Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1504526
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:8745 original size:28 final size:29
Alignment explanation
Indices: 8707--8763 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8697 TAGAAAAAAT
8707 TTGAACAA-TTTAAACGTTAAGTAATCAAA
1 TTGAACAATTTTAAACGTTAA-TAATCAAA
* *
8736 TTGAA-AATTTTAAACTTTAATGATCAAA
1 TTGAACAATTTTAAACGTTAATAATCAAA
8764 ACAAGAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (29 bp):
TTGAACAATTTTAAACGTTAATAATCAAA
Found at i:16549 original size:23 final size:23
Alignment explanation
Indices: 16518--16576 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
16508 CACCACAGCT
*
16518 CGTATAATTGCACAAAAGTGCCA
1 CGTAGAATTGCACAAAAGTGCCA
*** *
16541 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACAAAAGTGCCA
16564 CGTAGAATTGCAC
1 CGTAGAATTGCAC
16577 CGTAGTGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACAAAAGTGCCA
Found at i:16577 original size:23 final size:23
Alignment explanation
Indices: 16534--16586 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
16524 ATTGCACAAA
16534 AGTGCCACGTAGAATTGCACCGG
1 AGTGCCACGTAGAATTGCACCGG
* *
16557 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACGTAGAATTGCACCGG
16580 AGTGCCA
1 AGTGCCA
16587 TATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCGG
Found at i:17258 original size:26 final size:26
Alignment explanation
Indices: 17222--17279 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
17212 TAAATCCTAT
17222 TCGATGTTTGTATTTAATGGGGTGCA
1 TCGATGTTTGTATTTAATGGGGTGCA
17248 TCGATGTTTGTATTTAATGGGGTGCA
1 TCGATGTTTGTATTTAATGGGGTGCA
17274 TCGATG
1 TCGATG
17280 CACTCCTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.31, T:0.41
Consensus pattern (26 bp):
TCGATGTTTGTATTTAATGGGGTGCA
Found at i:25689 original size:3 final size:3
Alignment explanation
Indices: 25681--25726 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
25671 ATTTTATTTA
* *
25681 TAT TAT TATT TAT TAT ATAT TTT TAT TAT TAA TAT TAT TAT TAT TA
1 TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
25727 CAAACAGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:27429 original size:49 final size:49
Alignment explanation
Indices: 27338--27431 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
27328 TTTATAAATA
* *
27338 TATAAATTAACATATATTTTTCATAATTATAATTTTAAAATAATAGGAT
1 TATAAATTAACATATATTTTTCAAAATTATAAATTTAAAATAATAGGAT
* * **
27387 TATAAATTAA-ATATATTTTTTAAAATTTTTAAATTTCTAATAATA
1 TATAAATTAACATATATTTTTCAAAA-TTATAAATTTAAAATAATA
27432 AGAGACAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 13 0.34
49 25 0.66
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (49 bp):
TATAAATTAACATATATTTTTCAAAATTATAAATTTAAAATAATAGGAT
Found at i:27885 original size:21 final size:19
Alignment explanation
Indices: 27842--27898 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 19
27832 TTTCTTTCAA
*
27842 ATTTTT-TATTA-CTTATT
1 ATTTTTATATTATTTTATT
27859 ATTTTTATATTATTTTATT
1 ATTTTTATATTATTTTATT
* *
27878 AATATTTTTTTTTATTTTATT
1 -AT-TTTTATATTATTTTATT
27899 CAGGTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 5 0.15
20 2 0.06
21 15 0.45
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTATATTATTTTATT
Found at i:32360 original size:17 final size:16
Alignment explanation
Indices: 32340--32388 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
32330 AAGAAAGAAA
*
32340 AAAAAAGATGAAAAAGG
1 AAAAAAGAGGAAAAA-G
*
32357 AAAAATGAGGAAAAAG
1 AAAAAAGAGGAAAAAG
*
32373 AAAAAAAAAGGAAAAA
1 -AAAAAAGAGGAAAAA
32389 AAGAAGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAAAGAGGAAAAAG
Found at i:32360 original size:39 final size:36
Alignment explanation
Indices: 32310--32389 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
32300 AGCAAAGAAA
32310 GAAAAAAGAAAAATCCAGCAAAGAAAGAAAAAAAAAGAT
1 GAAAAAAGAAAAAT-CAG-AAA-AAAGAAAAAAAAAGAT
* * *
32349 GAAAAAGGAAAAATGAGGAAAAAGAAAAAAAAAG--
1 GAAAAAAGAAAAATCAGAAAAAAGAAAAAAAAAGAT
32383 GAAAAAA
1 GAAAAAA
32390 AGAAGAAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 6 0.16
36 14 0.38
37 2 0.05
38 2 0.05
39 13 0.35
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.04
Consensus pattern (36 bp):
GAAAAAAGAAAAATCAGAAAAAAGAAAAAAAAAGAT
Found at i:34758 original size:114 final size:114
Alignment explanation
Indices: 34557--34780 Score: 349
Period size: 114 Copynumber: 2.0 Consensus size: 114
34547 GTGCCATGTT
* *
34557 CTCATAGTATAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
1 CTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGAAAGTGTTCTTTGAGTTATCTGATATG
* * *
34622 GTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTG
66 GTTTGATATGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTG
* * * *
34671 CTCATAGTAGAAATAAGAAGACCCCATAGCATTTTCTGAAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGAAAGTGTTCTTTGAGTTATCTGATATG
* *
34736 GTTTGATATGAACCCCAGAACCAATCATTAGAATTGAAAGATGAA
66 GTTTGATATGAACCCCAAAACCAATCATTAGAATTAAAAGATGAA
34781 CTGCATGATC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGAAAGTGTTCTTTGAGTTATCTGATATG
GTTTGATATGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTG
Found at i:37350 original size:22 final size:22
Alignment explanation
Indices: 37311--37365 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
37301 ATCTACACTC
* * *
37311 TTCAAAGATGATATATTCCCTT
1 TTCAAAGATGACAGATTCCCGT
* *
37333 TTTAAAGATGACAGATTCTCGT
1 TTCAAAGATGACAGATTCCCGT
37355 TTCAAAGATGA
1 TTCAAAGATGA
37366 AAGCTTTATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCGT
Found at i:38305 original size:113 final size:111
Alignment explanation
Indices: 37772--38382 Score: 777
Period size: 113 Copynumber: 5.5 Consensus size: 111
37762 GATTCAAATC
* * ** *
37772 CATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCA-TTGATGGATCAGCATTGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
37837 AGAAGAAATTCATAATGAGAAGAATTTGTTCAAC--TT--TTGAATT
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTGCTTGAATT
* * * * *
37880 CATCACTTGATGGATCAGCTTTTCCAGAGATAGTTCATAATGAGAAGAACTAATCTGAAGAAGGA
1 CATCA-TTGATGGATCAGCATTGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
37945 AGAAGAAGTTCATAATGAAAAGAATTTGTTCAACCTTTTGTTTGAATT
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTGCTTGAATT
** * *
37993 CATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTTATAATGAGAAGAACTCATCTGAAGAAG
1 CATCA-TTGATGGATCAGCATTGCCAG-G-GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* *
38058 GAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
63 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTT-GCTTGAATT
*
38108 CATCATTCGATGGATCAGCATTGCCA--GATAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATT-GATGGATCAGCATTGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
38171 AAAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTTGAATT
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTT-GCTTGAATT
* * * *
38219 CATTATTCAATGGATCAGCATTGCCAGGGCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCATT-GATGGATCAGCATTGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
38284 AGAAGAAGTTCGTAATGAGAAGAATTTGTTCAACTTTTTGCTCGAATT
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-TTTTGCTTGAATT
* * * *
38332 CATCACTTGATGGATCAACTTTTCTAGAGGA-AGTTCATAATGAGAAGAACT
1 CATCA-TTGATGGATCAGCATTGCCAG-GGAGAGTTCATAATGAGAAGAACT
38383 TGTTCGACTT
Statistics
Matches: 449, Mismatches: 40, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
108 93 0.21
109 1 0.00
111 106 0.24
113 142 0.32
114 15 0.03
115 92 0.20
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (111 bp):
CATCATTGATGGATCAGCATTGCCAGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTGCTTGAATT
Found at i:38891 original size:3 final size:3
Alignment explanation
Indices: 38883--38928 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
38873 ATTTTATTTA
* *
38883 TAT TAT TATT TAT TAT ATAT TTT TAT TAT TAA TAT TAT TAT TAT TA
1 TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
38929 CAAACAGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:40297 original size:112 final size:111
Alignment explanation
Indices: 40156--40375 Score: 275
Period size: 113 Copynumber: 2.0 Consensus size: 111
40146 TATTTTAATC
* * * *
40156 TTGTTTTAATATTTATTTATTTTTCAATATTAA-G-AAAGGGCAGTCTTAAAACAAC-TGGATGT
1 TTGTTTTAATATTTATTTATTTTTCAATATCAAGGAAAAGAGCAGTCTTAAAAC-ACGTAGAAGT
*
40218 CCATTTTCTAATATTTTTAAATAAATAAATATCCTATTTTATAAATTAA
65 CC-TTTTCTAATATTTCTAAATAAATAAATATCCTA-TTTATAAATTAA
* * **
40267 TTGTTTTAATTATTTATTTATTTTTTAATATCAAGGAAAAGAGCTGTCTTAAGGCACGTAGAAGT
1 TTGTTTTAA-TATTTATTTATTTTTCAATATCAAGGAAAAGAGCAGTCTTAAAACACGTAGAAGT
* **
40332 CCTTTTCTAATATTTCTAAATATATAAATATTTTATTTATAAAT
65 CCTTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAAT
40376 ATATAAATTA
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
111 9 0.10
112 31 0.33
113 32 0.34
114 21 0.23
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (111 bp):
TTGTTTTAATATTTATTTATTTTTCAATATCAAGGAAAAGAGCAGTCTTAAAACACGTAGAAGTC
CTTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATTAA
Found at i:46349 original size:27 final size:27
Alignment explanation
Indices: 46292--46366 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
46282 GTAGGACCAC
*
46292 TATGTCCCGTAGGACCATGTAGAACACA
1 TATGTCCCGTAGGACCA-CTAGAACACA
* *
46320 TATGTCCCATAGGACCACTAGAACGCA
1 TATGTCCCGTAGGACCACTAGAACACA
46347 TATGTCCCGTAGGACCACTA
1 TATGTCCCGTAGGACCACTA
46367 TGTCCCATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 27 0.63
28 16 0.37
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (27 bp):
TATGTCCCGTAGGACCACTAGAACACA
Found at i:46370 original size:18 final size:18
Alignment explanation
Indices: 46347--46382 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46337 CTAGAACGCA
*
46347 TATGTCCCGTAGGACCAC
1 TATGTCCCATAGGACCAC
46365 TATGTCCCATAGGACCAC
1 TATGTCCCATAGGACCAC
46383 GTAGAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (18 bp):
TATGTCCCATAGGACCAC
Found at i:52246 original size:24 final size:24
Alignment explanation
Indices: 52219--52310 Score: 141
Period size: 24 Copynumber: 3.8 Consensus size: 24
52209 TTCGATTTGA
52219 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
52243 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
52267 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
52291 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
52311 CTGATTTATG
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
23 1 0.02
24 61 0.97
25 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:53968 original size:32 final size:31
Alignment explanation
Indices: 53932--54012 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
53922 TGACATATTA
* *
53932 AGGGACTAAAATCGAA-TTAGTGTTAATAGATG
1 AGGGACTAAAATCGAACATAGTGATAAT-G-TG
* * *
53964 AGGGACTAAAATTGAACATATTGATAATGTT
1 AGGGACTAAAATCGAACATAGTGATAATGTG
53995 AGGGACTAAAATCGAACA
1 AGGGACTAAAATCGAACA
54013 GATCGATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 18 0.43
32 16 0.38
33 8 0.19
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (31 bp):
AGGGACTAAAATCGAACATAGTGATAATGTG
Found at i:54002 original size:31 final size:31
Alignment explanation
Indices: 53964--54027 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
53954 TTAATAGATG
* * * *
53964 AGGGACTAAAATTGAACATATTGATAATGTT
1 AGGGACTAAAATCGAACAGATCGATAACGTT
53995 AGGGACTAAAATCGAACAGATCGATAACGTT
1 AGGGACTAAAATCGAACAGATCGATAACGTT
54026 AG
1 AG
54028 TAACCATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (31 bp):
AGGGACTAAAATCGAACAGATCGATAACGTT
Found at i:54585 original size:2 final size:2
Alignment explanation
Indices: 54578--54606 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54568 TTAAAGTTAT
54578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54607 TAAAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57659 original size:6 final size:6
Alignment explanation
Indices: 57648--57826 Score: 358
Period size: 6 Copynumber: 29.8 Consensus size: 6
57638 TCAGCGTTTC
57648 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
57696 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
57744 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
57792 CATATA CATATA CATATA CATATA CATATA CATAT
1 CATATA CATATA CATATA CATATA CATATA CATAT
57827 GAAATCTGGG
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 173 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
CATATA
Found at i:58494 original size:18 final size:19
Alignment explanation
Indices: 58450--58496 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
58440 ATAAATAAAA
58450 TTTAAATATATATATATAAT
1 TTTAAA-ATATATATATAAT
* *
58470 TAATAAAATATAT-TATTAT
1 T-TTAAAATATATATATAAT
58489 TTTAAAAT
1 TTTAAAAT
58497 TGGATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 7 0.30
21 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAAATATATATATAAT
Found at i:59767 original size:2 final size:2
Alignment explanation
Indices: 59760--59795 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59750 TAAATAAAAC
59760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59796 TGGTCGGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73200 original size:28 final size:28
Alignment explanation
Indices: 73168--73223 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
73158 ATTCATGCAT
73168 CAAATCTGCTAACAAACAACAAAATACG
1 CAAATCTGCTAACAAACAACAAAATACG
73196 CAAATCTGCTAACAAACAACAAAATACG
1 CAAATCTGCTAACAAACAACAAAATACG
73224 ACATTCAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.25, G:0.07, T:0.14
Consensus pattern (28 bp):
CAAATCTGCTAACAAACAACAAAATACG
Found at i:76545 original size:20 final size:21
Alignment explanation
Indices: 76520--76571 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
76510 TTTTCCCAAT
*
76520 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
76540 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
76561 TCGCAATGCGA
1 TCGCAATGCGA
76572 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:76585 original size:20 final size:20
Alignment explanation
Indices: 76560--76673 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
76550 AATTGGAAAA
*
76560 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
76580 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * * *
76600 ATCACAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
76621 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
76641 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
76661 TTCGCAACGCGAT
1 ATCGCAACGCGAT
76674 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.80
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:76673 original size:61 final size:61
Alignment explanation
Indices: 76557--76673 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
76547 GCGAATTGGA
* * * * *
76557 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCACAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGATAATAC
* * * *
76618 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGAT
76674 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGATAATAC
Found at i:77279 original size:19 final size:19
Alignment explanation
Indices: 77232--77273 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
77222 ACGAGAGAAT
*
77232 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
77251 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
77270 CGCA
1 CGCA
77274 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:77291 original size:19 final size:19
Alignment explanation
Indices: 77269--77400 Score: 121
Period size: 19 Copynumber: 7.1 Consensus size: 19
77259 GAAACAAAAA
*
77269 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
77288 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
77307 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
77321 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
77340 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
77359 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
77379 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
77399 TC
1 TC
77401 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
16 2 0.02
17 2 0.02
19 48 0.51
20 32 0.34
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:77518 original size:25 final size:24
Alignment explanation
Indices: 77464--77518 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
77454 TTATGTTTAT
* *
77464 TGTTTTTGGTATATCTTGACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
77488 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
77514 TGTTT
1 TGTTT
77519 ATTGTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:79478 original size:21 final size:21
Alignment explanation
Indices: 79454--79520 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
79444 TCATTCCTCG
79454 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
79475 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
79496 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
79517 AGAG
1 AGAG
79521 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:79478 original size:42 final size:42
Alignment explanation
Indices: 79402--79520 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
79392 GACTCGCCTG
* * * * * * *
79402 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
79444 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
79486 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
79521 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:80897 original size:14 final size:14
Alignment explanation
Indices: 80877--80913 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
80867 GATTGTTTAA
80877 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
80890 TGTGATTTGTAAAAG
1 T-TGATTTGTAAAAG
80905 TTGATTTGT
1 TTGATTTGT
80914 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:81081 original size:19 final size:19
Alignment explanation
Indices: 81020--81072 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
81010 AAAAAGTACT
*
81020 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
81039 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
81058 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
81073 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:81123 original size:33 final size:32
Alignment explanation
Indices: 81081--81207 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
81071 ATTAAATTCG
81081 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
81114 CGTTGCGATTTTCATTTCGCATTACGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
81147 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
81180 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
81208 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:81171 original size:66 final size:66
Alignment explanation
Indices: 81074--81202 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
81064 ACGCGAAATT
*
81074 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
81139 G
66 G
* *
81140 AAATTAGCGTTGCGATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATT
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATT
81203 GCGATAGTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
G
Found at i:83731 original size:24 final size:24
Alignment explanation
Indices: 83704--83750 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
83694 CAAAATCCGT
*
83704 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
83728 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
83751 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:83759 original size:24 final size:24
Alignment explanation
Indices: 83708--83759 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
83698 ATCCGTGTAT
* ** *
83708 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
83732 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
83756 TGAC
1 TGAC
83760 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:84821 original size:20 final size:20
Alignment explanation
Indices: 84796--84873 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
84786 ATTCATTTGA
84796 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
84816 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
84836 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
84856 ATATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
84874 CGCAATGCGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:84933 original size:19 final size:19
Alignment explanation
Indices: 84892--84993 Score: 115
Period size: 19 Copynumber: 5.6 Consensus size: 19
84882 GAAATGAAAA
84892 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
84908 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
84925 TCGCTTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
84944 TCACTTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
84963 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
84982 TCGCATTGCGAT
1 TCGCATTGCGAT
84994 AGTCTGTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
14 11 0.15
16 3 0.04
17 3 0.04
19 58 0.77
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:85100 original size:14 final size:14
Alignment explanation
Indices: 85081--85117 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
85071 CATCAATTAA
85081 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
85095 ACAAATCATCTTTT
1 ACAAATCAACATTT
85109 ACAAATCAA
1 ACAAATCAA
85118 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:87006 original size:20 final size:19
Alignment explanation
Indices: 86983--87050 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
86973 GAAACTTAAA
86983 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
87003 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
87023 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
87042 ATCGCAACG
1 ATCGCAACG
87051 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:87058 original size:14 final size:14
Alignment explanation
Indices: 87039--87096 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
87029 ATGCGAAATG
87039 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
87053 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
87069 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
87085 AAAATCGCAACG
1 AAAATCGCAACG
87097 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:87081 original size:32 final size:33
Alignment explanation
Indices: 87023--87101 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
87013 GGAAATGGCT
*
87023 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
87056 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
87088 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
87102 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:87151 original size:14 final size:14
Alignment explanation
Indices: 87132--87187 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
87122 TCATTTCGCG
87132 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
*
87146 TTGCGATTTCATTTCGCA
1 TTGCGATTT--TGT--CA
*
87164 TTGCGATTTTGTCG
1 TTGCGATTTTGTCA
87178 TTGCGATTTT
1 TTGCGATTTT
87188 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 20 0.57
16 4 0.11
18 11 0.31
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCA
Found at i:87161 original size:32 final size:33
Alignment explanation
Indices: 87111--87203 Score: 161
Period size: 32 Copynumber: 2.8 Consensus size: 33
87101 ACACAAATCG
*
87111 CATTGCGATTTTCATTTCGCGTTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
87144 CATTGCGA-TTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
*
87176 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CATTGCGATTTTCATTTCGCATTGCGAT
87204 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.53
33 27 0.47
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:87222 original size:20 final size:19
Alignment explanation
Indices: 87188--87242 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
87178 TTGCGATTTT
*
87188 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
87207 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
87227 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
87243 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:87750 original size:18 final size:18
Alignment explanation
Indices: 87724--87768 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
87714 GTCGATCAGA
*
87724 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
87742 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
87760 TGATGGCTC
1 TGATGGCTC
87769 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:89420 original size:22 final size:22
Alignment explanation
Indices: 89390--89433 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
89380 GATGGAGATA
*
89390 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
89412 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
89434 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:89647 original size:20 final size:20
Alignment explanation
Indices: 89621--89693 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
89611 GATTATGTAT
89621 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
89641 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
89661 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
89681 TATCTCGTTGCGA
1 TATCGCGTTGCGA
89694 TTTTGTATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:89754 original size:41 final size:41
Alignment explanation
Indices: 89724--89819 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
89714 ATAGTCAGTA
* * * *
89724 TCGCATTGCGATTTTCCCAATTTGCGTTGCGATTTACTTAT
1 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
* * *
89765 TTGCATTGCAATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
89806 TCGCATTGCGAATT
1 TCGCATTGC-AATT
89820 GGGAAAATCG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 46 0.92
42 4 0.08
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.43
Consensus pattern (41 bp):
TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:89755 original size:21 final size:21
Alignment explanation
Indices: 89729--89799 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
89719 CAGTATCGCA
89729 TTGCGATTTTCCCAATTTGCG
1 TTGCGATTTTCCCAATTTGCG
* ** *
89750 TTGCGA-TTTACTTATTTGCA
1 TTGCGATTTTCCCAATTTGCG
* *
89770 TTGCAATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTTGCG
89791 TTGCGATTT
1 TTGCGATTT
89800 ACTTATTCGC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (21 bp):
TTGCGATTTTCCCAATTTGCG
Found at i:89768 original size:20 final size:20
Alignment explanation
Indices: 89750--89816 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
89740 CCAATTTGCG
*
89750 TTGCGATTTACTTATTTGCA
1 TTGCGATTTACTTATTCGCA
* * ** *
89770 TTGCAATTTTCCCAATTCGCG
1 TTGCGA-TTTACTTATTCGCA
89791 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
89811 TTGCGA
1 TTGCGA
89817 ATTGGGAAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.43
Consensus pattern (20 bp):
TTGCGATTTACTTATTCGCA
Found at i:92050 original size:21 final size:21
Alignment explanation
Indices: 91999--92051 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
91989 ATTATGACTA
91999 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
* **
92020 TTGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
92041 TCGCAATGCGA
1 TCGCAATGCGA
92052 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:92088 original size:21 final size:20
Alignment explanation
Indices: 92041--92092 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
92031 TTTTCCCAAT
*
92041 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
92061 TCACAATGCGAATTTTGAAAA
1 TCGCAATGCGAA-TAAGAAAA
92082 TCGCAATGCGA
1 TCGCAATGCGA
92093 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:92127 original size:41 final size:41
Alignment explanation
Indices: 92038--92174 Score: 102
Period size: 41 Copynumber: 3.3 Consensus size: 41
92028 CGATTTTCCC
* * * * *
92038 AATTCGCAATGCGAAT-AAGTAAATCACAATGCGAATTTTGA-
1 AATTCGCAATGCGATTGACGT-ATTCGCAATGC-AATTTTCAT
* *
92079 AAATCGCAATGCGATACTGAC-TA-TCGCAATGCAATTTTCCT
1 AATTCGCAATGCGAT--TGACGTATTCGCAATGCAATTTTCAT
* * ** *
92120 AATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCAT
1 AATTCGCAATGCGATTGACGTATTCGCAATGCAATTTTCAT
92161 AATTCGCAATGCGA
1 AATTCGCAATGCGA
92175 ATTAGGAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 61 0.80
42 1 0.01
43 2 0.03
44 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (41 bp):
AATTCGCAATGCGATTGACGTATTCGCAATGCAATTTTCAT
Found at i:92136 original size:21 final size:21
Alignment explanation
Indices: 92102--92174 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
92092 ATACTGACTA
* *
92102 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
92123 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
92143 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
92164 TCGCAATGCGA
1 TCGCAATGCGA
92175 ATTAGGAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:92210 original size:20 final size:20
Alignment explanation
Indices: 92164--92235 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
92154 TTTTCATAAT
* *
92164 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
92185 TTGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
92205 TCGCAATACGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
92225 TCGCAATGCGA
1 TCGCAATGCGA
92236 TTTACATAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.07
20 28 0.67
21 11 0.26
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:92817 original size:19 final size:19
Alignment explanation
Indices: 92793--92836 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
92783 GCAACGAGAG
*
92793 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
92812 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
92831 AATCGC
1 AATCGC
92837 GTTGCGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:92853 original size:14 final size:14
Alignment explanation
Indices: 92836--92924 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
92826 ACCAAAATCG
92836 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
92850 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
92869 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
92883 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
92902 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
92916 CGTTGCGAT
1 CGTTGCGAT
92925 AGTCATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 30 0.49
16 5 0.08
17 5 0.08
19 21 0.34
ACGTcount: A:0.10, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:92875 original size:33 final size:33
Alignment explanation
Indices: 92833--92948 Score: 205
Period size: 33 Copynumber: 3.5 Consensus size: 33
92823 GAAACCAAAA
**
92833 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
92866 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
92899 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
92932 TCCGCGTTGCGATTCTC
1 T-CGCGTTGCGATTCTC
92949 ATTATCTCGT
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
33 65 0.81
34 15 0.19
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.41
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:92950 original size:20 final size:19
Alignment explanation
Indices: 92850--92965 Score: 90
Period size: 20 Copynumber: 6.5 Consensus size: 19
92840 GCGATTCTCT
*
92850 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTCTCATTTCG
92869 CGTTGCGATTCTC---T--
1 CGTTGCGATTCTCATTTCG
**
92883 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTCTCATTTCG
92902 CGTTGCGATTCTC---T--
1 CGTTGCGATTCTCATTTCG
**
92916 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTT-CG
*
92936 CGTTGCGATTCTCATTATCT
1 CGTTGCGATTCTCATT-TCG
92956 CGTTGCGATT
1 CGTTGCGATT
92966 TTTATTTCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
14 22 0.29
16 2 0.03
17 2 0.03
19 23 0.31
20 25 0.33
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.41
Consensus pattern (19 bp):
CGTTGCGATTCTCATTTCG
Found at i:93710 original size:23 final size:23
Alignment explanation
Indices: 93684--93728 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
93674 CACCACAGCT
*
93684 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
93707 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
93729 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:93966 original size:149 final size:149
Alignment explanation
Indices: 93707--94010 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
93697 CGAAGTGCCC
*
93707 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
93772 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
93837 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
93856 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
93921 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
93986 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
94005 CGTAGA
1 CGTAGA
94011 CCCTCGACTC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:94842 original size:18 final size:18
Alignment explanation
Indices: 94821--94855 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
94811 TCCCATCTAG
94821 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
94839 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
94856 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:95413 original size:20 final size:21
Alignment explanation
Indices: 95373--95415 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
95363 TTTTCCTTTA
95373 GGGGGAATCGGTTCCCCCCTAT
1 GGGGGAATCGGTT-CCCCCTAT
*
95395 GGGGGTATCGGTT-CCCCTAT
1 GGGGGAATCGGTTCCCCCTAT
95415 G
1 G
95416 ACATACTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.12, C:0.28, G:0.35, T:0.26
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCCTAT
Found at i:95463 original size:21 final size:21
Alignment explanation
Indices: 95439--95483 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
95429 TCTTGTTCGT
* *
95439 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
95460 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
95481 TTG
1 TTG
95484 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:98640 original size:23 final size:23
Alignment explanation
Indices: 98614--98658 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
98604 CACCATAGCT
*
98614 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
98637 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
98659 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:98896 original size:149 final size:149
Alignment explanation
Indices: 98639--98940 Score: 586
Period size: 149 Copynumber: 2.0 Consensus size: 149
98629 AAGTGCCCCG
*
98639 TAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
98704 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
98769 TATGTCCCGAAGAACCGCA
131 TATGTCCCGAAGAACCGCA
98788 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
98853 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
*
98918 TATGTCCCGAAGAACCGCG
131 TATGTCCCGAAGAACCGCA
98937 TAGA
1 TAGA
98941 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
TATGTCCCGAAGAACCGCA
Found at i:99765 original size:18 final size:18
Alignment explanation
Indices: 99744--99778 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
99734 TCCCATCTAG
99744 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
99762 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
99779 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:100386 original size:21 final size:21
Alignment explanation
Indices: 100362--100406 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100352 TCTTGTTCGT
* *
100362 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
100383 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
100404 TTG
1 TTG
100407 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:103226 original size:21 final size:21
Alignment explanation
Indices: 103202--103271 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
103192 CTATCATTCC
103202 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGTCCCCTCCCACCGT
* * ** *
103223 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGT
* *
103244 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCACCGT
103265 TCAAGAG
1 TCAAGAG
103272 CCCGATTCAC
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCACCGT
Found at i:103229 original size:42 final size:42
Alignment explanation
Indices: 103153--103271 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
103143 GACTCGCTTG
* * * * * *
103153 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
103195 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
103237 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTC-CTCAAGA-GTCCCCTCCCACCGTTCAAGAG
103272 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.03
42 61 0.94
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:104648 original size:14 final size:14
Alignment explanation
Indices: 104629--104664 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
104619 ATTGTTTAAT
104629 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
104643 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
104657 TGATTTGT
1 TGATTTGT
104665 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:104808 original size:14 final size:14
Alignment explanation
Indices: 104789--104845 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
104779 GCGAAATGAA
104789 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
104803 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
104822 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
104836 AATCACAACG
1 AATCGCAACG
104846 CGAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:104816 original size:33 final size:33
Alignment explanation
Indices: 104771--104860 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
104761 AAAAAGTACT
*
104771 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
104804 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
104837 ATCACAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
104861 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:104830 original size:19 final size:19
Alignment explanation
Indices: 104771--104831 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
104761 AAAAAGTACT
*
104771 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
104790 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
104804 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
104823 ATCGCAACG
1 ATCGCAACG
104832 AGAGAATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:104878 original size:19 final size:19
Alignment explanation
Indices: 104856--104986 Score: 67
Period size: 19 Copynumber: 7.7 Consensus size: 19
104846 CGAAATTAAA
*
104856 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
104875 TTCGCATTGTGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
104891 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
104908 TTCGCATTGC-A----AAA
1 TTCGCATTGCGATTTTCAT
*
104922 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
104941 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* * *
104957 CTCG--TTGTGATTTTCGT
1 TTCGCATTGCGATTTTCAT
104974 TTCGCATTGCGAT
1 TTCGCATTGCGAT
104987 AGTAATTTTC
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 20 0.25
15 1 0.01
16 13 0.16
17 13 0.16
18 1 0.01
19 32 0.40
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:104930 original size:66 final size:66
Alignment explanation
Indices: 104853--104983 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
104843 ACGCGAAATT
*
104853 AAATTCGCGTTGCGATTTTCATTTCGCATTGTGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
104918 A
66 A
* * *
104919 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCGTTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
104984 GATAGTAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
A
Found at i:104983 original size:33 final size:33
Alignment explanation
Indices: 104860--104986 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
104850 ATTAAATTCG
* *
104860 CGTTGCGATTTTCATTTCGCATTGTGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* * *
104893 CGTTGCGATTTTCATTTCGCATTGCAAAAT-TCG
1 CGTTGCGATTTTCATTTCGCATTGC-GATTCTCT
104926 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
104959 CGTTGTGATTTTCGTTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
104987 AGTAATTTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 2 0.02
33 78 0.95
34 2 0.02
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:107290 original size:3 final size:3
Alignment explanation
Indices: 107282--107326 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
107272 CGGGGACTTT
* * * *
107282 TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTT TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
107327 AGGATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (3 bp):
TTC
Found at i:107295 original size:12 final size:12
Alignment explanation
Indices: 107278--107326 Score: 89
Period size: 12 Copynumber: 4.1 Consensus size: 12
107268 TCTTCGGGGA
107278 CTTTTTCTTCTT
1 CTTTTTCTTCTT
107290 CTTTTTCTTCTT
1 CTTTTTCTTCTT
107302 CTTTTTCTTCTT
1 CTTTTTCTTCTT
*
107314 TTTTTTCTTCTT
1 CTTTTTCTTCTT
107326 C
1 C
107327 AGGATTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:107535 original size:24 final size:24
Alignment explanation
Indices: 107501--107554 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
107491 CTGAAACATC
*
107501 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
107525 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
107549 ATCAAA
1 ATCAAA
107555 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:108361 original size:20 final size:20
Alignment explanation
Indices: 108333--108370 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108323 TGCGATTTTC
*
108333 CTAATTCGCAATGCGAATAA
1 CTAAATCGCAATGCGAATAA
108353 CTAAATCGCAATGCGAAT
1 CTAAATCGCAATGCGAAT
108371 TTGGAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (20 bp):
CTAAATCGCAATGCGAATAA
Found at i:108463 original size:20 final size:20
Alignment explanation
Indices: 108374--108465 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
108364 TGCGAATTTG
* *
108374 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
108394 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
108414 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
108435 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
108455 GAAAATCGCAA
1 GAAAATCGCAA
108466 TCATGTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:108774 original size:20 final size:20
Alignment explanation
Indices: 108679--108766 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
108669 CAACGGGGAA
108679 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
108699 ATCGTAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
108719 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
*
108739 ATCGTAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
108759 ATCGCAAC
1 ATCGCAAC
108767 TAGAAAATTG
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
19 5 0.10
20 42 0.81
21 5 0.10
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:108828 original size:20 final size:20
Alignment explanation
Indices: 108800--108842 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
108790 GCGTTGCGAT
*
108800 TTTCTTGTTGCGATAGTCAG
1 TTTCGTGTTGCGATAGTCAG
*
108820 TTTCGTGTTGCGATAGTCTG
1 TTTCGTGTTGCGATAGTCAG
108840 TTT
1 TTT
108843 TGCCTTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAG
Found at i:110896 original size:19 final size:20
Alignment explanation
Indices: 110853--110896 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
110843 CACAACGCGA
*
110853 AAATGACTATCGCAATGTGG
1 AAATGACTATCGCAATGTCG
*
110873 AAATGGCTATCGCAATG-CG
1 AAATGACTATCGCAATGTCG
110892 AAATG
1 AAATG
110897 CAAATTGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (20 bp):
AAATGACTATCGCAATGTCG
Found at i:110927 original size:33 final size:32
Alignment explanation
Indices: 110881--110973 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
110871 GGAAATGGCT
*
110881 ATCGCAATGCGAAATGCAAATTGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
* *
110914 ATCGCAATACGAAATGAAAATCGCAACGGCAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
110947 ATCGCAATGCGAAATGAAATCGCAACG
1 ATCGCAATGCGAAATGAAATCGCAACG
110974 CGAAACACAA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 11 0.20
33 44 0.80
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:110995 original size:19 final size:18
Alignment explanation
Indices: 110945--110995 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
110935 CGCAACGGCA
**
110945 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAAAC
*
110963 AAATCGCAACGCGAAACAC
1 AAATCGCAATGCGAAA-AC
*
110982 AAATCGCATTGCGA
1 AAATCGCAATGCGA
110996 CTTTCATTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAAAC
Found at i:111007 original size:19 final size:18
Alignment explanation
Indices: 110985--111048 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
110975 GAAACACAAA
110985 TCGCATTGCGACTTTCATT
1 TCGCATTGCGA-TTTCATT
*
111004 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
111020 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
111037 TCGCATTGCGAT
1 TCGCATTGCGAT
111049 AGCCATTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 4 0.11
19 17 0.45
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:111067 original size:20 final size:20
Alignment explanation
Indices: 111033--111077 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
111023 TTGCGATTTT
111033 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
111052 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
111072 CATTTC
1 CATTTC
111078 ATGTTGCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:111085 original size:19 final size:20
Alignment explanation
Indices: 111042--111086 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
111032 TCATTTCGCA
*
111042 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* *
111062 TTGCGATAGTCATTT-CATG
1 TTGCGATAGCCATTTCCACG
111081 TTGCGA
1 TTGCGA
111087 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:111167 original size:17 final size:16
Alignment explanation
Indices: 111140--111182 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
111130 GCATTACTTC
*
111140 AACAAAGACAAAAACA
1 AACAAAAACAAAAACA
* *
111156 AACCAAAAACAAATACT
1 AA-CAAAAACAAAAACA
111173 AACAAAAACA
1 AACAAAAACA
111183 GTTTAGCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.72, C:0.21, G:0.02, T:0.05
Consensus pattern (16 bp):
AACAAAAACAAAAACA
Found at i:111586 original size:17 final size:18
Alignment explanation
Indices: 111561--111604 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
111551 GTCGATCAGA
*
111561 TGATGGCTCT-GGTGAGG
1 TGATGGCTCTGGGCGAGG
*
111578 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
111596 TGATGGCTC
1 TGATGGCTC
111605 CCGAAGTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.14, C:0.16, G:0.43, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:112956 original size:20 final size:20
Alignment explanation
Indices: 112900--112956 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
112890 AATAGTTTCT
*
112900 GAAAATGA--ATCGCAACAC
1 GAAAATGACTATCGCAACGC
112918 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
112938 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
112957 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 8 0.24
20 26 0.76
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:113244 original size:22 final size:22
Alignment explanation
Indices: 113217--113260 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
113207 GATGGAGATA
113217 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
113239 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
113261 TGAGAGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:113469 original size:20 final size:20
Alignment explanation
Indices: 113444--113495 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
113434 ATTATGTATT
113444 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
113464 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
113484 ATCTCGTTGCGA
1 ATCGCGTTGCGA
113496 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:113556 original size:41 final size:41
Alignment explanation
Indices: 113464--113558 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
113454 GAAAGTCAGA
* * * * ** *
113464 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGATAGCCAGTATCGCATTGCGATTTTCCAAT
*
113505 ATCGCATTGCGATAGCCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGCCAGTATCGCATTGCGATTTT-CCAAT
113547 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
113559 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGCCAGTATCGCATTGCGATTTTCCAAT
Found at i:114623 original size:192 final size:192
Alignment explanation
Indices: 114291--114675 Score: 729
Period size: 192 Copynumber: 2.0 Consensus size: 192
114281 TATTTATTTG
114291 TTTATTTTTTCCTGCTTTTAATTGATTATGTTCGTGGTGTTTTTTTTCTTCCTTCCATTGATTTT
1 TTTATTTTTTCCTGCTTTTAATTGATTATGTTCGTGGTGTTTTTTTTCTTCCTTCCATTGATTTT
114356 GTATTGGTCGTTAAATTAGATGTTTGGAGTGTTAAAGTTCAAAGGATGACAACCAACTTTGAAAA
66 GTATTGGTCGTTAAATTAGATGTTTGGAGTGTTAAAGTTCAAAGGATGACAACCAACTTTGAAAA
114421 TGGTTTTTCAAAGTTTTGGTAAATATTTTTTTT-AAAATATTTTTCAAAGTTTGGTAGATGTT
131 TGGTTTTTCAAAG-TTTGGTAAATATTTTTTTTAAAAATATTTTTCAAAGTTTGGTAGATGTT
114483 TTTATTTTTTCCTGCTTTTAATTGATTATGTTCGTGGTGTTTTTTTTCTTCCTTCCATTGATTTT
1 TTTATTTTTTCCTGCTTTTAATTGATTATGTTCGTGGTGTTTTTTTTCTTCCTTCCATTGATTTT
114548 GTATTGGTCGTTAAATTAGATGTTTGGAGTGTTAAAAGTTCAAAGGATGACAACCAACTTTGAAA
66 GTATTGGTCGTTAAATTAGATGTTTGGAGTGTT-AAAGTTCAAAGGATGACAACCAACTTTGAAA
*
114613 ATGG-TTTTCAAAGTTTGGTAAATATTTTTTTTAAAAATTTTTTTCAAAGTTTGGTAGATGTT
130 ATGGTTTTTCAAAGTTTGGTAAATATTTTTTTTAAAAATATTTTTCAAAGTTTGGTAGATGTT
114675 T
1 T
114676 GTTGAAAATA
Statistics
Matches: 190, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
191 19 0.10
192 136 0.72
193 35 0.18
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.49
Consensus pattern (192 bp):
TTTATTTTTTCCTGCTTTTAATTGATTATGTTCGTGGTGTTTTTTTTCTTCCTTCCATTGATTTT
GTATTGGTCGTTAAATTAGATGTTTGGAGTGTTAAAGTTCAAAGGATGACAACCAACTTTGAAAA
TGGTTTTTCAAAGTTTGGTAAATATTTTTTTTAAAAATATTTTTCAAAGTTTGGTAGATGTT
Found at i:115191 original size:133 final size:132
Alignment explanation
Indices: 114950--115218 Score: 493
Period size: 133 Copynumber: 2.0 Consensus size: 132
114940 CAATTTCGGG
114950 TATTATTTTTCCGCTTTTATTTCGCATTCTCACTAATCTGGTTATAGGGAAATTACCCGTACTCG
1 TATTATTTTTCCGCTTTTATTTCGCATTCTCACTAATCTGGTTATAGGGAAATTACCCGTACTCG
*
115015 GTTTATTTCCTAACAACTGGCATCAGAGCTTTTGGTTGCGAATTTTGTCAATTTTTTTACGAGGT
66 GTTTATTTCCTAACAACTGGCATCAAAGCTTTTGGTTGCGAATTTTGTCAA-TTTTTTACGAGGT
115080 TAC
130 TAC
*
115083 TATTATTTTTCCGCTTTTATTTCGCATTCTCACTAATCTGGTTATAGGGAAATTACTCGTACTCG
1 TATTATTTTTCCGCTTTTATTTCGCATTCTCACTAATCTGGTTATAGGGAAATTACCCGTACTCG
* *
115148 GTTTATTTCCTAACAACTGGCATCAAAGCTTTTGGTTGTGAATTTTGTCAATTTTTTGCGAGGTT
66 GTTTATTTCCTAACAACTGGCATCAAAGCTTTTGGTTGCGAATTTTGTCAATTTTTTACGAGGTT
115213 AC
131 AC
115215 TATT
1 TATT
115219 CATTACTATT
Statistics
Matches: 132, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
132 19 0.14
133 113 0.86
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (132 bp):
TATTATTTTTCCGCTTTTATTTCGCATTCTCACTAATCTGGTTATAGGGAAATTACCCGTACTCG
GTTTATTTCCTAACAACTGGCATCAAAGCTTTTGGTTGCGAATTTTGTCAATTTTTTACGAGGTT
AC
Found at i:119248 original size:35 final size:36
Alignment explanation
Indices: 119209--119279 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
119199 TGGCAACCAA
119209 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
119244 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
119280 GTCGAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:125143 original size:25 final size:25
Alignment explanation
Indices: 125115--125178 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
125105 AATATTTTAT
125115 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
125140 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
*
125165 ATATTATATATATA
1 ATATAATATATATA
125179 TATATAAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:125150 original size:34 final size:32
Alignment explanation
Indices: 125103--125185 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 32
125093 CCCAAACCCG
*
125103 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATAT--AAAATAT
125137 AAAATATTATATATATAATTAATATAAAATAT
1 AAAATATTATATATATAATTAATATAAAATAT
* *
125169 TATATA-TATATATATAA
1 AAAATATTATATATATAA
125186 GAGAAAATCG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.24
32 11 0.24
34 24 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAATATTATATATATAATTAATATAAAATAT
Found at i:125192 original size:27 final size:25
Alignment explanation
Indices: 125137--125193 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
125127 TAAAAAATAT
* *
125137 AAAATATTATATATATAATTAATAT
1 AAAATATTATATATATAATTAAGAG
125162 AAAATATTATATATATATATATAAGAG
1 AAAATATTATATATATA-AT-TAAGAG
125189 AAAAT
1 AAAAT
125194 CGCCTCAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.61
26 2 0.07
27 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
AAAATATTATATATATAATTAAGAG
Found at i:125353 original size:21 final size:20
Alignment explanation
Indices: 125267--125424 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
125257 AAATGACCAA
**
125267 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
125286 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
125306 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
125326 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
125347 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* ***
125368 CAAATTCGCATTACGATTTT
1 CAAAATCGCAACGCGATTTT
* *
125388 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
125409 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
125425 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:125453 original size:20 final size:20
Alignment explanation
Indices: 125391--125660 Score: 269
Period size: 20 Copynumber: 13.5 Consensus size: 20
125381 CGATTTTCCA
* ** *
125391 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
125411 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
125431 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125451 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125471 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125491 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125511 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125531 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
125551 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
125571 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
125591 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
125611 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
125631 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
125651 AAATCACAAC
1 AAATCGCAAC
125661 ACTGAAATTT
Statistics
Matches: 210, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 206 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:126381 original size:24 final size:24
Alignment explanation
Indices: 126342--126388 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
126332 AAATTTGGTC
126342 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
126366 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
126389 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:128914 original size:33 final size:34
Alignment explanation
Indices: 128863--129073 Score: 197
Period size: 33 Copynumber: 6.2 Consensus size: 34
128853 CGGAAATTAC
* *
128863 AATCGTAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
128896 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
* * *
128930 AATCGCAACGA-GAGAATCACAATACGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
128963 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
128996 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
129034 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
129067 AATCGCA
1 AATCGCA
129074 TTGCGATTCT
Statistics
Matches: 152, Mismatches: 13, Indels: 26
0.80 0.07 0.14
Matches are distributed among these distances:
32 1 0.01
33 92 0.61
34 29 0.19
35 5 0.03
36 4 0.03
37 2 0.01
38 19 0.12
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:128971 original size:19 final size:19
Alignment explanation
Indices: 128877--129079 Score: 185
Period size: 19 Copynumber: 11.7 Consensus size: 19
128867 GTAACGAGAG
128877 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
128896 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
128910 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
128930 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
* *
128944 AATCACAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
128963 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
128982 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
128996 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
129015 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
129034 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
129048 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
129067 AATCGCATTGCGA
1 AATCGCAATGCGA
129080 TTCTCCCGTT
Statistics
Matches: 150, Mismatches: 13, Indels: 42
0.73 0.06 0.20
Matches are distributed among these distances:
14 41 0.27
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 76 0.51
20 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:128990 original size:52 final size:52
Alignment explanation
Indices: 128905--129079 Score: 305
Period size: 52 Copynumber: 3.3 Consensus size: 52
128895 AAATCCCAAC
* *
128905 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATACGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
128958 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
129010 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
129062 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
129080 TTCTCCCGTT
Statistics
Matches: 118, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 102 0.86
53 16 0.14
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:129128 original size:19 final size:19
Alignment explanation
Indices: 129088--129185 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
129078 GATTCTCCCG
129088 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
129108 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
129127 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
129141 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
129160 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
129179 TTGCGAT
1 TTGCGAT
129186 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:129182 original size:52 final size:53
Alignment explanation
Indices: 129069--129185 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
129059 GAAATTAAAA
129069 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
129122 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
129174 TCGCATTGCGAT
1 TCGCATTGCGAT
129186 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:129311 original size:14 final size:14
Alignment explanation
Indices: 129292--129328 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
129282 CATCAATTAC
129292 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
129306 ACAAATCATCTTTT
1 ACAAATCAACTTTT
129320 ACAAATCAA
1 ACAAATCAA
129329 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:131291 original size:19 final size:19
Alignment explanation
Indices: 131251--131385 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
131241 TAGTTTACTT
* *
131251 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
131271 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
131290 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
131309 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
131323 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
131342 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
131356 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
131375 TCGCAATGCGA
1 TCGCAACGCGA
131386 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:131326 original size:14 final size:14
Alignment explanation
Indices: 131307--131363 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
131297 GCGAAATGAA
*
131307 AATCGCAACGACAG
1 AATCGCAACGAAAG
131321 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
131338 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
131354 AATCGCAACG
1 AATCGCAACG
131364 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:131330 original size:33 final size:33
Alignment explanation
Indices: 131288--131380 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
131278 GCGAAACCAA
*
131288 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
131321 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
131354 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
131381 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:131377 original size:52 final size:54
Alignment explanation
Indices: 131251--131385 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
131241 TAGTTTACTT
*
131251 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
131309 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
131356 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
131386 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:131403 original size:19 final size:19
Alignment explanation
Indices: 131381--131509 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
131371 AAAATCGCAA
131381 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
131400 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
131414 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
131433 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
131447 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
131466 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
131485 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
131505 TGCGA
1 TGCGA
131510 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:131423 original size:33 final size:33
Alignment explanation
Indices: 131381--131472 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
131371 AAAATCGCAA
131381 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
131414 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
131447 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
131473 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Done.