Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 106 of 235
Found at i:36444455 original size:27 final size:27
Alignment explanation
Indices: 36444378--36444493 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
36444368 ACCCCCGATT
* * * *
36444378 TGTAAAATTATCAAAACACCTTTG-ATT
1 TGTAAAATTACCAAAATACCCTTGTA-G
* * *
36444405 TGTAAAATTATCGAAATACTCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
36444432 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* * *
36444459 TGTAAAATGACCGACATAACCC-TGTAG
1 TGTAAAATTACCAAAAT-ACCCTTGTAG
*
36444486 GGTAAAAT
1 TGTAAAAT
36444494 GGCTATTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
27 70 0.93
28 5 0.07
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:36447375 original size:28 final size:28
Alignment explanation
Indices: 36447332--36447395 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
36447322 TGGGAAGTAG
36447332 TTGGGCCTGATAGGCCATATGAAT-ATGA
1 TTGGGCCTGATAGGCCATATGAATGA-GA
* * *
36447360 TTGGGTCTGATGGGCCATGTGAATGAGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
36447388 TTGGGCCT
1 TTGGGCCT
36447396 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATGAGA
Found at i:36447767 original size:27 final size:27
Alignment explanation
Indices: 36447712--36448716 Score: 1095
Period size: 27 Copynumber: 37.6 Consensus size: 27
36447702 TAATAAAGAG
*
36447712 AAATTATTGAAAT-CCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36447738 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
36447765 AAATTACCAAAAATACCATCGATTATG--
1 AAATTATC-GAAATACCCTCGATT-TGTA
36447792 AAATTA-CTGAAATACCC-CTGATTTGTA
1 AAATTATC-GAAATACCCTC-GATTTGTA
* * *
36447819 AAATTACCAAAATACCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
36447846 AAATTA-CTAAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
36447872 AAATTA-CTAAAATCCCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
36447899 AAGTTATCGAAATACACTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
36447925 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
36447952 AAATTACCAAAATACCATTGA-TTGT-
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
36447977 GAATTATTGAAATACTCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
36448004 AAATTATCAAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
36448030 AAATTA-CTGAAATACCCTCGA-TTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
36448056 AAACTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
36448083 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
36448109 AAATTA-CTAAAATACCCTAGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
36448136 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448163 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448190 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448217 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448244 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448271 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448298 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448325 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
36448352 AAATTATCGAAATACCCCCTATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448379 AAATTA-CTGAAACACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
36448406 AAATTATCGAAATACCC-CTAATTTGTA
1 AAATTATCGAAATACCCTC-GATTTGTA
* * *
36448433 AAATTACCAAAATACCACT-GATTTGTG
1 AAATTATCGAAATACC-CTCGATTTGTA
* * *
36448460 AAATTACCGAAACACCTTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
36448487 AAATTACCGAAGTA-TCTCGA-TTGTC
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448512 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
36448539 AAATTATCGAAATACCCCCTATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
36448566 AAATTA-CTGAAACACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
36448593 AAATTATCGAAAAACCCTCTATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
36448620 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
36448647 AAATTA-CCAGAACACCCTCTATTTGTA
1 AAATTATCGA-AATACCCTCGATTTGTA
* *
36448674 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
36448701 AAATTATCGAAATACC
1 AAATTATCGAAATACC
36448717 ATTGTAGTGT
Statistics
Matches: 848, Mismatches: 99, Indels: 63
0.84 0.10 0.06
Matches are distributed among these distances:
25 35 0.04
26 158 0.19
27 631 0.74
28 22 0.03
29 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:36448727 original size:27 final size:27
Alignment explanation
Indices: 36448697--36448785 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
36448687 ACCCTCGATT
* *
36448697 TGTAAAATTATCGAAATACCATTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
36448724 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
36448751 TGTAAAATGACCGAGATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
36448778 GGTAAAAT
1 TGTAAAAT
36448786 GACTATTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:36448755 original size:54 final size:54
Alignment explanation
Indices: 36448429--36448785 Score: 163
Period size: 54 Copynumber: 6.6 Consensus size: 54
36448419 ACCCCTAATT
* * * * * * *
36448429 TGTAAAATTACCAAAATACCACTG-ATTTGTGAAATTACCGAAACACCTTCGATT
1 TGTAAAATGACCGAAATACCACTGTA-GTGTAAAATTACCAAAACACCCTCGATG
* * * * * * * * * * *
36448483 TGTAAAATTACCGAAGTATCTC-G-ATTGTCAAATTATCGAAATACCCCCGATT
1 TGTAAAATGACCGAAATACCACTGTAGTGTAAAATTACCAAAACACCCTCGATG
* * ** * * ** *
36448535 TGTAAAATTATCGAAATACC-CCCTATTTGTGAAATTACTGAAACACCCTCGATT
1 TGTAAAATGACCGAAATACCACTGTA-GTGTAAAATTACCAAAACACCCTCGATG
* * * * * * * *
36448589 TGTAAAATTATCGAAAAACC-CTCTATTTATAAAATTACCGAAACACCCTCGATT
1 TGTAAAATGACCGAAATACCACTGTA-GTGTAAAATTACCAAAACACCCTCGATG
* * * * * *
36448643 TGTAAAATTACC-AGAACACC-CTCTATTTGTAAAATTATCAAAACACCCTCGATT
1 TGTAAAATGACCGA-AATACCACTGTA-GTGTAAAATTACCAAAACACCCTCGATG
* * * * *
36448697 TGTAAAATTATCGAAATACCATTGTAGTGTAAAATTACCAAAATACCCTTG-TAG
1 TGTAAAATGACCGAAATACCACTGTAGTGTAAAATTACCAAAACACCCTCGAT-G
* * *
36448751 TGTAAAATGACCGAGATACCCCTGTAGGGTAAAAT
1 TGTAAAATGACCGAAATACCACTGTAGTGTAAAAT
36448786 GACTATTTTT
Statistics
Matches: 253, Mismatches: 43, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
51 1 0.00
52 40 0.16
53 5 0.02
54 203 0.80
55 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (54 bp):
TGTAAAATGACCGAAATACCACTGTAGTGTAAAATTACCAAAACACCCTCGATG
Found at i:36449765 original size:21 final size:21
Alignment explanation
Indices: 36449741--36449833 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
36449731 TGTAAAAAGG
36449741 GGCACACAGCCGTGTGACTGT
1 GGCACACAGCCGTGTGACTGT
* ** *
36449762 GGCACA-TGCCCGTGTGAAGAGA
1 GGCACACAG-CCGTGTG-ACTGT
** *
36449784 GGCACATGGCTGTGTGACTGT
1 GGCACACAGCCGTGTGACTGT
** *
36449805 GGCACATGGTCGTGTGACTGT
1 GGCACACAGCCGTGTGACTGT
36449826 GGCACACA
1 GGCACACA
36449834 CCCCTATGAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.71
22 14 0.25
23 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.20
Consensus pattern (21 bp):
GGCACACAGCCGTGTGACTGT
Found at i:36449819 original size:64 final size:64
Alignment explanation
Indices: 36449751--36449874 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
36449741 GGCACACAGC
** * * * * *
36449751 CGTGTGACTGTGGCACATGCCCGTGTGAAGAGAGGCACATGGCTGTGTGACTGTGGCACATGGT
1 CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGCACACGGCTGTGTGACTGTGGCACATGGT
*
36449815 CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGTACACGGCTGTGTGACTGTGGCACA
1 CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGCACACGGCTGTGTGACTGTGGCACA
36449875 CACTCATGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.22
Consensus pattern (64 bp):
CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGCACACGGCTGTGTGACTGTGGCACATGGT
Found at i:36449863 original size:43 final size:43
Alignment explanation
Indices: 36449816--36449922 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
36449806 GCACATGGTC
* *
36449816 GTGTGACTGTGGCACACACCCCTATGAAAAAAGGTACACGGCT
1 GTGTGACTGTGGCACACACCCATATGAAAAAAGGCACACGGCT
* * * * *
36449859 GTGTGACTGTGGCACACACTCATGTGAAGAGAGGCACATGGCT
1 GTGTGACTGTGGCACACACCCATATGAAAAAAGGCACACGGCT
**
36449902 GTGTGACTGAAGCACACACCC
1 GTGTGACTGTGGCACACACCC
36449923 GTGTGGACTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (43 bp):
GTGTGACTGTGGCACACACCCATATGAAAAAAGGCACACGGCT
Found at i:36459427 original size:27 final size:27
Alignment explanation
Indices: 36459396--36459477 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
36459386 CCCTTAATCA
36459396 ATAAAATGACTATTTTGCCCTTATGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
* * *
36459423 GTAAAATCACTATTTTGCCCTTATATG
1 ATAAAATGACTATTTTGCCCTTATGTG
* ** *
36459450 ATAAGATGACGGTTTTGCCCCTATGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
36459477 A
1 A
36459478 GGTATATATA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (27 bp):
ATAAAATGACTATTTTGCCCTTATGTG
Found at i:36461137 original size:33 final size:33
Alignment explanation
Indices: 36461095--36461175 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
36461085 GTGAATAACA
36461095 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
* *
36461128 CAGTATCAGTACAGTCTGGGCCTAAGCCCTATT
1 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
*
36461161 TAGTATCAGTACAGT
1 CAGTATCAGTACAGT
36461176 GCAAAATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
Found at i:36466094 original size:27 final size:27
Alignment explanation
Indices: 36466052--36466161 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
36466042 CGTACCTGGA
* * *
36466052 CCCTTA-ATGATAAAATGATTATTTTT
1 CCCTTATATGGTAAAATGACTATTTTG
* *
36466078 CCCTTATGTGGTAAAATGACTGTTTTG
1 CCCTTATATGGTAAAATGACTATTTTG
36466105 CCCTTATATGGTAAAATGACTATTTTG
1 CCCTTATATGGTAAAATGACTATTTTG
* * *
36466132 CCCTTATATGGTAAGATGATTGTTTTG
1 CCCTTATATGGTAAAATGACTATTTTG
36466159 CCC
1 CCC
36466162 CTATGTGAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 6 0.08
27 67 0.92
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
CCCTTATATGGTAAAATGACTATTTTG
Found at i:36466136 original size:54 final size:53
Alignment explanation
Indices: 36466052--36466161 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
36466042 CGTACCTGGA
* * *
36466052 CCCTTAATGATAAAATGATTATTTTTCCCTTATGTGGTAAAATGACTGTTTTG
1 CCCTTAATGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTG
* * *
36466105 CCCTTATATGGTAAAATGACTATTTTGCCCTTATATGGTAAGATGATTGTTTTG
1 CCCTTA-ATGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTG
36466159 CCC
1 CCC
36466162 CTATGTGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 6 0.12
54 44 0.88
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (53 bp):
CCCTTAATGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTG
Found at i:36471429 original size:43 final size:43
Alignment explanation
Indices: 36471381--36471551 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
36471371 TAGGAATTCT
36471381 GATATGT-ATTCCCATGTAAGACCATGTCTGGGACGTTGGCATC
1 GATATGTGATT-CCATGTAAGACCATGTCTGGGACGTTGGCATC
* * *
36471424 GATATGTGATTTCGA-GTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGA-TTCCATGTAAGACCATGTCTGGGACGTTGGCATC
*
36471467 G-TAATTGTGATT-CGTGTAAGACCATGTCTGGGACAG-TGGCATC
1 GAT-A-TGTGATTCCATGTAAGACCATGTCTGGGAC-GTTGGCATC
* * * * *
36471510 GACATGTGATTACATGTAAGACCACGTCTGAGACGTTAGCAT
1 GATATGTGATTCCATGTAAGACCATGTCTGGGACGTTGGCAT
36471552 TGTACGATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 9 0.08
43 88 0.82
44 8 0.07
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
GATATGTGATTCCATGTAAGACCATGTCTGGGACGTTGGCATC
Found at i:36474222 original size:28 final size:28
Alignment explanation
Indices: 36474173--36474232 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
36474163 TGTCTAGGCT
* * *
36474173 GTGTGGTTCACACAGCCGTATCGCAGCC
1 GTGTAGTTCACACAGCCATATCACAGCC
** *
36474201 GTGTAGTTCACATGGCCATATCACAGCT
1 GTGTAGTTCACACAGCCATATCACAGCC
36474229 GTGT
1 GTGT
36474233 TTTACGTTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (28 bp):
GTGTAGTTCACACAGCCATATCACAGCC
Found at i:36479014 original size:23 final size:22
Alignment explanation
Indices: 36478962--36479080 Score: 136
Period size: 21 Copynumber: 5.5 Consensus size: 22
36478952 CCTGATCAAT
** *
36478962 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
36478983 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
*
36479004 ATACGACACACGAGGTGTCTG-
1 ATACGACACACGAGGTGCCTGA
36479025 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
* *
36479048 ATACGACACAAGTGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
36479071 ATACGACACA
1 ATACGACACA
36479081 TAAAGTGCCT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
21 55 0.64
23 31 0.36
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:36479157 original size:57 final size:57
Alignment explanation
Indices: 36479060--36479173 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
36479050 ACGACACAAG
36479060 TGGTGCCTGAAATACGACACATAAAGTGCCTGATCAATAAAGCCGGCAAATCCCGTA
1 TGGTGCCTGAAATACGACACATAAAGTGCCTGATCAATAAAGCCGGCAAATCCCGTA
* **
36479117 TGGTGCCTGAAATACGACACATAAAGTGCGTGATTGATAAAGCCGGCAAATCCCGTA
1 TGGTGCCTGAAATACGACACATAAAGTGCCTGATCAATAAAGCCGGCAAATCCCGTA
36479174 CACTTTCAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (57 bp):
TGGTGCCTGAAATACGACACATAAAGTGCCTGATCAATAAAGCCGGCAAATCCCGTA
Found at i:36479710 original size:2 final size:2
Alignment explanation
Indices: 36479703--36479740 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
36479693 ATATCTCATT
*
36479703 CA CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36479741 TATATAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:36484264 original size:19 final size:19
Alignment explanation
Indices: 36484228--36484266 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
36484218 TTTTCATCAT
*
36484228 AGTAAAATAAAATAATAAA
1 AGTAAAATAAAACAATAAA
*
36484247 AGTAAAATAAAACCATAAA
1 AGTAAAATAAAACAATAAA
36484266 A
1 A
36484267 ATAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AGTAAAATAAAACAATAAA
Found at i:36484748 original size:28 final size:27
Alignment explanation
Indices: 36484716--36484797 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
36484706 GTCACTAGAT
36484716 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
** *
36484744 ACAGATATACGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
36484771 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
36484798 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:36484748 original size:55 final size:56
Alignment explanation
Indices: 36484683--36484797 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
36484673 AGCATGGCTG
* * * *
36484683 CCAGATACAGA-AAATGTGACAGAGTCACTAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
36484739 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
36484794 CCAG
1 CCAG
36484798 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:36484950 original size:28 final size:28
Alignment explanation
Indices: 36484903--36484967 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
36484893 AAATTAACCC
*
36484903 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
36484931 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
36484959 TAGGGGTAT
1 TAGGGGTAT
36484968 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:36488203 original size:21 final size:21
Alignment explanation
Indices: 36488156--36488673 Score: 748
Period size: 21 Copynumber: 24.5 Consensus size: 21
36488146 CATAATCAGT
** * *
36488156 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
* *
36488177 AAACGACACACGAGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488198 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488219 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488240 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488261 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488282 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488303 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488324 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488345 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488366 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488387 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488408 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488429 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488450 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488471 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488492 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488513 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488534 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488555 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488576 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488597 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
36488618 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
36488639 AAATTCGACACAAGAGGTGCCTG
1 --ATACGACACACGAGGTGCCTG
36488662 AAATACGACACA
1 --ATACGACACA
36488674 TAAAGTGCGT
Statistics
Matches: 444, Mismatches: 51, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
21 414 0.93
23 30 0.07
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.18
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:36488207 original size:42 final size:42
Alignment explanation
Indices: 36488156--36488639 Score: 914
Period size: 42 Copynumber: 11.5 Consensus size: 42
36488146 CATAATCAGT
** * * * *
36488156 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488198 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488240 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488282 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488324 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488366 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488408 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488450 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488492 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488534 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488576 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
36488618 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
36488640 AATTCGACAC
Statistics
Matches: 436, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 436 1.00
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.19
Consensus pattern (42 bp):
ATACGACACACGAGGTGCCTGATACGACACACGTGGTGTCTG
Found at i:36489080 original size:15 final size:15
Alignment explanation
Indices: 36489055--36489112 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
36489045 ATCATAATAT
36489055 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
36489071 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
36489086 AAGAATTTCAATCAA
1 TATAAATTCAATCAA
36489101 TATAAATTCAAT
1 TATAAATTCAAT
36489113 AAAATAGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:36489139 original size:2 final size:2
Alignment explanation
Indices: 36489132--36489429 Score: 596
Period size: 2 Copynumber: 149.0 Consensus size: 2
36489122 ATTCATAAAT
36489132 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489174 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489216 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489258 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489300 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489342 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489384 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36489426 CA CA
1 CA CA
36489430 TATATATAAT
Statistics
Matches: 296, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 296 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:36502597 original size:43 final size:43
Alignment explanation
Indices: 36502550--36502662 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
36502540 CTTTGATTGA
* *
36502550 GATTTACATATAAGACAATGTCTGGGACATCA-GCATCG-TATCT
1 GATTTACATGTAAGACAATGTCTAGGACA-CAGGCATCGATAT-T
** *
36502593 GATTT-CATGTAAGACCCTGTCTAGGACAGAGGCATCGATATT
1 GATTTACATGTAAGACAATGTCTAGGACACAGGCATCGATATT
* * *
36502635 GAATTACATGTAAGACCACGTCTAGGAC
1 GATTTACATGTAAGACAATGTCTAGGAC
36502663 GACAACATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 30 0.51
43 28 0.47
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (43 bp):
GATTTACATGTAAGACAATGTCTAGGACACAGGCATCGATATT
Found at i:36502620 original size:42 final size:42
Alignment explanation
Indices: 36502550--36502662 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 42
36502540 CTTTGATTGA
* ** *
36502550 GATTTACATATAAGACAATGTCTGGGACATCA-GCATCG-TATCT
1 GATTT-CATGTAAGACCCTGTCTAGGACA-CAGGCATCGATAT-T
*
36502593 GATTTCATGTAAGACCCTGTCTAGGACAGAGGCATCGATATT
1 GATTTCATGTAAGACCCTGTCTAGGACACAGGCATCGATATT
*
36502635 GAATTACATGTAAGACCAC-GTCTAGGAC
1 G-ATTTCATGTAAGACC-CTGTCTAGGAC
36502663 GACAACATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.45
43 31 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
GATTTCATGTAAGACCCTGTCTAGGACACAGGCATCGATATT
Found at i:36504557 original size:24 final size:24
Alignment explanation
Indices: 36504529--36504580 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
36504519 TTCGTAGGTC
* *
36504529 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
36504553 AAATATATTATACTACTAAATACT
1 AAATAAATTATACTAATAAATACT
36504577 AAAT
1 AAAT
36504581 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:36507992 original size:39 final size:39
Alignment explanation
Indices: 36507917--36507992 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
36507907 ATGAAAAATA
* * * *
36507917 TTAGATATTTTGGTATTTGGTGACAAATTTGGGTATCCT
1 TTAGAAATTTTGGTATTTGATGAAAAATTTGAGTATCCT
*
36507956 TTAGAAATTTTGGTATTTGATTAAAAACTTT-AGTATC
1 TTAGAAATTTTGGTATTTGATGAAAAA-TTTGAGTATC
36507993 ATCTATTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 28 0.90
40 3 0.10
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (39 bp):
TTAGAAATTTTGGTATTTGATGAAAAATTTGAGTATCCT
Found at i:36508101 original size:21 final size:21
Alignment explanation
Indices: 36508075--36508117 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36508065 GAAATTTTGG
* *
36508075 TATTTTGGTATCTCTTAAAAA
1 TATTTTAGTATCTATTAAAAA
*
36508096 TATTTTAGTATCTATTAGAAA
1 TATTTTAGTATCTATTAAAAA
36508117 T
1 T
36508118 TCTGGTACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (21 bp):
TATTTTAGTATCTATTAAAAA
Found at i:36508179 original size:20 final size:19
Alignment explanation
Indices: 36508132--36508196 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
36508122 GTACCCATAG
36508132 AAAATTTTGATATCTGTTA
1 AAAATTTTGATATCTGTTA
*
36508151 AAAACTTTTGATATTTGGTTA
1 AAAA-TTTTGATATCT-GTTA
* *
36508172 CAAATTTT--TGTCTGTTA
1 AAAATTTTGATATCTGTTA
*
36508189 GAAATTTT
1 AAAATTTT
36508197 TGTACAATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 11 0.28
18 3 0.08
19 4 0.10
20 14 0.36
21 7 0.18
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (19 bp):
AAAATTTTGATATCTGTTA
Found at i:36511824 original size:54 final size:53
Alignment explanation
Indices: 36511675--36511833 Score: 155
Period size: 52 Copynumber: 3.0 Consensus size: 53
36511665 ATATATCATA
* * * * * *
36511675 CCGATGCCATATCCCAGATATGGA-CTTACAC-GATAGCACTTATCACTTTTCT
1 CCGATACCATAGCCCAGCTAT-GATCTTATACAGATATCACTTATCACTTTTTT
* * *
36511727 CCGATACCATAGCCTAGCTATGGTCTTATAC-G-GATCACTTATCACTTGTTTT
1 CCGATACCATAGCCCAGCTATGATCTTATACAGATATCACTTATCACTT-TTTT
* * * *
36511779 CTGATGCCATAGCCCAGCTATGATTTTATACAGATATCACATATCACTTTTTT
1 CCGATACCATAGCCCAGCTATGATCTTATACAGATATCACTTATCACTTTTTT
36511832 CC
1 CC
36511834 ATGGTCCAAC
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
51 14 0.16
52 53 0.62
53 6 0.07
54 13 0.15
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (53 bp):
CCGATACCATAGCCCAGCTATGATCTTATACAGATATCACTTATCACTTTTTT
Found at i:36522344 original size:17 final size:17
Alignment explanation
Indices: 36522319--36522370 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
36522309 ATCTTTGTAG
36522319 AAAGAAAAAAGAGAAA-T
1 AAAG-AAAAAGAGAAATT
*
36522336 AGAAGAAAAAGATAAATTT
1 A-AAGAAAAAGAGAAA-TT
36522355 AAAGAAAAGAGAGAAA
1 AAAGAAAA-AGAGAAA
36522371 CTTTCCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 11 0.38
18 10 0.34
19 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (17 bp):
AAAGAAAAAGAGAAATT
Found at i:36526528 original size:23 final size:23
Alignment explanation
Indices: 36526502--36526551 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
36526492 TTGGTGGGAG
36526502 CATTTTGCCACTTCGATGCATAT
1 CATTTTGCCACTTCGATGCATAT
* * *
36526525 CATTTTGGCACTTTGCTGCATAT
1 CATTTTGCCACTTCGATGCATAT
36526548 CATT
1 CATT
36526552 CAGGCACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (23 bp):
CATTTTGCCACTTCGATGCATAT
Found at i:36526557 original size:23 final size:23
Alignment explanation
Indices: 36526516--36526570 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
36526506 TTGCCACTTC
** *
36526516 GATGCATATCATTTTGGCACTTT
1 GATGCATATCATTCAGGCACTAT
*
36526539 GCTGCATATCATTCAGGCACTAT
1 GATGCATATCATTCAGGCACTAT
36526562 GATGCATAT
1 GATGCATAT
36526571 TATACTATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (23 bp):
GATGCATATCATTCAGGCACTAT
Found at i:36536121 original size:47 final size:47
Alignment explanation
Indices: 36536055--36536155 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
36536045 GCCTGACTGA
*
36536055 GACAT-GCATCGGCTATGAGATGAT-AG-TCAGTGTAAGACCATGTCTGG
1 GACATGGCATCGACTATGAGAT-ATGAGCT-AGTGTAAGACCATG-CTGG
36536102 GACATGGCATCGACT-TGAGATATGAGCTAGTGTAAGACCATGCTGG
1 GACATGGCATCGACTATGAGATATGAGCTAGTGTAAGACCATGCTGG
36536148 GACATGGC
1 GACATGGC
36536156 GTCGGCACCT
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
46 14 0.28
47 27 0.54
48 9 0.18
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
GACATGGCATCGACTATGAGATATGAGCTAGTGTAAGACCATGCTGG
Found at i:36553628 original size:25 final size:25
Alignment explanation
Indices: 36553600--36553647 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36553590 TTATAACATG
* * *
36553600 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
36553625 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
36553648 GTATTTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:36553706 original size:20 final size:21
Alignment explanation
Indices: 36553671--36553727 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
36553661 TGATATGTGG
36553671 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
36553689 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
36553710 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
36553728 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:36553806 original size:26 final size:26
Alignment explanation
Indices: 36553777--36553911 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
36553767 AAGGAAGTGC
*
36553777 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
36553803 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
36553829 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
36553855 AAAAGGGCTT-TGCCCCAGTTGA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
36553879 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
36553902 AAAAGAGGCT
1 AAAAG-GGCT
36553912 AGGCCTCCAT
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
23 7 0.07
24 24 0.24
25 10 0.10
26 60 0.59
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:36554159 original size:31 final size:31
Alignment explanation
Indices: 36554122--36554185 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
36554112 CCGTTAAACG
36554122 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
36554153 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
36554184 AA
1 AA
36554186 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:36561960 original size:25 final size:25
Alignment explanation
Indices: 36561932--36561979 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
36561922 TTATAATATG
* *
36561932 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
36561957 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
36561980 GTATTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:36562018 original size:9 final size:10
Alignment explanation
Indices: 36562006--36562062 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
36561996 TATGTGGGAT
36562006 ATGATAT-AC
1 ATGATATGAC
*
36562015 ATGAT-TGAT
1 ATGATATGAC
36562024 ATGATATGCAC
1 ATGATATG-AC
*
36562035 ATGATATG-T
1 ATGATATGAC
36562044 ATGATATGCAC
1 ATGATATG-AC
36562055 ATGATATG
1 ATGATATG
36562063 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:36562038 original size:20 final size:20
Alignment explanation
Indices: 36562005--36562079 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
36561995 ATATGTGGGA
36562005 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
36562022 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
36562043 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
36562063 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
36562080 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:36562040 original size:11 final size:11
Alignment explanation
Indices: 36562024--36562079 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
36562014 CATGATTGAT
36562024 ATGATATGCAC
1 ATGATATGCAC
*
36562035 ATGATATG--T
1 ATGATATGCAC
36562044 ATGATATGCAC
1 ATGATATGCAC
*
36562055 ATGATATG--T
1 ATGATATGCAC
*
36562064 ATGAAATGCAC
1 ATGATATGCAC
36562075 ATGAT
1 ATGAT
36562080 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:36562158 original size:26 final size:25
Alignment explanation
Indices: 36562129--36562212 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
36562119 GAGGAAGTGC
*
36562129 AAAAGGGCTTATGCCCTAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
* *
36562154 GAAAAGGGCTTATGCCCCAGTTGATC
1 -AAAAGGGCTTATGCCCCAGTTTATT
36562180 AAAAGGGCTT-TGCCCCAG-TTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
36562203 AAAAGAGGCT
1 AAAAG-GGCT
36562213 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 8 0.15
24 12 0.23
25 10 0.19
26 22 0.42
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:36562198 original size:24 final size:24
Alignment explanation
Indices: 36562128--36562226 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 24
36562118 GGAGGAAGTG
*
36562128 CAAAAGGGCTTATGCCCTAGTTTATT
1 CAAAAGGGCTTATGCCCCAG-TTA-T
*
36562154 GAAAAGGGCTTATGCCCCAGTTGAT
1 CAAAAGGGCTTATGCCCCAGTT-AT
36562179 CAAAAGGGCTT-TGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
36562202 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
36562227 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.12
24 16 0.25
25 21 0.33
26 19 0.30
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:36562464 original size:31 final size:31
Alignment explanation
Indices: 36562423--36562486 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
36562413 TCGTCAAACG
* *
36562423 AAAGGTTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
36562454 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
36562485 AA
1 AA
36562487 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:36562491 original size:38 final size:38
Alignment explanation
Indices: 36562440--36562514 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
36562430 TCGGCCTAGT
*
36562440 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATGA
36562478 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATG
1 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATG
36562515 TTGAGAATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATGA
Found at i:36570259 original size:5 final size:5
Alignment explanation
Indices: 36570249--36570280 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
36570239 TATACTGTGA
36570249 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36570281 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:36570274 original size:9 final size:9
Alignment explanation
Indices: 36570250--36570280 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
36570240 ATACTGTGAA
36570250 AAATAAAAT
1 AAATAAAAT
36570259 AAAATAAAAT
1 -AAATAAAAT
36570269 AAATAAAAT
1 AAATAAAAT
36570278 AAA
1 AAA
36570281 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:36574710 original size:5 final size:5
Alignment explanation
Indices: 36574700--36574727 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36574690 CAATTTGTGA
36574700 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36574728 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:36578216 original size:25 final size:25
Alignment explanation
Indices: 36578182--36578231 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
36578172 AATAAATAAG
36578182 TTAATTTTGAATTCATATAGATCAA
1 TTAATTTTGAATTCATATAGATCAA
36578207 TTAATTTTGAATTCATATAGATCAA
1 TTAATTTTGAATTCATATAGATCAA
36578232 GAAAGAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (25 bp):
TTAATTTTGAATTCATATAGATCAA
Found at i:36584597 original size:31 final size:31
Alignment explanation
Indices: 36584562--36584624 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
36584552 TGATTCTCCG
* * *
36584562 AATGCCGAG-TCTGGTCCTTATTTTGAGGTTT
1 AATGCCGAGCTC-GATCCTAATTTTCAGGTTT
36584593 AATGCCGAGCTCGATCCTAATTTTCAGGTTT
1 AATGCCGAGCTCGATCCTAATTTTCAGGTTT
36584624 A
1 A
36584625 CTTGAAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
AATGCCGAGCTCGATCCTAATTTTCAGGTTT
Found at i:36587610 original size:34 final size:35
Alignment explanation
Indices: 36587572--36587647 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 35
36587562 TGAATGCTGT
*
36587572 TGATACTATGATGGGATAAGGTCCTAATGCATA-C
1 TGATACTATGATGGGATAAGGCCCTAATGCATATC
* * * * *
36587606 TGATATTGTGATGGGCTAAGGCCCTACTGCATATT
1 TGATACTATGATGGGATAAGGCCCTAATGCATATC
36587641 TGATACT
1 TGATACT
36587648 GTACTGAGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 28 0.82
35 6 0.18
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (35 bp):
TGATACTATGATGGGATAAGGCCCTAATGCATATC
Found at i:36588489 original size:25 final size:26
Alignment explanation
Indices: 36588447--36588503 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
36588437 ATGCTATTCA
36588447 AAAACTACTATAGGTAGTATACT-TTG
1 AAAACTACTATAGGTAGTATA-TATTG
* *
36588473 AAAA-TACTCTAGTTAGTATATATTG
1 AAAACTACTATAGGTAGTATATATTG
36588498 AAAACT
1 AAAACT
36588504 GTAGTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 21 0.78
26 5 0.19
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (26 bp):
AAAACTACTATAGGTAGTATATATTG
Found at i:36601003 original size:46 final size:46
Alignment explanation
Indices: 36600902--36600990 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
36600892 TGTAACCCGC
* **
36600902 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCCACAT
* *
36600948 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCCA
36600991 AACATCCTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCCACAT
Found at i:36603414 original size:30 final size:30
Alignment explanation
Indices: 36603370--36603458 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
36603360 CAAAGATAAC
36603370 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
36603399 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
36603429 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
36603459 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:36603418 original size:15 final size:15
Alignment explanation
Indices: 36603370--36603449 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
36603360 CAAAGATAAC
*
36603370 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
36603384 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
36603399 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
36603414 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
36603429 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
36603444 AAGAAA
1 AAGAAA
36603450 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:36603458 original size:15 final size:15
Alignment explanation
Indices: 36603381--36603458 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
36603371 AGAAAACCGA
36603381 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
36603396 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
36603410 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
36603425 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
36603441 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
36603456 ATA
1 ATA
36603459 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:36609012 original size:12 final size:12
Alignment explanation
Indices: 36608997--36609022 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36608987 GTAAGAATTG
36608997 AAGTAATTACAC
1 AAGTAATTACAC
36609009 AAGTAATTACAC
1 AAGTAATTACAC
36609021 AA
1 AA
36609023 AAATCTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAGTAATTACAC
Found at i:36626203 original size:44 final size:44
Alignment explanation
Indices: 36626153--36626252 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
36626143 ACCACCAGCC
* * *
36626153 TTATCTCCCTAAAGTTACAGTGGAGCAGGCTCAATAT-ACAAGTT
1 TTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAAATCAC-AGAT
* * * *
36626197 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGAT
1 TTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAAATCACAGAT
36626241 TTATCTCCCTAA
1 TTATCTCCCTAA
36626253 GCAGTAGCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 45 0.96
45 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAAATCACAGAT
Found at i:36626421 original size:44 final size:44
Alignment explanation
Indices: 36626152--36626426 Score: 118
Period size: 44 Copynumber: 6.2 Consensus size: 44
36626142 TACCACCAGC
* * * * *
36626152 CTTATCTCCCTAAAGTTACAGTGGAGCAGGCTCAATATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACAAGT
* * * *
36626196 TTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAAT-CACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACA-AG-T
** * * ** *
36626241 -TTATCTCCCT-AAGCAGTAGCGGAGTAGA-TCAAAAATGGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTC-AAAAT-AC-AAGT
* * * * * * * * * *
36626284 CTTATCTCCATGTA-TCAGTAATGGAGCAGATTTAAGCA-ACAAGC
1 CTTATCTCCCTGAAGT-TGCAGTGGAACAGACTCAA-AATACAAGT
* * * *
36626328 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTCAATATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACAAGT
* *
36626372 CTTATCTCCCTGAGGTTGCAGTGGAACAGACTGAAAAT-CACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACA-AG-T
36626417 -TTATCTCCCT
1 CTTATCTCCCT
36626427 AAGCAGTAGC
Statistics
Matches: 174, Mismatches: 41, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
42 1 0.01
43 25 0.14
44 126 0.72
45 19 0.11
46 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACAAGT
Found at i:36626463 original size:88 final size:88
Alignment explanation
Indices: 36626197--36626468 Score: 261
Period size: 88 Copynumber: 3.1 Consensus size: 88
36626187 TATACAAGTT
36626197 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
*
36626262 GAGTAGATCAAAAATGGCGAATC
66 GAGCAGATCAAAAATGGCGAATC
* * * * * * ** * **
36626285 TTATCTCCATGTA--TCAGTAATGGAGCAGATTTAAGCAA-CA-AGCCTTATCTCTCTGAAGTTG
1 TTATCTCCCTG-AGGT-TGCAGTGGAGCAGACTGAA--AATCACAGATTTATCTCCCT-AAGCAG
* * * * *
36626346 CAGTGGAGCAGGCTC-AATAT-AC-AAGTC
61 TAGCGGAGCA-GATCAAAAATGGCGAA-TC
*
36626373 TTATCTCCCTGAGGTTGCAGTGGAACAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
*
36626438 GAGCAGATCAAAGATGGCGAATC
66 GAGCAGATCAAAAATGGCGAATC
36626461 TTATCTCC
1 TTATCTCC
36626469 ATGTATCGGC
Statistics
Matches: 136, Mismatches: 34, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
86 5 0.04
87 22 0.16
88 83 0.61
89 21 0.15
90 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (88 bp):
TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
GAGCAGATCAAAAATGGCGAATC
Found at i:36626510 original size:88 final size:88
Alignment explanation
Indices: 36626241--36626517 Score: 235
Period size: 88 Copynumber: 3.1 Consensus size: 88
36626231 AATCACAGAT
* *
36626241 TTATCTCCCTAAGCAGTAGCGGAGTAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGTAAT
1 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGCAAT
36626306 GGAGCAGATTTAAG-CAACAAGCC
66 GGAGCAGATTTAAGTC-ACAAGCC
* ** * * * * * * *
36626329 TTATCTCTCTGAAGTTGCAGTGGAGCAGGCTC-AATAT-AC-AAGTCTTATCTCCCTG-AGGT-T
1 TTATCTCCCT-AAGCAGTAGCGGAGCA-GATCAAAAATGGCGAA-TCTTATCTCCATGTA--TCA
* * ** * **
36626389 GCAGTGGAACAGACTGAAAATCAC-AGAT
61 GCAATGGAGCAGA-TTTAAGTCACAAGCC
* *
36626417 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAAT
1 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGCAAT
36626482 GGAGCAGATTTAAGTCACAAGCC
66 GGAGCAGATTTAAGTCACAAGCC
* *
36626505 CTATCTCTCTAAG
1 TTATCTCCCTAAG
36626518 GTAGCAAGAG
Statistics
Matches: 138, Mismatches: 38, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
86 3 0.02
87 27 0.20
88 80 0.58
89 24 0.17
90 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (88 bp):
TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGCAAT
GGAGCAGATTTAAGTCACAAGCC
Found at i:36626575 original size:87 final size:87
Alignment explanation
Indices: 36626484--36626755 Score: 216
Period size: 87 Copynumber: 3.1 Consensus size: 87
36626474 TCGGCAATGG
* *
36626484 AGCAGATTTAAGTCACAAGCCCTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
1 AGCAGATTTAAGTCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
36626549 TATCTTCTTGAGGTAGCAAGGA
66 TATCTTCTTGAGGTAGCAAGGA
* * * ** ** * * * *
36626571 AGCAGACTGAGAAT-TGAAGATTTTATCTCCCTAAAGTTGC-AGTGGAGCAGATTG-AGAATAGT
1 AGCAGATTTA-AGTCACAAG-CCTTATCTCTCTAAGGTAGCAAG-AGAGCAGATTGAAG-A-A-T
* *
36626633 GAATCTTATC-TCTATGTA--TCGACAATGG-
60 GAGTCTTATCTTCT-TG-AGGTAG-CAA-GGA
* * * *
36626661 AGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAAAGTAGATTGAAGAATGAGTCT
1 AGCAGATTTAAGTCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
* *
36626726 TATCTTCCTAAGGTAGCAAGGA
66 TATCTTCTTGAGGTAGCAAGGA
36626748 AGCAGATT
1 AGCAGATT
36626756 GAGAATTGAA
Statistics
Matches: 134, Mismatches: 34, Indels: 34
0.66 0.17 0.17
Matches are distributed among these distances:
86 3 0.02
87 37 0.28
88 31 0.23
89 30 0.22
90 30 0.22
91 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (87 bp):
AGCAGATTTAAGTCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
TATCTTCTTGAGGTAGCAAGGA
Found at i:36626671 original size:177 final size:176
Alignment explanation
Indices: 36626053--36626907 Score: 777
Period size: 176 Copynumber: 4.8 Consensus size: 176
36626043 ATATTGGTGA
* * * *
36626053 AAATTGAAGATCTTATCTCTCTGAAGTTGCAGCGGAGCATATCG-AAGATGGTGAATCTTATCTC
1 AAATTGAAGATTTTATCTCCCT-AAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTC
* * * * * * *
36626117 TATGTATCGGCAATGGAGCAAATTTTA-CCACCAGCCTTATCTCCCTAAAGTTA-C-AGTGGAGC
65 CATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCT-AAGGTAGCAAG-AGAGC
* * * ** * * *
36626179 AGGCTCAATATACAAGTTTTATCTCCCTGAGGTTGC-AGTGGAGCAGACTG
128 AGGTTGAAGA-ATGAGTCTTATCTCCCTGAGGTAGCAAG-GAAGCAGACTG
* * ** * * *
36626229 AAAATCACAGA-TTTATCTCCCTAAGCAGTAGCGGAGTAGATC-AAAAATGGCGAATCTTATCTC
1 AAATTGA-AGATTTTATCTCCCTAAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTC
* * * * *
36626292 CATGTATCAGTAATGGAGCAGATTTAAGCAACAAGCCTTATCTCTCTGAA-GTTGC-AGTGGAGC
65 CATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCT-AAGGTAGCAAG-AGAGC
* * * ** * *
36626355 AGGCTCAATATACAAGTCTTATCTCCCTGAGGTTGCAGTGGAA-CAGACTG
128 AGGTTGAAGA-ATGAGTCTTATCTCCCTGAGGTAGCA-AGGAAGCAGACTG
* * ** *
36626405 AAAATCACAGA-TTTATCTCCCTAAGCAGTAGCGGAGCAGATC-AAAGATGGCGAATCTTATCTC
1 AAATTGA-AGATTTTATCTCCCTAAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTC
* *
36626468 CATGTATCGGCAATGGAGCAGATTTAAGTCACAAGCCCTATCTCTCTAAGGTAGCAAGAGAGCAG
65 CATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* *
36626533 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTG
130 GTTGAAGAATGAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTG
* * * * *
36626580 AGAATTGAAGATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAGA-ATAGTGAATCTTATCT
1 A-AATTGAAGATTTTATCTCCCT-AAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCT
* * * * *
36626644 CTATGTATCGACAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAAAGTA
64 CCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCA
* * * *
36626709 GATTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATTG
129 GGTTGAAGAATGAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTG
* * ** *
36626757 AGAATTGAAGATTTTATCTCCCTAAAGTTACATTAGCAGAGTGGATCG-AAGATGGCGAATCTTC
1 A-AATTGAAGATTTTATCTCCCT-AAGTTGC---AGCGGAGCAGATCGAAAGATGGCGAATCTTA
* * * * *
36626821 TCTCCACGTATCGGCAATGGAGCAGATTTTAGCCACTAA-CCCTATCTCTCTGAGGTAGCAAAAG
61 TCTCCATGTATCGGCAATGGAGCAGATTTAAGCCAC-AAGCCTTATCTCTCTAAGGTAGCAAGAG
* *
36626885 AGCAAGTTGAAGATTGAGTCTTA
125 AGCAGGTTGAAGAATGAGTCTTA
36626908 GCTGCAGTAA
Statistics
Matches: 576, Mismatches: 85, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
174 4 0.01
175 90 0.16
176 216 0.38
177 168 0.29
178 3 0.01
179 1 0.00
180 92 0.16
181 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (176 bp):
AAATTGAAGATTTTATCTCCCTAAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTCC
ATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGG
TTGAAGAATGAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTG
Found at i:36631925 original size:6 final size:6
Alignment explanation
Indices: 36631914--36631949 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
36631904 ATATATAACC
36631914 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
36631950 TCTCTTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:36632333 original size:22 final size:22
Alignment explanation
Indices: 36632308--36632351 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36632298 TTCGGTGTGG
*
36632308 TTTTGTAACCACACTGGTGCGT
1 TTTTGTAACCACACGGGTGCGT
36632330 TTTTGTAACCACACGGGTGCGT
1 TTTTGTAACCACACGGGTGCGT
36632352 GTGCATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (22 bp):
TTTTGTAACCACACGGGTGCGT
Found at i:36637938 original size:30 final size:31
Alignment explanation
Indices: 36637904--36637965 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
36637894 TTATTTTATC
36637904 GTTAA-TTTTCTTATTATTTTAAAAGCATTT
1 GTTAATTTTTCTTATTATTTTAAAAGCATTT
* *
36637934 GTTAATTTTTTTTATTATTTTAGAAGCATTT
1 GTTAATTTTTCTTATTATTTTAAAAGCATTT
36637965 G
1 G
36637966 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (31 bp):
GTTAATTTTTCTTATTATTTTAAAAGCATTT
Found at i:36638178 original size:47 final size:47
Alignment explanation
Indices: 36638109--36638202 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
36638099 AAAAATAATA
*
36638109 TGGCGGGTTGGGCCGAGCCCGGGTTTTAGTATTTTTATTCGGGTTGG
1 TGGCGGGTTGGGCCGAGCCCGGGGTTTAGTATTTTTATTCGGGTTGG
36638156 TGGCGGGTTGGGCCGAGCCCGGGGTTTAGTATTTTTATTCGGGTTGG
1 TGGCGGGTTGGGCCGAGCCCGGGGTTTAGTATTTTTATTCGGGTTGG
36638203 GCTTGGGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.09, C:0.15, G:0.41, T:0.35
Consensus pattern (47 bp):
TGGCGGGTTGGGCCGAGCCCGGGGTTTAGTATTTTTATTCGGGTTGG
Found at i:36643746 original size:20 final size:20
Alignment explanation
Indices: 36643721--36643760 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
36643711 CATCCCAAGT
36643721 AAGTTTCTAATCATCATGCA
1 AAGTTTCTAATCATCATGCA
36643741 AAGTTTCTAATCATCATGCA
1 AAGTTTCTAATCATCATGCA
36643761 TCAACTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
AAGTTTCTAATCATCATGCA
Found at i:36648388 original size:22 final size:21
Alignment explanation
Indices: 36648363--36648403 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36648353 CATATAATTC
36648363 ATAAAAAAATTAAAATAAATAA
1 ATAAAAAAATTAAAA-AAATAA
* *
36648385 ATAAATAATTTAAAAAAAT
1 ATAAAAAAATTAAAAAAAT
36648404 TGTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAAAAATTAAAAAAATAA
Found at i:36648411 original size:11 final size:10
Alignment explanation
Indices: 36648364--36648427 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
36648354 ATATAATTCA
36648364 TAAAAAAA-T
1 TAAAAAAATT
36648373 TAAAATAAA-T
1 TAAAA-AAATT
*
36648383 AAATAAATAATT
1 TAA-AAA-AATT
36648395 TAAAAAAATT
1 TAAAAAAATT
36648405 GTAAAAAAATT
1 -TAAAAAAATT
* *
36648416 TTAGAAAATT
1 TAAAAAAATT
36648426 TA
1 TA
36648428 TCCATGTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
9 5 0.11
10 20 0.44
11 17 0.38
12 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:36648777 original size:20 final size:21
Alignment explanation
Indices: 36648740--36648779 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
36648730 TCTCTCCTGC
36648740 ATTTACACTAAAAGAAAATAA
1 ATTTACACTAAAAGAAAATAA
* *
36648761 ATTTAC-CTAATATAAAATA
1 ATTTACACTAAAAGAAAATA
36648780 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
ATTTACACTAAAAGAAAATAA
Found at i:36650694 original size:13 final size:13
Alignment explanation
Indices: 36650628--36650702 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 13
36650618 ACACTTAAAT
* *
36650628 TTTTCCAAAGCAC
1 TTTTCAAAAGTAC
* *
36650641 TTCTCAAAAGTTC
1 TTTTCAAAAGTAC
* *
36650654 TTCTCAAAAATAC
1 TTTTCAAAAGTAC
* *
36650667 TTTTCCATAA-CAC
1 TTTT-CAAAAGTAC
*
36650680 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
36650693 TTTTCAAAAG
1 TTTTCAAAAG
36650703 CAATGAAAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
12 3 0.06
13 40 0.85
14 4 0.09
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:36654207 original size:16 final size:15
Alignment explanation
Indices: 36654176--36654206 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36654166 TAATTTCCTA
36654176 TATTTTTTAAAATTT
1 TATTTTTTAAAATTT
36654191 TATTTTTTAAAATTT
1 TATTTTTTAAAATTT
36654206 T
1 T
36654207 TTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTAAAATTT
Found at i:36654711 original size:17 final size:17
Alignment explanation
Indices: 36654685--36654719 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
36654675 GCGTTTGAGA
*
36654685 TAGACGTTGTTATAGTT
1 TAGACATTGTTATAGTT
36654702 TAGACATTGTTATAGTT
1 TAGACATTGTTATAGTT
36654719 T
1 T
36654720 TAAGGTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.49
Consensus pattern (17 bp):
TAGACATTGTTATAGTT
Found at i:36661560 original size:14 final size:14
Alignment explanation
Indices: 36661543--36661581 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
36661533 TTAGATTAAA
36661543 AAATTGAGAATAAC
1 AAATTGAGAATAAC
* *
36661557 AAATCGAGAATAAG
1 AAATTGAGAATAAC
36661571 AAATTGAGAAT
1 AAATTGAGAAT
36661582 CAAATTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (14 bp):
AAATTGAGAATAAC
Found at i:36662922 original size:15 final size:17
Alignment explanation
Indices: 36662887--36662923 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36662877 AAAATTTTTT
*
36662887 TATTTATTTTCTTTAAA
1 TATTTATTATCTTTAAA
36662904 TATTTATTAT-TTT-AA
1 TATTTATTATCTTTAAA
36662919 TATTT
1 TATTT
36662924 TACTATACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 3 0.16
17 9 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTATTATCTTTAAA
Found at i:36663668 original size:21 final size:20
Alignment explanation
Indices: 36663638--36663677 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
36663628 TTTGAGATTG
36663638 AAGGTTTGGG-TTTAGGGTTT
1 AAGGTTTGGGATTT-GGGTTT
36663658 AAGGTTTTGGGATTTGGGTT
1 AAGG-TTTGGGATTTGGGTT
36663678 CGAGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (20 bp):
AAGGTTTGGGATTTGGGTTT
Found at i:36663690 original size:7 final size:7
Alignment explanation
Indices: 36663680--36663707 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
36663670 TTTGGGTTCG
36663680 AGATTCA
1 AGATTCA
36663687 AGATTCA
1 AGATTCA
36663694 AGATTCA
1 AGATTCA
36663701 AGATTCA
1 AGATTCA
36663708 GAGCTCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
AGATTCA
Found at i:36667925 original size:44 final size:43
Alignment explanation
Indices: 36667848--36668019 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
36667838 ACATAGGATC
* *
36667848 CGATATGTGTTTTTGTGTAAGACCACA-TATGGGACGTTGGCAT
1 CGATATCTGTTTTTGTGTAAGACCA-AGTCTGGGACGTTGGCAT
* *
36667891 CGACT-TCTGTTTTATGTGTAAGACCAAGTCTGGGACATCGGCAT
1 CGA-TATCTGTTTT-TGTGTAAGACCAAGTCTGGGACGTTGGCAT
* * *
36667935 CG-TATCTGATTTTGTGTAAGATCC-TGTCTGGGATAG-TGGCAT
1 CGATATCTGTTTTTGTGTAAGA-CCAAGTCTGGGA-CGTTGGCAT
* * * *** * *
36667977 CGATGTTTGATTACATGTAAGACCACGTCTGGGACGTTAGCAT
1 CGATATCTGTTTTTGTGTAAGACCAAGTCTGGGACGTTGGCAT
36668020 TGTATATGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 28 0.27
43 47 0.46
44 28 0.27
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATCTGTTTTTGTGTAAGACCAAGTCTGGGACGTTGGCAT
Found at i:36674176 original size:46 final size:46
Alignment explanation
Indices: 36674100--36674258 Score: 176
Period size: 46 Copynumber: 3.4 Consensus size: 46
36674090 AACAATATCG
* * *
36674100 ATCTCGCACACTATGTGCCAATGTATATATATAGCCGAAGCTATCTCA
1 ATCTCACACACTAAGTGCCAA--TATATATATAGCCGAAGCTATTTCA
*
36674148 AT-TACACACACTAAGTGCCAATATATATATAACCGAAGCTATTTCA
1 ATCT-CACACACTAAGTGCCAATATATATATAGCCGAAGCTATTTCA
* * * * * *
36674194 GTCTCGCACACTAAGTGCCAATACATATGTAGTCGAAACTATTTCTA
1 ATCTCACACACTAAGTGCCAATATATATATAGCCGAAGCTATTTC-A
*
36674241 ATCTCACACACCAAGTGC
1 ATCTCACACACTAAGTGC
36674259 ACATAATTAG
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
46 59 0.63
47 18 0.19
48 17 0.18
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (46 bp):
ATCTCACACACTAAGTGCCAATATATATATAGCCGAAGCTATTTCA
Found at i:36679015 original size:13 final size:13
Alignment explanation
Indices: 36678997--36679022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36678987 GCTCGGTAGG
36678997 GACACGCCCATGT
1 GACACGCCCATGT
36679010 GACACGCCCATGT
1 GACACGCCCATGT
36679023 ACGATTACTT
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:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:36689361 original size:223 final size:223
Alignment explanation
Indices: 36688973--36689422 Score: 891
Period size: 223 Copynumber: 2.0 Consensus size: 223
36688963 AGGTAGGGGT
36688973 AGAGGTTGTTGAGCAACCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
1 AGAGGTTGTTGAGCAACCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
36689038 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCCGATACGAGTCTAGATTTAGAAGGCACTGTCT
66 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCCGATACGAGTCTAGATTTAGAAGGCACTGTCT
36689103 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
131 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
36689168 TATATGAAAACACATTTTAAAAATATTA
196 TATATGAAAACACATTTTAAAAATATTA
*
36689196 AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
1 AGAGGTTGTTGAGCAACCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
36689261 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCCGATACGAGTCTAGATTTAGAAGGCACTGTCT
66 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCCGATACGAGTCTAGATTTAGAAGGCACTGTCT
36689326 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
131 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
36689391 TATATGAAAACACATTTTAAAAATATTA
196 TATATGAAAACACATTTTAAAAATATTA
36689419 AGAG
1 AGAG
36689423 TCATCACACT
Statistics
Matches: 226, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 226 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (223 bp):
AGAGGTTGTTGAGCAACCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCCGATACGAGTCTAGATTTAGAAGGCACTGTCT
CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
TATATGAAAACACATTTTAAAAATATTA
Found at i:36691018 original size:46 final size:46
Alignment explanation
Indices: 36690875--36691034 Score: 137
Period size: 46 Copynumber: 3.5 Consensus size: 46
36690865 CGGGAAATTT
* ** * * * *
36690875 GCACAATAAGTGCCAA-ATA-A-ATAGTCGAAGCAATATCGATCTC
1 GCACACTAAGTGCCAATATATATATAACCGAAGCTATCTCAATCAC
* ** *
36690918 GCACACTAAGTGCCAATGTATATATATAGCCGAATTTATCTCAATTAC
1 GCACACTAAGTGCCAA--TATATATATAACCGAAGCTATCTCAATCAC
* * *
36690966 GCACACTAAGTGCCAATATATATATAACCGAAGCTATTTCAGTCCC
1 GCACACTAAGTGCCAATATATATATAACCGAAGCTATCTCAATCAC
* *
36691012 GTACACTAAGTGCCAATACATAT
1 GCACACTAAGTGCCAATATATAT
36691035 GTAGTCGAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 15 0.16
46 47 0.50
47 1 0.01
48 31 0.33
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (46 bp):
GCACACTAAGTGCCAATATATATATAACCGAAGCTATCTCAATCAC
Found at i:36702718 original size:15 final size:17
Alignment explanation
Indices: 36702694--36702727 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
36702684 GCTAGGGACT
36702694 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
36702710 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
36702726 AA
1 AA
36702728 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:36703470 original size:17 final size:17
Alignment explanation
Indices: 36703448--36703480 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36703438 ATCTGACAAA
*
36703448 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
36703465 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
36703481 ATGGTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:36703662 original size:36 final size:36
Alignment explanation
Indices: 36703621--36703692 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
36703611 AATAAATGAT
36703621 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
1 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
36703657 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
1 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
36703693 TCCTACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (36 bp):
AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
Found at i:36715339 original size:31 final size:31
Alignment explanation
Indices: 36715280--36715339 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
36715270 TTTTTTTTTT
* * * *
36715280 GTTAAATTTTACCATTAATATTTTAAAAAGA
1 GTTAAATTTGACAATTAACATTTCAAAAAGA
*
36715311 GTTAAATTTGACAATTAACCTTTCAAAAA
1 GTTAAATTTGACAATTAACATTTCAAAAA
36715340 TAATCAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (31 bp):
GTTAAATTTGACAATTAACATTTCAAAAAGA
Found at i:36715471 original size:7 final size:8
Alignment explanation
Indices: 36715452--36715501 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
36715442 AAAATTTATG
36715452 AATTTTTT
1 AATTTTTT
36715460 AATTTTTT
1 AATTTTTT
*
36715468 ATTTTTTT
1 AATTTTTT
*
36715476 GAATATTTT
1 -AATTTTTT
*
36715485 AATTTTTG
1 AATTTTTT
*
36715493 AATTATTT
1 AATTTTTT
36715501 A
1 A
36715502 TTGACATGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (8 bp):
AATTTTTT
Found at i:36718511 original size:15 final size:17
Alignment explanation
Indices: 36718491--36718528 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
36718481 ATAACTATGT
36718491 GCTTGAAAA-TGGA-AG
1 GCTTGAAAACTGGAGAG
36718506 GCTTGAAAACTGGAGAG
1 GCTTGAAAACTGGAGAG
36718523 G-TTGAA
1 GCTTGAA
36718529 TGGTTATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 9 0.43
17 3 0.14
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (17 bp):
GCTTGAAAACTGGAGAG
Found at i:36727435 original size:38 final size:38
Alignment explanation
Indices: 36727344--36727473 Score: 143
Period size: 38 Copynumber: 3.4 Consensus size: 38
36727334 CGAGGTATAA
* * * *
36727344 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
** * * *
36727383 AAACTTAGATATAATACCAGCACTAGGCCTGTGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
36727422 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
36727460 AACCCAAATATAAT
1 AACCCAGATATAAT
36727474 TCTAGCATAT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
38 44 0.60
39 3 0.04
40 26 0.36
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:36729201 original size:448 final size:448
Alignment explanation
Indices: 36728359--36729265 Score: 1679
Period size: 448 Copynumber: 2.0 Consensus size: 448
36728349 TTTTTGTCAA
36728359 TGTTTACCACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTT
1 TGTTTA-CACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTT
**
36728424 ATAACTGGAGCTACGAAACTCCAAATCAAGTGCTGTTAATTTTCTCTGAAAATAGACTCATATAT
65 ATAACTGGAGCTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATAT
*
36728489 CTTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTT
130 ATTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTT
36728554 TCCCTTGTTTCACTGTTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACA
195 TCCCTTGTTTCACTGTTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACA
36728619 GAATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATA
260 GAATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATA
36728684 AATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCT
325 AATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCT
36728749 AGAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
390 AGAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
*
36728808 TGTTTACACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAATAGTCACTAAATCATTTA
1 TGTTTACACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTTA
*
36728873 TAACTGGAGTTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATATA
66 TAACTGGAGCTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATATA
* * * *
36728938 TTTTATCCATAAAATTTTCATAATTTTTTGTTTGGTCAAACAATACCATATTTTTCTTAAAGTTT
131 TTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTTT
*
36729003 CCCTTGTTTCACTGTTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTATAG
196 CCCTTGTTTCACTGTTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACAG
*
36729068 AATTCAAAATATGTTCTTGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATAA
261 AATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATAA
* *
36729133 ATTTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAATACAGAATAGAGGATCTA
326 ATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCTA
*
36729198 GAAGTCATTCTGACCCTGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
391 GAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
36729256 TGTTTACACA
1 TGTTTACACA
36729266 GTTTATTTTA
Statistics
Matches: 444, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
448 438 0.99
449 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (448 bp):
TGTTTACACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTTA
TAACTGGAGCTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATATA
TTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTTT
CCCTTGTTTCACTGTTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACAG
AATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATAA
ATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCTA
GAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
Found at i:36732666 original size:43 final size:43
Alignment explanation
Indices: 36732612--36732736 Score: 214
Period size: 43 Copynumber: 2.9 Consensus size: 43
36732602 CACCGGCATT
* *
36732612 AAGCCTACTAGGCACGAAGACCCGAATACACATCACCGACACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
*
36732655 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
*
36732698 AAGCCTGCTAGGCACGAAGGCTCGAATACACATCACCGA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGA
36732737 GTTTCATGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.34, C:0.34, G:0.22, T:0.10
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
Found at i:36736400 original size:50 final size:50
Alignment explanation
Indices: 36736292--36736607 Score: 274
Period size: 50 Copynumber: 6.6 Consensus size: 50
36736282 GTATAATACT
* * * *
36736292 GATGCTATGTCCCAGACATGGTCTTATACTG-GT-TCATC-TATCAAGT--C
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCA-CATATC-TGTGCC
*
36736339 GATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
*
36736389 GATGCCATGTCCCATACATGGTCTTACACTGACTCTCACATATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
* * *
36736439 GATCCCATGTCCCAGACATGGTCTTACACT-A---ACACAT-TTTGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGT-GCC
* * * * ** *
36736485 AATG-CATGTCCCCGGACAT-GTCTTACACT-AGCTCT--CGTCTCAATACC
1 GATGCCATGT-CCCAGACATGGTCTTACACTGA-CTCTCACATATCTGTGCC
* * * *
36736532 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATA-ATGTG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
36736580 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
36736608 AGCACACAAT
Statistics
Matches: 220, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
45 20 0.09
46 28 0.13
47 55 0.25
48 31 0.14
49 9 0.04
50 77 0.35
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
Found at i:36736467 original size:100 final size:96
Alignment explanation
Indices: 36736292--36736610 Score: 291
Period size: 93 Copynumber: 3.3 Consensus size: 96
36736282 GTATAATACT
* * * *
36736292 GATGCTATGTCCCAGACATGGTCTTATACTGGTTCATC-TATCAAGT--CGATGCCATGTCCTAG
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTC-TCATATCAA-TACCGATGCCATGTCCCAG
36736354 ACATGGTCTTACACTGACTCTCACATATCTGTGCC
62 ACATGGTCTTACACTGACTCTCACATATCTGTGCC
* ** * *
36736389 GATGCCATGTCCCATACATGGTCTTACACT-GACTCTCACATATCTGTGCCGATCCCATGTCCCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCT--CATATCAATACCGATGCCATGTCCCA
* *
36736453 GACATGGTCTTACACT-A---ACACAT-TTTGTAGCC
61 GACATGGTCTTACACTGACTCTCACATATCTGT-GCC
* * * * *
36736485 AATGCATGTCCCCGGACATGTCTTACACTAGCTCTCGTCTCAATACCGATGCCATGTCCCAGATA
1 GATGCATGT-CCCAGACATGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTCCCAGACA
* * *
36736550 TGGTCTTACACTGGCTCTCATA-ATGTG-GCC
65 TGGTCTTACACTGACTCTCACATATCTGTGCC
36736580 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
36736611 ACACAATTAA
Statistics
Matches: 182, Mismatches: 25, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
93 35 0.19
94 21 0.12
95 34 0.19
96 21 0.12
97 34 0.19
98 3 0.02
99 5 0.03
100 29 0.16
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (96 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTCCCAGACAT
GGTCTTACACTGACTCTCACATATCTGTGCC
Found at i:36736558 original size:93 final size:93
Alignment explanation
Indices: 36736338--36736610 Score: 237
Period size: 95 Copynumber: 2.8 Consensus size: 93
36736328 TCTATCAAGT
* * * * *
36736338 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCTGT-GCCGATGCCATGTCCC
1 CGATCCCATGTCCCAGACATGGTCTTACACTGA---ACACATA-ATGTAGCCAATG-CATGTCCC
* * * ** *
36736402 ATACATGGTCTTACACT-GACTCTCACATATCTGTGC
61 AGACAT-GTCTTACACTAG-CTCT--CGTCTCAATAC
** *
36736438 CGATCCCATGTCCCAGACATGGTCTTACACT-AACACATTTTGTAGCCAATGCATGTCCCCGGAC
1 CGATCCCATGTCCCAGACATGGTCTTACACTGAACACATAATGTAGCCAATGCATGT-CCCAGAC
36736502 ATGTCTTACACTAGCTCTCGTCTCAATAC
65 ATGTCTTACACTAGCTCTCGTCTCAATAC
* * ** * * *
36736531 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATCCCATGTCCCAGACATGGTCTTACACT-GAACACATAATGTAGCCAATGCATGTCCCAGAC
36736596 ATGTCTTACACTAGC
65 ATGTCTTACACTAGC
36736611 ACACAATTAA
Statistics
Matches: 145, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
93 35 0.24
94 21 0.14
95 40 0.28
96 19 0.13
99 1 0.01
100 29 0.20
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (93 bp):
CGATCCCATGTCCCAGACATGGTCTTACACTGAACACATAATGTAGCCAATGCATGTCCCAGACA
TGTCTTACACTAGCTCTCGTCTCAATAC
Found at i:36742871 original size:46 final size:46
Alignment explanation
Indices: 36742804--36742896 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
36742794 GCTACAAACA
*
36742804 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTTAGATTTT
1 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
36742850 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
1 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
36742896 A
1 A
36742897 TTTGAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (46 bp):
AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
Found at i:36746722 original size:20 final size:20
Alignment explanation
Indices: 36746685--36746777 Score: 132
Period size: 20 Copynumber: 4.4 Consensus size: 20
36746675 ATATAATAAT
*
36746685 AATTATATTATGATTTTATTA
1 AATTATA-TATTATTTTATTA
36746706 AATTATATATTATTTTATTA
1 AATTATATATTATTTTATTA
36746726 AATTATATTTAATTGATTTTATTA
1 AATTATA--T-ATT-ATTTTATTA
36746750 AATTATATATTATTTTATTA
1 AATTATATATTATTTTATTA
36746770 AATTATAT
1 AATTATAT
36746778 TTAATAATAA
Statistics
Matches: 67, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
20 36 0.54
21 10 0.15
22 2 0.03
23 3 0.04
24 16 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTATATATTATTTTATTA
Found at i:36746747 original size:44 final size:44
Alignment explanation
Indices: 36746695--36746782 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
36746685 AATTATATTA
36746695 TGATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 TGATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
36746739 TGATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 TGATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
36746783 AATAATTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (44 bp):
TGATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
Found at i:36746855 original size:58 final size:57
Alignment explanation
Indices: 36746747--36746857 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 57
36746737 ATTGATTTTA
*
36746747 TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGG
1 TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGG
*
36746804 TTAAATTATTTATTATTTTTATTAAATTAT-TTTCAATAATAA-TATTATTAAAAT
1 TTAAATTATATATTA-TTTTATTAAATTATATTT-AATAATAATTA-TATTAAAAT
36746858 TTAATAACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
57 19 0.39
58 30 0.61
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGG
Found at i:36747046 original size:16 final size:16
Alignment explanation
Indices: 36747025--36747080 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
36747015 TGAATTACTG
*
36747025 ATTACATTTCTATTCC
1 ATTACAGTTCTATTCC
* *
36747041 ATTACAGGTCTATTCA
1 ATTACAGTTCTATTCC
* *
36747057 ATTACAGTCCTATTTC
1 ATTACAGTTCTATTCC
36747073 ATTACAGT
1 ATTACAGT
36747081 GAACCAAACG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:36755599 original size:11 final size:11
Alignment explanation
Indices: 36755579--36755624 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
36755569 TCGGCAATAG
*
36755579 AAGAAGAAGAA
1 AAGAAAAAGAA
*
36755590 AAGAGAAAGAA
1 AAGAAAAAGAA
*
36755601 GAGAAAAAGAAA
1 AAGAAAAAG-AA
36755613 AAGAAAAAGAA
1 AAGAAAAAGAA
36755624 A
1 A
36755625 GACGAGGAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:36755601 original size:17 final size:17
Alignment explanation
Indices: 36755579--36755624 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
36755569 TCGGCAATAG
*
36755579 AAGAAGAAGAAAAGAGA
1 AAGAAGAAGAAAAGAAA
36755596 AAGAAG-AGAAAAAGAAA
1 AAGAAGAAG-AAAAGAAA
*
36755613 AAGAAAAAGAAA
1 AAGAAGAAGAAA
36755625 GACGAGGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAAGAAA
Found at i:36755624 original size:6 final size:6
Alignment explanation
Indices: 36755579--36755624 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
36755569 TCGGCAATAG
* * *
36755579 AAGAAG AAG-AA AAGAGA AAG-AA GAGAAA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
36755625 GACGAGGAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
5 7 0.21
6 26 0.79
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:36755638 original size:27 final size:28
Alignment explanation
Indices: 36755579--36755645 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
36755569 TCGGCAATAG
36755579 AAGAAGAAGAAAAGAGAAAGAAGAGAAA
1 AAGAAGAAGAAAAGAGAAAGAAGAGAAA
* * * *
36755607 AAGAAAAAGAAAA-AGAAAGACGAGGAG
1 AAGAAGAAGAAAAGAGAAAGAAGAGAAA
*
36755634 GAGAAGAAGAAA
1 AAGAAGAAGAAA
36755646 CCCTCGAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (28 bp):
AAGAAGAAGAAAAGAGAAAGAAGAGAAA
Found at i:36760447 original size:34 final size:34
Alignment explanation
Indices: 36760387--36760452 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
36760377 AATTTGAGCG
*
36760387 AAATATAGGGATCAAAATTGATATTTAACCATAT
1 AAATATAGGGATCAAAATTGAAATTTAACCATAT
* * *
36760421 AAAT-TAGAGGATTAAATTTGAAATTTAGCCAT
1 AAATATAG-GGATCAAAATTGAAATTTAACCAT
36760453 TATATTGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (34 bp):
AAATATAGGGATCAAAATTGAAATTTAACCATAT
Found at i:36760694 original size:94 final size:96
Alignment explanation
Indices: 36760532--36760715 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 96
36760522 TGATTTGAGC
* * * * * *
36760532 GAAATATAGAGATTAAAACTAAAATTTAGCTATAAAAAATTAGAGGTATTAGAATTGAAATTTAG
1 GAAATATAGAGATCAAAACTAAAATTTAACCATAAAAAATTAAACGAATTAGAATTGAAATTTAG
* *
36760597 CCATTATCTTTTCATGT-AAAAAAATTGAAG
66 CCATTACCTTGTCATGTCAAAAAAATTGAAG
* * *
36760627 GAAATATAGGGATCAAAACTTAAATTTAACCAT-AAAAATTAAACGAATTAGAATTGAATTTTAG
1 GAAATATAGAGATCAAAACTAAAATTTAACCATAAAAAATTAAACGAATTAGAATTGAAATTTAG
36760691 CCATTACCTTGTCATGTCAAAAAAA
66 CCATTACCTTGTCATGTCAAAAAAA
36760716 ATAGACATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 42 0.55
95 35 0.45
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (96 bp):
GAAATATAGAGATCAAAACTAAAATTTAACCATAAAAAATTAAACGAATTAGAATTGAAATTTAG
CCATTACCTTGTCATGTCAAAAAAATTGAAG
Found at i:36761244 original size:17 final size:18
Alignment explanation
Indices: 36761222--36761259 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36761212 GTAAATGATC
*
36761222 AACCCAA-ACTCATTTTA
1 AACCCAATACACATTTTA
*
36761239 AACCCAATCCACATTTTA
1 AACCCAATACACATTTTA
36761257 AAC
1 AAC
36761260 AAACCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (18 bp):
AACCCAATACACATTTTA
Found at i:36771951 original size:36 final size:36
Alignment explanation
Indices: 36771904--36771972 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
36771894 AATAAATCAA
36771904 AACTTATGAAGATGAAGTTAGCAAGAAAAGAATGTG
1 AACTTATGAAGATGAAGTTAGCAAGAAAAGAATGTG
36771940 AACTTATGAAGATGAAGTTAGCAAGAAAAGAAT
1 AACTTATGAAGATGAAGTTAGCAAGAAAAGAAT
36771973 TCACATTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.22
Consensus pattern (36 bp):
AACTTATGAAGATGAAGTTAGCAAGAAAAGAATGTG
Found at i:36774393 original size:22 final size:21
Alignment explanation
Indices: 36774365--36774406 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
36774355 CAATCTCCTA
36774365 TTTTTATTTTCAAGAATTTAAT
1 TTTTTATTTTCAA-AATTTAAT
*
36774387 TTTTTATTTTTAAAATTTAA
1 TTTTTATTTTCAAAATTTAA
36774407 AAATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTATTTTCAAAATTTAAT
Found at i:36776181 original size:37 final size:37
Alignment explanation
Indices: 36776131--36776201 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
36776121 CACTTTGATG
36776131 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAACCGA
1 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAACCGA
36776168 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAAC
1 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAAC
36776202 TGAAAGTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (37 bp):
CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAACCGA
Found at i:36776975 original size:16 final size:17
Alignment explanation
Indices: 36776949--36776983 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
36776939 TATAATTGGG
*
36776949 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
36776966 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
36776982 TT
1 TT
36776984 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:36779614 original size:107 final size:104
Alignment explanation
Indices: 36779472--36779711 Score: 347
Period size: 107 Copynumber: 2.3 Consensus size: 104
36779462 CTATTGTCAA
* * *
36779472 TACTATATTAACTTTATTTAACTTATTTAACAGACACATACAAAAGATAACTTATATAATAAACC
1 TACTATATTGACTTTATTTAATTTATTTAACAGACACATACAAAAGACAACTTATATAATAAACC
* *
36779537 CGAACAA-GAACAAAAAATAATGGGGGACAAATGCTATGCCAG
66 C-AAAAACGAAC-AAAAA-AAGGGGGGA-AAATGCTATGCCAG
* * *
36779579 TACTGTATTGACTTTATTTAATTTGTTTAATAGACACATACAAAAGACAACTTATATAATAAACC
1 TACTATATTGACTTTATTTAATTTATTTAACAGACACATACAAAAGACAACTTATATAATAAACC
* *
36779644 CAAAAACTAACAAAAAAAGGGGGGAAAATGCTATGTCAG
66 CAAAAACGAACAAAAAAAGGGGGGAAAATGCTATGCCAG
36779683 TACTATATTGACTTTATTTAATTTATTTA
1 TACTATATTGACTTTATTTAATTTATTTA
36779712 CTTTTATATT
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
104 40 0.33
105 8 0.07
106 9 0.08
107 63 0.52
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (104 bp):
TACTATATTGACTTTATTTAATTTATTTAACAGACACATACAAAAGACAACTTATATAATAAACC
CAAAAACGAACAAAAAAAGGGGGGAAAATGCTATGCCAG
Found at i:36784148 original size:20 final size:18
Alignment explanation
Indices: 36784115--36784162 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
36784105 TAACTTTACA
*
36784115 TATAAAAAAATTAAATAAAG
1 TATAATAAAATT-AA-AAAG
* *
36784135 TATAATAAACTTAAAAAT
1 TATAATAAAATTAAAAAG
36784153 TATAATAAAA
1 TATAATAAAA
36784163 ACTCAAAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 12 0.50
19 2 0.08
20 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TATAATAAAATTAAAAAG
Found at i:36788865 original size:16 final size:16
Alignment explanation
Indices: 36788844--36788885 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
36788834 ATTGCGTTGA
*
36788844 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
36788860 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
36788875 --AAATTAATTAA
1 GAAAATTAATTAA
36788886 ATAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 11 0.44
16 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:36788880 original size:13 final size:13
Alignment explanation
Indices: 36788862--36788891 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36788852 TTTAATTGGA
*
36788862 AAATTAATTAATT
1 AAATTAATTAAAT
36788875 AAATTAATTAAAT
1 AAATTAATTAAAT
36788888 AAAT
1 AAAT
36788892 AATATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTAAAT
Found at i:36800007 original size:15 final size:16
Alignment explanation
Indices: 36799987--36800016 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36799977 ATGGCCAAAT
36799987 CACATTA-AAACATAG
1 CACATTACAAACATAG
36800002 CACATTACAAACATA
1 CACATTACAAACATA
36800017 CACCAAAACT
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:0.53, C:0.23, G:0.03, T:0.20
Consensus pattern (16 bp):
CACATTACAAACATAG
Found at i:36811920 original size:25 final size:26
Alignment explanation
Indices: 36811886--36811946 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 26
36811876 ACAAATCAGG
36811886 GTATCACAGAGATTTTCATAACAAT-
1 GTATCACAGAGATTTTCATAACAATC
36811911 GTATCACAGAGATTTTCATAACAATC
1 GTATCACAGAGATTTTCATAACAATC
*
36811937 GTATAACAGA
1 GTATCACAGA
36811947 ACAAAGGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (26 bp):
GTATCACAGAGATTTTCATAACAATC
Done.