Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, 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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 62
Found at i:10089672 original size:20 final size:20
Alignment explanation
Indices: 10089647--10089704 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
10089637 TCGCATTGCG
*
10089647 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
10089667 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
10089687 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
10089705 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:10090789 original size:24 final size:24
Alignment explanation
Indices: 10090762--10090815 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10090752 GTATTCGAAA
* *
10090762 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
10090786 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
10090810 TTTGAT
1 TTTGAT
10090816 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:10091007 original size:12 final size:12
Alignment explanation
Indices: 10090990--10091014 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10090980 ATATAATCCT
10090990 GAAGAAGAAAAA
1 GAAGAAGAAAAA
10091002 GAAGAAGAAAAA
1 GAAGAAGAAAAA
10091014 G
1 G
10091015 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:10092725 original size:32 final size:33
Alignment explanation
Indices: 10092679--10092756 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
10092669 GGAAATTACT
*
10092679 ATCGTAATGCGAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
10092711 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
10092744 ATCGCAATGCGAA
1 ATCGCAATGCGAA
10092757 TTTAATTTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 15 0.35
33 28 0.65
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:10092734 original size:19 final size:19
Alignment explanation
Indices: 10092679--10092736 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
10092669 GGAAATTACT
*
10092679 ATCGTAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
10092697 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
10092711 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
10092730 ATCGCAA
1 ATCGCAA
10092737 CGAGGGAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 11
0.69 0.07 0.24
Matches are distributed among these distances:
13 1 0.03
14 9 0.29
16 4 0.13
18 7 0.23
19 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:10092805 original size:19 final size:19
Alignment explanation
Indices: 10092781--10092818 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10092771 GCGTTTCTCT
*
10092781 CGTTGCGATTTTCATTTCG
1 CGTTGCAATTTTCATTTCG
10092800 CGTTGCAATTTTCATTTCG
1 CGTTGCAATTTTCATTTCG
10092819 TATTGCGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
CGTTGCAATTTTCATTTCG
Found at i:10092824 original size:19 final size:19
Alignment explanation
Indices: 10092783--10092824 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10092773 GTTTCTCTCG
* *
10092783 TTGCGATTTTCATTTCGCG
1 TTGCAATTTTCATTTCGCA
*
10092802 TTGCAATTTTCATTTCGTA
1 TTGCAATTTTCATTTCGCA
10092821 TTGC
1 TTGC
10092825 GATAGTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (19 bp):
TTGCAATTTTCATTTCGCA
Found at i:10092953 original size:14 final size:14
Alignment explanation
Indices: 10092934--10092970 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10092924 CATCAATTAA
10092934 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
10092948 ACAAATCACCTTTT
1 ACAAATCAACTTTT
10092962 ACAAATCAA
1 ACAAATCAA
10092971 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10094369 original size:21 final size:21
Alignment explanation
Indices: 10094303--10094369 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
10094293 GTGAATCGGG
*
10094303 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
10094323 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
10094345 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
10094366 CTCT
1 CTCT
10094370 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:10094388 original size:42 final size:41
Alignment explanation
Indices: 10094303--10094425 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
10094293 GTGAATCGGG
* * * *
10094303 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
10094345 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
10094387 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
10094426 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:10094751 original size:93 final size:91
Alignment explanation
Indices: 10094641--10094827 Score: 279
Period size: 91 Copynumber: 2.0 Consensus size: 91
10094631 ATATTTCAAA
* *
10094641 ACTTCAACCAAAAGAC-AAA-AAAAAGATAAATACTAACTTCACAGTGTTAAAGAATACACAATT
1 ACTTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAATT
*
10094704 TAGCAGAATTGGCAGCAACCGAATAAATTT
62 TAGCAGAATTGGAAGCAACCGAATAAATTT
*
10094734 ACTTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGC
1 ACTTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAATTTAGC
*
10094799 AGTATTGGAAGCAACCGAATAAATTT
66 AGAATTGGAAGCAACCGAATAAATTT
10094825 ACT
1 ACT
10094828 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 40 0.46
93 16 0.18
94 3 0.03
95 28 0.32
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (91 bp):
ACTTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAATTTAGC
AGAATTGGAAGCAACCGAATAAATTT
Found at i:10095030 original size:63 final size:62
Alignment explanation
Indices: 10094994--10095187 Score: 300
Period size: 63 Copynumber: 3.1 Consensus size: 62
10094984 TAAAGTAGAC
*
10094994 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTA-CTGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAGC--ATCTCCTCACGCAAGGCATTG
* *
10095057 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAGC-ATCTCCTCACGCAAGGCATTG
* *
10095120 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAGC-ATCTCCTCACGCAAGGCATTG
10095183 ACCTC
1 ACCTC
10095188 ATCACGTAAC
Statistics
Matches: 130, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
63 129 0.99
64 1 0.01
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.21
Consensus pattern (62 bp):
ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAGCATCTCCTCACGCAAGGCATTG
Found at i:10096691 original size:19 final size:20
Alignment explanation
Indices: 10096642--10096695 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
10096632 TTTTGGTTGA
*
10096642 AATGAAAATCGCAACGAGAT
1 AATGACAATCGCAACGAGAT
* *
10096662 AATGAGAATCGCAACGCGA-
1 AATGACAATCGCAACGAGAT
*
10096681 AATGACTATCGCAAC
1 AATGACAATCGCAAC
10096696 AAGAGAATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
AATGACAATCGCAACGAGAT
Found at i:10096707 original size:33 final size:33
Alignment explanation
Indices: 10096665--10096727 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
10096655 ACGAGATAAT
**
10096665 GAGAATCGCAACGCGAAATGACTATCGCAACAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACAA
10096698 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
10096728 TGCGATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACAA
Found at i:10096725 original size:19 final size:19
Alignment explanation
Indices: 10096640--10096732 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
10096630 TCTTTTGGTT
*
10096640 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
10096659 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
10096679 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
10096696 --AA-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
10096712 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
10096731 GA
1 GA
10096733 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
14 9 0.15
15 2 0.03
16 1 0.02
17 1 0.02
18 2 0.03
19 28 0.47
20 17 0.28
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:10096750 original size:19 final size:18
Alignment explanation
Indices: 10096728--10096794 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
10096718 AAAATCGCAA
*
10096728 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
*
10096747 TGCGTTTTTTATTTCGCGT
1 TGCG-ATTTTATTTCGCGT
*
10096766 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTT-CGCGT
10096786 TGCGATTTT
1 TGCGATTTT
10096795 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 24 0.60
20 15 0.38
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.49
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:10097330 original size:20 final size:20
Alignment explanation
Indices: 10097305--10097354 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
10097295 GCGCTATGTA
10097305 AATCGCGTTGCAAAAGTCAG
1 AATCGCGTTGCAAAAGTCAG
*
10097325 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCAAAAGTCAG
* *
10097345 TATCTCGTTG
1 AATCGCGTTG
10097355 TGATTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCAAAAGTCAG
Found at i:10097391 original size:20 final size:20
Alignment explanation
Indices: 10097366--10097419 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
10097356 GATTTTGTAT
*
10097366 TATCGCAGTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
10097386 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
10097406 TATCGCATTGCGAT
1 TATCGCATTGCGAT
10097420 TTTTCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:10097530 original size:21 final size:21
Alignment explanation
Indices: 10097490--10097530 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10097480 ACTATAGACC
**
10097490 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
10097511 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
10097531 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:10098013 original size:42 final size:42
Alignment explanation
Indices: 10097902--10098149 Score: 273
Period size: 42 Copynumber: 5.9 Consensus size: 42
10097892 GCTTAAAAGA
* *
10097902 ACAAAAGCCGCTAATTCTCTTGTTTTTAGTGGAGTTTTTAGCC
1 ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTT-GCC
*
10097945 ACAAACGTCGCTAATTCTCTTG-TTTTAGTGGCGTTTTTGCC
1 ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTTGCC
* * *
10097986 ACCAATGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTGGCC
1 ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTTGCC
* * * * *
10098028 ATAAACACCGCTAATTCTCTTCTCTTTAGTGGCGTTTATAGCC
1 ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTT-TTGCC
* * * * * * *
10098071 ATAAATGCTGCTAATTTTCTTATCTTTAGTGGCGTTTTTTCC
1 ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTTGCC
* * * *
10098113 ACAAACGACGCTAATTGTTTTCTTTTTAGTGGCGTTT
1 ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTT
10098150 GTAGTACAAA
Statistics
Matches: 174, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
41 22 0.13
42 96 0.55
43 56 0.32
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (42 bp):
ACAAACGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTTGCC
Found at i:10098101 original size:85 final size:82
Alignment explanation
Indices: 10097902--10098149 Score: 280
Period size: 85 Copynumber: 2.9 Consensus size: 82
10097892 GCTTAAAAGA
* * * *
10097902 ACAAAAGCCGCTAATTCTCTTGTTTTTAGTGGAGTTTTTAGCCACAAACGTCGCTAATTCTCTTG
1 ACAAATGCCGCTAATTCTCTTGTTTTTAGTGGCG-TTTTAGCCACAAAC-ACGCTAATTCTCTTC
*
10097967 TTTTAGTGGCGTTTTTGCC
64 TTTTAGTGGCGTTTTAGCC
* * *
10097986 ACCAATGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTGGCCATAAACACCGCTAATTCTCTTCT
1 ACAAATGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTAGCCACAAACA-CGCTAATTCTCTTCT
10098051 CTTTAGTGGCGTTTATAGCC
65 -TTTAGTGGCGTTT-TAGCC
* * * * * ** * *
10098071 ATAAATGCTGCTAATTTTCTTATCTTTAGTGGCGTTTTTTCCACAAACGACGCTAATTGTTTTCT
1 ACAAATGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTAGCCACAAAC-ACGCTAATTCTCTTC-
10098136 TTTTAGTGGCGTTT
64 TTTTAGTGGCGTTT
10098150 GTAGTACAAA
Statistics
Matches: 140, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
83 26 0.19
84 44 0.31
85 68 0.49
86 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (82 bp):
ACAAATGCCGCTAATTCTCTTGTTTTTAGTGGCGTTTTAGCCACAAACACGCTAATTCTCTTCTT
TTAGTGGCGTTTTAGCC
Found at i:10101591 original size:41 final size:41
Alignment explanation
Indices: 10101533--10101913 Score: 474
Period size: 41 Copynumber: 9.2 Consensus size: 41
10101523 TTGCAAACAC
*
10101533 AAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * *
10101574 AAACGCCACTAATGTACGAGTCTATAGCGACATTTGTACAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
10101615 AAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATA-A
* * * *
10101657 CAAATGCCACTAAAGTACGAGCCTATAGCGGCATTTGTAAATAC
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGT--ATAA
* * *
10101701 AAACGTCACAAAATTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
10101742 AAACGACACTAAAATACAAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
10101783 AAACGCCGCTAAAGTATGAGTCTATAGCGACGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * * *
10101824 AAATGCCGCTAAAGTACTACTCTATCGCGGCGTTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
*
10101866 AAACGCCATTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
10101907 AAACGCC
1 AAACGCC
10101914 GCTACAGTTA
Statistics
Matches: 292, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
41 189 0.65
42 36 0.12
43 65 0.22
45 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:10101809 original size:168 final size:167
Alignment explanation
Indices: 10101522--10101911 Score: 500
Period size: 168 Copynumber: 2.3 Consensus size: 167
10101512 ACTTGCAGCG
* * * * *
10101522 TTTGCAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAAT
1 TTTGTAAATACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGACACTAAA
* * * *
10101587 GTACGAGTCTATAGCGACATTTGTACAAAAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTGT
66 ATACAAGTCTATAGCGACATTTGTACAAAAACGCCACTAAAGTACAAGTCTATAGCGACGTTTGT
10101652 AAACACAAATGCCACTAAAGTACGAGC-CTATAGCGGC-A
131 AAA-A-AAATGCCACTAAAGTACGA-CTCTATAGCGGCGA
* * *
10101690 TTTGTAAATACAAACGTCACAAAATTACGAGTCTATAGCGGCGTTTGTATAAAAACGACACTAAA
1 TTTGTAAATACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGACACTAAA
* * * * **
10101755 ATACAAGTCTATAGCGGCGTTTGTATAAAAACGCCGCTAAAGTATGAGTCTATAGCGACGTTTGT
66 ATACAAGTCTATAGCGACATTTGTACAAAAACGCCACTAAAGTACAAGTCTATAGCGACGTTTGT
* * * * *
10101820 ATAAAAATGCCGCTAAAGTACTACTCTATCGCGGCGT
131 AAAAAAATGCCACTAAAGTACGACTCTATAGCGGCGA
* *
10101857 TTTGT--ATAAAAACGCCATTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
1 TTTGTAAATACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
10101912 CCGCTACAGT
Statistics
Matches: 192, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
165 46 0.24
166 26 0.14
167 6 0.03
168 114 0.59
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (167 bp):
TTTGTAAATACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGACACTAAA
ATACAAGTCTATAGCGACATTTGTACAAAAACGCCACTAAAGTACAAGTCTATAGCGACGTTTGT
AAAAAAATGCCACTAAAGTACGACTCTATAGCGGCGA
Found at i:10110261 original size:17 final size:18
Alignment explanation
Indices: 10110239--10110280 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
10110229 CTTTCAATTA
10110239 TTTATTTAATTATT-TAT
1 TTTATTTAATTATTATAT
* *
10110256 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATAT
10110274 TTTATTT
1 TTTATTT
10110281 TAAAATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:10110334 original size:22 final size:19
Alignment explanation
Indices: 10110306--10110351 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
10110296 AACCCCCTTT
10110306 TTATTTTACTACTATTATTTTA
1 TTATTTT-CT-CTATTA-TTTA
*
10110328 TTATTTTCTCTTTTATTTA
1 TTATTTTCTCTATTATTTA
10110347 TTATT
1 TTATT
10110352 ATCTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 5 0.22
21 2 0.09
22 7 0.30
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTTCTCTATTATTTA
Found at i:10110346 original size:19 final size:19
Alignment explanation
Indices: 10110324--10110363 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10110314 CTACTATTAT
* *
10110324 TTTATTATTTTCTCTTTTA
1 TTTATTATTATCTATTTTA
10110343 TTTATTATTATCTATTTTA
1 TTTATTATTATCTATTTTA
10110362 TT
1 TT
10110364 ATACTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATTATCTATTTTA
Found at i:10113503 original size:3 final size:3
Alignment explanation
Indices: 10113495--10113530 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10113485 TTAAAAATGA
10113495 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10113531 GTTATTAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10113668 original size:29 final size:31
Alignment explanation
Indices: 10113636--10113732 Score: 112
Period size: 30 Copynumber: 3.2 Consensus size: 31
10113626 AAAATTTAGT
10113636 GGTCAAAAT-G-ATTTACATATAAAGTTC-AG
1 GGTCAAAATAGTA-TTACATATAAAGTTCAAG
* *
10113665 GGTCAAAATAGTATTATATCTAAAGTTCAAG
1 GGTCAAAATAGTATTACATATAAAGTTCAAG
* * *
10113696 GGTCAAAA-AGTATTATATCTAAAGCTCAAG
1 GGTCAAAATAGTATTACATATAAAGTTCAAG
10113726 GGTCAAA
1 GGTCAAA
10113733 TTAAAATCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
29 9 0.15
30 42 0.68
31 11 0.18
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (31 bp):
GGTCAAAATAGTATTACATATAAAGTTCAAG
Found at i:10113701 original size:31 final size:30
Alignment explanation
Indices: 10113655--10113732 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
10113645 GATTTACATA
10113655 TAAAGTTC-AGGGTCAAAATAGTATTATATC
1 TAAAGTTCAAGGGTCAAAA-AGTATTATATC
10113685 TAAAGTTCAAGGGTCAAAAAGTATTATATC
1 TAAAGTTCAAGGGTCAAAAAGTATTATATC
*
10113715 TAAAGCTCAAGGGTCAAA
1 TAAAGTTCAAGGGTCAAA
10113733 TTAAAATCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 36 0.78
31 10 0.22
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (30 bp):
TAAAGTTCAAGGGTCAAAAAGTATTATATC
Found at i:10116733 original size:3 final size:3
Alignment explanation
Indices: 10116727--10116777 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
10116717 TTTTTTTAAA
** ** *
10116727 TAT TAT TAT CGT TAT T-T TAT TAT TAT TAT TAT TAT GCT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10116774 TAT T
1 TAT T
10116778 TTTTTAATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10121372 original size:20 final size:20
Alignment explanation
Indices: 10121347--10121387 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10121337 ACATTCATTC
10121347 TTTTTGAGACCTTGAAACAT
1 TTTTTGAGACCTTGAAACAT
*
10121367 TTTTTGCGACCTTGAAACAT
1 TTTTTGAGACCTTGAAACAT
10121387 T
1 T
10121388 GTATATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
TTTTTGAGACCTTGAAACAT
Found at i:10122908 original size:24 final size:23
Alignment explanation
Indices: 10122855--10122911 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
10122845 TGAAAGGGGT
10122855 AATATTTTCAAAATCTTTGATTA
1 AATATTTTCAAAATCTTTGATTA
* *
10122878 AACATTTTTAAAACTCTTTTGA-TA
1 AATATTTTCAAAA-TC-TTTGATTA
*
10122902 GATATTTTCA
1 AATATTTTCA
10122912 GACTTTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.41
24 11 0.41
25 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
AATATTTTCAAAATCTTTGATTA
Found at i:10123189 original size:4 final size:4
Alignment explanation
Indices: 10123180--10123411 Score: 374
Period size: 4 Copynumber: 58.0 Consensus size: 4
10123170 TCGAGAAAAG
10123180 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
10123228 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
10123276 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
10123324 CACA CACA CACA CACA CACA CACA CACA TACA TACA CACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
10123372 CACA TACA TACA CACA TACA TACA CACA TACA TACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
10123412 TACATACATA
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 218 1.00
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (4 bp):
CACA
Found at i:10123416 original size:4 final size:4
Alignment explanation
Indices: 10123349--10123442 Score: 129
Period size: 4 Copynumber: 24.0 Consensus size: 4
10123339 ACACACACAC
* * * *
10123349 ACAT ACAT ACAC ACAT ACAT ACAC ACAT ACAT ACAC ACAT ACAT ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10123397 ACAT ACAT ACAC ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10123443 TATATATAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.03
4 76 0.97
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (4 bp):
ACAT
Found at i:10123424 original size:12 final size:12
Alignment explanation
Indices: 10123189--10123441 Score: 249
Period size: 12 Copynumber: 21.2 Consensus size: 12
10123179 GCACACACAC
* *
10123189 ACACACACACAC
1 ACACACATACAT
* *
10123201 ACACACACACAC
1 ACACACATACAT
* *
10123213 ACACACACACAC
1 ACACACATACAT
* *
10123225 ACACACACACAC
1 ACACACATACAT
* *
10123237 ACACACACACAC
1 ACACACATACAT
* *
10123249 ACACACACACAC
1 ACACACATACAT
* *
10123261 ACACACACACAC
1 ACACACATACAT
* *
10123273 ACACACACACAC
1 ACACACATACAT
* *
10123285 ACACACACACAC
1 ACACACATACAT
* *
10123297 ACACACACACAC
1 ACACACATACAT
* *
10123309 ACACACACACAC
1 ACACACATACAT
* *
10123321 ACACACACACAC
1 ACACACATACAT
* *
10123333 ACACACACACAC
1 ACACACATACAT
10123345 ACACACATACAT
1 ACACACATACAT
10123357 ACACACATACAT
1 ACACACATACAT
10123369 ACACACATACAT
1 ACACACATACAT
10123381 ACACACATACAT
1 ACACACATACAT
10123393 ACACACATACAT
1 ACACACATACAT
10123405 ACACACATACAT
1 ACACACATACAT
*
10123417 ACATACATACAT
1 ACACACATACAT
10123429 --ACACATACAT
1 ACACACATACAT
10123439 ACA
1 ACA
10123442 TTATATATAA
Statistics
Matches: 235, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
10 9 0.04
12 226 0.96
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (12 bp):
ACACACATACAT
Found at i:10123818 original size:35 final size:35
Alignment explanation
Indices: 10123777--10123881 Score: 111
Period size: 35 Copynumber: 3.0 Consensus size: 35
10123767 ACTTCTTTTG
*
10123777 AAAAACAAATTTTGTCTCACTTGAGACAGTTTTCT
1 AAAAACAAATTTTGTCTCACTTGAGACAATTTTCT
** * *
10123812 AAAAACAAATTTTGTCTCGTTTGAGATAATTTCTTT
1 AAAAACAAATTTTGTCTCACTTGAGACAATTT-TCT
* * ** *
10123848 CAAAATAAATTTCATCTCACTTGAGACATTTTTC
1 AAAAACAAATTTTGTCTCACTTGAGACAATTTTC
10123882 CTTTGAGATA
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
35 29 0.53
36 26 0.47
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (35 bp):
AAAAACAAATTTTGTCTCACTTGAGACAATTTTCT
Found at i:10124464 original size:29 final size:28
Alignment explanation
Indices: 10124422--10124490 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
10124412 CAATTTCGTG
*
10124422 AAAAAATCTGTGAGT-TGTTTCTTTTGAGA
1 AAAAAATCTTTGAGTCTGTTTC-TTTG-GA
10124451 AAAAAATCTTTGAGTCTGTTTCTTTGGA
1 AAAAAATCTTTGAGTCTGTTTCTTTGGA
10124479 AACAAAAT-TTTG
1 AA-AAAATCTTTG
10124491 TCTCTCTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 8 0.22
29 23 0.62
30 6 0.16
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (28 bp):
AAAAAATCTTTGAGTCTGTTTCTTTGGA
Found at i:10124515 original size:15 final size:15
Alignment explanation
Indices: 10124491--10124520 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10124481 CAAAATTTTG
10124491 TCTCTCTTGAGAAAA
1 TCTCTCTTGAGAAAA
*
10124506 TCTCTTTTGAGAAAA
1 TCTCTCTTGAGAAAA
10124521 AAATCTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
TCTCTCTTGAGAAAA
Found at i:10124565 original size:66 final size:66
Alignment explanation
Indices: 10124441--10124567 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 66
10124431 GTGAGTTGTT
*
10124441 TCTTTTGAGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGAAAA
1 TCTTTTGAGAAAAAAATCTTTGAATCTGTTTCTTT-GAAACAAAATTTTGTCTCTCTTGAGAAAA
10124506 TC
65 TC
*
10124508 TCTTTTGAGAAAAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTCTCTCTTGAG
1 TCTTTTGAGAAAAAAATCTTTGAATCTGTTTCT-TTGAAACA-AAATTTTGTCTCTCTTGAG
10124568 CCAGTTTCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
65 1 0.02
66 21 0.38
67 32 0.57
68 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (66 bp):
TCTTTTGAGAAAAAAATCTTTGAATCTGTTTCTTTGAAACAAAATTTTGTCTCTCTTGAGAAAAT
C
Found at i:10124773 original size:65 final size:65
Alignment explanation
Indices: 10124643--10124773 Score: 149
Period size: 65 Copynumber: 2.0 Consensus size: 65
10124633 GACGTAACCT
* ** * * *
10124643 ATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTAAGAAAA
1 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTAATCTCTCTTGAGACAGTTTCCTTGAAAAAAA
***
10124708 ATCTTTGAGTCTGTTTCTTTGGAAACAAAA-TTAATCATCT-TTGAGTTTGTTTCCCTTGAAAAA
1 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTAATC-TCTCTTGAGACAGTTT-CCTTGAAAAA
10124771 AA
64 AA
10124773 A
1 A
10124774 CAAATATCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 13 0.24
65 42 0.76
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (65 bp):
ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTAATCTCTCTTGAGACAGTTTCCTTGAAAAAAA
Found at i:10124988 original size:43 final size:43
Alignment explanation
Indices: 10124888--10125129 Score: 173
Period size: 43 Copynumber: 5.7 Consensus size: 43
10124878 CTAAAGATGG
*
10124888 CCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCT-G--A
1 CCAGTCGTCCTCATCACGTAGGAACCGTGTCATACCCTAGATA
* *
10124928 CCAGATC-TCCTCATCACGTAGGAGCCGTGTCA-ACCTTAGATAA
1 CCAG-TCGTCCTCATCACGTAGGAACCGTGTCATACCCTAGAT-A
* * *
10124971 CCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGTCGTCCTCATCACGTAGGAACCGTGTCAT-ACC-CTAGAT-A
* * * * * *
10125017 CCAGAAC-TCTTCATCACATATGAGCCATGTCATCACCC--G--A
1 CCAG-TCGTCCTCATCACGTAGGAACCGTGTCAT-ACCCTAGATA
* * * * * *
10125057 CCAGACCTCCTCATCAAGTAGGAGCCTTGTCA-CCCCTAGATAA
1 CCAGTCGTCCTCATCACGTAGGAACCGTGTCATACCCTAGAT-A
10125100 CCAGTCGTCCTCATCACGTAGGAACCGTGT
1 CCAGTCGTCCTCATCACGTAGGAACCGTGT
10125130 TATCACCTTT
Statistics
Matches: 159, Mismatches: 27, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
38 3 0.02
39 5 0.03
40 54 0.34
41 2 0.01
42 2 0.01
43 55 0.35
45 3 0.02
46 34 0.21
47 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
CCAGTCGTCCTCATCACGTAGGAACCGTGTCATACCCTAGATA
Found at i:10125033 original size:46 final size:46
Alignment explanation
Indices: 10124895--10125161 Score: 151
Period size: 46 Copynumber: 6.2 Consensus size: 46
10124885 TGGCCAGTCG
* * *
10124895 TCCTCATCACGTAGGAACCGTGTCATC-CC-----CTGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
* * * *
10124935 TCCTCATCACGTAGGAGCCGTGTCA--ACC-TTAGATAACCAG-TC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
*
10124977 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
* * * * * * * *
10125024 TCTTCATCACATATGAGCCATGTCATCACC------CGACCAGACC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
* * * ** * *
10125064 TCCTCATCAAGTAGGAGCC---TTGTCACCCCTAGATAACCAG-TC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
*
10125106 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCATAAC
1 -TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
*
10125153 TCTTCATCA
1 TCCTCATCA
10125162 AGTATGAGTC
Statistics
Matches: 171, Mismatches: 35, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
37 6 0.04
39 2 0.01
40 46 0.27
42 3 0.02
43 51 0.30
45 3 0.02
46 58 0.34
47 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (46 bp):
TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAAC
Found at i:10125112 original size:129 final size:127
Alignment explanation
Indices: 10124915--10125341 Score: 509
Period size: 129 Copynumber: 3.3 Consensus size: 127
10124905 GTAGGAACCG
10124915 TGTCATCCCCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGTC
1 TGTCATCCCC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGTC
*
10124980 CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACATATGAGCCA
65 CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAACTCTTCATCACATATGAG-CA
* * * * *
10125044 TGTCATCACCCGACCAGACCTCCTCATCAAGTAGGAGCCTTGTCACCCCTAGATAACCAGTCGTC
1 TGTCATC-CCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGTC
* *
10125109 CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCATAACTCTTCATCA-AGTATGAGTCG
65 CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAACTCTTCATCACA-TATGAG-CA
** * * * *
10125173 TGTCATCATCGACCTGATCTCCTCATCATGTGGGAGCCGTGTCAACCTTTGATAACCA-TAAC-T
1 TGTCATCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGT--CGT
* * * * * *
10125236 CTTCATCACGTATGAGCCGTGTTATCACTTTCGTAAAGATGACCAAGAATTCTTCATCACGTATG
64 CCTCATCACGTAGGAACCGTGTTATCACCTT--T--AGATGACC-AGAACTCTTCATCACATATG
*
10125301 AGTA
124 AGCA
*
10125305 GTGTCATCCCTCGACCAGATTTCCTCATCACGTAGGA
1 -TGTCATCCC-CGACCAGATCTCCTCATCACGTAGGA
10125342 ATTGTGTCAC
Statistics
Matches: 252, Mismatches: 34, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
127 1 0.00
128 70 0.28
129 122 0.48
130 4 0.02
132 8 0.03
133 25 0.10
134 22 0.09
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (127 bp):
TGTCATCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGTCC
TCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGAACTCTTCATCACATATGAGCA
Found at i:10125249 original size:82 final size:84
Alignment explanation
Indices: 10125107--10125262 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 84
10125097 TAACCAGTCG
* * *
10125107 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCATAACTCTTCATCAAGTATGAGTC
1 TCCTCATCACGTAGGAACCGTGTCA-CACCTTTAGATAACCATAACTCTTCATCAAGTATGAGCC
10125172 GTGTCATCATCGACCTGATC
65 GTGTCATCATCGACCTGATC
* * * *
10125192 TCCTCATCATGTGGGAGCCGTGTCA-ACCTTT-GATAACCATAACTCTTCATCACGTATGAGCCG
1 TCCTCATCACGTAGGAACCGTGTCACACCTTTAGATAACCATAACTCTTCATCAAGTATGAGCCG
*
10125255 TGTTATCA
66 TGTCATCA
10125263 CTTTCGTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
82 36 0.57
83 6 0.10
85 21 0.33
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (84 bp):
TCCTCATCACGTAGGAACCGTGTCACACCTTTAGATAACCATAACTCTTCATCAAGTATGAGCCG
TGTCATCATCGACCTGATC
Found at i:10125557 original size:3 final size:3
Alignment explanation
Indices: 10125551--10125598 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
10125541 TTTTTTTAAA
* ** *
10125551 TAT TAT TGT TAT T-T TAT TAT TAT TAT TAT TAT GCT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10125598 T
1 T
10125599 TTTTTAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:10133749 original size:21 final size:21
Alignment explanation
Indices: 10133736--10133795 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
10133726 ACGAGAAGAG
*
10133736 CATTCATCAAGACGAGAATGT
1 CATTCATCAAGACGAGAATGC
10133757 CATTCATCAAGACGAGAATGC
1 CATTCATCAAGACGAGAATGC
10133778 CATTCATCAAGACGAGAA
1 CATTCATCAAGACGAGAA
10133796 GACCACATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (21 bp):
CATTCATCAAGACGAGAATGC
Found at i:10136399 original size:5 final size:5
Alignment explanation
Indices: 10136385--10136439 Score: 74
Period size: 5 Copynumber: 10.2 Consensus size: 5
10136375 AGAGAAATGT
10136385 AGAAA GAGAAA AGAAAA AGAAA AGAAGAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA -AGAAA AG-AAA AGAAA AG-A-AA AGAAA AGAAA AGAAA AGAAA
10136434 AGAAA A
1 AGAAA A
10136440 ATTGAAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
5 30 0.65
6 12 0.26
7 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:10138731 original size:42 final size:41
Alignment explanation
Indices: 10138662--10138749 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
10138652 TGAAGTAAAT
* *
10138662 CCATCAGTAAGCCTTCCGAGCATGATGATTAAATCCTCCGGG
1 CCATCAGTAAGCCTTCAGAGCAAGATGA-TAAATCCTCCGGG
* * * * *
10138704 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
1 CCATCAGTAAGCCTTCAGAGCAAGATGATAAATCCTCCGGG
10138745 CCATC
1 CCATC
10138750 CATAAGACCT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 15 0.39
42 23 0.61
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCATCAGTAAGCCTTCAGAGCAAGATGATAAATCCTCCGGG
Found at i:10138905 original size:42 final size:41
Alignment explanation
Indices: 10138853--10138954 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
10138843 TTCCCAATTT
* * *
10138853 ATAAGTCCTCCGGGCCATCAGTAAGTCTTTCA-AGCATGATG
1 ATAAATCCTCCGGGCCATCAGTAAGCCTTT-AGAGCAAGATG
* *
10138894 ATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 A-TAAATCCTCCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* *
10138936 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTCCGGGCCATC
10138955 CATAAGACCT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 17 0.33
42 34 0.67
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (41 bp):
ATAAATCCTCCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:10138966 original size:42 final size:41
Alignment explanation
Indices: 10138853--10138966 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 41
10138843 TTCCCAATTT
* *
10138853 ATAAGTCCTCCGGGCCAT-CAGTAAGTCTTTCAAGCATGATG
1 ATAAGTCCTCCGGGCCATCCA-TAAGCCTTTCAAGCAAGATG
* * **
10138894 ATTAAATCCTCCGGGTCATCTGTAAGCCTTT-AGAGCAAGATG
1 A-TAAGTCCTCCGGGCCATCCATAAGCCTTTCA-AGCAAGATG
*
10138936 ATAAGTCCTTCGGGCCATCCATAAGACCTTT
1 ATAAGTCCTCCGGGCCATCCATAAG-CCTTT
10138967 GGGTAGGATG
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
41 21 0.36
42 37 0.64
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
ATAAGTCCTCCGGGCCATCCATAAGCCTTTCAAGCAAGATG
Found at i:10139133 original size:42 final size:42
Alignment explanation
Indices: 10139072--10139168 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
10139062 AATTTATAAG
* *
10139072 TCCTCCGGGCCATCAGTAAGCCTTCCGAGCATGATGATTAAA
1 TCCTCCGGGCCATCAGTAAGCCTTCAGAGCAAGATGATTAAA
* * * *
10139114 TCCTCCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA-TAAG
1 TCCTCCGGGCCATCAGTAAGCCTTCAGAGCAAGATGATTAAA
* *
10139155 TTCTTCGGGCCATC
1 TCCTCCGGGCCATC
10139169 CATAAGACCT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 14 0.30
42 32 0.70
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (42 bp):
TCCTCCGGGCCATCAGTAAGCCTTCAGAGCAAGATGATTAAA
Found at i:10139149 original size:214 final size:214
Alignment explanation
Indices: 10138662--10139914 Score: 2051
Period size: 214 Copynumber: 5.9 Consensus size: 214
10138652 TGAAGTAAAT
* * *
10138662 CCATCAGTAAGCCTTCCGAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
10138727 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
*
10138792 TGAAAAAATGATG--TT--G--GA--G--TTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCC
131 AG-AAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCC
10138847 CAATTTATAAGTCCTCCGGG
195 CAATTTATAAGTCCTCCGGG
10138867 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
* *
10138932 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCAAATGAAATTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
* *
10138997 TGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAATGAAGAATGCGAGTTTCAAAATTTCCC
131 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
10139062 AATTTATAAGTCCTCCGGG
196 AATTTATAAGTCCTCCGGG
* * *
10139081 CCATCAGTAAGCCTTCCGAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
*
10139146 GATGATAAGTTCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
* *
10139211 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAAAGCGAGTTTCAAAATTTGCC
131 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
10139276 AATTTATAAGTCCTCCGGG
196 AATTTATAAGTCCTCCGGG
*
10139295 CCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
10139360 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
10139425 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
131 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
10139490 AATTTATAAGTCCTCCGGG
196 AATTTATAAGTCCTCCGGG
*
10139509 CCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
* **
10139574 GATGATAAGTCCTTTGATCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
10139639 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
131 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
10139704 AATTTATAAGTCCTCCGGG
196 AATTTATAAGTCCTCCGGG
* * ** * * *
10139723 CCATCAGTAAGTCTTTCGAGCATGGTTCTTAAATCCTTCGGGTCATCTGTAAGCCTTTATAGCGA
1 CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
* * *** * *
10139788 GATGATGAGTCATTCGATTCATCCGTAAGACCTTCGGGTAGGATGCTTT-AAATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
* * * * * * * *
10139852 TGGAAAATGAAGTTTTAAGAATATGAAATTTTTGAAAACAAAGAATGCGAGTTTCAAATTTTC
131 AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
10139915 AAAATTTTTA
Statistics
Matches: 992, Mismatches: 46, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
204 10 0.01
205 127 0.13
206 2 0.00
208 1 0.00
210 2 0.00
212 1 0.00
213 70 0.07
214 779 0.79
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (214 bp):
CCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAA
GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAA
AGAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCCC
AATTTATAAGTCCTCCGGG
Found at i:10139333 original size:42 final size:41
Alignment explanation
Indices: 10139281--10139382 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
10139271 TTGCCAATTT
* * *
10139281 ATAAGTCCTCCGGGCCATCAGTAAGTCTTTCA-AGCATGATG
1 ATAAATCCTCCGGGCCATCAGTAAGCCTTT-AGAGCAAGATG
* * *
10139322 CTTAAATCCTCCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTCCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* *
10139364 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTCCGGGCCATC
10139383 CATAAGACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (41 bp):
ATAAATCCTCCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:10144321 original size:13 final size:12
Alignment explanation
Indices: 10144305--10144337 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
10144295 CCATATACAA
10144305 TTCATATATATTT
1 TTCATATAT-TTT
10144318 TTCATAT-TTTT
1 TTCATATATTTT
10144329 TTCATATAT
1 TTCATATAT
10144338 GATATACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 2 0.11
13 7 0.37
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCATATATTTT
Found at i:10144636 original size:2 final size:2
Alignment explanation
Indices: 10144631--10144660 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10144621 CATTTTTTTA
10144631 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
10144661 TACAAGTAAA
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:10147009 original size:26 final size:27
Alignment explanation
Indices: 10146975--10147027 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
10146965 GTATATGATT
*
10146975 ATTTATAAATATATGATTATTTATATA
1 ATTTATAAATATATGATCATTTATATA
10147002 ATTT-TAAATATATGATCATTTATATA
1 ATTTATAAATATATGATCATTTATATA
10147028 TAAATTCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTTATAAATATATGATCATTTATATA
Found at i:10149965 original size:2 final size:2
Alignment explanation
Indices: 10149956--10150003 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
10149946 TTTTTTCTTT
10149956 TA TA -A 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 TA TA TA
10149997 TA TA TA T
1 TA TA TA T
10150004 GAGTAAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10150330 original size:52 final size:52
Alignment explanation
Indices: 10150249--10150401 Score: 209
Period size: 52 Copynumber: 2.9 Consensus size: 52
10150239 TAACACCAGG
* * **
10150249 TTCAAGTCGGATTACTTTCAGTTCGGATCGATATCAGTTCAGGTCAAAACTT
1 TTCAAGTCTGATTACTTTCAGTTCGGATCGATGTCAGTTCAGGTCAAAACAA
* *
10150301 TTCAAGTCTGATTACTTTCAGTTCAGATCGATGTCAGTTCAAGTCAAAACAA
1 TTCAAGTCTGATTACTTTCAGTTCGGATCGATGTCAGTTCAGGTCAAAACAA
* * *
10150353 TTCAGGT-TGGGTTACTTTCAGTTCGGATCGATGTCAGTTCCGGTCAAAA
1 TTCAAGTCT-GATTACTTTCAGTTCGGATCGATGTCAGTTCAGGTCAAAA
10150402 TCGGATGAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.01
52 88 0.99
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (52 bp):
TTCAAGTCTGATTACTTTCAGTTCGGATCGATGTCAGTTCAGGTCAAAACAA
Found at i:10151014 original size:2 final size:2
Alignment explanation
Indices: 10151004--10151197 Score: 75
Period size: 2 Copynumber: 97.5 Consensus size: 2
10150994 AATTAAAAAA
*
10151004 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
10151045 AGT AT AT A- AT A- AT A- AA AT AT AT AA ACT AT AT AGT TT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
* * * * * * *
10151085 TT AT A- AT -T TT GT AT AT -T GT AT AT AA AT -T AT GT AGT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * *
10151124 AT AT GA- ACT AT AT AA AA ACT AT AT GGT TT AT AT AT AT GT AT AT
1 AT AT -AT A-T AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT
* *
10151167 AT AT AT AT AT AT AGT TT AT AT A- AT TT AT AT A
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A
10151198 ATTATATTAA
Statistics
Matches: 144, Mismatches: 29, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
1 10 0.07
2 125 0.87
3 9 0.06
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10151310 original size:35 final size:33
Alignment explanation
Indices: 10151242--10151334 Score: 114
Period size: 35 Copynumber: 2.8 Consensus size: 33
10151232 TATAAACTAT
* *
10151242 TAAACTATATATTATGTAGTTTATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
* *
10151275 TAAACTATATAGTTGATATAGTTCATTCGTTTATA
1 TAAACTATATA-TT-ATATAGTTCATTAGTATATA
* *
10151310 TAAATTATATAATATATAGTTCATT
1 TAAACTATATATTATATAGTTCATT
10151335 TGTAACACCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.44
34 3 0.06
35 26 0.50
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (33 bp):
TAAACTATATATTATATAGTTCATTAGTATATA
Found at i:10152453 original size:23 final size:23
Alignment explanation
Indices: 10152427--10152495 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
10152417 CACTATAGCT
* *
10152427 CGTATAAATGCATCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
10152450 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
10152473 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
10152496 TATAAGATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:10159373 original size:23 final size:23
Alignment explanation
Indices: 10159340--10159426 Score: 138
Period size: 23 Copynumber: 3.8 Consensus size: 23
10159330 CAGCTCGTGT
*
10159340 AAATGCACCGAAGTGCCACGTAT
1 AAATGCACCGAAGTGCCACGTAG
* *
10159363 AATTGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
10159386 AAATGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
10159409 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
10159427 TATAAGATGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.15
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:10162018 original size:16 final size:17
Alignment explanation
Indices: 10161997--10162030 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
10161987 ATAATATTAT
10161997 TATATATATAAT-ATCG
1 TATATATATAATAATCG
10162013 TATATATATAATAATCG
1 TATATATATAATAATCG
10162030 T
1 T
10162031 CACTCGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TATATATATAATAATCG
Found at i:10162529 original size:139 final size:140
Alignment explanation
Indices: 10162343--10162604 Score: 300
Period size: 139 Copynumber: 1.9 Consensus size: 140
10162333 TTACTAAATA
* *
10162343 AGAATCTAATTTCACTACTCTTCCGTGAAGATCAGACTTGCCATTGGACTACTTCACTACTCTTC
1 AGAATCTAATTTCACTACTCTTCCGTGAAGATCAGACTTGCAATTGGACTACTCCACTACTCTTC
* * * *
10162408 CGT-GAAGATT-TCATACTTTGTTGAAAAATCTGTTCCACTATTCTGTTATGGAGATTGATCAGG
66 CATAG-AG-TTCTCATACTTTGCTGAAAAATCAGTTCCACTACTCTGTTATGGAGATTGATCAGG
10162471 AATGACTTTAAC
129 AATGACTTTAAC
* * * * * *
10162483 AGAATCT-GTTTCACTACTCTTCTGTGAAGTTCATAC-T-CAAATTTGGATTACTCCGCTACTCT
1 AGAATCTAATTTCACTACTCTTCCGTGAAGATCAGACTTGC-AA-TTGGACTACTCCACTACTCT
* * * * *
10162545 TCCATAGAGTTCTCCTATTTTGCTGAAAAATCAGTTCTACTACTCTTTTGTGGAGATTGA
64 TCCATAGAGTTCTCATACTTTGCTGAAAAATCAGTTCCACTACTCTGTTATGGAGATTGA
10162605 ATTTTAATCT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
137 1 0.01
138 4 0.04
139 88 0.87
140 8 0.08
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (140 bp):
AGAATCTAATTTCACTACTCTTCCGTGAAGATCAGACTTGCAATTGGACTACTCCACTACTCTTC
CATAGAGTTCTCATACTTTGCTGAAAAATCAGTTCCACTACTCTGTTATGGAGATTGATCAGGAA
TGACTTTAAC
Found at i:10163293 original size:22 final size:22
Alignment explanation
Indices: 10163268--10163318 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10163258 GCTTTCGTCT
* * *
10163268 TTGAAAATAGAATTTATCATTA
1 TTGAAAAGAGAATCTATCATCA
*
10163290 TTGAAAAGAGAATCTATCATCC
1 TTGAAAAGAGAATCTATCATCA
10163312 TTGAAAA
1 TTGAAAA
10163319 ATGTAGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TTGAAAAGAGAATCTATCATCA
Found at i:10171947 original size:21 final size:21
Alignment explanation
Indices: 10171848--10172100 Score: 164
Period size: 21 Copynumber: 11.8 Consensus size: 21
10171838 CTTGTAGAAT
* *
10171848 TGTCCTGAAAGACCACATATA
1 TGTCCCGAAGGACCACATATA
* * * * *
10171869 TATCCAGAAAGACCTCATAGAA
1 TGTCCCGAAGGACCACATA-TA
* *
10171891 TTGTCACTAAGGACCACATATA
1 -TGTCCCGAAGGACCACATATA
* * * * *
10171913 AGTTCCAAAAGACCAAATATA
1 TGTCCCGAAGGACCACATATA
*
10171934 TGTCCCGAAGGACCCCATATA
1 TGTCCCGAAGGACCACATATA
* * *
10171955 TGTTCCAAAGGATCACATATA
1 TGTCCCGAAGGACCACATATA
* *** *
10171976 TGTCCCGAATGACCTTGTAGAA
1 TGTCCCGAAGGACCACATA-TA
10171998 TTGTCCCGAAGGACCACATATA
1 -TGTCCCGAAGGACCACATATA
** * *
10172020 TGTCCATAAGGACCAAATAGAA
1 TGTCCCGAAGGACCACATA-TA
* *
10172042 CTGTCCCTAAGGACTACATATA
1 -TGTCCCGAAGGACCACATATA
* * *
10172064 TGTTCCAAAGGACCAAATATA
1 TGTCCCGAAGGACCACATATA
10172085 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
10172101 GTAGAACCCT
Statistics
Matches: 171, Mismatches: 55, Indels: 12
0.72 0.23 0.05
Matches are distributed among these distances:
21 121 0.71
22 6 0.04
23 44 0.26
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:10172020 original size:44 final size:44
Alignment explanation
Indices: 10171923--10172100 Score: 150
Period size: 44 Copynumber: 4.1 Consensus size: 44
10171913 AGTTCCAAAA
* * ** * * *
10171923 GACCAAATATATGTCCCGAAGGACCCCATA-TA-TGTTCCAAAG
1 GACCACATATATGTCCAGAAGGACCAAATAGAACTGTCCCGAAG
* * * *** *
10171965 GATCACATATATGTCCCGAATGACCTTGTAGAATTGTCCCGAAG
1 GACCACATATATGTCCAGAAGGACCAAATAGAACTGTCCCGAAG
* *
10172009 GACCACATATATGTCCATAAGGACCAAATAGAACTGTCCCTAAG
1 GACCACATATATGTCCAGAAGGACCAAATAGAACTGTCCCGAAG
* *
10172053 GACTACATATATGTTCCA-AAGGACCAAATA-TA-TGTCCCGAAG
1 GACCACATATATG-TCCAGAAGGACCAAATAGAACTGTCCCGAAG
10172095 GACCAC
1 GACCAC
10172101 GTAGAACCCT
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
42 38 0.34
43 2 0.02
44 67 0.60
45 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (44 bp):
GACCACATATATGTCCAGAAGGACCAAATAGAACTGTCCCGAAG
Found at i:10175060 original size:25 final size:25
Alignment explanation
Indices: 10175032--10175110 Score: 140
Period size: 25 Copynumber: 3.2 Consensus size: 25
10175022 TTCAATCTAT
* *
10175032 ACTTTGGAGACTCCAACCCATCTCC
1 ACTTTGGAGACTCTAGCCCATCTCC
10175057 ACTTTGGAGACTCTAGCCCATCTCC
1 ACTTTGGAGACTCTAGCCCATCTCC
10175082 ACTTTGGAGACTCTAGCCCATCTCC
1 ACTTTGGAGACTCTAGCCCATCTCC
10175107 ACTT
1 ACTT
10175111 ACAATCTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.22, C:0.37, G:0.14, T:0.28
Consensus pattern (25 bp):
ACTTTGGAGACTCTAGCCCATCTCC
Found at i:10175329 original size:15 final size:17
Alignment explanation
Indices: 10175309--10175340 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
10175299 CATAATATAA
10175309 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
10175324 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
10175341 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:10175468 original size:26 final size:25
Alignment explanation
Indices: 10175437--10175488 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
10175427 TAAAACTCAA
*
10175437 ACAACATTTTAACCAACAACCCAAAC
1 ACAACAATTTAACCAACAA-CCAAAC
* *
10175463 ACAACAATTTAACTAATAACCAAAC
1 ACAACAATTTAACCAACAACCAAAC
10175488 A
1 A
10175489 GACCCCCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (25 bp):
ACAACAATTTAACCAACAACCAAAC
Found at i:10176747 original size:68 final size:68
Alignment explanation
Indices: 10176638--10176913 Score: 464
Period size: 68 Copynumber: 4.1 Consensus size: 68
10176628 TGCAAGGACA
*
10176638 TGTGAATGAACGACTGAGATCGAAA-ATTTCTTTTCTTTATCAATGGTTGTAATCCAATTCGCAT
1 TGTGAATGAACGACTGAGATCGAAAGA-TTCTTTTCTTTATCAATGGTTGTAATCCAATTCACAT
10176702 GGAT
65 GGAT
*
10176706 TGTGAATGAACGACAGAGATCGAAAGATTCTTTTCTTTATCAATGGTTGTAATCCAATTCACATG
1 TGTGAATGAACGACTGAGATCGAAAGATTCTTTTCTTTATCAATGGTTGTAATCCAATTCACATG
10176771 GAT
66 GAT
* *
10176774 TGTGAATGAACGATTGAGATCGAAAGATTCCTTTCTTTATCAATGGTTGTAATCCAATTCACATG
1 TGTGAATGAACGACTGAGATCGAAAGATTCTTTTCTTTATCAATGGTTGTAATCCAATTCACATG
10176839 GAT
66 GAT
* * * *
10176842 TATGAATGAATGACTCAGATCGAAAGATTCATTTCTTTATCAATGGTTGTAATCCAATTCACATG
1 TGTGAATGAACGACTGAGATCGAAAGATTCTTTTCTTTATCAATGGTTGTAATCCAATTCACATG
10176907 GAT
66 GAT
10176910 TGTG
1 TGTG
10176914 TTTTCTAAAA
Statistics
Matches: 196, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
68 195 0.99
69 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (68 bp):
TGTGAATGAACGACTGAGATCGAAAGATTCTTTTCTTTATCAATGGTTGTAATCCAATTCACATG
GAT
Found at i:10177040 original size:3 final size:3
Alignment explanation
Indices: 10177034--10177073 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
10177024 TGAATTATGA
10177034 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
10177074 CATTCAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:10181361 original size:21 final size:21
Alignment explanation
Indices: 10181335--10181471 Score: 100
Period size: 21 Copynumber: 6.4 Consensus size: 21
10181325 AATTTTCCTG
*
10181335 AAGGACCATATATATGTCCAT
1 AAGGACCACATATATGTCCAT
* *
10181356 AAGGACCACATAGAACTGTCCCT
1 AAGGACCACATA-TA-TGTCCAT
*
10181379 AAGGACTACATATATGTTCCA-
1 AAGGACCACATATATG-TCCAT
* *
10181400 AAGGACCAAATATATGT-CTT
1 AAGGACCACATATATGTCCAT
* *
10181420 GAAGGACCCCATATATATTCCA-
1 -AAGGACCACATATAT-GTCCAT
* * **
10181442 AATGATCACATATATGTCCCG
1 AAGGACCACATATATGTCCAT
10181463 AAGGACCAC
1 AAGGACCAC
10181472 GTAGAACCCT
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
19 1 0.01
20 4 0.05
21 59 0.67
22 6 0.07
23 18 0.20
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGGACCACATATATGTCCAT
Found at i:10181441 original size:42 final size:42
Alignment explanation
Indices: 10181340--10181469 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 42
10181330 TCCTGAAGGA
* * * *
10181340 CCATATATATGTCCATAAGGACCACATAGAACTGTCCCTAAGGACT
1 CCATATATAT-TCCA-AAGGACCAAATA-TA-TGTCCCGAAGGACC
* * **
10181386 ACATATATGTTCCAAAGGACCAAATATATGTCTTGAAGGACC
1 CCATATATATTCCAAAGGACCAAATATATGTCCCGAAGGACC
* * *
10181428 CCATATATATTCCAAATGATCACATATATGTCCCGAAGGACC
1 CCATATATATTCCAAAGGACCAAATATATGTCCCGAAGGACC
10181470 ACGTAGAACC
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 45 0.65
43 1 0.01
44 11 0.16
45 4 0.06
46 8 0.12
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (42 bp):
CCATATATATTCCAAAGGACCAAATATATGTCCCGAAGGACC
Found at i:10183680 original size:27 final size:27
Alignment explanation
Indices: 10183650--10183702 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
10183640 ACTTATTATA
* *
10183650 AATTTTCGAAATTGACCTCAAAGTTTT
1 AATTTTCAAAATTAACCTCAAAGTTTT
*
10183677 AATTTTTAAAATTAACCTCAAAGTTT
1 AATTTTCAAAATTAACCTCAAAGTTT
10183703 CCAAACTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (27 bp):
AATTTTCAAAATTAACCTCAAAGTTTT
Found at i:10183762 original size:2 final size:2
Alignment explanation
Indices: 10183755--10183921 Score: 55
Period size: 2 Copynumber: 80.0 Consensus size: 2
10183745 ATATCATTTG
* *
10183755 TA TA TA TA AA CTA TA TA GTA TA TA TA AA CTA TA -A TA TA T- TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
* *
10183796 TA TA GT- TCA T- TA GTA TA TA TA AA T- TA TA TA GTA TA TA TA AA
1 TA TA -TA T-A TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
10183837 CTA TA TGA TA TA TA TA AA CTA TA TA GTA TA TA TA AA T- TA TA TG
1 -TA TA T-A TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
*
10183880 T- TA TA TA GT- TCA T- TA GTA TA TA TA AA CTA TA TA GTA TA TA TA
1 TA TA TA TA -TA T-A TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA
10183922 AACTATATGG
Statistics
Matches: 125, Mismatches: 15, Indels: 50
0.66 0.08 0.26
Matches are distributed among these distances:
1 9 0.07
2 93 0.74
3 23 0.18
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:10183777 original size:18 final size:18
Alignment explanation
Indices: 10183754--10183955 Score: 222
Period size: 18 Copynumber: 11.4 Consensus size: 18
10183744 TATATCATTT
10183754 GTATATATAAACTATATA
1 GTATATATAAACTATATA
10183772 GTATATATAAACTATA-A
1 GTATATATAAACTATATA
* *
10183789 -TATATTATATAGT-TCATTA
1 GTATA-TATAAACTAT-A-TA
*
10183808 GTATATATAAATTATATA
1 GTATATATAAACTATATA
10183826 GTATATATAAACTATAT-
1 GTATATATAAACTATATA
10183843 GATATATATAAACTATATA
1 G-TATATATAAACTATATA
*
10183862 GTATATATAAATTATAT-
1 GTATATATAAACTATATA
**
10183879 GT-TATAT-AGTTCAT-TA
1 GTATATATAAACT-ATATA
10183895 GTATATATAAACTATATA
1 GTATATATAAACTATATA
*
10183913 GTATATATAAACTATATG
1 GTATATATAAACTATATA
*
10183931 GTATACATAAACTATATA
1 GTATATATAAACTATATA
*
10183949 TTATATA
1 GTATATA
10183956 GTTTATTAGA
Statistics
Matches: 157, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
15 4 0.03
16 14 0.09
17 18 0.11
18 107 0.68
19 9 0.06
20 5 0.03
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (18 bp):
GTATATATAAACTATATA
Found at i:10183905 original size:69 final size:69
Alignment explanation
Indices: 10183748--10183981 Score: 271
Period size: 69 Copynumber: 3.3 Consensus size: 69
10183738 GGATGTTATA
* *
10183748 TCATTTGTATATATAAACTATATAGTATATATAAACTATA-A-TATATTATATAGTTCAT-TAGT
1 TCATTAGTATATATAAACTATATAGTATATATAAACTATATAGTATA-TATA-AATT-ATAT-GT
*
10183810 ATATATAAAT
62 -TATAT-AGT
10183820 T-ATATAGTATATATAAACTATAT-GATATATATAAACTATATAGTATATATAAATTATATGTTA
1 TCAT-TAGTATATATAAACTATATAG-TATATATAAACTATATAGTATATATAAATTATATGTTA
10183883 TATAGT
64 TATAGT
* * * *
10183889 TCATTAGTATATATAAACTATATAGTATATATAAACTATATGGTATACATAAACTATATATTATA
1 TCATTAGTATATATAAACTATATAGTATATATAAACTATATAGTATATATAAATTATATGTTATA
10183954 TAGT
66 TAGT
* * *
10183958 TTATTAGAATATATAAATTATATA
1 TCATTAGTATATATAAACTATATA
10183982 ATAATTTATT
Statistics
Matches: 145, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
69 83 0.57
70 8 0.06
71 7 0.05
72 38 0.26
73 5 0.03
74 4 0.03
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (69 bp):
TCATTAGTATATATAAACTATATAGTATATATAAACTATATAGTATATATAAATTATATGTTATA
TAGT
Found at i:10183911 original size:87 final size:90
Alignment explanation
Indices: 10183755--10183955 Score: 336
Period size: 87 Copynumber: 2.3 Consensus size: 90
10183745 ATATCATTTG
*
10183755 TATATATAAACTATATAGTATATATAAACTATAATATATTATATAGTTCATTAGTATATATAAAT
1 TATATATAAACTATATAGTATATATAAACTATAATATATTATATAGTTCATTAGTATATATAAAC
10183820 TATATAGTATATATAAACTATATGA
66 TATATAGTATATATAAACTATATGA
*
10183845 TATATATAAACTATATAGTATATATAAA-T-T-ATATGTTATATAGTTCATTAGTATATATAAAC
1 TATATATAAACTATATAGTATATATAAACTATAATATATTATATAGTTCATTAGTATATATAAAC
*
10183907 TATATAGTATATATAAACTATATGG
66 TATATAGTATATATAAACTATATGA
* *
10183932 TATACATAAACTATATATTATATA
1 TATATATAAACTATATAGTATATA
10183956 GTTTATTAGA
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
87 76 0.72
88 1 0.01
89 1 0.01
90 28 0.26
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (90 bp):
TATATATAAACTATATAGTATATATAAACTATAATATATTATATAGTTCATTAGTATATATAAAC
TATATAGTATATATAAACTATATGA
Found at i:10186842 original size:120 final size:120
Alignment explanation
Indices: 10186613--10186842 Score: 252
Period size: 120 Copynumber: 1.9 Consensus size: 120
10186603 TTTATCCCAA
* *
10186613 AAACCCTTATTTGATCTTCACAAACACCAAAACCCAAACCATTTCATTTTTTCAACCAAACACCC
1 AAACCATTATTTGATCTTCACAAACACCAAAACCCAAACCATTTCATTTTTTCAACCAAACACCA
* * *****
10186678 AAAAATTCAACCCTTGTTCATTCTAGTTCATCCGTGTTCATCTTTGTTCTTCCCC
66 AAAAATTAAACCCTTGTTCATCCTAGTTCATCCCAAACCATCTTTGTTCTTCCCC
* * **
10186733 AAACCATTCTTTGATCTTCACAAACACCAAAACCCAAACCCA-TTC-TTTTTT-TATTAAACACC
1 AAACCATTATTTGATCTTCACAAACACCAAAACCCAAA-CCATTTCATTTTTTCAACCAAACACC
* * *
10186795 AAAAAATTAAATCGTTGTTCATCC-ATGTTCTTCCCCAAACCATTCTTT
65 AAAAAATTAAACCCTTGTTCATCCTA-GTTCAT-CCCAAACCA-TCTTT
10186843 CATCCTTACA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
117 1 0.01
118 32 0.36
119 10 0.11
120 44 0.49
121 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.33
Consensus pattern (120 bp):
AAACCATTATTTGATCTTCACAAACACCAAAACCCAAACCATTTCATTTTTTCAACCAAACACCA
AAAAATTAAACCCTTGTTCATCCTAGTTCATCCCAAACCATCTTTGTTCTTCCCC
Found at i:10186941 original size:100 final size:99
Alignment explanation
Indices: 10186811--10186993 Score: 260
Period size: 100 Copynumber: 1.8 Consensus size: 99
10186801 TTAAATCGTT
* * *
10186811 GTTCATCCATGTTCTTCCCCAAACCATTCTTTCATCCTTACAAACACCCAAAACTTAAAACC-AA
1 GTTCATCCATGTTCATCCCAAAACCATTCTTTCATCCTTACAAACACCCAAAA-TCAAAACCGAA
*
10186875 CCTATTTTTTCGATCAAACACCAAACCCAAACACTA
65 -CTATTTTTTAGATCAAACACCAAACCCAAACACTA
* * * *
10186911 GTTCATCCATGTTCATCCCAAAACCCTTCTTTGATCCTTACAAATACCGAAAATCAAAACCTGAA
1 GTTCATCCATGTTCATCCCAAAACCATTCTTTCATCCTTACAAACACCCAAAATCAAAACC-GAA
10186976 CTATTTTTTAGATCAAAC
65 CTATTTTTTAGATCAAAC
10186994 CCATAATTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
99 7 0.10
100 64 0.88
101 2 0.03
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.29
Consensus pattern (99 bp):
GTTCATCCATGTTCATCCCAAAACCATTCTTTCATCCTTACAAACACCCAAAATCAAAACCGAAC
TATTTTTTAGATCAAACACCAAACCCAAACACTA
Found at i:10189676 original size:25 final size:25
Alignment explanation
Indices: 10189623--10189676 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
10189613 ACTATAAAAC
** * * *
10189623 AAAATAATTAATAGTAAACATAATT
1 AAAATAATTAATACAAAAAACAATA
10189648 AAAATAATTAATACAAAAAACAATA
1 AAAATAATTAATACAAAAAACAATA
10189673 AAAA
1 AAAA
10189677 AAAGTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAATAATTAATACAAAAAACAATA
Found at i:10189705 original size:15 final size:15
Alignment explanation
Indices: 10189669--10189706 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10189659 TACAAAAAAC
*
10189669 AATAAAAAAAAGTAA
1 AATAAATAAAAGTAA
10189684 AATAAATAAAA-TAA
1 AATAAATAAAAGTAA
10189698 ATATAAATA
1 A-ATAAATA
10189707 TAAGGACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAATAAAAGTAA
Found at i:10192129 original size:277 final size:276
Alignment explanation
Indices: 10191601--10192429 Score: 1299
Period size: 277 Copynumber: 3.0 Consensus size: 276
10191591 GCTTTCATTT
*
10191601 TTAGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAACTTCTTTGGAGATAA
1 TTAGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCTTTGGAGATAA
* * * *
10191666 TCATCAAGAAACCCTTGAAAATCATGCTTAGTTTATAAAAACTCA-TT----ACATCCTACCCAA
66 TCATCAAGAAACCCCTGAAAATCATGCTTAGTTTCTAAAAACTCATTTGAGAACATCCTGCCCGA
* * * *
10191726 AGGTCTTATGAATGGCCCGAAGGACTTATCATCTTACTCGAAAGACTTGTAGATGACCCGAAGGA
131 AGGTCTTATGGATGG-CCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGGA
* * * *
10191791 TTTAAGTATCATGCTCAAAAGACTTATTGATGGCTCGAAGGACTTACTCATCAAGAAACCCTTGA
195 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCAAAGGACTTACTCATCAAGAAACCCTTGA
10191856 AAATCAAGCTTAGTTTC
260 AAATCAAGCTTAGTTTC
* * *
10191873 TTAGTTGACATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTGTTTGGAGATAA
1 TTAGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCTTTGGAGATAA
*
10191938 TCATCAAGAAACCCCTGAAAATCATACTTAGTTTCTAAAAACTCATTTGAGAACATCCTGCCCGA
66 TCATCAAGAAACCCCTGAAAATCATGCTTAGTTTCTAAAAACTCATTTGAGAACATCCTGCCCGA
* **
10192003 AGGTCTTATGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAAAA
131 AGGTCTTATGGATGGCC-GAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGGA
*
10192068 TTTAAGCATTATGCTCGAAAGACTTACTGATGGCTCAAAGGACTTACTCATCAAGAAACCCTTGA
195 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCAAAGGACTTACTCATCAAGAAACCCTTGA
* *
10192133 AAATAAAGCTTAGTTTT
260 AAATCAAGCTTAGTTTC
* *
10192150 TTAGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAATTTCTTTGGATATAA
1 TTAGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCTTTGGAGATAA
* * *
10192215 TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAGAACATCTTGCTCGA
66 TCATCAAGAAACCCCTGAAAATCATGCTTAGTTTCTAAAAACTCATTTGAGAACATCCTGCCCGA
* * *
10192280 AGGTCTTATGGATGGCCCAGAGGACTTATCATCTTGTTCGAAAGACTTATAGATGACCCTAAGGA
131 AGGTCTTATGGATGGCCGA-AGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGGA
*
10192345 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACTCATCAAGAAACCCTTGA
195 TTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCAAAGGACTTACTCATCAAGAAACCCTTGA
*
10192410 AAATCAAGATTAGTTTC
260 AAATCAAGCTTAGTTTC
10192427 TTA
1 TTA
10192430 AAATCTTTCA
Statistics
Matches: 507, Mismatches: 43, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
272 103 0.20
273 2 0.00
276 3 0.01
277 399 0.79
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (276 bp):
TTAGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCTTTGGAGATAA
TCATCAAGAAACCCCTGAAAATCATGCTTAGTTTCTAAAAACTCATTTGAGAACATCCTGCCCGA
AGGTCTTATGGATGGCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGGAT
TTAAGCATCATGCTCGAAAGACTTACTGATGGCTCAAAGGACTTACTCATCAAGAAACCCTTGAA
AATCAAGCTTAGTTTC
Found at i:10192386 original size:42 final size:41
Alignment explanation
Indices: 10192268--10192390 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 41
10192258 CATTTGAGAA
* * * * *
10192268 CATCTTGCTCGAAGGTCTTATGGATGGCCCAGAGGACTTAT
1 CATCTTGCTCGAAAGACTTATAGATGGCCCAAAGGACTTAG
* * * *
10192309 CATCTTGTTCGAAAGACTTATAGATGACCCTAAGGATTTAAG
1 CATCTTGCTCGAAAGACTTATAGATGGCCCAAAGGACTT-AG
*
10192351 CATCATGCTCGAAAGACTTACT-GATGGCCCAAAGGACTTA
1 CATCTTGCTCGAAAGACTTA-TAGATGGCCCAAAGGACTTA
10192391 CTCATCAAGA
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
41 32 0.48
42 33 0.50
43 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
CATCTTGCTCGAAAGACTTATAGATGGCCCAAAGGACTTAG
Found at i:10192654 original size:58 final size:59
Alignment explanation
Indices: 10192547--10192666 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 59
10192537 CATTTGAAGA
10192547 CATCAAGAAACCTATAAAAACTAGGCTTAGCTTCTTTTAAAAAAATC-TTTGAAAATCAT
1 CATCAAGAAACCTATAAAAACTAGGCTTAGCTTCTTTTAAAAAAATCTTTTGAAAAT-AT
* * * * **
10192606 CATCAAGAAACC-CTGAAAATTAGGCTTAGTTTC-TTTAAAATATTTCTTTTGAAAATAT
1 CATCAAGAAACCTATAAAAACTAGGCTTAGCTTCTTTTAAAA-AAATCTTTTGAAAATAT
10192664 CAT
1 CAT
10192667 GTTGTTTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
57 7 0.13
58 25 0.47
59 21 0.40
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (59 bp):
CATCAAGAAACCTATAAAAACTAGGCTTAGCTTCTTTTAAAAAAATCTTTTGAAAATAT
Found at i:10194223 original size:15 final size:15
Alignment explanation
Indices: 10194180--10194223 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10194170 GTTTGATTGG
* *
10194180 CTTTCTTTCTTCTTT
1 CTTTCTTTTTTTTTT
10194195 CTTTCTTTTCTTTTTT
1 CTTTCTTTT-TTTTTT
10194211 -TTTCTTTTTTTTT
1 CTTTCTTTTTTTTT
10194224 GTTTGTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 5 0.19
15 16 0.62
16 5 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
CTTTCTTTTTTTTTT
Found at i:10195358 original size:13 final size:14
Alignment explanation
Indices: 10195296--10195362 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 14
10195286 ATACATACTA
10195296 ATGCAAAAATGCAA-
1 ATGC-AAAATGCAAG
10195310 ATGCAAAA-GCAAAG
1 ATGCAAAATGC-AAG
* **
10195324 ATGCAAAAAGGGAG
1 ATGCAAAATGCAAG
10195338 -TGCAAAATGCAAG
1 ATGCAAAATGCAAG
10195351 ATGC-AAATGCAA
1 ATGCAAAATGCAA
10195363 CAAGGAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
12 2 0.05
13 24 0.55
14 17 0.39
15 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.22, T:0.12
Consensus pattern (14 bp):
ATGCAAAATGCAAG
Found at i:10195361 original size:20 final size:19
Alignment explanation
Indices: 10195295--10195362 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
10195285 TATACATACT
10195295 AATGCAAAAATGCAAATGCA
1 AATGC-AAAATGCAAATGCA
* * **
10195315 AAAGCAAAGATGCAAAAAGGG
1 AATGCAAA-ATGC-AAATGCA
*
10195336 AGTGCAAAATGCAAGATGCA
1 AATGCAAAATGCAA-ATGCA
10195356 AATGCAA
1 AATGCAA
10195363 CAAGGAATTG
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 5 0.14
20 20 0.57
21 10 0.29
ACGTcount: A:0.53, C:0.13, G:0.22, T:0.12
Consensus pattern (19 bp):
AATGCAAAATGCAAATGCA
Found at i:10200391 original size:17 final size:17
Alignment explanation
Indices: 10200366--10200399 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10200356 TGCAAAAATG
* *
10200366 TTGGTTGTTGCTGCCTA
1 TTGGATGTTGCTACCTA
10200383 TTGGATGTTGCTACCTA
1 TTGGATGTTGCTACCTA
10200400 CTGGTTGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.26, T:0.44
Consensus pattern (17 bp):
TTGGATGTTGCTACCTA
Found at i:10200928 original size:194 final size:195
Alignment explanation
Indices: 10200599--10200989 Score: 766
Period size: 194 Copynumber: 2.0 Consensus size: 195
10200589 AAGAAATTTC
10200599 TGGTAGCAAATTTAGGCTTCTAGCCTTATAAAAGTTTTGTTATAAGTTATGAGAGCTTAAAAAGA
1 TGGTAGCAAATTTAGGCTTCTAGCCTTATAAAAGTTTTGTTATAAGTTATGAGAGCTTAAAAAGA
10200664 CACTTTGTTTTTGTTCATTTTATTGTGATCTTATTGTATTTAATTGTTATAAATCAAATGTTATT
66 CACTTTGTTTTTGTTCATTTTATTGTGATCTTATTGTATTTAATTGTTATAAATCAAATGTTATT
10200729 CAAATTTTAGATCAAATGTTATTTACATTATCAATATCAATTAAATTAATC-TTATATTATTTTT
131 CAAATTTTAGATCAAATGTTATTTACATTATCAATATCAATTAAATTAATCTTTATATTATTTTT
10200793 TGGTAGCAAATTTAGGCTTCTAGCCTTATAAAAGTTTTGTTATAAGTTATGAGAGCTTAAAAAGA
1 TGGTAGCAAATTTAGGCTTCTAGCCTTATAAAAGTTTTGTTATAAGTTATGAGAGCTTAAAAAGA
10200858 CACTTTGTTTTTGTTCATTTTATTGTGATCTTATTGTATTTAATTGTTATAAATCAAATGTTATT
66 CACTTTGTTTTTGTTCATTTTATTGTGATCTTATTGTATTTAATTGTTATAAATCAAATGTTATT
10200923 CAAATTTTAGATCAAATGTTATTTACATTATCAATATCAATTAAATTAATCTTTTATATTATTTT
131 CAAATTTTAGATCAAATGTTATTTACATTATCAATATCAATTAAATTAATC-TTTATATTATTTT
10200988 T
195 T
10200989 T
1 T
10200990 ATGTATGTTA
Statistics
Matches: 195, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
194 181 0.93
196 14 0.07
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (195 bp):
TGGTAGCAAATTTAGGCTTCTAGCCTTATAAAAGTTTTGTTATAAGTTATGAGAGCTTAAAAAGA
CACTTTGTTTTTGTTCATTTTATTGTGATCTTATTGTATTTAATTGTTATAAATCAAATGTTATT
CAAATTTTAGATCAAATGTTATTTACATTATCAATATCAATTAAATTAATCTTTATATTATTTTT
Found at i:10201948 original size:36 final size:36
Alignment explanation
Indices: 10201906--10201987 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
10201896 TTAATAAGTG
10201906 ATAAGTCATGTTACTTAGTAAATAGACTTATTAATA
1 ATAAGTCATGTTACTTAGTAAATAGACTTATTAATA
*
10201942 ATAAGTCATGTTATTTAGTAAATAGACTTATTAATA
1 ATAAGTCATGTTACTTAGTAAATAGACTTATTAATA
10201978 ATAAGTCATG
1 ATAAGTCATG
10201988 CCACGTGGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (36 bp):
ATAAGTCATGTTACTTAGTAAATAGACTTATTAATA
Found at i:10202002 original size:36 final size:36
Alignment explanation
Indices: 10201906--10202009 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
10201896 TTAATAAGTG
** *
10201906 ATAAGTCATGTTACTTAGTAAATAGACTTATTAATA
1 ATAAGTCATGCCACGTAGTAAATAGACTTATTAATA
** **
10201942 ATAAGTCATGTTATTTAGTAAATAGACTTATTAATA
1 ATAAGTCATGCCACGTAGTAAATAGACTTATTAATA
* *
10201978 ATAAGTCATGCCACGTGGTGAATAGACTTATT
1 ATAAGTCATGCCACGTAGTAAATAGACTTATT
10202010 TTTTTAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (36 bp):
ATAAGTCATGCCACGTAGTAAATAGACTTATTAATA
Found at i:10203218 original size:19 final size:17
Alignment explanation
Indices: 10203194--10203241 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
10203184 ATCAATATTT
*
10203194 TATTTTGATAATTATTCAA
1 TATTTT-ATAATTAAT-AA
*
10203213 TATTTTATAGTTAATAA
1 TATTTTATAATTAATAA
10203230 TATTTTACTAAT
1 TATTTTA-TAAT
10203242 GGGAAGTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 10 0.40
19 6 0.24
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (17 bp):
TATTTTATAATTAATAA
Found at i:10209292 original size:16 final size:16
Alignment explanation
Indices: 10209271--10209319 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
10209261 ATATCTGTAA
*
10209271 AAAAAATTAATTAAAT
1 AAAAAATTAAATAAAT
*
10209287 AAAAAATTAAATAATT
1 AAAAAATTAAATAAAT
10209303 AAAACAATTAAATAAAT
1 AAAA-AATTAAATAAAT
10209320 TATTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 18 0.62
17 11 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATTAAATAAAT
Found at i:10209313 original size:9 final size:8
Alignment explanation
Indices: 10209271--10209321 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
10209261 ATATCTGTAA
10209271 AAAAAATT
1 AAAAAATT
*
10209279 AATTAAA-T
1 AA-AAAATT
10209287 AAAAAATT
1 AAAAAATT
*
10209295 AAATAATT
1 AAAAAATT
10209303 AAAACAATT
1 AAAA-AATT
10209312 AAATAAATT
1 AAA-AAATT
10209321 A
1 A
10209322 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
7 3 0.09
8 16 0.46
9 15 0.43
10 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAAATT
Found at i:10209318 original size:21 final size:22
Alignment explanation
Indices: 10209278--10209345 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 22
10209268 TAAAAAAAAT
* *
10209278 TAATTAAATAAA-A-AATTAAA
1 TAATTAAAAAAATATAAATAAA
*
10209298 TAATTAAAACAAT-TAAATAAA
1 TAATTAAAAAAATATAAATAAA
*
10209319 TTATTAAAAAAATACTAAATATAA
1 TAATTAAAAAAATA-TAAATA-AA
10209343 TAA
1 TAA
10209346 AATATACCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 10 0.27
21 17 0.46
23 6 0.16
24 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATTAAAAAAATATAAATAAA
Found at i:10210009 original size:3 final size:3
Alignment explanation
Indices: 10210001--10210030 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10209991 GTTTATTCAA
10210001 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10210031 CTTTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10211449 original size:2 final size:2
Alignment explanation
Indices: 10211444--10211480 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10211434 TGTCATTAAT
10211444 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10211481 GTCCTGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10213416 original size:29 final size:29
Alignment explanation
Indices: 10213363--10213427 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
10213353 GTAAAAGAAA
*
10213363 GTCAACGGTCACGGTCAACGGTCGGGTCGG
1 GTCAACGGT-ACGGTCAACAGTCGGGTCGG
10213393 GTCAACGGT-CGGATCAACAGTCGGGTCGG
1 GTCAACGGTACGG-TCAACAGTCGGGTCGG
10213422 GTCAAC
1 GTCAAC
10213428 CCGGTTCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 3 0.09
29 21 0.64
30 9 0.27
ACGTcount: A:0.20, C:0.26, G:0.37, T:0.17
Consensus pattern (29 bp):
GTCAACGGTACGGTCAACAGTCGGGTCGG
Found at i:10213475 original size:10 final size:10
Alignment explanation
Indices: 10213423--10213491 Score: 63
Period size: 9 Copynumber: 7.1 Consensus size: 10
10213413 TCGGGTCGGG
*
10213423 TCAACCCGGT
1 TCAAACCGGT
*
10213433 TCAGACCGG-
1 TCAAACCGGT
10213442 TCAAACCGGT
1 TCAAACCGGT
*
10213452 TCGAACCGG-
1 TCAAACCGGT
*
10213461 TCAAACTGGT
1 TCAAACCGGT
*
10213471 TCAAAACTGG-
1 TC-AAACCGGT
10213481 TCAAACCGGT
1 TCAAACCGGT
10213491 T
1 T
10213492 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 21 0.44
10 20 0.42
11 7 0.15
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:10213484 original size:20 final size:19
Alignment explanation
Indices: 10213421--10213491 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
10213411 AGTCGGGTCG
* *
10213421 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
*
10213440 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTCAAACC
* *
10213459 GGTCAAACTGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
10213479 GGTCAAACCGGTT
1 GGTCAAACCGGTT
10213492 TTCCAGCAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.66
20 15 0.34
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:10220299 original size:19 final size:20
Alignment explanation
Indices: 10220275--10220341 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 20
10220265 AGTCGCGTCG
*
10220275 GGTCAACCCGGTTCAG-ACC
1 GGTCAAACCGGTTCAGAACC
10220294 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAGAACC
* *
10220313 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTCAGAACC
10220333 GGTCAAACC
1 GGTCAAACC
10220342 AGTTTTCCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 1 0.02
19 30 0.70
20 12 0.28
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.16
Consensus pattern (20 bp):
GGTCAAACCGGTTCAGAACC
Found at i:10220305 original size:9 final size:9
Alignment explanation
Indices: 10220275--10220341 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
10220265 AGTCGCGTCG
*
10220275 GGTCAACCC
1 GGTCAAACC
*
10220284 GGTTCAGACC
1 GG-TCAAACC
10220294 GGTCAAACC
1 GGTCAAACC
*
10220303 GGTTCGAACC
1 GG-TCAAACC
10220313 GGTCAAACC
1 GGTCAAACC
*
10220322 GGTTCAAAACT
1 GG-TC-AAACC
10220333 GGTCAAACC
1 GGTCAAACC
10220342 AGTTTTCCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.47
10 19 0.40
11 6 0.13
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:10220312 original size:10 final size:10
Alignment explanation
Indices: 10220277--10220329 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
10220267 TCGCGTCGGG
*
10220277 TCAACCCGGT
1 TCAAACCGGT
*
10220287 TCAGACCGG-
1 TCAAACCGGT
10220296 TCAAACCGGT
1 TCAAACCGGT
*
10220306 TCGAACCGG-
1 TCAAACCGGT
10220315 TCAAACCGGT
1 TCAAACCGGT
10220325 TCAAA
1 TCAAA
10220330 ACTGGTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.44
10 20 0.56
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.17
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:10222049 original size:32 final size:34
Alignment explanation
Indices: 10221986--10222049 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
10221976 TAACACTAAG
* *
10221986 TATATAGATGACATATATAGAAAATACGTATATA
1 TATATAGATGACATAAATAAAAAATACGTATATA
*
10222020 TATATAG-TTACATAAATAAAAAATA-GTATA
1 TATATAGATGACATAAATAAAAAATACGTATA
10222050 ATAAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 5 0.19
33 15 0.56
34 7 0.26
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (34 bp):
TATATAGATGACATAAATAAAAAATACGTATATA
Found at i:10222191 original size:2 final size:2
Alignment explanation
Indices: 10222121--10222174 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
10222111 AAATAAGTAA
*
10222121 AT AT AT AT AT AT AT AT AT A- AT A- AT A- AT A- AC A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10222157 A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
10222175 ATGAAACGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
1 7 0.16
2 38 0.84
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:10223318 original size:2 final size:2
Alignment explanation
Indices: 10223311--10223359 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
10223301 ATATGTGGCT
*
10223311 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA -A TA -A 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
10223351 TA TA TA TA T
1 TA TA TA TA T
10223360 TTTTAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10224134 original size:103 final size:105
Alignment explanation
Indices: 10223659--10224418 Score: 1223
Period size: 105 Copynumber: 7.4 Consensus size: 105
10223649 ATTGTTCCGA
* * * * * *
10223659 TCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAA-CTGGGAAATTGTTTATTGACAACC
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTTGAGAAA-TGTTTGTTGACAACC
*
10223723 AGTGGTCCCTTCGTC---AAGTTGAACTTGCGTTGTCTGGAG
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * * *
10223762 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTTACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAACCA
10223827 GC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAG
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
10223866 TCCAATATCCTTCGTGTGTGAAGTTGAAATTGGCTCTGAA-TTGAG-AATG-TT-TTGACAACCA
1 TCCAATATCCTTCGT-TGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCA
10223927 GCGGTCCCTTCGTCGTG-AGTTGAACTTGCGTTGTCTGGAG
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
10223967 TCCAATATCCTTCGTTGT---GTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
*
10224029 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
10224069 TCCAATATCCTTCG-TGTGAAGTTGAAATT-GCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
10224132 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAG
10224173 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
10224238 CGGTCCCCTTCGTCGTGAAGTTG-ACTTGCGTTGTCTGGAG
66 CGGT-CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
10224278 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
*
10224343 TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
10224383 TCCAATA-CCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
10224419 GGTAAAACCT
Statistics
Matches: 623, Mismatches: 13, Indels: 41
0.92 0.02 0.06
Matches are distributed among these distances:
97 18 0.03
98 5 0.01
99 4 0.01
100 35 0.06
101 64 0.10
102 52 0.08
103 124 0.20
104 97 0.16
105 156 0.25
106 50 0.08
107 18 0.03
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (105 bp):
TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
Found at i:10229974 original size:20 final size:20
Alignment explanation
Indices: 10229936--10229974 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10229926 AAATACACAT
*
10229936 AATAAAATAAAATATAAAAC
1 AATAAAATAAAATAAAAAAC
10229956 AATAAAAGTAAAA-AAAAAA
1 AATAAAA-TAAAATAAAAAA
10229975 TGAGTAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (20 bp):
AATAAAATAAAATAAAAAAC
Found at i:10230537 original size:38 final size:38
Alignment explanation
Indices: 10230495--10230575 Score: 87
Period size: 38 Copynumber: 2.1 Consensus size: 38
10230485 GGTAAAAGAG
10230495 TATAAAAAGAAATAAGT-A-AAT-ATATATATATATATACA
1 TATAAAAA-AAATAA-TAACAATAATA-ATATATATATACA
* * *
10230533 TATAATAATAATAATAACAATAATAATATATATATATA
1 TATAAAAAAAATAATAACAATAATAATATATATATACA
10230571 TATAA
1 TATAA
10230576 TGAAACGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 1 0.03
37 6 0.16
38 27 0.73
39 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (38 bp):
TATAAAAAAAATAATAACAATAATAATATATATATACA
Found at i:10230573 original size:12 final size:10
Alignment explanation
Indices: 10230513--10230576 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 10
10230503 GAAATAAGTA
10230513 AATATATATAT
1 AATA-ATATAT
*
10230524 ATATATACATAT
1 A-ATA-ATATAT
10230536 AATAATA-AT
1 AATAATATAT
*
10230545 AATAACA-AT
1 AATAATATAT
10230554 AATAATATAT
1 AATAATATAT
10230564 -ATATATATAT
1 AATA-ATATAT
10230574 AAT
1 AAT
10230577 GAAACGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 19 0.42
10 10 0.22
11 6 0.13
12 10 0.22
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
AATAATATAT
Found at i:10231730 original size:2 final size:2
Alignment explanation
Indices: 10231725--10231757 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10231715 ATATGTGGCG
10231725 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10231758 GTTTATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10235604 original size:2 final size:2
Alignment explanation
Indices: 10235592--10235629 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
10235582 TTCGAATTGA
* *
10235592 AG AG TG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10235630 GACTGATGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:10237469 original size:60 final size:60
Alignment explanation
Indices: 10237386--10237622 Score: 268
Period size: 60 Copynumber: 4.0 Consensus size: 60
10237376 ATATGTCTCC
* * *
10237386 AAACTAT-AATCTTATTTTAAATTAGTCCTTAAAGTTTTGAATATTCCAATTTCATCCTT
1 AAACTATGACTCTTATTCTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCTT
* *
10237445 AAATTATGACTCTTATTCTAAATTAGTTCTTAAACTTTTGAATATTCCAATTTCATCCTT
1 AAACTATGACTCTTATTCTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCTT
** * * * * *
10237505 AAACGGTGACTCTCATTCTAAATTAGTTCTCAAACTTTTGAACATT-CAAGTTTCATCCTC
1 AAACTATGACTCTTATTCTAAATTAGTCCTTAAACTTTTGAATATTCCAA-TTTCATCCTT
* * *
10237565 AAACTATGACCCTCT-TTCTAAATTGATTCAC--AAACTTTTGTATATTCCAATTTCATCC
1 AAACTATGACTCT-TATTCTAAATT-AGTC-CTTAAACTTTTGAATATTCCAATTTCATCC
10237623 CCAAATTCAC
Statistics
Matches: 152, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
59 9 0.06
60 137 0.90
61 5 0.03
62 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (60 bp):
AAACTATGACTCTTATTCTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCTT
Found at i:10237508 original size:29 final size:29
Alignment explanation
Indices: 10237411--10237508 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 29
10237401 TTTAAATTAG
*
10237411 TCCTTAAAGTTTTGAATATTCCAATTTCA
1 TCCTTAAACTTTTGAATATTCCAATTTCA
* * * *
10237440 TCCTTAAA-TTATGACTCTTATTCTAAATT-A
1 TCCTTAAACTTTTGA---ATATTCCAATTTCA
*
10237470 GTTCTTAAACTTTTGAATATTCCAATTTCA
1 -TCCTTAAACTTTTGAATATTCCAATTTCA
10237500 TCCTTAAAC
1 TCCTTAAAC
10237509 GGTGACTCTC
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
28 5 0.09
29 25 0.47
30 2 0.04
31 16 0.30
32 5 0.09
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (29 bp):
TCCTTAAACTTTTGAATATTCCAATTTCA
Found at i:10237616 original size:120 final size:120
Alignment explanation
Indices: 10237403--10237622 Score: 302
Period size: 120 Copynumber: 1.8 Consensus size: 120
10237393 AATCTTATTT
* * * * * *
10237403 TAAATTAGTCCTTAAAGTTTTGAATATTCCAATTTCATCCTTAAATTATGACTCTTATTCTAAAT
1 TAAATTAGTCCTCAAACTTTTGAACATTCCAATTTCATCCTCAAACTATGACCCTTATTCTAAAT
**
10237468 TAGTTCTTAAACTTTTGAATATTCCAATTTCATCCTTAAACGGTGACTCTCATTC
66 TAGTTCACAAACTTTTGAATATTCCAATTTCATCCTTAAACGGTGACTCTCATTC
*
10237523 TAAATTAGTTCTCAAACTTTTGAACATT-CAAGTTTCATCCTCAAACTATGACCCTCT-TTCTAA
1 TAAATTAGTCCTCAAACTTTTGAACATTCCAA-TTTCATCCTCAAACTATGACCCT-TATTCTAA
*
10237586 ATT-GATTCACAAACTTTTGTATATTCCAATTTCATCC
64 ATTAG-TTCACAAACTTTTGAATATTCCAATTTCATCC
10237623 CCAAATTCAC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
119 4 0.05
120 82 0.94
121 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (120 bp):
TAAATTAGTCCTCAAACTTTTGAACATTCCAATTTCATCCTCAAACTATGACCCTTATTCTAAAT
TAGTTCACAAACTTTTGAATATTCCAATTTCATCCTTAAACGGTGACTCTCATTC
Found at i:10237846 original size:60 final size:58
Alignment explanation
Indices: 10237774--10237923 Score: 165
Period size: 59 Copynumber: 2.5 Consensus size: 58
10237764 GACTAGAATG
* ** *
10237774 TTCAAAATGTTTGGGGACTAATTTAGAATAAAGGTCATAGTTTGGGGATGAAATTGAAATA
1 TTCAAAA-GTTT-GGGACTAATTTAGAATAAA-GTAATAGTTTACGGATAAAATTGAAATA
* * *
10237835 TTCAAAAGTTTGAGACTAATTTAGAATGATAGTAATAGTTTACGGATAAAATTGGAATA
1 TTCAAAAGTTTGGGACTAATTTAGAAT-AAAGTAATAGTTTACGGATAAAATTGAAATA
* * *
10237894 TTTAAAAGTTTAGGGACCAATTTAAAATAA
1 TTCAAAAGTTT-GGGACTAATTTAGAATAA
10237924 GGATAATACT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
59 49 0.65
60 19 0.25
61 7 0.09
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.33
Consensus pattern (58 bp):
TTCAAAAGTTTGGGACTAATTTAGAATAAAGTAATAGTTTACGGATAAAATTGAAATA
Found at i:10240949 original size:2 final size:2
Alignment explanation
Indices: 10240942--10240978 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10240932 AAATGAGGGG
*
10240942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10240979 TTAAGACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10242360 original size:23 final size:23
Alignment explanation
Indices: 10242327--10242378 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
10242317 CCCAAAGGAT
*
10242327 CACATAGGTTTGCACCGAAGTGC
1 CACATAAGTTTGCACCGAAGTGC
*
10242350 CACATAAGTTTGCATCGAAGTGC
1 CACATAAGTTTGCACCGAAGTGC
10242373 CACATA
1 CACATA
10242379 TTTGTCCCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACATAAGTTTGCACCGAAGTGC
Done.