Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold324
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: 2336777
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 14 of 16
Found at i:1962435 original size:14 final size:14
Alignment explanation
Indices: 1962418--1962469 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
1962408 ATTATAATTT
1962418 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* *
1962432 TTAAAATATTAAAT
1 TTAAAATATAAAAA
*
1962446 TTAATAGTATAAAAA
1 TTAA-AATATAAAAA
1962461 TTAAAATAT
1 TTAAAATAT
1962470 TCTTTTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:1962476 original size:28 final size:29
Alignment explanation
Indices: 1962416--1962478 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
1962406 TTATTATAAT
1962416 TTTTAA-AATATAAAAATTAAAATATTAA
1 TTTTAATAATATAAAAATTAAAATATTAA
* * *
1962444 ATTTAATAGTATAAAAATTAAAATATT-C
1 TTTTAATAATATAAAAATTAAAATATTAA
1962472 TTTTAAT
1 TTTTAAT
1962479 TATAATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TTTTAATAATATAAAAATTAAAATATTAA
Found at i:1962700 original size:25 final size:25
Alignment explanation
Indices: 1962667--1962716 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1962657 ATTATTAAAA
*
1962667 TATATTAAAATTTAAA-AATATATTT
1 TATAATAAAATTTAAATAAT-TATTT
1962692 TATAATAAAATTTAAATAATTATTT
1 TATAATAAAATTTAAATAATTATTT
1962717 AATTATACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAATAAAATTTAAATAATTATTT
Found at i:1963782 original size:23 final size:27
Alignment explanation
Indices: 1963742--1963791 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
1963732 TATATTTTTA
1963742 ATATTTATATTATAATAT-A-ATAAAT
1 ATATTTATATTATAATATGATATAAAT
*
1963767 ATATTTAT-TT-TTATATGATATAAAT
1 ATATTTATATTATAATATGATATAAAT
1963792 TATAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.23
24 3 0.14
25 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
ATATTTATATTATAATATGATATAAAT
Found at i:1963797 original size:40 final size:37
Alignment explanation
Indices: 1963734--1963807 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 37
1963724 ACTTAACATA
* *
1963734 TATTTTTAATATTTATATTATAATATAATAAATATATT
1 TATTTTTAATATATAAATTATAATATAA-AAATATATT
1963772 TATTTTTATATGATATAAATTATAATATAAAAATAT
1 TATTTTTA-AT-ATATAAATTATAATATAAAAATAT
1963808 TAAAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 8 0.25
39 8 0.25
40 16 0.50
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (37 bp):
TATTTTTAATATATAAATTATAATATAAAAATATATT
Found at i:1964033 original size:41 final size:41
Alignment explanation
Indices: 1963988--1964069 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
1963978 GATTTGAGCT
1963988 GATAACTCAACCACTTAACGAGTTTAGATTATAATAATGTA
1 GATAACTCAACCACTTAACGAGTTTAGATTATAATAATGTA
*
1964029 GATAACTCAACCACTTAATGAGTTTAGATTATAATAATGTA
1 GATAACTCAACCACTTAACGAGTTTAGATTATAATAATGTA
1964070 ATATTTGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (41 bp):
GATAACTCAACCACTTAACGAGTTTAGATTATAATAATGTA
Found at i:1965456 original size:13 final size:13
Alignment explanation
Indices: 1965438--1965463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1965428 ACATAAGTTT
1965438 TGTATCGATACAA
1 TGTATCGATACAA
1965451 TGTATCGATACAA
1 TGTATCGATACAA
1965464 AACTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1965553 original size:20 final size:20
Alignment explanation
Indices: 1965497--1965565 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
1965487 AAATGTATTG
* * *
1965497 ATACATTACTAAATGTATCG
1 ATACATTTCTAATTGTATCA
*
1965517 ATACTTGTTCATAATTGTATCA
1 ATACAT-TTC-TAATTGTATCA
1965539 ATACATTTCTAATTGTATCA
1 ATACATTTCTAATTGTATCA
1965559 ATACATT
1 ATACATT
1965566 CTGAGTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 23 0.55
21 5 0.12
22 14 0.33
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.42
Consensus pattern (20 bp):
ATACATTTCTAATTGTATCA
Found at i:1967936 original size:27 final size:27
Alignment explanation
Indices: 1967906--1967974 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
1967896 TATTCATCAA
* *
1967906 GGATACTCCAACCCCACCCCTTCACGG
1 GGATACTCCAACCCCACCCCTCCAAGG
* **
1967933 GGATACTCCAACTCCATTCCTCCAAGG
1 GGATACTCCAACCCCACCCCTCCAAGG
*
1967960 GAATACTCCAACCCC
1 GGATACTCCAACCCC
1967975 GCTTTTAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.43, G:0.13, T:0.17
Consensus pattern (27 bp):
GGATACTCCAACCCCACCCCTCCAAGG
Found at i:1969085 original size:2 final size:2
Alignment explanation
Indices: 1969078--1969103 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1969068 TATTTTTATG
1969078 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
1969104 AGGAAAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1972570 original size:27 final size:26
Alignment explanation
Indices: 1972537--1972609 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 26
1972527 AGCCACCATT
1972537 TGTTTGTCAAAAATGGTGGTTACTTTG
1 TGTTTGTCAAAAATGGTGGTTA-TTTG
* *
1972564 TGTTTGTCAAAAATGGTAGTTTATTTT
1 TGTTTGTCAAAAATGGT-GGTTATTTG
*
1972591 TATTTGTCAAAAATGGTGG
1 TGTTTGTCAAAAATGGTGG
1972610 CTTGTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 36 0.88
28 4 0.10
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.45
Consensus pattern (26 bp):
TGTTTGTCAAAAATGGTGGTTATTTG
Found at i:1972622 original size:24 final size:24
Alignment explanation
Indices: 1972590--1972635 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1972580 TAGTTTATTT
1972590 TTATTTGTCAAAAATGGTGGCTTG
1 TTATTTGTCAAAAATGGTGGCTTG
* *
1972614 TTATTTGTCAAAATTTGTGGCT
1 TTATTTGTCAAAAATGGTGGCT
1972636 AATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (24 bp):
TTATTTGTCAAAAATGGTGGCTTG
Found at i:1976868 original size:13 final size:13
Alignment explanation
Indices: 1976850--1976875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1976840 TACACCAAGT
1976850 ATGTATCGATACA
1 ATGTATCGATACA
1976863 ATGTATCGATACA
1 ATGTATCGATACA
1976876 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1980952 original size:15 final size:15
Alignment explanation
Indices: 1980932--1980962 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1980922 TAAAAATGTC
*
1980932 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1980947 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1980962 C
1 C
1980963 CAAACGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1983060 original size:13 final size:13
Alignment explanation
Indices: 1983042--1983080 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1983032 ACATTTTTCT
1983042 TTGTATCGATACA
1 TTGTATCGATACA
1983055 TTGTATCGATACA
1 TTGTATCGATACA
1983068 TTGTATCGATACA
1 TTGTATCGATACA
1983081 GGGTGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1983244 original size:20 final size:20
Alignment explanation
Indices: 1983201--1983246 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1983191 AAATCTTTTG
1983201 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1983222 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1983242 CAAAA
1 CAAAA
1983247 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1984398 original size:14 final size:14
Alignment explanation
Indices: 1984364--1984392 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1984354 AGATTCCTAT
1984364 TTCTCGACCTCGCA
1 TTCTCGACCTCGCA
1984378 TTCTCGACCTCGCA
1 TTCTCGACCTCGCA
1984392 T
1 T
1984393 CATCGATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.41, G:0.14, T:0.31
Consensus pattern (14 bp):
TTCTCGACCTCGCA
Found at i:1985664 original size:13 final size:13
Alignment explanation
Indices: 1985646--1985671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1985636 TACACCAAGT
1985646 ATGTATCGATACA
1 ATGTATCGATACA
1985659 ATGTATCGATACA
1 ATGTATCGATACA
1985672 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1990993 original size:14 final size:16
Alignment explanation
Indices: 1990968--1991003 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1990958 AAAAGAAGGA
1990968 AGAAAAAGCAAAG-AG
1 AGAAAAAGCAAAGAAG
1990983 AGAAAAA-CAAAGAAG
1 AGAAAAAGCAAAGAAG
1990998 AGAAAA
1 AGAAAA
1991004 GAAAGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAAGCAAAGAAG
Found at i:1991008 original size:14 final size:14
Alignment explanation
Indices: 1990958--1991009 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
1990948 GAGGAAGGAC
*
1990958 AAAAGAAGGAAGA-
1 AAAAGAAAGAAGAG
1990971 AAAAGCAAAG-AGAG
1 AAAAG-AAAGAAGAG
*
1990985 AAAAACAAAGAAGAG
1 -AAAAGAAAGAAGAG
1991000 AAAAGAAAGA
1 AAAAGAAAGA
1991010 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 8 0.25
14 16 0.50
15 8 0.25
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAGAG
Found at i:1991921 original size:19 final size:19
Alignment explanation
Indices: 1991890--1991939 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1991880 ATTTTAGTAA
* *
1991890 ATTTAATAA-TTTTTAATT
1 ATTTATTAATTTTTTAAGT
1991908 ATTTATTAATTTTTTAAGT
1 ATTTATTAATTTTTTAAGT
*
1991927 ATATTATAAATTT
1 AT-TTATTAATTT
1991940 AAGAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 8 0.30
19 10 0.37
20 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTATTAATTTTTTAAGT
Found at i:1997878 original size:15 final size:15
Alignment explanation
Indices: 1997858--1997896 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1997848 ATCGGGTTAG
1997858 TTTTGAGTTGAATTA
1 TTTTGAGTTGAATTA
*
1997873 TTTTGAGTTGAGTTA
1 TTTTGAGTTGAATTA
*
1997888 TTTCGAGTT
1 TTTTGAGTT
1997897 TTAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.03, G:0.23, T:0.54
Consensus pattern (15 bp):
TTTTGAGTTGAATTA
Found at i:1998728 original size:13 final size:13
Alignment explanation
Indices: 1998692--1998738 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1998682 AAATAAAATA
1998692 AATTAATAATTTAT
1 AATT-ATAATTTAT
*
1998706 -GTTATAATTTAT
1 AATTATAATTTAT
*
1998718 AATTATTATTTAT
1 AATTATAATTTAT
1998731 AATT-TAAT
1 AATTATAAT
1998739 ATTTTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATAATTTAT
Found at i:1999907 original size:17 final size:17
Alignment explanation
Indices: 1999873--1999908 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1999863 ATAACAAGTG
*
1999873 ATAAAATCATTTTAATA
1 ATAAAATCATCTTAATA
*
1999890 ATAAAATCATCTTGATA
1 ATAAAATCATCTTAATA
1999907 AT
1 AT
1999909 TAAAGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (17 bp):
ATAAAATCATCTTAATA
Found at i:2000683 original size:16 final size:16
Alignment explanation
Indices: 2000662--2000698 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2000652 ATTATGAGAC
*
2000662 ATGTGTCATAGCTTGG
1 ATGTGTCATAACTTGG
2000678 ATGTGTCATAACTTGG
1 ATGTGTCATAACTTGG
2000694 A-GTGT
1 ATGTGT
2000699 GCTGCATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.38
Consensus pattern (16 bp):
ATGTGTCATAACTTGG
Found at i:2000982 original size:2 final size:2
Alignment explanation
Indices: 2000975--2000999 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2000965 ATCTATATGA
2000975 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2001000 ACACATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2001900 original size:14 final size:14
Alignment explanation
Indices: 2001883--2001934 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
2001873 ATTATAATTT
*
2001883 TTAAGATATAAAAA
1 TTAAAATATAAAAA
* *
2001897 TTAAAATATTAAAT
1 TTAAAATATAAAAA
2001911 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
2001926 TTAAAATAT
1 TTAAAATAT
2001935 TTTTTTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:2002241 original size:25 final size:27
Alignment explanation
Indices: 2002175--2002246 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
2002165 TTTATAATAA
* *
2002175 AATTTAAATAATTATTTAATTATATTT
1 AATTTAAATAATTTTTTTATTATATTT
* * *
2002202 AAATAAAAAATATTTTTTTATTAT-TTT
1 AATTTAAATA-ATTTTTTTATTATATTT
2002229 -ATTTAAATAATTTTTTTA
1 AATTTAAATAATTTTTTTA
2002247 ATCTAATCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 9 0.25
26 6 0.17
27 10 0.28
28 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTTAAATAATTTTTTTATTATATTT
Found at i:2002243 original size:26 final size:27
Alignment explanation
Indices: 2002176--2002248 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
2002166 TTATAATAAA
*
2002176 ATTTAAATAA-TTATTTAATTATATTT
1 ATTTAAATAATTTTTTTAATTATATTT
** * *
2002202 AAATAAAAAATATTTTTTTATTAT-TTT
1 ATTTAAATAAT-TTTTTTAATTATATTT
2002229 ATTTAAATAATTTTTTTAAT
1 ATTTAAATAATTTTTTTAAT
2002249 CTAATCCAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
26 15 0.42
27 11 0.31
28 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTTAAATAATTTTTTTAATTATATTT
Found at i:2002477 original size:21 final size:21
Alignment explanation
Indices: 2002436--2002478 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2002426 GAATATTGAT
* *
2002436 AATTTAAAAATAATTTAATTA
1 AATTAAAAAATAATCTAATTA
2002457 AATTAAAAAAT-ATCTATATTA
1 AATTAAAAAATAATCTA-ATTA
2002478 A
1 A
2002479 TACTCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAAAAAATAATCTAATTA
Found at i:2005037 original size:2 final size:2
Alignment explanation
Indices: 2005030--2005070 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2005020 TTAGCAAAGT
2005030 TA TA 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 TA TA T
2005071 TGTTAGCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2005815 original size:20 final size:21
Alignment explanation
Indices: 2005788--2005838 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
2005778 TGGTCACATG
*
2005788 TATCGATACTATTT-ATCATA
1 TATCGATACAATTTAATCATA
* *
2005808 TTTCGATACAATTTAATCATG
1 TATCGATACAATTTAATCATA
2005829 TATCGATACA
1 TATCGATACA
2005839 TCATATCGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (21 bp):
TATCGATACAATTTAATCATA
Found at i:2005834 original size:21 final size:20
Alignment explanation
Indices: 2005784--2005838 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2005774 CATTTGGTCA
*
2005784 CATGTATCGATACTATTTAT
1 CATGTATCGATACAATTTAT
* *
2005804 CATATTTCGATACAATTTAAT
1 CATGTATCGATACAATTT-AT
2005825 CATGTATCGATACA
1 CATGTATCGATACA
2005839 TCATATCGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACAATTTAT
Found at i:2005941 original size:33 final size:33
Alignment explanation
Indices: 2005899--2005961 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
2005889 TAATTCATGG
2005899 TGTATCGATACAAAGCAATTTGTATCGATATAA
1 TGTATCGATACAAAGCAATTTGTATCGATATAA
**
2005932 TGTATCGATACTTAGCAATTTGTATCGATA
1 TGTATCGATACAAAGCAATTTGTATCGATA
2005962 CATTTAGGTG
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAAAGCAATTTGTATCGATATAA
Found at i:2007943 original size:19 final size:19
Alignment explanation
Indices: 2007898--2007968 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
2007888 ATATAGTCGA
* *
2007898 AATGCATCGATACAATTTT
1 AATGTATCGATACAATTTC
2007917 AATGTATCGATACAATTTC
1 AATGTATCGATACAATTTC
* * *
2007936 ATTTTATCAATACAA--TC
1 AATGTATCGATACAATTTC
* *
2007953 TAGGTATCGATACAAT
1 AATGTATCGATACAAT
2007969 CTGAGAAACC
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
17 12 0.29
19 29 0.71
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
AATGTATCGATACAATTTC
Found at i:2011884 original size:21 final size:21
Alignment explanation
Indices: 2011858--2011898 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2011848 ATGCAAGTTT
*
2011858 TTGTTTTTCTTAGTCAATTCA
1 TTGTTTTTATTAGTCAATTCA
*
2011879 TTGTTTTTATTAGTTAATTC
1 TTGTTTTTATTAGTCAATTC
2011899 TTTATTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.61
Consensus pattern (21 bp):
TTGTTTTTATTAGTCAATTCA
Found at i:2011906 original size:21 final size:21
Alignment explanation
Indices: 2011861--2011906 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2011851 CAAGTTTTTG
* *
2011861 TTTTTCTTAGTCAATTCATTG
1 TTTTTATTAGTCAATTCATTA
* *
2011882 TTTTTATTAGTTAATTCTTTA
1 TTTTTATTAGTCAATTCATTA
2011903 TTTT
1 TTTT
2011907 CTTGTTGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTTATTAGTCAATTCATTA
Found at i:2014020 original size:20 final size:21
Alignment explanation
Indices: 2013995--2014049 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
2013985 TGTTGGGCCA
*
2013995 CATGTATCGATACAA-TTCAT
1 CATGTATCGATACAATTTAAT
2014015 CATGTATCGATACAATTTAAT
1 CATGTATCGATACAATTTAAT
*
2014036 TATGTATCGATACA
1 CATGTATCGATACA
2014050 TTATATCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
CATGTATCGATACAATTTAAT
Found at i:2014147 original size:13 final size:13
Alignment explanation
Indices: 2014129--2014153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2014119 ACAAAGCAAT
2014129 TTGTATCGATACA
1 TTGTATCGATACA
2014142 TTGTATCGATAC
1 TTGTATCGATAC
2014154 TTAGCAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2014152 original size:33 final size:33
Alignment explanation
Indices: 2014110--2014175 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2014100 TAATTCATGG
2014110 TGTATCGATACAAAGCAATTTGTATCGATACAT
1 TGTATCGATACAAAGCAATTTGTATCGATACAT
**
2014143 TGTATCGATACTTAGCAATTTGTATCGATACAT
1 TGTATCGATACAAAGCAATTTGTATCGATACAT
2014176 CTGGGTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAAGCAATTTGTATCGATACAT
Found at i:2022075 original size:18 final size:18
Alignment explanation
Indices: 2022052--2022086 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2022042 AAATGGGAGA
2022052 AGAGAAAGAAG-GAAAGGG
1 AGAGAAA-AAGAGAAAGGG
2022070 AGAGAAAAAGAGAAAGG
1 AGAGAAAAAGAGAAAGG
2022087 ATAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
AGAGAAAAAGAGAAAGGG
Found at i:2023022 original size:20 final size:19
Alignment explanation
Indices: 2022970--2023022 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
2022960 ATAAATATTT
*
2022970 AAATATTTATTTTTACTTAA
1 AAAT-TTTATTTTTACTGAA
* *
2022990 AAATTTCACTTTTTCCATGAA
1 AAATTTTA-TTTTTAC-TGAA
2023011 AAATTTTATTTT
1 AAATTTTATTTT
2023023 AAAAATTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (19 bp):
AAATTTTATTTTTACTGAA
Found at i:2023816 original size:24 final size:24
Alignment explanation
Indices: 2023788--2023838 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2023778 TCTACGGAAG
2023788 AATGAATAATGGATTTTGATAAGA
1 AATGAATAATGGATTTTGATAAGA
* * *
2023812 AATGAATAATTGATTTTGGTGAGA
1 AATGAATAATGGATTTTGATAAGA
2023836 AAT
1 AAT
2023839 TTTCATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (24 bp):
AATGAATAATGGATTTTGATAAGA
Found at i:2024407 original size:2 final size:2
Alignment explanation
Indices: 2024400--2024425 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2024390 ATTTTGCTTT
2024400 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
2024426 AAAGGAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2024484 original size:15 final size:16
Alignment explanation
Indices: 2024464--2024493 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2024454 GAAAGGGAGG
2024464 GAAAAAG-AGGAAGGA
1 GAAAAAGAAGGAAGGA
2024479 GAAAAAGAAGGAAGG
1 GAAAAAGAAGGAAGG
2024494 CAAAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (16 bp):
GAAAAAGAAGGAAGGA
Found at i:2025005 original size:6 final size:7
Alignment explanation
Indices: 2024989--2025015 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2024979 AAAAAATAAG
2024989 TTTTTAT
1 TTTTTAT
2024996 TTTTTAT
1 TTTTTAT
2025003 TTTTTAT
1 TTTTTAT
2025010 TTTTTA
1 TTTTTA
2025016 AATGATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:2025449 original size:17 final size:17
Alignment explanation
Indices: 2025412--2025446 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2025402 TATTAACTTC
*
2025412 TTAATTATACTATAAAT
1 TTAAATATACTATAAAT
2025429 TTAAATATA-TATAAAT
1 TTAAATATACTATAAAT
2025445 TT
1 TT
2025447 TAACATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATATACTATAAAT
Found at i:2030628 original size:11 final size:11
Alignment explanation
Indices: 2030612--2030649 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
2030602 TCAAAATATC
2030612 TTTATTTTTAT
1 TTTATTTTTAT
*
2030623 TTTATTTTTAA
1 TTTATTTTTAT
*
2030634 TTTATTTTGAT
1 TTTATTTTTAT
2030645 TTTAT
1 TTTAT
2030650 AATTAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:2030639 original size:16 final size:18
Alignment explanation
Indices: 2030618--2030653 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
2030608 TATCTTTATT
2030618 TTTATTTT-ATTTT-TAA
1 TTTATTTTGATTTTATAA
2030634 TTTATTTTGATTTTATAA
1 TTTATTTTGATTTTATAA
2030652 TT
1 TT
2030654 AAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTTTGATTTTATAA
Found at i:2030655 original size:22 final size:22
Alignment explanation
Indices: 2030612--2030655 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2030602 TCAAAATATC
* **
2030612 TTTATTTTTATTTTATTTTTAA
1 TTTATTTTGATTTTATAATTAA
2030634 TTTATTTTGATTTTATAATTAA
1 TTTATTTTGATTTTATAATTAA
2030656 ATAAATAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTATTTTGATTTTATAATTAA
Found at i:2031230 original size:7 final size:7
Alignment explanation
Indices: 2031218--2031244 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2031208 GCCTATTCTA
2031218 TCATGTT
1 TCATGTT
2031225 TCATGTT
1 TCATGTT
2031232 TCATGTT
1 TCATGTT
2031239 TCATGT
1 TCATGT
2031245 CTTCTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TCATGTT
Found at i:2031891 original size:19 final size:20
Alignment explanation
Indices: 2031855--2031892 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2031845 AAAATCGTCT
*
2031855 TGATAATTAAATAATAAAAA
1 TGATAATTAAACAATAAAAA
*
2031875 TGAT-ATTAAACACTAAAA
1 TGATAATTAAACAATAAAA
2031893 TTCTTTGCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
TGATAATTAAACAATAAAAA
Found at i:2032841 original size:20 final size:20
Alignment explanation
Indices: 2032816--2032887 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
2032806 TACCCAGATG
2032816 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
2032836 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* * *
2032856 TATCGATATATTCTTCAATT
1 TATCGATACATTTTTCAATA
2032876 TATCGATACATT
1 TATCGATACATT
2032888 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:2032873 original size:40 final size:39
Alignment explanation
Indices: 2032813--2032890 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
2032803 TTTTACCCAG
*
2032813 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
2032853 ATGTATCGATATATTCTTCAATTTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
2032891 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:2033433 original size:20 final size:20
Alignment explanation
Indices: 2033389--2033440 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2033379 ATTTCAACGA
2033389 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* ***
2033409 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAGT
2033429 TTTGTATCGATA
1 TTTGTATCGATA
2033441 AAATTTAAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:2033578 original size:52 final size:52
Alignment explanation
Indices: 2033519--2033699 Score: 281
Period size: 52 Copynumber: 3.5 Consensus size: 52
2033509 CACTAATCTT
*
2033519 TGTATCGATACATGTAGGAAAATTTGCCCAAATATATCAATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAAATATATCAATACATTATAAAA
2033571 TGTATCGATACATGCAGGAAAATTTGCCCAAATATATCAATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAAATATATCAATACATTATAAAA
* * * * * *
2033623 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAAATATATCAATACATTATAAAA
* *
2033675 TGTATCGATACATGCAAGTAAATTT
1 TGTATCGATACATGCAGGAAAATTT
2033700 TCATATTTCA
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAAATATATCAATACATTATAAAA
Found at i:2037471 original size:20 final size:19
Alignment explanation
Indices: 2037439--2037484 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2037429 AGCCTTTGAC
*
2037439 CATGCATTTTTTATTATGTTT
1 CATGCA-TTTTTAATAT-TTT
2037460 CATGCATTTTTAATATTTT
1 CATGCATTTTTAATATTTT
2037479 CA-GCAT
1 CATGCAT
2037485 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 9 0.38
21 6 0.25
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (19 bp):
CATGCATTTTTAATATTTT
Found at i:2041020 original size:15 final size:14
Alignment explanation
Indices: 2040983--2041036 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
2040973 TATTATAATT
2040983 TTTAAAATA-TAAA
1 TTTAAAATATTAAA
*
2040996 GATTAAAATATTAAA
1 -TTTAAAATATTAAA
*
2041011 TTTAATAATATAAAA
1 TTTAA-AATATTAAA
2041026 TTTAAAATATT
1 TTTAAAATATT
2041037 TTTTTCTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 17 0.50
15 17 0.50
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
TTTAAAATATTAAA
Found at i:2044847 original size:13 final size:13
Alignment explanation
Indices: 2044829--2044860 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2044819 TTTCAATAAA
2044829 ATTATATTTTTTT
1 ATTATATTTTTTT
2044842 ATTATATTTTTTT
1 ATTATATTTTTTT
*
2044855 GTTATA
1 ATTATA
2044861 ATCATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
ATTATATTTTTTT
Found at i:2046680 original size:15 final size:15
Alignment explanation
Indices: 2046649--2046679 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2046639 GCTTCCCTTG
2046649 TTGCTGAATCAATTT
1 TTGCTGAATCAATTT
2046664 TTGCTGAATC-ATTT
1 TTGCTGAATCAATTT
2046678 TT
1 TT
2046680 TAGAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (15 bp):
TTGCTGAATCAATTT
Found at i:2050881 original size:25 final size:25
Alignment explanation
Indices: 2050846--2050900 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
2050836 CAAGTGCATA
*
2050846 TTCTAGCATAATTAAAAGAACTACT
1 TTCTAGCATAATTAAAAAAACTACT
* *
2050871 TTCTAGTATAATTAAAAAAACTATT
1 TTCTAGCATAATTAAAAAAACTACT
2050896 TTCTA
1 TTCTA
2050901 ATATCATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (25 bp):
TTCTAGCATAATTAAAAAAACTACT
Found at i:2052025 original size:2 final size:2
Alignment explanation
Indices: 2052018--2052045 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2052008 TCAAAGTTAA
2052018 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
2052046 GAAAGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2053318 original size:20 final size:20
Alignment explanation
Indices: 2053279--2053318 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2053269 GTTTTCTTAT
* *
2053279 TTCTATGAAAATTTATTTTC
1 TTCTATGAAAATTAAGTTTC
*
2053299 TTCTATGCAAATTAAGTTTC
1 TTCTATGAAAATTAAGTTTC
2053319 ATTCACTGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCTATGAAAATTAAGTTTC
Found at i:2056189 original size:27 final size:28
Alignment explanation
Indices: 2056156--2056226 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2056146 GCCACCCATA
2056156 TGTTTGTCAAAAATGGTGG-TTATTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
* *
2056183 TGTTTGTAAAAAATGGTGGTTTCTTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
* * *
2056211 TATTTATCAAATATGG
1 TGTTTGTCAAAAATGG
2056227 AAGCTTGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 18 0.49
28 19 0.51
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTTATTTTG
Found at i:2057169 original size:2 final size:2
Alignment explanation
Indices: 2057162--2057198 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2057152 TTAGCAAAGT
2057162 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
2057199 GTACACCATA
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:2057786 original size:19 final size:19
Alignment explanation
Indices: 2057750--2057805 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2057740 TATTTTTTAA
* * *
2057750 ATTAATAAAAAATTATATT
1 ATTAATAAAAGATAATATC
2057769 ATTAATAAAAGATAATATC
1 ATTAATAAAAGATAATATC
2057788 ATT-ATAAATATGATAATA
1 ATTAATAAA-A-GATAATA
2057806 GTTTTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.16
19 20 0.62
20 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTAATAAAAGATAATATC
Found at i:2058093 original size:14 final size:14
Alignment explanation
Indices: 2058049--2058094 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
2058039 TGATTACAAC
2058049 TTAAATTAAA-AGT
1 TTAAATTAAATAGT
* **
2058062 TTAATTTAAATAAA
1 TTAAATTAAATAGT
2058076 TTAAATTAAATAGT
1 TTAAATTAAATAGT
2058090 TTAAA
1 TTAAA
2058095 ATAATTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (14 bp):
TTAAATTAAATAGT
Found at i:2060455 original size:23 final size:25
Alignment explanation
Indices: 2060420--2060465 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
2060410 AATAAAAATT
2060420 AGCCATCAA-TTTTGACAAACAACA
1 AGCCATCAATTTTTGACAAACAACA
2060444 AGCCAT-AATTTTTGACAAACAA
1 AGCCATCAATTTTTGACAAACAA
2060466 AAAGGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (25 bp):
AGCCATCAATTTTTGACAAACAACA
Found at i:2060489 original size:27 final size:27
Alignment explanation
Indices: 2060451--2060518 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
2060441 ACAAGCCATA
2060451 ATTTTTGACAAACAAAAAGGAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
* * *
2060478 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
*
2060505 ATTGTTGACAAACA
1 ATTTTTGACAAACA
2060519 CATGGTGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGGAACCACC
Found at i:2060537 original size:24 final size:25
Alignment explanation
Indices: 2060506--2060563 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
2060496 GTAACCACCA
*
2060506 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
2060530 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
2060556 TTGTTGAC
1 TTGTTGAC
2060564 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:2065028 original size:23 final size:25
Alignment explanation
Indices: 2064993--2065038 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2064983 AATAAAAATT
2064993 AGCCATCAA-TTTTGACAAACAACA
1 AGCCATCAATTTTTGACAAACAACA
*
2065017 AGCCAT-AATTTTTGGCAAACAA
1 AGCCATCAATTTTTGACAAACAA
2065039 AAAGGAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (25 bp):
AGCCATCAATTTTTGACAAACAACA
Found at i:2065062 original size:27 final size:27
Alignment explanation
Indices: 2065024--2065091 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
2065014 ACAAGCCATA
*
2065024 ATTTTTGGCAAACAAAAAGGAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
* * *
2065051 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
*
2065078 ATTGTTGACAAACA
1 ATTTTTGACAAACA
2065092 CATGGTGGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGGAACCACC
Found at i:2065110 original size:24 final size:25
Alignment explanation
Indices: 2065079--2065136 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
2065069 GTAACCACCA
*
2065079 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
2065103 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
2065129 TTGTTGAC
1 TTGTTGAC
2065137 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:2066003 original size:2 final size:2
Alignment explanation
Indices: 2065996--2066023 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2065986 GCTAACCTAT
2065996 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
2066024 ACGAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2074271 original size:13 final size:14
Alignment explanation
Indices: 2074253--2074283 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2074243 TATAAAACTC
2074253 AAATAAAT-TATTA
1 AAATAAATATATTA
2074266 AAATAAATATATTA
1 AAATAAATATATTA
2074280 AAAT
1 AAAT
2074284 TTTTTATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAAATATATTA
Found at i:2074306 original size:36 final size:36
Alignment explanation
Indices: 2074266--2074334 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
2074256 TAAATTATTA
2074266 AAATAAATATATTAAA-ATTT-TTTATCATTTTATTTG
1 AAAT-AATAT-TTAAATATTTATTTATCATTTTATTTG
* *
2074302 AAATAATATTTAAATATTTATTTTTTATTTTAT
1 AAATAATATTTAAATATTTATTTATCATTTTAT
2074335 AAATATTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 9 0.31
36 15 0.52
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
AAATAATATTTAAATATTTATTTATCATTTTATTTG
Found at i:2074942 original size:18 final size:19
Alignment explanation
Indices: 2074913--2074965 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
2074903 AGCAGAAAAT
2074913 AAGGGCAGAGAAAGAAG-GA
1 AAGGGCAGAGAAA-AAGAGA
2074932 AAGGG-AGAGAAAAAGAGA
1 AAGGGCAGAGAAAAAGAGA
*
2074950 AAGGACAGAAGAAAAA
1 AAGGGCAG-AGAAAAA
2074966 TAATTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 3 0.10
18 13 0.43
19 7 0.23
20 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.36, T:0.00
Consensus pattern (19 bp):
AAGGGCAGAGAAAAAGAGA
Found at i:2074983 original size:14 final size:14
Alignment explanation
Indices: 2074964--2074990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2074954 ACAGAAGAAA
2074964 AATAATTATTTAAT
1 AATAATTATTTAAT
2074978 AATAATTATTTAA
1 AATAATTATTTAA
2074991 AATTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATAATTATTTAAT
Found at i:2075264 original size:21 final size:22
Alignment explanation
Indices: 2075228--2075269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2075218 TGTACTGAAA
* *
2075228 AAAATACTTTAGAATTTTTAAT
1 AAAATACTTTAAAATTATTAAT
2075250 AAAATA-TTTAAAATTATTAA
1 AAAATACTTTAAAATTATTAA
2075270 GTGTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATACTTTAAAATTATTAAT
Found at i:2078133 original size:22 final size:22
Alignment explanation
Indices: 2078105--2078154 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2078095 CAATTTTTTG
* * *
2078105 TTTTAATTGAGTTTACATGAGC
1 TTTTAATTAAGATTAAATGAGC
*
2078127 TTTTAATTAAGATTAAATGAGT
1 TTTTAATTAAGATTAAATGAGC
2078149 TTTTAA
1 TTTTAA
2078155 ATATTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTTAATTAAGATTAAATGAGC
Found at i:2078375 original size:20 final size:18
Alignment explanation
Indices: 2078336--2078371 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2078326 AAATTATTTG
2078336 AAAAATTAATTTTATATA
1 AAAAATTAATTTTATATA
2078354 AAAAATTAATTTTATATA
1 AAAAATTAATTTTATATA
2078372 TAAATATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATTAATTTTATATA
Found at i:2078598 original size:16 final size:16
Alignment explanation
Indices: 2078577--2078633 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
2078567 ACCCAAACCC
2078577 AAACCCGAATAAGCCT
1 AAACCCGAATAAGCCT
2078593 AAACCCGAA-AGAGCCT
1 AAACCCGAATA-AGCCT
* *
2078609 AAACCCAAATAAGCCC
1 AAACCCGAATAAGCCT
2078625 AAACCCGAA
1 AAACCCGAA
2078634 AGAGCTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 1 0.03
16 34 0.94
17 1 0.03
ACGTcount: A:0.47, C:0.33, G:0.12, T:0.07
Consensus pattern (16 bp):
AAACCCGAATAAGCCT
Found at i:2078614 original size:32 final size:32
Alignment explanation
Indices: 2078577--2078638 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2078567 ACCCAAACCC
* *
2078577 AAACCCGAATAAGCCTAAACCCGAAAGAGCCT
1 AAACCCAAATAAGCCCAAACCCGAAAGAGCCT
2078609 AAACCCAAATAAGCCCAAACCCGAAAGAGC
1 AAACCCAAATAAGCCCAAACCCGAAAGAGC
2078639 TCAAACTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.47, C:0.32, G:0.15, T:0.06
Consensus pattern (32 bp):
AAACCCAAATAAGCCCAAACCCGAAAGAGCCT
Found at i:2078643 original size:16 final size:15
Alignment explanation
Indices: 2078575--2078644 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 15
2078565 AAACCCAAAC
2078575 CCAAACCCGAATA-AG
1 CCAAACCCGAA-AGAG
2078590 CCTAAACCCGAAAGAG
1 CC-AAACCCGAAAGAG
*
2078606 CCTAAACCC-AAATAAG
1 CC-AAACCCGAAA-GAG
2078622 CCCAAACCCGAAAGAG
1 -CCAAACCCGAAAGAG
2078638 CTCAAAC
1 C-CAAAC
2078645 TCAACGAGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
15 7 0.15
16 35 0.74
17 5 0.11
ACGTcount: A:0.46, C:0.34, G:0.13, T:0.07
Consensus pattern (15 bp):
CCAAACCCGAAAGAG
Found at i:2079049 original size:15 final size:15
Alignment explanation
Indices: 2079017--2079056 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
2079007 AAAGAAGGAA
2079017 AGAATGAAAAGCAAAG
1 AGAA-GAAAAGCAAAG
2079033 AGAGAGAAAAG-AAAG
1 AGA-AGAAAAGCAAAG
2079048 AGAAGAAAA
1 AGAAGAAAA
2079057 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 9 0.39
17 1 0.04
ACGTcount: A:0.68, C:0.03, G:0.28, T:0.03
Consensus pattern (15 bp):
AGAAGAAAAGCAAAG
Found at i:2079057 original size:15 final size:16
Alignment explanation
Indices: 2079022--2079056 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2079012 AGGAAAGAAT
2079022 GAAAAGCAAAGAGAGA
1 GAAAAGCAAAGAGAGA
2079038 GAAAAG-AAAGAGA-A
1 GAAAAGCAAAGAGAGA
2079052 GAAAA
1 GAAAA
2079057 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.69, C:0.03, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAAAGCAAAGAGAGA
Found at i:2079798 original size:23 final size:23
Alignment explanation
Indices: 2079763--2079807 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2079753 ACACATGGTA
* **
2079763 TTTTAATTTTTTTTTGTATTATT
1 TTTTAATTATTTTAAGTATTATT
*
2079786 TTTTTATTATTTTAAGTATTAT
1 TTTTAATTATTTTAAGTATTAT
2079808 AAATTTATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTAATTATTTTAAGTATTATT
Found at i:2079876 original size:16 final size:16
Alignment explanation
Indices: 2079857--2079906 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
2079847 TTTATATTCA
2079857 TATTATATTTATTTTT
1 TATTATATTTATTTTT
2079873 TATTATATTTTAATTATTT
1 TATTATA-TTT-ATT-TTT
*
2079892 T-TTATTTTTATTTTT
1 TATTATATTTATTTTT
2079907 GTATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.10
16 10 0.33
17 6 0.20
18 7 0.23
19 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTATATTTATTTTT
Found at i:2079878 original size:27 final size:26
Alignment explanation
Indices: 2079829--2079881 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2079819 ATATTGTACA
2079829 CATATTTATTTATATGTTTTTATATT
1 CATATTTATTTATATGTTTTTATATT
*
2079855 CATATTATATTTAT-TTTTTATTATATT
1 CATATT-TATTTATATGTTT-TTATATT
2079882 TTAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (26 bp):
CATATTTATTTATATGTTTTTATATT
Found at i:2079889 original size:21 final size:22
Alignment explanation
Indices: 2079845--2079897 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
2079835 TATTTATATG
*
2079845 TTTTTATATTCATATTATATTTA
1 TTTTT-TATTCATATTATAATTA
*
2079868 TTTTTTATT-ATATTTTAATTA
1 TTTTTTATTCATATTATAATTA
2079889 TTTTTTATT
1 TTTTTTATT
2079898 TTTATTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.68
22 4 0.14
23 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTATTCATATTATAATTA
Found at i:2079915 original size:14 final size:13
Alignment explanation
Indices: 2079859--2079915 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 13
2079849 TATATTCATA
2079859 TTATATTTA-TTT
1 TTATATTTATTTT
*
2079871 TT-TA-TTATATT
1 TTATATTTATTTT
2079882 TTA-A-TTATTTT
1 TTATATTTATTTT
*
2079893 TTATTTTTATTTT
1 TTATATTTATTTT
2079906 TGTATATTTA
1 T-TATATTTA
2079916 AAATAGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 3 0.08
11 16 0.44
12 2 0.06
13 8 0.22
14 7 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTATATTTATTTT
Found at i:2079935 original size:10 final size:10
Alignment explanation
Indices: 2079922--2079954 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
2079912 TTTAAAATAG
2079922 TATAAATTTT
1 TATAAATTTT
2079932 TATAAATTTT
1 TATAAATTTT
2079942 TATAAATTTT
1 TATAAATTTT
2079952 TAT
1 TAT
2079955 TCATTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TATAAATTTT
Found at i:2080576 original size:11 final size:11
Alignment explanation
Indices: 2080562--2080621 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
2080552 CATATCATAT
2080562 TTATTTTTATA
1 TTATTTTTATA
2080573 TTATGTTTTA-A
1 TTAT-TTTTATA
2080584 TTATTTTTTATA
1 TTA-TTTTTATA
*
2080596 TTATGTTT-T-
1 TTATTTTTATA
2080605 TTATTTTTCATA
1 TTATTTTT-ATA
2080617 -TATTT
1 TTATTT
2080622 AAAATAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
9 7 0.17
10 1 0.02
11 23 0.56
12 10 0.24
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:2080581 original size:12 final size:12
Alignment explanation
Indices: 2080562--2080609 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
2080552 CATATCATAT
2080562 TTAT-TTTTATA
1 TTATGTTTTATA
2080573 TTATGTTTTA-A
1 TTATGTTTTATA
*
2080584 TTATTTTTTATA
1 TTATGTTTTATA
*
2080596 TTATGTTTTTTA
1 TTATGTTTTATA
2080608 TT
1 TT
2080610 TTTCATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 14 0.44
12 18 0.56
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
TTATGTTTTATA
Found at i:2080620 original size:23 final size:22
Alignment explanation
Indices: 2080565--2080617 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
2080555 ATCATATTTA
2080565 TTTTTATATTATGTTTTAATTAT
1 TTTTTATATTATGTTTT-ATTAT
2080588 TTTTTATATTATGTTTT-TTAT
1 TTTTTATATTATGTTTTATTAT
*
2080609 TTTTCATAT
1 TTTTTATAT
2080618 ATTTAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTATATTATGTTTTATTAT
Found at i:2081475 original size:21 final size:20
Alignment explanation
Indices: 2081438--2081503 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
2081428 AATACATATA
*
2081438 TTATCA-TA-AATTTTAATT
1 TTATCATTATAATTATAATT
2081456 TTATCATTATTAATTATAATT
1 TTATCATTA-TAATTATAATT
* *
2081477 TCATCATTATAATAATTAATT
1 TTATCATTATAATTA-TAATT
2081498 TTATCA
1 TTATCA
2081504 CTACTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 6 0.15
19 2 0.05
20 5 0.12
21 27 0.68
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATCATTATAATTATAATT
Found at i:2085108 original size:50 final size:50
Alignment explanation
Indices: 2085049--2085284 Score: 341
Period size: 50 Copynumber: 4.7 Consensus size: 50
2085039 TATACTTAGA
2085049 GTCAACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTAAAGAATC
1 GTCAACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTAAAGAATC
*
2085099 GTCAACAATTATGGCCACCTCTT-TCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCT-TTCTCTATTGTCAAAGGTTGGTAAAGAATC
* * * * *
2085149 GTCAACAATTATGACCACCTCTCTTTATTGTCAAAGTTTAGTAAAGAATC
1 GTCAACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTAAAGAATC
* * *
2085199 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTAAAGAATC
* *
2085249 GTCAACAATTATGGCCA-CTTCTCTATATTATCAAAG
1 GTCAACAATTATGGCCACCTT-TCTCTATTGTCAAAG
2085285 ATACTTTCCA
Statistics
Matches: 166, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 3 0.02
50 161 0.97
51 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTAAAGAATC
Found at i:2085226 original size:100 final size:100
Alignment explanation
Indices: 2085049--2085284 Score: 382
Period size: 100 Copynumber: 2.4 Consensus size: 100
2085039 TATACTTAGA
* * * *
2085049 GTCAACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTAAAGAATCGTCAACAATTATGGC
1 GTCAACAATTATGGCCACCTCTCTATATTGTCAAAGGTTAGTAAAGAATCGTCAACAATTACGGC
*
2085114 CACCTCTTTCTATTGTCAAAGGTTGGTGAAGAATC
66 CACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
2085149 GTCAACAATTATGACCACCTCTCTTTATTGTCAAAGTTTAGTAAAGAATCGTCAACAATTACGGC
1 GTCAACAATTATGGCCACCTCTCTATATTGTCAAAGGTTAGTAAAGAATCGTCAACAATTACGGC
2085214 CACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
66 CACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
2085249 GTCAACAATTATGGCCACTTCTCTATATTATCAAAG
1 GTCAACAATTATGGCCACCTCTCTATATTGTCAAAG
2085285 ATACTTTCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 125 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (100 bp):
GTCAACAATTATGGCCACCTCTCTATATTGTCAAAGGTTAGTAAAGAATCGTCAACAATTACGGC
CACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:2089723 original size:50 final size:50
Alignment explanation
Indices: 2089664--2089893 Score: 297
Period size: 50 Copynumber: 4.6 Consensus size: 50
2089654 ACTTAGAGTA
* * * *
2089664 AACAATTATGGTCACCTTTCTCTATTATCAAAAGTTGGTGAAGAATCGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAAGTTGGTAAAGAATCGTC
* * *
2089714 AACAATTATGGCCATCTCTCTCTATTGTCAAAGGTTAGTAAAGAATCGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAAGTTGGTAAAGAATCGTC
**
2089764 AACAATTATGGCCACCTCTCTCTATTGTC-AAAGTTTGGTAAAGAATTATC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAAG-TTGGTAAAGAATCGTC
* *
2089814 AACAATTACGGTCACCTCTCTCTATTGTCAAAAGTTGGTGAAA-AATCGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAAGTTGGT-AAAGAATCGTC
* *
2089864 AACAATCATGACCA--TCTCTCTATTGTCAAA
1 AACAATTATGGCCACCTCTCTCTATTGTCAAA
2089894 GGTACTTTCC
Statistics
Matches: 157, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
48 16 0.10
49 3 0.02
50 131 0.83
51 7 0.04
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (50 bp):
AACAATTATGGCCACCTCTCTCTATTGTCAAAAGTTGGTAAAGAATCGTC
Found at i:2093108 original size:2 final size:2
Alignment explanation
Indices: 2093101--2093146 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2093091 TAGGGAATCA
2093101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2093143 AT AT
1 AT AT
2093147 TCTCAAAGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2094897 original size:14 final size:14
Alignment explanation
Indices: 2094880--2094930 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
2094870 ATTATAATTT
2094880 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* *
2094894 TTAAAATATTAAAT
1 TTAAAATATAAAAA
2094908 TTAATAATA-AAAAA
1 TTAA-AATATAAAAA
2094922 TTAAAATAT
1 TTAAAATAT
2094931 TTCTTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.13
14 23 0.74
15 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:2095207 original size:22 final size:22
Alignment explanation
Indices: 2095170--2095212 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2095160 TATAATAAAT
*
2095170 TTTAAATAATTATTTTGTTATA
1 TTTAAATAATTATTTTATTATA
* *
2095192 TTTAAATATTTTTTTTATTAT
1 TTTAAATAATTATTTTATTAT
2095213 CATACTCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTAAATAATTATTTTATTATA
Found at i:2095886 original size:4 final size:4
Alignment explanation
Indices: 2095879--2095903 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2095869 AAAAATATAA
2095879 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
2095904 TATACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2097778 original size:16 final size:16
Alignment explanation
Indices: 2097754--2097784 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2097744 ATTAGATAAT
*
2097754 TTTTTTTATTATTTTA
1 TTTTGTTATTATTTTA
2097770 TTTTGTTATTATTTT
1 TTTTGTTATTATTTT
2097785 TTATTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTGTTATTATTTTA
Found at i:2098533 original size:43 final size:42
Alignment explanation
Indices: 2098467--2098592 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 42
2098457 TTGCTGCTGG
* *
2098467 TTTTTTTTTCTTTTCTCCTCCTTGCCGTGAGCTGCCTCTCCTCC
1 TTTTTCTTT-TTTTCTCC-CCTTGCCGTGAGCTGCTTCTCCTCC
*
2098511 TTTTTCTTTTTTTCTTCCCCTTGCCGTGAGCTGCTTCTCCTTC
1 TTTTTCTTTTTTTC-TCCCCTTGCCGTGAGCTGCTTCTCCTCC
* *
2098554 TTATTCTTTTTTTC-CCCCTTGCCATGAGCTGCTTCTCCT
1 TTTTTCTTTTTTTCTCCCCTTGCCGTGAGCTGCTTCTCCT
2098593 TCTTATTTGC
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
41 24 0.32
43 41 0.54
44 11 0.14
ACGTcount: A:0.04, C:0.34, G:0.11, T:0.51
Consensus pattern (42 bp):
TTTTTCTTTTTTTCTCCCCTTGCCGTGAGCTGCTTCTCCTCC
Found at i:2098593 original size:41 final size:41
Alignment explanation
Indices: 2098477--2098599 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
2098467 TTTTTTTTTC
* * * * *
2098477 TTTTCTCCTCCTTGCCGTGAGCTGCCTCTCCTCCTTTTTCT
1 TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATTCT
2098518 TTTTTTCTTCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATTCT
1 TTTTTTC--CCCCTTGCCGTGAGCTGCTTCTCCTTCTTATTCT
*
2098561 TTTTTTCCCCCTTGCCATGAGCTGCTTCTCCTTCTTATT
1 TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATT
2098600 TGCAAGCTTC
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 37 0.50
43 37 0.50
ACGTcount: A:0.05, C:0.35, G:0.11, T:0.49
Consensus pattern (41 bp):
TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATTCT
Found at i:2099097 original size:12 final size:13
Alignment explanation
Indices: 2099077--2099105 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2099067 TTTATTATTT
2099077 TTTTGAATTTTAA
1 TTTTGAATTTTAA
2099090 TTTT-AATTTTAA
1 TTTTGAATTTTAA
2099102 TTTT
1 TTTT
2099106 TGATTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:2099454 original size:42 final size:42
Alignment explanation
Indices: 2099391--2100722 Score: 691
Period size: 42 Copynumber: 31.4 Consensus size: 42
2099381 GTAAAAAAGG
* ** *
2099391 GGCAGACTTAGGGAA-AGAAAGTCTCCAAAGTCAAAGCCGATA
1 GGCAGACTAAGGGAAGA-AAAGTCTCCAGGGTCAAAGCCGACA
* *
2099433 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGACGAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
2099475 GGTAGACCAAGGGAA-AGAAAGTCTCCAGGGTCAAAGCCAACA
1 GGCAGACTAAGGGAAGA-AAAGTCTCCAGGGTCAAAGCCGACA
* * * *
2099517 GGCAGACATAAGGGATAGGAAAGTCTCCAAGGACGAAGCCGACA
1 GGCAGAC-TAAGGGA-AGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
2099561 GGCAGACTAAGGGAAGGAAAGTCT-CACGGGTCAAAGTCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCA-GGGTCAAAGCCGACA
* * *
2099603 GGTAGACTAAGGGAAGGAAAGTCTCCAGGTTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
2099645 GGCAGACATAAGGGATA-AGAAAGTCTCCAGGGACGAAGCCGACA
1 GGCAGAC-TAAGGGA-AGA-AAAGTCTCCAGGGTCAAAGCCGACA
* * * * *
2099689 AGCAGACTAAGGGAAGGAAAGTCTCTAGGGACGAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
2099731 GGCAGACTAAGAGAAGGAAAGTCTCCAAGGAT-GAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCC-AGGGTCAAAGCCGACA
* * *
2099773 GGCAGACTAAGGGAAGGAAAGTCTCCAGGGAT-GAAGACGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGG-TCAAAGCCGACA
* * *
2099815 GGTAGACTAAGGATAAGAAAAGTCTCCAGGGCCAAAGCCGACA
1 GGCAGACTAAGG-GAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * ** * *
2099858 AGCAGACTGAGGGTTGAAAAGTCTCCAGGGTAAAAGCCAACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
2099900 GGTAGACTGAAGGGAAGAAAAGTCTCCAGGGTCAAGGCTGACA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
2099943 AGCAGACTGAGGGAAAGAAAAGTCTCCAGGGACGAAGCCGACA
1 GGCAGACTAAGGG-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
2099986 GGCAGACTAAGGGAAAGAAAAGTCTCTAGGGTCAAAGTCGACA
1 GGCAGACTAAGGG-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * * * * * *
2100029 AGCAGACT---GAAAGGAAAGTTTCC-GAAGACTAAG-GGAAA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAG-GGTCAAAGCCGACA
*** * * * ** * *
2100067 TAAAGTCTCTAGGGACG--AAGTCGACA-GG-CAGA-CTG--A
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* ** * * * * *
2100103 GG-ATTGA-AAAGTCCCCAAGGTCAAAG-CTAACAGGCAGACTGAAG-GGA-A
1 GGCA--GACTAAG---GGAA-G-AAAAGTCT-CCAGG--GTC-AAAGCCGACA
* * * * ** * * ** * *
2100151 GGAAAGTCTCCAGGGTCAAGGCCGACAAG-CAAACTGAGAGAAAG--AAAA
1 GG-CAGACT-AAGGG--AA----GAAAAGTC-TCCAGGGTCAAAGCCGACA
** * * * * * *
2100199 GTTAGACTGAGGGAAAGAAAAATCTCTAGGGACGAAGCCGATA
1 GGCAGACTAAGGG-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * *
2100242 TGCAGAC--AGAGGATTGAAAAGTCTCCAAGGTCAAAGCCAATA
1 GGCAGACTAAG-GGA-AGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
2100284 GGTAGACTGGAGGGAAGGAAAGTCTCCAGGGTCAAGGCCGACA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * * *
2100327 AGTAGACTGAGGGAAAAAAAGTCTCCAGGAAT-GAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGG-GTCAAAGCCGACA
* * * *
2100369 AGCAAACTAAGGGAAAAGAAAGTCTCCAAGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGA-AAAGTCTCCAGGGTCAAAGCCGACA
* * **
2100412 AGTAGACTAAGGGATA-AAAAGTCTCCAGGGTCAAAGCTAACA
1 GGCAGACTAAGGGA-AGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * *
2100454 GGCAGACATAAAAGGTAGGAAAGTCTTCA-GGTCAAAGCTGACA
1 GGCAGAC-T-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
2100497 GGCAAACTGAA-GGAAGGAAAGTCTCCCGGGTCAAAGCCGACA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
2100539 GGCAGACTAAGGGGTAGGAAAGTCTCCAGGGTCAAAGCCGATA
1 GGCAGACTAA-GGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
2100582 GGCAGACTGAAAGAAAG-AAAGTCTCCCGGGTCAAAGCCGATA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
2100624 GGCAGACTAAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGACA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
2100667 GGTAGACTGAA-GGAAGGAAAGTCTCTAGGGTTAAA-CCGACA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
*
2100708 GGCAGACTGAGGGAA
1 GGCAGACTAAGGGAA
2100723 AACAGAAAAG
Statistics
Matches: 1005, Mismatches: 212, Indels: 147
0.74 0.16 0.11
Matches are distributed among these distances:
35 3 0.00
36 1 0.00
37 1 0.00
38 12 0.01
39 17 0.02
40 7 0.01
41 52 0.05
42 464 0.46
43 330 0.33
44 77 0.08
45 5 0.00
46 5 0.00
47 7 0.01
48 9 0.01
49 4 0.00
50 3 0.00
51 7 0.01
52 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.12
Consensus pattern (42 bp):
GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
Found at i:2099637 original size:128 final size:126
Alignment explanation
Indices: 2099391--2100036 Score: 731
Period size: 128 Copynumber: 5.1 Consensus size: 126
2099381 GTAAAAAAGG
* * ** * * *
2099391 GGCAGACTTAGGGAAAGAAAGTCTCCAAAGTCAAAGCCGATAGGCAGACTAAGGGAAGAAAAGTC
1 GGCAGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGAAAAGTC
* * *
2099456 TCCAGGGACGAAGCCGACAGGTAGACCAAGGGAAAGAAAGTCTCCAGGGTCAAAGCCAACA
66 TCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCAACA
* *
2099517 GGCAGACATAAGGGATAGGAAAGTCTCCAAGGACGAAGCCGACAGGCAGACTAAGGGAAGGAAAG
1 GGCAGAC-TAAGGGA-AGGAAAGTCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* * * * * *
2099582 TCT-CACGGGTCAAAGTCGACAGGTAGACTAAGGGAAGGAAAGTCTCCAGGTTCAAAGCCGACA
64 TCTCCA-GGGACGAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCAACA
* * *
2099645 GGCAGACATAAGGGATAAGAAAGTCTCCAGGGACGAAGCCGACAAGCAGACTAAGGGAAGGAAAG
1 GGCAGAC-TAAGGGA-AGGAAAGTCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* * * * *
2099710 TCTCTAGGGACGAAGCCGACAGGCAGACTAAGAGAAGGAAAGTCTCCAAGGAT-GAAGCCGACA
64 TCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCC-AGGGTCAAAGCCAACA
* * * *
2099773 GGCAGACTAAGGGAAGGAAAGTCTCCAGGGATGAAGACGACAGGTAGACTAAGGATAAGAAAAGT
1 GGCAGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACAGGCAGACTAAGG-GAAGAAAAGT
* * * * ** * *
2099838 CTCCAGGGCCAAAGCCGACAAGCAGACTGAGGGTTGAAAAGTCTCCAGGGTAAAAGCCAACA
65 CTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCAACA
* * * * * *
2099900 GGTAGACTGAAGGGAAGAAAAGTCTCCAGGGTC-AAGGCTGACAAGCAGACTGAGGGAAAGAAAA
1 GGCAGACT-AAGGGAAGGAAAGTCTCCAGGGACGAA-GCCGACAGGCAGACTAAGGG-AAGAAAA
* * * *
2099964 GTCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCTAGGGTCAAAGTCGACA
63 GTCTCCAGGGACGAAGCCGACAGGCAGACTAAGGG-AAGGAAAGTCTCCAGGGTCAAAGCCAACA
*
2100029 AGCAGACT
1 GGCAGACT
2100037 GAAAGGAAAG
Statistics
Matches: 443, Mismatches: 66, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
126 46 0.10
127 77 0.17
128 286 0.65
129 34 0.08
ACGTcount: A:0.38, C:0.19, G:0.31, T:0.11
Consensus pattern (126 bp):
GGCAGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGAAAAGTC
TCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCAACA
Found at i:2099709 original size:170 final size:169
Alignment explanation
Indices: 2099391--2100722 Score: 808
Period size: 170 Copynumber: 8.1 Consensus size: 169
2099381 GTAAAAAAGG
* * ** *
2099391 GGCAGACTTAGGGAAAGAAAGTCTCCAAAGTCAAAGCCGATAGGCAGACTAAGGGAAGAAAAGTC
1 GGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTC
* * * *
2099456 TCCAGGGACGAAGCCGACAGGTAGACCAAGGGAAAG-AAAGTCTCCAGGGTCAAAGCCAACAGGC
66 TCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAAGC
*
2099520 AGACATAAGGGATAGGAAAGTCTCCAAGGACGAAGCCGACA
131 AGAC-TAAGGGA-AGGAAAGTCTCCAGGGACGAAGCCGACA
* * *
2099561 GGCAGACTAAGGGAAGGAAAGTCT-CACGGGTCAAAGTCGACAGGTAGACTAAGGGAAGGAAAGT
1 GGCAGACTAAGGGAAGGAAAGTCTCCA-GGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGT
** * * *
2099625 CTCCAGGTTCAAAGCCGACAGGCAGACATAAGGGATAAG-AAAGTCTCCAGGGACGAAGCCGACA
65 CTCCAGGGACGAAGCCGACAGGCAGAC-TAAGGGA-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
*
2099689 AGCAGACTAAGGGAAGGAAAGTCTCTAGGGACGAAGCCGACA
128 AGCAGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACA
* * * *
2099731 GGCAGACTAAGAGAAGGAAAGTCTCCAAGGAT-GAAGCCGACAGGCAGACTAAGGGAAGGAAAGT
1 GGCAGACTAAGGGAAGGAAAGTCTCC-AGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGT
* * * *
2099795 CTCCAGGGATGAAGACGACAGGTAGACTAA-GGATAAGAAAAGTCTCCAGGGCCAAAGCCGACAA
65 CTCCAGGGACGAAGCCGACAGGCAGACTAAGGGA-AAGAAAAGTCTCCAGGGTCAAAGCCGACAA
* ** * * *
2099859 GCAGACTGAGGGTTGAAAAGTCTCCAGGGTA-AAAGCCAACA
129 GCAGACTAAGGGAAGGAAAGTCTCCAGGG-ACGAAGCCGACA
* * * * * *
2099900 GGTAGACTGAAGGGAAGAAAAGTCTCCAGGGTCAAGGCTGACAAGCAGACTGAGGGAAAGAAAAG
1 GGCAGACT-AAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAG
* *
2099965 TCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCTAGGGTCAAAGTCGACAA
64 TCTCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAA
* * * *
2100030 GCAGACT---GAAAGGAAAGT-TTC-----CGAAGACTA-A
129 GCAGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACA
* *** *** * * * *
2100061 GG--GA--AA--TAA--AGTCTCTAGGGACG---AAGTCGACAGGCAGACTGA-GGATTGAAAAG
1 GGCAGACTAAGGGAAGGAAAGTCTCCAG-GGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAG
* * * * ** * *
2100114 TCCCCAAGGTCAAAGCTAACAGGCAGACTGAAGGG-AAGGAAAGTCTCCAGGGTCAAGGCCGACA
64 TCTCCAGGGACGAAGCCGACAGGCAGACT-AAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * *
2100178 AGCAAACTGAGAGAAAGAAAAGT-T------A-G-A-CTG--A
128 AGCAGACTAAG-GGAAGGAAAGTCTCCAGGGACGAAGCCGACA
* ** *** * * * *
2100209 GG--GA--AA--GAA-AAATCTCTAGGGACG---AAGCCGATATGCAGAC-AGA-GGATTGAAAA
1 GGCAGACTAAGGGAAGGAAAGTCTCCAG-GGTCAAAGCCGACAGGCAGACTA-AGGGA-AGAAAA
* * * * * * * * *
2100262 GTCTCCAAGGTCAAAGCCAATAGGTAGACTGGAGGG-AAGGAAAGTCTCCAGGGTCAAGGCCGAC
63 GTCTCCAGGGACGAAGCCGACAGGCAGACT-AAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGAC
* * ** * *
2100326 AAGTAGACTGAGGGAAAAAAAGTCTCCAGGAATGAAGCCGACA
127 AAGCAGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACA
* * * * * *
2100369 AGCAAACTAAGGGAAAAGAAAGTCTCCAAGGTCAAAGCCGACAAGTAGACTAAGGGATA-AAAAG
1 GGCAGACTAAGGG-AAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAG
* * ** * * * * *
2100433 TCTCCAGGGTCAAAGCTAACAGGCAGACATAAAAGG-TAGGAAAGTCTTCA-GGTCAAAGCTGAC
64 TCTCCAGGGACGAAGCCGACAGGCAGAC-T-AAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGAC
* * * * *
2100496 AGGCAAACTGAA-GGAAGGAAAGTCTCCCGGGTCAAAGCCGACA
127 AAGCAGACT-AAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACA
* * * *
2100539 GGCAGACTAAGGGGTAGGAAAGTCTCCAGGGTCAAAGCCGATAGGCAGACTGAAAGAAAG-AAAG
1 GGCAGACTAA-GGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
* * * * * *
2100603 TCTCCCGGGTCAAAGCCGATAGGCAGACTAAAGGG-TAGGAAAGTCTCCAGGGTCAAAGCCGACA
64 TCTCCAGGGACGAAGCCGACAGGCAGACT-AAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * ** *
2100667 GGTAGACTGAA-GGAAGGAAAGTCTCTAGGG-TTAAACCGACA
128 AGCAGACT-AAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACA
*
2100708 GGCAGACTGAGGGAA
1 GGCAGACTAAGGGAA
2100723 AACAGAAAAG
Statistics
Matches: 940, Mismatches: 169, Indels: 108
0.77 0.14 0.09
Matches are distributed among these distances:
148 19 0.02
149 170 0.18
150 21 0.02
151 1 0.00
152 5 0.01
153 12 0.01
154 2 0.00
155 1 0.00
156 3 0.00
157 1 0.00
158 2 0.00
159 2 0.00
160 2 0.00
161 3 0.00
162 6 0.01
164 2 0.00
166 1 0.00
167 5 0.01
168 23 0.02
169 108 0.11
170 401 0.43
171 115 0.12
172 35 0.04
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.12
Consensus pattern (169 bp):
GGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTC
TCCAGGGACGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAAGC
AGACTAAGGGAAGGAAAGTCTCCAGGGACGAAGCCGACA
Found at i:2100180 original size:149 final size:147
Alignment explanation
Indices: 2099903--2100336 Score: 460
Period size: 149 Copynumber: 2.9 Consensus size: 147
2099893 GCCAACAGGT
* * * **
2099903 AGACTGAAGGGAAGAAAAGTCTCCAGGGTC-AAGGCTGACAAGCAGACTGAGGGAAAGAAAAGTC
1 AGACT-AAGGGAA-AAAAGTCTCTAGGGACGAA-GCCGACAAGCAGACTGA-GGATTGAAAAGTC
* * * * * * * *
2099967 TCCAGGGACGAAGCCGACAGGCAGACT-AAGGGAAAGAAAAGTCTCTAGGGTCAAAGTCGACAAG
62 TCCAAGGTCAAAGCCAACAGGCAGACTGAAGGG-AAGGAAAGTCTCCAGGGTCAAGGCCGACAAG
****
2100031 CAGACTGAAAGGAAAGTTTCCG-A
126 CAGACTGAAA-GAAAG-AAAAGTA
* * *
2100054 AGACTAAGGGAAATAAAGTCTCTAGGGACGAAGTCGACAGGCAGACTGAGGATTGAAAAGTCCCC
1 AGACTAAGGGAAA-AAAGTCTCTAGGGACGAAGCCGACAAGCAGACTGAGGATTGAAAAGTCTCC
* *
2100119 AAGGTCAAAGCTAACAGGCAGACTGAAGGGAAGGAAAGTCTCCAGGGTCAAGGCCGACAAGCAAA
65 AAGGTCAAAGCCAACAGGCAGACTGAAGGGAAGGAAAGTCTCCAGGGTCAAGGCCGACAAGCAGA
* *
2100184 CTGAGAGAAAGAAAAGTT
130 CTGAAAGAAAGAAAAGTA
* * * * *
2100202 AGACTGAGGGAAAGAAAAATCTCTAGGGACGAAGCCGATATGCAGACAGAGGATTGAAAAGTCTC
1 AGACTAAGGG-AA-AAAAGTCTCTAGGGACGAAGCCGACAAGCAGACTGAGGATTGAAAAGTCTC
* * * *
2100267 CAAGGTCAAAGCCAATAGGTAGACTGGAGGGAAGGAAAGTCTCCAGGGTCAAGGCCGACAAGTAG
64 CAAGGTCAAAGCCAACAGGCAGACTGAAGGGAAGGAAAGTCTCCAGGGTCAAGGCCGACAAGCAG
2100332 ACTGA
129 ACTGA
2100337 GGGAAAAAAA
Statistics
Matches: 240, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
147 1 0.00
148 14 0.06
149 178 0.74
150 40 0.17
151 7 0.03
ACGTcount: A:0.39, C:0.18, G:0.31, T:0.13
Consensus pattern (147 bp):
AGACTAAGGGAAAAAAGTCTCTAGGGACGAAGCCGACAAGCAGACTGAGGATTGAAAAGTCTCCA
AGGTCAAAGCCAACAGGCAGACTGAAGGGAAGGAAAGTCTCCAGGGTCAAGGCCGACAAGCAGAC
TGAAAGAAAGAAAAGTA
Found at i:2100332 original size:43 final size:42
Alignment explanation
Indices: 2100259--2100722 Score: 432
Period size: 43 Copynumber: 11.0 Consensus size: 42
2100249 AGAGGATTGA
* * * *
2100259 AAAGTCTCCAAGGTCAAAGCCAATAGGTAGACTGGAGGGAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-GAGGGAAGG
* * * **
2100302 AAAGTCTCCAGGGTCAAGGCCGACAAGTAGACTGAGGGAAAA
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGAAGG
* * * * * *
2100344 AAAGTCTCCAGGAAT-GAAGCCGACAAGCAAACTAAGGGAAAAG
1 AAAGTCTCCAGG-GTCAAAGCCGACAGGCAGACTGAGGG-AAGG
* * * * *
2100387 AAAGTCTCCAAGGTCAAAGCCGACAAGTAGACTAAGGGATA-A
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGA-AGG
** * * *
2100429 AAAGTCTCCAGGGTCAAAGCTAACAGGCAGACATAAAAGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-T-GAGGGAAGG
* * * *
2100473 AAAGTCTTCA-GGTCAAAGCTGACAGGCAAACTGAAGGAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGAAGG
* * *
2100514 AAAGTCTCCCGGGTCAAAGCCGACAGGCAGACTAAGGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGGAAGG
* ** *
2100557 AAAGTCTCCAGGGTCAAAGCCGATAGGCAGACTGAAAGAAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGAAGG
* * * *
2100599 AAAGTCTCCCGGGTCAAAGCCGATAGGCAGACTAAAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-GAGGGAAGG
* *
2100642 AAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTGAAGGAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGAAGG
* *
2100684 AAAGTCTCTAGGGTTAAA-CCGACAGGCAGACTGAGGGAA
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGAA
2100723 AACAGAAAAG
Statistics
Matches: 348, Mismatches: 63, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
41 34 0.10
42 145 0.42
43 156 0.45
44 13 0.04
ACGTcount: A:0.38, C:0.19, G:0.30, T:0.13
Consensus pattern (42 bp):
AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGAAGG
Found at i:2100348 original size:85 final size:84
Alignment explanation
Indices: 2100258--2100720 Score: 475
Period size: 85 Copynumber: 5.5 Consensus size: 84
2100248 CAGAGGATTG
* * * * * * *
2100258 AAAAGTCTCCAAGGTCAAAGCCAATAGGTAGACTGGAGGGAAGGAAAGTCTCCAGGGTCAAGGCC
1 AAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCCAGGGTCAAAGCC
* *
2100323 GACAAGTAGACTGAGGGAAA
65 GACAGGTAGACTGAAGGAAA
* * * * * * *
2100343 AAAAGTCTCCAGGAAT-GAAGCCGACAAGCAAACTAAGGGAAAAGAAAGTCTCCAAGGTCAAAGC
1 AAAAGTCTCCAGG-GTCAAAGCCGACAGGCAGACTAAGGG-TAGGAAAGTCTCCAGGGTCAAAGC
* *
2100407 CGACAAGTAGACT-AAGGGATA
64 CGACAGGTAGACTGAA-GGAAA
** * *
2100428 AAAAGTCTCCAGGGTCAAAGCTAACAGGCAGACATAAAAGGTAGGAAAGTCTTCA-GGTCAAAGC
1 AAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-T-AAGGGTAGGAAAGTCTCCAGGGTCAAAGC
* * * *
2100492 TGACAGGCAAACTGAAGGAAG
64 CGACAGGTAGACTGAAGGAAA
* *
2100513 GAAAGTCTCCCGGGTCAAAGCCGACAGGCAGACTAAGGGGTAGGAAAGTCTCCAGGGTCAAAGCC
1 AAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAA-GGGTAGGAAAGTCTCCAGGGTCAAAGCC
* * *
2100578 GATAGGCAGACTGAAAGAAA
65 GACAGGTAGACTGAAGGAAA
* * *
2100598 GAAAGTCTCCCGGGTCAAAGCCGATAGGCAGACTAAAGGGTAGGAAAGTCTCCAGGGTCAAAGCC
1 AAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGAAAGTCTCCAGGGTCAAAGCC
*
2100663 GACAGGTAGACTGAAGGAAG
65 GACAGGTAGACTGAAGGAAA
* * * *
2100683 GAAAGTCTCTAGGGTTAAA-CCGACAGGCAGACTGAGGG
1 AAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG
2100721 AAAACAGAAA
Statistics
Matches: 317, Mismatches: 51, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
83 6 0.02
84 35 0.11
85 255 0.80
86 17 0.05
87 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.30, T:0.13
Consensus pattern (84 bp):
AAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCG
ACAGGTAGACTGAAGGAAA
Found at i:2113633 original size:16 final size:16
Alignment explanation
Indices: 2113601--2113636 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2113591 TTACAAGAAT
**
2113601 ATCAATAAAATTTAGC
1 ATCAATAAAATCAAGC
2113617 ATCAATAAAATCAAGC
1 ATCAATAAAATCAAGC
2113633 ATCA
1 ATCA
2113637 CACCTCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.06, T:0.25
Consensus pattern (16 bp):
ATCAATAAAATCAAGC
Found at i:2113981 original size:43 final size:42
Alignment explanation
Indices: 2113925--2114047 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 42
2113915 TTTTTTTTGC
* *
2113925 TTTTCTCCGCCTTGCCGTGAGCTGCCTCTCC-TCATTTTTCTTT
1 TTTTCTCC-CCTTGCCGTGAGCTGCTTCTCCTTC-TTATTCTTT
*
2113968 TTTTCTTCCCCTTGTCGTGAGCTGCTTCTCCTTCTTATTCTTT
1 TTTTC-TCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATTCTTT
*
2114011 TTTTC-CCCCTTGCCGTGAGCTGCTTCTCCATCTTATT
1 TTTTCTCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATT
2114048 TGCAAGCTTC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
41 30 0.41
43 38 0.52
44 5 0.07
ACGTcount: A:0.06, C:0.33, G:0.13, T:0.48
Consensus pattern (42 bp):
TTTTCTCCCCTTGCCGTGAGCTGCTTCTCCTTCTTATTCTTT
Found at i:2114045 original size:41 final size:40
Alignment explanation
Indices: 2113925--2114047 Score: 156
Period size: 41 Copynumber: 3.0 Consensus size: 40
2113915 TTTTTTTTGC
* * * *
2113925 TTTTCTCCGCCTTGCCGTGAGCTGCCTCTCCTCATTTTTCT
1 TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCCTC-TTATTCT
*
2113966 TTTTTTCTTCCCCTTGTCGTGAGCTGCTTCTCCTTCTTATTCT
1 TTTTTTC--CCCCTTGCCGTGAGCTGCTTCTCC-TCTTATTCT
2114009 TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCCATCTTATT
1 TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCC-TCTTATT
2114048 TGCAAGCTTC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 36 0.50
43 34 0.47
44 2 0.03
ACGTcount: A:0.06, C:0.33, G:0.13, T:0.48
Consensus pattern (40 bp):
TTTTTTCCCCCTTGCCGTGAGCTGCTTCTCCTCTTATTCT
Found at i:2117247 original size:15 final size:15
Alignment explanation
Indices: 2117216--2117246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2117206 GCTTCCCTTG
2117216 TTGCTGAATCAATTT
1 TTGCTGAATCAATTT
2117231 TTGCTGAATC-ATTT
1 TTGCTGAATCAATTT
2117245 TT
1 TT
2117247 TAGAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (15 bp):
TTGCTGAATCAATTT
Found at i:2121426 original size:19 final size:18
Alignment explanation
Indices: 2121379--2121423 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
2121369 TAATGATCAT
*
2121379 TAATTTTTAAAAAATAAA
1 TAATTATTAAAAAATAAA
2121397 TAATTATTAAACAAATAAAA
1 TAATTATTAAA-AAAT-AAA
2121417 TAATTAT
1 TAATTAT
2121424 AAATTACGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
19 4 0.17
20 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATTATTAAAAAATAAA
Found at i:2122675 original size:68 final size:68
Alignment explanation
Indices: 2122531--2122682 Score: 207
Period size: 68 Copynumber: 2.2 Consensus size: 68
2122521 AAAAGAAATC
* * * * * **
2122531 TTTTAATAAAATTAAATTTTTTATTCATAATTGGATAACTTTTATTAAGGAATCCATTTAACTAA
1 TTTTAATTAAATTAAATATTTTACTCATAATTGAATAAATTTTA-TAAAAAATCCATTTAACTAA
2122596 AGTA
65 AGTA
*
2122600 TTTTAATTAAATTAAATATTTTACTCATAACTTGAATAAATTTTA-AAAAAATTCATTTAACTAA
1 TTTTAATTAAATTAAATATTTTACTCATAA-TTGAATAAATTTTATAAAAAATCCATTTAACTAA
2122664 AGTA
65 AGTA
2122668 TTTTAATTAAATTAA
1 TTTTAATTAAATTAA
2122683 GTAGATAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 35 0.47
69 27 0.36
70 12 0.16
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (68 bp):
TTTTAATTAAATTAAATATTTTACTCATAATTGAATAAATTTTATAAAAAATCCATTTAACTAAA
GTA
Found at i:2122925 original size:29 final size:30
Alignment explanation
Indices: 2122875--2122962 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 30
2122865 TTTTTTTATT
*
2122875 TATTATAATTT-TCTAAGTATAAAAATTAAAA
1 TATTA-AATTTATATAA-TATAAAAATTAAAA
2122906 TATTAAATTTA-ATAATATAAAAATTAAAA
1 TATTAAATTTATATAATATAAAAATTAAAA
***
2122935 TATTCCTTTTATTATAATATAAAAATTA
1 TATTAAATTTA-TATAATATAAAAATTA
2122963 CATGTAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 22 0.44
30 8 0.16
31 20 0.40
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (30 bp):
TATTAAATTTATATAATATAAAAATTAAAA
Done.