Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 1 of 153
Found at i:11724 original size:131 final size:129
Alignment explanation
Indices: 11399--11867 Score: 340
Period size: 131 Copynumber: 3.6 Consensus size: 129
11389 GTGAAATTCC
* * * * ** * * * *
11399 GAAGGGATATTTGATTGTTTTGAGCAAATGAAAAAGCGCAACCTAGCACGATAGGGCTCGATT-C
1 GAAGTGATATTCGATTATTTTGAGCAAATGCAAAATTGCAACCCAACACGTTAGGGCACGATTCC
* * * * * ** *
11463 TCAAATTGCCAAACATCGAACGTCGCCTTCGTTTTGAAAA-ATTTTTAATAA-ACATGAGTGAAA
66 GCGAATTACCAAACACCAAATATCGCCTTCG-TTT-AAAAGA-TTTTAA-AAGACATGAG-GGAA
**
11526 ACCT
126 ATTT
* * * ** * * * *
11530 AAAG-GAATATTCGATTATTTTGAGTAAATG-AGTAATCACAACCTAGCACGATAGGGCATGATT
1 GAAGTG-ATATTCGATTATTTTGAGCAAATGCA-AAATTGCAACCCAACACGTTAGGGCACGATT
* * * * * *
11593 CC-CGAATTATCAAACACCGAGTATCGCCTTTGTTTTAAAAGATTTTTAGAAGACATGAGGGGAA
64 CCGCGAATTACCAAACACCAAATATCGCCTTCG-TTTAAAAGA-TTTTAAAAGACATGAGGGAAA
11657 TTT
127 TTT
* *
11660 CGAAGTGATATTCGATTATTTTGAGCAAATGCAAAATTGCGACCCAACACGTTAGAGCACGATTC
1 -GAAGTGATATTCGATTATTTTGAGCAAATGCAAAATTGCAACCCAACACGTTAGGGCACGATTC
* * * * * ** * *
11725 CTCGAATTGCCAAACATCAAATCTCGTCTTCGTTTAAGGGATTTTAAAAGATATGAGTGAAATTT
65 CGCGAATTACCAAACACCAAATATCGCCTTCGTTTAAAAGATTTTAAAAGACATGAGGGAAATTT
* * *
11790 GAAGTGATATTCGATTATTTCGAGC-AATCGCGAAATTGCAACCCAACACGTTAGGGCACTATTC
1 GAAGTGATATTCGATTATTTTGAGCAAAT-GCAAAATTGCAACCCAACACGTTAGGGCACGATTC
*
11854 CGCGAATTGCCAAA
65 CGCGAATTACCAAA
11868 TATCGAATCT
Statistics
Matches: 275, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
128 3 0.01
129 68 0.25
130 32 0.12
131 147 0.53
132 25 0.09
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (129 bp):
GAAGTGATATTCGATTATTTTGAGCAAATGCAAAATTGCAACCCAACACGTTAGGGCACGATTCC
GCGAATTACCAAACACCAAATATCGCCTTCGTTTAAAAGATTTTAAAAGACATGAGGGAAATTT
Found at i:11815 original size:129 final size:130
Alignment explanation
Indices: 11636--11883 Score: 365
Period size: 129 Copynumber: 1.9 Consensus size: 130
11626 TTTAAAAGAT
* * *
11636 TTTTAGAAGACATGAGGGGAATTTCGAAGTGATATTCGATTATTTTGAGCAAAT-GCAAAATTGC
1 TTTTAAAAGACATGAGGGAAATTTCGAAGTGATATTCGATTATTTCGAGC-AATCGCAAAATTGC
* *
11700 GACCCAACACGTTAGAGCACGATTCCTCGAATTGCCAAACATCAAATCTCGTCTTCGTTTAAGGG
65 AACCCAACACGTTAGAGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTTCGTTTAAGGG
11765 A
130 A
* * *
11766 TTTTAAAAGATATGAGTGAAATTT-GAAGTGATATTCGATTATTTCGAGCAATCGCGAAATTGCA
1 TTTTAAAAGACATGAGGGAAATTTCGAAGTGATATTCGATTATTTCGAGCAATCGCAAAATTGCA
* * * *
11830 ACCCAACACGTTAGGGCACTATTCCGCGAATTGCCAAATATCGAATCTCGTCTT
66 ACCCAACACGTTAGAGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTT
11884 AAACCAAATT
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
128 3 0.03
129 82 0.78
130 20 0.19
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (130 bp):
TTTTAAAAGACATGAGGGAAATTTCGAAGTGATATTCGATTATTTCGAGCAATCGCAAAATTGCA
ACCCAACACGTTAGAGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTTCGTTTAAGGGA
Found at i:16641 original size:30 final size:30
Alignment explanation
Indices: 16607--16664 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16597 CACGGCCATG
*
16607 ACACACGGGCGTGTG-GTCTACCCGTGTGTA
1 ACACACGGGCGTGTGAATC-ACCCGTGTGTA
*
16637 ACACACGGGTGTGTGAATCACCCGTGTG
1 ACACACGGGCGTGTGAATCACCCGTGTG
16665 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGAATCACCCGTGTGTA
Found at i:20032 original size:3 final size:3
Alignment explanation
Indices: 20024--20058 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
20014 AATGAGTCAA
20024 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
20059 ATGTAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:28423 original size:22 final size:23
Alignment explanation
Indices: 28375--28439 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
28365 ATTATATGAT
* * *
28375 AAATATAAATTTAATCATTATAA
1 AAATAAAAATATAATAATTATAA
28398 AAATAAAAATATAATAATT-TAA
1 AAATAAAAATATAATAATTATAA
* * *
28420 AAATTAATATATAGTAATTA
1 AAATAAAAATATAATAATTA
28440 AATAAATTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAAAATATAATAATTATAA
Found at i:31564 original size:18 final size:18
Alignment explanation
Indices: 31541--31578 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
31531 TATTATTTTT
31541 TAAAATTATAAAAAAATA
1 TAAAATTATAAAAAAATA
*
31559 TAAAATTATTAAAAAATA
1 TAAAATTATAAAAAAATA
31577 TA
1 TA
31579 TATGTCTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATTATAAAAAAATA
Found at i:51469 original size:12 final size:12
Alignment explanation
Indices: 51454--51479 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51444 TCTCAAAGGA
51454 TCTTCCTCATCC
1 TCTTCCTCATCC
51466 TCTTCCTCATCC
1 TCTTCCTCATCC
51478 TC
1 TC
51480 ATCCAAGTTT
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:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (12 bp):
TCTTCCTCATCC
Found at i:60511 original size:49 final size:47
Alignment explanation
Indices: 60430--60524 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 47
60420 AATCTATATG
** *
60430 AAAGAATAATCTGGGAAAAAAGTAATGGAATAACTAATTATAACAAT
1 AAAGAATAATCTGAAAAAAAAGTAATGAAATAACTAATTATAACAAT
60477 AAAGAATAATCTGTAAAAAGAAAGTAATGAAATAACTAATTATAACAA
1 AAAGAATAATCTG-AAAAA-AAAGTAATGAAATAACTAATTATAACAA
60525 CTACCATACA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 13 0.30
48 3 0.07
49 27 0.63
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (47 bp):
AAAGAATAATCTGAAAAAAAAGTAATGAAATAACTAATTATAACAAT
Found at i:61384 original size:3 final size:3
Alignment explanation
Indices: 61376--61406 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
61366 AAGAAGGGCA
61376 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
61407 AGAAGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:61411 original size:3 final size:3
Alignment explanation
Indices: 61405--61431 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
61395 TGATGATGAT
61405 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
61432 AGAGATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62901 original size:33 final size:34
Alignment explanation
Indices: 62864--62927 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
62854 GAAAATATTC
* *
62864 ATTTCATTTGAAGAA-AATTATAAATTTTATTTT
1 ATTTCATTTGAACAATAATTAAAAATTTTATTTT
62897 ATTTCATTTGAACAATAATTAAAAATTTTAT
1 ATTTCATTTGAACAATAATTAAAAATTTTAT
62928 CAGGATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (34 bp):
ATTTCATTTGAACAATAATTAAAAATTTTATTTT
Found at i:63376 original size:24 final size:24
Alignment explanation
Indices: 63323--63368 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
63313 TATTTCTAGA
* *
63323 ATATTTAGTATTTATTAATATAAT
1 ATATTTAGCATTTATTAACATAAT
*
63347 ATATTTAGCATTTATTAGCATA
1 ATATTTAGCATTTATTAACATA
63369 GTTTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATTAACATAAT
Found at i:66398 original size:45 final size:44
Alignment explanation
Indices: 66349--66468 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 44
66339 ATAGCACTCA
*
66349 GTGAAATCAGCACATAGCAACCACATTTAT-ACTCAATGGTA-CCGG
1 GTGAAATCAGCACATAGCAATCAC-TTTATAAC-CAATGGTATCC-G
* * *
66394 GTGAATTCAACACATAGCAATCACTTATATAACCATTGGTATCCG
1 GTGAAATCAGCACATAGCAATCACTT-TATAACCAATGGTATCCG
66439 GTGAAATCAGCACATAGCAATCACCTTTAT
1 GTGAAATCAGCACATAGCAATCA-CTTTAT
66469 TTTCATTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 2 0.03
45 56 0.86
46 7 0.11
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (44 bp):
GTGAAATCAGCACATAGCAATCACTTTATAACCAATGGTATCCG
Found at i:66640 original size:47 final size:49
Alignment explanation
Indices: 66566--66697 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 49
66556 TATCGGTGCT
*
66566 GATGTCATGTCCCAGACATGGTCTTACACTGGCACTCATCT-T-GAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTATCGAGCC
* * * * * *
66613 GATGCCATGTCCTAGACATGGTCTTACACTGACTCTCCTCTATCCGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTAT-CGAGCC
* *
66663 GATGCCATATCCCAAACATGGTCTTACACTGGCAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC
66698 ACTCATTGCC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 36 0.51
48 1 0.01
50 33 0.47
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTATCGAGCC
Found at i:77421 original size:16 final size:17
Alignment explanation
Indices: 77399--77439 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
77389 TTAAGTTGGG
77399 ATTTTTTTGAG-TATAA
1 ATTTTTTTGAGTTATAA
*
77415 TTTTTTTTGAGTTATAA
1 ATTTTTTTGAGTTATAA
77432 ATTTTTTT
1 ATTTTTTT
77440 AAGTCAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (17 bp):
ATTTTTTTGAGTTATAA
Found at i:77422 original size:17 final size:18
Alignment explanation
Indices: 77400--77439 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
77390 TAAGTTGGGA
77400 TTTTTTTGAG-TAT-AAT
1 TTTTTTTGAGTTATAAAT
77416 TTTTTTTGAGTTATAAAT
1 TTTTTTTGAGTTATAAAT
77434 TTTTTT
1 TTTTTT
77440 AAGTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (18 bp):
TTTTTTTGAGTTATAAAT
Found at i:81527 original size:19 final size:19
Alignment explanation
Indices: 81503--81548 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
81493 CTCTTTTTCT
81503 TTTGCATTC-ATTCCATGCA
1 TTTGCATTCTATTCCAT-CA
*
81522 TTTGCATTCTATTGCATCA
1 TTTGCATTCTATTCCATCA
*
81541 TATGCATT
1 TTTGCATT
81549 AGAGTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGCATTCTATTCCATCA
Found at i:84116 original size:6 final size:6
Alignment explanation
Indices: 84105--84172 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
84095 AATAGAGAAA
* **
84105 AAAATC AAAATC AAAATC AAAATC AAAAT- AAAAAC AAAAAG AGAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC A-AAATC
*
84153 --AATC AAAGTC AAAAT- AAAAT
1 AAAATC AAAATC AAAATC AAAAT
84173 ATGAAAAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.08
5 9 0.17
6 36 0.69
7 3 0.06
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:84185 original size:40 final size:39
Alignment explanation
Indices: 84113--84190 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
84103 AAAAAATCAA
84113 AATCAAAATCAAAATCAAAATAAAAACAAAAAGAGAAATC
1 AATCAAAATCAAAATCAAAATAAAAACAAAAAGA-AAATC
* *
84153 AATCAAAGTCAAAAT-AAAATATGAAAA-GAAAAGAAAAT
1 AATCAAAATCAAAATCAAAATA--AAAACAAAAAGAAAAT
84191 GAGAGGCCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 10 0.29
40 20 0.59
41 4 0.12
ACGTcount: A:0.69, C:0.09, G:0.08, T:0.14
Consensus pattern (39 bp):
AATCAAAATCAAAATCAAAATAAAAACAAAAAGAAAATC
Found at i:84583 original size:14 final size:14
Alignment explanation
Indices: 84528--84572 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
84518 TCAAAAAAGA
*
84528 AAAAGATGAAGAATG
1 AAAA-ATGAAAAATG
*
84543 -AAAATGGAAAATG
1 AAAAATGAAAAATG
84556 AAAAATGAAAAATG
1 AAAAATGAAAAATG
84570 AAA
1 AAA
84573 GAGTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:85921 original size:44 final size:44
Alignment explanation
Indices: 85871--86008 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 44
85861 AAAAGAAAAC
85871 CTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGAT
1 CTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGAT
* ** * * * *
85915 CTTGCCTTCC-T-GCGTTAACAACGAAGC-AGATCGAA-A-A-CAAAAC
1 CTTGCC-TCCATCG-GTT-GCAGTGGAGCTAG-TCAAAGATAGC-AGAT
85958 CTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGAT
1 CTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGAT
86002 CTTGCCT
1 CTTGCCT
86009 TCCTGCGTTA
Statistics
Matches: 69, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
42 14 0.20
43 17 0.25
44 24 0.35
45 14 0.20
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGAT
Found at i:85925 original size:87 final size:87
Alignment explanation
Indices: 85773--86605 Score: 1211
Period size: 87 Copynumber: 9.6 Consensus size: 87
85763 AGTAAAAATT
* * *
85773 GAAAGCAAAACCTTGCCTCCATCGGTTGCAGTGGGGCTGGATAAAGATAGCAGATCTTGCCTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
* *
85838 TACATTAACAACGAAGTAGATC
66 TGCATTAACAACGAAGCAGATC
* * *
85860 GAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
*
85925 TGCGTTAACAACGAAGCAGATC
66 TGCATTAACAACGAAGCAGATC
* *
85947 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
*
86012 TGCGTTAACAACGAAGCAGATC
66 TGCATTAACAACGAAGCAGATC
* * **
86034 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTAGAGCTGGATAAAGATAGCAGATCTTGTTTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
*
86099 TGCGTTAACAACGAAGCAGATC
66 TGCATTAACAACGAAGCAGATC
* * * *
86121 GAAAACAAAACCTTGCCTCTC-TCGGTTGTAGCGGAGCTGGTTAAAGACAACAGATCTTGCCTTC
1 GAAAACAAAACCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTC
*
86185 CTGCATTAACAGCGAAGCAGATC
65 CTGCATTAACAACGAAGCAGATC
** * * * * *
86208 GATGACACAAACCTTGCCTCTC-TCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 GAAAACA-AAACCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTT
*
86272 CCTGCATTAACAGCGAAGCAGATC
64 CCTGCATTAACAACGAAGCAGATC
* *
86296 AAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGATAAAGATAGCAGATCTTGCCTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
86361 TGCATTAACAACGAAGCAGATC
66 TGCATTAACAACGAAGCAGATC
* * * *
86383 GAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAACATATCTTGCCTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
*
86448 TGCATTAACAGCGAAGCAGATC
66 TGCATTAACAACGAAGCAGATC
* * * *
86470 AAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACAACATATCTTGCCTTCC
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
* * *
86535 TGCATTAACAGCGAAGCTGGTC
66 TGCATTAACAACGAAGCAGATC
* *
86557 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTGAAGATA
1 GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATA
86606 CAAGTCTTAT
Statistics
Matches: 689, Mismatches: 54, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
86 1 0.00
87 604 0.88
88 84 0.12
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (87 bp):
GAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
TGCATTAACAACGAAGCAGATC
Found at i:85964 original size:43 final size:43
Alignment explanation
Indices: 85915--86051 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
85905 GATAGCAGAT
85915 CTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAAC
1 CTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAAC
* ** * * * *
85958 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTAG-TC-AAAGATAGCAGAT
1 CTTGCCTTCC-TGC-GTTAACAACGAAGC-AGATCGAAA-ACA--AAAC
86002 CTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAAC
1 CTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAAC
86045 CTTGCCT
1 CTTGCCT
86052 CCATCGGTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
41 3 0.04
42 14 0.20
43 21 0.30
44 14 0.20
45 14 0.20
46 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAAC
Found at i:86224 original size:44 final size:44
Alignment explanation
Indices: 86176--86574 Score: 121
Period size: 45 Copynumber: 9.2 Consensus size: 44
86166 GACAACAGAT
*
86176 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGATGACACAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
* ** * * * * * *
86220 CTTGCC-TCTCT-CGGTT-GTAGCGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTGC-ATTAACAGCGAAGCAGATCGAAGAC-ACAAAC
* *
86264 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * * * *
86307 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGAT-AAAGATAGCAGAT
1 CTTGCCTTCC-TGC-ATTAACAGCGAAGC-AGATCGAAGACA-CAAAC
* * *
86351 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAAGA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * ** * *
86394 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGACAACATAT
1 CTTGCCTTCC-TGC-ATTAACAGCGAAGCAGATCGAAGAC-ACAAAC
* *
86438 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * ** * *
86481 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGACAACATAT
1 CTTGCCTTCC-TGC-ATTAACAGCGAAGCAGATCGAAGAC-ACAAAC
* * *
86525 CTTGCCTTCCTGCATTAACAGCGAAGCTGGTCGAAAACA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
86568 CTTGCCT
1 CTTGCCT
86575 CCATCGGTTG
Statistics
Matches: 243, Mismatches: 83, Indels: 59
0.63 0.22 0.15
Matches are distributed among these distances:
42 49 0.20
43 64 0.26
44 63 0.26
45 67 0.28
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
Found at i:86691 original size:44 final size:45
Alignment explanation
Indices: 86584--86692 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 45
86574 TCCATCGGTT
**
86584 GCAGTGGAGCAGGTTGAAGA-TACAAGTCTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGGTTGAAGATTACAAGTCTTATCTCCCTGAAGCA
** *
86628 GCAGTGGAATAGATTGAAGATTAC-AGATCTTATCTCCCT-AAGCA
1 GCAGTGGAGCAGGTTGAAGATTACAAG-TCTTATCTCCCTGAAGCA
* *
86672 GTAGTGGAGCAGGTCGAAGAT
1 GCAGTGGAGCAGGTTGAAGAT
86693 GGCGGATTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 38 0.72
45 15 0.28
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
GCAGTGGAGCAGGTTGAAGATTACAAGTCTTATCTCCCTGAAGCA
Found at i:88835 original size:27 final size:27
Alignment explanation
Indices: 88797--88852 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
88787 AAAGAAAGTT
*
88797 TTTCTAAATAAATGCAATATTCGATAC
1 TTTCTAAATAAAGGCAATATTCGATAC
88824 TTTCTAAATAAAGGCAATATTCGATAC
1 TTTCTAAATAAAGGCAATATTCGATAC
88851 TT
1 TT
88853 GGAATCTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (27 bp):
TTTCTAAATAAAGGCAATATTCGATAC
Found at i:94103 original size:26 final size:25
Alignment explanation
Indices: 94048--94109 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
94038 TGAGTAATTC
*
94048 AATTAATTAAATAAATTCTACAATA
1 AATTAATTAAATAAATTCTACAAAA
94073 AATTAATGTAAATAAAATT-TA-AAAA
1 AATTAAT-TAAAT-AAATTCTACAAAA
94098 AGATTAAATTAA
1 A-ATT-AATTAA
94110 TCTTTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 11 0.34
26 13 0.41
27 8 0.25
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (25 bp):
AATTAATTAAATAAATTCTACAAAA
Found at i:108353 original size:31 final size:31
Alignment explanation
Indices: 108315--108376 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
108305 TGGAGAAATA
108315 AAGTTAGTCCCATCATCAAGGAATATCATCT
1 AAGTTAGTCCCATCATCAAGGAATATCATCT
108346 AAGTTAGTCCCATCATCAAGGAATATCATCT
1 AAGTTAGTCCCATCATCAAGGAATATCATCT
108377 TCAATCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (31 bp):
AAGTTAGTCCCATCATCAAGGAATATCATCT
Found at i:117902 original size:12 final size:11
Alignment explanation
Indices: 117880--117933 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
117870 GGTCACTCTC
117880 TCAACAAAAAAT
1 TCAA-AAAAAAT
117892 TACAAAAAAAAT
1 T-CAAAAAAAAT
117904 TC---AAAAAT
1 TCAAAAAAAAT
*
117912 TCTAAAAAAAT
1 TCAAAAAAAAT
*
117923 TCTAAAAAAAT
1 TCAAAAAAAAT
117934 ATAAAGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.21
11 18 0.47
12 9 0.24
13 3 0.08
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:117918 original size:19 final size:21
Alignment explanation
Indices: 117886--117930 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
117876 TCTCTCAACA
117886 AAAAATTACAAAAAAAATTC-
1 AAAAATTACAAAAAAAATTCT
*
117906 AAAAATT-CTAAAAAAATTCT
1 AAAAATTACAAAAAAAATTCT
117926 AAAAA
1 AAAAA
117931 AATATAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATTACAAAAAAAATTCT
Found at i:121265 original size:18 final size:18
Alignment explanation
Indices: 121242--121292 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
121232 TATATTTATT
121242 ATATATTATAAAAAATAA
1 ATATATTATAAAAAATAA
* *
121260 ATATATTTTAAATAATTAA
1 ATATATTATAAA-AAATAA
* *
121279 AAATAATATAAAAA
1 ATATATTATAAAAA
121293 TCAAAAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATATTATAAAAAATAA
Found at i:121266 original size:25 final size:24
Alignment explanation
Indices: 121238--121288 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
121228 ATAATATATT
* *
121238 TATTATATATTATAAAAAATAAATA
1 TATTATAAATAATAAAAAAT-AATA
* *
121263 TATTTTAAATAATTAAAAATAATA
1 TATTATAAATAATAAAAAATAATA
121287 TA
1 TA
121289 AAAATCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TATTATAAATAATAAAAAATAATA
Found at i:126527 original size:2 final size:2
Alignment explanation
Indices: 126520--126544 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
126510 TTCTTTCCCT
126520 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
126545 ATGTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:132530 original size:4 final size:4
Alignment explanation
Indices: 132521--132554 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
132511 AAGTTTTATT
132521 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
132555 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:132562 original size:22 final size:22
Alignment explanation
Indices: 132504--132563 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
132494 AAGTGGCCCA
*
132504 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
132528 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
132549 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
132564 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:141168 original size:16 final size:17
Alignment explanation
Indices: 141136--141175 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
141126 CTTGTTGTAA
141136 TGGGC-TTGTTTGGATT
1 TGGGCTTTGTTTGGATT
*
141152 TGGGCTTTGTTT-TATT
1 TGGGCTTTGTTTGGATT
141168 TGGG-TTTG
1 TGGGCTTTG
141176 GCATTTGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.05, C:0.05, G:0.35, T:0.55
Consensus pattern (17 bp):
TGGGCTTTGTTTGGATT
Found at i:141797 original size:44 final size:44
Alignment explanation
Indices: 141737--141978 Score: 147
Period size: 44 Copynumber: 5.5 Consensus size: 44
141727 ATCTACTCTA
* * * *
141737 TGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCCTTGATTTTAATCCGCTCCAC
** * * *
141781 TGTAATCTCAGGGAGATAAGAT-CTAAAATTCTTCAGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCCT-TGATT-TT-AATCCGCTCCAC
* * *** ** *
141827 TGTAATCTCAAGGAAATAAGA-CC-TGA-TGCGATCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCCTTGATTTTAATCCGCTCCAC
* *
141868 TGTAA-CTTCAGAGAGATAAGATCCTTGGTTTTAATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGATCCTTGATTTTAATCCGCTCCAC
* * * * ** *
141912 TGTAATCTCAGGGAGATAGGATTACC-AG-CTTCAATCTACTCCGC
1 TGTAATCTCAGGGAGATAAGA-T-CCTTGATTTTAATCCGCTCCAC
141956 TGTAATCTCAGGGAGATAAGATC
1 TGTAATCTCAGGGAGATAAGATC
141979 TGAAATTCTT
Statistics
Matches: 151, Mismatches: 36, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.01
41 23 0.15
42 3 0.02
43 6 0.04
44 81 0.54
45 5 0.03
46 32 0.21
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
TGTAATCTCAGGGAGATAAGATCCTTGATTTTAATCCGCTCCAC
Found at i:151135 original size:23 final size:23
Alignment explanation
Indices: 151105--151150 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
151095 AACTAGTAGA
*
151105 CTCTTTCCCAAGGCGACTTCTCG
1 CTCTTTCCCAAGGCAACTTCTCG
151128 CTCTTTCCCAAGGCAACTTCTCG
1 CTCTTTCCCAAGGCAACTTCTCG
151151 AGCCCGAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.39, G:0.15, T:0.30
Consensus pattern (23 bp):
CTCTTTCCCAAGGCAACTTCTCG
Found at i:158715 original size:14 final size:14
Alignment explanation
Indices: 158674--158719 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
158664 ATGCAAAATT
158674 AAGAGAAAAA-GAAG
1 AAGA-AAAAAGGAAG
* *
158688 AA-AGAAAAGAAAG
1 AAGAAAAAAGGAAG
158701 AAGAAAAAAGGAAG
1 AAGAAAAAAGGAAG
158715 AAGAA
1 AAGAA
158720 CACACGGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 16 0.62
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGGAAG
Found at i:161013 original size:40 final size:41
Alignment explanation
Indices: 160962--161278 Score: 421
Period size: 40 Copynumber: 7.8 Consensus size: 41
160952 ATTTGAATTT
* * *
160962 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
*
161002 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
* *
161042 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT-TA
*
161084 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
* *
161124 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG--AT-TA
*
161168 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
*
161208 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGATTA
** *
161248 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
161279 TTGTGGTAAT
Statistics
Matches: 249, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.01
40 165 0.66
41 6 0.02
42 39 0.16
44 36 0.14
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
Found at i:161107 original size:82 final size:82
Alignment explanation
Indices: 160962--161278 Score: 471
Period size: 84 Copynumber: 3.9 Consensus size: 82
160952 ATTTGAATTT
* * * *
160962 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGAT-TTTATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
* *
161025 ATTTGTGCGAGTTGATA
66 AATTGTGCAAGTTGATA
*
161042 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
161107 AATTGTGCAAGTTGATA
66 AATTGTGCAAGTTGATA
*
161124 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATATCCGGGCTAAGACCCGAAG
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATATATATCCGGGCTAAGACCCGAAG
161189 GCAATTGTGCAAGTTGATA
64 GCAATTGTGCAAGTTGATA
* * ** *
161208 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG--CTATGCCCGGGTTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
161271 AATTGTGC
66 AATTGTGC
161279 TTGTGGTAAT
Statistics
Matches: 220, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
80 60 0.27
81 4 0.02
82 76 0.35
84 80 0.36
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (82 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
AATTGTGCAAGTTGATA
Found at i:162798 original size:267 final size:267
Alignment explanation
Indices: 162323--162855 Score: 1039
Period size: 267 Copynumber: 2.0 Consensus size: 267
162313 CCCTGTACAG
* *
162323 GGAGATATCTAAGTCGTAATGCGCAAAGGTTAGGGTAGTCGATCCCTGTAACATGGGAGACTTTG
1 GGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCTGTAACATGGGAGACTTTG
*
162388 ACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATATGTAGATGGGGATATG
66 ACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGGGGATATG
162453 AGTCTAGTTTCAGGGAAAAATCACGAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTT
131 AGTCTAGTTTCAGGGAAAAATCACGAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTT
162518 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATAAGGGGTTTAAAGTCTGT
196 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATAAGGGGTTTAAAGTCTGT
162583 TAACACA
261 TAACACA
162590 GGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCTGTAACATGGGAGACTTTG
1 GGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCTGTAACATGGGAGACTTTG
162655 ACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGGGGATATG
66 ACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGGGGATATG
162720 AGTCTAGTTTCAGGGAAAAATCACGAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTT
131 AGTCTAGTTTCAGGGAAAAATCACGAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTT
162785 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATAAGGGGTTTAAAGTCTGT
196 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATAAGGGGTTTAAAGTCTGT
162850 TAACAC
261 TAACAC
162856 CTCGTGTTCG
Statistics
Matches: 263, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
267 263 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (267 bp):
GGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCCCTGTAACATGGGAGACTTTG
ACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGGGGATATG
AGTCTAGTTTCAGGGAAAAATCACGAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTT
AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATAAGGGGTTTAAAGTCTGT
TAACACA
Found at i:165572 original size:19 final size:20
Alignment explanation
Indices: 165534--165573 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
165524 TTATATGTAA
*
165534 TATATATGTATATTTTATTTT
1 TATATATGTATA-TTAATTTT
165555 TATATATGTATA-TAATTTT
1 TATATATGTATATTAATTTT
165574 AAGCCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TATATATGTATATTAATTTT
Found at i:166019 original size:12 final size:11
Alignment explanation
Indices: 165990--166032 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
165980 GCAAATCTAC
165990 ATATATATTGT
1 ATATATATTGT
*
166001 ATTTATATATGT
1 ATATATAT-TGT
166013 ATATATACTTGT
1 ATATATA-TTGT
*
166025 AAATATAT
1 ATATATAT
166033 AATTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.30
12 18 0.67
13 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (11 bp):
ATATATATTGT
Found at i:167281 original size:16 final size:16
Alignment explanation
Indices: 167260--167293 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
167250 TGTGTTTCAC
167260 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
167276 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
167292 TT
1 TT
167294 CATTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGGCAT
Found at i:167761 original size:19 final size:18
Alignment explanation
Indices: 167737--167782 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
167727 ACGTCTTTTT
*
167737 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
167756 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
167775 TATGCATT
1 TTTGCATT
167783 AGACACCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:172001 original size:44 final size:44
Alignment explanation
Indices: 171887--173370 Score: 1152
Period size: 44 Copynumber: 33.4 Consensus size: 44
171877 CATACTGGTG
** * * *
171887 GTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTACTGGC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *
171931 AGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGGC
1 -GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* *** * **
171976 GTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTCGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * * *
172021 GAGAAGTAGATCAAAGATAATGGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * * * *
172065 ATGAAGTAGATCAAAGATAGTAGAACTTTTCTTCCCATACTAGTG--
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTT--CAT-GTATTGAC
* *** * **
172110 GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * *
172155 GTGAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *** * **
172199 ATGAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * *
172244 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *
172288 ATGAAATAGATC-AGAGATAGTGGATCTTGTCTTTATGTATTGAC
1 GTGAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGAC
* * * * * **
172332 ATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* *
172377 GTG-AGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * *
172420 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * *
172464 ATGAAGTAGATC-ATAGATAGTGGGTCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGAC
* * *** * **
172508 ATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* *
172553 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * * *
172597 ATGAAGTAGATC-AGAGATAGTGGATCGTGTCTTTATGTATTAAC
1 GTGAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *** * **
172641 CTGAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * *
172686 GTGAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *** * **
172730 ATGAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * *
172775 GTGAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *** * **
172819 ATGAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * *
172864 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *
172908 ATGAAATAGATC-AGAGATAGTGGATCTTGTCTTTATGTATTGAC
1 GTGAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGAC
* * * * * **
172952 ATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* *
172997 GTG-AGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * *
173040 ATGAAGTAGATC-ATAGATAGTGGGTCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGAC
* * *** * **
173084 ATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* *
173129 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * *** * **
173173 ATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTA-TTGAC
* * * *
173218 GTGAAGAAGATCTAAGATAATTGATCTTGTCTTCATGTATTGAC
1 GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* * * * * *
173262 ATGAAATAGATC-AGAGATAGCAGATCTTGTCTTCCTGTACTGGC
1 GTGAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGAC
* * ** * *
173306 AGTAAAGTAGATCAAAGATAACAGATCTTGTTTTCCTGTATTGAC
1 -GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
* *
173351 AGCGAAGAAGATCGAAGATA
1 -GTGAAGTAGATCGAAGATA
173371 CAAGTCTTAT
Statistics
Matches: 1123, Mismatches: 285, Indels: 62
0.76 0.19 0.04
Matches are distributed among these distances:
42 2 0.00
43 16 0.01
44 670 0.60
45 427 0.38
46 4 0.00
47 4 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
GTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGAC
Found at i:172009 original size:89 final size:88
Alignment explanation
Indices: 171844--173370 Score: 1307
Period size: 89 Copynumber: 17.2 Consensus size: 88
171834 TATTGGTAGC
* * ** * *
171844 GAAGTGGATC-AACGATAGTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAAC
1 GAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAAT
* * * *
171908 AGATCTTGTCTTCCTGTACTGGCAGT
64 GGATCTTGTCTTCATGTATTGACA-T
* * * * *
171934 GAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATGG
* ** *
171999 ATCTTGTCTTCCCATACTCGTG-GA-
66 ATCTTGTCTT--CAT-GTATTGACAT
* *** * * * * * * *
172023 GAAGTAGATCAAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGTAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATGG
* * * * *
172088 AACTTTTCTTCCCATACTAGTG--GT
66 ATCTTGTCTT--CAT-GTATTGACAT
** *
172112 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
*
172177 GATCTTATCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** *
172201 GAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
*
172266 GATCTTGTCTTCTTGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** ** * * * ***
172290 GAAATAGATC-AGAGATAGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATG
* * * ***
172354 GATCTTGTCTTCTTATACTGGTGGT
65 GATCTTGTCTTCATGTA-TTGACAT
*** * * * *
172379 G-AGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATGG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATGG
172443 ATCTTGTCTTCATGTATTGACAT
66 ATCTTGTCTTCATGTATTGACAT
** * * * * * ***
172466 GAAGTAGATC-ATAGATAGTGGGTCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATG
*** * ***
172530 GATCTTGTCTTCCCATACTGGTGGT
65 GATCTTGTCTTCATGTA-TTGACAT
*** * * * * *
172555 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGTG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGA-AGATAATG
* * * *
172619 GATCGTGTCTTTATGTATTAACCT
65 GATCTTGTCTTCATGTATTGACAT
* ** *
172643 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
*
172708 GATCTTATCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** *
172732 GAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
*
172797 GATCTTATCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** *
172821 GAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
*
172886 GATCTTGTCTTCTTGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** ** * * * ***
172910 GAAATAGATC-AGAGATAGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATG
* * * ***
172974 GATCTTGTCTTCTTATACTGGTGGT
65 GATCTTGTCTTCATGTA-TTGACAT
*** * * * * *
172999 G-AGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-ATAGATAGTG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGA-AGATAATG
*
173062 GGTCTTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
** *
173086 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
173151 GATCTTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** * * * *
173175 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGAAGATCTAAGATAATT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAATG
173240 GATCTTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* * * *
173264 GAAATAGATC-AGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTAAAGTAGATCAAAGATAAC
1 GAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCTGTACTGGC-GTGAAGTAGATCGAAGATAAT
* * * *
173328 AGATCTTGTTTTCCTGTATTGACAGC
64 GGATCTTGTCTTCATGTATTGACA-T
*
173354 GAAGAAGATCGAAGATA
1 GAAGTAGATCGAAGATA
173371 CAAGTCTTAT
Statistics
Matches: 1219, Mismatches: 189, Indels: 58
0.83 0.13 0.04
Matches are distributed among these distances:
87 14 0.01
88 345 0.28
89 777 0.64
90 74 0.06
91 6 0.00
92 3 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAATGG
ATCTTGTCTTCATGTATTGACAT
Found at i:172352 original size:133 final size:134
Alignment explanation
Indices: 171824--173341 Score: 1172
Period size: 133 Copynumber: 11.4 Consensus size: 134
171814 CAACATATCC
* * * * * * * * *
171824 TGTCTTCCTATATTGGTAGCGAAGTGGATC-AACGATAGTAGATCTTGTCTTCCCATACTGGTGG
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAA-GATAATAGATCTTGTCTTCCCATACTTGAGA
** * * * * *
171888 TGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAATATAGC
65 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCGAAGATAGC
171953 AGATCT
129 AGATCT
* * *
171959 TGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTCGTG-G
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACT--TGAG
* * *
172022 A-GAAGTAGATCAAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGT
64 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGC
*
172086 AGAACT
129 AGATCT
* ** * ** * * *
172092 TTTCTTCCCATACTAGTGGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
*
172157 GAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAG
66 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAG
*
172222 ACCT
131 ATCT
** * *** *
172226 TGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTA-TTGACAT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
* * *
172290 GAAATAGATC-AGAGATAGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATCGAAGATAGCA
66 GAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCA
172354 GATCT
130 GATCT
* * *** *
172359 TGTCTTCTTATACTGGTGGTG-AGTAGATCGAAGATAATGGATCTTGTCTTCATGTA-TTGACAT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
**
172422 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-ATAGATAGTG
66 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGCA
*
172486 GGTCT
130 GATCT
* * *** ** * * *
172491 TGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
**
172555 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGTG
66 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGCA
*
172619 GATCG
130 GATCT
* * ***** * ** * * *
172624 TGTCTTTATGTA-TTAACCTGAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
*
172688 GAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAG
66 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAG
*
172753 ACCT
131 ATCT
** * * *** *
172757 TGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTATCTTCATGTA-TTGACAT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
*** * *** * *** ***
172821 GAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
66 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGCA
172886 GATCT
130 GATCT
* * * *** * * * **** *
172891 TGTCTTCTTGTA-TTGACATGAAATAGATC-AGAGATAGTGGATCTTGTCTTTATGTA-TTGACA
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGA-AGATAATAGATCTTGTCTTCCCATACTTGAGA
*** * * * *** **
172953 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATACTGGTGGTG-AGTAGATCGAAGATAAT
65 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGC
*
173017 GGATCT
129 AGATCT
* * *** * * * *** *
173023 TGTCTTCATGTA-TTGACATGAAGTAGATC-ATAGATAGTGGGTCTTGTCTTCATGTA-TTGACA
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGA-AGATAATAGATCTTGTCTTCCCATACTTGAGA
*** *** * *** **
173085 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAAT
65 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGC
*
173150 GGATCT
129 AGATCT
* * *** * ** * * *
173156 TGTCTTCATGTA-TTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
* * * *
173220 GAAGAAGATCTAAGATAATTGATCTTGTCTTCATGTATTGACATGAAATAGATC-AGAGATAGCA
66 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGCA
173284 GATCT
130 GATCT
* * ** * * * *
173289 TGTCTTCCTGTACTGGCAGTAAAGTAGATCAAAGATAACAGATCTTGTTTTCC
1 TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCC
173342 TGTATTGACA
Statistics
Matches: 1184, Mismatches: 179, Indels: 41
0.84 0.13 0.03
Matches are distributed among these distances:
131 5 0.00
132 268 0.23
133 538 0.45
134 355 0.30
135 17 0.01
136 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (134 bp):
TGTCTTCATATACTGGTGGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTTGAGAT
GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAG
ATCT
Found at i:173025 original size:576 final size:576
Alignment explanation
Indices: 171911--173206 Score: 1552
Period size: 576 Copynumber: 2.2 Consensus size: 576
171901 AGATAACAGA
* * * * * *** *
171911 TCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGG-
1 TCTTGTCTTCATGTATTGACA-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
* * * ** *
171975 CGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTCGTG-GA-GAAGTAGATCAAAGA
65 GGTGAAGTAGATCGAAGATAATGGATCTTGTCTT--CAT-GTATTGACATGAAGTAGATCAAAGA
* * * * *
172038 TAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGTAGAACTTTTCTTCCCAT
127 TAGTGGATCGTGTCTTCATGTATTAACATGAAGTAGATCAAAGATAGCAGAACTTGTCTTCCCAT
* * * ***
172103 ACTAGTGGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
192 ACTAGTGGTGAAGTAGATCGAAGATAACAGATCTTATCTTCACATACTGGACATGAAGTAGATCG
** * ** * * *
172168 AAGATAATGGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGACCTTGTCTTC
257 AAGATAACAGACCTTATCTTCACATATGGACATGAAGTAGATCGAAGATAACAGACCTTATCTTC
* *** ** * *** *
172233 CCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTATTGACATGAAATAGA
322 ACATACTGGACATGAAGTAGATCGAAGATAACAGACCTTGTCTTCCCATATGGACATGAAATAGA
* *
172298 TCAGAGATAGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTC
387 TCAGAGATAATGGATCTTGTCTTTATGTATTGACATGAAATAGATCGAAGATAGCAGATCTTGTC
*** ** * *
172363 TTCTTATACTGGTGGTGAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTA
452 TTCTTATACTGGACATGAGTAGATCGAAGATAACAGATCTTGTCTTCATATATGGACATGAAGTA
172428 GATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCATAGATAGTGGG
517 GATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCATAGATAGTGGG
172488 TCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
*
172553 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGT
66 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGT
* * * * * *
172618 GGATCGTGTCTTTATGTATTAACCTGAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCCATACTG
131 GGATCGTGTCTTCATGTATTAACATGAAGTAGATCAAAGATAGCAGAACTTGTCTTCCCATACTA
** ** *
172683 GTGGTGAAGTAGATCGAAGATAATGGATCTTATCTTCATGTA-TTGACATGAAGTAGATCGAAGA
196 GTGGTGAAGTAGATCGAAGATAACAGATCTTATCTTCACATACTGGACATGAAGTAGATCGAAGA
* * * *** ** * **
172747 TAGCAGACCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTATCTTCATG
261 TAACAGACCTTATCTTCACATA-TGGACATGAAGTAGATCGAAGATAACAGACCTTATCTTCACA
* * *** *
172812 TA-TTGACATGAAGTAGATCGAAGATAGCAGACCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
325 TACTGGACATGAAGTAGATCGAAGATAACAGACCTTGTCTTCCCATA-TGGACATGAAATAGATC
**
172876 -GAAGATAATGGATCTTGTCTTCT-TGTATTGACATGAAATAGATC-AGAGATAGTGGATCTTGT
389 AG-AGATAATGGATCTTGTCTT-TATGTATTGACATGAAATAGATCGA-AGATAGCAGATCTTGT
* * * * ***
172938 CTT-TATGTA-TTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATACTGGTGGTG-
451 CTTCT-TATACTGGACATG-AGTAGATCGAAGATAACAGATCTTGTCTTCATATA-TGGACATGA
173000 AGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCATAGATAGTGGG
513 AGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCATAGATAGTGGG
173064 TCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
*
173129 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGC
66 GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGT
* *
173194 AGATCTTGTCTTC
131 GGATCGTGTCTTC
173207 CCATACTGGT
Statistics
Matches: 611, Mismatches: 97, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
574 3 0.00
575 76 0.12
576 477 0.78
577 55 0.09
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (576 bp):
TCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGT
GGATCGTGTCTTCATGTATTAACATGAAGTAGATCAAAGATAGCAGAACTTGTCTTCCCATACTA
GTGGTGAAGTAGATCGAAGATAACAGATCTTATCTTCACATACTGGACATGAAGTAGATCGAAGA
TAACAGACCTTATCTTCACATATGGACATGAAGTAGATCGAAGATAACAGACCTTATCTTCACAT
ACTGGACATGAAGTAGATCGAAGATAACAGACCTTGTCTTCCCATATGGACATGAAATAGATCAG
AGATAATGGATCTTGTCTTTATGTATTGACATGAAATAGATCGAAGATAGCAGATCTTGTCTTCT
TATACTGGACATGAGTAGATCGAAGATAACAGATCTTGTCTTCATATATGGACATGAAGTAGATC
GAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCATAGATAGTGGG
Found at i:174951 original size:19 final size:20
Alignment explanation
Indices: 174913--174952 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
174903 TTATATGTAA
*
174913 TATATATGTATATTTTATTTT
1 TATATATGTATA-TTAATTTT
174934 TATATATGTATA-TAATTTT
1 TATATATGTATATTAATTTT
174953 AAGCCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TATATATGTATATTAATTTT
Found at i:177711 original size:18 final size:19
Alignment explanation
Indices: 177690--177736 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
177680 ATTTGTTAAA
177690 TTAATATTATTTATT-ACC
1 TTAATATTATTTATTCACC
177708 TTAA-ATATATTTTATTCACC
1 TTAATAT-TA-TTTATTCACC
177728 -TAATATTAT
1 TTAATATTAT
177737 GATTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.08
18 7 0.28
19 11 0.44
20 5 0.20
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATATTATTTATTCACC
Found at i:178723 original size:20 final size:19
Alignment explanation
Indices: 178687--178741 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
178677 TTAATTTTTT
178687 AAAATAAAAAATATTTAAA
1 AAAATAAAAAATATTTAAA
* *
178706 AAAATTAAAATTATTTTAAA
1 AAAATAAAAAATA-TTTAAA
* * *
178726 CATATAATAAATATTT
1 AAAATAAAAAATATTT
178742 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAAAAAATATTTAAA
Found at i:181577 original size:25 final size:25
Alignment explanation
Indices: 181522--181577 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
181512 TAAGATCCTC
* *
181522 CGAGCTGAATAACGGTAAGCTCATG
1 CGAGCTGAATAACGATAAGCTCATA
* * *
181547 CAAGCTGAGTATCGATAAGCTCATA
1 CGAGCTGAATAACGATAAGCTCATA
181572 CGAGCT
1 CGAGCT
181578 AAAATCGGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
CGAGCTGAATAACGATAAGCTCATA
Found at i:189384 original size:16 final size:16
Alignment explanation
Indices: 189363--189393 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
189353 GTGTCAACCT
189363 ATAATCATCATTATGC
1 ATAATCATCATTATGC
189379 ATAATCATCATTATG
1 ATAATCATCATTATG
189394 AATATCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (16 bp):
ATAATCATCATTATGC
Found at i:191089 original size:25 final size:24
Alignment explanation
Indices: 191036--191131 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 24
191026 ATGCTTATAT
* * *
191036 GAGCACATAAACGGGAAGCTCAAGT
1 GAGC-CATTAACGGGAAGCTCCAGA
*
191061 GAGCCATGTAACGGGAAGCTCCGGA
1 GAGCCAT-TAACGGGAAGCTCCAGA
* *
191086 GAGCCATTAACGTGAAGCTCACAAA
1 GAGCCATTAACGGGAAGCTC-CAGA
*
191111 GAGCCTTTAATCGGGAAGCTC
1 GAGCCATTAA-CGGGAAGCTC
191132 ATAAAGAGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 15 0.25
25 35 0.59
26 9 0.15
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCAGA
Found at i:191137 original size:26 final size:25
Alignment explanation
Indices: 191085--191165 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
191075 GAAGCTCCGG
* *
191085 AGAGCCATTAA-CGTGAAGCTCACAA
1 AGAGCC-TTAATCGGGAAGCTCATAA
191110 AGAGCCTTTAATCGGGAAGCTCATAA
1 AGAGCC-TTAATCGGGAAGCTCATAA
*
191136 AGAGCCATATATCGGGACA-CTCAT-A
1 AGAGCCTTA-ATCGGGA-AGCTCATAA
191161 AGAGC
1 AGAGC
191166 TGCGATGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.37
26 30 0.61
27 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (25 bp):
AGAGCCTTAATCGGGAAGCTCATAA
Found at i:194594 original size:16 final size:16
Alignment explanation
Indices: 194573--194605 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
194563 AAATTAATTT
194573 TAATTA-ATAAATTTTC
1 TAATTATAT-AATTTTC
194589 TAATTATATAATTTTC
1 TAATTATATAATTTTC
194605 T
1 T
194606 CAATCCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTATATAATTTTC
Found at i:197109 original size:15 final size:15
Alignment explanation
Indices: 197089--197118 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
197079 GGCTGACTAT
197089 TCTGATATATGTATA
1 TCTGATATATGTATA
*
197104 TCTGATATTTGTATA
1 TCTGATATATGTATA
197119 CAAGCATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
TCTGATATATGTATA
Found at i:211147 original size:12 final size:13
Alignment explanation
Indices: 211130--211158 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
211120 CTCATACATG
211130 AATAAATAAA-GC
1 AATAAATAAATGC
211142 AATAAATAAATGC
1 AATAAATAAATGC
211155 AATA
1 AATA
211159 GTTATATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:219000 original size:29 final size:29
Alignment explanation
Indices: 218962--219017 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
218952 TTTAGTAATT
*
218962 CAACTATAAAAGGTTATAAAATAGTCATC
1 CAACTATAAAAAGTTATAAAATAGTCATC
* *
218991 CAACTGTAAAAAGTTATAAAATTGTCA
1 CAACTATAAAAAGTTATAAAATAGTCA
219018 CTTAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (29 bp):
CAACTATAAAAAGTTATAAAATAGTCATC
Found at i:220070 original size:22 final size:24
Alignment explanation
Indices: 220026--220073 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
220016 AAATTTAGGG
*
220026 TAATGAAATTTAATAAATTAAAAA
1 TAATGAAATTTAATAAATAAAAAA
*
220050 TAATGATA-TTAA-AAATAAAAAA
1 TAATGAAATTTAATAAATAAAAAA
220072 TA
1 TA
220074 TAGAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
TAATGAAATTTAATAAATAAAAAA
Found at i:236478 original size:14 final size:14
Alignment explanation
Indices: 236459--236535 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
236449 CAATGTTCCA
236459 TTTCATATATCTAT
1 TTTCATATATCTAT
* *
236473 TTTCATATAACCA-
1 TTTCATATATCTAT
*
236486 TTTCATTTATCTAT
1 TTTCATATATCTAT
* * *
236500 TTCCATATAACCA-
1 TTTCATATATCTAT
** *
236513 AATCATATATCTGT
1 TTTCATATATCTAT
236527 TTTCATATA
1 TTTCATATA
236536 ACTGATTCAT
Statistics
Matches: 44, Mismatches: 17, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
13 17 0.39
14 27 0.61
ACGTcount: A:0.32, C:0.18, G:0.01, T:0.48
Consensus pattern (14 bp):
TTTCATATATCTAT
Found at i:236486 original size:27 final size:27
Alignment explanation
Indices: 236456--236537 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
236446 ACCCAATGTT
236456 CCATTTCATATATCTATTTTCATATAA
1 CCATTTCATATATCTATTTTCATATAA
* *
236483 CCATTTCATTTATCTATTTCCATATAA
1 CCATTTCATATATCTATTTTCATATAA
** *
236510 CCAAATCATATATCTGTTTTCATATAA
1 CCATTTCATATATCTATTTTCATATAA
236537 C
1 C
236538 TGATTCATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (27 bp):
CCATTTCATATATCTATTTTCATATAA
Found at i:236489 original size:13 final size:13
Alignment explanation
Indices: 236456--236558 Score: 64
Period size: 13 Copynumber: 7.7 Consensus size: 13
236446 ACCCAATGTT
*
236456 CCATTTCATATAT
1 CCATTTCATATAA
*
236469 CTATTTTCATATAA
1 CCA-TTTCATATAA
* *
236483 CCATTTCATTTAT
1 CCATTTCATATAA
*
236496 CTATTTCCATATAA
1 CCATTT-CATATAA
** *
236510 CCAAATCATATAT
1 CCATTTCATATAA
**
236523 CTGTTTTCATATAA
1 C-CATTTCATATAA
*
236537 CTGA-TTCATATAA
1 C-CATTTCATATAA
236550 CCATTTCAT
1 CCATTTCAT
236559 TTCTAAGTTT
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
12 1 0.01
13 37 0.55
14 29 0.43
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.45
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:236545 original size:27 final size:26
Alignment explanation
Indices: 236460--236548 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
236450 AATGTTCCAT
*
236460 TTCATATATCTATTTTCATATAACCAT
1 TTCATATATCTATTTTCATATAA-CAA
* *
236487 TTCATTTATCTATTTCCATATAACCAA
1 TTCATATATCTATTTTCATATAA-CAA
* * *
236514 ATCATATATCTGTTTTCATATAACTGA
1 TTCATATATCTATTTTCATATAAC-AA
236541 TTCATATA
1 TTCATATA
236549 ACCATTTCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (26 bp):
TTCATATATCTATTTTCATATAACAA
Found at i:240834 original size:43 final size:43
Alignment explanation
Indices: 240736--240861 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
240726 AGCTCGTACA
* *
240736 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATACCG
* * *
240779 GTG-CTACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATA-CCG
* *
240822 ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATA
240862 TCGGAATCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
42 5 0.07
43 59 0.86
44 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATACCG
Found at i:241374 original size:11 final size:11
Alignment explanation
Indices: 241358--241383 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
241348 AACCCTTGGA
241358 TTTTTCTTTTC
1 TTTTTCTTTTC
241369 TTTTTCTTTTC
1 TTTTTCTTTTC
241380 TTTT
1 TTTT
241384 ACATTCGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:241472 original size:28 final size:28
Alignment explanation
Indices: 241432--241488 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
241422 CTCCCTTTTT
241432 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
241460 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
241488 T
1 T
241489 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:247985 original size:76 final size:76
Alignment explanation
Indices: 247859--248770 Score: 1815
Period size: 76 Copynumber: 12.0 Consensus size: 76
247849 ATAAGATGAG
*
247859 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAAAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
247924 ATGCCATAATA
66 ATGCCATAATA
247935 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248000 ATGCCATAATA
66 ATGCCATAATA
248011 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248076 ATGCCATAATA
66 ATGCCATAATA
248087 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248152 ATGCCATAATA
66 ATGCCATAATA
248163 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248228 ATGCCATAATA
66 ATGCCATAATA
248239 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248304 ATGCCATAATA
66 ATGCCATAATA
248315 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248380 ATGCCATAATA
66 ATGCCATAATA
248391 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248456 ATGCCATAATA
66 ATGCCATAATA
248467 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248532 ATGCCATAATA
66 ATGCCATAATA
248543 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248608 ATGCCATAATA
66 ATGCCATAATA
248619 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248684 ATGCCATAATA
66 ATGCCATAATA
248695 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
1 CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
248760 ATGCCATAATA
66 ATGCCATAATA
248771 TCGAGTTCAA
Statistics
Matches: 835, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 835 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (76 bp):
CCATTTTCGCATGGCCTTTTATATACATGTTCCAAAACTAACCAAGAACATAAGCAAGCCTATAC
ATGCCATAATA
Found at i:250354 original size:28 final size:28
Alignment explanation
Indices: 250314--250370 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
250304 TCTCCCTTTT
250314 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
250342 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
250370 T
1 T
250371 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:253216 original size:78 final size:78
Alignment explanation
Indices: 253126--253325 Score: 391
Period size: 78 Copynumber: 2.6 Consensus size: 78
253116 AATCATGTTG
*
253126 TAAAATTCTGAACACTCTAAGGCTAAAATTCCTAAAATACACCTAAAACTCTTAGACCCTATTTT
1 TAAAATTTTGAACACTCTAAGGCTAAAATTCCTAAAATACACCTAAAACTCTTAGACCCTATTTT
253191 AGGTGTTATAACC
66 AGGTGTTATAACC
253204 TAAAATTTTGAACACTCTAAGGCTAAAATTCCTAAAATACACCTAAAACTCTTAGACCCTATTTT
1 TAAAATTTTGAACACTCTAAGGCTAAAATTCCTAAAATACACCTAAAACTCTTAGACCCTATTTT
253269 AGGTGTTATAACC
66 AGGTGTTATAACC
253282 TAAAATTTTGAACACTCTAAGGCTAAAATTCCTAAAATACACCT
1 TAAAATTTTGAACACTCTAAGGCTAAAATTCCTAAAATACACCT
253326 CATTCGAGGT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 121 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (78 bp):
TAAAATTTTGAACACTCTAAGGCTAAAATTCCTAAAATACACCTAAAACTCTTAGACCCTATTTT
AGGTGTTATAACC
Found at i:267810 original size:18 final size:18
Alignment explanation
Indices: 267768--267810 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
267758 GCCCATTCCG
* *
267768 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
267786 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
267804 AAGTATG
1 AAGTATG
267811 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:268317 original size:56 final size:54
Alignment explanation
Indices: 268255--268459 Score: 207
Period size: 56 Copynumber: 3.7 Consensus size: 54
268245 GAGATTGGCG
* *
268255 CTAAGTGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAG-TT-AATTGTG-AGCACTAAGTGTGCGAGATTGATTATGTAGCA
** *
268311 CTAAGTGTGCGAGTTGCCTATGT-AGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTT-AAT-TGTGAGCACTAAGTGTGCGAGATTGATTATGTAGCA
* * * *
268366 CTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAG-TTAATTGTG-AGCACTAAGTGTGCGAGATTGATTATGTAGCA
* * * *
268422 CTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTAATTGT-GAGCACTAAGTGTGCG
268460 GACTTATTAT
Statistics
Matches: 130, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
54 18 0.14
55 52 0.40
56 60 0.46
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (54 bp):
CTAAGTGTGCGAGTTAATTGTGAGCACTAAGTGTGCGAGATTGATTATGTAGCA
Found at i:268369 original size:28 final size:27
Alignment explanation
Indices: 268280--268459 Score: 270
Period size: 28 Copynumber: 6.6 Consensus size: 27
268270 TAAATTGTGC
* *
268280 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
**
268307 AGCACTAAGTGTGCGAGTTGCCTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
268334 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
268362 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
268390 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
268418 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
268445 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
268460 GACTTATTAT
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 66 0.46
28 79 0.54
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:280165 original size:21 final size:21
Alignment explanation
Indices: 280124--280239 Score: 94
Period size: 21 Copynumber: 5.5 Consensus size: 21
280114 CAAAAGCTCG
* * *
280124 AAAGCTGAACAGAAGCCCATA
1 AAAGTTGAACAGAAACTCATA
280145 AAAGTTGAACAGAAACTCATA
1 AAAGTTGAACAGAAACTCATA
*
280166 AGAGCTT-AACAGAAACTCA-A
1 AAAG-TTGAACAGAAACTCATA
*
280186 AAGAGTTGAAC-GAAAGCTCGTA
1 AA-AGTTGAACAGAAA-CTCATA
* * *
280208 AGAGCTAAACAGAAACTCATA
1 AAAGTTGAACAGAAACTCATA
* *
280229 AGAGTTTAACA
1 AAAGTTGAACA
280240 AAAGCTCGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.10
21 61 0.79
22 8 0.10
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.16
Consensus pattern (21 bp):
AAAGTTGAACAGAAACTCATA
Found at i:280193 original size:42 final size:43
Alignment explanation
Indices: 280147--280264 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 43
280137 AGCCCATAAA
*
280147 AGTTGAACAGAAA-CTCATAAGAGCTTAACAGAAACTCAAAAG
1 AGTTGAACAGAAAGCTCATAAGAGCTAAACAGAAACTCAAAAG
* *
280189 AGTTGAAC-GAAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
1 AGTTGAACAGAAAGCTCATAAGAGCTAAACAGAAACTCAAAAG
* *
280231 AGTTTAACA-AAAGCTCGA-AAGAGCTAAATAGAAA
1 AGTTGAACAGAAAGCTC-ATAAGAGCTAAACAGAAA
280265 GTAAAACACG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.06
42 63 0.94
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (43 bp):
AGTTGAACAGAAAGCTCATAAGAGCTAAACAGAAACTCAAAAG
Found at i:280252 original size:21 final size:21
Alignment explanation
Indices: 280152--280264 Score: 92
Period size: 21 Copynumber: 5.4 Consensus size: 21
280142 ATAAAAGTTG
280152 AACAGAAACTC-ATAAGAGCTT
1 AACAGAAACTCGA-AAGAGCTT
*
280173 AACAGAAACTCAAAAGAG-TT
1 AACAGAAACTCGAAAGAGCTT
* *
280193 GAAC-GAAAGCTCGTAAGAGCTA
1 -AACAGAAA-CTCGAAAGAGCTT
*
280215 AACAGAAACTC-ATAAGAGTTT
1 AACAGAAACTCGA-AAGAGCTT
*
280236 AACA-AAAGCTCGAAAGAGCTA
1 AACAGAAA-CTCGAAAGAGCTT
*
280257 AATAGAAA
1 AACAGAAA
280265 GTAAAACACG
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
20 9 0.12
21 55 0.74
22 10 0.14
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (21 bp):
AACAGAAACTCGAAAGAGCTT
Found at i:283132 original size:69 final size:67
Alignment explanation
Indices: 283049--283181 Score: 158
Period size: 69 Copynumber: 2.0 Consensus size: 67
283039 TGAACAGCTG
* * ** * *
283049 CAGCCTTCAAAACAGTTAGCGAAAGTGAAGCTCCTAGCTGTCGTGCGAAGGCTCTTAGGCGAAGA
1 CAGCCTCCAAAACAGATAGCGAAAGCAAAGCTCCAAGCTGTCGT--GAAGGCTCGTAGGCGAAGA
283114 GCCA
64 GCCA
* * * *
283118 CAGCCTCCAGAACAGATAGTGAGAGCAAAGCTCCAAGCTGTCGTTAAGGCTCGTAGGCGAAGAG
1 CAGCCTCCAAAACAGATAGCGAAAGCAAAGCTCCAAGCTGTCGTGAAGGCTCGTAGGCGAAGAG
283182 TCGCGGCTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 18 0.33
69 36 0.67
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (67 bp):
CAGCCTCCAAAACAGATAGCGAAAGCAAAGCTCCAAGCTGTCGTGAAGGCTCGTAGGCGAAGAGC
CA
Found at i:283212 original size:66 final size:68
Alignment explanation
Indices: 283076--283228 Score: 184
Period size: 66 Copynumber: 2.3 Consensus size: 68
283066 AGCGAAAGTG
*
283076 AAGCTCCTAGCTGTCGTGCGAAGGCTCTTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAG
1 AAGCTCCTAGCTGTCGT-CGAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAG
283141 AGCA
65 AGCA
* * * * * * * * *
283145 AAGCTCCAAGCTGTCGT-TAAGGCTCGTAGGCGAAGAGTCGC-GGCTCCAGCATAGTTAGTGATA
1 AAGCTCCTAGCTGTCGTCGAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAGA
283208 GCA
66 GCA
*
283211 AAGCTCCTAGCTATCGTC
1 AAGCTCCTAGCTGTCGTC
283229 TTAAGGTTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
66 35 0.49
67 20 0.28
69 16 0.23
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (68 bp):
AAGCTCCTAGCTGTCGTCGAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAGA
GCA
Found at i:283446 original size:69 final size:70
Alignment explanation
Indices: 283256--283447 Score: 214
Period size: 69 Copynumber: 2.8 Consensus size: 70
283246 AAAACCAAAG
* * *
283256 CCTCTAACACAGTTAACGAGAGA-AAAACTCCTAATTGTTGTGCTAAGGCT--CAAATGCAAAGA
1 CCTCCAACACAGTTAGCGAGA-ACAAAGCTCCTAATTGTTGTGCTAAGGCTCGCAAATG-AAAGA
* *
283318 GTCGCAG
64 GTCACAA
* * * *
283325 CCTCCAACACAGTTAGC-AAAAGCAAAGCTCCCAATTGTTGTGCTAAGACTCGCAAGTG-AAGAG
1 CCTCCAACACAGTTAGCGAGAA-CAAAGCTCCTAATTGTTGTGCTAAGGCTCGCAAATGAAAGAG
283388 TCACAA
65 TCACAA
* * *
283394 CCTCCAACAAAGTTAGCGAGAACAAAGCTCCTAATTGTCGTGCAAAGGCTCGCA
1 CCTCCAACACAGTTAGCGAGAACAAAGCTCCTAATTGTTGTGCTAAGGCTCGCA
283448 GGAAAAAGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
67 1 0.01
68 2 0.02
69 92 0.89
70 3 0.03
71 5 0.05
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (70 bp):
CCTCCAACACAGTTAGCGAGAACAAAGCTCCTAATTGTTGTGCTAAGGCTCGCAAATGAAAGAGT
CACAA
Found at i:283991 original size:35 final size:35
Alignment explanation
Indices: 283917--283991 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 35
283907 AATTATGTGA
283917 AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
1 AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
*
283952 -AAGTATAACAAGCTTGCAAAAAATAGATTTTCTC
1 AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
283986 AAAGTA
1 AAAGTA
283992 AACTCTCGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (35 bp):
AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
Found at i:289271 original size:15 final size:15
Alignment explanation
Indices: 289251--289333 Score: 76
Period size: 15 Copynumber: 5.5 Consensus size: 15
289241 GATAATCAGA
*
289251 AAATCCAAGATAGAG
1 AAATCCAAGATAAAG
* ***
289266 AAATCCGAGACGGAG
1 AAATCCAAGATAAAG
** *
289281 AAGCCCAAAATAAAG
1 AAATCCAAGATAAAG
289296 AAATCCAAGATAAAG
1 AAATCCAAGATAAAG
* *
289311 AAATCCATGATAAGG
1 AAATCCAAGATAAAG
289326 AAATCCAA
1 AAATCCAA
289334 ATTATAATAC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 52 1.00
ACGTcount: A:0.53, C:0.17, G:0.18, T:0.12
Consensus pattern (15 bp):
AAATCCAAGATAAAG
Found at i:289647 original size:26 final size:26
Alignment explanation
Indices: 289616--289668 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
289606 ATCCATTTAG
289616 ACTGACAACACATTCGTCTAACATTA
1 ACTGACAACACATTCGTCTAACATTA
289642 ACTGACAACACATTCGTCTAACATTA
1 ACTGACAACACATTCGTCTAACATTA
289668 A
1 A
289669 GATCATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (26 bp):
ACTGACAACACATTCGTCTAACATTA
Found at i:293704 original size:30 final size:30
Alignment explanation
Indices: 293660--293716 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
293650 CAAAAATCAT
*
293660 ATTTTTACAAATTTTCA-TTTTGACCCCTAA
1 ATTTTCACAAATTTTCACTTTT-ACCCCTAA
*
293690 ATTTTCACATATTTTCACTTTTACCCC
1 ATTTTCACAAATTTTCACTTTTACCCC
293717 AATTCTCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (30 bp):
ATTTTCACAAATTTTCACTTTTACCCCTAA
Found at i:298029 original size:28 final size:28
Alignment explanation
Indices: 297989--298067 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
297979 GCAATCAAAT
* * *
297989 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
298017 ATGGCACTTAGTGTGCGATATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
298045 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
298068 CGAATGACTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:300070 original size:28 final size:28
Alignment explanation
Indices: 300039--300193 Score: 132
Period size: 28 Copynumber: 5.5 Consensus size: 28
300029 GTGAACATAG
*
300039 GCACTGTGTGTGTGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* ****
300067 GCACTGTGTGTGCGAGAT-CGATTGTTGA
1 GCACTGTGTGTGCGAGTTCCG-TAACCGA
*
300095 GGCACTGTGTGTGCGAGTTTCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * * *****
300124 GCACTGTGTGTGCAAGATCAGTTGTTAA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
300152 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
300181 GCACTGTGTGTGC
1 GCACTGTGTGTGC
300194 AAGATCAGTT
Statistics
Matches: 96, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
27 2 0.02
28 51 0.53
29 41 0.43
30 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:300106 original size:29 final size:29
Alignment explanation
Indices: 300067--300168 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
300057 CCGTAACCGA
300067 GCACTGTGTGTGCGAGATCGATTGTTGAG
1 GCACTGTGTGTGCGAGATCGATTGTTGAG
* ****
300096 GCACTGTGTGTGCGAGTTTCG-TAACCGA-
1 GCACTGTGTGTGCGAG-ATCGATTGTTGAG
* *
300124 GCACTGTGTGTGCAAGATC-AGTTGTTAAG
1 GCACTGTGTGTGCGAGATCGA-TTGTTGAG
300153 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
300169 TTCCGTAACC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 2 0.04
28 17 0.30
29 34 0.61
30 3 0.05
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGATTGTTGAG
Found at i:300106 original size:57 final size:57
Alignment explanation
Indices: 300037--300223 Score: 286
Period size: 57 Copynumber: 3.2 Consensus size: 57
300027 AAGTGAACAT
* *
300037 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATC-GATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCAG-TTGTTG
* *
300094 AGGCACTGTGTGTGCGAGTTTCGTAACCGAGCACTGTGTGTGCAAGATCAGTTGTTA
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCAGTTGTTG
*
300151 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCAGTTGTTG
*
300208 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
300224 AAATGAGATC
Statistics
Matches: 119, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
57 111 0.93
58 1 0.01
59 7 0.06
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCAGTTGTTG
Found at i:305248 original size:28 final size:28
Alignment explanation
Indices: 305208--305286 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
305198 GCAATCAAAT
* * *
305208 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
305236 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
305264 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
305287 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:307833 original size:6 final size:6
Alignment explanation
Indices: 307822--307859 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
307812 CATTCGTGCC
307822 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT ATTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT -TTTCTT TT
307860 ATTCATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:309728 original size:46 final size:46
Alignment explanation
Indices: 309678--309850 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
309668 TGGTTGAGCA
* *
309678 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
309724 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
309771 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
309817 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
309851 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:309834 original size:93 final size:93
Alignment explanation
Indices: 309675--309845 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
309665 GGATGGTTGA
* ***
309675 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
309740 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
309768 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
*
309833 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
309846 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:321405 original size:37 final size:37
Alignment explanation
Indices: 321355--321433 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
321345 TTATTACGAA
* * *
321355 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
321392 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
321429 GTCTT
1 GTCTT
321434 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:325189 original size:40 final size:40
Alignment explanation
Indices: 325144--325580 Score: 613
Period size: 40 Copynumber: 10.9 Consensus size: 40
325134 CGAATACACG
* * * * *
325144 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * ** * *
325184 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
325224 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
325264 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
325304 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
325344 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
325384 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
325424 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
325464 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
325504 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
325544 TCGCTAGCATGAATGCTCTTCAGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
325581 TTAGTAACTC
Statistics
Matches: 354, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 354 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:325376 original size:120 final size:120
Alignment explanation
Indices: 325144--325659 Score: 660
Period size: 120 Copynumber: 4.3 Consensus size: 120
325134 CGAATACACG
* * * * * * * * *
325144 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
* *
325209 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * * *
325264 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
* * * *
325329 CTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
66 CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
325384 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
*
325449 CTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
325504 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCAGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
* * * * * * **
325569 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGG
66 CTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CA
* *
325625 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
325660 CATCATTCGA
Statistics
Matches: 347, Mismatches: 46, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
120 322 0.93
121 20 0.06
122 5 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:325613 original size:40 final size:40
Alignment explanation
Indices: 325210--325659 Score: 201
Period size: 40 Copynumber: 11.2 Consensus size: 40
325200 TCTTTGGGGT
* *
325210 TTAGCACGGATATA-TCAC-TAGCACGAATGCTCTTC-GGAAC
1 TTAGCCCGGATATAGTAACTTAGCAC-AATGC-CTTCAGG-AC
* * * *
325250 TTAGCCCGGATACA-TCAC-TAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCAC-AATGC-CTTCAGGAC
* *
325290 TTAGCCCGGATATA-TCAC-TAGCATGAATGCTCTTC-GGAAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTCAGG-AC
* * * *
325330 TTAGCCCGGATACA-TCAC-TAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCAC-AATGC-CTTCAGGAC
* *
325370 TTAGCCCGGATATA-TCAC-TAGCATGAATGCTCTTC-GGAAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTCAGG-AC
* * * *
325410 TTAGCCCGGATACA-TCAC-TAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCAC-AATGC-CTTCAGGAC
* *
325450 TTAGCCCGGATATA-TCAC-TAGCATGAATGCTCTTC-GGAAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTCAGG-AC
* * * *
325490 TTAGCCCGGATACA-TCAC-TAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTCAGGAC
* ** *
325530 TTAGCCCGGATACA-TCGC-TAGCATGAATGCTCTTCAGGAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTCAGGAC
* *
325570 TTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTC-GGATC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGCCTTCAGGA-C
* * * * *
325610 TTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCACAATGCCTTCAGGAC
325650 TTAGCCCGGA
1 TTAGCCCGGA
325660 CATCATTCGA
Statistics
Matches: 359, Mismatches: 35, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
39 9 0.03
40 324 0.90
41 26 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTTAGCACAATGCCTTCAGGAC
Found at i:325621 original size:80 final size:80
Alignment explanation
Indices: 325144--325580 Score: 696
Period size: 80 Copynumber: 5.5 Consensus size: 80
325134 CGAATACACG
* * * * * * * * * * *
325144 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGG
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
* *
325209 TTTAGCACGGATATA
66 CTTAGCCCGGATATA
*
325224 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
325289 CTTAGCCCGGATATA
66 CTTAGCCCGGATATA
325304 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
325369 CTTAGCCCGGATATA
66 CTTAGCCCGGATATA
325384 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
325449 CTTAGCCCGGATATA
66 CTTAGCCCGGATATA
* *
325464 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
*
325529 CTTAGCCCGGATACA
66 CTTAGCCCGGATATA
*
325544 TCGCTAGCATGAATGCTCTTCAGG-ACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTC-GGAACTTAGCCCGGAT
325581 TTAGTAACTC
Statistics
Matches: 337, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
80 335 0.99
81 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
CTTAGCCCGGATATA
Found at i:326004 original size:29 final size:29
Alignment explanation
Indices: 325965--326043 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
325955 CTTAATAATC
*
325965 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
325995 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
326024 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
326044 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:326086 original size:43 final size:43
Alignment explanation
Indices: 326025--326170 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
326015 TGCATTTCAA
326025 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
326068 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
326111 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
326154 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
326171 TGAAAACCAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:326874 original size:237 final size:238
Alignment explanation
Indices: 326459--326922 Score: 912
Period size: 237 Copynumber: 2.0 Consensus size: 238
326449 TTAATAATTT
326459 AGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGCTTGCTACAGCTCGATCGG
1 AGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGCTTGCTACAGCTCGATCGG
326524 GATCAAGATTCATTACAATACAGCAAACACATTTTAATAGCCAAAAATCATCACACTATCATTTT
66 GATCAAGATTCATTACAATACAGCAAACACATTTTAATAGCCAAAAATCATCACACTATCATTTT
326589 ATCACTTTATGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAGAATCGACTAAACCG
131 ATCACTTTATGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAGAATCGACTAAACCG
326654 TAGCTCTGATACCAATAAAA-TGTAACACCCCTATCCCGTAAC
196 TAGCTCTGATACCAATAAAATTGTAACACCCCTATCCCGTAAC
*
326696 AGGCATATCTAAGTGAAGTTATATCGCAAATTCTCATAGTCAGAAGCTTGCTACAGCTCGATCGG
1 AGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGCTTGCTACAGCTCGATCGG
326761 GATCAAGATTCATTACAATACAGCAAACACATTTTAATAGCCAAAAATCATCACACTATCATTTT
66 GATCAAGATTCATTACAATACAGCAAACACATTTTAATAGCCAAAAATCATCACACTATCATTTT
326826 ATCACTTTATGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAGAATCGACTAAACCG
131 ATCACTTTATGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAGAATCGACTAAACCG
326891 TAGCTCTGATACCAATAAAATTGTAACACCCC
196 TAGCTCTGATACCAATAAAATTGTAACACCCC
326923 GTACCCGAGA
Statistics
Matches: 225, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
237 214 0.95
238 11 0.05
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (238 bp):
AGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGCTTGCTACAGCTCGATCGG
GATCAAGATTCATTACAATACAGCAAACACATTTTAATAGCCAAAAATCATCACACTATCATTTT
ATCACTTTATGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAGAATCGACTAAACCG
TAGCTCTGATACCAATAAAATTGTAACACCCCTATCCCGTAAC
Found at i:328323 original size:37 final size:37
Alignment explanation
Indices: 328273--328351 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
328263 TTATTACGAA
* *
328273 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
328310 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
328347 GTCTT
1 GTCTT
328352 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:328548 original size:47 final size:47
Alignment explanation
Indices: 328470--328738 Score: 448
Period size: 47 Copynumber: 5.7 Consensus size: 47
328460 CCCTTCGGGA
* * * * * * *
328470 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
* * *
328517 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
328564 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
328611 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
328658 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
328705 CTTATCACATATATACGCTTTCACATTCATCACA
1 CTTATCACATATATACGCTTTCACATTCATCACA
328739 ACTCTCACAT
Statistics
Matches: 211, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 211 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
Found at i:329371 original size:87 final size:87
Alignment explanation
Indices: 329225--329399 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
329215 TTCACTGTTT
329225 GACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTTTACAGGATTCAAAATGTGTTGT
1 GACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTTTACAGGATTCAAAATGTGTTGT
329290 ATTTGATTTAATTTGAAACTAG
66 ATTTGATTTAATTTGAAACTAG
329312 GACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTTTACAGGATTCAAAATGTGTTGT
1 GACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTTTACAGGATTCAAAATGTGTTGT
*
329377 ATTTGATTTCATTTGAAACTAG
66 ATTTGATTTAATTTGAAACTAG
329399 G
1 G
329400 CTCATTAAGG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (87 bp):
GACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTTTACAGGATTCAAAATGTGTTGT
ATTTGATTTAATTTGAAACTAG
Found at i:333986 original size:39 final size:39
Alignment explanation
Indices: 333932--334098 Score: 298
Period size: 39 Copynumber: 4.3 Consensus size: 39
333922 TAATGGAGAA
* *
333932 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
333971 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* *
334010 TTATATCCAGGCTAAGCCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
334049 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
334088 TTATATCCGGG
1 TTATATCCGGG
334099 TTAAAGTCTC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 122 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
Found at i:334131 original size:78 final size:78
Alignment explanation
Indices: 333932--334137 Score: 306
Period size: 78 Copynumber: 2.6 Consensus size: 78
333922 TAATGGAGAA
333932 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGC
1 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGC
333997 ATTCGTGCTGGTG
66 ATTCGTGCTGGTG
* * * *
334010 TTATATCCAGGCTAAGCCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGC
1 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGC
334075 ATTCGTGCTGGTG
66 ATTCGTGCTGGTG
* * * * * *
334088 TTATATCCGGGTTAAAGTCTCGTAGGC-TTTGTGCAGGTATTATATTCGGG
1 TTATATCCGGGCT-AAGTCTCGAAGGCATTCGTGCTGGTGTTATATCCGGG
334138 TCCCGCATGC
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
78 104 0.92
79 9 0.08
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (78 bp):
TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGC
ATTCGTGCTGGTG
Found at i:337748 original size:84 final size:84
Alignment explanation
Indices: 337607--337779 Score: 346
Period size: 84 Copynumber: 2.1 Consensus size: 84
337597 CCCCTAAATA
337607 CCTTAGGGGAATGAAACCTAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAG
1 CCTTAGGGGAATGAAACCTAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAG
337672 GTGTTAACTGGCTTTAACC
66 GTGTTAACTGGCTTTAACC
337691 CCTTAGGGGAATGAAACCTAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAG
1 CCTTAGGGGAATGAAACCTAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAG
337756 GTGTTAACTGGCTTTAACC
66 GTGTTAACTGGCTTTAACC
337775 CCTTA
1 CCTTA
337780 TAAAATTTAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (84 bp):
CCTTAGGGGAATGAAACCTAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAG
GTGTTAACTGGCTTTAACC
Found at i:339087 original size:27 final size:27
Alignment explanation
Indices: 339057--339234 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
339047 ATATTGAGTC
* * * *
339057 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
339084 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
339111 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
339139 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
339166 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
339193 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
339220 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
339235 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:339196 original size:82 final size:81
Alignment explanation
Indices: 339078--339233 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
339068 TGCTATATAA
* *
339078 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
339143 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
339160 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
339224 CACTTAGTGC
65 CACTTAGTGC
339234 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:341458 original size:73 final size:73
Alignment explanation
Indices: 341339--341483 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
341329 TATAACTTAA
* *
341339 GGATTTCTACGGATCAAGTCAAATGAATAAATCGTCTGATTTAGAGTCAAATAACAAGTGAAGTC
1 GGATTTCTACGGATCAAGCCAAATGAATAAATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTC
341404 TAGGTGGG
66 TAGGTGGG
341412 GGATTTCTACGGATCAAGCCAAATGAATAAATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTC
1 GGATTTCTACGGATCAAGCCAAATGAATAAATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTC
341477 TAGGTGG
66 TAGGTGG
341484 ATTTTTCCTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (73 bp):
GGATTTCTACGGATCAAGCCAAATGAATAAATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTC
TAGGTGGG
Found at i:352464 original size:19 final size:20
Alignment explanation
Indices: 352422--352470 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
352412 TCATGCTTTC
*
352422 TATTCACATTTTCATATTCA
1 TATTCACATTTTCATAATCA
352442 -ATTCACATTTTCA-AATCA
1 TATTCACATTTTCATAATCA
352460 TATTCCACATT
1 TATT-CACATT
352471 CGCATTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 16 0.62
20 6 0.23
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTCACATTTTCATAATCA
Found at i:369869 original size:25 final size:25
Alignment explanation
Indices: 369841--369892 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
369831 AAAATGAGAA
369841 GTAAAAATATAAAATAAAGGAAAAT
1 GTAAAAATATAAAATAAAGGAAAAT
369866 GTAAAAATATAAAATAAAGGAAAAT
1 GTAAAAATATAAAATAAAGGAAAAT
369891 GT
1 GT
369893 GGGATGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.21
Consensus pattern (25 bp):
GTAAAAATATAAAATAAAGGAAAAT
Found at i:380938 original size:92 final size:92
Alignment explanation
Indices: 380773--380968 Score: 293
Period size: 92 Copynumber: 2.1 Consensus size: 92
380763 GGGTGATCGT
* * * *
380773 CCGATAACACACCAGATGTACATAGTGCAAAGCCCATAGGCTAAATTTTCTCTCCCGATAACAAG
1 CCGATAACACACCAGATGCACATAGTGCAAAGCACATAGGCTAAATATTCTCCCCCGATAACAAG
*
380838 CCATATTGCTCATAAGAGCTATTCCAA
66 CCAGATTGCTCATAAGAGCTATTCCAA
* *
380865 CCGATAACACACCAGATGCACATAGTGCAAAGCACGTAGGCTAAATATTCTCCCCCGATAACATG
1 CCGATAACACACCAGATGCACATAGTGCAAAGCACATAGGCTAAATATTCTCCCCCGATAACAAG
** *
380930 CCAGATTGCTCATAAGATTTATTTCAA
66 CCAGATTGCTCATAAGAGCTATTCCAA
*
380957 CCGATAAAACAC
1 CCGATAACACAC
380969 TAGAATCATC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (92 bp):
CCGATAACACACCAGATGCACATAGTGCAAAGCACATAGGCTAAATATTCTCCCCCGATAACAAG
CCAGATTGCTCATAAGAGCTATTCCAA
Found at i:386149 original size:49 final size:50
Alignment explanation
Indices: 386075--386215 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 50
386065 ATGCGGGTAC
* *
386075 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT-TT-GAAA
1 CTTACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTCTTAG-AA
*
386124 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTT--CTTA-GAA
* * * *
386177 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTAT
1 CTTACCATTGCCATGACTTGACATGGTCTTACATGGTAT
386216 TCTTAAACCC
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
49 40 0.50
52 2 0.03
53 37 0.46
54 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (50 bp):
CTTACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTCTTAGAA
Found at i:392530 original size:21 final size:21
Alignment explanation
Indices: 392505--392546 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
392495 TAATAAATTT
392505 ACTAAATATAATATTTACATA
1 ACTAAATATAATATTTACATA
*
392526 ACTAAATATATTATTTACATA
1 ACTAAATATAATATTTACATA
392547 TTTGACAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
ACTAAATATAATATTTACATA
Found at i:399340 original size:33 final size:33
Alignment explanation
Indices: 399303--399369 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
399293 ACAAGTTCTT
399303 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
1 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
399336 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
1 CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
399369 C
1 C
399370 AATTGGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (33 bp):
CCTATAGTTGTTTCAATTTCCCATAATAAGTCA
Found at i:400607 original size:17 final size:17
Alignment explanation
Indices: 400596--400629 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
400586 AATTTATAAT
400596 TTTATATTATTTAAAAC
1 TTTATATTATTTAAAAC
*
400613 TTTATTTTATTTCAAAA
1 TTTATATTATTT-AAAA
400630 TAAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATATTATTTAAAAC
Found at i:400736 original size:30 final size:30
Alignment explanation
Indices: 400681--400747 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
400671 TATATATTAC
400681 TTTTAAATTTAAAAAAAAAACTTTAAAAAT
1 TTTTAAATTTAAAAAAAAAACTTTAAAAAT
* * *
400711 TATTTAAATTT-TAAAAAATATTTTAAAAAT
1 T-TTTAAATTTAAAAAAAAAACTTTAAAAAT
400741 TTTTAAA
1 TTTTAAA
400748 ATTATTTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 18 0.55
31 9 0.27
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTAAATTTAAAAAAAAAACTTTAAAAAT
Found at i:400762 original size:21 final size:21
Alignment explanation
Indices: 400696--400760 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
400686 AATTTAAAAA
* *
400696 AAAAACTTTAAAAATTA-TTT
1 AAAAATTTTAAAAAATATTTT
400716 --AAATTTTAAAAAATATTTT
1 AAAAATTTTAAAAAATATTTT
* *
400735 AAAAATTTTTAAAATTATTTCT
1 AAAAATTTTAAAAAATATTT-T
400757 AAAA
1 AAAA
400761 TTAAATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 13 0.35
19 3 0.08
21 16 0.43
22 5 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAATTTTAAAAAATATTTT
Found at i:400851 original size:71 final size:72
Alignment explanation
Indices: 400734--400904 Score: 194
Period size: 72 Copynumber: 2.4 Consensus size: 72
400724 AAAAATATTT
** * *
400734 TAAAAATT-TTT-AAAA-TTATTTCTAAAA--TTAAATTTTATTAGATATATATTATTTCTAAA-
1 TAAAAATTATTTAAAAATTTATTTCTAAAATTTTAAATAGTATTAAATATATATTATTTATAAAT
400793 ATAAAAA
66 ATAAAAA
400800 TAAACAATTATTTAAAAATTTATTTCTAAAATTTTAAA-AGTATTAAATATATATTATTTATAAA
1 TAAA-AATTATTTAAAAATTTATTTCTAAAATTTTAAATAGTATTAAATATATATTATTTATAAA
* *
400864 TTTTAAAAT
65 -TATAAAAA
* * *
400873 TTAAGATTATTTAAAAATTTATTCCTAAAATT
1 TAAAAATTATTTAAAAATTTATTTCTAAAATT
400905 AAAATTAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
66 4 0.05
67 4 0.05
68 3 0.03
69 4 0.05
70 12 0.14
71 22 0.25
72 31 0.35
73 8 0.09
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (72 bp):
TAAAAATTATTTAAAAATTTATTTCTAAAATTTTAAATAGTATTAAATATATATTATTTATAAAT
ATAAAAA
Done.