTTCTTTTTCCAATT
1 TTCCTTT-TTTATCCAATT
17077291 TCTCCTTTTTTA
1 T-TCCTTTTTTA
17077303 AAAATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 4 0.17
20 3 0.13
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCCTTTTTTATCCAATT
Found at i:17077995 original size:104 final size:102
Alignment explanation
Indices: 17077806--17078020 Score: 277
Period size: 104 Copynumber: 2.1 Consensus size: 102
17077796 TCAAGATTTG
* * * * * **
17077806 TAAATTTTATTTGAAGATGAAATATGCTAAAAAAATAATTTAAAATTTAATCCAGTTTATTCGTA
1 TAAATTTTATTTGAAGACGAAATATACTAAAAAAATAATTCAAAATTTAATCCAATTAATTAATA
*
17077871 TAATTATTTTTAAAAAATAATATTTAATAGATAAATT
66 TAATTATTTTTAAAAAATAATATTTAACAGATAAATT
* ** *
17077908 TAAATTTTATTTGAAGACGAAATATATTAAAATAGTTGAATTCAAAATTTAATCTAATTAATTAA
1 TAAATTTTATTTGAAGACGAAATATACTAAAA-AAAT-AATTCAAAATTTAATCCAATTAATTAA
* **
17077973 TATATTTATTTTTAAAAAATAATATTTAACAGATGCATT
64 TATAATTATTTTTAAAAAATAATATTTAACAGATAAATT
17078012 TAAATTTTA
1 TAAATTTTA
17078021 ACCCTTTTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 29 0.30
103 2 0.02
104 65 0.68
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (102 bp):
TAAATTTTATTTGAAGACGAAATATACTAAAAAAATAATTCAAAATTTAATCCAATTAATTAATA
TAATTATTTTTAAAAAATAATATTTAACAGATAAATT
Found at i:17091477 original size:22 final size:23
Alignment explanation
Indices: 17091452--17091501 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
17091442 TCTTTTAAAA
17091452 TAAAAAATATTT-TATCTCAATT
1 TAAAAAATATTTATATCTCAATT
** *
17091474 TAAATTATATTTATATCTTAATT
1 TAAAAAATATTTATATCTCAATT
17091497 TAAAA
1 TAAAA
17091502 TTACATAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAAAATATTTATATCTCAATT
Found at i:17091496 original size:23 final size:22
Alignment explanation
Indices: 17091458--17091500 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
17091448 AAAATAAAAA
17091458 ATATTTTATCTCAATTTAAATT
1 ATATTTTATCTCAATTTAAATT
*
17091480 ATATTTATATCTTAATTTAAA
1 ATATTT-TATCTCAATTTAAA
17091501 ATTACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATCTCAATTTAAATT
Found at i:17092190 original size:21 final size:22
Alignment explanation
Indices: 17092165--17092208 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
17092155 AGTTGAAAAA
17092165 AAGAAATGCAAG-AAGAAAATG
1 AAGAAATGCAAGCAAGAAAATG
**
17092186 AAGAAATGTTAGCAAGAAAATG
1 AAGAAATGCAAGCAAGAAAATG
17092208 A
1 A
17092209 CCTTTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.59, C:0.05, G:0.23, T:0.14
Consensus pattern (22 bp):
AAGAAATGCAAGCAAGAAAATG
Found at i:17093345 original size:17 final size:17
Alignment explanation
Indices: 17093295--17093347 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
17093285 CATTTTTTAA
* *
17093295 ATTATTATAATAATTTA
1 ATTATTAAAATAATTTT
17093312 ATTATTAAAATAATTTT
1 ATTATTAAAATAATTTT
* *
17093329 ATTATTGAAATGATTTT
1 ATTATTAAAATAATTTT
17093346 AT
1 AT
17093348 CGCTCATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTATTAAAATAATTTT
Found at i:17093401 original size:24 final size:24
Alignment explanation
Indices: 17093368--17093435 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
17093358 CTTGAATCAC
*
17093368 TTTATTTAATTAAAAATTATTAAA
1 TTTATATAATTAAAAATTATTAAA
* *
17093392 TTT-TAGTAATTAAAATTTATTATA
1 TTTATA-TAATTAAAAATTATTAAA
*
17093416 TTTGATATTATTAAAAATTA
1 TTT-ATATAATTAAAAATTA
17093436 ATTATTACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 22 0.61
25 11 0.31
26 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTATATAATTAAAAATTATTAAA
Found at i:17093609 original size:31 final size:31
Alignment explanation
Indices: 17093551--17093609 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
17093541 TCCAACTTAA
* *
17093551 TAGATATAGAGATAGGGATAAAGTAGACGAG
1 TAGACATAGAGATAGGGATAAACTAGACGAG
*
17093582 TAGACATAGAGATAGAGG-TAGACTAGAC
1 TAGACATAGAGATAG-GGATAAACTAGAC
17093610 ATTGAGACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.44, C:0.07, G:0.31, T:0.19
Consensus pattern (31 bp):
TAGACATAGAGATAGGGATAAACTAGACGAG
Found at i:17093754 original size:168 final size:169
Alignment explanation
Indices: 17093453--17093765 Score: 412
Period size: 168 Copynumber: 1.9 Consensus size: 169
17093443 CTTTATTTAA
* * * * * *
17093453 AAGTACCAAAATAAACATGCACGTTGTAATAACTTTACAAGTTAATTCTTAAACAAAGGAAAATT
1 AAGTACCAAAACAAACATGCACATTATAATAACTATAAAAGTTAATTCTTAAACAAAAGAAAATT
* * * * * *
17093518 CTCGGTTGACTATACTTGTTTGTTCCAACTTAATAGATATAGAGATAGGGATAAAGTAGACGAGT
66 CTCGGTTGACTATAATTATTTATTCCAACTTAATAAATATAGAAATAAGGATAAAGTAGACGAGT
17093583 AGACATAGAGATAGAGGTAGACTAGACATTGAGACAGAG
131 AGACATAGAGATAGAGGTAGACTAGACATTGAGACAGAG
* * *
17093622 AAGTACCAAAACAAACATGGACATTATAATAACTATAAAAGTTCATTTTTAAACAAAAG-AAATT
1 AAGTACCAAAACAAACATGCACATTATAATAACTATAAAAGTTAATTCTTAAACAAAAGAAAATT
* ** ** * *
17093686 TTTTGTTGACTATAATTATTTATTCCAACTTGGTAAATATAGAAATAAGGATAGAGTAGACTAGT
66 CTCGGTTGACTATAATTATTTATTCCAACTTAATAAATATAGAAATAAGGATAAAGTAGACGAGT
*
17093751 AGACATAGAGCTAGA
131 AGACATAGAGATAGA
17093766 TATATAGATT
Statistics
Matches: 121, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
168 71 0.59
169 50 0.41
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (169 bp):
AAGTACCAAAACAAACATGCACATTATAATAACTATAAAAGTTAATTCTTAAACAAAAGAAAATT
CTCGGTTGACTATAATTATTTATTCCAACTTAATAAATATAGAAATAAGGATAAAGTAGACGAGT
AGACATAGAGATAGAGGTAGACTAGACATTGAGACAGAG
Found at i:17094019 original size:17 final size:17
Alignment explanation
Indices: 17093999--17094035 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
17093989 ATTGGTCTAG
17093999 TTTTATAATTAAATCAC
1 TTTTATAATTAAATCAC
17094016 TTTTATAATTAAATCAC
1 TTTTATAATTAAATCAC
17094033 TTT
1 TTT
17094036 AAGCTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTATAATTAAATCAC
Found at i:17094219 original size:30 final size:30
Alignment explanation
Indices: 17094163--17094221 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17094153 ATTCAAAATA
* *
17094163 ATCTAATTAAGTCTTTATACTATTATTTTC
1 ATCTAAATAAGTCTTCATACTATTATTTTC
*
17094193 ATCTAAATAAGTCATTCA-ACTCTTATTTT
1 ATCTAAATAAGTC-TTCATACTATTATTTT
17094222 TTACTATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.49
Consensus pattern (30 bp):
ATCTAAATAAGTCTTCATACTATTATTTTC
Found at i:17094397 original size:18 final size:16
Alignment explanation
Indices: 17094374--17094426 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
17094364 TTGATACCAT
17094374 AATTAAAAATAATTATAA
1 AATTAAAAAT-A-TATAA
*
17094392 AATTAATAATATATAA
1 AATTAAAAATATATAA
*
17094408 AATTAATAAA-AAATAA
1 AATTAA-AAATATATAA
17094424 AAT
1 AAT
17094427 GTTAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 19 0.61
17 3 0.10
18 9 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTAAAAATATATAA
Found at i:17094406 original size:16 final size:16
Alignment explanation
Indices: 17094381--17094426 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
17094371 CATAATTAAA
17094381 AATAAT-TATAAAATT
1 AATAATATATAAAATT
17094396 AATAATATATAAAATT
1 AATAATATATAAAATT
* *
17094412 AATAAAAAATAAAAT
1 AATAATATATAAAAT
17094427 GTTAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATATATAAAATT
Found at i:17094705 original size:21 final size:20
Alignment explanation
Indices: 17094680--17094718 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17094670 ATAATAATAA
*
17094680 TATTATTTAATTATTTTTAGT
1 TATTATTT-ATTATATTTAGT
17094701 TATTATTTATTATATTTA
1 TATTATTTATTATATTTA
17094719 TTAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTATTTATTATATTTAGT
Found at i:17095906 original size:2 final size:2
Alignment explanation
Indices: 17095899--17095926 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17095889 CTTTTGTAAG
17095899 TA TA 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 TA TA
17095927 ATTGGCAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17097419 original size:32 final size:32
Alignment explanation
Indices: 17097358--17097422 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
17097348 AATTCTTAAT
** *
17097358 AATTAAAAATTATTGTGTTTGGCATTACTAAA
1 AATTAAAAATTATTGTGTTTGAAAGTACTAAA
* *
17097390 AATTAAACATTATTTTGTTTGAAAGTACTAAA
1 AATTAAAAATTATTGTGTTTGAAAGTACTAAA
17097422 A
1 A
17097423 TAAATATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (32 bp):
AATTAAAAATTATTGTGTTTGAAAGTACTAAA
Found at i:17098546 original size:20 final size:20
Alignment explanation
Indices: 17098508--17098546 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17098498 TACAAAAATG
* * *
17098508 ATTTTTAATTTTTTTTTTAC
1 ATTTTTAAGTATTTGTTTAC
17098528 ATTTTTAAGTATTTGTTTA
1 ATTTTTAAGTATTTGTTTA
17098547 ACAGAAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTTAAGTATTTGTTTAC
Found at i:17098750 original size:15 final size:15
Alignment explanation
Indices: 17098709--17098867 Score: 69
Period size: 15 Copynumber: 10.1 Consensus size: 15
17098699 ATAATTTTGC
*
17098709 TTATAAATAATATTATA
1 TTAT-AATAA-ATAATA
17098726 TTGATAAATAAATAATA
1 TT-AT-AATAAATAATA
*
17098743 TTATAATATATTAATA
1 TTATAATA-AATAATA
* * *
17098759 -AATAGTAGTATAATA
1 TTATAATA-AATAATA
17098774 -TATTAATAAATAATA
1 TTA-TAATAAATAATA
* *
17098789 TAATAATAAATATTA
1 TTATAATAAATAATA
*
17098804 TTAACTTAATTAATAAATA
1 TT-A--TAATAAAT-AATA
*
17098823 TTATAAT-AAT-ACA
1 TTATAATAAATAATA
17098836 -T-TAATAAATAATATA
1 TTATAATAAAT-A-ATA
17098851 TTATTAATAAATAATA
1 TTA-TAATAAATAATA
17098867 T
1 T
17098868 AAAGAATAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 31
0.70 0.11 0.20
Matches are distributed among these distances:
11 4 0.04
12 4 0.04
13 2 0.02
15 38 0.35
16 23 0.21
17 10 0.09
18 24 0.22
19 5 0.05
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (15 bp):
TTATAATAAATAATA
Found at i:17098762 original size:23 final size:23
Alignment explanation
Indices: 17098711--17098796 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
17098701 AATTTTGCTT
*
17098711 ATAAATAATATTAT-AT-TGATAA
1 ATAAATAATATTATAATAT-ATTA
17098733 ATAAATAATATTATAATATATTA
1 ATAAATAATATTATAATATATTA
* *
17098756 ATAAATAGTAGTATAATATATTA
1 ATAAATAATATTATAATATATTA
*
17098779 ATAAATAATATAATAATA
1 ATAAATAATATTATAATA
17098797 AATATTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.25
23 41 0.73
24 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
ATAAATAATATTATAATATATTA
Found at i:17098833 original size:45 final size:41
Alignment explanation
Indices: 17098711--17098869 Score: 110
Period size: 41 Copynumber: 3.8 Consensus size: 41
17098701 AATTTTGCTT
* * * *
17098711 ATAAATAATAT-TATATTGATAAATA-AATAATATTATAATA
1 ATAAATAATATAT-TATTAATAAATATTATAATAATACAATA
* * * *
17098751 TATTAATAA-ATAGTAGT-ATAATATATTAATAAATAATATAATA
1 -ATAAATAATATATTATTAATAA-ATATT-AT-AATAATACAATA
* *
17098794 ATAAATATTATTAACTTAATTAATAAATATTATAATAATACATTA
1 ATAAATAATA-T-A-TT-ATTAATAAATATTATAATAATACAATA
*
17098839 ATAAATAATATATTATTAATAAATAATATAA
1 ATAAATAATATATTATTAATAAATATTATAA
17098870 AGAATAATAA
Statistics
Matches: 94, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
39 4 0.04
40 8 0.09
41 23 0.24
42 10 0.11
43 13 0.14
44 2 0.02
45 20 0.21
46 3 0.03
47 7 0.07
48 4 0.04
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (41 bp):
ATAAATAATATATTATTAATAAATATTATAATAATACAATA
Found at i:17098848 original size:18 final size:19
Alignment explanation
Indices: 17098825--17098866 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
17098815 AATAAATATT
17098825 ATAATAATA-CATTAATAA
1 ATAATAATATCATTAATAA
*
17098843 ATAAT-ATATTATTAATAA
1 ATAATAATATCATTAATAA
17098861 ATAATA
1 ATAATA
17098867 TAAAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATAATATCATTAATAA
Found at i:17098869 original size:23 final size:23
Alignment explanation
Indices: 17098711--17098869 Score: 96
Period size: 26 Copynumber: 6.6 Consensus size: 23
17098701 AATTTTGCTT
*
17098711 ATAAATAATAT--TATATTGATAA
1 ATAAATAATATAATATATT-ATTA
*
17098733 ATAAATAATATTATA-ATATATTA
1 ATAAATAATATAATATAT-TATTA
*
17098756 ATAAATAGTAGTATAATATATTAATAA
1 ATAAATA--A-TATAATATATT-ATTA
17098783 ATAATATAATAATAA-ATATTATTA
1 ATAA-ATAAT-ATAATATATTATTA
* *
17098807 ACTTAATTAATA-AATAT-TATAATA
1 A--TAAATAATATAATATAT-TATTA
*
17098831 ATACATTAATAAATAATATATTATTA
1 ATA-AATAAT--ATAATATATTATTA
17098857 ATAAATAATATAA
1 ATAAATAATATAA
17098870 AGAATAATAA
Statistics
Matches: 110, Mismatches: 8, Indels: 37
0.71 0.05 0.24
Matches are distributed among these distances:
22 13 0.12
23 25 0.23
24 15 0.14
25 17 0.15
26 27 0.25
27 10 0.09
28 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAATAATATAATATATTATTA
Found at i:17098921 original size:20 final size:21
Alignment explanation
Indices: 17098896--17098952 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
17098886 TTATTTTAAG
*
17098896 TATTTTTTATATTAACGTAA-
1 TATTTTTTATATTAACATAAT
* *
17098916 TA-TTTTAATATTAAATATAAT
1 TATTTTTTATATT-AACATAAT
17098937 TATTTTTTAATATTAA
1 TATTTTTT-ATATTAA
17098953 TGACTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 9 0.31
20 7 0.24
21 2 0.07
22 6 0.21
23 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTTTTTATATTAACATAAT
Found at i:17099048 original size:15 final size:16
Alignment explanation
Indices: 17099030--17099059 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17099020 TATTAATATT
17099030 ATTTT-AAAAAATAAA
1 ATTTTCAAAAAATAAA
17099045 ATTTTCAAAAAATAA
1 ATTTTCAAAAAATAA
17099060 CCAAACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTTCAAAAAATAAA
Found at i:17100116 original size:9 final size:10
Alignment explanation
Indices: 17100087--17100170 Score: 50
Period size: 10 Copynumber: 8.6 Consensus size: 10
17100077 TATTCCAACA
*
17100087 TTTTACAATT
1 TTTTAAAATT
*
17100097 TTTT--AAGT
1 TTTTAAAATT
*
17100105 TTTTAGAATT
1 TTTTAAAATT
17100115 TTTTAAAA-T
1 TTTTAAAATT
*
17100124 TTTTAATAATC
1 TTTTAA-AATT
* *
17100135 TTTT-ATATA
1 TTTTAAAATT
* *
17100144 TTTTCAGATT
1 TTTTAAAATT
17100154 TTTTGAAAATT
1 TTTT-AAAATT
17100165 TTTTAA
1 TTTTAA
17100171 TATTAATGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
8 7 0.12
9 13 0.22
10 26 0.45
11 12 0.21
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:17100706 original size:8 final size:9
Alignment explanation
Indices: 17100683--17100708 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17100673 ATGATATTAT
17100683 ATAAAAATA
1 ATAAAAATA
17100692 ATAAAAATA
1 ATAAAAATA
17100701 ATAAAAAT
1 ATAAAAAT
17100709 CACATCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAAAAATA
Found at i:17109204 original size:25 final size:26
Alignment explanation
Indices: 17109175--17109241 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
17109165 ATATAATAAA
*
17109175 ATAATAAATAAATAGATTTT-ATTAT
1 ATAATAAATAAATAAATTTTAATTAT
17109200 ATAATAAAATAATAGATAAATTTTAATTAT
1 ATAAT-AAAT-A-A-ATAAATTTTAATTAT
*
17109230 TTAATAAATAAA
1 ATAATAAATAAA
17109242 ATTATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 2 0.06
28 2 0.06
29 12 0.34
30 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
ATAATAAATAAATAAATTTTAATTAT
Found at i:17109230 original size:33 final size:32
Alignment explanation
Indices: 17109147--17109243 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 32
17109137 TTTAATGTAA
*
17109147 AAATAAAATTTTACTATTATATAATAAAATAAT
1 AAAT-AAATTTTATTATTATATAATAAAATAAT
*
17109180 AAATAAATAGATT-TTATTATATAATAAAATAAT
1 AAATAAAT--TTTATTATTATATAATAAAATAAT
*
17109213 AGATAAATTTTAATTATT-TAATAAATAAAAT
1 AAATAAATTTT-ATTATTAT-AT-AATAAAAT
17109244 TATTATTTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
31 2 0.04
32 5 0.09
33 37 0.69
34 10 0.19
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (32 bp):
AAATAAATTTTATTATTATATAATAAAATAAT
Found at i:17109284 original size:21 final size:21
Alignment explanation
Indices: 17109258--17109314 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
17109248 ATTTGATATA
17109258 AAAATAATTTAATAACTTTT-T
1 AAAATAATTTAATAA-TTTTAT
*
17109279 AAAATAATTTATTAATTTTAT
1 AAAATAATTTAATAATTTTAT
*
17109300 -AAAT-ATTAAATAATT
1 AAAATAATTTAATAATT
17109315 CAAAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 9 0.28
20 8 0.25
21 15 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATAATTTAATAATTTTAT
Found at i:17109436 original size:23 final size:24
Alignment explanation
Indices: 17109397--17109462 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
17109387 TATTTGAACT
**
17109397 TAAATTTAATTAATATAT-AAAAA
1 TAAATTTAATTTTTATATCAAAAA
*
17109420 TAAATTTAATTTTTATATTCAATAA
1 TAAATTTAATTTTTATA-TCAAAAA
17109445 -AAATTTAATTATTTATAT
1 TAAATTTAATT-TTTATAT
17109463 TTAATTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 15 0.41
24 12 0.32
25 10 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATTTAATTTTTATATCAAAAA
Found at i:17109644 original size:33 final size:32
Alignment explanation
Indices: 17109601--17109662 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
17109591 AAATCAAATT
17109601 ATTTAAATTTAATT-TAATAATAA-TTAATTTGA
1 ATTTAAATTT-ATTCTAATAA-AATTTAATTTGA
17109633 ATTTAAAATTTATTCTAATAAAATTTAATT
1 ATTT-AAATTTATTCTAATAAAATTTAATT
17109663 AATTTCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
ATTTAAATTTATTCTAATAAAATTTAATTTGA
Found at i:17111804 original size:28 final size:29
Alignment explanation
Indices: 17111756--17111814 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 29
17111746 TATATAATAA
* *
17111756 TAATAAATATTAATATTAATTT-TAATTT
1 TAATAAATATAAATATAAATTTATAATTT
17111784 TAATATAATATAAATA-AAATTTGATAATTT
1 TAATA-AATATAAATATAAATTT-ATAATTT
17111814 T
1 T
17111815 TTAAATACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 10 0.38
29 9 0.35
30 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TAATAAATATAAATATAAATTTATAATTT
Found at i:17111932 original size:95 final size:92
Alignment explanation
Indices: 17111749--17111921 Score: 213
Period size: 95 Copynumber: 1.8 Consensus size: 92
17111739 AATTTTTTAT
** * *
17111749 ATAATAATAATAAATATTAATATTAATTTTAATTTTAATATAATATAAATAAAATTTGATAATTT
1 ATAATAATAATAAATATTAATATTAATTAAAATTTT-ATATAATATAAATAAAATTTAATAACTT
*
17111814 TTTAAATACTTTTGATGATAATAAAATA
65 TTTAAATAATTTTGATGATAATAAAATA
* * *
17111842 ATAATAATAATAAAATATTACTAATTTAATTCAAAATTTT-TATATTATAAGTAAAATTTAATAA
1 ATAATAATAAT-AAATATTAAT-A-TTAATT-AAAATTTTATATAATATAAATAAAATTTAATAA
*
17111906 CTTTTTATATAATTTT
62 CTTTTTAAATAATTTT
17111922 AGTTTTAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
93 11 0.16
94 9 0.13
95 35 0.52
96 6 0.09
97 6 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (92 bp):
ATAATAATAATAAATATTAATATTAATTAAAATTTTATATAATATAAATAAAATTTAATAACTTT
TTAAATAATTTTGATGATAATAAAATA
Found at i:17112045 original size:22 final size:22
Alignment explanation
Indices: 17111979--17112045 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
17111969 TGATAATTCA
* * *
17111979 TGATATAATTTTGACAATTATT
1 TGATATAATTTTAATAATTTTT
* * * **
17112001 TAATAAAATTTTAGTAACATTT
1 TGATATAATTTTAATAATTTTT
17112023 TGATATAATTTTAATAATTTTT
1 TGATATAATTTTAATAATTTTT
17112045 T
1 T
17112046 AATAACCTAT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (22 bp):
TGATATAATTTTAATAATTTTT
Found at i:17112549 original size:17 final size:17
Alignment explanation
Indices: 17112497--17112549 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
17112487 TTAAAAGCTT
* *
17112497 AATTTTT-TTATTTGAA
1 AATTTTTATTATATAAA
* * *
17112513 AATTTTAATTATACATA
1 AATTTTTATTATATAAA
17112530 AATTTTTATTATATAAA
1 AATTTTTATTATATAAA
17112547 AAT
1 AAT
17112550 ATTAAAATGC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTTTTATTATATAAA
Found at i:17119267 original size:9 final size:9
Alignment explanation
Indices: 17119246--17119275 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17119236 TTGTCTACAA
17119246 AAAAATAAT
1 AAAAATAAT
17119255 -AAAATAAT
1 AAAAATAAT
17119263 AAAAATAAT
1 AAAAATAAT
17119272 AAAA
1 AAAA
17119276 GTATTAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATAAT
Found at i:17126507 original size:16 final size:16
Alignment explanation
Indices: 17126486--17126516 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17126476 ATATATTATT
17126486 TTTTTAATTATATATA
1 TTTTTAATTATATATA
*
17126502 TTTTTAATTTTATAT
1 TTTTTAATTATATAT
17126517 TTATATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTATATATA
Found at i:17126523 original size:20 final size:19
Alignment explanation
Indices: 17126498--17126571 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 19
17126488 TTTAATTATA
**
17126498 TATATTTTTAATTTTATATT
1 TATATTTTTAATAATAT-TT
**
17126518 TATATTTAAAATAATATTT
1 TATATTTTTAATAATATTT
*
17126537 TATATTTTTAAAAAAATATTT
1 TATATTTTT--AATAATATTT
17126558 TATTAATTTTTAAT
1 TA-T-ATTTTTAAT
17126572 CGAATCAGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
19 9 0.21
20 13 0.31
21 13 0.31
22 1 0.02
23 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTTTTAATAATATTT
Found at i:17126548 original size:21 final size:21
Alignment explanation
Indices: 17126498--17126570 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
17126488 TTTAATTATA
** *
17126498 TATATTTTTAATTTTATA-TT
1 TATATTTTTAAAATAATATTT
17126518 TATA--TTTAAAATAATATTT
1 TATATTTTTAAAATAATATTT
*
17126537 TATATTTTTAAAAAAATATTT
1 TATATTTTTAAAATAATATTT
17126558 TATTAATTTTTAA
1 TA-T-ATTTTTAA
17126571 TCGAATCAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.20
19 6 0.14
20 4 0.09
21 16 0.36
22 1 0.02
23 8 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTTTTAAAATAATATTT
Found at i:17126551 original size:23 final size:23
Alignment explanation
Indices: 17126522--17126570 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
17126512 TATATTTATA
*
17126522 TTTAAAATAATATTTTA-T-ATT
1 TTTAAAAAAATATTTTATTAATT
17126543 TTTAAAAAAATATTTTATTAATT
1 TTTAAAAAAATATTTTATTAATT
17126566 TTTAA
1 TTTAA
17126571 TCGAATCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
22 1 0.04
23 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAAAAAATATTTTATTAATT
Found at i:17145695 original size:20 final size:21
Alignment explanation
Indices: 17145651--17145695 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 21
17145641 ACATATTTAT
*
17145651 TAAAATATATTTTAAAAATAA
1 TAAAATATAATTTAAAAATAA
17145672 -AAAAT-TAATTTAAAAA-AA
1 TAAAATATAATTTAAAAATAA
17145690 GTAAAA
1 -TAAAA
17145696 CATATGTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 2 0.10
19 10 0.48
20 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAATATAATTTAAAAATAA
Done.