Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 3 of 23
Found at i:356548 original size:106 final size:104
Alignment explanation
Indices: 356247--356698 Score: 646
Period size: 106 Copynumber: 4.3 Consensus size: 104
356237 TTGGGAAGGA
* * *
356247 AAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAAGAGTGCCACGAAGTTGTGGGCTTT
* *
356310 -AAAAGAAAAA-AGTGCCACAGAGTTGTGGGCTTTGAAAAGGG
64 GAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
* *
356351 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACGGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAA-AGAAAAAGAGTGCCACGAAGTTGTGGGCTTT
* *
356414 AAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
64 GAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
356457 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAAGAGTGCCACGAAGTTGTGGGCTTTG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA-AAAGAGTGCCACGAAGTTGTGGGCTTTG
356522 AAAAGAAGAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
65 AAAAGAA-AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
356563 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAAGAGTGCCACGAAGTTGTGGGCTTTG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA-AAAGAGTGCCACGAAGTTGTGGGCTTTG
356628 AAAAGAAGAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
65 AAAAGAA-AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
356669 AAGAAGGTGCCACGGAGTTGTGGACTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGA
356699 GACAAAATGC
Statistics
Matches: 325, Mismatches: 12, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
104 28 0.09
105 56 0.17
106 185 0.57
107 34 0.10
108 22 0.07
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (104 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTGA
AAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:356756 original size:62 final size:63
Alignment explanation
Indices: 356642--356820 Score: 199
Period size: 62 Copynumber: 2.8 Consensus size: 63
356632 GAAGAAAGAG
* * * * *
356642 TGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGG-TGCCACGGAGTTGTGGACTTTGAGACA-A-
1 TGCCACTGAGTCGTGGACTTT--AAAG-AGAAGGATGCCACTGAGTCGTGGACTTTGAG-CAGAG
356704 AA
62 AA
* *
356706 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
356769 TGCCACTGAGTCGTGGACTTT---GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAG-GA-TGCCACTGAGTCGTGGACTTT
356821 TTTTGACTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
60 6 0.06
61 10 0.10
62 46 0.45
63 22 0.22
64 18 0.18
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
Found at i:356776 original size:31 final size:31
Alignment explanation
Indices: 356676--356820 Score: 172
Period size: 31 Copynumber: 4.7 Consensus size: 31
356666 AAGAAGAAGG
* * *
356676 TGCCACGGAGTTGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
356706 TGCCACTGAGTCGTGGACTTTAAAG-AGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GAT
*
356738 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
356769 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
356800 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
356821 TTTTGACTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.01
30 21 0.21
31 56 0.55
32 22 0.22
33 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:356854 original size:8 final size:9
Alignment explanation
Indices: 356829--356853 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
356819 TTTTTTGACT
356829 TTTTTTTTA
1 TTTTTTTTA
356838 TTTTTTTTA
1 TTTTTTTTA
356847 TTTTTTT
1 TTTTTTT
356854 AAAAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:365155 original size:52 final size:52
Alignment explanation
Indices: 365075--365194 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
365065 AAAAGTTGTT
* *
365075 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
*
365127 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
365179 TGCATGTATCGATACA
1 TGCATGTATCGATACA
365195 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
Found at i:365207 original size:52 final size:51
Alignment explanation
Indices: 365075--365214 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
365065 AAAAGTTGTT
*
365075 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
* *
365127 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
*
365179 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
365215 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAATTGCC
Found at i:365221 original size:13 final size:13
Alignment explanation
Indices: 365203--365227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
365193 CAAAGATCAG
365203 TGTATCGATACAA
1 TGTATCGATACAA
365216 TGTATCGATACA
1 TGTATCGATACA
365228 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:365307 original size:13 final size:13
Alignment explanation
Indices: 365289--365313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
365279 CAAAAAAATA
365289 TGTATCGATACAT
1 TGTATCGATACAT
365302 TGTATCGATACA
1 TGTATCGATACA
365314 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:365309 original size:33 final size:33
Alignment explanation
Indices: 365267--365333 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
365257 AGTAGCTTAA
365267 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
365300 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
365333 A
1 A
365334 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:365412 original size:21 final size:21
Alignment explanation
Indices: 365371--365412 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
365361 GTTGGGACCT
*
365371 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
365392 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
365413 AATGTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:365748 original size:54 final size:55
Alignment explanation
Indices: 365547--365795 Score: 331
Period size: 55 Copynumber: 4.5 Consensus size: 55
365537 AAAGGAGAGA
* * * *
365547 GCGTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
365602 GCATCCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAG
1 GCGT-CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
365658 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCCGCCAACTCGTGTGGGCTTT-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
365712 GCGTCCTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* **
365767 GCGTCCTACTCTTTGAGGACAAAAAGGTG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTG
365796 AAAGGAGAGA
Statistics
Matches: 170, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
54 48 0.28
55 76 0.45
56 46 0.27
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:365761 original size:109 final size:111
Alignment explanation
Indices: 365547--365786 Score: 369
Period size: 109 Copynumber: 2.2 Consensus size: 111
365537 AAAGGAGAGA
**
365547 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGCATCCCTGC
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCCTGC
* *
365612 TCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAG
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
365658 GCGTCCTGCTCTTTGAGGACT-GGAGGGTGCCGCCAACTCGTGTGGGCTTT-AAAGGCGT-CCTG
1 GCGTCCTACTCTTTGAGGACTAGGA-AGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCCTG
*
365720 CTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
65 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
365767 GCGTCCTACTCTTTGAGGAC
1 GCGTCCTACTCTTTGAGGAC
365787 AAAAAGGTGA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
109 67 0.57
110 10 0.08
111 41 0.35
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (111 bp):
GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:365887 original size:95 final size:94
Alignment explanation
Indices: 365712--365955 Score: 409
Period size: 95 Copynumber: 2.6 Consensus size: 94
365702 GGCTTTAAAG
* *
365712 GCGTCCTGCTCTTTGAGGACT-GAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTAC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTAC
*
365776 TCTTTGAGGACAAAAAGGTGAAAGGAGAGA
65 TCTTTGAGGACAAAAAGGCGAAAGGAGAGA
* *
365806 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGGCTTTGAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGT-GGGCTTTGAAAGGCGTCCTAC
365871 TCTTTGAGGACAAAAAGGCGAAAGGAGAGA
65 TCTTTGAGGACAAAAAGGCGAAAGGAGAGA
*
365901 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
365956 AGAAAGCGTC
Statistics
Matches: 141, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
94 47 0.33
95 94 0.67
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (94 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
CTTTGAGGACAAAAAGGCGAAAGGAGAGA
Found at i:366061 original size:303 final size:298
Alignment explanation
Indices: 365607--366756 Score: 1100
Period size: 303 Copynumber: 3.6 Consensus size: 298
365597 AAAAGGCATC
* * *
365607 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAGGCGTCCTGCTCTTT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTTT
* * *
365672 GAGGACTGGAGGGTGCCGCCAACTCGTGTGGGCTTT-AAAGGCGTCCTGCTCTTTGAGGACTGAA
66 GAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAA
* * *
365736 AGGTTCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACAAAAAGGTGAAAGG
131 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGTGAAAGG
* *
365801 AGAGAGCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGGCTTTGAAAGGCGT
196 AGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGT-GGGCTTTAAAAGGCGT
*
365866 CCTGCTCTTTGAGGACAAAAAGGCGAAAGGAG-AGAGCGT
260 CCTGCTCTTTGAGGACAAAAAGGCAAAAGGAGAAG-GCGT
* *
365905 CCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGCGTCCTA
1 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----GA-AAAGCGTCCTG
* * *
365969 CTTTTTGAGGACT-GAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGG
60 CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
366033 ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGT
125 ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGT
*
366098 GAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTCGGCTTTAAAA
190 GAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
366163 GGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCA
255 GGCGTCCTGCTCTTTGAGGAC----A------A--AA---A----GGC---AAAAGGAGAAGGCG
366228 T
298 T
* *
366229 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTTGGCTTTGAAAGGCGTCCTGCTCTTT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTTT
* *
366293 GAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC-TTGAGGACTG-
66 GAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGA
* * * **
366355 AAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAGGCGTCCTGCTCTTTGAGGGC-TGAAGG
130 AAAGTGCCACCAACTTGTGTGGGC-TT---T-GA-AAGGCGTCCTGCTCTTTGAGGACAAAAAGG
* * *
366419 TTCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAA
189 -T-GA--AA-----G-GAG-----AGA-GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAA
* ** *
366482 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGATTGAAAGGTGCCACCAAACTTGTGTGG
237 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA-CAAAAAG-G-CA--AAA--------G
*
366547 GCTTTGAAAGGCGT
289 G---AG-AAGGCGT
** * *
366561 CCTGCTCTTTGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGTGTCCTG
1 CCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAA-GCGTCCTG
* *
366626 CTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGG
60 CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* **
366691 ACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCTGCTCTTTGAGGACTGAAAGG
125 ACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGG
366755 TG
189 TG
366757 CCACCAACTT
Statistics
Matches: 707, Mismatches: 60, Indels: 134
0.78 0.07 0.15
Matches are distributed among these distances:
298 40 0.06
299 3 0.00
302 55 0.08
303 156 0.22
306 1 0.00
312 1 0.00
314 2 0.00
317 23 0.03
318 34 0.05
319 40 0.06
320 7 0.01
321 5 0.01
322 8 0.01
323 47 0.07
324 28 0.04
325 2 0.00
326 4 0.01
328 3 0.00
331 2 0.00
332 26 0.04
334 24 0.03
335 22 0.03
336 8 0.01
337 48 0.07
338 29 0.04
339 56 0.08
340 11 0.02
341 20 0.03
342 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (298 bp):
CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTTT
GAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAA
AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGTGAAAGG
AGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC
CTGCTCTTTGAGGACAAAAAGGCAAAAGGAGAAGGCGT
Found at i:366063 original size:55 final size:55
Alignment explanation
Indices: 365901--366089 Score: 247
Period size: 55 Copynumber: 3.4 Consensus size: 55
365891 AAAGGAGAGA
*
365901 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT-AAA-AG
* * * *
365958 AAAGCGTCCTACTTTTTGAGGACTG-AAGGTGCCATCAACTTGTGTGGGCTTTAAAAG
1 ---GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
366015 GTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
366070 GCGTCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
366090 AAAAAGGTGA
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
54 19 0.17
55 48 0.42
57 2 0.02
58 3 0.03
59 24 0.21
60 19 0.17
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:366176 original size:55 final size:55
Alignment explanation
Indices: 366109--366876 Score: 888
Period size: 55 Copynumber: 13.5 Consensus size: 55
366099 AAAGGAGAGA
*
366109 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
366164 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
* * *
366225 GCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTTGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
366279 GCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
366334 GAGTCCTGCTC-TTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--A---A-AAG
* *
366393 GCGTCCTGCTCTTTGAGGGCT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
366447 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
366501 GCGTCCTGCTCTTTGAAGATTGAAAGGTGCCACCAAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACC-AACTTGTGTGGGCTTTAAAAG
* **
366557 GCGTCCTGCTCTTTGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTG-GAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAG
* * *
366618 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** * *
366673 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
366728 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-------AAAA-G
*
366791 GCGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
366851 GCGTCCTGCTCTTTGAGGAC-GGAAGG
1 GCGTCCTGCTCTTTGAGGACTGGAAGG
366877 GCTAAAAGAG
Statistics
Matches: 627, Mismatches: 52, Indels: 63
0.85 0.07 0.08
Matches are distributed among these distances:
52 3 0.00
53 22 0.04
54 108 0.17
55 192 0.31
56 59 0.09
57 10 0.02
58 3 0.00
59 13 0.02
60 112 0.18
61 55 0.09
62 28 0.04
63 22 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:366178 original size:94 final size:94
Alignment explanation
Indices: 366017--366192 Score: 282
Period size: 94 Copynumber: 1.9 Consensus size: 94
366007 TTTAAAAGGT
* * *
366017 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTCT
366082 TTGAGGACAAAAAGGTGAAAGGAGAGAGC
66 TTGAGGACAAAAAGGTGAAAGGAGAGAGC
*
366111 GTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTC
**
366175 TTTGAGGACTGAAAGGTG
65 TTTGAGGACAAAAAGGTG
366193 CCACCAACTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 74 0.99
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (94 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACAAAAAGGTGAAAGGAGAGAGC
Found at i:366434 original size:168 final size:167
Alignment explanation
Indices: 366109--366846 Score: 955
Period size: 168 Copynumber: 4.3 Consensus size: 167
366099 AAAGGAGAGA
*
366109 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* *
366174 CTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAGAAGGCGTCCTGCTCTTT
* *
366239 GAGGACTG-AAGGTGCCACCAACTTGTGTTGGCTTT-GAAAG
126 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
*
366279 GCGTCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
366344 C-TTGAGGACTG-AAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAGGCGTCCTGCTCTTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT---T-GAGAAGGCGTCCTGCTCTTT
* *
366407 GAGGGCTG-AAGGTTCCACCAACTTGTGTGGGCTTT-AAAAG
126 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
*
366447 GCGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
* *
366510 TCTTTGAAGATTGAAAGGTGCCACCAAACTTGTGTGGGCTTTGA-AAGGCGTCCTGCTCTTTGAG
65 TCTTTGAGGACTGAAAGGTGCCACC-AACTTGTGTGGGCTTTGAGAAGGCGTCCTGCTCTTTGAG
**
366574 GACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAG
129 GACTG-AAAGGTGCCACCAACTTGTGTGGGCTTT----AAAAAG
* * * *
366618 GTGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
*
366682 TCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAG-AGGCGTCCTGCTCTTTGAG
65 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAAGGCGTCCTGCTCTTTGAG
366745 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGG
129 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAA-G
*
366791 GCGTCCTGCTCTTTGAGGACT--GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
366847 AAAGGCGTCC
Statistics
Matches: 513, Mismatches: 33, Indels: 42
0.87 0.06 0.07
Matches are distributed among these distances:
164 24 0.05
165 2 0.00
166 27 0.05
167 38 0.07
168 108 0.21
169 24 0.05
170 103 0.20
171 67 0.13
172 95 0.19
173 25 0.05
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (167 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAAGGCGTCCTGCTCTTTGAGGA
CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
Found at i:367956 original size:79 final size:78
Alignment explanation
Indices: 367815--368052 Score: 377
Period size: 79 Copynumber: 3.0 Consensus size: 78
367805 GTTTTCGCGA
*
367815 TATGAAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAACATAACGGGAT
1 TATGAAA-AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAA-ATAACGGGGT
367880 TGGAGTATCCCCGAT
64 TGGAGTATCCCCGAT
* * *
367895 TATGAAAATTTGATGTTTTAGAGATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTT
1 TATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGGGGTT
367960 GGAGTATCCCCGAT
65 GGAGTATCCCCGAT
* *
367974 TATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCTCCTCGGAAATAACGGGGTT
1 TATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGGGGTT
*
368039 GAAGTATCCCCGAT
65 GGAGTATCCCCGAT
368053 GATTAACGGG
Statistics
Matches: 146, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 136 0.93
80 10 0.07
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
TATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGGGGTTG
GAGTATCCCCGAT
Found at i:368071 original size:27 final size:28
Alignment explanation
Indices: 368004--368079 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
367994 GAAATAAAGC
368004 CGGGGTTGGAGTATCTCCTCG--GAAATAA
1 CGGGGTTGGAGTATC-CC-CGATGAAATAA
* *
368032 CGGGGTTGAAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
368059 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
368080 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 26 0.60
28 15 0.35
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:369364 original size:35 final size:34
Alignment explanation
Indices: 369290--369425 Score: 254
Period size: 35 Copynumber: 3.9 Consensus size: 34
369280 TTTCATTTTT
369290 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
369324 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
369359 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
369394 ATGCCCATCATTCCATGCCTTCATTTTTTATT
1 ATGCCCATCATTCCATGCCTTCATTTTTTATT
369426 ATTATTTTTT
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
34 32 0.32
35 69 0.68
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (34 bp):
ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
Found at i:369454 original size:13 final size:13
Alignment explanation
Indices: 369416--369455 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
369406 CCATGCCTTC
369416 ATTTTTTATTATTA
1 ATTTTTTATT-TTA
*
369430 TTTTTTTAATTTTA
1 ATTTTTT-ATTTTA
369444 ATTTTTTATTTT
1 ATTTTTTATTTT
369456 CACTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTTTATTTTA
Found at i:370350 original size:31 final size:31
Alignment explanation
Indices: 370303--370749 Score: 537
Period size: 31 Copynumber: 14.2 Consensus size: 31
370293 TCGTCAAATC
370303 TCTTTTCTT-CAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
370333 TCTTTTCTTCCAAGTCCACGACTCAAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTC-AGTGGCA
* * *
370365 TCTTTTTCTTCAAAGTCCACAATTCAGTGGCA
1 TC-TTTTCTTCCAAGTCCACGACTCAGTGGCA
* * *
370397 TCTCTTCTTCAAAGTCCACGACTCAATGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
370428 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
*
370459 TCTTTTCTTCCAAGTCCACGACTCAGTGGCG
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
*
370490 TCTTTT-TTCCCCAAAGTCCACAACTCAGTGGCA
1 TCTTTTCTT--CC-AAGTCCACGACTCAGTGGCA
* *
370523 TCTTTTCTTCAAAGTCCACGACACAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
*
370554 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
* *
370585 TCTTTTCTTCAAAGTCCACCACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
* * * *
370616 TCCTTTTCTTCAAAAATGCACGACTCAGTAGCAA
1 T-CTTTTCTTC-CAAGTCCACGACTCAGTGGC-A
*
370650 TCTCTTC--CCAAAGTCACACGACTCAGTGGCA
1 TCTTTTCTTCC-AAGTC-CACGACTCAGTGGCA
*
370681 TCCGTTTCTTCCAAGTCCACGACTCAGTGGCAA
1 T-CTTTTCTTCCAAGTCCACGACTCAGTGGC-A
* *
370714 TCTCTTC--CCAAAGTCCACGACTCTGTGGCA
1 TCTTTTCTTCC-AAGTCCACGACTCAGTGGCA
*
370744 CCTTTT
1 TCTTTT
370750 TATTTTCAAA
Statistics
Matches: 366, Mismatches: 34, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
30 18 0.05
31 206 0.56
32 65 0.18
33 71 0.19
34 6 0.02
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (31 bp):
TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
Found at i:370452 original size:95 final size:93
Alignment explanation
Indices: 370307--370749 Score: 538
Period size: 95 Copynumber: 4.7 Consensus size: 93
370297 CAAATCTCTT
370307 TTCTTC-AAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAAGTGGCATCTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTC-AGTGGCATC-TTT
* *
370371 TCTTCAAAGTCCACAATTCAGTGGCATCTC
64 TCTTCAAAGTCCACGACTCAGTGGCATCTC
*
370401 TTCTTCAAAGTCCACGACTCAATGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTC
* *
370466 TTCCAAGTCCACGACTCAGTGGCGTCT-
66 TTCAAAGTCCACGACTCAGTGGCATCTC
* * * *
370493 TTTTTCCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACACAGTGGCATCTT
1 TTCTT---CAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTT
*
370558 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
63 TTCTTCAAAGTCCACGACTCAGTGGCATCTC
* * * * * *
370589 TTCTTCAAAGTCCACCACTCAGTGGCATCCTTTTCTTCAAAAATGCACGACTCAGTAGCAATCTC
1 TTCTTCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTC-CAAGTCCACGACTCAGTGGC-ATCTT
*
370654 TTC-CCAAAGTCACACGACTCAGTGGCATC-C
63 TTCTTCAAAGTC-CACGACTCAGTGGCATCTC
* * * *
370684 GTTTCTTCCAAGTCCACGACTCAGTGGCAATCTCTTC--CCAAAGTCCACGACTCTGTGGCACCT
1 --TTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCC-AAGTCCACGACTCAGTGGCATCT
370747 TTT
62 TTT
370750 TATTTTCAAA
Statistics
Matches: 305, Mismatches: 31, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
92 4 0.01
93 50 0.16
94 29 0.10
95 163 0.53
96 28 0.09
97 29 0.10
98 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (93 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTC
TTCAAAGTCCACGACTCAGTGGCATCTC
Found at i:370531 original size:126 final size:125
Alignment explanation
Indices: 370303--370750 Score: 593
Period size: 126 Copynumber: 3.6 Consensus size: 125
370293 TCGTCAAATC
370303 TCTTTTCTT-CAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAAGTGGCATC
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTC-AGTGGCATC
* * *
370367 -TTTTTCTTCAAAGTCCACAATTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAATGGCA
65 TTTTTTC-CCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
*
370428 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCGTCT
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
* *
370493 TTTTTCCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACACAGTGGCA
66 TTTTT-CCCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
370554 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACCACTCAGTGGCATCC
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCAT-C
* * * * * *
370619 TTTTCTT-CAAAAATGCACGACTCAGTAGCAATCTCTTC-CCAAAGTCACACGACTCAGTGGCA
65 TTTT-TTCCCAAAGTCCACAACTCAGTGGC-ATCTCTTCTTCAAAGTC-CACGACTCAGTGGCA
* * *
370681 TCCGTTTCTTCCAAGTCCACGACTCAGTGGCAATCTCTTC--CCAAAGTCCACGACTCTGTGGCA
1 T-CTTTTCTTCCAAGTCCACGACTCAGTGGC-ATCTTTTCTTCC-AAGTCCACGACTCAGTGGCA
*
370744 CCTTTTT
63 TCTTTTT
370751 ATTTTCAAAT
Statistics
Matches: 288, Mismatches: 25, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
125 17 0.06
126 183 0.64
127 34 0.12
128 47 0.16
129 7 0.02
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (125 bp):
TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
TTTTTCCCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:370886 original size:26 final size:27
Alignment explanation
Indices: 370829--370931 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 27
370819 TTTTTAAAAC
* *
370829 CCCACAACTCCGCGGCACCCTTTTAGG
1 CCCACAACTCCGTGGCACCCTTTTAAG
*
370856 TCCACAACTCCGTGGCACCC-TTTAAG
1 CCCACAACTCCGTGGCACCCTTTTAAG
370882 CCCACAACT-CGTGGCACCCTTTTAAG
1 CCCACAACTCCGTGGCACCCTTTTAAG
*
370908 CCCACAACTCCGTGGCACTCTTTT
1 CCCACAACTCCGTGGCACCCTTTT
370932 TCCTTTTAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
25 10 0.14
26 28 0.41
27 31 0.45
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (27 bp):
CCCACAACTCCGTGGCACCCTTTTAAG
Found at i:370903 original size:52 final size:53
Alignment explanation
Indices: 370829--370930 Score: 161
Period size: 52 Copynumber: 1.9 Consensus size: 53
370819 TTTTTAAAAC
* *
370829 CCCACAACTCCGCGGCACCCTTTTAGGTCCACAACTCCGTGGCACCCTTTAAG
1 CCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTTTAAG
* *
370882 CCCACAACT-CGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTT
1 CCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTTT
370931 TTCCTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 36 0.80
53 9 0.20
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.23
Consensus pattern (53 bp):
CCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTTTAAG
Found at i:371008 original size:33 final size:33
Alignment explanation
Indices: 370965--371031 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
370955 GGCACCCCCT
370965 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
* *
370998 TCTAACGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
371031 T
1 T
371032 AAGACCAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.19
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:371386 original size:91 final size:91
Alignment explanation
Indices: 371031--371819 Score: 820
Period size: 91 Copynumber: 8.5 Consensus size: 91
371021 GCAACCCTTC
* * * *
371031 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCA-C---GAGTCCAATATTGACTAGCCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCG-CTGGCCT
*
371092 TGAATCAGCATATTGGCATCTTTATCTT
65 TGAATCAGCATATTGGCA-CCTTATCTT
* * *
371120 TAAGACCAATGTCGCTAGGCCTTGAATCAGCACATCGGCA-C---AAGCCCAATATTGCTGGCCT
1 TAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCT
*
371181 TGAATCAAGCATATT-GCATCTTTATCTT
65 TGAATC-AGCATATTGGCA-CCTTATCTT
* * * * *
371209 CAAGACC-A-GTCGCTGGCCTTGAATCAGCACATCGGCA-C---AAGGCCCAATATTGCTGGTCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAA-GTCCAATATCGCTGGCCT
* *
371268 TGAATTAGCATATT-GCAACTTTATCTT
65 TGAATCAGCATATTGGC-ACCTTATCTT
* * *
371295 TAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTTGCCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
371360 GAATCAGCATATTGGCACCTTGTCTT
66 GAATCAGCATATTGGCACCTTATCTT
* *
371386 TAAGAGCAATGTCCCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
371451 GAATCAGCATATTGGCACCTTCATCTT
66 GAATCAGCATATTGGCACCTT-ATCTT
* *
371478 TAAGGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGC
1 TAA-GACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGC
* *
371543 TAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
59 TGGCCTTGAATCAGCATATTGGCACC--T-T-ATCTT
* * *
371580 TAAGTCCAATGTCGCTGGCCTTGAATCAACGCATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
* * *
371645 GGCCTTAAATCAGCATATTGGCGCCTTTGTCATCT
60 GGCCTTGAATCAGCATATTGGCACC-TTATC-T-T
* *
371680 TAAGTCCAATGTCGCTGGCCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
*
371745 GGCCTTGAATCAGCATATTGGCATCTTTAT-TT
60 GGCCTTGAATCAGCATATTGGCA-CCTTATCTT
*
371777 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
371820 CATCTTTAAG
Statistics
Matches: 636, Mismatches: 39, Indels: 48
0.88 0.05 0.07
Matches are distributed among these distances:
86 50 0.08
87 30 0.05
88 28 0.04
89 48 0.08
90 43 0.07
91 120 0.19
92 11 0.02
93 34 0.05
97 40 0.06
98 3 0.00
99 44 0.07
100 91 0.14
101 84 0.13
102 10 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (91 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTATCTT
Found at i:371554 original size:49 final size:49
Alignment explanation
Indices: 371260--371961 Score: 758
Period size: 49 Copynumber: 14.5 Consensus size: 49
371250 GCCCAATATT
* * * * * **
371260 GCTGGTCTTGAATTAGCATATT-GCAACTTTATCTTTAAAACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* *
371308 ACTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* * * **
371351 GCTTGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGAGCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* *
371399 CCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
*
371442 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA-GTCCAATGTC
* *
371492 ACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* * *
371541 GCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATGTC
* * *
371593 GCTGGCCTTGAATCAACGCATTGGCACCTTCATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* * *
371642 GCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATC-TTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATGTC
* *
371693 GCTGGCCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* * *
371742 GCTGGCCTTGAATCAGCATATTGGCATCTTTAT-TTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* *
371790 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCGATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* * * * * *
371839 GTTGGCCTTGAATCAGTACATCGGCACCGTCAACCATTTTTAAG-CCAATAT-
1 GCTGGCCTTGAATCAGCACATTGGCACC-T---TCATCTTTAAGTCCAATGTC
* * *
371890 GCTGGCCTTGAATCAGCATATTGGCA-CGTCATCTTTAAGTCTAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* *
371938 GCTGACCGTGAATCAGCACATTGG
1 GCTGGCCTTGAATCAGCACATTGG
371962 TATTTTTCTC
Statistics
Matches: 548, Mismatches: 77, Indels: 58
0.80 0.11 0.08
Matches are distributed among these distances:
43 73 0.13
46 9 0.02
47 6 0.01
48 124 0.23
49 165 0.30
50 49 0.09
51 61 0.11
52 52 0.09
53 9 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
Found at i:371745 original size:100 final size:99
Alignment explanation
Indices: 371252--372013 Score: 816
Period size: 100 Copynumber: 7.8 Consensus size: 99
371242 GGCACAAGGC
* * * * ** *
371252 CCAATATTGCTGGTCTTGAATTAGCATATT-GCAACTT-T-ATCTTTAAAACCAATGTCACTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATC-TTAAGTCCAATGTCGCTGGC
371314 CTTGAATCAGCACATTGGCA----C--CTTTAAGT
65 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* ** *
371343 CCAATATCGCTTGCCTTGAATCAGCATATTGGCACCTTGTC-T-TTAAGAGCAATGTCCCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTAAGTCCAATGTCGCTGGCC
371406 TTGAATCAGCACATTGGCA----C--CTTTAAGT
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
371434 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-TCATCTTTAAGGTCCAATGTCACTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATC-TTAA-GTCCAATGTCGCTGG
371497 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
64 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
371533 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATC-TTAAGTCCAATGTCGCTGG
* *
371598 CCTTGAATCAACGCATTGGCACCTTCATCTTTAAGT
64 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
371634 CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTAAGTCCAATGTCGCTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTAAGTCCAATGTCGCTGGC
*
371699 CTTGAATCAGCGCATTGGCACCTTCATCTTTAAGT
65 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
371734 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-T-ATTTTAAGTCCAATGTCGCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTAAGTCCAATGTCGCTGGCC
*
371797 TTGAATCAGCACATTGGCACCTTCATCTTTAAGA
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * *** * *
371831 CCGATGTCGTTGGCCTTGAATCAGTACATCGGCACCGTCAACCATTTTTAAG-CCAATAT-GCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-TGTCA-TCTTAAGTCCAATGTCGCTG
* *
371894 GCCTTGAATCAGCATATTGGCA-CGTCATCTTTAAGT
63 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * ** * ** *
371930 CTAATGTCGCTGACCGTGAATCAGCACATTGGTATTTTTCTCATCTTCAAGTCTGATGTCGCTGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGTCATCTT-AAGTCCAATGTCGCTGG
*
371995 CCAGTGAATCAGCACATTG
64 CC-TTGAATCAGCACATTG
372014 ACATCCTTTT
Statistics
Matches: 586, Mismatches: 59, Indels: 42
0.85 0.09 0.06
Matches are distributed among these distances:
89 2 0.00
90 2 0.00
91 107 0.18
92 10 0.02
93 35 0.06
97 88 0.15
98 7 0.01
99 87 0.15
100 118 0.20
101 113 0.19
102 17 0.03
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (99 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTAAGTCCAATGTCGCTGGCC
TTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:371894 original size:148 final size:147
Alignment explanation
Indices: 371260--371961 Score: 776
Period size: 148 Copynumber: 4.8 Consensus size: 147
371250 GCCCAATATT
* * * * * ** * *
371260 GCTGGTCTTGAATTAGCATATT-GCAACTTTATCTTTAAAACCAATGTCACTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * * *
371324 CACATTGGCA----C--CTTTAAGTCCAATATCGCTTGCCTTGAATCAGCATATTGGCACCTT-G
66 CATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
**
371382 TCTTTAAGAGCAATGTC
131 TCTTTAAGTCCAATGTC
*
371399 CCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
371458 CATATTGGCACCTTCATCTTTAAGGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTC
66 CATATTGGCACCTTCATCTTTAA-GTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC
*
371523 ATCTTTAAGTCCAATATC
130 ATCTTTAAGTCCAATGTC
* * * *
371541 GCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
1 GCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* ** * * * *
371606 CAACGCATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCT
63 CAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-
371671 TTGTCATC-TTAAGTCCAATGTC
127 -T-TCATCTTTAAGTCCAATGTC
*
371693 GCTGGCCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
371758 CATATTGGCATCTTTAT-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
66 CATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
371822 TCTTTAAGACCGATGTC
131 TCTTTAAGTCCAATGTC
* * * * *
371839 GTTGGCCTTGAATCAGTACATCGGCACCGTCAACCATTTTTAAG-CCAATAT-GCTGGCCTTGAA
1 GCTGGCCTTGAATCAGCACATTGGCACC-T---TCATCTTTAAGTCCAATATCGCTGGCCTTGAA
* * * *
371902 TCAGCATATTGGCA-CGTCATCTTTAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGG
62 TCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
371962 TATTTTTCTC
Statistics
Matches: 477, Mismatches: 59, Indels: 45
0.82 0.10 0.08
Matches are distributed among these distances:
134 37 0.08
138 1 0.00
139 18 0.04
140 9 0.02
141 36 0.08
142 36 0.08
145 5 0.01
146 37 0.08
147 5 0.01
148 101 0.21
149 55 0.12
150 43 0.09
151 51 0.11
152 38 0.08
153 5 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (147 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
CATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
TCTTTAAGTCCAATGTC
Found at i:372823 original size:33 final size:33
Alignment explanation
Indices: 372780--372845 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
372770 GCCAAGGACA
372780 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
* *
372813 TGTATTGATACATTGATCTATGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
372846 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:372842 original size:20 final size:20
Alignment explanation
Indices: 372779--372845 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
372769 TGCCAAGGAC
*
372779 ATGTATCGATACATT-ACTCA
1 ATGTATCGATACATTGA-TCT
372799 ATGTATCGATACATTG---T
1 ATGTATCGATACATTGATCT
372816 A--T-T-GATACATTGATCT
1 ATGTATCGATACATTGATCT
372832 ATGTATCGATACAT
1 ATGTATCGATACAT
372846 CTGGGAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 1 0.03
16 2 0.05
17 1 0.03
18 1 0.03
19 1 0.03
20 22 0.58
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGATCT
Found at i:382123 original size:13 final size:13
Alignment explanation
Indices: 382105--382130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
382095 TACAGCAAGT
382105 ATGTATCGATACA
1 ATGTATCGATACA
382118 ATGTATCGATACA
1 ATGTATCGATACA
382131 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:384099 original size:52 final size:51
Alignment explanation
Indices: 384021--384169 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
384011 CGAAATATGA
384021 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
384073 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
384125 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
384170 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:384176 original size:13 final size:13
Alignment explanation
Indices: 384158--384182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
384148 CAAAGATCAG
384158 TGTATCGATACAA
1 TGTATCGATACAA
384171 TGTATCGATACA
1 TGTATCGATACA
384183 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:384642 original size:13 final size:13
Alignment explanation
Indices: 384624--384649 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
384614 TACAGCAAGT
384624 ATGTATCGATACA
1 ATGTATCGATACA
384637 ATGTATCGATACA
1 ATGTATCGATACA
384650 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:386904 original size:21 final size:21
Alignment explanation
Indices: 386871--386915 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
386861 TTGCAAGTTG
*
386871 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
386893 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
386913 AAA
1 AAA
386916 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:388739 original size:15 final size:15
Alignment explanation
Indices: 388719--388749 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
388709 TAAAAATGTC
*
388719 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
388734 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
388749 C
1 C
388750 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:390789 original size:20 final size:20
Alignment explanation
Indices: 390763--390838 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
390753 AATGTCCAAA
390763 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
390783 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
390808 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
390828 TTGTATCGATA
1 ATGTATCGATA
390839 AATTGTATCG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 26 0.58
22 1 0.02
23 2 0.04
25 16 0.36
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:390865 original size:13 final size:13
Alignment explanation
Indices: 390829--390866 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
390819 CATTTTTCTT
* *
390829 TGTATCGATAAAT
1 TGTATCGATACAC
390842 TGTATCGATACAC
1 TGTATCGATACAC
390855 TGTATCGATACA
1 TGTATCGATACA
390867 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:393414 original size:13 final size:13
Alignment explanation
Indices: 393396--393421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
393386 TACAGCAAGT
393396 ATGTATCGATACA
1 ATGTATCGATACA
393409 ATGTATCGATACA
1 ATGTATCGATACA
393422 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:398155 original size:28 final size:26
Alignment explanation
Indices: 398123--398174 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
398113 TTCCACCATC
*
398123 GGGGATACTCCAACCCCGTTATTTTAGA
1 GGGGATACTACAACCCC--TATTTTAGA
398151 GGGGATACTACAACCCCTATTTTA
1 GGGGATACTACAACCCCTATTTTA
398175 TTTCCAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (26 bp):
GGGGATACTACAACCCCTATTTTAGA
Found at i:398402 original size:80 final size:79
Alignment explanation
Indices: 398091--398718 Score: 740
Period size: 80 Copynumber: 7.9 Consensus size: 79
398081 TCATTCATGT
* * *
398091 TTTTATTTCTAAAATACCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTAGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
* *
398156 TACTACAACCCCTA
66 TACTCCAACCCCGA
* ** * * * *
398170 TTTTATTTCCAAAACATTAACTTTCCACCATCAGGGAAACTTCAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
398235 TACTCCAACCCCGA
66 TACTCCAACCCCGA
* * *
398249 TTTTATTTCTAAAACACCAATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
398314 TACTCCAACCCCGA
66 TACTCCAACCCCGA
* * *
398328 TTTTATTTCTAAAACACCAATTTTTCCACTATCGGGAATACTCCAACCCTGTTATTTCCGAGGGG
1 TTTTATTTCTAAAACACCAA-TTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGG
*
398393 ATACTCCAACCCCGG
65 ATACTCCAACCCCGA
* * * *
398408 TTTTATTTCTAAAACACCAATTTTTCCACTATCGGGGATACTCCAA-CCTCGTTATTTTTGTGGA
1 TTTTATTTCTAAAACACCAA-TTTTCCACCATCGGGGATACTCCAACCCT-GTTATTTTCGAGGG
** *
398472 GATACTTTAACCCCGG
64 GATACTCCAACCCCGA
* * * ** ** * *
398488 TTTTATTCCTAAAATATCAATTTTTTTATTATCGGGGATACTCCAACCCTGTTATTTTCAAGAGG
1 TTTTATTTCTAAAACACCAA-TTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGG
* * *
398553 ATACTTCAATCCCGG
65 ATACTCCAACCCCGA
* * * * *
398568 TTTTATTTCTAAAATATCAATTTT-CACCATTGGGGATACTCCAACCCCGTTA-TTTCTGAGGAG
1 TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTC-GAGGGG
*
398631 ATACTCCAACCCCAA
65 ATACTCCAACCCCGA
* * ** * *
398646 TTTTATTTCTAAAACACCGATGTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGAGA
1 TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
398711 TACTCCAA
66 TACTCCAA
398719 TCTCGTTATT
Statistics
Matches: 474, Mismatches: 69, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
77 4 0.01
78 57 0.12
79 201 0.42
80 209 0.44
81 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
TACTCCAACCCCGA
Found at i:398726 original size:107 final size:108
Alignment explanation
Indices: 398602--398831 Score: 259
Period size: 108 Copynumber: 2.1 Consensus size: 108
398592 CACCATTGGG
*
398602 GATACTCCAACCCCGTTA-TTTCTGAGGAGATACTCCAACCCCAATTTTATTTCTAAAACACCGA
1 GATACTCCAACCCCGTTATTTTC-GAGGAGATACTCCAACCCCAATTTTATTCCTAAAACACCGA
* * *
398666 -TGTTCCA-TAATCGGGGATACTCCAACCCTATTATTTTCGAGGA
65 TTGTTCCACT-ATCAGGGATACTCCAACCCCATTATTTTCAAGGA
* * * * * *** * *
398709 GATACTCCAATCTCGTTATTTTCGAGGGGATACTCTATCCTTGATTTTATTCCTAAAATATCGAT
1 GATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCAATTTTATTCCTAAAACACCGAT
* * * *
398774 TTTTTCACTATCAGGGATACTCCAACCCCGTTATTTTCAAGGG
66 TGTTCCACTATCAGGGATACTCCAACCCCATTATTTTCAAGGA
398817 GATACTCCAACCCCG
1 GATACTCCAACCCCG
398832 ATTTTATTTC
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
107 48 0.48
108 51 0.51
109 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (108 bp):
GATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCAATTTTATTCCTAAAACACCGAT
TGTTCCACTATCAGGGATACTCCAACCCCATTATTTTCAAGGA
Found at i:398888 original size:187 final size:185
Alignment explanation
Indices: 398523--398907 Score: 463
Period size: 187 Copynumber: 2.1 Consensus size: 185
398513 TTATTATCGG
* *
398523 GGATACTCCAACCCTGTTATTTTCAAGAGGATACTTCAATCCCGGTTTTATTTCTAAAATATCAA
1 GGATACTCCAACCCTGTTATTTTCAAGAGGATACTTCAATCCCGATTTTATTCCTAAAATATCAA
** *
398588 TTTTCACCATTGGGGATACTCCAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAATTTTATT
66 TTTTCACCATCAGGGATACTCCAACCCCGTTATTTCTAAGGAGATACTCCAACCCCAATTTTATT
* * * *
398653 TCTAAAACACCGATGTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAG-
131 TCTAAAACACCAATGTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGAGA
* * * * *
398707 GAGATACTCCAA-TCTCGTTATTTTCGAGGGGATAC-TCTATCCTTGATTTTATTCCTAAAATAT
1 G-GATACTCCAACCCT-GTTATTTTCAAGAGGATACTTCAATCC-CGATTTTATTCCTAAAATAT
* * * *
398770 CGATTTTTTCACTATCAGGGATACTCCAACCCCGTTATTT-TCAAGGGGATACTCCAACCCCGAT
63 C-A-ATTTTCACCATCAGGGATACTCCAACCCCGTTATTTCT-AAGGAGATACTCCAACCCCAAT
* * * * * * *
398834 TTTATTTCTAAAACACTAATTTTCTACCATTGGAGATATTTCAACCCCATTATTTTCGAGA
125 TTTATTTCTAAAACACCAATGTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGAGA
398895 GGATACTCCAACC
1 GGATACTCCAACC
398908 TCAATTTTAT
Statistics
Matches: 167, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
184 9 0.05
185 45 0.27
186 2 0.01
187 110 0.66
188 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (185 bp):
GGATACTCCAACCCTGTTATTTTCAAGAGGATACTTCAATCCCGATTTTATTCCTAAAATATCAA
TTTTCACCATCAGGGATACTCCAACCCCGTTATTTCTAAGGAGATACTCCAACCCCAATTTTATT
TCTAAAACACCAATGTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGAGA
Found at i:399002 original size:345 final size:345
Alignment explanation
Indices: 398365--399065 Score: 806
Period size: 345 Copynumber: 2.0 Consensus size: 345
398355 ACTATCGGGA
* *
398365 ATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATT
1 ATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATT
* * *** ** *
398430 TTTCCACTATCGGGGATACTCCAACCTCGTTATTTTTGTGGAGATACTTTAACCCCGGTTTTATT
66 TTTCCACTATCAGGGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCCGATTTTATT
* * ** * ** *
398495 CCTAAAATATCAATTTTTTTATTATCGGGGATACTCCAACCCTGTTATTTTCAAGAGGATACTTC
131 CCTAAAACATCAATTTTTCTACCATCGGAGATACTCCAACCCCATTATTTTCAAGAGGATACTCC
** * * * *
398560 AATCCCGGTTTTATTTCTAAAATATCAATTTTCACCATTGGGGATACTCCAACCCCGTTATTTCT
196 AATCCCAATTTTATTTCTAAAACATCAATTTTCACAATCGAGGATACTCCAACCCCGTTATTTCT
* *
398625 GAGGAGATACTCCAACCCCAATTTTATTTCTAAAACACCGATGTTCCATAATCGGGGATACTCCA
261 GAGGAGATACTCCAACCCCAATTTTATTTCTAAAACACCAATGTTCCACAATCGGGGATACTCCA
398690 A-CCCTATTATTTTCGAGGAG
326 ATCCC-ATTATTTTCGAGGAG
* * * * ** * * *
398710 ATACTCCAA-TCTCGTTATTTTCGAGGGGATACTCTATCCTTGATTTTATTCCTAAAATATCGAT
1 ATACTCCAACCCT-GTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAAT
* *
398774 TTTTTCACTATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTAT
65 TTTTCCACTATCAGGGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCCGATTTTAT
* * * * *
398839 TTCTAAAACA-CTAA-TTTTCTACCATTGGAGATATTTCAACCCCATTATTTTCGAGAGGATACT
130 TCCTAAAACATC-AATTTTTCTACCATCGGAGATACTCCAACCCCATTATTTTCAAGAGGATACT
* * *
398902 CCAA-CCTCAATTTTATTTCTAAAACATCGATTTTCCATAATCGAGGATACTCTAACCCCGTTAT
194 CCAATCC-CAATTTTATTTCTAAAACATCAATTTT-CACAATCGAGGATACTCCAACCCCGTTAT
* * * * * *
398966 TT-TCGAAGG-GATACTCCAATCTCGATTTTTTTTCTAAAACACTAATTTTCCACAATCGGGGAT
257 TTCT-G-AGGAGATACTCCAACCCCAATTTTATTTCTAAAACACCAATGTTCCACAATCGGGGAT
399029 ACTCCAATCCCATTATTTTCGAGG-G
320 ACTCCAATCCCATTATTTTCGAGGAG
*
399054 AATACTTCAACC
1 -ATACTCCAACC
399066 TCGATTTTAT
Statistics
Matches: 294, Mismatches: 53, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
343 2 0.01
344 70 0.24
345 216 0.73
346 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (345 bp):
ATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATT
TTTCCACTATCAGGGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCCGATTTTATT
CCTAAAACATCAATTTTTCTACCATCGGAGATACTCCAACCCCATTATTTTCAAGAGGATACTCC
AATCCCAATTTTATTTCTAAAACATCAATTTTCACAATCGAGGATACTCCAACCCCGTTATTTCT
GAGGAGATACTCCAACCCCAATTTTATTTCTAAAACACCAATGTTCCACAATCGGGGATACTCCA
ATCCCATTATTTTCGAGGAG
Found at i:399007 original size:158 final size:156
Alignment explanation
Indices: 398706--399154 Score: 542
Period size: 158 Copynumber: 2.8 Consensus size: 156
398696 TTATTTTCGA
* * * * * * * *
398706 GGAGATACTCCAATCTCGTTATTTTCGAGGGGATACTCTATCCTTGATTTTATTCCTAAAATATC
1 GGAGATACTCCAACCCCATTATTTTCGA-GGGATACTCCAACCTCGATTTTATTTCTAAAACATC
*
398771 GATTTTTTCACTATC-AGGGATACTCCAACCCCGTTATTTTC-AAGGGGATACTCCAACCCCGAT
65 GA-TTTTCCA-TATCGA-GGATACTCCAACCCCGTTATTTTCGAA-GGGATACTCCAACCCCGAT
* * *
398834 TTTATTTCTAAAACACTAATTTTCTACCATT
126 TTTATTTCTAAAACACTAATTTTCCACAATC
* * *
398865 GGAGATATTTCAACCCCATTATTTTCGAGAGGATACTCCAACCTCAATTTTATTTCTAAAACATC
1 GGAGATACTCCAACCCCATTATTTTCGAG-GGATACTCCAACCTCGATTTTATTTCTAAAACATC
* * *
398930 GATTTTCCATAATCGAGGATACTCTAACCCCGTTATTTTCGAAGGGATACTCCAATCTCGATTTT
65 GATTTTCCAT-ATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTT
*
398995 TTTTCTAAAACACTAATTTTCCACAATC
129 ATTTCTAAAACACTAATTTTCCACAATC
* * * *
399023 GGGGATACTCCAATCCCATTATTTTCGAGGGAATACTTCAACCTCGATTTTATTTCCAAAACATC
1 GGAGATACTCCAACCCCATTATTTTCGAGGG-ATACTCCAACCTCGATTTTATTTCTAAAACATC
* * * * * *
399088 GATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCGAAAGGATACTTCAACCCCGTTTTT
65 GATTTTCCA-TATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTT
399153 AT
129 AT
399155 CTCCAAAATA
Statistics
Matches: 248, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
157 3 0.01
158 188 0.76
159 57 0.23
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (156 bp):
GGAGATACTCCAACCCCATTATTTTCGAGGGATACTCCAACCTCGATTTTATTTCTAAAACATCG
ATTTTCCATATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTAT
TTCTAAAACACTAATTTTCCACAATC
Found at i:399160 original size:79 final size:79
Alignment explanation
Indices: 398709--399162 Score: 452
Period size: 79 Copynumber: 5.7 Consensus size: 79
398699 TTTTCGAGGA
* * * * * * *
398709 GATACTCCAATCTCGTTATTTTCGAGGGGATACTCTATCCTTGATTTTA-TTCCTAAAATATCGA
1 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCC-AAAACATCGA
* * *
398773 TTTTTTCACTATCAGG
65 -TTTTCCACAATCGGG
* * *
398789 GATACTCCAACCCCGTTATTTTC-AAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA-CTA
1 GATACTCCAACCCCGTTATTTTCGAA-GGGATACTCCAACCTCGATTTTATTTCCAAAACATC-G
* * * *
398852 ATTTTCTACCATTGGA
64 ATTTTCCACAATCGGG
* * * * *
398868 GATATTTCAACCCCATTATTTTCG-AGAGGATACTCCAACCTCAATTTTATTTCTAAAACATCGA
1 GATACTCCAACCCCGTTATTTTCGAAG-GGATACTCCAACCTCGATTTTATTTCCAAAACATCGA
* *
398932 TTTTCCATAATCGAG
65 TTTTCCACAATCGGG
* * * * *
398947 GATACTCTAACCCCGTTATTTTCGAAGGGATACTCCAATCTCGATTTTTTTTCTAAAACA-CTAA
1 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACATC-GA
399011 TTTTCCACAATCGGG
65 TTTTCCACAATCGGG
* * *
399026 GATACTCCAATCCCATTATTTTCG-AGGGAATACTTCAACCTCGATTTTATTTCCAAAACATCGA
1 GATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCTCGATTTTATTTCCAAAACATCGA
*
399090 TTTTCCACCATCGGG
65 TTTTCCACAATCGGG
* * * * * *
399105 GATACTCCAACCCCGTTATTTCCGAAAGGATACTTCAACCCCGTTTTTATCTCCAAAA
1 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAA
399163 TATTAAATTT
Statistics
Matches: 309, Mismatches: 54, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
78 6 0.02
79 247 0.80
80 53 0.17
81 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACATCGAT
TTTCCACAATCGGG
Found at i:402388 original size:32 final size:32
Alignment explanation
Indices: 402330--402424 Score: 154
Period size: 32 Copynumber: 2.9 Consensus size: 32
402320 CACCTAGATG
*
402330 TATCGATACATGTTGCTTTGTATCGATACATTA
1 TATCGATACATGTT-CATTGTATCGATACATTA
* *
402363 TATGGATACATGTTCATTGTATCGATACATTG
1 TATCGATACATGTTCATTGTATCGATACATTA
402395 TATCGATACATGTTCATTGTATCGATACAT
1 TATCGATACATGTTCATTGTATCGATACAT
402425 GGACAAATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 45 0.78
33 13 0.22
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TATCGATACATGTTCATTGTATCGATACATTA
Found at i:402389 original size:19 final size:19
Alignment explanation
Indices: 402328--402446 Score: 91
Period size: 19 Copynumber: 6.7 Consensus size: 19
402318 CACACCTAGA
*
402328 TGTATCGATACATGTTGCTT
1 TGTATCGATACATGTT-CAT
402348 TGTATCGATACA--TT-A-
1 TGTATCGATACATGTTCAT
*
402363 --TATGGATACATGTTCAT
1 TGTATCGATACATGTTCAT
402380 TGTATCGAT--A----CAT
1 TGTATCGATACATGTTCAT
402393 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
402412 TGTATCGATACATGGACAAAT
1 TGTATCGATACATGTTC--AT
402433 TGTATCGATACATG
1 TGTATCGATACATG
402447 AAACTGGCAG
Statistics
Matches: 80, Mismatches: 5, Indels: 27
0.71 0.04 0.24
Matches are distributed among these distances:
13 21 0.26
15 3 0.04
16 1 0.01
17 1 0.01
18 2 0.03
19 24 0.30
20 12 0.15
21 16 0.20
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:402395 original size:13 final size:13
Alignment explanation
Indices: 402377--402405 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
402367 GATACATGTT
402377 CATTGTATCGATA
1 CATTGTATCGATA
402390 CATTGTATCGATA
1 CATTGTATCGATA
402403 CAT
1 CAT
402406 GTTCATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:402512 original size:13 final size:13
Alignment explanation
Indices: 402491--402521 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
402481 CGATACATGG
*
402491 TACAATGTATCGA
1 TACATTGTATCGA
402504 TACATTGTATCGA
1 TACATTGTATCGA
402517 TACAT
1 TACAT
402522 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:402517 original size:33 final size:32
Alignment explanation
Indices: 402475--402541 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
402465 CTATCATTAT
402475 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
402508 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
402541 T
1 T
402542 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:402600 original size:19 final size:20
Alignment explanation
Indices: 402576--402613 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
402566 ATAATTTCAA
402576 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
402595 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
402614 GGCTACGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:404112 original size:19 final size:21
Alignment explanation
Indices: 404088--404139 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
404078 ATTTCAGACG
404088 TGTATCGATACA-TCACTTA-
1 TGTATCGATACATTCACTTAT
404107 TGTATCGATACATTCACTTAT
1 TGTATCGATACATTCACTTAT
*
404128 TGTATCAATACA
1 TGTATCGATACA
404140 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 7 0.23
21 11 0.37
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCACTTAT
Found at i:406066 original size:34 final size:34
Alignment explanation
Indices: 406023--406090 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
406013 TACGGGGCTT
406023 GAAATGCAAACATGGGTGACGACATGCATTCATC
1 GAAATGCAAACATGGGTGACGACATGCATTCATC
406057 GAAATGCAAACATGGGTGACGACATGCATTCATC
1 GAAATGCAAACATGGGTGACGACATGCATTCATC
406091 ATCACCTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (34 bp):
GAAATGCAAACATGGGTGACGACATGCATTCATC
Found at i:410757 original size:13 final size:13
Alignment explanation
Indices: 410731--410766 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
410721 ATATACAAAA
*
410731 AATA-AAAAACAT
1 AATATAAAAATAT
410743 AATATAAAAATAT
1 AATATAAAAATAT
410756 AATATAAAAAT
1 AATATAAAAAT
410767 GAATATGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (13 bp):
AATATAAAAATAT
Found at i:411056 original size:18 final size:20
Alignment explanation
Indices: 411013--411057 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
411003 TTATGTAATT
411013 AATTTTATATTATTAATAAA
1 AATTTTATATTATTAATAAA
411033 AA-TTTA-ATTA-TAA-AACA
1 AATTTTATATTATTAATAA-A
411050 AATTTTAT
1 AATTTTAT
411058 TAAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.09
17 6 0.27
18 8 0.36
19 4 0.18
20 2 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTTATATTATTAATAAA
Found at i:411202 original size:16 final size:17
Alignment explanation
Indices: 411181--411212 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
411171 AAATAATGAC
411181 ATTTTTAATT-TTTTAT
1 ATTTTTAATTATTTTAT
411197 ATTTTTAATTATTTTA
1 ATTTTTAATTATTTTA
411213 ATAAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTAATTATTTTAT
Found at i:411290 original size:694 final size:674
Alignment explanation
Indices: 410348--411630 Score: 1675
Period size: 694 Copynumber: 1.9 Consensus size: 674
410338 TTATTTTATA
* *
410348 AATTTTAATTATTATTAATAAAAATTTAATTATAAAATAAGTTTTATTAATAATATTATGTATTT
1 AATTTTAATTATTATTAATAAAAATTTAATTATAAAACAAATTTTATTAATAATATTATGTATTT
* * * * *
410413 AAATTTTATATTTAAAATTAAAAAATTTTAATTATAATACGAAAATTCATTACTTTAAATATATC
66 AAATTTTATATTTAAAATTAAAAAATTTAAATTATAACACAAAAATTCATTACTTTAAACACATC
* *
410478 ATTTAAAATAAAATAATTAATAATATTTTTCAATTTTTAATTATTTTTAATAAAAATTAAATTTT
131 ATTTAAAATAAAATAAATAATAATATTTTTCAATTTTTAATTATTTTTAATAAAAACTAAATTTT
** * * *
410543 ATTAAATAATATTTATTTATTTAAATTTGTATTTAGAGTAGGGTATAAATTTTAAATCGATCA-T
196 ATTAAATAATATTTATTTATTTAAATTTACATTTAGAATAGAGTATAAATTTTAAATAGAT-AGT
* *
410607 ATATCAACATGT-AG-ATCTATCATTTTAAATATATTATTTAATTACACTAACGTATC-AATATA
260 ACATCAAC-T-TAAGAATCTATCATTTTAAATATATTATTTAATTACACTAACATATCAAATATA
*
410669 CATAAATAAATAATTAATGTGTAAAAATTTATATAAATTTATACTACTTTAAATATACAAAAAAT
323 CATAAACAAATAATTAATGTGTAAAAATTTATATAAATTTATACTACTTTAAATATACAAAAAAT
* *
410734 -AAAA-A-ACAT-AAT-ATAAAAATATAATAT-AAAAATGAATATGACATGAATA-AAAAACATA
388 AAAAATATAAATAAATAATAAAAATATAATATAAAAAATGAATATGACACGAATATAAAAACATA
* *
410792 TAAATATATATGTGTA-AATATTATATAAATTTATAATACTTTAAACAA-TAAAAAATAACACGA
453 TAAATATATATGTGCACAATATTATATAAATTTATAATACTTTAAACAATTAAAAAATAACACAA
* * *
410855 ATATAAATATAAACATGTTAAAATTTTCTTTTATTTC-TCTCTCTCCTTTTC-TTTCTTTATTTT
518 ATATAAATAT-AACATATT-AAATTTTCTTTTATTTCGT-TATCTCATTTTCTTTTCTTTATTTT
410918 TTCTTTTTTCTTTTTGTCTTTGCATTTTTCCCTCTCCTGCTAAAAAAAAACTCAAAAGCAAGATA
580 TTCTTTTTTCTTTTTGTCTTTGCATTTTTCCCTCTCCTGCTAAAAAAAAACTCAAAAGCAAGATA
410983 TGTATTAACATCAGATTTATTTATGTAATT
645 TGTATTAACATCAGATTTATTTATGTAATT
411013 AATTTT-A-TATTATTAATAAAAATTTAATTATAAAACAAATTTTATTAAATAATAATTATGTAT
1 AATTTTAATTATTATTAATAAAAATTTAATTATAAAACAAATTTTATT-AATAAT-ATTATGTAT
* *
411076 TTGAATTTTTTATTTAAAATTAAAAATAAAATTTAAATGTTTTGTGAGTTAACACAAAAATTCAT
64 TTAAATTTTATATTTAAAATT---AA-AAAATTTAAA-----T-T-A--TAACACAAAAATTCAT
* *
411141 TATTTTAAACACATCATTTAAAAATAAAATAAATAATGACATTTTTAATTTTTTATATTTTTAAT
116 TACTTTAAACACATCATTT-AAAATAAAATAAATAAT-A-A----T-ATTTTTCA-ATTTTTAAT
411206 TA-TTTTAATAAAAAACTAAATTTTATTAATAATATTTATTTATTTATTTATTTAAATTTACATT
172 TATTTTTAAT-AAAAACTAAATTTTATT-A-AATA---A--TATTTATTTATTTAAATTTACATT
* *
411270 TAGAATAGAGTATCAATTTTAAATAGATAGTACATCAACTTAAGAATTTATCATTTTAAATATAT
229 TAGAATAGAGTATAAATTTTAAATAGATAGTACATCAACTTAAGAATCTATCATTTTAAATATAT
* * *
411335 TATTTAATTACACTAACATGTCAAAATATATATATACAAATAATTAATGTGTAAAAATTTATATA
294 TATTTAATTACACTAACATATC-AAATATACATAAACAAATAATTAATGTGTAAAAATTTATATA
* * * * *
411400 AATTTATATTATTTTAAATATACAAGAAATAAAAATATTAAATAAAAATAATTAAAATCTAATAT
358 AATTTATACTACTTTAAATATACAAAAAATAAAAATA-TAAAT--AAATAATAAAAATATAATAT
* *
411465 AAAAAATTAATATGATACGAATATAAAAACATATAAATATATATGTGCACAATATTATATAAATT
420 AAAAAATGAATATGACACGAATATAAAAACATATAAATATATATGTGCACAATATTATATAAATT
*
411530 TATAATACTTTAAACAATTAAAAAATAATACAAATATAAATATAACATATTAAATTTTCTTTTAT
485 TATAATACTTTAAACAATTAAAAAATAACACAAATATAAATATAACATATTAAATTTTCTTTTAT
* *
411595 TTCGTTATCTCATTTTCTTTTTTTTCTTTTTTCTTT
550 TTCGTTATCTCATTTTCTTTTCTTTATTTTTTCTTT
411631 CCATTTTTCT
Statistics
Matches: 524, Mismatches: 43, Indels: 60
0.84 0.07 0.10
Matches are distributed among these distances:
663 37 0.07
664 7 0.01
665 34 0.06
668 2 0.00
669 9 0.02
674 1 0.00
675 1 0.00
676 1 0.00
678 30 0.06
679 16 0.03
680 1 0.00
681 1 0.00
685 1 0.00
686 14 0.03
687 27 0.05
688 1 0.00
689 4 0.01
692 2 0.00
693 4 0.01
694 93 0.18
696 65 0.12
697 4 0.01
698 1 0.00
700 3 0.01
703 3 0.01
704 13 0.02
705 19 0.04
706 51 0.10
707 56 0.11
708 23 0.04
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (674 bp):
AATTTTAATTATTATTAATAAAAATTTAATTATAAAACAAATTTTATTAATAATATTATGTATTT
AAATTTTATATTTAAAATTAAAAAATTTAAATTATAACACAAAAATTCATTACTTTAAACACATC
ATTTAAAATAAAATAAATAATAATATTTTTCAATTTTTAATTATTTTTAATAAAAACTAAATTTT
ATTAAATAATATTTATTTATTTAAATTTACATTTAGAATAGAGTATAAATTTTAAATAGATAGTA
CATCAACTTAAGAATCTATCATTTTAAATATATTATTTAATTACACTAACATATCAAATATACAT
AAACAAATAATTAATGTGTAAAAATTTATATAAATTTATACTACTTTAAATATACAAAAAATAAA
AATATAAATAAATAATAAAAATATAATATAAAAAATGAATATGACACGAATATAAAAACATATAA
ATATATATGTGCACAATATTATATAAATTTATAATACTTTAAACAATTAAAAAATAACACAAATA
TAAATATAACATATTAAATTTTCTTTTATTTCGTTATCTCATTTTCTTTTCTTTATTTTTTCTTT
TTTCTTTTTGTCTTTGCATTTTTCCCTCTCCTGCTAAAAAAAAACTCAAAAGCAAGATATGTATT
AACATCAGATTTATTTATGTAATT
Found at i:411444 original size:13 final size:14
Alignment explanation
Indices: 411426--411455 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
411416 AATATACAAG
411426 AAATAAAAAT-ATT
1 AAATAAAAATAATT
411439 AAATAAAAATAATT
1 AAATAAAAATAATT
411453 AAA
1 AAA
411456 ATCTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:412003 original size:39 final size:38
Alignment explanation
Indices: 411945--412039 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
411935 ATAAATACAC
411945 ATATGTATAAAAA-TATATATAAAATAAAATAA-ATTATTA
1 ATATGTA-AAAAATTATATATAAAA-AAAATAATATT-TTA
* *
411984 ATATGTAAAAAATTTTATATAAAAAATATAATATTTTA
1 ATATGTAAAAAATTATATATAAAAAAAATAATATTTTA
* *
412022 A-ATATAAAAAATAATATA
1 ATATGTAAAAAATTATATA
412040 AATATAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.29
38 15 0.31
39 20 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (38 bp):
ATATGTAAAAAATTATATATAAAAAAAATAATATTTTA
Found at i:412019 original size:21 final size:21
Alignment explanation
Indices: 411995--412060 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
411985 TATGTAAAAA
*
411995 ATTTTATATA-AAAAATATAAT
1 ATTTTAAATATAAAAA-ATAAT
412016 ATTTTAAATATAAAAAATAAT
1 ATTTTAAATATAAAAAATAAT
412037 A---TAAATATAAAGAAATAAT
1 ATTTTAAATATAAA-AAATAAT
*
412056 TTTTT
1 ATTTT
412061 TTCTTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 10 0.26
19 7 0.18
21 15 0.39
22 6 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTTAAATATAAAAAATAAT
Found at i:412041 original size:18 final size:19
Alignment explanation
Indices: 412020--412055 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
412010 TATAATATTT
412020 TAAATATAAA-AAATAATA
1 TAAATATAAAGAAATAATA
412038 TAAATATAAAGAAATAAT
1 TAAATATAAAGAAATAAT
412056 TTTTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAATATAAAGAAATAATA
Found at i:420582 original size:2 final size:2
Alignment explanation
Indices: 420577--420612 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
420567 TTAGGAAAAA
420577 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
420613 TATGGAAAAC
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:421423 original size:2 final size:2
Alignment explanation
Indices: 421412--421453 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
421402 TATTTTCTTA
* *
421412 TG TG -G TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG CG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
421453 T
1 T
421454 ATATATTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.02, C:0.02, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:423038 original size:14 final size:15
Alignment explanation
Indices: 423000--423055 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
422990 AAAGCACAGG
* *
423000 TTAAAAAGAGTGTGA
1 TTAAAAAAAGTATGA
423015 GTTAAAAAAAGTAT-A
1 -TTAAAAAAAGTATGA
*
423030 TTTAAAAAAGTATGA
1 TTAAAAAAAGTATGA
423045 TTAAAAAAAGT
1 TTAAAAAAAGT
423056 GGTTCAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.34
15 12 0.34
16 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (15 bp):
TTAAAAAAAGTATGA
Found at i:423954 original size:2 final size:2
Alignment explanation
Indices: 423947--423975 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
423937 GTATTGAATT
423947 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
423976 GAAAATATTC
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:424991 original size:50 final size:50
Alignment explanation
Indices: 424908--425006 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
424898 CCTTCGAATT
* * * * *
424908 TTATTTGGTTATCATGACCCAACATCGTTGAACACTATTTTTGGGGTTTC
1 TTATTTGGGTATCATGACCCAACACCATCGAACACTATTTTTAGGGTTTC
* *
424958 TTATTTGGGTATCTTTACCCAACACCATCGAACACTATTTTTAGGGTTT
1 TTATTTGGGTATCATGACCCAACACCATCGAACACTATTTTTAGGGTTT
425007 ATTGTAAGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (50 bp):
TTATTTGGGTATCATGACCCAACACCATCGAACACTATTTTTAGGGTTTC
Found at i:425781 original size:21 final size:21
Alignment explanation
Indices: 425734--425788 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
425724 GTTGGGTCGA
*
425734 ATGTATTGATACAATTCAAAC
1 ATGTATCGATACAATTCAAAC
* *
425755 -TGTATCGATATAATTTAAAC
1 ATGTATCGATACAATTCAAAC
425775 ATGTATCGATACAA
1 ATGTATCGATACAA
425789 ACACAGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTCAAAC
Found at i:426251 original size:20 final size:21
Alignment explanation
Indices: 426226--426271 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
426216 ATATAACAAA
*
426226 ACTTAAAAACAAATTTGGTT-
1 ACTTAAAAACAAATTTAGTTG
*
426246 ACTTAAAAATAAATTTAGTTG
1 ACTTAAAAACAAATTTAGTTG
426267 ACTTA
1 ACTTA
426272 TGACTCCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (21 bp):
ACTTAAAAACAAATTTAGTTG
Found at i:426590 original size:20 final size:21
Alignment explanation
Indices: 426555--426622 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
426545 CGAACCTTTC
* *
426555 TCTCCCAGATTTTATAACATT
1 TCTCCCAAAGTTTATAACATT
*** *
426576 TCTCTTGAA-TTTATAACACT
1 TCTCCCAAAGTTTATAACATT
426596 TCTCCCAAAGTTTATAACATT
1 TCTCCCAAAGTTTATAACATT
426617 TCTCCC
1 TCTCCC
426623 TTTTTAACAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.41
Consensus pattern (21 bp):
TCTCCCAAAGTTTATAACATT
Found at i:426636 original size:17 final size:18
Alignment explanation
Indices: 426610--426645 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
426600 CCAAAGTTTA
*
426610 TAACATTTCTCCCT-TTT
1 TAACACTTCTCCCTCTTT
426627 TAACACTTCTCCCTCTTT
1 TAACACTTCTCCCTCTTT
426645 T
1 T
426646 TGCCATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (18 bp):
TAACACTTCTCCCTCTTT
Found at i:428189 original size:9 final size:10
Alignment explanation
Indices: 428151--428186 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
428141 TTTGATGAGT
428151 ATTTGAAGAA
1 ATTTGAAGAA
428161 ATTTGAAGAA
1 ATTTGAAGAA
428171 GATTTG-AGAA
1 -ATTTGAAGAA
428181 ATTTGA
1 ATTTGA
428187 GAATTAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.21
10 14 0.58
11 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (10 bp):
ATTTGAAGAA
Found at i:431972 original size:21 final size:21
Alignment explanation
Indices: 431931--431974 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
431921 TTTCCCTTTA
* *
431931 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
431952 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
431973 TC
1 TC
431975 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:433559 original size:13 final size:13
Alignment explanation
Indices: 433541--433579 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
433531 ATAATCCCCC
*
433541 TGTATCGATACAG
1 TGTATCGATACAA
433554 TGTATCGATACAA
1 TGTATCGATACAA
433567 TGTATCGATACAA
1 TGTATCGATACAA
433580 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:435693 original size:15 final size:15
Alignment explanation
Indices: 435657--435694 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
435647 TTCATCAATT
* *
435657 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
435672 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
435687 TCATTTTG
1 TCATTTTG
435695 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:437525 original size:21 final size:21
Alignment explanation
Indices: 437496--437540 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
437486 AAGTTTTCAT
*
437496 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
437516 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
437538 TTT
1 TTT
437541 CATCTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:437698 original size:15 final size:16
Alignment explanation
Indices: 437674--437706 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
437664 CAATCTTTTG
437674 TTCAAGATTTTT-AAT
1 TTCAAGATTTTTCAAT
*
437689 TTCAATATTTTTCAAT
1 TTCAAGATTTTTCAAT
437705 TT
1 TT
437707 ATTATCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (16 bp):
TTCAAGATTTTTCAAT
Found at i:439785 original size:13 final size:13
Alignment explanation
Indices: 439767--439792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
439757 CAATTTTTTG
439767 TGTATCGATACAT
1 TGTATCGATACAT
439780 TGTATCGATACAT
1 TGTATCGATACAT
439793 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:439807 original size:32 final size:33
Alignment explanation
Indices: 439747--439810 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
439737 TACAAGCCAA
** *
439747 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
439780 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
439811 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:442132 original size:20 final size:21
Alignment explanation
Indices: 442093--442136 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
442083 TTAAGTATAG
442093 ATGTTTTTCAAGCATAAAAATA
1 ATGTTTTTCAAG-ATAAAAATA
442115 ATGTTTTTCAAG-TAAAAATA
1 ATGTTTTTCAAGATAAAAATA
442135 AT
1 AT
442137 TCAAAGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTTTTTCAAGATAAAAATA
Found at i:442379 original size:20 final size:20
Alignment explanation
Indices: 442354--442408 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
442344 GTATCGATAC
*
442354 ATTGTATTGATACATGATGA
1 ATTGTATCGATACATGATGA
*
442374 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGATGA
*
442394 ATTATATCGATACAT
1 ATTGTATCGATACAT
442409 TAAGCCTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGATGA
Found at i:442907 original size:35 final size:36
Alignment explanation
Indices: 442837--442908 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
442827 CTAAGTGATT
**
442837 GAGAGGTTCTATCTTAGACTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGACCGTGAAAAAGATAGGGA
*
442873 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGGGA
1 GAGAGGTTCTATCTTAGACCGTGAAAAAGATAGGGA
442908 G
1 G
442909 GTTTTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGACCGTGAAAAAGATAGGGA
Found at i:444528 original size:21 final size:22
Alignment explanation
Indices: 444504--444561 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
444494 GAACTAGAGG
*
444504 AGAAAATGAATGAGTTGGAA-A
1 AGAAAATGAATGAGTTGCAAGA
444525 AGAAAA-GAAATGAGTTGCAAGA
1 AGAAAATG-AATGAGTTGCAAGA
*
444547 TGAAAAT-AATGAGTT
1 AGAAAATGAATGAGTT
444562 AAGTAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 25 0.78
22 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.21
Consensus pattern (22 bp):
AGAAAATGAATGAGTTGCAAGA
Found at i:447637 original size:20 final size:22
Alignment explanation
Indices: 447607--447650 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
447597 TGATTTCCCG
447607 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
447628 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
447649 TG
1 TG
447651 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:447723 original size:13 final size:13
Alignment explanation
Indices: 447705--447730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
447695 AATTTTTTGG
447705 TGTATCGATACAT
1 TGTATCGATACAT
447718 TGTATCGATACAT
1 TGTATCGATACAT
447731 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:448422 original size:40 final size:39
Alignment explanation
Indices: 448376--448456 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
448366 TTTTCTTTCT
*
448376 CCCTTAACCAAAATAATTTTAACAAATTCATGCATTCTCC
1 CCCTTAA-CAAAATAATTTTAACAAATTCACGCATTCTCC
* ** *
448416 CCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCC
1 CCCTTAACAAAATAATTTTAACAAATTCACGCATTCTCC
448455 CC
1 CC
448457 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 29 0.81
40 7 0.19
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.32
Consensus pattern (39 bp):
CCCTTAACAAAATAATTTTAACAAATTCACGCATTCTCC
Found at i:450324 original size:13 final size:13
Alignment explanation
Indices: 450306--450344 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
450296 ATAATCCGCC
*
450306 TGTATCGATACAG
1 TGTATCGATACAA
*
450319 TGTATCGATATAA
1 TGTATCGATACAA
450332 TGTATCGATACAA
1 TGTATCGATACAA
450345 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:456384 original size:20 final size:22
Alignment explanation
Indices: 456354--456397 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
456344 TGATTTCCTA
456354 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
456375 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
456396 TG
1 TG
456398 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:456470 original size:13 final size:13
Alignment explanation
Indices: 456452--456477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
456442 AATTTTTTGG
456452 TGTATCGATACAT
1 TGTATCGATACAT
456465 TGTATCGATACAT
1 TGTATCGATACAT
456478 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:456948 original size:21 final size:21
Alignment explanation
Indices: 456922--456964 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
456912 GAGTTTGCAT
456922 AAAATTCATATTAAAGGGGAG
1 AAAATTCATATTAAAGGGGAG
** *
456943 AAAATTTGTATTAAGGGGGAG
1 AAAATTCATATTAAAGGGGAG
456964 A
1 A
456965 GCTTGCATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (21 bp):
AAAATTCATATTAAAGGGGAG
Found at i:457104 original size:21 final size:21
Alignment explanation
Indices: 457078--457118 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
457068 GAGTTTGCAT
457078 AAAATTCATATTAAAGGGGAG
1 AAAATTCATATTAAAGGGGAG
** *
457099 AAAATTTGTATTAAATGGGA
1 AAAATTCATATTAAAGGGGA
457119 AAGCTTGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.29
Consensus pattern (21 bp):
AAAATTCATATTAAAGGGGAG
Found at i:457833 original size:20 final size:21
Alignment explanation
Indices: 457794--457837 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
457784 TTAAGTATAG
457794 ATGTTTTTCAAGCATAAAAATA
1 ATGTTTTTCAAG-ATAAAAATA
457816 ATGTTTTTCAAG-TAAAAATA
1 ATGTTTTTCAAGATAAAAATA
457836 AT
1 AT
457838 TCAAAGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTTTTTCAAGATAAAAATA
Found at i:458079 original size:20 final size:20
Alignment explanation
Indices: 458054--458108 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
458044 TGTATCATAC
458054 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATGA
*
458074 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGATGA
458094 ATTGTATCGATACAT
1 ATTGTATCGATACAT
458109 TGAGCCCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGATGA
Found at i:458599 original size:36 final size:35
Alignment explanation
Indices: 458539--458609 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
458529 TAAGTGATTA
** *
458539 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAG
1 AGAGGTTCTATCTTAGCCCGTG-AAAAGATAAGGAG
*
458575 AGAGGTTCTATCTTATCCCGTGAAAAGATAAGGAG
1 AGAGGTTCTATCTTAGCCCGTGAAAAGATAAGGAG
458610 GTTTTTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 12 0.39
36 19 0.61
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCCGTGAAAAGATAAGGAG
Found at i:461030 original size:21 final size:21
Alignment explanation
Indices: 460976--461030 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
460966 GTTGGGCCGA
460976 ATGTATCGATACAATTCAAAC
1 ATGTATCGATACAATTCAAAC
* * *
460997 -TATATCAATACAATTTAAAC
1 ATGTATCGATACAATTCAAAC
*
461017 ATGTATCGAGACAA
1 ATGTATCGATACAA
461031 ACACAAGGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACAATTCAAAC
Found at i:461143 original size:33 final size:33
Alignment explanation
Indices: 461100--461164 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
461090 AATTCCATAG
*
461100 TGTATTGATACAAAGCAATTTGTATCAATACAA
1 TGTATCGATACAAAGCAATTTGTATCAATACAA
** *
461133 TGTATCGATACTTAGCAATTTGTATCGATACA
1 TGTATCGATACAAAGCAATTTGTATCAATACA
461165 TCTGCATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAAAGCAATTTGTATCAATACAA
Found at i:461176 original size:20 final size:20
Alignment explanation
Indices: 461132--461181 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
461122 TATCAATACA
461132 ATGTATCGATACTTAGCAAT
1 ATGTATCGATACTTAGCAAT
*
461152 TTGTATCGATACATCT-GC-AT
1 ATGTATCGATAC-T-TAGCAAT
461172 ATGTATCGAT
1 ATGTATCGAT
461182 GTATTTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 22 0.85
21 3 0.12
22 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACTTAGCAAT
Found at i:462649 original size:32 final size:33
Alignment explanation
Indices: 462608--462670 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
462598 ATCTTTGCAA
* *
462608 GTATCGATACGGTG-GTTATGTATTGATACAAT
1 GTATCGATACGGTGCATTATGTATCGATACAAT
*
462640 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACGGTGCATTATGTATCGATACA
462671 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (33 bp):
GTATCGATACGGTGCATTATGTATCGATACAAT
Found at i:463246 original size:20 final size:20
Alignment explanation
Indices: 463204--463246 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
463194 TTTCTTTTTC
*
463204 TCTCCCCCTTAATAACACAT
1 TCTCCCCCTTAATAAAACAT
* *
463224 TCTCCCCCTTGATAAAACTT
1 TCTCCCCCTTAATAAAACAT
463244 TCT
1 TCT
463247 TTCCCCTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.37, G:0.02, T:0.35
Consensus pattern (20 bp):
TCTCCCCCTTAATAAAACAT
Found at i:465162 original size:13 final size:13
Alignment explanation
Indices: 465139--465176 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
465129 ATAAACCCTT
465139 TGTATCGATACACA
1 TGTATCGATACA-A
*
465153 -GTATCAATACAA
1 TGTATCGATACAA
465165 TGTATCGATACA
1 TGTATCGATACA
465177 GAGAATGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:471226 original size:13 final size:13
Alignment explanation
Indices: 471208--471233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
471198 ACATTTGGTC
471208 ATGTATCGATACA
1 ATGTATCGATACA
471221 ATGTATCGATACA
1 ATGTATCGATACA
471234 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:471228 original size:33 final size:32
Alignment explanation
Indices: 471186--471253 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
471176 CGTTTCAAGC
471186 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
471219 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
471251 CAA
1 CAA
471254 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:471340 original size:13 final size:13
Alignment explanation
Indices: 471322--471346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
471312 TACAGTGGTC
471322 ATGTATCGATACA
1 ATGTATCGATACA
471335 ATGTATCGATAC
1 ATGTATCGATAC
471347 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:471364 original size:33 final size:32
Alignment explanation
Indices: 471305--471367 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
471295 ATCTTTGCAA
*
471305 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
471337 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
471368 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:473845 original size:25 final size:26
Alignment explanation
Indices: 473814--473880 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
473804 TTAAAAATGG
473814 GGTTGGAGTAT-CTCCTCGGAAGAAT-
1 GGTTGGAGTATCCT-CTCGGAAGAATA
**
473839 GGTTGGAGTATCCTCTTTGAAGAATA
1 GGTTGGAGTATCCTCTCGGAAGAATA
473865 GAGTTGGAGTATCCTC
1 G-GTTGGAGTATCCTC
473881 AATGGTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 20 0.54
26 3 0.08
27 14 0.38
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (26 bp):
GGTTGGAGTATCCTCTCGGAAGAATA
Found at i:473884 original size:122 final size:121
Alignment explanation
Indices: 473716--473947 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 121
473706 TTGAAAAATG
* * *
473716 TGGTTGGAGTATCCTTTTGAAGTAATAGGGTTGATTTGCCCCCAATGATGACAATTT-GGCTAAA
1 TGGTTGGAGTATCCTTTTGAAGTAATAGAGTTGATAT-CCCCCAATGATGACAATTTAAGC-AAA
*
473780 AATAAGATTTAAATCTTGACAAGTTTAAAAATGGGGTTGGAGTATCTCCTCGGAAGAA
64 AATAAGATTTAAATCTTGACAAGTTTAAAAATGGGGTTGGAATATCTCCTCGGAAGAA
* * *
473838 TGGTTGGAGTATCCTCTTTGAAG-AATAGAGTTGGAGTAT-CCTCAATGGTGATAATTTAAGCAA
1 TGGTTGGAGTATCCT-TTTGAAGTAATAGAGTT-GA-TATCCCCCAATGATGACAATTTAAGCAA
*
473901 AAATAAGATTTAAATCTTGACGAGTTTAAAAATGGGGTTGGAATATC
63 AAATAAGATTTAAATCTTGACAAGTTTAAAAATGGGGTTGGAATATC
473948 CTCTCAAAAG
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
122 85 0.87
123 11 0.11
124 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (121 bp):
TGGTTGGAGTATCCTTTTGAAGTAATAGAGTTGATATCCCCCAATGATGACAATTTAAGCAAAAA
TAAGATTTAAATCTTGACAAGTTTAAAAATGGGGTTGGAATATCTCCTCGGAAGAA
Found at i:476502 original size:20 final size:21
Alignment explanation
Indices: 476477--476529 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
476467 ATTTTAAGCG
*
476477 TGTATCGATACATTCACTTA-
1 TGTATCGATACATTAACTTAT
476497 TGTATCGATACATTAACTTAT
1 TGTATCGATACATTAACTTAT
*
476518 TATATCGATACA
1 TGTATCGATACA
476530 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTAACTTAT
Found at i:480485 original size:51 final size:50
Alignment explanation
Indices: 480370--480487 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 50
480360 GAAAATAACG
* * *
480370 GGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACC
* * * *
480420 GGAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACC
1 GG-GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACC
*
480471 GAGGTTAGAGTATCCCC
1 G-GGTTGGAGTATCCCC
480488 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.04
51 54 0.95
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACC
Found at i:480506 original size:130 final size:130
Alignment explanation
Indices: 480333--480618 Score: 423
Period size: 130 Copynumber: 2.2 Consensus size: 130
480323 TATTTTGGAG
* * * *
480333 ATAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAA
1 ATAA-AACCGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAA
* * * *
480398 TT-AGTGTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTGTG-GAGAATTGGTGTTTTAG
65 TTGA-TGTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTATGAAAAAATGGGTGTTTTAG
480461 AA
129 AA
*
480463 ATAAAACCGAGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAA
1 ATAAAACCG-GGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAA
*
480528 TTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAAATGGGTGTTTTAGA
65 TTGATGTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTATGAAAAAATGGGTGTTTTAGA
480593 A
130 A
*
480594 ATGAAACCGGGATTGGAGTATCCCC
1 ATAAAACCGGG-TTGGAGTATCCCC
480619 GAGATGAGAA
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
129 4 0.03
130 99 0.71
131 37 0.26
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (130 bp):
ATAAAACCGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAAT
TGATGTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTATGAAAAAATGGGTGTTTTAGAA
Found at i:480565 original size:51 final size:51
Alignment explanation
Indices: 480500--480620 Score: 172
Period size: 52 Copynumber: 2.4 Consensus size: 51
480490 GAAAATAACA
* * *
480500 GGGTTGGAGTATCCCCGATTATG-AAAAATTGATGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTATGAAAAAATGGATGTTTTAGAAATAAAACC
* *
480550 GGAGTTGGAGTATCCCCGATTATGAAAAAATGGGTGTTTTAGAAATGAAACC
1 GG-GTTGGAGTATCCCCGATTATGAAAAAATGGATGTTTTAGAAATAAAACC
480602 GGGATTGGAGTATCCCCGA
1 GGG-TTGGAGTATCCCCGA
480621 GATGAGAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 22 0.35
52 39 0.62
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAAATGGATGTTTTAGAAATAAAACC
Found at i:482945 original size:20 final size:20
Alignment explanation
Indices: 482920--483013 Score: 113
Period size: 20 Copynumber: 4.7 Consensus size: 20
482910 AAAATGCCTG
*
482920 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGTAA
482940 AATGTATCGATACAA--TAA
1 AATGTATCGATACAATGTAA
*
482958 GCAATGTATCGATACAATG-AGC
1 --AATGTATCGATACAATGTA-A
*
482980 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGTAA
483000 AATGTATCGATACA
1 AATGTATCGATACA
483014 TCTGGGTAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.05
20 60 0.92
21 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGTAA
Found at i:483060 original size:20 final size:21
Alignment explanation
Indices: 483035--483075 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
483025 TTCCCAGATG
483035 TATCGATACAAAG-ATCGATA
1 TATCGATACAAAGTATCGATA
*
483055 TATCGATACAATGTATCGATA
1 TATCGATACAAAGTATCGATA
483076 CATTGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
TATCGATACAAAGTATCGATA
Found at i:483624 original size:80 final size:78
Alignment explanation
Indices: 483530--483964 Score: 453
Period size: 79 Copynumber: 5.5 Consensus size: 78
483520 GGTGACAATC
* * * *
483530 GGGGTTGGAGTATCCTCGAGATAAAAAAATTTAATGTTTTGGAAGTGAAAATGGGGTTGGAGTAT
1 GGGGTTGGAGTATCC-CGAGAT-GAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTAT
*
483595 CCCCTCGAAATTGAT
64 CCCCTCGAAATTAAT
* *
483610 GGGGTTGGAGTATCCCTGATGGTGAAAAA-TTAATATTTTAGAAATAAAAATAGGGGTTGGAGTA
1 GGGGTTGGAGTATCCC-GA-GATGAAAAATTTAATATTTTGGAAATAAAAAT-GGGGTTGGAGTA
* *
483674 TCCTCTTGGAAA-TAAT
63 TCC-CCTCGAAATTAAT
* *
483690 GGGGTTGGAGTATCCTCGAGAAGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTATC
1 GGGGTTGGAGTATCC-CGAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
* *
483755 CCCTCGAAAATAAC
65 CCCTCGAAATTAAT
* * * * ***
483769 GGGGTTAGAGTATCCCCACGATGAAGAATTTAATGTTTTGGAAATAAAAACAAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCGA-GATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
* *
483834 CCTTCGAAATTGAT
65 CCCTCGAAATTAAT
* * ** *
483848 GGGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTGAAATAAAAACAGGGTTAGAGTATC
1 GGGGTTGGAGTAT-CCCGAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
* * *
483913 CCTTTGGAATTAAT
65 CCCTCGAAATTAAT
* * * *
483927 GGGATTAGAGTATCTCCGAAATGAAAAA-TCAATATTTT
1 GGGGTTGGAGTATC-CCGAGATGAAAAATTTAATATTTT
483965 TAAAAGGAAA
Statistics
Matches: 300, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
78 18 0.06
79 192 0.64
80 81 0.27
81 9 0.03
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCGAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCC
CCTCGAAATTAAT
Found at i:483910 original size:158 final size:159
Alignment explanation
Indices: 483530--483914 Score: 492
Period size: 159 Copynumber: 2.4 Consensus size: 159
483520 GGTGACAATC
* * * *
483530 GGGGTTGGAGTATCCTCGAGATAAAAAAATTTAATGTTTTGGAAGTGAAAATGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCTCGAGAT-AAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTAT
* * * * * * *
483595 CCCCTCGAAATTGATGGGGTTGGAGTATCCCTGATGGTGAAAAATTAATATTTTAGAAATAAAAA
65 CCCCTCGAAAATAACGGGGTTAGAGTATCCCTCACGATGAAAAATTAATATTTTAGAAATAAAAA
* * *
483660 TAGGGGTTGGAGTATCCTCTTGGAAATAAT
130 CAGAGGTTGGAGTATCCTCTTCGAAATAAT
483690 GGGGTTGGAGTATCCTCGAGA-AGAAAAATTTAATA-TTTTGAAAATAAAAATGGGGTTGGAGTA
1 GGGGTTGGAGTATCCTCGAGATA-AAAAATTTAATATTTTTG-AAATAAAAATGGGGTTGGAGTA
* * *
483753 TCCCCTCGAAAATAACGGGGTTAGAGTATCCC-CACGATGAAGAATTTAATGTTTTGGAAATAAA
64 TCCCCTCGAAAATAACGGGGTTAGAGTATCCCTCACGATGAA-AAATTAATATTTTAGAAATAAA
*
483817 AACA-AGGTTGGAGTATCC-CTTCGAAATTGAT
128 AACAGAGGTTGGAGTATCCTCTTCGAAA-TAAT
* ** *
483848 GGGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTGAAATAAAAACAGGGTTAGAGTATC
1 GGGGTTGGAGTATCCTCGAGATAAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTATC
483913 CC
66 CC
483915 TTTGGAATTA
Statistics
Matches: 197, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
157 7 0.04
158 82 0.42
159 87 0.44
160 21 0.11
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (159 bp):
GGGGTTGGAGTATCCTCGAGATAAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTATC
CCCTCGAAAATAACGGGGTTAGAGTATCCCTCACGATGAAAAATTAATATTTTAGAAATAAAAAC
AGAGGTTGGAGTATCCTCTTCGAAATAAT
Found at i:483935 original size:158 final size:159
Alignment explanation
Indices: 483530--483964 Score: 508
Period size: 158 Copynumber: 2.7 Consensus size: 159
483520 GGTGACAATC
* * * *
483530 GGGGTTGGAGTATCCTCGAGATAAAAAAATTTAATGTTTTGGAAGTGAAAATGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCTCGAGAT-AAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTAT
* * * * *
483595 CCCCTCGAAATTGATGGGGTTGGAGTATCCCTGATGGTGAAAAATTAATATTTTAGAAATAAAAA
65 CCCCTCGAAATTAATGGGGTTAGAGTATCCCTCACGATGAAAAATTAATATTTTAGAAATAAAAA
* * *
483660 TAGGGGTTGGAGTATCCTCTTGGAAATAAT
130 CAGAGGTTGGAGTATCCTCTTCGAAATAAT
483690 GGGGTTGGAGTATCCTCGAGA-AGAAAAATTTAATA-TTTTGAAAATAAAAATGGGGTTGGAGTA
1 GGGGTTGGAGTATCCTCGAGATA-AAAAATTTAATATTTTTG-AAATAAAAATGGGGTTGGAGTA
* * * * *
483753 TCCCCTCGAAAATAACGGGGTTAGAGTATCCC-CACGATGAAGAATTTAATGTTTTGGAAATAAA
64 TCCCCTCGAAATTAATGGGGTTAGAGTATCCCTCACGATGAA-AAATTAATATTTTAGAAATAAA
*
483817 AACA-AGGTTGGAGTATCC-CTTCGAAATTGAT
128 AACAGAGGTTGGAGTATCCTCTTCGAAA-TAAT
* ** *
483848 GGGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTGAAATAAAAACAGGGTTAGAGTATC
1 GGGGTTGGAGTATCCTCGAGATAAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTATC
* * * * *
483913 CCTTTGGAATTAATGGGATTAGAGTAT--CTC-CGAAATGAAAAATCAATATTTT
66 CCCTCGAAATTAATGGGGTTAGAGTATCCCTCACG--ATGAAAAATTAATATTTT
483965 TAAAAGGAAA
Statistics
Matches: 235, Mismatches: 31, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
156 3 0.01
157 18 0.08
158 106 0.45
159 87 0.37
160 21 0.09
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (159 bp):
GGGGTTGGAGTATCCTCGAGATAAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTATC
CCCTCGAAATTAATGGGGTTAGAGTATCCCTCACGATGAAAAATTAATATTTTAGAAATAAAAAC
AGAGGTTGGAGTATCCTCTTCGAAATAAT
Found at i:487112 original size:27 final size:27
Alignment explanation
Indices: 487074--487142 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
487064 TTAAAAGCGA
487074 GGTTGGAGTATCCCCTCAGAGGAATAG
1 GGTTGGAGTATCCCCTCAGAGGAATAG
487101 GGTTGGAGTATCCCCTCAGAGGAATAG
1 GGTTGGAGTATCCCCTCAGAGGAATAG
487128 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
487143 GATAAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (27 bp):
GGTTGGAGTATCCCCTCAGAGGAATAG
Done.